Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 79 of 208
Found at i:23255926 original size:25 final size:25
Alignment explanation
Indices: 23255850--23255950 Score: 105
Period size: 25 Copynumber: 4.0 Consensus size: 25
23255840 ATCCCAATAT
23255850 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCG-GAGCTTCCCGATTA
* * * **
23255876 AAGGCTCTTTGTCAGCTTCCTAATTA
1 ATGGCTCTTCG-GAGCTTCCCGATTA
* *
23255902 ATGGCTATCCGGAGCTTCCCGATTA
1 ATGGCTCTTCGGAGCTTCCCGATTA
*
23255927 ATGGCTCTTCGGAGCTACCC-ATTA
1 ATGGCTCTTCGGAGCTTCCCGATTA
23255951 TTTTCTCGCA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 4 0.07
25 28 0.47
26 28 0.47
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTTCCCGATTA
Found at i:23259836 original size:17 final size:18
Alignment explanation
Indices: 23259816--23259858 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23259806 ATTTTAATTA
23259816 TTATTAAGTA-TTTTAAG
1 TTATTAAGTAGTTTTAAG
* *
23259833 TTATTTAGTAGTTTTATG
1 TTATTAAGTAGTTTTAAG
*
23259851 TTAATAAG
1 TTATTAAG
23259859 AAAGTTTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (18 bp):
TTATTAAGTAGTTTTAAG
Found at i:23262644 original size:39 final size:39
Alignment explanation
Indices: 23262560--23262646 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
23262550 CTATTTAGCC
** * *
23262560 AAAGCGCCGCTAAAGGTAGAGAATCCGCGGCGATTTCCA
1 AAAGCGCCGCTAAAAATAGAGAATCAGCGGCGATTTACA
* *
23262599 AGAAGCGCCGCTAAAAATAG-GAATTAGCGGCGATTTATA
1 A-AAGCGCCGCTAAAAATAGAGAATCAGCGGCGATTTACA
23262638 TAAAGCGCC
1 -AAAGCGCC
23262647 ACAAAAAACC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
39 23 0.57
40 17 0.43
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.17
Consensus pattern (39 bp):
AAAGCGCCGCTAAAAATAGAGAATCAGCGGCGATTTACA
Found at i:23262749 original size:41 final size:40
Alignment explanation
Indices: 23262692--23262970 Score: 155
Period size: 41 Copynumber: 6.8 Consensus size: 40
23262682 ATTTTTAAAC
*
23262692 CTTTAGCGGCGTTTTTATTTGTGCGCCGCTAATGCTGAGAT
1 CTTTAGCGGCGTTTTTATTTG-GCGCCGCTAATGCTCAGAT
* * * *
23262733 CTTTAGTGGCGTTTTTACCTTGGCACCGCTAATGCTCCGAT
1 CTTTAGCGGCGTTTTTA-TTTGGCGCCGCTAATGCTCAGAT
* * * *
23262774 CTTTAGCGGCGTTTTTATATGAGCGCCGCTAAAGCTCTG-G
1 CTTTAGCGGCGTTTTTATTTG-GCGCCGCTAATGCTCAGAT
* ** * * *
23262814 CATTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAGGCTCGGAG
1 C-TTTAGCGGCGTTTTTAT-TTGGCGCCGCTAATGCTCAGAT
* ** * ** * * * **
23262856 CTATAGTTGCTTTTTTATCTCAGCGCCACTAATCCTCTGGC
1 CTTTAGCGGCGTTTTTAT-TTGGCGCCGCTAATGCTCAGAT
* * ** * *
23262897 CTTTAGCGGTGTTTTTGTCTAAGCGCTGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTAT-TTGGCGCCGCTAATGCTCAGAT
* * * *
23262938 CTTTAGTGACGTTTTTATCTGAGCGCCACTAAT
1 CTTTAGCGGCGTTTTTATTTG-GCGCCGCTAAT
23262971 TCTCCTGCCT
Statistics
Matches: 180, Mismatches: 52, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
40 3 0.02
41 172 0.96
42 5 0.03
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.36
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTATTTGGCGCCGCTAATGCTCAGAT
Found at i:23262829 original size:82 final size:81
Alignment explanation
Indices: 23262692--23263011 Score: 309
Period size: 82 Copynumber: 3.9 Consensus size: 81
23262682 ATTTTTAAAC
* * * ** * * ** **
23262692 CTTTAGCGGCGTTTTTATTTGTGCGCCGCTAATGCTGAGATCTTTAGTGGCGTTTTTACCTTGGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTG-GCTTTAGCGGCGTTTTTGTCTAAGC
* *
23262757 ACCGCTAATGCTCCGAT
65 GCCGCTAATGCTCGGAT
* * *
23262774 CTTTAGCGGCGTTTTTATATGAGCGCCGCTAAAGCTCTGGCATTTAGCGGCGTTTTTGTCTAAGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGC-TTTAGCGGCGTTTTTGTCTAAGC
* *
23262839 GCCGCTAAGGCTCGGAG
65 GCCGCTAATGCTCGGAT
* ** * * * *
23262856 CTATAGTTGCTTTTTTATCTCAGCGCCACTAATCCTCTGGCCTTTAGCGGTGTTTTTGTCTAAGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGG-CTTTAGCGGCGTTTTTGTCTAAGC
*
23262921 GCTGCTAATGCTCGGAT
65 GCCGCTAATGCTCGGAT
* * * * *
23262938 CTTTAGTGACGTTTTTATCTGAGCGCCACTAATTCTCCTGCCTTTAGCAGCGTTTGTT-TCTAAG
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCT-CTGGCTTTAGCGGCGTTT-TTGTCTAAG
23263002 CGCCGCTAAT
64 CGCCGCTAAT
23263012 AGTAACAAAA
Statistics
Matches: 196, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
81 1 0.01
82 189 0.96
83 6 0.03
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (81 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGCTTTAGCGGCGTTTTTGTCTAAGCG
CCGCTAATGCTCGGAT
Found at i:23262983 original size:41 final size:40
Alignment explanation
Indices: 23262867--23263011 Score: 114
Period size: 41 Copynumber: 3.5 Consensus size: 40
23262857 TATAGTTGCT
* **
23262867 TTTTTATCTCAGCGCCACTAATCCTCTGGCCTTTAGCGGTG
1 TTTTTATCTAAGCGCCACTAATCCTCT-GCCTTTAGCGACG
* ** * * * *
23262908 TTTTTGTCTAAGCGCTGCTAATGCTCGGATCTTTAGTGACG
1 TTTTTATCTAAGCGCCACTAATCCTCTG-CCTTTAGCGACG
* *
23262949 TTTTTATCTGAGCGCCACTAATTCTCCTGCCTTTAGC-AGCG
1 TTTTTATCTAAGCGCCACTAATCCT-CTGCCTTTAGCGA-CG
*
23262990 TTTGTT-TCTAAGCGCCGCTAAT
1 TTT-TTATCTAAGCGCCACTAAT
23263012 AGTAACAAAA
Statistics
Matches: 80, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
40 2 0.03
41 74 0.93
42 4 0.05
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTTTATCTAAGCGCCACTAATCCTCTGCCTTTAGCGACG
Found at i:23266325 original size:11 final size:11
Alignment explanation
Indices: 23266309--23266335 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23266299 TTTGTTTAAT
23266309 TTACTTTCATA
1 TTACTTTCATA
23266320 TTACTTTCATA
1 TTACTTTCATA
23266331 TTACT
1 TTACT
23266336 GGTTGAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (11 bp):
TTACTTTCATA
Found at i:23268304 original size:21 final size:21
Alignment explanation
Indices: 23268275--23268327 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
23268265 CTTTGATATA
* *
23268275 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
23268297 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
23268317 TATATATATTT
1 TATATATATTT
23268328 GAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:23268436 original size:16 final size:16
Alignment explanation
Indices: 23268381--23268811 Score: 131
Period size: 16 Copynumber: 25.6 Consensus size: 16
23268371 AGCCTACAGG
* *
23268381 ACTTACTTAATACACA
1 ACTTACATAATACATA
* *
23268397 ACTTAAATAATTTAAATA
1 ACTTACATAA--TACATA
23268415 ACTTACATAATACATA
1 ACTTACATAATACATA
23268431 ACTTACAT--T-CATA
1 ACTTACATAATACATA
23268444 ACTTACATAA-ACTTATA
1 ACTTACATAATAC--ATA
23268461 TGTTACCTTACATAATACATA
1 ----A-CTTACATAATACATA
* *
23268482 ACTT--AT-ATAAATT
1 ACTTACATAATACATA
** *
23268495 TTTTATATAAACTTACATA
1 ACTTACAT-AA--TACATA
23268514 A--TACATAGCATACATA
1 ACTTACATA--ATACATA
*
23268530 ACTTACATAATACAAA
1 ACTTACATAATACATA
*
23268546 ACTTACATAACTTAAATA
1 ACTTACATAA--TACATA
* *
23268564 TCTTACACAACTTACATA
1 ACTTACATAA--TACATA
*
23268582 ACCTACATAATACATA
1 ACTTACATAATACATA
23268598 ACTTACATAACTTACATA
1 ACTTACATAA--TACATA
*
23268616 A--TACATAATAACTTACA
1 ACTTACATAAT-AC--ATA
*
23268633 ACTTACATAACATATATTA
1 ACTTACAT-A-ATACA-TA
**
23268652 A-TTTGATAACTTACATA
1 ACTTACATAA--TACATA
*
23268669 AGTTACATAATACATA
1 ACTTACATAATACATA
*
23268685 ACTTACA-ACTTACATA
1 ACTTACATA-ATACATA
* ***
23268701 ACATACATTAATTTGGTA
1 ACTTACA-TAA-TACATA
23268719 ACTTACATAAGTTACATA
1 ACTTACATAA--TACATA
23268737 A--TACATAACTTAC--A
1 ACTTACATAA--TACATA
*
23268751 ACTTACATAACATACATT
1 ACTTACAT-A-ATACATA
**
23268769 ACTTTGATAACTTACATA
1 ACTTACATAA--TACATA
* *
23268787 AGTTACATAATACACA
1 ACTTACATAATACATA
23268803 ACTTACATA
1 ACTTACATA
23268812 GCTTACTTAA
Statistics
Matches: 311, Mismatches: 53, Indels: 102
0.67 0.11 0.22
Matches are distributed among these distances:
13 19 0.06
14 6 0.02
15 6 0.02
16 128 0.41
17 21 0.07
18 101 0.32
19 11 0.04
20 2 0.01
21 6 0.02
22 9 0.03
23 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (16 bp):
ACTTACATAATACATA
Found at i:23268437 original size:9 final size:9
Alignment explanation
Indices: 23268391--23268868 Score: 250
Period size: 9 Copynumber: 55.3 Consensus size: 9
23268381 ACTTACTTAA
*
23268391 TACACAACT
1 TACATAACT
* *
23268400 TAAATAATT
1 TACATAACT
*
23268409 TAAATAACT
1 TACATAACT
23268418 TACATAA--
1 TACATAACT
23268425 TACATAACT
1 TACATAACT
23268434 TAC---A-T
1 TACATAACT
23268439 T-CATAACT
1 TACATAACT
23268447 TACATAAACT
1 TACAT-AACT
* *
23268457 TATATGTTACCT
1 TACA---TAACT
23268469 TACATAA--
1 TACATAACT
23268476 TACATAACT
1 TACATAACT
* *
23268485 TATATAAATTTTT
1 TACAT-AA---CT
*
23268498 TATATAAACT
1 TACAT-AACT
23268508 TACATAA--
1 TACATAACT
* *
23268515 TACATAGCA
1 TACATAACT
23268524 TACATAACT
1 TACATAACT
23268533 TACATAA--
1 TACATAACT
*
23268540 TACAAAACT
1 TACATAACT
23268549 TACATAACT
1 TACATAACT
* *
23268558 TAAATATCT
1 TACATAACT
*
23268567 TACACAACT
1 TACATAACT
*
23268576 TACATAACC
1 TACATAACT
23268585 TACATAA--
1 TACATAACT
23268592 TACATAACT
1 TACATAACT
23268601 TACATAACT
1 TACATAACT
*
23268610 TACATAATACA
1 TACAT-A-ACT
23268621 TA-ATAACT
1 TACATAACT
23268629 TAC--AACT
1 TACATAACT
*
23268636 TACATAACA
1 TACATAACT
*
23268645 TATATTAA-T
1 TACA-TAACT
**
23268654 TTGATAACT
1 TACATAACT
*
23268663 TACATAAGT
1 TACATAACT
23268672 TACATAA--
1 TACATAACT
23268679 TACATAACT
1 TACATAACT
23268688 TAC--AACT
1 TACATAACT
*
23268695 TACATAACA
1 TACATAACT
23268704 TACATTAA-T
1 TACA-TAACT
***
23268713 TTGGTAACT
1 TACATAACT
*
23268722 TACATAAGT
1 TACATAACT
23268731 TACATAA--
1 TACATAACT
23268738 TACATAACT
1 TACATAACT
23268747 TAC--AACT
1 TACATAACT
*
23268754 TACATAACA
1 TACATAACT
*
23268763 TACATTACT
1 TACATAACT
**
23268772 TTGATAACT
1 TACATAACT
*
23268781 TACATAAGT
1 TACATAACT
23268790 TACATAA--
1 TACATAACT
*
23268797 TACACAACT
1 TACATAACT
*
23268806 TACATAGCT
1 TACATAACT
*
23268815 TACTTAA--
1 TACATAACT
*
23268822 TACATCACT
1 TACATAACT
23268831 TACATAACT
1 TACATAACT
*
23268840 T--ATACACG
1 TACATA-ACT
23268848 TACATAACT
1 TACATAACT
*
23268857 TACATAATT
1 TACATAACT
23268866 TAC
1 TAC
23268869 TTAATACATA
Statistics
Matches: 358, Mismatches: 64, Indels: 94
0.69 0.12 0.18
Matches are distributed among these distances:
4 1 0.00
5 2 0.01
6 1 0.00
7 83 0.23
8 15 0.04
9 210 0.59
10 26 0.07
11 4 0.01
12 6 0.02
13 10 0.03
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:23268445 original size:13 final size:15
Alignment explanation
Indices: 23268412--23268452 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
23268402 AATAATTTAA
23268412 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
23268428 ATAACTTACAT-T-C
1 ATAACTTACATATAC
23268441 ATAACTTACATA
1 ATAACTTACATA
23268453 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:23268532 original size:25 final size:25
Alignment explanation
Indices: 23268504--23268879 Score: 234
Period size: 25 Copynumber: 14.7 Consensus size: 25
23268494 TTTTTATATA
* *
23268504 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
23268529 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
23268554 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
*
23268581 AACCTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
23268606 AACTTACATAATACATAATAACTTAC--
1 AACTTACATAATAC---ATAACTTACAT
* **
23268632 AACTTACATAACATATATTAA-TTTGAT
1 AACTTACAT-A-ATACA-TAACTTACAT
23268659 AACTTACATAAGTTACATAA--TACAT
1 AACTTACATAA--TACATAACTTACAT
* *
23268684 AACTTACA-ACTTACATAACATACATT
1 AACTTACATA-ATACATAACTTACA-T
*** *
23268710 AA-TTTGGTAACTTACATAAGTTACAT
1 AACTTACATAA--TACATAACTTACAT
23268736 AA--TACATAACTTAC--AACTTACAT
1 AACTTACATAA--TACATAACTTACAT
* * **
23268759 AACATACATTACTTTGATAACTTACAT
1 AACTTACA-TA-ATACATAACTTACAT
* *
23268786 AAGTTACATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
23268811 AGCTTACTTAATACATCACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
23268836 AACTTATACACGTACATAACTTACAT
1 AACTTACATA-ATACATAACTTACAT
* *
23268862 AATTTACTTAATACATAA
1 AACTTACATAATACATAA
23268880 ATTATGTAAC
Statistics
Matches: 272, Mismatches: 53, Indels: 52
0.72 0.14 0.14
Matches are distributed among these distances:
23 17 0.06
24 1 0.00
25 136 0.50
26 46 0.17
27 60 0.22
28 12 0.04
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:23268596 original size:43 final size:42
Alignment explanation
Indices: 23268524--23268625 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
23268514 ATACATAGCA
* *
23268524 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCT
1 TACACAACTTACATAATACAAAAC-TACATAACTTAAATAACT
* *
23268567 TACACAACTTACATAACCTACATAA-TACATAACTTACATAACT
1 TACACAACTTACATAA--TACAAAACTACATAACTTAAATAACT
*
23268610 TACATAA--TACATAATA
1 TACACAACTTACATAATA
23268626 ACTTACAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 2 0.04
41 7 0.13
43 37 0.71
45 6 0.12
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (42 bp):
TACACAACTTACATAATACAAAACTACATAACTTAAATAACT
Found at i:23268826 original size:59 final size:59
Alignment explanation
Indices: 23268570--23268809 Score: 367
Period size: 59 Copynumber: 4.1 Consensus size: 59
23268560 AATATCTTAC
* ** *
23268570 ACAACTTACATAACCTACA-TAA-TACATAACTTACATAACTTACATAATACATAATAACTT
1 ACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATAC---ATAACTT
*
23268630 ACAACTTACATAACATATATTAATTTGATAACTTACATAAGTTACATAATACATAACTT
1 ACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATACATAACTT
*
23268689 ACAACTTACATAACATACATTAATTTGGTAACTTACATAAGTTACATAATACATAACTT
1 ACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATACATAACTT
* *
23268748 ACAACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATACACAACTT
1 ACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATACATAACTT
23268807 ACA
1 ACA
23268810 TAGCTTACTT
Statistics
Matches: 168, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
59 123 0.73
60 17 0.10
61 3 0.02
62 25 0.15
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.33
Consensus pattern (59 bp):
ACAACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATACATAACTT
Found at i:23268839 original size:118 final size:119
Alignment explanation
Indices: 23268570--23268841 Score: 374
Period size: 118 Copynumber: 2.3 Consensus size: 119
23268560 AATATCTTAC
*
23268570 ACAACTTACATAACCTACAT-AA-TACATAACTTACATAACTTACATAATACATAATAACTTACA
1 ACAACTTACATAACATACATCAATTACATAACTTACATAACTTACATAATAC--AATAACTTACA
* *
23268633 ACTTACATAACATATATTAATTTGATAACTTACATAAGTTACATAATACATAACTT
64 ACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATACACAACTT
* *** *
23268689 ACAACTTACATAACATACATTAATTTGGTAACTTACATAAGTTACATAATAC-ATAACTTACAAC
1 ACAACTTACATAACATACATCAATTACATAACTTACATAACTTACATAATACAATAACTTACAAC
*
23268753 TTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATACACAACTT
66 TTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATACACAACTT
* *
23268807 ACATAGCTTAC-TTA-ATACATCACTTACATAACTTA
1 ACA-A-CTTACATAACATACATCAATTACATAACTTA
23268842 TACACGTACA
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
118 82 0.61
119 22 0.16
120 7 0.05
121 24 0.18
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (119 bp):
ACAACTTACATAACATACATCAATTACATAACTTACATAACTTACATAATACAATAACTTACAAC
TTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATACACAACTT
Found at i:23274455 original size:21 final size:21
Alignment explanation
Indices: 23274431--23274476 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
23274421 CTACAACTTA
* *
23274431 AAGCAGATGCGGCAACGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
23274452 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAACGAGAG
23274473 AAGC
1 AAGC
23274477 TTAGGTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.39, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACGAGAG
Found at i:23274539 original size:87 final size:84
Alignment explanation
Indices: 23274368--23274557 Score: 238
Period size: 87 Copynumber: 2.2 Consensus size: 84
23274358 ACACAACTTA
* * * *
23274368 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAACTCCAGCTACAACTTAAA
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATAAGAACTCCAGCTACAACTTAAA
*
23274433 GCAGATGCGGCAACGAGAG
66 GCAGATGCAGCAACGAGAG
* * *
23274452 AAGCAGAGGCAGCAGCGAGAGAAGCTTAGGTTCAATGAAAGTATGAAGAACTCCAGC-AGCAGCT
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAG-AT-AAGAACTCCAGCTA-CAACT
*
23274516 TAAAGCAGATGCAGCAGCGAGAG
62 TAAAGCAGATGCAGCAACGAGAG
* *
23274539 AAGCAGAGGCTGTAGCGAG
1 AAGCAGAGGCAGCAGCGAG
23274558 GGAATTAAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
84 31 0.34
85 4 0.04
86 3 0.03
87 53 0.58
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.13
Consensus pattern (84 bp):
AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATAAGAACTCCAGCTACAACTTAAA
GCAGATGCAGCAACGAGAG
Found at i:23275197 original size:43 final size:43
Alignment explanation
Indices: 23274910--23275190 Score: 303
Period size: 43 Copynumber: 6.5 Consensus size: 43
23274900 TTTGGGTAAA
* * * * *
23274910 CGCCGCTAAAGAACACGGCCGATAGTGGCGTTTTTCGTATAAG
1 CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTATAAG
** *
23274953 CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCCAAT
1 CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTATAAG
* * * * **
23274996 CGCCGCTAAAGAACACGGTCTATAGTGACCTTTTTTGTCCAAG
1 CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTATAAG
* * * * *
23275039 CGCCGTTAAAGAACATGGTCTATAGTGGCGTTTTATGTACAAA
1 CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTATAAG
* * * *
23275082 CGTCGCTAAAAGACCACGATCTATAGTGACGTTTTTTGTAT-AG
1 CGCCGCT-AAAGACCATGGTCTATAGTGGCGTTTTTTGTATAAG
* * *
23275125 CGCCGCTAAAGACTATGGTCTATAGCGGCGTTTTTTGTGTAAG
1 CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTATAAG
*
23275168 CGCCGCTAAAGACCATAGTCTAT
1 CGCCGCTAAAGACCATGGTCTAT
23275191 TGCGGCGCTT
Statistics
Matches: 198, Mismatches: 38, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
42 27 0.14
43 144 0.73
44 27 0.14
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (43 bp):
CGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTATAAG
Found at i:23275379 original size:22 final size:21
Alignment explanation
Indices: 23275334--23275379 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
23275324 ATTTGCGGCG
* *
23275334 CTAAAAAACGCCGCTATAGCC
1 CTAAAAAACGCCGCTAAAGAC
*
23275355 CTAAAAAAGCGCCGCTAAATAC
1 CTAAAAAA-CGCCGCTAAAGAC
23275377 CTA
1 CTA
23275380 TTTTGGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.41, C:0.30, G:0.13, T:0.15
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAGAC
Found at i:23283231 original size:20 final size:20
Alignment explanation
Indices: 23283206--23283245 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23283196 AATATTTTCT
* *
23283206 AGTAAATCATTTTGCAGAAA
1 AGTAAAACATTTTCCAGAAA
23283226 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTCCAGAAA
23283246 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTCCAGAAA
Found at i:23283252 original size:14 final size:14
Alignment explanation
Indices: 23283229--23283268 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23283219 GCAGAAAAGT
*
23283229 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
23283243 AAATCATTTTACGG
1 AAAACATTTTACAG
23283257 AAAACATTTTAC
1 AAAACATTTTAC
23283269 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:23283260 original size:34 final size:35
Alignment explanation
Indices: 23283194--23283260 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
23283184 CAAACAGTAG
* * *
23283194 AAAATATTTTCTAGTAAATCATTTTGCAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
23283229 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
23283261 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:23283699 original size:14 final size:15
Alignment explanation
Indices: 23283664--23283702 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
23283654 TCTTTATATA
23283664 TAATATTTATATGTC
1 TAATATTTATATGTC
* *
23283679 AAATATTTAT-TTTC
1 TAATATTTATATGTC
23283693 TAATATTTAT
1 TAATATTTAT
23283703 GGTTATGGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (15 bp):
TAATATTTATATGTC
Found at i:23285763 original size:50 final size:50
Alignment explanation
Indices: 23285679--23285921 Score: 333
Period size: 50 Copynumber: 4.8 Consensus size: 50
23285669 ATTTGGGTAA
* * *
23285679 AGAGGTCCCATGTAAGACCATGTCTAGGAAATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
23285729 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
23285779 AGAGGTCTCATGTAAGACCATGTCTAGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
23285829 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
23285879 AGTACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23285922 TGTCATTATC
Statistics
Matches: 168, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 135 0.80
51 33 0.20
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:23287633 original size:23 final size:23
Alignment explanation
Indices: 23287602--23287657 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
23287592 GTCCAAAGCT
*
23287602 AAATGTAAAATTATCGAAACCTA
1 AAATCTAAAATTATCGAAACCTA
* * *
23287625 AAATCTAAAAATTATTGATATCTA
1 AAATCT-AAAATTATCGAAACCTA
*
23287649 AATTCTAAA
1 AAATCTAAA
23287658 TAAAAACCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (23 bp):
AAATCTAAAATTATCGAAACCTA
Found at i:23287649 original size:24 final size:24
Alignment explanation
Indices: 23287608--23287657 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
23287598 AGCTAAATGT
23287608 AAAATTATCGAAACCTAAAATCTA
1 AAAATTATCGAAACCTAAAATCTA
* * * *
23287632 AAAATTATTGATATCTAAATTCTA
1 AAAATTATCGAAACCTAAAATCTA
23287656 AA
1 AA
23287658 TAAAAACCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAATTATCGAAACCTAAAATCTA
Found at i:23288088 original size:21 final size:21
Alignment explanation
Indices: 23288049--23288088 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23288039 CCGTTCACTT
*
23288049 TTGCTTCTTCCTTTGTTTTCC
1 TTGCTTCTTCCTTTCTTTTCC
23288070 TTGCTTC-TCCATTTCTTTT
1 TTGCTTCTTCC-TTTCTTTT
23288089 ACCAAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.03, C:0.28, G:0.07, T:0.62
Consensus pattern (21 bp):
TTGCTTCTTCCTTTCTTTTCC
Found at i:23289065 original size:23 final size:22
Alignment explanation
Indices: 23289008--23289066 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
23288998 GTTATTTAAA
* *
23289008 CTCCATTTTTTTTTCTTTTCTTT
1 CTCCA-TTTCTTTTCTTTGCTTT
* * *
23289031 CTTCACTACTTTTCTTTGCTCTT
1 CTCCATTTCTTTTCTTTGCT-TT
23289054 CTCCATTTCTTTT
1 CTCCATTTCTTTT
23289067 TGGTTGGTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.07, C:0.27, G:0.02, T:0.64
Consensus pattern (22 bp):
CTCCATTTCTTTTCTTTGCTTT
Found at i:23293036 original size:17 final size:17
Alignment explanation
Indices: 23293014--23293066 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
23293004 TATATTTTAA
23293014 AACAAAATAAATTCAAT
1 AACAAAATAAATTCAAT
* *
23293031 AAC---A-AAAGTCACT
1 AACAAAATAAATTCAAT
23293044 -ACAAAATAAATTCAAT
1 AACAAAATAAATTCAAT
23293060 AACAAAA
1 AACAAAA
23293067 GTCACTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
12 2 0.07
13 7 0.26
14 1 0.04
15 1 0.04
16 7 0.26
17 9 0.33
ACGTcount: A:0.64, C:0.15, G:0.02, T:0.19
Consensus pattern (17 bp):
AACAAAATAAATTCAAT
Found at i:23293057 original size:29 final size:29
Alignment explanation
Indices: 23293015--23293072 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
23293005 ATATTTTAAA
23293015 ACAAAATAAATTCAATAACAAAAGTCACT
1 ACAAAATAAATTCAATAACAAAAGTCACT
23293044 ACAAAATAAATTCAATAACAAAAGTCACT
1 ACAAAATAAATTCAATAACAAAAGTCACT
23293073 TTGATAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.59, C:0.17, G:0.03, T:0.21
Consensus pattern (29 bp):
ACAAAATAAATTCAATAACAAAAGTCACT
Found at i:23311198 original size:23 final size:23
Alignment explanation
Indices: 23311170--23311226 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
23311160 GAAACTAAAA
*
23311170 TTTTCTTTTCTCTTACCTTGTAT
1 TTTTCTTTTATCTTACCTTGTAT
23311193 TTTTCTTTTATCTTACCTTGTAT
1 TTTTCTTTTATCTTACCTTGTAT
23311216 TTTTCTTTTAT
1 TTTTCTTTTAT
23311227 TGTCTTCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.11, C:0.18, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTTCTTTTATCTTACCTTGTAT
Found at i:23312074 original size:27 final size:27
Alignment explanation
Indices: 23312037--23312163 Score: 119
Period size: 27 Copynumber: 4.7 Consensus size: 27
23312027 ACATGCAAGA
*
23312037 AAATGGAAGCCTTTGTGGAAATCTATG
1 AAATGAAAGCCTTTGTGGAAATCTATG
* * *
23312064 AAATGAAAGCCTTTGTGGCAATATATT
1 AAATGAAAGCCTTTGTGGAAATCTATG
* * *
23312091 AAATTAAAGCCCTTGTGGAAATTTATG
1 AAATGAAAGCCTTTGTGGAAATCTATG
* * **
23312118 AAATGGAAGCCTTCGTGGCGATCTATGG
1 AAATGAAAGCCTTTGTGGAAATCTAT-G
* * *
23312146 AAAGGAACGCCTTCGTGG
1 AAATGAAAGCCTTTGTGG
23312164 TGCATTCTAT
Statistics
Matches: 80, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
27 64 0.80
28 16 0.20
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (27 bp):
AAATGAAAGCCTTTGTGGAAATCTATG
Found at i:23312335 original size:27 final size:28
Alignment explanation
Indices: 23312303--23312383 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 28
23312293 TAACTATGAC
* *
23312303 AAACTCTGAAGGACTAGTAGGTATGGT-
1 AAACTCTGAAGGAATAGTACGTATGGTG
*
23312330 AAACTCTGAAAGAATAGTACGTATGGTG
1 AAACTCTGAAGGAATAGTACGTATGGTG
* *
23312358 AAA-TTTGAAGGAATAAGTATGTATGG
1 AAACTCTGAAGGAAT-AGTACGTATGG
23312384 CGAGGTCTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 33 0.72
28 13 0.28
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.27
Consensus pattern (28 bp):
AAACTCTGAAGGAATAGTACGTATGGTG
Found at i:23314955 original size:27 final size:27
Alignment explanation
Indices: 23314925--23314978 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
23314915 GCTAGGCCAT
* * *
23314925 CTGGCGATCCTTGTTTTGCCAAACCCG
1 CTGGCGATCCTTGCTTCGACAAACCCG
23314952 CTGGCGATCCTTGCTTCGACAAACCCG
1 CTGGCGATCCTTGCTTCGACAAACCCG
23314979 TTGCCGATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.35, G:0.22, T:0.26
Consensus pattern (27 bp):
CTGGCGATCCTTGCTTCGACAAACCCG
Found at i:23314986 original size:27 final size:27
Alignment explanation
Indices: 23314929--23314986 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
23314919 GGCCATCTGG
* * * *
23314929 CGATCCTTGTTTTGCCAAACCCGCTGG
1 CGATCCTTGCTTCGACAAACCCGCTGC
*
23314956 CGATCCTTGCTTCGACAAACCCGTTGC
1 CGATCCTTGCTTCGACAAACCCGCTGC
23314983 CGAT
1 CGAT
23314987 TATAGTTCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.34, G:0.21, T:0.28
Consensus pattern (27 bp):
CGATCCTTGCTTCGACAAACCCGCTGC
Found at i:23315241 original size:55 final size:54
Alignment explanation
Indices: 23315149--23315265 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 54
23315139 ATAAAAAATG
* * *
23315149 AAATGAAATTGGACCTCACAACAACGCCTTCACAACAAAATGTGACATAAATGAA
1 AAATGAAATTGGACATCACAACAACGCCTTCAAAACAAAATGTAACATAAA-GAA
* * **
23315204 GAATGAAATTGGACATCATAATTA-GCCTTCTAAAACAAAATGTAACATAAAGAA
1 AAATGAAATTGGACATCACAACAACGCCTTC-AAAACAAAATGTAACATAAAGAA
23315258 AAATGAAA
1 AAATGAAA
23315266 CCAAACCTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 16 0.30
55 37 0.70
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (54 bp):
AAATGAAATTGGACATCACAACAACGCCTTCAAAACAAAATGTAACATAAAGAA
Found at i:23315363 original size:59 final size:59
Alignment explanation
Indices: 23315300--23315457 Score: 175
Period size: 54 Copynumber: 2.8 Consensus size: 59
23315290 AAATAGAATG
23315300 CAACATAAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCCTCTAAAACAAAATA
1 CAACATAAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCCTCTAAAACAAAATA
* * * ** *
23315359 CAACATAAATG-----GAAATGAAATTGGA-CTTCATAACCAGGCCTCTAAAATAGGATG
1 CAACATAAATGAAAATGAAATGAAATTGGACCTT-AAAACTAGGCCTCTAAAACAAAATA
* * * *
23315413 CAACATAAATGAAAATGAAATGAAACTAGACCTCACAACTAGGCC
1 CAACATAAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCC
23315458 CCTGGAAACA
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
53 3 0.04
54 44 0.54
59 32 0.40
60 2 0.02
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.20
Consensus pattern (59 bp):
CAACATAAATGAAAATGAAATGAAATTGGACCTTAAAACTAGGCCTCTAAAACAAAATA
Found at i:23315364 original size:113 final size:114
Alignment explanation
Indices: 23315205--23315457 Score: 289
Period size: 113 Copynumber: 2.2 Consensus size: 114
23315195 ATAAATGAAG
* * * **
23315205 AATGAAATTGGACATCATAATTA-GCCTTCTAAAACAAAATGTAACATAAA-GAAAAATGAAACC
1 AATGAAATTGGACCTCAAAACTAGGCCTTCTAAAACAAAATACAACATAAATG-AAAATGAAACC
*
23315268 AAACCTCACAACCAAG-CTACTTAAATAGAATGCAACATAAATGAAAATGA
65 AAACCTCACAACCAAGCCT-CTAAAATAGAATGCAACATAAATGAAAATGA
* * ***
23315318 AATGAAATTGGACCTTAAAACTAGGCC-TCTAAAACAAAATACAACATAAATGGAAATGAAATTG
1 AATGAAATTGGACCTCAAAACTAGGCCTTCTAAAACAAAATACAACATAAATGAAAATGAAACCA
* * * * *
23315382 GACTTCATAACCAGGCCTCTAAAATAGGATGCAACATAAATGAAAATGA
66 AACCTCACAACCAAGCCTCTAAAATAGAATGCAACATAAATGAAAATGA
* * *
23315431 AATGAAACTAGACCTCACAACTAGGCC
1 AATGAAATTGGACCTCAAAACTAGGCC
23315458 CCTGGAAACA
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
113 111 0.95
114 6 0.05
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.20
Consensus pattern (114 bp):
AATGAAATTGGACCTCAAAACTAGGCCTTCTAAAACAAAATACAACATAAATGAAAATGAAACCA
AACCTCACAACCAAGCCTCTAAAATAGAATGCAACATAAATGAAAATGA
Found at i:23323038 original size:27 final size:27
Alignment explanation
Indices: 23322978--23323038 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
23322968 ATCATCTCTT
*
23322978 GTTATTT-TATTATTATTTTATTCTAA
1 GTTATTTATATTATTATATTATTCTAA
* * *
23323004 ATTTTTTATAATTATTA-ATTATTTTAA
1 GTTATTTAT-ATTATTATATTATTCTAA
23323031 GTTATTTA
1 GTTATTTA
23323039 GGATTTTATG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 5 0.19
27 15 0.56
28 7 0.26
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
GTTATTTATATTATTATATTATTCTAA
Found at i:23324670 original size:13 final size:14
Alignment explanation
Indices: 23324649--23324685 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
23324639 TCCAAGTAAG
23324649 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
23324663 AT-AAATAACTAAA
1 ATAAAATAATTAAA
23324676 ATAAAATAAT
1 ATAAAATAAT
23324686 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:23331827 original size:8 final size:9
Alignment explanation
Indices: 23331803--23331829 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
23331793 GCAAAACAGT
23331803 TTATTTTTA
1 TTATTTTTA
23331812 TTATTTTTA
1 TTATTTTTA
23331821 TTATTTTTA
1 TTATTTTTA
23331830 ATTTTAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTTA
Found at i:23336056 original size:102 final size:102
Alignment explanation
Indices: 23335944--23336127 Score: 341
Period size: 102 Copynumber: 1.8 Consensus size: 102
23335934 AGATTAGAAT
* *
23335944 TTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 TTATATTTTATAGTATTATATATTATAATTATAGTAAATTCATATAAGAATATTTAATATTAAAA
23336009 ATTTTATTAAATTATATTTAATAATAATTATTTTAGA
66 ATTTTATTAAATTATATTTAATAATAATTATTTTAGA
*
23336046 TTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAAA
1 TTATATTTTATAGTATTATATATTATAATTATAGTAAATTCATATAAGAATATTTAATATTAAAA
23336111 ATTTTATTAAATTATAT
66 ATTTTATTAAATTATAT
23336128 ATTTTTATTA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (102 bp):
TTATATTTTATAGTATTATATATTATAATTATAGTAAATTCATATAAGAATATTTAATATTAAAA
ATTTTATTAAATTATATTTAATAATAATTATTTTAGA
Found at i:23336981 original size:24 final size:24
Alignment explanation
Indices: 23336886--23336981 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
23336876 TAAATATTAA
* *
23336886 ATTATTTATATAGTTTTATTATAT
1 ATTATTTATATAATTTTATTGTAT
* * * *
23336910 ATTATATTTTTAAAATTTGTATTTTCT
1 A-T-TATTTATATAATTT-TATTGTAT
23336937 ATTATTTATATAATTTTATTGTAT
1 ATTATTTATATAATTTTATTGTAT
*
23336961 ATTATTTGTATAATTTTATTG
1 ATTATTTATATAATTTTATTG
23336982 CATTTTCCGT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
24 27 0.46
25 13 0.22
26 12 0.20
27 7 0.12
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (24 bp):
ATTATTTATATAATTTTATTGTAT
Found at i:23339338 original size:11 final size:11
Alignment explanation
Indices: 23339322--23339347 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23339312 AAGTAAGAGC
23339322 TTCTTTTTTTT
1 TTCTTTTTTTT
23339333 TTCTTTTTTTT
1 TTCTTTTTTTT
23339344 TTCT
1 TTCT
23339348 GTAAACTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:23339454 original size:4 final size:4
Alignment explanation
Indices: 23339445--23339471 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23339435 GTAAGTTGAT
23339445 ATCC ATCC ATCC ATCC ATCC ATCC ATC
1 ATCC ATCC ATCC ATCC ATCC ATCC ATC
23339472 AATACGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.48, G:0.00, T:0.26
Consensus pattern (4 bp):
ATCC
Found at i:23343358 original size:20 final size:20
Alignment explanation
Indices: 23343324--23343365 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23343314 AACTATTTAA
**
23343324 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAGTT
*
23343344 ATAATATTAAATGAATATTT
1 ATAATATTAAATGAATAGTT
23343364 AT
1 AT
23343366 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
ATAATATTAAATGAATAGTT
Found at i:23348220 original size:25 final size:26
Alignment explanation
Indices: 23348156--23348220 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 26
23348146 TTATATATAC
*
23348156 TAAAATAAA-TATA-TACATATAAAT
1 TAAAAAAAATTATATTACATATAAAT
* *
23348180 TATAAAAAATT-CATTACATATAAA-
1 TAAAAAAAATTATATTACATATAAAT
23348204 TAAAAAAAATTATATTA
1 TAAAAAAAATTATATTA
23348221 AAAAAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
TAAAAAAAATTATATTACATATAAAT
Found at i:23348336 original size:18 final size:18
Alignment explanation
Indices: 23348315--23348358 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
23348305 ATATATATAT
23348315 GTAAGTATAA-TAATAATA
1 GTAAGTA-AATTAATAATA
23348333 GTAAGTAAATTAATAATA
1 GTAAGTAAATTAATAATA
*
23348351 ATAAGTAA
1 GTAAGTAA
23348359 CAGTAGCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
GTAAGTAAATTAATAATA
Found at i:23349793 original size:44 final size:44
Alignment explanation
Indices: 23349719--23349925 Score: 127
Period size: 44 Copynumber: 4.7 Consensus size: 44
23349709 AAAATCCACC
* * **
23349719 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAA
*
23349763 ATCTTCAATCTATTCCACTATTGCCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGA-TAAG-A-T-CTGAA
* * * * ** * * * *
23349807 -GCTCCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCA
1 ATCTTCAATCTACTCCACTATTGCC-CAGGGAGATAAGATCTGAA
* * * * **
23349851 ATCTTCGATCTGCTCCATTAATGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAA
* *
23349895 ATCTTCAATCTATTCCACTGTTGCCCAGGGA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGA
23349926 AGTAGAATTA
Statistics
Matches: 114, Mismatches: 39, Indels: 20
0.66 0.23 0.12
Matches are distributed among these distances:
42 2 0.02
43 21 0.18
44 73 0.64
45 15 0.13
46 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAGATCTGAA
Found at i:23349855 original size:132 final size:132
Alignment explanation
Indices: 23349613--23350404 Score: 1193
Period size: 132 Copynumber: 6.1 Consensus size: 132
23349603 CTGCAACTGC
* * * * * *
23349613 AGGGAGATAATA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGGATTACTGG
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGAAG-TAGAATTACTGG
* * *
23349676 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
23349741 GCTT
129 GCTT
*
23349745 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * * * *
23349810 CCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCGATCTGCTCCATTAATGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
23349875 TT
131 TT
23349877 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
*
23349942 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
23350007 TT
131 TT
* *
23350009 AGGGATAT-A-A---G--ATCTTCAATCTATTCCACTGTTGCCCAAGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
23350067 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
23350132 TT
131 TT
23350134 AGGGAGAT-A-A---G--ATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* * * *
23350192 TTAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
*
23350257 TA
131 TT
* *
23350259 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
* *
23350324 TCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATCTTCGATATGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
23350389 TT
131 TT
23350391 AGGGAGATAAGATC
1 AGGGAGATAAGATC
23350405 GGTTTTAACC
Statistics
Matches: 610, Mismatches: 41, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
125 236 0.39
126 1 0.00
127 2 0.00
130 2 0.00
131 1 0.00
132 363 0.60
133 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:23349945 original size:43 final size:43
Alignment explanation
Indices: 23349897--23350340 Score: 141
Period size: 44 Copynumber: 10.4 Consensus size: 43
23349887 GATCTGAAAT
* *
23349897 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTATTGCCCAGGGAAGTAGAATTACTGG
* ** * * ** ***
23349940 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCACTATTGCC-CAGGGAAGTAGAAT-TACTGG
* * ** * *
23349985 CTTCGATCTACTCCACTACTGCTTAGGG-A-TATAA-GA-T--
1 CTTCAATCTACTCCACTATTGCCCAGGGAAGTAGAATTACTGG
* * *
23350022 CTTCAATCTATTCCACTGTTGCCCAAGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTATTGCCCAGGGAAGTAGAATTACTGG
* ** * * ** ***
23350065 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCAAT
1 CTTCAATCTACTCCACTATTGCC-CAGGGAAGTAGAAT-TACTGG
* * ** * *
23350110 CTTCAATCTGCTCCACTACTGCTTAGGG-AG-ATAA-GA-T--
1 CTTCAATCTACTCCACTATTGCCCAGGGAAGTAGAATTACTGG
* *
23350147 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTATTGCCCAGGGAAGTAGAATTACTGG
* * ** * * *
23350190 CTTTAATGTACTCCACTATAACCACAGGGAGGTA-AAAT-CTGTCAT
1 CTTCAATCTACTCCACTATTGCC-CAGGGAAGTAGAATTACTG---G
* * ** *
23350235 CTTCAATCTGCTCCACTACTGCTAAGGG-AGATA-AGA-T-CTGAAAT
1 CTTCAATCTACTCCACTATTGCCCAGGGAAG-TAGA-ATTACTG---G
* * * *
23350279 CTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTATTGCCCAGGGAAGTAGAATTACTGG
*
23350322 CTTCAATGTACTCCACTAT
1 CTTCAATCTACTCCACTAT
23350341 AACCATAGGG
Statistics
Matches: 278, Mismatches: 97, Indels: 52
0.65 0.23 0.12
Matches are distributed among these distances:
37 43 0.15
38 3 0.01
39 7 0.03
40 2 0.01
41 2 0.01
42 10 0.04
43 74 0.27
44 77 0.28
45 57 0.21
46 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTCAATCTACTCCACTATTGCCCAGGGAAGTAGAATTACTGG
Found at i:23350283 original size:257 final size:257
Alignment explanation
Indices: 23349631--23350404 Score: 1195
Period size: 257 Copynumber: 3.0 Consensus size: 257
23349621 AATACTTACA
* * * * *
23349631 ATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGGATTACTGGCTTCAATGTACTCCACTGT
1 ATCTTCAATCTATTCCACTGTTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTAT
*
23349695 AACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
65 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
* *
23349760 GAAATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTCCAATGTACTCCACT
130 GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
* * *
23349825 GTAACCACAGGGAGGTAAAATCCGCAATCTTCGATCTGCTCCATTAATGCTTAGGGAGATAAGAT
195 ATAACCACAGGGAGGTAAAATCCGCAATCTTCGATCTGCTCCACTACTGCTTAGGGAGAT-A-A-
23349890 CTG
257 --G
23349893 AAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTA
1 --ATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTA
*
23349958 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGATAT-A-A--
64 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC
*
23350019 -G--ATCTTCAATCTATTCCACTGTTGCCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
129 TGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
*
23350081 TATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAG
194 TATAACCACAGGGAGGTAAAATCCGCAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
23350145 ATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTATA
1 ATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATA
* * * * *
23350210 ACCACAGGGAGGTAAAATCTGTCATCTTCAATCTGCTCCACTACTGCTAAGGGAGATAAGATCTG
66 ACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
* *
23350275 AAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTA
131 AAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTA
* * *
23350340 TAACCATAGGGAGGTAAAATCCGCCATCTTCGATATGCTCCACTACTGCTTAGGGAGATAAG
196 TAACCACAGGGAGGTAAAATCCGCAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
23350402 ATC
1 ATC
23350405 GGTTTTAACC
Statistics
Matches: 474, Mismatches: 28, Indels: 23
0.90 0.05 0.04
Matches are distributed among these distances:
250 115 0.24
251 1 0.00
252 2 0.00
255 2 0.00
256 1 0.00
257 236 0.50
259 1 0.00
262 1 0.00
263 1 0.00
264 112 0.24
265 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (257 bp):
ATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATA
ACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTG
AAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTA
TAACCACAGGGAGGTAAAATCCGCAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
Found at i:23350465 original size:44 final size:44
Alignment explanation
Indices: 23350417--23350703 Score: 202
Period size: 44 Copynumber: 6.7 Consensus size: 44
23350407 TTTTAACCCA
*
23350417 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * * **
23350461 CTCCACTGCAACTTCAGAGAGATAAGA-T-TCGCCATCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AATCTG
* ** * *
23350506 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATTGGCTTTAATCTG
* * * * * *
23350550 TTCCACTGCAACTTCAAGGAGATAAGACTA---GATGTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * * *
23350591 CT-CTCTGCAACTTCAGAGAGATAAG---ATCGGCTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * ** *
23350631 CTCCACTGTAACTTCAGGGAGATAGGATCGTTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
23350675 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
23350704 TTCCATCTTC
Statistics
Matches: 185, Mismatches: 40, Indels: 36
0.71 0.15 0.14
Matches are distributed among these distances:
37 1 0.01
40 29 0.16
41 24 0.13
42 3 0.02
43 3 0.02
44 91 0.49
45 31 0.17
47 1 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
Found at i:23350895 original size:50 final size:50
Alignment explanation
Indices: 23350742--23350916 Score: 154
Period size: 50 Copynumber: 3.5 Consensus size: 50
23350732 GTCGAGGATG
* * *
23350742 AGATTAGCCGTCGTAGCTTCAATCTGATCCACTGCACTGCCA-AGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGA-GAAATA
* ** * ** * * * * *
23350792 AGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTAGGGAAACA
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGAGAAATA
* *
23350842 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCTAGAGAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGAGAAATA
* * * *
23350892 AGATTCACTGTCGTGGTTTCAATCT
1 AGATTCGCCGTCGTAGCTTCAATCT
23350917 ACTTCACTGT
Statistics
Matches: 93, Mismatches: 31, Indels: 2
0.74 0.25 0.02
Matches are distributed among these distances:
50 93 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGAGAAATA
Found at i:23359033 original size:26 final size:26
Alignment explanation
Indices: 23358986--23359052 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
23358976 ATTAATATGT
*
23358986 ATATATACATATATA-TACTAAAATAA
1 ATATATACATATAAATTACTAAAA-AA
23359012 ATATATACATATAAATTA-TAAAAAA
1 ATATATACATATAAATTACTAAAAAA
*
23359037 TTCAT-TACATATAAAT
1 AT-ATATACATATAAAT
23359053 AAAATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 14 0.38
26 21 0.57
27 2 0.05
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (26 bp):
ATATATACATATAAATTACTAAAAAA
Found at i:23359191 original size:18 final size:18
Alignment explanation
Indices: 23359170--23359213 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
23359160 ATATATATAT
23359170 GTAAGTATAA-TAATAATA
1 GTAAGTA-AATTAATAATA
23359188 GTAAGTAAATTAATAATA
1 GTAAGTAAATTAATAATA
*
23359206 ATAAGTAA
1 GTAAGTAA
23359214 CAGTAGCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
GTAAGTAAATTAATAATA
Found at i:23363546 original size:19 final size:21
Alignment explanation
Indices: 23363507--23363547 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23363497 CATTTGTATA
23363507 ATATAATTAAAATGCAAATATT
1 ATATAATTAAAAT-CAAATATT
23363529 ATAT-ATTAAAAT-AAATATT
1 ATATAATTAAAATCAAATATT
23363548 TTAGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
ATATAATTAAAATCAAATATT
Found at i:23369103 original size:21 final size:21
Alignment explanation
Indices: 23369079--23369122 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
23369069 TAAGATAAAC
* *
23369079 AAATAAATACATAAATACATA
1 AAATAAAAACAAAAATACATA
23369100 AAATAAAAACAAAAATACATA
1 AAATAAAAACAAAAATACATA
23369121 AA
1 AA
23369123 TATCTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATAAAAACAAAAATACATA
Found at i:23371549 original size:22 final size:22
Alignment explanation
Indices: 23371523--23371576 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
23371513 ATATTCAAAC
**
23371523 AATAACAACAAAATAGTAGTAA
1 AATAACAACAAAATAGTAACAA
* * * *
23371545 TATAATAACGAAATGGTAACAA
1 AATAACAACAAAATAGTAACAA
23371567 AATAACAACA
1 AATAACAACA
23371577 TAACAACAAC
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.19
Consensus pattern (22 bp):
AATAACAACAAAATAGTAACAA
Found at i:23371576 original size:11 final size:11
Alignment explanation
Indices: 23371562--23371595 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
23371552 ACGAAATGGT
*
23371562 AACAAAATAAC
1 AACAAAACAAC
*
23371573 AACATAACAAC
1 AACAAAACAAC
23371584 AACAAAACAAC
1 AACAAAACAAC
23371595 A
1 A
23371596 GGGGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.71, C:0.24, G:0.00, T:0.06
Consensus pattern (11 bp):
AACAAAACAAC
Found at i:23372625 original size:43 final size:43
Alignment explanation
Indices: 23372578--23372689 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
23372568 GCCATGTTCA
*
23372578 TTAGCAACGCTTTTATAACAAACGCCGCCAAAGAACATGACTT
1 TTAGCAACGCTTTTATAACAAACGCCACCAAAGAACATGACTT
* * * * * *
23372621 TTAGCGATGCTTTTCTAACAATCGCCACTAAAGAACATGGCTT
1 TTAGCAACGCTTTTATAACAAACGCCACCAAAGAACATGACTT
* *
23372664 TTAACAACGCTTTTTATCACAAACGC
1 TTAGCAACGC-TTTTATAACAAACGC
23372690 TCTTTAGCGG
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
43 43 0.78
44 12 0.22
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
TTAGCAACGCTTTTATAACAAACGCCACCAAAGAACATGACTT
Found at i:23372772 original size:23 final size:24
Alignment explanation
Indices: 23372744--23372799 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
23372734 CATTTAAAAA
* *
23372744 TATTAAATAT-TAAAATTAAACAT
1 TATTAAATATCAAAAATTAAACAG
**
23372767 TATT-AATATCAAAAATTAATTAG
1 TATTAAATATCAAAAATTAAACAG
23372790 TATTAAATAT
1 TATTAAATAT
23372800 ATACTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 5 0.19
23 17 0.63
24 5 0.19
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
TATTAAATATCAAAAATTAAACAG
Found at i:23377136 original size:57 final size:58
Alignment explanation
Indices: 23377036--23377175 Score: 167
Period size: 57 Copynumber: 2.4 Consensus size: 58
23377026 GGCTTGCGGT
* * *
23377036 TGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGTCATGCTGGTTA-TTGTGAAG
1 TGCGGTTACTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGG-TAGTTGTGAAG
* * * ***
23377094 TG-GTTTACTTTTAGTGCCAAAACAAATTTAATTCTTGACATGCTGGTAGTTGTGGCT
1 TGCGGTTACTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTAGTTGTGAAG
*
23377151 TGCGGTTGCTTTTAGTGCCAAAACA
1 TGCGGTTACTTTTAGTGCCAAAACA
23377176 TAGCAACTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
56 2 0.03
57 45 0.65
58 22 0.32
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (58 bp):
TGCGGTTACTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTAGTTGTGAAG
Found at i:23378462 original size:103 final size:103
Alignment explanation
Indices: 23378342--23378533 Score: 357
Period size: 103 Copynumber: 1.9 Consensus size: 103
23378332 TATTGTAGTA
*
23378342 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
1 TTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
*
23378407 ATTTAATAGTAATTATGTTAAAATTATATTTTATAGCG
66 ATTTAATAATAATTATGTTAAAATTATATTTTATAGCG
*
23378445 TTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAAATTAT
1 TTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
23378510 ATTTAATAATAATTATGTTAAAAT
66 ATTTAATAATAATTATGTTAAAAT
23378534 ATGATTAAAT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 86 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (103 bp):
TTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
ATTTAATAATAATTATGTTAAAATTATATTTTATAGCG
Found at i:23378712 original size:39 final size:43
Alignment explanation
Indices: 23378658--23378766 Score: 127
Period size: 39 Copynumber: 2.6 Consensus size: 43
23378648 TTTCCTTATG
* *
23378658 CTATTACACCTCTATTCCATT-C-AACCAAAC-ACAAGAATA-
1 CTATTACGCCTCTATTCCATTACGAACCAAACAAAAAGAATAC
*
23378697 CTATTACGCCTCTATTCCATTAGAGCGAACCAAACAAAAAGATTAC
1 CTATTACGCCTCTATTCCATT--A-CGAACCAAACAAAAAGAATAC
*
23378743 CTATTACGTCTCTATTCCATTACG
1 CTATTACGCCTCTATTCCATTACG
23378767 CCTCTATTCC
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
39 20 0.34
43 3 0.05
44 9 0.15
45 7 0.12
46 20 0.34
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.28
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACGAACCAAACAAAAAGAATAC
Found at i:23378766 original size:16 final size:16
Alignment explanation
Indices: 23378745--23378780 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23378735 AAGATTACCT
*
23378745 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
23378761 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
23378777 ATTA
1 ATTA
23378781 TAGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:23381751 original size:67 final size:70
Alignment explanation
Indices: 23381645--23381778 Score: 220
Period size: 67 Copynumber: 2.0 Consensus size: 70
23381635 TCTAATCACA
*
23381645 AACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATTTAAACCATAAACCCTAA
1 AACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA
23381710 CCCCT
66 CCCCT
* *
23381715 AACCCCTAAACCTTA-TT-A-ATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTAA
1 AACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA
23381777 CC
66 CC
23381779 TAACACCAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
67 43 0.70
68 1 0.02
69 2 0.03
70 15 0.25
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (70 bp):
AACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA
CCCCT
Found at i:23382321 original size:41 final size:41
Alignment explanation
Indices: 23382276--23382375 Score: 182
Period size: 41 Copynumber: 2.4 Consensus size: 41
23382266 AAATGTTTTT
23382276 GCGGCGCTTTTTCAAAAACGACGCTAAAGCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGACGCTAAAGCCCCTAGCATTA
* *
23382317 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGACGCTAAAGCCCCTAGCATTA
23382358 GCGGCGCTTTTTCAAAAA
1 GCGGCGCTTTTTCAAAAA
23382376 TGCAGCTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGACGCTAAAGCCCCTAGCATTA
Found at i:23382384 original size:41 final size:41
Alignment explanation
Indices: 23382276--23382390 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
23382266 AAATGTTTTT
23382276 GCGGCGCTTTTTCAAAAACG-ACGCTAAAGCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGCA-GCTAAAGCCCCTAGCATTA
* *
23382317 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCATTA
1 GCGGCGCTTTTTCAAAAACGCAGCTAAAGCCCCTAGCATTA
* *
23382358 GCGGCGCTTTTTCAAAAATGCAGCTAAATCCCC
1 GCGGCGCTTTTTCAAAAACGCAGCTAAAGCCCC
23382391 GAAAGGTCAG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCAGCTAAAGCCCCTAGCATTA
Found at i:23385348 original size:13 final size:13
Alignment explanation
Indices: 23385330--23385364 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
23385320 CTCAAAATTT
23385330 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
23385343 TCAAAAGTACTTT
1 TCAAAAGCACTTC
23385356 TCAAAAGCA
1 TCAAAAGCA
23385365 ATAAAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:23395251 original size:32 final size:32
Alignment explanation
Indices: 23395210--23395278 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
23395200 GCCACACGGG
*
23395210 CGTGTGGGCCTTACGCGGGTGAATCACAAGGA
1 CGTGTGGGCCTTACACGGGTGAATCACAAGGA
* *
23395242 CGTGTGGGCCTTACACGGGTGAATCACATGGG
1 CGTGTGGGCCTTACACGGGTGAATCACAAGGA
23395274 CGTGT
1 CGTGT
23395279 TGGAATATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.22
Consensus pattern (32 bp):
CGTGTGGGCCTTACACGGGTGAATCACAAGGA
Found at i:23397089 original size:19 final size:19
Alignment explanation
Indices: 23397067--23397158 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
23397057 TTTAGTATTA
23397067 CACCACATAATTAATAGTT
1 CACCACATAATTAATAGTT
*
23397086 CACCACATAA-TAATATTGT
1 CACCACATAATTAATAGT-T
*** * * * *
23397105 CAAGTGCATATTTAGTACTA
1 C-ACCACATAATTAATAGTT
* *
23397125 CACCATATAATTGATAGTT
1 CACCACATAATTAATAGTT
23397144 CACCACATAA-TAATA
1 CACCACATAATTAATA
23397159 TTGTCCAAGT
Statistics
Matches: 51, Mismatches: 19, Indels: 7
0.66 0.25 0.09
Matches are distributed among these distances:
18 10 0.20
19 30 0.59
20 6 0.12
21 5 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (19 bp):
CACCACATAATTAATAGTT
Found at i:23397113 original size:58 final size:59
Alignment explanation
Indices: 23397038--23397188 Score: 236
Period size: 58 Copynumber: 2.6 Consensus size: 59
23397028 TGATAACTAC
*
23397038 AATATTGTCCAAGTGCATATTTAGTATTACACCACATAATTAATAGTTCACCACATAAT
1 AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
* *
23397097 AATATTGT-CAAGTGCATATTTAGTACTACACCATATAATTGATAGTTCACCACATAAT
1 AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
23397155 AATATTGTCCAAGTG-A-ATTACTAGTACTACACCA
1 AATATTGTCCAAGTGCATATT--TAGTACTACACCA
23397189 TATTAAAACA
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
57 3 0.03
58 56 0.65
59 27 0.31
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (59 bp):
AATATTGTCCAAGTGCATATTTAGTACTACACCACATAATTAATAGTTCACCACATAAT
Found at i:23398141 original size:16 final size:16
Alignment explanation
Indices: 23398108--23398171 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
23398098 ATTCTACATT
*
23398108 AATAATTTACATTATC
1 AATAATTTACAATATC
23398124 AATAATTT-CAATATTC
1 AATAATTTACAATA-TC
* * *
23398140 AACAAGTTTAAAACAT-
1 AATAA-TTTACAATATC
23398156 AATAATTT-CAATATC
1 AATAATTTACAATATC
23398171 A
1 A
23398172 GTATCCAACC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
14 4 0.11
15 8 0.22
16 18 0.49
17 4 0.11
18 3 0.08
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (16 bp):
AATAATTTACAATATC
Found at i:23430034 original size:12 final size:10
Alignment explanation
Indices: 23430008--23430067 Score: 75
Period size: 11 Copynumber: 5.5 Consensus size: 10
23429998 AACTAAATTC
23430008 TTTCTCTCAA
1 TTTCTCTCAA
23430018 TTTCTCTCTAA
1 TTTCTCTC-AA
23430029 TATTCTCTCAA
1 T-TTCTCTCAA
23430040 TTTCCTCTCAA
1 TTT-CTCTCAA
23430051 TTTCCTCTCAAA
1 TTT-CTCTC-AA
23430063 TTTCT
1 TTTCT
23430068 ATTTAAAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.22
11 24 0.52
12 12 0.26
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:23431466 original size:25 final size:23
Alignment explanation
Indices: 23431421--23431496 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 23
23431411 AAAATATAAC
*
23431421 AATATATTTACATATACATATATAT
1 AATAAATTTACATAT--ATATATAT
23431446 AATAAATCTGTACATATATATATA-
1 AATAAAT-T-TACATATATATATAT
*
23431470 AA-ATATTTACATATATATATAT
1 AATAAATTTACATATATATATAT
23431492 -ATAAA
1 AATAAA
23431497 AATAATGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 15 0.34
22 3 0.07
23 3 0.07
24 2 0.05
25 13 0.30
26 1 0.02
27 7 0.16
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (23 bp):
AATAAATTTACATATATATATAT
Found at i:23431489 original size:21 final size:22
Alignment explanation
Indices: 23431435--23431492 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
23431425 TATTTACATA
*
23431435 TACATATATATA-ATAAATCTG
1 TACATATATATATATAAATATG
*
23431456 TACATATATATATA-AAATATT
1 TACATATATATATATAAATATG
23431477 TACATATATATATATA
1 TACATATATATATATA
23431493 TAAAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATATATATATATAAATATG
Found at i:23431497 original size:25 final size:25
Alignment explanation
Indices: 23431424--23431497 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
23431414 ATATAACAAT
*
23431424 ATATTTACATATACATATATATAATA
1 ATATTTACATATATATATATATAA-A
* * *
23431450 A-ATCT--GTACATATATATATAAA
1 ATATTTACATATATATATATATAAA
23431472 ATATTTACATATATATATATATAAA
1 ATATTTACATATATATATATATAAA
23431497 A
1 A
23431498 ATAATGATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
22 2 0.05
23 16 0.42
25 19 0.50
26 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (25 bp):
ATATTTACATATATATATATATAAA
Found at i:23433105 original size:44 final size:45
Alignment explanation
Indices: 23433047--23433162 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
23433037 CTAATCCACT
* * *
23433047 CCACTACAACTTTAGGGAGATAGGATTTG-TTTATTTAGTCTACC
1 CCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTACC
* * * * *
23433091 CCACTGCAATTTTAGGGGGATAAGACTTGCTTTCTTGAGTCTGCC
1 CCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTACC
* *
23433136 TCACTACAACTTCAGGGAGATAAGACT
1 CCACTACAACTTTAGGGAGATAAGACT
23433163 GGATGCGATC
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 24 0.41
45 34 0.59
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
CCACTACAACTTTAGGGAGATAAGACTTGCTTTATTGAGTCTACC
Found at i:23433257 original size:44 final size:43
Alignment explanation
Indices: 23433209--23433507 Score: 227
Period size: 44 Copynumber: 6.9 Consensus size: 43
23433199 AATCTGTGGT
* *
23433209 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGC
* *
23433253 TTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATT-TGCC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
* *
23433295 ATCTTCAATCTGC-CTCATTGCAACTTCA-GGAGGATAAGACT-T-GC
1 -T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC
* * * * * *
23433339 TTACTTAGTCTGCTTCACTGCAACTTTAAGGAGATAAGACTA--GA
1 -T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
* * * * * ** *
23433383 TGTGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAAGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGC
* * *
23433426 TTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TGGC
*
23433470 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
23433508 CGCCATTGCA
Statistics
Matches: 202, Mismatches: 39, Indels: 28
0.75 0.14 0.10
Matches are distributed among these distances:
40 20 0.10
41 8 0.04
42 2 0.01
43 12 0.06
44 127 0.63
45 33 0.16
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
Found at i:23433320 original size:45 final size:43
Alignment explanation
Indices: 23433265--23433417 Score: 127
Period size: 45 Copynumber: 3.5 Consensus size: 43
23433255 TAATCTGTTC
*
23433265 CACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAATCTGCCT
1 CACTGCAACTTCA-GGAGATAAGACTTG-CATACTT-AATCTGCCT
* * * *
23433310 CATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTT
1 CACTGCAACTTCAGGA-GATAAGACTTGCATACTTAATCTGCCT
* * * *
23433354 CACTGCAACTTTAAGGAGATAAGACTAG-AT--GTGATCTG-CT
1 CACTGCAAC-TTCAGGAGATAAGACTTGCATACTTAATCTGCCT
*
23433394 CTCTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAG-GAGATAAGA
23433418 TCCAAAGTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
39 4 0.04
40 18 0.20
41 5 0.06
43 1 0.01
44 30 0.34
45 31 0.35
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
CACTGCAACTTCAGGAGATAAGACTTGCATACTTAATCTGCCT
Found at i:23433442 original size:217 final size:218
Alignment explanation
Indices: 23433108--23433513 Score: 625
Period size: 217 Copynumber: 1.9 Consensus size: 218
23433098 AATTTTAGGG
* * *
23433108 GGATAAGACTTGCTTTCTTGAGTCTGCCTCACTACAACTTCAGGGAGATAAGACTGGATGCGATC
1 GGATAAGACTTGCTTACTTGAGTCTGCCTCACTACAACTTCAAGGAGATAAGACTAGATGCGATC
* * * ****
23433173 TGCTCTCTGTAACTTTAGATAGATAAAATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGA
66 TGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGA
* * *
23433238 GATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
131 GATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAA
23433303 TCTGCCTCATTGCAACTTCAGGA
196 TCTGCCTCATTGCAACTTCAGGA
* * * *
23433326 GGATAAGACTTGCTTACTT-AGTCTGCTTCACTGCAACTTTAAGGAGATAAGACTAGATGTGATC
1 GGATAAGACTTGCTTACTTGAGTCTGCCTCACTACAACTTCAAGGAGATAAGACTAGATGCGATC
* *
23433390 TGCTCTCTGCAACTTCAGAGAGATAAGATCCAAAGTTTTAATCCGTTCCACTGCAACTTCAGGGA
66 TGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGA
*
23433455 GATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCAT
131 GATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCAT
23433514 TGCAATTTGA
Statistics
Matches: 168, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
217 150 0.89
218 18 0.11
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (218 bp):
GGATAAGACTTGCTTACTTGAGTCTGCCTCACTACAACTTCAAGGAGATAAGACTAGATGCGATC
TGCTCTCTGCAACTTCAGAGAGATAAAATCCAAAGTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAA
TCTGCCTCATTGCAACTTCAGGA
Found at i:23433942 original size:9 final size:9
Alignment explanation
Indices: 23433928--23434003 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
23433918 TTAGTGATTC
23433928 AATTCGGTT
1 AATTCGGTT
23433937 AATTCGAG-T
1 AATTCG-GTT
*
23433946 AATTCGGGT
1 AATTCGGTT
*
23433955 AATCCGGTT
1 AATTCGGTT
*
23433964 AGTTCGGTT
1 AATTCGGTT
*
23433973 AATTCGGGT
1 AATTCGGTT
* *
23433982 AATTTGATT
1 AATTCGGTT
23433991 AATTCGGTT
1 AATTCGGTT
23434000 AATT
1 AATT
23434004 TTTAACCAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
8 1 0.02
9 52 0.96
10 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:23433964 original size:27 final size:27
Alignment explanation
Indices: 23433932--23434003 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
23433922 TGATTCAATT
23433932 CGGTTAATTCGAG-TAATTCGGGTAATC
1 CGGTTAATTCG-GTTAATTCGGGTAATC
* *
23433959 CGGTTAGTTCGGTTAATTCGGGTAATT
1 CGGTTAATTCGGTTAATTCGGGTAATC
* *
23433986 TGATTAATTCGGTTAATT
1 CGGTTAATTCGGTTAATT
23434004 TTTAACCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.40
Consensus pattern (27 bp):
CGGTTAATTCGGTTAATTCGGGTAATC
Found at i:23434771 original size:88 final size:88
Alignment explanation
Indices: 23434615--23434836 Score: 309
Period size: 88 Copynumber: 2.5 Consensus size: 88
23434605 TGATGTCTTC
* * * *
23434615 GATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTACTCCACTACTGCTC
1 GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTACAGCCC
**
23434680 AGGGAGACAAGGCTGGAGTTTTT
66 AGGGAGACAAGGCTGGAGTCCTT
* * * * *
23434703 GATCTGCTTCACTGCCGGTATAGGAAGGCAAGCTCTGCTATTTTTAACCTACTCCGCTGCAGCCC
1 GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTACAGCCC
* *
23434768 AGGGAGGCAAGGCTGGTGTCCTT
66 AGGGAGACAAGGCTGGAGTCCTT
* *
23434791 GATCTGCTTCACTGCCGGTACAGGAAGGCAAAATCTGCTATCTTCA
1 GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTCA
23434837 TTGATTTGTT
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 116 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
GATCTGCTTCACTGCCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACTACAGCCC
AGGGAGACAAGGCTGGAGTCCTT
Found at i:23438588 original size:12 final size:12
Alignment explanation
Indices: 23438571--23438605 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
23438561 CCCTTGACAT
23438571 TCCATCATTTTG
1 TCCATCATTTTG
23438583 TCCATCATTTTG
1 TCCATCATTTTG
*
23438595 TCTATCATTTT
1 TCCATCATTTT
23438606 TTGCTGCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (12 bp):
TCCATCATTTTG
Found at i:23440641 original size:14 final size:14
Alignment explanation
Indices: 23440622--23440649 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23440612 TTATATAAAC
23440622 AAATAAATCAATAA
1 AAATAAATCAATAA
23440636 AAATAAATCAATAA
1 AAATAAATCAATAA
23440650 CATGCAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAATCAATAA
Found at i:23441071 original size:23 final size:21
Alignment explanation
Indices: 23441041--23441096 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 21
23441031 TTACATATAC
23441041 ATATATATAATAAATCTGTACAT
1 ATATATATAATAAAT-T-TACAT
23441064 ATATATATAAT-AA-TTACAT
1 ATATATATAATAAATTTACAT
23441083 ATATATATAA-AAAT
1 ATATATATAATAAAT
23441097 AATGATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 17 0.55
20 1 0.03
22 2 0.06
23 11 0.35
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (21 bp):
ATATATATAATAAATTTACAT
Found at i:23441090 original size:25 final size:25
Alignment explanation
Indices: 23441035--23441112 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
23441025 ATATATTTAC
* *
23441035 ATATACATATATATAATAAAT-C-T
1 ATATATATATATATAATAATTACAT
* *
23441058 GTACATATATATATAATAATTACAT
1 ATATATATATATATAATAATTACAT
* * *
23441083 ATATATATAAAAATAATGATTACACT
1 ATATATATATATATAATAATTACA-T
23441109 ATAT
1 ATAT
23441113 TAAAAAAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
23 17 0.40
24 1 0.02
25 20 0.47
26 5 0.12
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (25 bp):
ATATATATATATATAATAATTACAT
Found at i:23441119 original size:25 final size:25
Alignment explanation
Indices: 23441070--23441123 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
23441060 ACATATATAT
*
23441070 ATAATAATTACATATATATATAAAA
1 ATAATAATTACATATATATAAAAAA
*
23441095 ATAATGATTACACTATAT-TAAAAAA
1 ATAATAATTACA-TATATATAAAAAA
23441120 ATAA
1 ATAA
23441124 ATATGCGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (25 bp):
ATAATAATTACATATATATAAAAAA
Found at i:23444539 original size:18 final size:18
Alignment explanation
Indices: 23444508--23444551 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23444498 ATGCCAGGTG
* * *
23444508 TGTATTCTAGCCCTTTTA
1 TGTATCCTAACCCTTATA
23444526 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
23444544 TGTTTCCT
1 TGTATCCT
23444552 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:23444838 original size:21 final size:21
Alignment explanation
Indices: 23444792--23444850 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
23444782 CTAACACCGA
* *
23444792 CAACCAG-ATCCCCTACCGGAG
1 CAACCAGAATCCCC-GCCAGAG
*
23444813 GAACCAGAATCCCCGCCAGAG
1 CAACCAGAATCCCCGCCAGAG
* *
23444834 CAACCACAACCCCCGCC
1 CAACCAGAATCCCCGCC
23444851 GAAAGCTGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.31, C:0.47, G:0.17, T:0.05
Consensus pattern (21 bp):
CAACCAGAATCCCCGCCAGAG
Found at i:23445004 original size:34 final size:34
Alignment explanation
Indices: 23444965--23445029 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
23444955 GAATATTTTG
*
23444965 ATATTATTTGATGTAATAAAATAGAAATTTATCT
1 ATATTATTTCATGTAATAAAATAGAAATTTATCT
*
23444999 ATATTATTTCATGTACTAAAATAGAAATTTA
1 ATATTATTTCATGTAATAAAATAGAAATTTA
23445030 CTTATACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (34 bp):
ATATTATTTCATGTAATAAAATAGAAATTTATCT
Found at i:23448441 original size:126 final size:126
Alignment explanation
Indices: 23448208--23448498 Score: 492
Period size: 126 Copynumber: 2.3 Consensus size: 126
23448198 CAAAACATAC
23448208 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
**
23448273 GCTTAAAGCGTTTTTGACACTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
* *
23448334 GCTACTGTAGTAAAAGCGCGTCCATGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
** * *
23448399 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAATTTTTACTCGAAATTATTTTTTCAGTA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
* *
23448460 GCTACTGTAACAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
23448499 AAATTAACAA
Statistics
Matches: 153, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 153 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
Found at i:23448674 original size:95 final size:94
Alignment explanation
Indices: 23448527--23448829 Score: 313
Period size: 96 Copynumber: 3.2 Consensus size: 94
23448517 ATTAACCCTA
* *
23448527 AACCCCAAACCCTAATTTATTTGAGTTTTTAC-TTAAAAACTCTAAACACTAAACCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTT-CTTTAAAAACACTAAACACTAAACCTAATCTAAT
*
23448591 TTTATAAAAATTTATAATTAATTTACTCAAGT
64 TTT-TAAAATTTTATAATTAATTTACTCAAGT
* * * * *
23448623 AACCCTGAACCATAATTTATTTGATTTTTCTTTAAAAACCCTTAACTCTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTCTTTAAAAACACTAAACACTAAA-CCTAATCTAATT
* * **
23448688 TTTAAATTTTTTTTAATTAAACTACTCAAGT
65 TTTAAA-ATTTTATAATTAATTTACTCAAGT
* * * * * *
23448719 AACCCTAAACCCTAATTTAATTAT-TTTTTTCTTAAAAAACAATAAACACGAAACCTAATCCAAA
1 AACCCTAAACCCTAATTT-ATT-TGATTTTTCTTTAAAAACACTAAACACTAAACCTAATCTAAT
* * ** **
23448783 TTTGAAAATTTTATAATTAATTTAATTGACA
64 TTTTAAAATTTTATAATTAATTTACTCAAGT
23448814 AACCCTAAACCCTAAT
1 AACCCTAAACCCTAAT
23448830 CTCTTATTTA
Statistics
Matches: 170, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
94 1 0.01
95 58 0.34
96 85 0.50
97 25 0.15
98 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCTTTAAAAACACTAAACACTAAACCTAATCTAATTT
TTAAAATTTTATAATTAATTTACTCAAGT
Found at i:23448888 original size:28 final size:27
Alignment explanation
Indices: 23448856--23448912 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
23448846 TTTTTCCTAA
23448856 AACCCTAAACTTAA-AACACCAAAACCCT
1 AACCCTAAAC-TAATAAC-CCAAAACCCT
23448884 AACCCTAAACTAATAACCCAAAACCCT
1 AACCCTAAACTAATAACCCAAAACCCT
23448911 AA
1 AA
23448913 TCGCAAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (27 bp):
AACCCTAAACTAATAACCCAAAACCCT
Found at i:23455151 original size:20 final size:21
Alignment explanation
Indices: 23455119--23455157 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
23455109 GAAGCTAGTC
23455119 GGATAGACAAACA-ATGACTG
1 GGATAGACAAACATATGACTG
23455139 GGATAGATC-AACATATGAC
1 GGATAGA-CAAACATATGAC
23455158 ATGAAGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (21 bp):
GGATAGACAAACATATGACTG
Found at i:23457495 original size:21 final size:21
Alignment explanation
Indices: 23457471--23457537 Score: 107
Period size: 21 Copynumber: 3.1 Consensus size: 21
23457461 TAATGATAAA
23457471 TATTTTAATGTAAAATATTAT
1 TATTTTAATGTAAAATATTAT
23457492 TATTTTAATGTAAAATATTAT
1 TATTTTAATGTAAAATATTAT
*
23457513 TATTTTAATAGTATAAACATTAT
1 TATTTTAAT-GTA-AAATATTAT
23457536 TA
1 TA
23457538 AAAATAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
21 30 0.70
22 3 0.07
23 10 0.23
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (21 bp):
TATTTTAATGTAAAATATTAT
Found at i:23465869 original size:6 final size:6
Alignment explanation
Indices: 23465858--23465885 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23465848 GGATCTCTAT
23465858 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
23465886 CCTGATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:23469372 original size:22 final size:21
Alignment explanation
Indices: 23469331--23469376 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
23469321 TTAATTGATA
23469331 ATGTAATTATTTTATATATAT
1 ATGTAATTATTTTATATATAT
* *
23469352 ATGTAAGTTTTTTTATCTATAT
1 ATGTAA-TTATTTTATATATAT
23469374 ATG
1 ATG
23469377 CATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (21 bp):
ATGTAATTATTTTATATATAT
Found at i:23469409 original size:15 final size:15
Alignment explanation
Indices: 23469389--23469439 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
23469379 TATATATTTC
23469389 TATTTTTTTAATGAA
1 TATTTTTTTAATGAA
* *
23469404 TATTTTTCT-AT-ATT
1 TATTTTTTTAATGA-A
*
23469418 TATTTTTTAAATGAA
1 TATTTTTTTAATGAA
23469433 TATTTTT
1 TATTTTT
23469440 ATATTTATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 9 0.32
15 17 0.61
16 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (15 bp):
TATTTTTTTAATGAA
Found at i:23469422 original size:29 final size:27
Alignment explanation
Indices: 23469389--23469447 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 27
23469379 TATATATTTC
*
23469389 TATTTTTTTAATGAATATTTTTCTATATT
1 TATTTTTTAAATGAATA-TTTT-TATATT
23469418 TATTTTTTAAATGAATATTTTTATATT
1 TATTTTTTAAATGAATATTTTTATATT
23469445 TAT
1 TAT
23469448 ACATATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 9 0.31
28 4 0.14
29 16 0.55
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
TATTTTTTAAATGAATATTTTTATATT
Found at i:23481891 original size:87 final size:87
Alignment explanation
Indices: 23481777--23482115 Score: 558
Period size: 87 Copynumber: 3.9 Consensus size: 87
23481767 GATTGCAAGT
*
23481777 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATTTCCCTAAGCAGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
23481842 TGGAGCAGATCGAAGTCCCCAG
66 TGGAGCAGATCGAAGTCCCCAG
* *
23481864 CCTTATCTCTCTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
23481929 TGGAGCAGATCGAAGTCCCCAG
66 TGGAGCAGATCGAAGTCCCCAG
*
23481951 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
*
23482016 TGGAGCATATCGAAGTCCCCAG
66 TGGAGCAGATCGAAGTCCCCAG
* * ***
23482038 CCTTATC-CCC-GAGCA-CAGCGGAGCAGACCGAAGAATTACAGATCTTATCTCCCTAAGCAGTA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAA-AATTACAGATCTTATCTCCCTAAGCAGTA
23482100 GTGGAGCAGATCGAAG
65 GTGGAGCAGATCGAAG
23482116 ATGGCAGATC
Statistics
Matches: 237, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
84 12 0.05
85 48 0.20
86 3 0.01
87 174 0.73
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (87 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGTCCCCAG
Found at i:23482142 original size:44 final size:44
Alignment explanation
Indices: 23481778--23482398 Score: 321
Period size: 44 Copynumber: 14.2 Consensus size: 44
23481768 ATTGCAAGTC
* * * * * *
23481778 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* ** *
23481822 CTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAGAT
* * * * * * * *
23481865 CTTATCTCTCTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
** *
23481909 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAGAT
* * * * * *
23481952 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * ** *
23481996 CTTATCTCCCTAAGCAATAGTGGAGCATATCGAAG-TCCCCAG-C
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TACAGAT
* * * *
23482039 CTTATC-CCC-GAGCA-CAGCGGAGCAGACCGAAGAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-ATTACAGAT
**
23482081 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * **
23482125 CTTATCTCCCTAAGCAGTAGTAGAGCAGATTG-AG--GCCAGTAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAG--AT
* ** * * * *
23482168 CCTATCTCCCTAA--AGTTACAGTGGAGTGGAT-TAAAATAAAAAGAT
1 CTTATCTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGAT-TACAGAT
** *** * ** * * *
23482213 CTTATCTCTTTGAAATTGCAGTAAAGTAGATCG--CATT--AGGT
1 CTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * *
23482254 CTTATCTCCCTGAGCAGCA-TCGGAGCAGACCGAAGAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGT-GGAGCAGATCGAAG-ATTACAGAT
* * * *
23482299 TTTATCTCCCTAAGCAGTAGTGGAGCAGATTGATGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
* * * *
23482343 CTTATCTCCCTAAACAGTAGTGGAGCAAGATTGAAGATGGA-AAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGC-AGATCGAAGAT-TACAGAT
23482388 CTTATCTCCCT
1 CTTATCTCCCT
23482399 GAGGTTACAG
Statistics
Matches: 426, Mismatches: 116, Indels: 69
0.70 0.19 0.11
Matches are distributed among these distances:
39 1 0.00
40 25 0.06
41 25 0.06
42 11 0.03
43 92 0.22
44 178 0.42
45 88 0.21
46 3 0.01
47 2 0.00
48 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTACAGAT
Found at i:23482180 original size:172 final size:173
Alignment explanation
Indices: 23481777--23482157 Score: 455
Period size: 174 Copynumber: 2.2 Consensus size: 173
23481767 GATTGCAAGT
* * * * * * * *
23481777 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATTTCCCTAAGCAGTAG
1 CCTTATCTCCCTAAGCAGCAGTAGAGCAGATTGAAAAGTA-AGATCCTATCTCCCTAAGCAATAG
* * * ***
23481842 TGGAGCAGATCGAAGTCCCCAGCCTTATCTCTCTGAGCAGCAGTAGAGTAGGTTGAAAATTACAG
65 TGGAGCAGATCGAAGTCCCCAGCCTTATCTCTCCGAGCAGCAGCAGAGCAGACCGAAAATTACAG
23481907 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAG
130 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAG
* * * * * *
23481951 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAATAG
1 CCTTATCTCCCTAAGCAGCAGTAGAGCAGATTGAAAAGTA-AGATCCTATCTCCCTAAGCAATAG
* *
23482016 TGGAGCATATCGAAGTCCCCAGCCTTATC-C-CCGAGCA-CAGCGGAGCAGACCGAAGAATTACA
65 TGGAGCAGATCGAAGTCCCCAGCCTTATCTCTCCGAGCAGCAGCAGAGCAGACCGAA-AATTACA
**
23482078 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-GGCAG
129 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAG
* *
23482123 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGA
1 -CCTTATCTCCCTAAGCAGCAGTAGAGCAGATTGA
23482158 GGCCAGTAAT
Statistics
Matches: 186, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
171 11 0.06
172 54 0.29
173 30 0.16
174 91 0.49
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (173 bp):
CCTTATCTCCCTAAGCAGCAGTAGAGCAGATTGAAAAGTAAGATCCTATCTCCCTAAGCAATAGT
GGAGCAGATCGAAGTCCCCAGCCTTATCTCTCCGAGCAGCAGCAGAGCAGACCGAAAATTACAGA
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAG
Found at i:23482390 original size:45 final size:44
Alignment explanation
Indices: 23482300--23482398 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 44
23482290 ATTACAGATT
* * * * *
23482300 TTATCTCCCTAAGCAGTAGTGGAGCAGATTGATGATTGCAGATC
1 TTATCTCCCTAAACAGTAGTGGAGCAGATTGAAGATGGAAAATC
23482344 TTATCTCCCTAAACAGTAGTGGAGCAAGATTGAAGATGGAAAATC
1 TTATCTCCCTAAACAGTAGTGGAGC-AGATTGAAGATGGAAAATC
23482389 TTATCTCCCT
1 TTATCTCCCT
23482399 GAGGTTACAG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 24 0.49
45 25 0.51
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTAAACAGTAGTGGAGCAGATTGAAGATGGAAAATC
Found at i:23482482 original size:44 final size:44
Alignment explanation
Indices: 23482385--23482505 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 44
23482375 GAAGATGGAA
* * *
23482385 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAG
* * * * *
23482429 AATCCTATCTCCTTGAGGTTACTGCGGAGCGGATTAAAACCACG
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAG
* * * * *
23482473 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGAT
23482506 CGCATCTAAC
Statistics
Matches: 60, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
43 7 0.12
44 53 0.88
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAG
Found at i:23484250 original size:20 final size:21
Alignment explanation
Indices: 23484208--23484251 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
23484198 TTAATTGATA
*
23484208 ATGTAATTATTTTATATATAT
1 ATGTAATTATTTTATATACAT
*
23484229 ATGTAATT-TTTTATCTACAT
1 ATGTAATTATTTTATATACAT
23484249 ATG
1 ATG
23484252 CATATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
ATGTAATTATTTTATATACAT
Found at i:23484284 original size:15 final size:15
Alignment explanation
Indices: 23484264--23484314 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
23484254 TATATATTTC
23484264 TATTTTTTTAATGAA
1 TATTTTTTTAATGAA
* *
23484279 TATTTTTCT-AT-ATT
1 TATTTTTTTAATGA-A
*
23484293 TATTTTTTAAATGAA
1 TATTTTTTTAATGAA
23484308 TATTTTT
1 TATTTTT
23484315 ATATTTATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 9 0.32
15 17 0.61
16 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (15 bp):
TATTTTTTTAATGAA
Found at i:23484297 original size:29 final size:27
Alignment explanation
Indices: 23484264--23484322 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 27
23484254 TATATATTTC
*
23484264 TATTTTTTTAATGAATATTTTTCTATATT
1 TATTTTTTAAATGAATA-TTTT-TATATT
23484293 TATTTTTTAAATGAATATTTTTATATT
1 TATTTTTTAAATGAATATTTTTATATT
23484320 TAT
1 TAT
23484323 ACGTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 9 0.31
28 4 0.14
29 16 0.55
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
TATTTTTTAAATGAATATTTTTATATT
Found at i:23484719 original size:15 final size:15
Alignment explanation
Indices: 23484699--23484733 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
23484689 TTTCTATGCC
23484699 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
23484714 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
23484729 ATTGT
1 ATTGT
23484734 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:23490396 original size:50 final size:50
Alignment explanation
Indices: 23490321--23490513 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
23490311 TTTCTTGTAC
* * * * *
23490321 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTAATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTAATCTAGG
* * ** * * *
23490371 TGCCCATGCCATGTCCCGGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTAATCTAGG
* * *
23490421 TGCCAACGCCATGTCCCATACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CT-TC-TAATCT--A-GG
23490477 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
23490514 TCTCTTTACC
Statistics
Matches: 113, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 69 0.61
51 1 0.01
52 2 0.02
53 5 0.04
56 36 0.32
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTAATCTAGG
Found at i:23496172 original size:122 final size:123
Alignment explanation
Indices: 23495958--23496306 Score: 402
Period size: 123 Copynumber: 2.8 Consensus size: 123
23495948 CGTTTCCTTA
* * * * *
23495958 AAAAT-GCCGCAAAAAATAAGT-ACTAGTGGCGCTTTTAGCAAAAATGCCGTAAA-ATTATAAAA
1 AAAATCGCCGCAAAAAATAA-TCATTAGTGGCGTTTTTTGAAAAAATGCCGCAAATA-T-TAAAA
* * *
23496020 CCCAATGGCGTCGTTTGGTGGCCTTTCGGGGGATTTAGTGGAGCATCAGC-GACGTTACACT
63 GCCAACGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTGGAGCATCAGCAG-CGTTACACT
**
23496081 AAAATCGCCGCAAAAAA-AATCATTAGTGGCGTTTTTTGGGAAAATGCCGCAAATATTAAAAGCC
1 AAAATCGCCGCAAAAAATAATCATTAGTGGCGTTTTTTGAAAAAATGCCGCAAATATTAAAAGCC
* * * * * **
23496145 AACGACGTCGTTTGGTGCCCTTTCGGGGGATTTAGTGGAGCATTAGCAGTGTTCCTTT
66 AACGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTGGAGCATCAGCAGCGTTACACT
* * * * * *
23496203 AAAATCGCTGCAAAAAATAACCATTAGTGGAGTTTTTTGAAAAAACGCTGCAAATAATAAAAGCC
1 AAAATCGCCGCAAAAAATAATCATTAGTGGCGTTTTTTGAAAAAATGCCGCAAATATTAAAAGCC
*
23496268 AACGGCGTCGTTTGGTGACCTTTCGGGGGGAATTAGTGG
66 AACGGCGTCGTTTGGTGACCTTTC-GGGGGATTTAGTGG
23496307 CGTTTTTATT
Statistics
Matches: 194, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
122 72 0.37
123 97 0.50
124 25 0.13
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (123 bp):
AAAATCGCCGCAAAAAATAATCATTAGTGGCGTTTTTTGAAAAAATGCCGCAAATATTAAAAGCC
AACGGCGTCGTTTGGTGACCTTTCGGGGGATTTAGTGGAGCATCAGCAGCGTTACACT
Found at i:23496443 original size:41 final size:42
Alignment explanation
Indices: 23496361--23496450 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 42
23496351 TTATAAATAT
* * *
23496361 GCGCCGCTAATGCTCGGGGTTTTTAGTGGCATTTTTTATGAA
1 GCGCCGCTAATGCTAGGGGTTTTTAGCGGCATTTTTGATGAA
* * *
23496403 TCGCCGCTAATTCTAGGGG-TTTTAGCGGCGTTTTTGATGAA
1 GCGCCGCTAATGCTAGGGGTTTTTAGCGGCATTTTTGATGAA
23496444 GCGCCGC
1 GCGCCGC
23496451 AAAAACAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 25 0.61
42 16 0.39
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (42 bp):
GCGCCGCTAATGCTAGGGGTTTTTAGCGGCATTTTTGATGAA
Found at i:23497605 original size:36 final size:37
Alignment explanation
Indices: 23497565--23497636 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
23497555 TATGGATTTA
* * *
23497565 GGGTTTGGGATATAAGGGTTGGAGGTT-AGGGGTTAT
1 GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTAT
*
23497601 GGGTTTAGGATTTAAAGGTTAGAGGTTAAGGGGTTA
1 GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTA
23497637 ATGATTTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 23 0.74
37 8 0.26
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (37 bp):
GGGTTTAGGATATAAAGGTTAGAGGTTAAGGGGTTAT
Found at i:23498522 original size:270 final size:270
Alignment explanation
Indices: 23497990--23498671 Score: 861
Period size: 270 Copynumber: 2.5 Consensus size: 270
23497980 TAGTTAAACT
*** * * * * *
23497990 TTTAGTGGCGTTTTTTTTAAAACACCGCAAATATTGGATGCATTAGTGGCGTTTTTACAAG-AAA
1 TTTAGTGGCGTTTTTAGGAAAACGCCGAAAAT-TTGGAAGCAATAGCGGCGTTTTTAC-AGTAAA
* * * ** * * * *
23498054 CGCCGCAAAAGTGTCTTAAAATTTTGAGTAAACGACGTCGTTTCTCTCCACGATTTTTAACTTAT
64 CGCCGCAAAAGGGTATTAAAGTAATGAGTAAACGACGCCGTTTCTGTACACGATTTTTAACTTAG
* * * **
23498119 AAAAAGTTCAGAATTATTTACTTAAAACATTACCGTTTGGCTTAAAGTACGTTAAGTATTAGTGG
129 AAAAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAGTGG
* * * **
23498184 CGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAGAGTAGCAAAACGACGTCGTTTCTGTTT
194 CGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTT
23498249 ACAACTTTTAATA
259 ACAAC-TTTAATA
*
23498262 TTT-GTGGCGTTTTT-GGCAAAACG-C-AAGAACTTTGGAAGCAATAGCGGCGTTTGTACAGTAA
1 TTTAGTGGCGTTTTTAGG-AAAACGCCGAA-AA-TTTGGAAGCAATAGCGGCGTTTTTACAGTAA
** * *
23498323 ACGCCGCAAAAGGGTATTAAAGTAATGTCTAAACGACACCGTTTCTGTACACGATTTTTAACGTA
63 ACGCCGCAAAAGGGTATTAAAGTAATGAGTAAACGACGCCGTTTCTGTACACGATTTTTAACTTA
* *
23498388 GAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGGGTTAAAGTAAATTAAGTATTAGTG
128 GAAAAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAGTG
* * *
23498453 GCGTTTTTACATAAAACGCCAGAAATAATGCAATTTGAGACTAACAAAACGGCGCCGTTTCCCTT
193 GCGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTT
23498518 TACAACTTTAATA
258 TACAACTTTAATA
* *
23498531 TTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGGAAGCAATAGCAGCGTTTTTACAGTAAACG
1 TTTAGTGGCGTTTTTAGGAAAACGCCGAAAATTTGGAAGCAATAGCGGCGTTTTTACAGTAAACG
* * ** * **
23498596 CCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGCCATTTCTGTGTACGATTTTTAACTTAGAA
66 CCGCAAAAGGGTATTAAAGTAATGAGTAAACGACGCCGTTTCTGTACACGATTTTTAACTTAGAA
23498661 AAATTTTAGAA
131 AAATTTTAGAA
23498672 ATCAAGTATT
Statistics
Matches: 353, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
269 13 0.04
270 313 0.89
271 22 0.06
272 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (270 bp):
TTTAGTGGCGTTTTTAGGAAAACGCCGAAAATTTGGAAGCAATAGCGGCGTTTTTACAGTAAACG
CCGCAAAAGGGTATTAAAGTAATGAGTAAACGACGCCGTTTCTGTACACGATTTTTAACTTAGAA
AAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAGTGGCG
TTTTAACATAAAACGCCAGAAACAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTTAC
AACTTTAATA
Found at i:23498852 original size:233 final size:233
Alignment explanation
Indices: 23498437--23498904 Score: 706
Period size: 233 Copynumber: 2.0 Consensus size: 233
23498427 GGGTTAAAGT
* *
23498437 AAATTAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAATAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAA
*
23498502 CGGCGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGG
66 CGGCGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACCGAAAATGTGG
* * * * **
23498567 AAGCAATAGCAGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGC
131 AAGCAATAGCAGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAGTAATGGCTAAACGACGC
**
23498632 CA-TTTCTGTGTACGATTTTTAACTTAGAAAAATTTTAG
196 CATTTTC-GTAAACGATTTTTAACTTAGAAAAATTTTAG
* *
23498670 AAATCAAGTATTAGTGGCGTTTTTACGTAAAATGCCAGAAAAAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAA
*
23498735 CGGCGCCG-TTCCTCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACCGTAAATGTG
66 CGGCGCCGTTTCC-CTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACCGAAAATGTG
* * * * * * *
23498799 TAAGCAATAGCGGCGTTTGTACCGAAAATGCGGTAAAAGGGTATTAAAGTAATGGCTAAATGACG
130 GAAGCAATAGCAGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAGTAATGGCTAAACGACG
*
23498864 CCGTTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
195 CCATTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
23498903 AA
1 AA
23498905 TTATTTATTT
Statistics
Matches: 211, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
232 4 0.02
233 203 0.96
234 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (233 bp):
AAATCAAGTATTAGTGGCGTTTTTACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAA
CGGCGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACACCGAAAATGTGG
AAGCAATAGCAGCGTTTGTACAGAAAACGCCGCAAAAGGGTATTAAAGTAATGGCTAAACGACGC
CATTTTCGTAAACGATTTTTAACTTAGAAAAATTTTAG
Found at i:23499712 original size:60 final size:60
Alignment explanation
Indices: 23499640--23499763 Score: 214
Period size: 60 Copynumber: 2.1 Consensus size: 60
23499630 GCGAATTTTG
* * *
23499640 TGAATTTTGGTTACAGTGTGTGAGGGATTTAGGTATAAGTTGTTTATTTAGCTGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
23499700 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
23499760 -GAAT
1 TGAAT
23499764 GAATTTTGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (60 bp):
TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
Found at i:23499828 original size:13 final size:13
Alignment explanation
Indices: 23499804--23499844 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
23499794 ATTTTGCGAG
*
23499804 ATTTTCTAAATGA
1 ATTTTCTTAATGA
23499817 ATTTT-TTGAATGA
1 ATTTTCTT-AATGA
23499830 ATTTTCTTAATGA
1 ATTTTCTTAATGA
23499843 AT
1 AT
23499845 ATAGTAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (13 bp):
ATTTTCTTAATGA
Found at i:23501271 original size:20 final size:20
Alignment explanation
Indices: 23501226--23501281 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
23501216 AAATAACTTA
23501226 TTAATATATATTTT-AA-AG
1 TTAATATATATTTTCAATAG
*
23501244 TTAATATATATTTTCAATAT
1 TTAATATATATTTTCAATAG
*
23501264 TTATTATAT-TTTTACAAT
1 TTAATATATATTTT-CAAT
23501282 TTAATTTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 14 0.42
19 6 0.18
20 13 0.39
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATATATATTTTCAATAG
Done.