Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 75 of 290
Found at i:22737496 original size:44 final size:44
Alignment explanation
Indices: 22737445--22738004 Score: 283
Period size: 44 Copynumber: 12.6 Consensus size: 44
22737435 CATAGCATAC
*
22737445 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
** * * * * *
22737489 CTTATCTCTTTGAAGTT-CTAGTGGAGTAGACTAAAGATGACAAAT
1 CTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAA-ATTACAAGT
* * * * ** *
22737534 CTTATCTCCCTGAAGTTGCAGTAGAGTAAATT-ACGACCACTAA-C
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AATTAC-AAGT
* * * * * *
22737578 CTTATCTCTCTGAATTTGTAGTGGAGTAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
* *
22737622 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTA-CAAGT
* * * * * *
22737667 ATTATTTCCCTGAAGTTGCAGTGGAACAGGTTGAAGCTATAAATTATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA---AT-TA-CA-AG-T
* ** * * * * **
22737718 TTTATCTCTTTGAAGTTGCAGTAGAG-AAAATCAAA--ACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
** * ** * *
22737759 CTTATCTAACTGAAATTGCAGTGGAATAGGTTGAAATTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
* * * * **
22737803 CTTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAACTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAATTACAAGT
* * * *** *
22737848 CTTATCTCTCTGAAGTTACAGTAGAGCA-AGTTGAAGCCACAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAATTACAAGT
* ** *
22737892 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
* * * ** *
22737935 CTCATATCCCTGAAGTTGCAGTGGAGTAGACTAAAAACTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAATTACAAGT
* *
22737980 CTTATCTCTCTGAAGTTACAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
22738005 ATGGATCGAA
Statistics
Matches: 378, Mismatches: 115, Indels: 45
0.70 0.21 0.08
Matches are distributed among these distances:
41 19 0.05
42 6 0.02
43 38 0.10
44 153 0.40
45 131 0.35
46 1 0.00
47 2 0.01
49 2 0.01
50 5 0.01
51 21 0.06
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
Found at i:22737555 original size:89 final size:88
Alignment explanation
Indices: 22737445--22737651 Score: 229
Period size: 89 Copynumber: 2.3 Consensus size: 88
22737435 CATAGCATAC
* ** * *
22737445 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGA-AATTAC-AAGTCTTATCTCTTTGAAGTTCT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-ACAACCACTAA-CCTTATCTCTCTGAAGTTCT
22737508 AGTGGAGTAGACTAAAGATGACAAAT
64 AGTGGAGTAGACTAAAG-TGACAAAT
* * * * * *
22737534 CTTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGACCACTAACCTTATCTCTCTGAATTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTACAACCACTAACCTTATCTCTCTGAAGTTCTAG
** * * *
22737599 TGGAGTAGGTTGAAGTTACAAGT
66 TGGAGTAGACTAAAGTGACAAAT
22737622 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
22737652 CTGAAGATAG
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 34 0.35
89 61 0.63
90 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTACAACCACTAACCTTATCTCTCTGAAGTTCTAG
TGGAGTAGACTAAAGTGACAAAT
Found at i:22737609 original size:133 final size:133
Alignment explanation
Indices: 22737443--22737688 Score: 361
Period size: 133 Copynumber: 1.8 Consensus size: 133
22737433 ATCATAGCAT
**
22737443 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCTTTGAAGTT-C
1 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
* *
22737507 TAGTGGAGTAGACTAAAGAT-GACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGAC
66 -AGTGGAGCAGACTAAAGATAG-CAAATATTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGAC
22737571 CACTA
129 CACTA
* * * * *
22737576 ACCTTATCTCTCTGAATTTGTAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGC
1 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
* *
22737641 AGTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTGAAGTTGCAGT
66 AGTGGAGCAGACTAAAGATAGCAAATATTATCTCCCTGAAGTTGCAGT
22737689 GGAACAGGTT
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
133 98 0.98
134 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (133 bp):
ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
AGTGGAGCAGACTAAAGATAGCAAATATTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGACCA
CTA
Found at i:22737872 original size:314 final size:312
Alignment explanation
Indices: 22737297--22737966 Score: 837
Period size: 314 Copynumber: 2.1 Consensus size: 312
22737287 GCAAGATCGA
* * * * *
22737297 TGAATTACAAGTCTTGTCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGTTAGAAAATCTTATTTC
1 TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAATATTATTTC
* **
22737362 CTTGAAGTTGCAGTGGAACAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTTTAGTA
66 CCTGAAGTTGCAGTGGAACAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTGCAGTA
** * * * ** * *
22737427 GAGAGGATCATAGCATACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTT
131 GAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTCTT
* * * * *
22737492 ATCTCTTTGAAGTTCTAGTGGAGTAGACTAAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTA
196 ATCTCCTTAAAGTTCTAGTGGAGCAGACTAAAGATGACAAACCTTATCTCCCTGAAGTTACAGTA
* * * * * * **
22737557 GAGTAAATT-ACGACCACTAA-CCTTATCTCTCTGAATTTGTAGTGGAGTAGGT
261 GAGCAAATTGAAG-CCAC-AAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
*
22737609 TGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATATTATTT
1 TGAA-TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAATATTATTT
* * *
22737674 CCCTGAAGTTGCAGTGGAACAGGTTGAAGCTATAAATTATAGATTTTATCTCTTTGAAGTTGCAG
65 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT-AATTATAGATCTTATCTCTCTGAAGTTGCAG
* *
22737739 TAGAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAATAGGTTGAAATTATAAGTC
129 TAGAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTC
*
22737804 TTATCTCCTTAAAGTTGC-AGTGGAGCAGACTGAAA-ACT-ACAAACCTTATCTCTCTGAAGTTA
194 TTATCTCCTTAAAGTT-CTAGTGGAGCAGACT-AAAGA-TGACAAACCTTATCTCCCTGAAGTTA
*
22737866 CAGTAGAGCAAGTTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
256 CAGTAGAGCAAATTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* ** * * * *
22737923 TAAAACACAAATCTCATATCCCTGAAGTTGCAGTGGAGTAGACT
1 TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
22737967 AAAAACTACA
Statistics
Matches: 306, Mismatches: 45, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
312 4 0.01
313 121 0.40
314 174 0.57
315 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (312 bp):
TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAATATTATTTC
CCTGAAGTTGCAGTGGAACAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTGCAGTA
GAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTCTT
ATCTCCTTAAAGTTCTAGTGGAGCAGACTAAAGATGACAAACCTTATCTCCCTGAAGTTACAGTA
GAGCAAATTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
Found at i:22738003 original size:45 final size:44
Alignment explanation
Indices: 22737799--22738004 Score: 209
Period size: 45 Copynumber: 4.7 Consensus size: 44
22737789 TTGAAATTAT
* *
22737799 AAGTCTTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAACTAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACTAC
** * * * * * * *
22737844 AAACCTTATCTCTCTGAAGTTACAGTAGAGCA-AGTTGAAGCCAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAACTAC
*
22737888 AAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAC-AC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACTAC
* * * *
22737931 AAATCTCATATCCCTGAAGTTGCAGTGGAGTAGACTAAAAACTAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACTAC
* *
22737976 AAGTCTTATCTCTCTGAAGTTACAGTGGA
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGA
22738005 ATGGATCGAA
Statistics
Matches: 129, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
43 33 0.26
44 43 0.33
45 53 0.41
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (44 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACTAC
Found at i:22739288 original size:3 final size:3
Alignment explanation
Indices: 22739277--22739399 Score: 97
Period size: 3 Copynumber: 41.0 Consensus size: 3
22739267 ATTATCAATT
* **
22739277 TTA TGTA TTA TTA CTA TTA TTA TTA CCA TTA TTA TTA CTT- TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * * * *
22739323 TTT TTA TTA CTA TTA TTA TTA CTA TTT TTG TTA TTA TTA TTA TAA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
22739371 TT- GTA TTA TTA CTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22739400 CATTTTTTTG
Statistics
Matches: 91, Mismatches: 25, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
2 3 0.03
3 83 0.91
4 5 0.05
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:22739297 original size:12 final size:12
Alignment explanation
Indices: 22739282--22739399 Score: 113
Period size: 12 Copynumber: 10.2 Consensus size: 12
22739272 CAATTTTATG
22739282 TATTATTACTAT
1 TATTATTACTAT
*
22739294 TATTATTACCAT
1 TATTATTACTAT
22739306 TATTATTAC--T
1 TATTATTACTAT
22739316 T-TTATTA-T-T
1 TATTATTACTAT
22739325 T-TTATTACTAT
1 TATTATTACTAT
22739336 TATTATTACTAT
1 TATTATTACTAT
* * *
22739348 TTTTGTTATTAT
1 TATTATTACTAT
*
22739360 TATTATAACTATT
1 TATTATTACTA-T
22739373 GTATTATTACTAT
1 -TATTATTACTAT
* *
22739386 TATTGTTATTAT
1 TATTATTACTAT
22739398 TA
1 TA
22739400 CATTTTTTTG
Statistics
Matches: 89, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
9 14 0.16
10 3 0.03
11 2 0.02
12 58 0.65
13 2 0.02
14 10 0.11
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:22739576 original size:3 final size:3
Alignment explanation
Indices: 22739555--22739610 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
22739545 CAAACTTTAG
* *
22739555 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ATT ATC ATT ATT AATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
*
22739602 AGT ATT ATT
1 ATT ATT ATT
22739611 TTTAAAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 1 0.02
3 35 0.81
4 7 0.16
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:22739777 original size:18 final size:19
Alignment explanation
Indices: 22739754--22739802 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
22739744 AGTTTTATTA
22739754 TTTTATTATTTACCCTT-T
1 TTTTATTATTTACCCTTAT
*
22739772 TTTTATT-TTTGCCCTTAT
1 TTTTATTATTTACCCTTAT
* *
22739790 TATTGTTATTTAC
1 TTTTATTATTTAC
22739803 ATTATCACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 8 0.32
18 13 0.52
19 4 0.16
ACGTcount: A:0.16, C:0.14, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTATTATTTACCCTTAT
Found at i:22743314 original size:19 final size:20
Alignment explanation
Indices: 22743273--22743316 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
22743263 CAAAAGAAAT
*
22743273 AAAATAATTTTCAAATTTTC
1 AAAATAATTTTCAAATATTC
*
22743293 AAAATAATTTTTAAA-ATTC
1 AAAATAATTTTCAAATATTC
22743312 AAAAT
1 AAAAT
22743317 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATAATTTTCAAATATTC
Found at i:22745138 original size:13 final size:13
Alignment explanation
Indices: 22745120--22745150 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
22745110 ATTCGTCCGG
22745120 ATATTTCCAACAA
1 ATATTTCCAACAA
22745133 ATATTTCCAACAA
1 ATATTTCCAACAA
22745146 ATATT
1 ATATT
22745151 CAAAGAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATTTCCAACAA
Found at i:22754400 original size:18 final size:18
Alignment explanation
Indices: 22754379--22754419 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22754369 AATCAGCAAT
* * *
22754379 CAGTAACGGTAGCATTAA
1 CAGTAACAGTAACAATAA
22754397 CAGTAACAGTAACAATAA
1 CAGTAACAGTAACAATAA
22754415 CAGTA
1 CAGTA
22754420 TTCAACACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAACAATAA
Found at i:22754520 original size:45 final size:45
Alignment explanation
Indices: 22754397--22754508 Score: 190
Period size: 45 Copynumber: 2.5 Consensus size: 45
22754387 GTAGCATTAA
* *
22754397 CAGTAACAGTAACAATAACAGTATTCAACACA-AAAGTGTTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
*
22754441 CTGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
22754486 CAGTAACAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTAACAGTA
22754509 GTTGGCACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 30 0.48
45 33 0.52
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
Found at i:22754761 original size:40 final size:40
Alignment explanation
Indices: 22754708--22754794 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
22754698 AATTCATTAC
* * * *
22754708 TTCAGCAATTTCACAGTTCAATGCAGTA-TACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACT-CAAAACAATA
*
22754748 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
22754788 TTCAGTA
1 TTCAGTA
22754795 TTCCATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
Found at i:22755795 original size:29 final size:31
Alignment explanation
Indices: 22755739--22755796 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
22755729 TTATTCAACA
*
22755739 AATAAAAATCTTATAATATCAATATTTAATT
1 AATAAAAATCTTATAATATCAAAATTTAATT
* *
22755770 AATAAATATCTT-TAAT-TTAAAATTTAA
1 AATAAAAATCTTATAATATCAAAATTTAA
22755797 GTAAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 4 0.17
31 11 0.46
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (31 bp):
AATAAAAATCTTATAATATCAAAATTTAATT
Found at i:22764367 original size:5 final size:5
Alignment explanation
Indices: 22764357--22764388 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
22764347 GGTACCAAGG
22764357 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
22764389 ATAAAATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:22765454 original size:25 final size:25
Alignment explanation
Indices: 22765418--22765470 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
22765408 AGGCAAAACC
*
22765418 ATTATATTGTTTATGTTGTTAAATA
1 ATTATATCGTTTATGTTGTTAAATA
22765443 ATTATATCGTTTATGTTGTTAAATA
1 ATTATATCGTTTATGTTGTTAAATA
22765468 ATT
1 ATT
22765471 TTATACTTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (25 bp):
ATTATATCGTTTATGTTGTTAAATA
Found at i:22767653 original size:14 final size:14
Alignment explanation
Indices: 22767634--22767662 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22767624 AACCCCTAGA
22767634 ATTTTATTTTTATC
1 ATTTTATTTTTATC
22767648 ATTTTATTTTTATC
1 ATTTTATTTTTATC
22767662 A
1 A
22767663 ACAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTTTTATC
Found at i:22772227 original size:18 final size:19
Alignment explanation
Indices: 22772193--22772228 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22772183 TGTGTTATAA
*
22772193 AATAAAGAGAGATAGAAAG
1 AATAAAGAGACATAGAAAG
22772212 AATAAAGA-ACATAGAAA
1 AATAAAGAGACATAGAAA
22772229 ATATGAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.19, T:0.11
Consensus pattern (19 bp):
AATAAAGAGACATAGAAAG
Found at i:22784489 original size:21 final size:21
Alignment explanation
Indices: 22784443--22784491 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
22784433 AATTTTTTCT
*
22784443 TAATTTTAAAAATTAATTTTA
1 TAATTTTAAAAATTAATATTA
22784464 TAATTTTAGAAAA-TAA-ATTA
1 TAATTTTA-AAAATTAATATTA
22784484 TGAATTTT
1 T-AATTTT
22784492 CAGATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
TAATTTTAAAAATTAATATTA
Found at i:22786442 original size:199 final size:200
Alignment explanation
Indices: 22786101--22786495 Score: 675
Period size: 199 Copynumber: 2.0 Consensus size: 200
22786091 GAATAGTCTC
* *
22786101 TTACATTTATTCATATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTGCATGAGTATG
1 TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
* *
22786166 ATCTGAATTGTTATTTTTGTATACGCATATTTGACATATGTTAAATCTGCATCTACATTGGGTTA
66 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTA
*
22786231 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACTGAACTTAGTGGCTAAGCCACAA
131 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
22786296 ATCTG
196 ATCTG
* * *
22786301 TTACATTTATTTAAATAGTTAACATGAAATCTGATAAGTAACTATGACAACCTTACATGAGTAT-
1 TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
*
22786365 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
66 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTA
* * *
22786430 GGATTGTGAAAAATAGGAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCTACAA
131 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
22786495 A
196 A
22786496 CTTATATTTG
Statistics
Matches: 183, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
199 124 0.68
200 59 0.32
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (200 bp):
TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTA
GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
ATCTG
Found at i:22787362 original size:18 final size:20
Alignment explanation
Indices: 22787339--22787382 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
22787329 AAACATTTAG
*
22787339 AAAAATTAT-AA-AAAATCT
1 AAAAATTATAAAGAAAATAT
*
22787357 AAAAATTTTAAAGAAAATAT
1 AAAAATTATAAAGAAAATAT
22787377 AAAAAT
1 AAAAAT
22787383 AAAATTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 12 0.55
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATTATAAAGAAAATAT
Found at i:22788255 original size:90 final size:90
Alignment explanation
Indices: 22788077--22788263 Score: 270
Period size: 90 Copynumber: 2.1 Consensus size: 90
22788067 TTGATGCATT
*
22788077 AAAAAAAATCAGGGGTTTAATTGCTATTTTTGAAAAAGTTTGAAGACCTTTTTAATACATTTTGA
1 AAAAAAAATCAGGGGCTTAATTGCTATTTTTGAAAAAGTTTGAAGACCTTTTTAATACATTTTGA
* *
22788142 AAGTTCAAGTACTCAATTGAGTGCA
66 AAGGTCAAGTACCCAATTGAGTGCA
* * * *
22788167 AAAAAAAATAGAGGGGCTTAATTGCT-TTCTTTGAAAAAGTTTGAAGGCC-TTTTGATGCATTTT
1 AAAAAAAAT-CAGGGGCTTAATTGCTATT-TTTGAAAAAGTTTGAAGACCTTTTTAATACATTTT
*
22788230 TAAAGGTCAAGTACCCAATTGAGTGCA
64 GAAAGGTCAAGTACCCAATTGAGTGCA
22788257 AAAAAAA
1 AAAAAAA
22788264 TGAGCTTAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
90 54 0.62
91 33 0.38
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (90 bp):
AAAAAAAATCAGGGGCTTAATTGCTATTTTTGAAAAAGTTTGAAGACCTTTTTAATACATTTTGA
AAGGTCAAGTACCCAATTGAGTGCA
Found at i:22790425 original size:13 final size:13
Alignment explanation
Indices: 22790404--22790437 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22790394 AAATAAATCC
*
22790404 AAACCAAAAAAAA
1 AAACAAAAAAAAA
*
22790417 AAACAAAAAACAA
1 AAACAAAAAAAAA
22790430 AAACAAAA
1 AAACAAAA
22790438 TAAACAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAAAA
Found at i:22791895 original size:3 final size:3
Alignment explanation
Indices: 22791887--22791930 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
22791877 TTTTATGCAT
* * * *
22791887 TTA TTA TTA TTA TTG TTG TTG TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22791931 CATGTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22793189 original size:13 final size:13
Alignment explanation
Indices: 22793171--22793206 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
22793161 GCCTGGGACA
*
22793171 TGCCCGTGTGGCC
1 TGCCCGTGGGGCC
22793184 TGCCCGTGGGGCC
1 TGCCCGTGGGGCC
*
22793197 AGCCCGTGGG
1 TGCCCGTGGG
22793207 CAAATCTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.03, C:0.36, G:0.44, T:0.17
Consensus pattern (13 bp):
TGCCCGTGGGGCC
Found at i:22795074 original size:14 final size:15
Alignment explanation
Indices: 22795039--22795076 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
22795029 CAATTACATC
22795039 ATATTTTACTATTAA
1 ATATTTTACTATTAA
*
22795054 ATTTTTTACTATTAA
1 ATATTTTACTATTAA
22795069 A-ATTTTAC
1 ATATTTTAC
22795077 CCTATTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTTTACTATTAA
Found at i:22801855 original size:15 final size:15
Alignment explanation
Indices: 22801835--22801864 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22801825 AAGGAAGAAG
22801835 CGGTGGCGATAGTTT
1 CGGTGGCGATAGTTT
22801850 CGGTGGCGATAGTTT
1 CGGTGGCGATAGTTT
22801865 TTAGCAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.33
Consensus pattern (15 bp):
CGGTGGCGATAGTTT
Found at i:22804196 original size:23 final size:24
Alignment explanation
Indices: 22804151--22804205 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
22804141 ATAATTTTAA
*
22804151 TAAATAAAAAAATTATTAAA-TTT
1 TAAATAAAAAAATTATAAAATTTT
*
22804174 TAAATAAAAGAA-TATAAATATTTT
1 TAAATAAAAAAATTATAAA-ATTTT
22804198 TAAA-AAAA
1 TAAATAAAA
22804206 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.18
23 16 0.57
24 7 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAATAAAAAAATTATAAAATTTT
Found at i:22804470 original size:4 final size:4
Alignment explanation
Indices: 22804461--22804485 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22804451 TAATTTATCC
22804461 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
22804486 GTGGGGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:22823546 original size:22 final size:20
Alignment explanation
Indices: 22823476--22823538 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
22823466 AAAAATATAA
*
22823476 ATTTTGAATTTTTTTTATAAAT
1 ATTTTGAA--TTTTTTATAATT
* *
22823498 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTTATAATT
22823518 ATTTTGAATTATTTTATAATT
1 ATTTTGAATT-TTTTATAATT
22823539 TTTGTTGAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 19 0.54
21 8 0.23
22 8 0.23
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
ATTTTGAATTTTTTATAATT
Found at i:22825404 original size:22 final size:20
Alignment explanation
Indices: 22825355--22825412 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
22825345 GGAAATTGGA
*
22825355 GGTCAAGTCTTGAGACCTAG
1 GGTCAAGTCTTGAGACATAG
*
22825375 GGTTAAGTCTTGAGACATAGAG
1 GGTCAAGTCTTGAGACAT--AG
*
22825397 GGTCAAGTCTCGAGAC
1 GGTCAAGTCTTGAGAC
22825413 TTGGTTCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 16 0.50
22 16 0.50
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (20 bp):
GGTCAAGTCTTGAGACATAG
Found at i:22826251 original size:42 final size:42
Alignment explanation
Indices: 22826192--22826272 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
22826182 CTCTAGGGAC
* *
22826192 TGTAACCTTCGAACTAGGGACACACGGCCATGTCTCAGCTCG
1 TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGCTCG
* * *
22826234 TGTAACCTTTAAACTAGGGACACATGGCCGTGTCCCAGC
1 TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGC
22826273 CTATGTCCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (42 bp):
TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGCTCG
Found at i:22828109 original size:29 final size:29
Alignment explanation
Indices: 22828073--22828134 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
22828063 TAAAATTCCG
22828073 CTAA-CTATTGGAATGGTCTAATTACCAT
1 CTAAGCTATTGGAATGGTCTAATTACCAT
22828101 CTAAGCTATTGGAATGGTCTAATTACCAT
1 CTAAGCTATTGGAATGGTCTAATTACCAT
22828130 CTAAG
1 CTAAG
22828135 TCCTCCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (29 bp):
CTAAGCTATTGGAATGGTCTAATTACCAT
Found at i:22828912 original size:57 final size:57
Alignment explanation
Indices: 22828844--22828970 Score: 224
Period size: 57 Copynumber: 2.3 Consensus size: 57
22828834 ATAGGTATAG
*
22828844 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
1 GTTTTGCATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
22828901 GTTTTGCATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
1 GTTTTGCATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
22828958 G---TGCATTGAGAGT
1 GTTTTGCATTGAGAGT
22828971 GTAAACAAGT
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
54 12 0.17
57 57 0.83
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (57 bp):
GTTTTGCATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
Found at i:22836213 original size:28 final size:28
Alignment explanation
Indices: 22836182--22836244 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
22836172 TCCCATATTA
22836182 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
22836210 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
22836238 ATGGGGT
1 ATGGGGT
22836245 TGATAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:22841652 original size:28 final size:28
Alignment explanation
Indices: 22841618--22841677 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
22841608 CATATTAATA
22841618 GGGTATAGAAAAAGTCTCATAACTTATG
1 GGGTATAGAAAAAGTCTCATAACTTATG
* * * *
22841646 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGAAAAAGTCTCATAACTTATG
22841674 GGGT
1 GGGT
22841678 TGATAATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (28 bp):
GGGTATAGAAAAAGTCTCATAACTTATG
Found at i:22863364 original size:16 final size:15
Alignment explanation
Indices: 22863338--22863368 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
22863328 ACGAAACTGC
22863338 TTAAAAAAAGTTAAA
1 TTAAAAAAAGTTAAA
22863353 TTAAACAAAAGTTAAA
1 TTAAA-AAAAGTTAAA
22863369 ACAATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (15 bp):
TTAAAAAAAGTTAAA
Found at i:22865195 original size:20 final size:21
Alignment explanation
Indices: 22865170--22865209 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22865160 CTCTTAAAAC
*
22865170 AGGGC-ACACGCTCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
22865190 AGGGCAACATGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
22865210 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:22865653 original size:43 final size:43
Alignment explanation
Indices: 22865606--22865692 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
22865596 TGGCCGTGTG
* * *
22865606 TCACACACGACCTAAACACACTCCTGTGTGGACAATATAAGGC
1 TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
*
22865649 TCACACACGGCCTAAACACACTCCCGTATAGACAATATAAGGC
1 TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
22865692 T
1 T
22865693 ATCTACCAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (43 bp):
TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
Found at i:22866608 original size:48 final size:48
Alignment explanation
Indices: 22866553--22866857 Score: 248
Period size: 48 Copynumber: 6.5 Consensus size: 48
22866543 TGCTGATACT
*
22866553 ATGTCCCAGACATGGTCTTACACTGACACCTTTATACGTACCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGACACCTATATACGTACCGATGCC
* * *
22866601 ATGTCCCAGACATGGTCTTACATTGACA-C-ATCT-CGTAGCCGAT-TC
1 ATGTCCCAGACATGGTCTTACACTGACACCTATATACGTA-CCGATGCC
* *
22866646 ATGTCCCAGACAT-GTCTTACACTGATTTA-C-ATCT-CG-AGGCCGATG-C
1 ATGTCCCAGACATGGTCTTACACTGA--CACCTATATACGTA--CCGATGCC
* * * * * *
22866692 ATGTCCCAGACAT-GTCTTACACT-AGCTCTCACATATCCCTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACACTGA-CAC-C-TATATACGTACCGATGCC
* * * *
22866741 ATGTCCCACACATGGTCTTACACTGACACATTTATACGTACTGATGCC
1 ATGTCCCAGACATGGTCTTACACTGACACCTATATACGTACCGATGCC
* *
22866789 ATGTCCCAAACATGGTCTTACACTGACA-C-ATCT-CGTAGCCGATG-C
1 ATGTCCCAGACATGGTCTTACACTGACACCTATATACGTA-CCGATGCC
22866834 ATGTCCCAGACA-GGTCTTACACTG
1 ATGTCCCAGACATGGTCTTACACTG
22866858 GCTTACATCT
Statistics
Matches: 213, Mismatches: 29, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
44 23 0.11
45 36 0.17
46 53 0.25
47 1 0.00
48 73 0.34
49 14 0.07
50 12 0.06
51 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGTCCCAGACATGGTCTTACACTGACACCTATATACGTACCGATGCC
Found at i:22866681 original size:46 final size:44
Alignment explanation
Indices: 22866553--22866996 Score: 299
Period size: 46 Copynumber: 9.5 Consensus size: 44
22866543 TGCTGATACT
* *
22866553 ATGTCCCAGACATGGTCTTACACTGACACCTTTATACGTA-CCGATGCC
1 ATGTCCCAGACAT-GTCTTACACTGACA-C-ATCT-CGTAGCCGATG-C
* *
22866601 ATGTCCCAGACATGGTCTTACATTGACACATCTCGTAGCCGATTC
1 ATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCGATGC
*
22866646 ATGTCCCAGACATGTCTTACACTGATTTACATCTCG-AGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTGA--CACATCTCGTA-GCCGATGC
* * * *
22866692 ATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCT-GCCAATGCC
1 ATGTCCCAGACATGTCTTACACT-G---ACACATCT-CGTAGCCGATG-C
* * *
22866741 ATGTCCCACACATGGTCTTACACTGACACATTTATACGTA-CTGATGCC
1 ATGTCCCAGACAT-GTCTTACACTGACACA--TCT-CGTAGCCGATG-C
*
22866789 ATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCGATGC
* * * *
22866834 ATGTCCCAGACAGGTCTTACACTGGCTTACATCTC-AAGGTCGATGC
1 ATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA-GCCGATGC
* * * * *
22866880 ATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATA-CCGATGCC
1 ATGTCCCAGACATGTCTTACACT-G-ACACATCTC-GTAGCCGATG-C
* * * * * *
22866927 ATGTCCCAAACATGGTCTTATACTGGCTC-TCATAGTGTGGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTGACACATC-T--CGTAGCCGATGC
22866974 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
22866997 AGCACACAAA
Statistics
Matches: 325, Mismatches: 42, Indels: 60
0.76 0.10 0.14
Matches are distributed among these distances:
44 23 0.07
45 38 0.12
46 114 0.35
47 30 0.09
48 95 0.29
49 15 0.05
50 10 0.03
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (44 bp):
ATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATGC
Found at i:22866720 original size:188 final size:187
Alignment explanation
Indices: 22866458--22866909 Score: 634
Period size: 188 Copynumber: 2.4 Consensus size: 187
22866448 GATGCCAAGA
* ** * * *
22866458 CCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCTGACGCCATGTCCTAGATATGTTCTTA
1 CCCAGACAT-GTCTTACACTGATTA-C-ATCTCGAGGCCGATG-CATGTCCTAGACATG-TCTTA
* * ** * * *
22866523 CATTAGCTCTCACATATCCGTGCTGATACTATGTCCCAGACATGGTCTTACACTGACACCTTTAT
61 CACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATGGTCTTACACTGACACATTTAT
* * *
22866588 ACGTACCGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCGTAGCCGATTCATGT
126 ACGTACCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGT
*
22866650 CCCAGACATGTCTTACACTGATTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
1 CCCAGACATGTCTTACACTGA-TTACATCTCGAGGCCGATGCATGTCCTAGACATGTCTTACACT
*
22866715 AGCTCTCACATATCCCTGCCAATGCCATGTCCCACACATGGTCTTACACTGACACATTTATACGT
65 AGCTCTCACATATCCCTGCCAATACCATGTCCCACACATGGTCTTACACTGACACATTTATACGT
*
22866780 ACTGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGT
130 ACCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGT
* * * *
22866838 CCCAGACAGGTCTTACACTGGCTTACATCTCAAGGTCGATGCATGTCCTAGACATGTCTTACACT
1 CCCAGACATGTCTTACACT-GATTACATCTCGAGGCCGATGCATGTCCTAGACATGTCTTACACT
22866903 AGCTCTC
65 AGCTCTC
22866910 GTCTCAATAC
Statistics
Matches: 234, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
188 185 0.79
189 14 0.06
190 11 0.05
191 13 0.06
192 11 0.05
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (187 bp):
CCCAGACATGTCTTACACTGATTACATCTCGAGGCCGATGCATGTCCTAGACATGTCTTACACTA
GCTCTCACATATCCCTGCCAATACCATGTCCCACACATGGTCTTACACTGACACATTTATACGTA
CCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGT
Found at i:22869720 original size:27 final size:27
Alignment explanation
Indices: 22869673--22869735 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
22869663 AAATATTCTC
22869673 TAAATTAAT--AATATTAATTTATTGA
1 TAAATTAATAAAATATTAATTTATTGA
*
22869698 TAAATTAATAAAATATTTATTTATTGA
1 TAAATTAATAAAATATTAATTTATTGA
*
22869725 TAAACTAATAA
1 TAAATTAATAA
22869736 TATCGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 9 0.26
27 25 0.74
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATTGA
Found at i:22870185 original size:27 final size:25
Alignment explanation
Indices: 22870131--22870179 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
22870121 ATACAAAACA
22870131 TAATTAA--AAAAAATATAAAAAAT
1 TAATTAATTAAAAAATATAAAAAAT
22870154 TAATTAATTAAAAAATATAAAAAAT
1 TAATTAATTAAAAAATATAAAAAAT
22870179 T
1 T
22870180 CTAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.29
25 17 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
TAATTAATTAAAAAATATAAAAAAT
Found at i:22888810 original size:3 final size:3
Alignment explanation
Indices: 22888802--22888839 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22888792 AGATAACGTG
22888802 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22888840 CAATGACATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22897556 original size:207 final size:207
Alignment explanation
Indices: 22897201--22897590 Score: 699
Period size: 207 Copynumber: 1.9 Consensus size: 207
22897191 AGATATATGA
22897201 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
1 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
* * *
22897266 TTATTCATGTCTGCACCTATAGTTAGACATTGGGTTATTGTTGAACAAATTCTATGTTACTTAAA
66 TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
* * *
22897331 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGGAATAGTCGTTCCAATCTCAAGAGAT
131 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCAATCTCAAGAGAT
22897396 ATAAGATGATAG
196 ATAAGATGATAG
* *
22897408 TTGGGAAATTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCTGTGAGTATTGTCAGC
1 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
*
22897473 TTATTCACGTTTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
66 TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
22897538 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCA
131 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCA
22897591 CCTACAGTTA
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
207 174 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (207 bp):
TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCAATCTCAAGAGAT
ATAAGATGATAG
Found at i:22897628 original size:103 final size:103
Alignment explanation
Indices: 22897486--22897678 Score: 300
Period size: 103 Copynumber: 1.9 Consensus size: 103
22897476 TTCACGTTTG
* * **
22897486 CACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAAAGGAGCTTTAGGA
1 CACCTACAGTTAAACATTGGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGG-
22897551 T-TGGGAATATCATACAACAATCATAGAAATACTCATTC
65 TCTGGGAATATCATACAACAATCATAGAAATACTCATTC
* *
22897589 CACCTACAGTTAAACATTGGGC-AATTGTTGAATAGATTCTATGTTACCCAAAAGGAGCTTTAGG
1 CACCTACAGTTAAACATT-GGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGG
22897653 TCTGGGAATATCATACAACAATCATA
65 TCTGGGAATATCATACAACAATCATA
22897679 TGACTAATCG
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
102 1 0.01
103 78 0.95
104 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (103 bp):
CACCTACAGTTAAACATTGGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGGT
CTGGGAATATCATACAACAATCATAGAAATACTCATTC
Found at i:22901127 original size:9 final size:9
Alignment explanation
Indices: 22901113--22901139 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22901103 TCAACAGCTT
22901113 TGACGACGA
1 TGACGACGA
22901122 TGACGACGA
1 TGACGACGA
22901131 TGACGACGA
1 TGACGACGA
22901140 AAATCCACAC
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:0.33, C:0.22, G:0.33, T:0.11
Consensus pattern (9 bp):
TGACGACGA
Found at i:22903187 original size:47 final size:47
Alignment explanation
Indices: 22903112--22903203 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
22903102 TAAATAAAAC
* *
22903112 AATTAAAGGAGAAAAAAACCATGAAGAAAACTTAACCAAATTCAAAT
1 AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAAAT
*
22903159 AATTAAAGGAGAAAAAAAACACGGAGAAAACTTAACCAAATTCAA
1 AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAA
22903204 CTTCTTCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.60, C:0.13, G:0.12, T:0.15
Consensus pattern (47 bp):
AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAAAT
Found at i:22903752 original size:12 final size:13
Alignment explanation
Indices: 22903727--22903751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22903717 TTATTGAAAA
22903727 AAATAATTTTTTT
1 AAATAATTTTTTT
22903740 AAATAATTTTTT
1 AAATAATTTTTT
22903752 ATTTTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAATAATTTTTTT
Found at i:22906588 original size:21 final size:22
Alignment explanation
Indices: 22906529--22906589 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
22906519 ATTATTACCT
*
22906529 TTAAATTAAATAATAATATTTTTA
1 TTAAATT-AAT-ATAATATTTATA
* *
22906553 TTATATTATTA-AATATTTATA
1 TTAAATTAATATAATATTTATA
22906574 -TAAATTAATATAATAT
1 TTAAATTAATATAATAT
22906590 AATTCATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.26
21 14 0.45
22 1 0.03
23 2 0.06
24 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAATTAATATAATATTTATA
Found at i:22912131 original size:21 final size:21
Alignment explanation
Indices: 22912107--22912158 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
22912097 ATTTTACCTA
* *
22912107 AAATGTAAATTGAATTGAATT
1 AAATATAAATTGAATTAAATT
* *
22912128 AAATATGAATTGTATTAAATT
1 AAATATAAATTGAATTAAATT
*
22912149 -AATTTAAATT
1 AAATATAAATT
22912159 TACTTGTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
AAATATAAATTGAATTAAATT
Found at i:22912138 original size:16 final size:15
Alignment explanation
Indices: 22912112--22912152 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
22912102 ACCTAAAATG
22912112 TAAATTGAATTGAAT
1 TAAATTGAATTGAAT
*
22912127 TAAATATGAATTGTAT
1 TAAAT-TGAATTGAAT
22912143 TAAATT-AATT
1 TAAATTGAATT
22912153 TAAATTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 6 0.25
16 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (15 bp):
TAAATTGAATTGAAT
Found at i:22914435 original size:30 final size:30
Alignment explanation
Indices: 22914399--22914458 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
22914389 AGTCAGTAAT
22914399 TCAACGTTGTGTCCGAGACACAGGGAGGGA
1 TCAACGTTGTGTCCGAGACACAGGGAGGGA
22914429 TCAACGTTGTGTCCGAGACACAGGGAGGGA
1 TCAACGTTGTGTCCGAGACACAGGGAGGGA
22914459 ACAGAGGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.17
Consensus pattern (30 bp):
TCAACGTTGTGTCCGAGACACAGGGAGGGA
Found at i:22915704 original size:22 final size:22
Alignment explanation
Indices: 22915676--22915722 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
22915666 ACTAGGGCCC
22915676 ATTTTTTAATACAAAGTCCTAG
1 ATTTTTTAATACAAAGTCCTAG
22915698 ATTTTTTAATACAAAGTCCTAG
1 ATTTTTTAATACAAAGTCCTAG
22915720 ATT
1 ATT
22915723 CTATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTTTTTAATACAAAGTCCTAG
Found at i:22915766 original size:11 final size:11
Alignment explanation
Indices: 22915750--22915792 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
22915740 TCTCAAATTC
22915750 TATTTTATTAT
1 TATTTTATTAT
*
22915761 TATTTTATCTCTT
1 TATTTTAT-T-AT
22915774 TATTTTATTAT
1 TATTTTATTAT
22915785 TATTTTAT
1 TATTTTAT
22915793 CTCTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 17 0.61
12 2 0.07
13 9 0.32
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:22915778 original size:13 final size:13
Alignment explanation
Indices: 22915760--22915803 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
22915750 TATTTTATTA
22915760 TTATTTTATCTCT
1 TTATTTTATCTCT
*
22915773 TTATTTTAT-T-A
1 TTATTTTATCTCT
22915784 TTATTTTATCTCT
1 TTATTTTATCTCT
*
22915797 TTCTTTT
1 TTATTTT
22915804 CTCTAATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 9 0.35
12 2 0.08
13 15 0.58
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTTTATCTCT
Found at i:22915782 original size:24 final size:24
Alignment explanation
Indices: 22915750--22915803 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
22915740 TCTCAAATTC
22915750 TATTTTATTATTATTTTATCTCTT
1 TATTTTATTATTATTTTATCTCTT
22915774 TATTTTATTATTATTTTATCTCTT
1 TATTTTATTATTATTTTATCTCTT
*
22915798 TCTTTT
1 TATTTT
22915804 CTCTAATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTTATTATTATTTTATCTCTT
Found at i:22924810 original size:11 final size:10
Alignment explanation
Indices: 22924784--22924809 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22924774 TAGAATCCAT
22924784 AAAAAATAGA
1 AAAAAATAGA
22924794 AAAAAATAGA
1 AAAAAATAGA
22924804 AAAAAA
1 AAAAAA
22924810 AACCTCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:22927333 original size:10 final size:10
Alignment explanation
Indices: 22927301--22927334 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22927291 TGAATTTGGT
22927301 TATGTGCATA
1 TATGTGCATA
*
22927311 TACGTGCATA
1 TATGTGCATA
22927321 TATGTGCATA
1 TATGTGCATA
22927331 TATG
1 TATG
22927335 GTTGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (10 bp):
TATGTGCATA
Found at i:22932267 original size:27 final size:27
Alignment explanation
Indices: 22932237--22932288 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
22932227 TACCAGAAAC
*
22932237 AGTAAATGTGGTAAAGCCACCAGTATT
1 AGTAAATGTGGCAAAGCCACCAGTATT
* *
22932264 AGTAATTGTGGCACAGCCACCAGTA
1 AGTAAATGTGGCAAAGCCACCAGTA
22932289 ACAGTGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
AGTAAATGTGGCAAAGCCACCAGTATT
Found at i:22932517 original size:27 final size:27
Alignment explanation
Indices: 22932458--22932548 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 27
22932448 GGGCTACTCG
* * * * *
22932458 TCATTTTGCCATAAAGGGGCATCACAA
1 TCATTTTACCCTACAGGGGCATTACGA
* * *
22932485 TAATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGA
*
22932512 TCATTTTACCCTACAGGGGTATTACGA
1 TCATTTTACCCTACAGGGGCATTACGA
22932539 TCATTTTACC
1 TCATTTTACC
22932549 TATTTTGGAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGA
Found at i:22938585 original size:44 final size:43
Alignment explanation
Indices: 22938521--22938646 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 43
22938511 TGAGTTCTTG
* *
22938521 ATTTGCTTCTTCGA-TCTGTTCCCCATAAACACAGGGATGCCAA
1 ATTTGCTTCTTCAACT-TGTTCCCTATAAACACAGGGATGCCAA
*
22938564 ATTTGCTGTCTTCAACTTGTTCCTTATAAACACAGGGATGCCAA
1 ATTTGCT-TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
* *
22938608 ATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGAT
1 ATTTGCT-TCTTCAACTTGTTCCCTATAAACACAGGGAT
22938647 TCCATGCTGA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 7 0.09
44 66 0.89
45 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (43 bp):
ATTTGCTTCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
Found at i:22939505 original size:205 final size:205
Alignment explanation
Indices: 22938905--22940240 Score: 2126
Period size: 205 Copynumber: 6.5 Consensus size: 205
22938895 GGAACATCCA
* * * * *
22938905 AAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAACGATGCCAAATCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* ** * ** *
22938970 TCTTGCTTCAGT-ATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGA
66 TC-TGCTTCAGTGA-AATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
* * *
22939034 GATGCCAGACTTCGATTTGTTCTCTGACAATATAGAGACCACAAATCATCTTAGATTTGCTTCAT
129 GATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
22939099 CGTAATCACGTG
194 CGTAATCACGTG
* * *
22939111 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* * ** *
22939176 TCTTGCTTCAGT-ATAAACATCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
66 TC-TGCTTCAGTGA-AATCATCTGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
*
22939239 AGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
128 AGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
22939304 TCGTAATCACGTG
193 TCGTAATCACGTG
22939317 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
22939382 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
66 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
* * * *
22939447 TGCCAAACTTCGATTCGTTATCTGACAATACAAAGACGACAAATCATCTTAGATTTGCTTCATCA
131 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
22939512 TAATCACGTG
196 TAATCACGTG
* * *
22939522 AAAGCCAAATCAGCCATGTCTTCGATTTGTTCCTTGTAAACACAAGGCTGCCAAACTATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
22939587 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
66 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
* *
22939652 TGCCAAACTTCGATTCGTTCTCTGACAATACGGAGACGACAAATCATCTTAGATTTGCTTCATCG
131 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
22939717 TAATCACGTG
196 TAATCACGTG
*
22939727 AAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* * * * * *
22939792 TCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTACTATATGTCTACTCTTCATCAAAGTAAAGA
66 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
*
22939857 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCA
131 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
22939922 TAATCACGTG
196 TAATCACGTG
*
22939932 AAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* *
22939997 TCTGCTTTAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
66 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
*
22940062 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGATAAATCATCTTAGATTTGCTTCATCG
131 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
22940127 TAATCACGTG
196 TAATCACGTG
*
22940137 AAAGTCAAATCAGCTATGTCTTCGATTTGCTT-CTTGTAAACACAAGGATGCCAAACCATCTTGG
1 AAAGCCAAATCAGCTATGTCTTCGATTTG-TTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * *
22940201 ATCTGCTTCAGT-ATAA-CATCTGTAGGCCAGATCTGTTATG
65 ATCTGCTTCAGTGA-AATCATCTGAAGGCGAGATCTGCTATG
22940241 CTGCGGCCTA
Statistics
Matches: 1068, Mismatches: 57, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
204 22 0.02
205 782 0.73
206 264 0.25
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
TAATCACGTG
Found at i:22951871 original size:20 final size:20
Alignment explanation
Indices: 22951848--22951912 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
22951838 AAAAATAAAG
22951848 GAAATATAATAACAATAATA
1 GAAATATAATAACAATAATA
* * *
22951868 GAAATACAACAATAATAATA
1 GAAATATAATAACAATAATA
22951888 GTAAAAGATATAATAACTAATAATA
1 G---AA-ATATAATAAC-AATAATA
22951913 TAATAGTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 18 0.53
23 2 0.06
24 7 0.21
25 7 0.21
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.25
Consensus pattern (20 bp):
GAAATATAATAACAATAATA
Found at i:22951884 original size:3 final size:3
Alignment explanation
Indices: 22951878--22952049 Score: 51
Period size: 3 Copynumber: 59.7 Consensus size: 3
22951868 GAAATACAAC
* * *
22951878 AAT AAT AAT AGT AA- AAG ATAT AAT AACT AAT AAT -AT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AA-T AAT AAT AAT AAT AAT AAT
* * * * * * * * *
22951923 AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AA- AAT -GT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
22951967 AAT AAT AAT AAT AAT -AT AAT AAT -CT ATT AAGT TAT AAT GA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * * *
22952010 AAT GAT AAT GAT GAT -AT ATT AAT AAT AAGT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AA
22952050 GTAACAATGA
Statistics
Matches: 122, Mismatches: 32, Indels: 30
0.66 0.17 0.16
Matches are distributed among these distances:
2 19 0.16
3 93 0.76
4 10 0.08
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22952094 original size:16 final size:16
Alignment explanation
Indices: 22952073--22952104 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22952063 ATTATATAAT
22952073 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
22952089 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
22952105 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:22952236 original size:16 final size:15
Alignment explanation
Indices: 22952207--22952249 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
22952197 TATACGTATG
*
22952207 AAAAATAATGATAGT
1 AAAAATAATAATAGT
22952222 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
22952238 AATAATAATAAT
1 AAAAATAATAAT
22952250 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:22952352 original size:3 final size:3
Alignment explanation
Indices: 22952344--22952370 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22952334 ACACTACACT
22952344 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
22952371 TAGAAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22952995 original size:27 final size:25
Alignment explanation
Indices: 22952939--22953018 Score: 117
Period size: 27 Copynumber: 3.2 Consensus size: 25
22952929 TGATTTTTTG
*
22952939 TTCTTGAATCTCAAAAAAAAATCCC
1 TTCTTGAATCTCAAAAAAAAATCTC
*
22952964 CTCTTGAATCTCAAAAAAAAAAATCTC
1 TTCTTGAATCTC--AAAAAAAAATCTC
22952991 TTCTTGAATCT-AAAAAAAAATCTC
1 TTCTTGAATCTCAAAAAAAAATCTC
22953015 TTCT
1 TTCT
22953019 CTCCAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
24 17 0.34
25 11 0.22
27 22 0.44
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (25 bp):
TTCTTGAATCTCAAAAAAAAATCTC
Found at i:22953522 original size:44 final size:43
Alignment explanation
Indices: 22953458--22953583 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 43
22953448 TGAGTTCTTG
* *
22953458 ATTTGCTTCTTCGA-TCTGTTCCCCATAAACACAGGGATGCCAA
1 ATTTGCTTCTTCAACT-TGTTCCCTATAAACACAGGGATGCCAA
*
22953501 ATTTGCTGTCTTCAACTTGTTCCTTATAAACACAGGGATGCCAA
1 ATTTGCT-TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
* *
22953545 ATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGAT
1 ATTTGCT-TCTTCAACTTGTTCCCTATAAACACAGGGAT
22953584 TCCATGCTGA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 7 0.09
44 66 0.89
45 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (43 bp):
ATTTGCTTCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
Found at i:22953698 original size:44 final size:43
Alignment explanation
Indices: 22953474--22953701 Score: 157
Period size: 44 Copynumber: 5.2 Consensus size: 43
22953464 TTCTTCGATC
* *
22953474 TGTTCCCCATAAACACAGGGATGCCAAATTTGCTG-TCTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAA-TT-CTGATCTTCAACT
* *
22953518 TGTTCCTTATAAACACAGGGATGCCAAA-TCTGCTATCTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATTCTG--ATCTTCAACT
* * *
22953562 TGTTCCCTATAAGCACAGGGATTCC--ATGCTGAAATCTTCGA-T
1 TGTTCCCTATAAGCACAGGGATGCCAAATTCTG--ATCTTCAACT
* * * * *
22953604 CTGCTTCACC-GTAAGCACAGGAATGTC-AGTTCTGCTATCTTCGA-T
1 -TG-TTC-CCTATAAGCACAGGGATGCCAAATTCTG--ATCTTCAACT
* *
22953649 CTGTTCCCTATAAGCACAGGGATGCCAAATCTCTGTTTTTCAACT
1 -TGTTCCCTATAAGCACAGGGATGCCAAAT-TCTGATCTTCAACT
22953694 TGTTCCCT
1 TGTTCCCT
22953702 GACAATACGG
Statistics
Matches: 148, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
41 3 0.02
42 3 0.02
43 14 0.09
44 103 0.70
45 21 0.14
46 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (43 bp):
TGTTCCCTATAAGCACAGGGATGCCAAATTCTGATCTTCAACT
Found at i:22954725 original size:205 final size:205
Alignment explanation
Indices: 22953841--22955174 Score: 2195
Period size: 205 Copynumber: 6.5 Consensus size: 205
22953831 GGGAACATCC
* * * *
22953841 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* ** * ** *
22953906 ATCTTGCTTCAGT-ATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
66 ATC-TGCTTCAGTGA-AATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
* *
22953970 AGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACCACAAATCATCTTAGATTTGCTTCA
129 AGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
22954035 TCGTAATCACGT
194 TCGTAATCACGT
* * *
22954047 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * **
22954112 ATCTTGCTTCAGT-ATAAACATCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATTGAAGTG
66 ATC-TGCTTCAGTGA-AATCATCTGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
* *
22954175 GAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGAC-ACAAATCATCTTAGATTTGCTTC
128 AAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTC
22954239 ATCGTAATCACGT
193 ATCGTAATCACGT
22954252 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
22954317 ATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTTAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
*
22954382 ATGCCAAACTTCGATTCGTTCTCTGACAATACA-AGACGACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
22954446 GTAATCACGT
196 GTAATCACGT
*
22954456 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACTATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
22954521 ATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
*
22954586 ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
22954651 GTAATCACGT
196 GTAATCACGT
22954661 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* *
22954726 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCT-CATCAAAGTGAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
*
22954790 ATGCCAAACTTCGA-TTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
*
22954854 ATAATCACGT
196 GTAATCACGT
*
22954864 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* *
22954929 ATCTACTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
22954994 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
22955059 GTAATCACGT
196 GTAATCACGT
*
22955069 GAAAGCCAAATCAGCTATGTCTTCGATTT-TCTCCTTGTAAACACAACGATGCCAAACCATCTTG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGT-TCCTTGTAAACACAAGGATGCCAAACCATCTTG
* *
22955133 GATCTGCTTCAGT-ATAA-CATCT-ATAGGCAAGATCTGTTATGT
65 GATCTGCTTCAGTGA-AATCATCTGA-AGGCGAGATCTGCTATGT
22955175 TGCGGCCTAT
Statistics
Matches: 1084, Mismatches: 34, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
203 176 0.16
204 355 0.33
205 389 0.36
206 164 0.15
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
GTAATCACGT
Found at i:22954871 original size:408 final size:409
Alignment explanation
Indices: 22953841--22955145 Score: 2194
Period size: 408 Copynumber: 3.2 Consensus size: 409
22953831 GGGAACATCC
* * * *
22953841 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * ** *
22953906 ATCTTGCTTCAGT-ATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
66 ATC-TGCTTCAGTGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
* * *
22953970 AGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACCACAAATCATCTTAGATTTGCTTCA
129 AGATGCCAAACTTCGA-TTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGCTTCA
* *
22954035 TCGTAATCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCC
193 TCGTAATCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCC
* *
22954100 AAA-TCATCTTGGATCTTGCTTCAGT-ATAAACATCTGAAGGTC-AGATCTGCTATGTATCTGCT
258 AAACT-ATCTTGGATC-TGCTTCAGTGA-AATCATCTGAAGG-CGAGATCTGCTATGTGTCTGCT
** * *
22954162 CTCCATTGAAGTGGAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGAC-ACAAATCATC
319 CTCCATCAAAGTGAAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATC
22954226 TTAGATTTGCTTCATCGTAATCACGT
384 TTAGATTTGCTTCATCGTAATCACGT
22954252 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* *
22954317 ATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTTAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
22954382 ATGCCAAACTTCGATTCGTTCTCTGACAATAC-AAGACGACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATT-GTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGCTTCATC
22954446 GTAATCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
195 GTAATCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
22954511 ACTATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCAT
260 ACTATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCAT
*
22954576 CAAAGTGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
325 CAAAGTGAAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
22954641 TTGCTTCATCGTAATCACGT
390 TTGCTTCATCGTAATCACGT
22954661 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
22954726 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCT-CATCAAAGTGAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
*
22954790 ATGCCAAACTTCGATTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGCTTCATCA
131 ATGCCAAACTTCGATTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGCTTCATCG
*
22954855 TAATCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAA
196 TAATCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAA
* * *
22954920 CCATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATC
261 CTATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATC
22954985 AAAGTGAAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
326 AAAGTGAAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
22955050 TGCTTCATCGTAATCACGT
391 TGCTTCATCGTAATCACGT
*
22955069 GAAAGCCAAATCAGCTATGTCTTCGATTT-TCTCCTTGTAAACACAACGATGCCAAACCATCTTG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGT-TCCTTGTAAACACAAGGATGCCAAACCATCTTG
22955133 GATCTGCTTCAGT
65 GATCTGCTTCAGT
22955146 ATAACATCTA
Statistics
Matches: 852, Mismatches: 34, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
407 17 0.02
408 432 0.51
409 257 0.30
410 81 0.10
411 65 0.08
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (409 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAACTTCGATTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGCTTCATCG
TAATCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAA
CTATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATC
AAAGTGAAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
TGCTTCATCGTAATCACGT
Found at i:22963107 original size:13 final size:15
Alignment explanation
Indices: 22963077--22963107 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22963067 TTCCAGATTT
22963077 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
22963092 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
22963107 T
1 T
22963108 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:22963193 original size:15 final size:14
Alignment explanation
Indices: 22963151--22963200 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
22963141 ATAATTTTGA
*
22963151 ATGCAAATGATGTG
1 ATGCAAATGATGAG
22963165 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
22963180 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
22963194 ATGCAAA
1 ATGCAAA
22963201 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:22967072 original size:3 final size:3
Alignment explanation
Indices: 22967066--22967265 Score: 56
Period size: 3 Copynumber: 66.3 Consensus size: 3
22967056 AAAATACAAC
* * *
22967066 AAT AAT AAT AGT AA- AAG ATAT AAT AACCT AAT AAT -AT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AA--T AAT AAT AAT AAT AAT AAT
* * * * * * * *
22967112 AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * *
22967156 AGT AAT AAT AAT AAT AAT AAT -CT ATT AAGT TAT AAT GAA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT
* * * * * *
22967201 GAT AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT
* *
22967246 AAT GAT AAAT TAT AAT AAT A
1 AAT AAT -AAT AAT AAT AAT A
22967266 GTGATGAGAA
Statistics
Matches: 142, Mismatches: 38, Indels: 34
0.66 0.18 0.16
Matches are distributed among these distances:
2 15 0.11
3 109 0.77
4 15 0.11
5 3 0.02
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22967072 original size:22 final size:22
Alignment explanation
Indices: 22967021--22967081 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
22967011 ATAAGTAAAT
* *
22967021 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
22967042 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
22967064 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
22967082 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:22967286 original size:16 final size:16
Alignment explanation
Indices: 22967265--22967296 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22967255 TTATAATAAT
22967265 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
22967281 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
22967297 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:22967428 original size:16 final size:15
Alignment explanation
Indices: 22967399--22967441 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
22967389 TATACGTATG
*
22967399 AAAAATAATGATAGT
1 AAAAATAATAATAGT
22967414 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
22967430 AATAATAATAAT
1 AAAAATAATAAT
22967442 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:22967544 original size:3 final size:3
Alignment explanation
Indices: 22967536--22967568 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
22967526 ACACTACCAT
22967536 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22967569 TAGAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22967676 original size:3 final size:3
Alignment explanation
Indices: 22967664--22967694 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
22967654 AAATATACAC
22967664 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22967695 TTAAAATGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:22968221 original size:25 final size:26
Alignment explanation
Indices: 22968164--22968235 Score: 103
Period size: 25 Copynumber: 2.7 Consensus size: 26
22968154 GAATCTCAAA
22968164 AAAAAAGAAAAATCTCCTT-TTGAATCT
1 AAAAAA-AAAAATCT-CTTCTTGAATCT
22968191 CAAAAAAAAAAATCTCTTCTTGAATCT
1 -AAAAAAAAAAATCTCTTCTTGAATCT
22968218 -AAAAAAAAAATCTCTTCT
1 AAAAAAAAAAATCTCTTCT
22968236 CTCCAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 18 0.42
26 3 0.07
27 16 0.37
28 6 0.14
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAAAAAAAAATCTCTTCTTGAATCT
Found at i:22969327 original size:13 final size:13
Alignment explanation
Indices: 22969257--22969333 Score: 75
Period size: 13 Copynumber: 5.9 Consensus size: 13
22969247 AGTTTGACAA
22969257 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
22969270 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
22969283 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
22969296 TGCTTTTGAGAAA-
1 TGCTTTTGA-AAAG
* *
22969309 TTCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
22969322 TGCTTTGGAAAA
1 TGCTTTTGAAAA
22969334 AATTAAGTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
12 2 0.04
13 48 0.91
14 3 0.06
ACGTcount: A:0.30, C:0.08, G:0.29, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:22969552 original size:30 final size:29
Alignment explanation
Indices: 22969500--22969621 Score: 83
Period size: 30 Copynumber: 4.0 Consensus size: 29
22969490 TAACTTATTG
22969500 TTAATATTTTAATATATAATATTAATT-T
1 TTAATATTTTAATATATAATATTAATTAT
22969528 TTAATATTTCTAAGTA-ATTAATATTAATTAT
1 TTAATATTT-TAA-TATA-TAATATTAATTAT
* * *
22969559 TTATTAAATTTAAT-TAGAATATATAAACTATAT
1 TTAAT-ATTTTAATATATAATAT-T-AA-T-TAT
*
22969592 TTAA-ATATTTAA-ATATAATAATTAAATAT
1 TTAATAT-TTTAATATATAAT-ATTAATTAT
22969621 T
1 T
22969622 GGTAATTAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 25
0.70 0.07 0.24
Matches are distributed among these distances:
28 9 0.12
29 13 0.18
30 16 0.22
31 13 0.18
32 15 0.20
33 8 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TTAATATTTTAATATATAATATTAATTAT
Found at i:22970836 original size:20 final size:19
Alignment explanation
Indices: 22970811--22970850 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
22970801 TTATTTAATT
22970811 AATTTAAATTAAATAATTAA
1 AATTTAAATTAAA-AATTAA
22970831 AATTTAAATTAAAAATTAA
1 AATTTAAATTAAAAATTAA
22970850 A
1 A
22970851 TTAATTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTTAAATTAAAAATTAA
Found at i:22970842 original size:12 final size:12
Alignment explanation
Indices: 22970825--22970854 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22970815 TAAATTAAAT
*
22970825 AATTAAAATTTA
1 AATTAAAAATTA
22970837 AATTAAAAATTA
1 AATTAAAAATTA
22970849 AATTAA
1 AATTAA
22970855 TTAGTCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATTAAAAATTA
Found at i:22974600 original size:50 final size:50
Alignment explanation
Indices: 22974520--22974791 Score: 150
Period size: 50 Copynumber: 5.7 Consensus size: 50
22974510 ATAGAGTAAG
* *
22974520 GTGCCGATGCCATGTCCCAGACTTGGTCTTACACAAGTTCTAGCATATTT
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATATTT
* * *
22974570 GTGCTGATGCCATGTCCCAGACATGGTCTT--AC-A-TT-GA-CACATCTC
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATAT-TT
** * *
22974615 GTAG-TCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TATG--T-CTT
1 GT-GCT-GATGCCATGTCCCAGACATGGTCTTACACAAGTTCTA-GCATATTT
* * * ** * *
22974661 GAGGCCGATG-AATGTCCCAGACAT-GTCTTACACTAA-CACT--CGT-TTCA
1 G-TGCTGATGCCATGTCCCAGACATGGTCTTACAC-AAGTTCTAGCATATT-T
* * * *
22974708 ATGCTGATGCCATGTCCCAGACCTGGTCTTACATAAGTTCTAGCATATAT
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATATTT
* *
22974758 GTGCAGATGCCATGTCCCAGACATGGTTTTACAC
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACAC
22974792 TGGCACATCT
Statistics
Matches: 165, Mismatches: 35, Indels: 44
0.68 0.14 0.18
Matches are distributed among these distances:
44 9 0.05
45 19 0.12
46 47 0.28
47 16 0.10
48 14 0.08
50 59 0.36
51 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (50 bp):
GTGCTGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATATTT
Found at i:22974856 original size:142 final size:139
Alignment explanation
Indices: 22974621--22974879 Score: 308
Period size: 142 Copynumber: 1.8 Consensus size: 139
22974611 TCTCGTAGTC
** * *
22974621 GATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTTGAGGCCGATGAATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCACATCTCGTGAGGCCGATGAATGTCCCAGACATG
* * * *
22974686 TCTTACACTAACACTCGTTTCAATGCTGATGCCATGTCCCAGACCTGGTCTTACATAAGTTCTAG
66 TCTTACACTAACACTCGTCTCAAGGCTGATG-CATAT-CCAGACAT-GTCTTACATAAGTTCTAG
22974751 CATATATGTGCA
128 CATATATGTGCA
* * *
22974763 GATGCCATGTCCCAGACATGGTTTTACACTGGCACATCTCGT-A-GCCGATGCATGTTCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTCGTGAGGCCGATGAATGTCCCAGACA
* * * *
22974826 TGTCTTACATTAGC-TTACGTCTCGAGGCTGATGCATATCCAGACATGTCTTACA
64 TGTCTTACACTAACACT-CGTCTCAAGGCTGATGCATATCCAGACATGTCTTACA
22974880 CTAGCACTCG
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
139 8 0.08
140 7 0.07
141 5 0.05
142 47 0.47
143 15 0.15
144 17 0.17
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (139 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACATCTCGTGAGGCCGATGAATGTCCCAGACATG
TCTTACACTAACACTCGTCTCAAGGCTGATGCATATCCAGACATGTCTTACATAAGTTCTAGCAT
ATATGTGCA
Found at i:22975481 original size:46 final size:46
Alignment explanation
Indices: 22975405--22975499 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
22975395 CCCGCCAAGC
*
22975405 TCTTTTAAAAGGGTCTAATTGCCCTGTAAAGACCCCTAAATTTTAT
1 TCTTTTAAAAGGGTCTAATTGCCCTGTAAAGACCCCCAAATTTTAT
* * *
22975451 TCTTTTAAAATGGTCTAATTGTCCTTTAAAGACCCCCAAATTTTAT
1 TCTTTTAAAAGGGTCTAATTGCCCTGTAAAGACCCCCAAATTTTAT
22975497 TCT
1 TCT
22975500 CTAGCTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (46 bp):
TCTTTTAAAAGGGTCTAATTGCCCTGTAAAGACCCCCAAATTTTAT
Found at i:22979934 original size:31 final size:31
Alignment explanation
Indices: 22979899--22979983 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
22979889 TTGTAGTCGA
* *
22979899 AGCTACCACTAT-TCACTGATCAGGTAGCCGG
1 AGCTACCACT-TCTCACTAATCAGGTAGCCAG
22979930 AGCTACCACTTCTCACTAATCAGGTAGCCAG
1 AGCTACCACTTCTCACTAATCAGGTAGCCAG
*
22979961 AGCTACCACTTCTTACTGAATCA
1 AGCTACCACTTCTCACT-AATCA
22979984 AATTACTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 1 0.02
31 43 0.88
32 5 0.10
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (31 bp):
AGCTACCACTTCTCACTAATCAGGTAGCCAG
Found at i:22980123 original size:35 final size:35
Alignment explanation
Indices: 22980077--22980414 Score: 387
Period size: 35 Copynumber: 9.7 Consensus size: 35
22980067 TTTCCTCATT
**
22980077 GAAATACCATACCTATATTTCACAACTCAGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* **
22980112 GAAATGCCATACCTACGTTTCTTAACTCA-TAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
22980145 GATAATACCATACCTACGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
**
22980181 TTAATACCATACCTACGTTTCACAACTCAGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
** *
22980216 TTAATACCATACCTACGTTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
** * * *
22980251 TTAATATCATACCTACGTTTCACAACGCGGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* *
22980285 GATGATACCATACCTATGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
** * *
22980321 TTAATACCATACCTACATTTTACAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
*
22980355 GATGATACCATACCTACGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
** * *
22980391 TTAATAGCATACCTACATTTCACA
1 GAAATACCATACCTACGTTTCACA
22980415 CTTTGCCATG
Statistics
Matches: 260, Mismatches: 36, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
33 3 0.01
34 29 0.11
35 225 0.87
36 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATGG
Found at i:22980249 original size:70 final size:70
Alignment explanation
Indices: 22980079--22980414 Score: 494
Period size: 70 Copynumber: 4.8 Consensus size: 70
22980069 TCCTCATTGA
** ** * **
22980079 AATACCATACCTATATTTCACAACTCAGTATGGGAAATGCCATACCTACGTTTCTTAACTCA-TA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
22980143 TGGAT
66 TGGAT
22980148 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
*
22980213 TGGTT
66 TGGAT
* * * *
22980218 AATACCATACCTACGTTTCACAACTCGGTATGGTTAATATCATACCTACGTTTCACAACGCGGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
22980283 TGGAT
66 TGGAT
* * * *
22980288 GATACCATACCTATGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTTACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
22980353 TGGAT
66 TGGAT
* * *
22980358 GATACCATACCTACGTTTCACAACTCAGTATGGTTAATAGCATACCTACATTTCACA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACA
22980415 CTTTGCCATG
Statistics
Matches: 242, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
69 55 0.23
70 187 0.77
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:22980299 original size:105 final size:104
Alignment explanation
Indices: 22980079--22980414 Score: 474
Period size: 105 Copynumber: 3.2 Consensus size: 104
22980069 TCCTCATTGA
* ** * ** *
22980079 AATACCATACCTATATTTCACAACTCAGTATGGGAAATGCCATACCTACGTTTCTTAACTCATAT
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCGTAT
22980144 GGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
66 GGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
*
22980183 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCGGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTC-GTA
* * * * *
22980248 TGGTTAATATCATACCTACGTTTCACAACGCGGTATGGAT
65 TGGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
* ** * *
22980288 GATACCATACCTATGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTTACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTC-GTA
*
22980353 TGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
65 TGGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
*
22980393 AATAGCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
22980415 CTTTGCCATG
Statistics
Matches: 203, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
104 54 0.27
105 149 0.73
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (104 bp):
AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCGTAT
GGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
Found at i:22985510 original size:187 final size:187
Alignment explanation
Indices: 22985182--22985589 Score: 602
Period size: 187 Copynumber: 2.2 Consensus size: 187
22985172 TGGGGTAAGG
22985182 TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
* * * * *
22985247 CCAGACATGGTCTTACATTGACACATATCGTATCTGATGCATGTCCCATACATGTCTTGCACTGG
66 CCAGACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
* *
22985312 CTTACGTCTCGAGGTCGATGCATGTCCATA-CATGTCTTACACTATCACTCGTTTCAA
131 CTTACGTCTCGAGGCCGATGCATGTCC-TAGCATGTCTTACACTAGCACTCGTTTCAA
* * * * * *
22985369 TGTCGATGCCATATCCTAGACCTGGTCTTACACAAGTTCTAGCATTTATGTGCCGATGCCATGTT
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
* * * *
22985434 CCAGACATGGTCTTACACTGGCACATCTCGTAGCCGATGCATGTCCTAGACATGTGTTACACTGG
66 CCAGACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
* *
22985499 TTTATGTCTCGAGGCCGATGCATGTCCTAGGCATGTCTTACACTAGCACTCGTTTCAA
131 CTTACGTCTCGAGGCCGATGCATGTCCTA-GCATGTCTTACACTAGCACTCGTTTCAA
* *
22985557 TGCCAATGCCATGTCCCAGACATGGTCTTACAC
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACAC
22985590 TGGCTTACAC
Statistics
Matches: 195, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
186 2 0.01
187 139 0.71
188 54 0.28
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (187 bp):
TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
CCAGACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
CTTACGTCTCGAGGCCGATGCATGTCCTAGCATGTCTTACACTAGCACTCGTTTCAA
Found at i:22991170 original size:13 final size:13
Alignment explanation
Indices: 22991145--22991182 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
22991135 AGCTATCACA
*
22991145 TGAATTAAATTAT
1 TGAATTAATTTAT
22991158 T-AAGTTAATTTAT
1 TGAA-TTAATTTAT
22991171 TGAATTAATTTA
1 TGAATTAATTTA
22991183 ATTTGACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (13 bp):
TGAATTAATTTAT
Found at i:22994194 original size:83 final size:83
Alignment explanation
Indices: 22994052--22994217 Score: 262
Period size: 83 Copynumber: 2.0 Consensus size: 83
22994042 AAGGACAATG
* * *
22994052 GTAAGACCAAACCCAACAAAGGAAAGACTGCATTAAAACCTAAAGGAGGAATTTATAAGGATGGA
1 GTAAGACCAAACCCAACAAAAGAAAAACTGCATTAAAACCTAAAGGAGGAATTTATAAGGAAGGA
22994117 AAATGTTTCCATTACGGT
66 AAATGTTTCCATTACGGT
* * *
22994135 GTAAGACCAAACCCAACAAAAGAAAAA-TCGCATTGAAACTTAAAGGAGGAATTTCTAAGGAAGG
1 GTAAGACCAAACCCAACAAAAGAAAAACT-GCATTAAAACCTAAAGGAGGAATTTATAAGGAAGG
22994199 AAAATGTTTCCATTACGGT
65 AAAATGTTTCCATTACGGT
22994218 AAGACCGGAC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
82 1 0.01
83 75 0.99
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (83 bp):
GTAAGACCAAACCCAACAAAAGAAAAACTGCATTAAAACCTAAAGGAGGAATTTATAAGGAAGGA
AAATGTTTCCATTACGGT
Found at i:22995882 original size:40 final size:40
Alignment explanation
Indices: 22995838--22996062 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
22995828 GCTCCTCGTT
*
22995838 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
22995878 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
22995918 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
22995958 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
22995997 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
22996038 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22996063 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 114 0.70
41 15 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22996050 original size:119 final size:120
Alignment explanation
Indices: 22995840--22996062 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
22995830 TCCTCGTTCA
*
22995840 AATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
22995905 TTAGTAACTCGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
22995960 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
22996022 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCATCGGGACTTAACCCGGA
22996063 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 63 0.71
120 23 0.26
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:22998385 original size:19 final size:20
Alignment explanation
Indices: 22998352--22998392 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
22998342 ATTTTAAAAA
*
22998352 TTAAAAACTATTAAAATTAT
1 TTAAAAACTATTAAAAATAT
*
22998372 TTAAAAAGTA-TAAAAATAT
1 TTAAAAACTATTAAAAATAT
22998391 TT
1 TT
22998393 TTTAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAAAAACTATTAAAAATAT
Found at i:23002269 original size:2 final size:2
Alignment explanation
Indices: 23002262--23002292 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23002252 GCAAAATTTA
23002262 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23002293 AACTTTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23010909 original size:18 final size:18
Alignment explanation
Indices: 23010886--23010930 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
23010876 ATTAAAATTT
23010886 TAAAAATAATTCACAACA
1 TAAAAATAATTCACAACA
*
23010904 TAAAAA-ATTTCACAACA
1 TAAAAATAATTCACAACA
*
23010921 T-CAAATAATT
1 TAAAAATAATT
23010931 AGAGGATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATAATTCACAACA
Found at i:23012328 original size:19 final size:19
Alignment explanation
Indices: 23012306--23012353 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
23012296 TAAAATATTT
23012306 ATTATTAATA-ATATTTATA
1 ATTA-TAATATATATTTATA
*
23012325 ATTATAATATATATTTATT
1 ATTATAATATATATTTATA
*
23012344 ATTAAAATAT
1 ATTATAATAT
23012354 TAGTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATAATATATATTTATA
Found at i:23013122 original size:21 final size:21
Alignment explanation
Indices: 23013093--23013152 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
23013083 AGATTAAAAA
23013093 TTAAAAAATATAAAATTTATT
1 TTAAAAAATATAAAATTTATT
*
23013114 TTTAAAAATCAT--AATTT-TT
1 TTAAAAAAT-ATAAAATTTATT
*
23013133 TTAAAAAAAATTAAAATTTA
1 TTAAAAAATA-TAAAATTTA
23013153 ATTAAGTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
18 1 0.03
19 10 0.32
20 5 0.16
21 13 0.42
22 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAAAATATAAAATTTATT
Found at i:23013579 original size:27 final size:27
Alignment explanation
Indices: 23013548--23013620 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
23013538 GGGTATGGTG
*
23013548 CCTATCTGATAGGCAGCACTGGTGACC
1 CCTATCTGATAGGCGGCACTGGTGACC
*
23013575 CCTATCTGATAGGCGGTACTGGTGACC
1 CCTATCTGATAGGCGGCACTGGTGACC
*
23013602 CCTATCTAATAGGCGGCAC
1 CCTATCTGATAGGCGGCAC
23013621 CAATAGCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACTGGTGACC
Found at i:23019433 original size:62 final size:62
Alignment explanation
Indices: 23019135--23019413 Score: 452
Period size: 62 Copynumber: 4.5 Consensus size: 62
23019125 CAGTGTACCT
* *
23019135 AATTTATATTACAAAGTTTATTCCAAGTTTTAATGTTGTAAT-TATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* * *
23019196 AATTTATATTACAAACTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAATAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
*
23019258 AATTTATATTACAAAGTTTGTTCCAAGTTTTAGTATTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* * *
23019320 AATTTATATTATAAAGTTTGTTTCAAGTTTTAATATTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* *
23019382 AAATTATATTACAAAGTTTGTTTCAAGTTTTA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTA
23019414 GTGTTGCAAT
Statistics
Matches: 202, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
61 38 0.19
62 164 0.81
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
Found at i:23020526 original size:14 final size:14
Alignment explanation
Indices: 23020507--23020533 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23020497 CAAATTACAT
23020507 GTTAGAATAGTATC
1 GTTAGAATAGTATC
23020521 GTTAGAATAGTAT
1 GTTAGAATAGTAT
23020534 TATTAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:23020539 original size:14 final size:14
Alignment explanation
Indices: 23020508--23020541 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23020498 AAATTACATG
*
23020508 TTAGAATAGTATCG
1 TTAGAATAGTATCA
*
23020522 TTAGAATAGTATTA
1 TTAGAATAGTATCA
23020536 TTAGAA
1 TTAGAA
23020542 AAAAATGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:23022557 original size:17 final size:16
Alignment explanation
Indices: 23022523--23022615 Score: 53
Period size: 15 Copynumber: 6.3 Consensus size: 16
23022513 TCTATTTTTT
23022523 TTCT-TCTCTTTCTCC
1 TTCTCTCTCTTTCTCC
*
23022538 TTCTCTCTCTATTCTGC
1 TTCTCTCTCT-TTCTCC
23022555 TTCTCT-T-TTT-T--
1 TTCTCTCTCTTTCTCC
* *
23022566 TTCTTTCTTTTTC-CC
1 TTCTCTCTCTTTCTCC
* *
23022581 TTCCCT-TCCCTTC-CC
1 TTCTCTCT-CTTTCTCC
23022596 -TCTCTCTCTTTCTCC
1 TTCTCTCTCTTTCTCC
23022611 TTCTC
1 TTCTC
23022616 CTTCTCCTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 21
0.67 0.09 0.24
Matches are distributed among these distances:
11 5 0.08
12 1 0.02
13 4 0.07
14 11 0.19
15 17 0.29
16 10 0.17
17 11 0.19
ACGTcount: A:0.01, C:0.40, G:0.01, T:0.58
Consensus pattern (16 bp):
TTCTCTCTCTTTCTCC
Found at i:23022609 original size:6 final size:6
Alignment explanation
Indices: 23022579--23022638 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
23022569 TTTCTTTTTC
23022579 CCTTC- CCTTC- CCTTC- CCTCTCT CTCTTTCT CCTTCT CCTTCT CCTTCT
1 CCTTCT CCTTCT CCTTCT CCT-TCT C-C-TTCT CCTTCT CCTTCT CCTTCT
* *
23022627 TCTTCT TCTTCT
1 CCTTCT CCTTCT
23022639 TCTTTTCTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
5 13 0.26
6 29 0.58
7 2 0.04
8 5 0.10
9 1 0.02
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
CCTTCT
Found at i:23022630 original size:3 final size:3
Alignment explanation
Indices: 23022605--23022648 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
23022595 CTCTCTCTCT
* * *
23022605 TTC TCC TTC TCC TTC TCC TTC TTC TTC TTC TTC TTC TT- TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
23022649 AAAAACTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
TTC
Found at i:23035877 original size:38 final size:37
Alignment explanation
Indices: 23035821--23035942 Score: 165
Period size: 38 Copynumber: 3.2 Consensus size: 37
23035811 GTGTACGTAT
* * *
23035821 AAGACCATAGCTGGGCTATGGCATCGTAATTAAAGTGT-
1 AAGACCATAACT-GGCTATGGCATTGTGA-TAAAGTGTA
*
23035859 AAGACCATATCTGCGCTATGGCATTGTGATAAAGTGTA
1 AAGACCATAACTG-GCTATGGCATTGTGATAAAGTGTA
23035897 AAGACCATAACTAGGCTATGGCATTGTGATAAAGTGTA
1 AAGACCATAACT-GGCTATGGCATTGTGATAAAGTGTA
23035935 AAGACCAT
1 AAGACCAT
23035943 GGCAATATAT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
37 9 0.12
38 67 0.87
39 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (37 bp):
AAGACCATAACTGGCTATGGCATTGTGATAAAGTGTA
Found at i:23040369 original size:6 final size:6
Alignment explanation
Indices: 23040348--23040381 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
23040338 AAATAAAGAC
23040348 AATTAA AATTCCAA AATTAA AATTAA AATTAA AA
1 AATTAA AATT--AA AATTAA AATTAA AATTAA AA
23040382 ACTTCTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:23041363 original size:20 final size:20
Alignment explanation
Indices: 23041340--23041377 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23041330 CCAGCTTGAG
23041340 ACATGCCCGTGTAGCCTGGA
1 ACATGCCCGTGTAGCCTGGA
*
23041360 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTAGCCTG
23041378 CCCGTGGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTAGCCTGGA
Found at i:23043495 original size:3 final size:3
Alignment explanation
Indices: 23043487--23043518 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
23043477 ACCATTTGTA
23043487 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23043519 ATAAGTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23043529 original size:8 final size:7
Alignment explanation
Indices: 23043485--23043529 Score: 53
Period size: 6 Copynumber: 6.9 Consensus size: 7
23043475 TCACCATTTG
23043485 TAAATAA
1 TAAATAA
23043492 T-AATAA
1 TAAATAA
23043498 T-AATAA
1 TAAATAA
23043504 T-AATAA
1 TAAATAA
23043510 T-AATAA
1 TAAATAA
23043516 TAAATAA
1 TAAATAA
23043523 GTAAATA
1 -TAAATA
23043530 TCTTTTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 24 0.67
7 6 0.17
8 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (7 bp):
TAAATAA
Found at i:23049239 original size:13 final size:13
Alignment explanation
Indices: 23049221--23049256 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
23049211 GATAATTAGT
23049221 AAATCATACATAC
1 AAATCATACATAC
*
23049234 AAATCATACATAT
1 AAATCATACATAC
23049247 AAATTCATAC
1 AAA-TCATAC
23049257 CAAACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCATACATAC
Found at i:23050860 original size:3 final size:3
Alignment explanation
Indices: 23050852--23050880 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23050842 AATATGACAC
23050852 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23050881 GTAAATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23052892 original size:26 final size:26
Alignment explanation
Indices: 23052818--23052894 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
23052808 CATATACTGA
* * * * *
23052818 TACTGGTAGCTCTGCTACGTTACTGT
1 TACTGGCAGCTATGCTACGATATTAT
* * *
23052844 TATTGGCAGCTTTGCTGCGATATTAT
1 TACTGGCAGCTATGCTACGATATTAT
23052870 TACTGGCAGCTATGCTACGATATTA
1 TACTGGCAGCTATGCTACGATATTA
23052895 GTGTGTTGGC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTATGCTACGATATTAT
Done.