Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 170 of 290
Found at i:58360348 original size:283 final size:283
Alignment explanation
Indices: 58359841--58360401 Score: 919
Period size: 283 Copynumber: 2.0 Consensus size: 283
58359831 ACGTGATTAC
* * * * *
58359841 GATGAAGCAAATCTAAGATGATTTGTGGTCTTTGTATTGTCAGAGAACGAATCGAAGTTTGGTAT
1 GATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCAT
* *
58359906 CTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGAT
66 CTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCACATTCAGATGATTTCACTGAAGCAGAT
* *
58359971 CCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTC
131 CCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATCTGGCTTTC
58360036 ACGTGATTACGATGAAGCAAATCTAAGATGATTTG-GCATC-CTAGTATTGTCAGAGAACAAATC
196 ACGTGATTACGATGAAGCAAATCTAAGATGATTTGTG-ATCTCT-GTATTGTCAGAGAACAAATC
* *
58360099 AAAGTTTGGCATCTTCACTTTTTAT
259 AAAGTCTGGCATCTCCACTTTTTAT
58360124 GATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCAT
1 GATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCAT
*
58360189 CTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACATTCAGATGATTTCACTGAAGCAGAT
66 CTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCACATTCAGATGATTTCACTGAAGCAGAT
* *
58360254 CTAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATCTGGCTTTC
131 CCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATCTGGCTTTC
* * * *
58360319 ACGTGATTACGATGAAGGAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAGAGAACAAGTCGA
196 ACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGATCTCTGTATTGTCAGAGAACAAATCAA
*
58360384 AGTCTGGTATCTCCACTT
261 AGTCTGGCATCTCCACTT
58360402 CAATGGAGAG
Statistics
Matches: 257, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
283 254 0.99
284 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (283 bp):
GATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCAT
CTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCACATTCAGATGATTTCACTGAAGCAGAT
CCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATCTGGCTTTC
ACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGATCTCTGTATTGTCAGAGAACAAATCAA
AGTCTGGCATCTCCACTTTTTAT
Found at i:58360502 original size:44 final size:44
Alignment explanation
Indices: 58360452--58360588 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 44
58360442 ATTTCACTGA
58360452 AGCAGATCCAAGATAATAGATCTGGCATCGCCATTTTGACGGAG
1 AGCAGATCCAAGATAATAGATCTGGCATCGCCATTTTGACGGAG
* ** *** * **** * *
58360496 AGCAGAT---ACATAGCAGATCCAACCTTTAGATGATTTCACTGA-
1 AGCAGATCCAAGATAATAGATCTGGCATCGCCAT--TTTGACGGAG
58360538 AGCAGATCCAAGATAATAGATCTGGCATCGCCATTTTGACGGAG
1 AGCAGATCCAAGATAATAGATCTGGCATCGCCATTTTGACGGAG
58360582 AGCAGAT
1 AGCAGAT
58360589 ACATAGCAGA
Statistics
Matches: 61, Mismatches: 26, Indels: 12
0.62 0.26 0.12
Matches are distributed among these distances:
41 13 0.21
42 7 0.11
43 14 0.23
44 14 0.23
45 13 0.21
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (44 bp):
AGCAGATCCAAGATAATAGATCTGGCATCGCCATTTTGACGGAG
Found at i:58360531 original size:86 final size:86
Alignment explanation
Indices: 58360406--58360637 Score: 455
Period size: 86 Copynumber: 2.7 Consensus size: 86
58360396 CCACTTCAAT
58360406 GGAGAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGAAGCAGATCCAAGATAATAG
1 GGAGAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGAAGCAGATCCAAGATAATAG
58360471 ATCTGGCATCGCCATTTTGAC
66 ATCTGGCATCGCCATTTTGAC
58360492 GGAGAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGAAGCAGATCCAAGATAATAG
1 GGAGAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGAAGCAGATCCAAGATAATAG
58360557 ATCTGGCATCGCCATTTTGAC
66 ATCTGGCATCGCCATTTTGAC
*
58360578 GGAGAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGAAGCAGATCTAAGAT
1 GGAGAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGAAGCAGATCCAAGAT
58360638 GATTCGGCAT
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 145 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (86 bp):
GGAGAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGAAGCAGATCCAAGATAATAG
ATCTGGCATCGCCATTTTGAC
Found at i:58360544 original size:42 final size:42
Alignment explanation
Indices: 58360410--58360630 Score: 108
Period size: 43 Copynumber: 5.2 Consensus size: 42
58360400 TTCAATGGAG
58360410 AGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGA
1 AGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGA
* ** *** * **** * *
58360452 AGCAGATCCAAGATAATAGATCTGGCATCGCCAT--TTTGACGGA
1 AGCAGAT---ACATAGCAGATCCAACCTTTAGATGATTTCACTGA
58360495 GAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGA
1 -AGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGA
* ** *** * **** * *
58360538 AGCAGATCCAAGATAATAGATCTGGCATCGCCAT--TTTGACGGA
1 AGCAGAT---ACATAGCAGATCCAACCTTTAGATGATTTCACTGA
58360581 GAGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGA
1 -AGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGA
58360624 AGCAGAT
1 AGCAGAT
58360631 CTAAGATGAT
Statistics
Matches: 115, Mismatches: 52, Indels: 24
0.60 0.27 0.13
Matches are distributed among these distances:
41 26 0.23
42 21 0.18
43 28 0.24
44 14 0.12
45 26 0.23
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (42 bp):
AGCAGATACATAGCAGATCCAACCTTTAGATGATTTCACTGA
Found at i:58360600 original size:41 final size:41
Alignment explanation
Indices: 58360469--58360600 Score: 95
Period size: 41 Copynumber: 3.1 Consensus size: 41
58360459 CCAAGATAAT
58360469 AGATCTGGCATCGCCATTTTGACGGAGAGCAGATACATAGC
1 AGATCTGGCATCGCCATTTTGACGGAGAGCAGATACATAGC
*** * **** * * * **
58360510 AGATCCAACCTTTAGATGATTTCACTGA-AGCAGATCCAAGATAAT
1 AGATCTGGCATCGCCAT--TTTGACGGAGAGCAGAT---ACATAGC
58360555 AGATCTGGCATCGCCATTTTGACGGAGAGCAGATACATAGC
1 AGATCTGGCATCGCCATTTTGACGGAGAGCAGATACATAGC
58360596 AGATC
1 AGATC
58360601 CAACCTTTAG
Statistics
Matches: 59, Mismatches: 26, Indels: 12
0.61 0.27 0.12
Matches are distributed among these distances:
41 18 0.31
42 7 0.12
43 14 0.24
44 7 0.12
45 13 0.22
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (41 bp):
AGATCTGGCATCGCCATTTTGACGGAGAGCAGATACATAGC
Found at i:58361207 original size:44 final size:44
Alignment explanation
Indices: 58361159--58361284 Score: 148
Period size: 44 Copynumber: 2.9 Consensus size: 44
58361149 TCAGCATGGA
* * * *
58361159 ATCCCTGTGCTTATAGGGAACAAGTTTAATATAGCAGATTTGGC
1 ATCCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGATTTGGC
* * *
58361203 ATCCCTATGTTTATAAGAAACAAGTTGAAGACAGCAGATTTGGC
1 ATCCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGATTTGGC
* *
58361247 ATCCCTGTGTTTATGGGGAAC-AGATCGAAGA-AGCAGAT
1 ATCCCTGTGTTTATAGGGAACAAG-TTGAAGACAGCAGAT
58361285 CAAGAACTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 9 0.13
44 60 0.87
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGATTTGGC
Found at i:58361233 original size:132 final size:131
Alignment explanation
Indices: 58361041--58361277 Score: 305
Period size: 132 Copynumber: 1.8 Consensus size: 131
58361031 CCGTATTGTC
* * * *
58361041 AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTTTGCTTATAAGGAATAGATCGAAGATAGC
1 AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTATGCTTATAAGAAAAAGATCGAAGACAGC
* *
58361106 AGAACTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTT
66 AGAACTGACATCCCTGTGCTTACGGGGAA-CAGATCGAAGATTTCAGCATGGAATCCCTGTGCTT
58361171 AT
130 AT
* * * * *
58361173 AGGGAACAAGTTTAATATAGCAGATTTGGCATCCCTATGTTTATAAGAAACAAG-TTGAAGACAG
1 AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTATGCTTATAAGAAA-AAGATCGAAGACAG
** * * *
58361237 CAGATTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA
65 CAGAACTGACATCCCTGTGCTTACGGGGAACAGATCGAAGA
58361278 AGCAGATCAA
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
131 11 0.12
132 75 0.85
133 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (131 bp):
AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTATGCTTATAAGAAAAAGATCGAAGACAGC
AGAACTGACATCCCTGTGCTTACGGGGAACAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTA
T
Found at i:58361774 original size:27 final size:27
Alignment explanation
Indices: 58361737--58361798 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
58361727 AGAGAAGCGA
58361737 TTTTTTTGAGATTCAAGAAGAGATTTT
1 TTTTTTTGAGATTCAAGAAGAGATTTT
* *
58361764 TTTTTTTGAGATTCAAGAGGGGATTTT
1 TTTTTTTGAGATTCAAGAAGAGATTTT
58361791 TCTTTTTT
1 T-TTTTTT
58361799 TTTTGAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 26 0.81
28 6 0.19
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (27 bp):
TTTTTTTGAGATTCAAGAAGAGATTTT
Found at i:58362276 original size:3 final size:3
Alignment explanation
Indices: 58362268--58362293 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58362258 TGCATTTTAA
58362268 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
58362294 GTGTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:58362397 original size:3 final size:3
Alignment explanation
Indices: 58362389--58362430 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
58362379 TGTATTTCTA
58362389 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
58362431 ATGGTAGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:58362556 original size:16 final size:15
Alignment explanation
Indices: 58362525--58362567 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
58362515 CCTTCATTCC
*
58362525 ATTATTATTATTACT
1 ATTATTATTTTTACT
58362540 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
58362556 ATCATTATTTTT
1 ATTATTATTTTT
58362568 CATACGTATA
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:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:58362692 original size:16 final size:16
Alignment explanation
Indices: 58362671--58362702 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58362661 CTATTGTTAC
58362671 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
58362687 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
58362703 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:58362824 original size:36 final size:35
Alignment explanation
Indices: 58362702--58362843 Score: 103
Period size: 36 Copynumber: 4.0 Consensus size: 35
58362692 TTCTCATCAC
* *
58362702 TATTATTATAATTT-AT-CATTGTTACTTATTATT-T
1 TATTATTAT-ATTTAATATATTATTA-TTATTATTAT
* * * * *
58362736 TACTATTATTATCTAATATATCATCATTATCATTAT
1 TATTATTA-TATTTAATATATTATTATTATTATTAT
* *
58362772 T-TTCATTATAACTTAATAGATTATTATTATTATTAT
1 TATT-ATTAT-ATTTAATATATTATTATTATTATTAT
* *
58362808 TATTATTAGTATTTAATATATTATTTTTACTATTAT
1 TATTATTA-TATTTAATATATTATTATTATTATTAT
58362844 CGTCATATTG
Statistics
Matches: 82, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
34 10 0.12
35 12 0.15
36 57 0.70
37 3 0.04
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (35 bp):
TATTATTATATTTAATATATTATTATTATTATTAT
Found at i:58362919 original size:22 final size:22
Alignment explanation
Indices: 58362889--58362949 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
58362879 TTATTATATC
*
58362889 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
58362911 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
58362933 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
58362950 ATTTACTTAT
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:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:58362923 original size:3 final size:3
Alignment explanation
Indices: 58362702--58362904 Score: 62
Period size: 3 Copynumber: 67.3 Consensus size: 3
58362692 TTCTCATCAC
* * * *
58362702 TAT TAT TAT AATT TAT CAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
58362748 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * * *
58362793 TAT TAT TAT TAT TAT TAT TAT TAG TAT T-T AAT ATAT TAT TTT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
** * * * *
58362838 TAT TAT CGT CA- TAT TGT TAC TAT TAC TAT TA- TAT TAT TAGGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT
* *
58362883 TA- TAT CTTT TAC TAT TAT TAT T
1 TAT TAT -TAT TAT TAT TAT TAT T
58362905 GTTGTATTTT
Statistics
Matches: 143, Mismatches: 40, Indels: 34
0.66 0.18 0.16
Matches are distributed among these distances:
2 13 0.09
3 112 0.78
4 15 0.10
5 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:58370182 original size:50 final size:50
Alignment explanation
Indices: 58370120--58370219 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
58370110 AGCTCCAAAG
58370120 CCCAAACCCTTATGAAAAACTTATCTGTCTTCGAAAGAGCTCTAATCGGT
1 CCCAAACCCTTATGAAAAACTTATCTGTCTTCGAAAGAGCTCTAATCGGT
*
58370170 CCCAAATCCTTATGAAAAACTTATCTGTCTTCGAAAGAGCTCTAATCGGT
1 CCCAAACCCTTATGAAAAACTTATCTGTCTTCGAAAGAGCTCTAATCGGT
58370220 GCAGGTGGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (50 bp):
CCCAAACCCTTATGAAAAACTTATCTGTCTTCGAAAGAGCTCTAATCGGT
Found at i:58373363 original size:19 final size:21
Alignment explanation
Indices: 58373325--58373367 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
58373315 AAGCAATAAG
58373325 ATATATTTAATTGAAGAAAAA
1 ATATATTTAATTGAAGAAAAA
*
58373346 ATATA-TTATTTGAA-AAAAA
1 ATATATTTAATTGAAGAAAAA
58373365 ATA
1 ATA
58373368 AAAAAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 8 0.38
21 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
ATATATTTAATTGAAGAAAAA
Found at i:58373364 original size:20 final size:21
Alignment explanation
Indices: 58373325--58373365 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
58373315 AAGCAATAAG
*
58373325 ATATATTTAATTGAAGAAAAA
1 ATATATTTAATTGAAAAAAAA
*
58373346 ATATA-TTATTTGAAAAAAAA
1 ATATATTTAATTGAAAAAAAA
58373366 TAAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATTTAATTGAAAAAAAA
Found at i:58373799 original size:35 final size:35
Alignment explanation
Indices: 58373749--58373818 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
58373739 ACATTCATTG
*
58373749 CCGGAGTAACTATGAATACAATTCCAATCAATCTA
1 CCGGAGTAACCATGAATACAATTCCAATCAATCTA
58373784 CCGGAGTAACCATGAATACAATTCCAATCAATCTA
1 CCGGAGTAACCATGAATACAATTCCAATCAATCTA
58373819 ACATATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.24
Consensus pattern (35 bp):
CCGGAGTAACCATGAATACAATTCCAATCAATCTA
Found at i:58378692 original size:47 final size:47
Alignment explanation
Indices: 58378641--58378783 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
58378631 ATTTAGGATT
*
58378641 CAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
* *
58378688 CAATGTGATGAATGTGAACATGCATATATGTGATAACGTCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
*
58378735 CAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGC
1 CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
58378782 CA
1 CA
58378784 CGATAGTATG
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.25
Consensus pattern (47 bp):
CAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
Found at i:58379030 original size:47 final size:47
Alignment explanation
Indices: 58378933--58379037 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 47
58378923 ATTTTGATTT
* *
58378933 AATGGCCAATGTGATGAATGTGAACATGCATATATGTGACAAGGCAG
1 AATGGCCAATGTGATGAACGTGAACATGCATATATGTGACAAAGCAG
* * ** *
58378980 AATGGCCAATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCG
1 AATGGCCAATGTGATGAACGT-GAACATGCATATATGTGACAAAGCAG
*
58379027 AATGGCTAATG
1 AATGGCCAATG
58379038 CGAAATGCGT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 46 0.94
48 3 0.06
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (47 bp):
AATGGCCAATGTGATGAACGTGAACATGCATATATGTGACAAAGCAG
Found at i:58379031 original size:298 final size:297
Alignment explanation
Indices: 58378487--58379037 Score: 953
Period size: 298 Copynumber: 1.8 Consensus size: 297
58378477 AATATGAAAT
58378487 GATAGTATGGCTTGAAATTGAATTATTCATCGGAAAATGATAGATGTAGATTCAGCCAAGACAAA
1 GATAGTATGGCTTGAAATTGAATTATTCATCGGAAAATGATAGATGTAGATTCAGCCAAGACAAA
58378552 GTGTATACATGAAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGA
66 GTGTATACATGAAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGA
* * *
58378617 AAATTTATATTTTGATTTAGGATTCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCG
131 AAATTTATATTTTGATTTAGGA-CCAATGTGATGAATGTGAACATGCATATATGAGACAAGGCAG
* * *
58378682 AATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAACGTCGAATGGCCAATGTGATGAA
195 AATGGCCAATGTGATGAACGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAA
58378747 TGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAC
260 TGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAC
58378785 GATAGTATGGCTTGAAATTGAATTATTCATCGGAAAATGATAGATGTAGATTCAGCCAAGACAAA
1 GATAGTATGGCTTGAAATTGAATTATTCATCGGAAAATGATAGATGTAGATTCAGCCAAGACAAA
58378850 GTGTATACATGAAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGA
66 GTGTATACATGAAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGA
*
58378915 AAATTTATATTTTGATTTAATGG-CCAATGTGATGAATGTGAACATGCATATATGTGACAAGGCA
131 AAATTTATATTTTGATTT-A-GGACCAATGTGATGAATGTGAACATGCATATATGAGACAAGGCA
* * * *
58378979 GAATGGCCAATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTAATG
194 GAATGGCCAATGTGATGAACGT-GAACATGCATATATGTGATAAAGCCGAATGGCCAATG
58379038 CGAAATGCGT
Statistics
Matches: 239, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
298 233 0.97
299 4 0.02
300 2 0.01
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (297 bp):
GATAGTATGGCTTGAAATTGAATTATTCATCGGAAAATGATAGATGTAGATTCAGCCAAGACAAA
GTGTATACATGAAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGA
AAATTTATATTTTGATTTAGGACCAATGTGATGAATGTGAACATGCATATATGAGACAAGGCAGA
ATGGCCAATGTGATGAACGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAAT
GTGAACATGCATATGTGTGATAAGGCCGAATGGCCAC
Found at i:58379067 original size:46 final size:46
Alignment explanation
Indices: 58379011--58379147 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
58379001 GGAAGTGTAT
* *
58379011 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGCGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
58379057 ATATGAGGTAAAACCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * * *
58379103 ACATGCGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
58379148 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.11, G:0.31, T:0.23
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:58387346 original size:16 final size:16
Alignment explanation
Indices: 58387327--58387376 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
58387317 TAGGATAGGA
58387327 GGGGAGTAAAAGTTTT
1 GGGGAGTAAAAGTTTT
**
58387343 GGGG-G-AAAAG-TGA
1 GGGGAGTAAAAGTTTT
58387356 GGAGGAGTAAAAGTTTT
1 GG-GGAGTAAAAGTTTT
58387373 GGGG
1 GGGG
58387377 GAAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 2 0.08
16 11 0.42
17 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.22
Consensus pattern (16 bp):
GGGGAGTAAAAGTTTT
Found at i:58387365 original size:30 final size:29
Alignment explanation
Indices: 58387325--58387381 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 29
58387315 ATTAGGATAG
58387325 GAGGGGAGTAAAAGTTTTGGGGGAAAAGT
1 GAGGGGAGTAAAAGTTTTGGGGGAAAAGT
58387354 GAGGAGGAGTAAAAGTTTTGGGGGAAAA
1 GAGG-GGAGTAAAAGTTTTGGGGGAAAA
58387382 ATAAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (29 bp):
GAGGGGAGTAAAAGTTTTGGGGGAAAAGT
Found at i:58390682 original size:47 final size:47
Alignment explanation
Indices: 58390628--58390980 Score: 550
Period size: 47 Copynumber: 7.5 Consensus size: 47
58390618 TATTTGAATA
58390628 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58390675 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
58390722 TATAT--ATGTG-ATAAGGCATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTAT-A--TATGTGATAAGGCCTAATGGCCGATGTGATG
58390769 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58390816 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58390863 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
58390910 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58390957 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
58390981 GAGTCCCGAA
Statistics
Matches: 283, Mismatches: 17, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
44 2 0.01
45 5 0.02
47 269 0.95
49 5 0.02
50 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58397880 original size:25 final size:24
Alignment explanation
Indices: 58397852--58397914 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
58397842 TGCTCATACA
*
58397852 AGCTGTGAATCAGTATGCTCACTTG
1 AGCTGT-AATCAGTATGCTCACATG
* *
58397877 AGCTGTAGATCGGTATGCTCTCATG
1 AGCTGTA-ATCAGTATGCTCACATG
*
58397902 AGCTATAAATCAG
1 AGCTGT-AATCAG
58397915 CTTGCTCTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (24 bp):
AGCTGTAATCAGTATGCTCACATG
Found at i:58409261 original size:20 final size:20
Alignment explanation
Indices: 58409236--58409275 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58409226 TATTATAGAT
58409236 CATGAAAAATGAAGTTTGAG
1 CATGAAAAATGAAGTTTGAG
58409256 CATGAAAAATGAAGTTTGAG
1 CATGAAAAATGAAGTTTGAG
58409276 TTTAGACCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (20 bp):
CATGAAAAATGAAGTTTGAG
Found at i:58429019 original size:28 final size:27
Alignment explanation
Indices: 58428962--58429113 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
58428952 TAAATTGTGC
* *
58428962 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
58428989 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
58429017 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58429044 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
58429072 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
58429099 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58429114 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:58429027 original size:55 final size:55
Alignment explanation
Indices: 58428962--58429113 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
58428952 TAAATTGTGC
* *
58428962 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
58429017 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
58429072 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
58429114 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:58432300 original size:21 final size:21
Alignment explanation
Indices: 58432274--58432325 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
58432264 GCCCTAATGG
58432274 CCACACGGGCGTGTTACCCTT
1 CCACACGGGCGTGTTACCCTT
*
58432295 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTACCCTT
*
58432316 CCACATGGGC
1 CCACACGGGC
58432326 ATGTGTCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.13, C:0.38, G:0.27, T:0.21
Consensus pattern (21 bp):
CCACACGGGCGTGTTACCCTT
Found at i:58441689 original size:42 final size:40
Alignment explanation
Indices: 58441545--58441689 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
58441535 TACAATTCGA
58441545 CTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTTGG
1 CTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTTGG
* * *
58441585 CTATGTATGACACTTAGTGTGCGATTCGAGATAGCTTCGA
1 CTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTTGG
* * *
58441625 TTATGTATGGCACTTAGTGTGCGATAT-TAAAGTAGCTTTGG
1 CTATGTATGGCACTTAGTGTGCGAT-TCGAGA-TAGCTTTGG
*
58441666 CTATGTAGTGGCACTTTGTGTGCG
1 CTATGTA-TGGCACTTAGTGTGCG
58441690 TGAATTCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 62 0.68
41 14 0.15
42 15 0.16
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.36
Consensus pattern (40 bp):
CTATGTATGGCACTTAGTGTGCGATTCGAGATAGCTTTGG
Found at i:58452587 original size:31 final size:31
Alignment explanation
Indices: 58452549--58452612 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
58452539 CCTTTTCATA
58452549 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
58452580 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
58452611 TT
1 TT
58452613 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:58452835 original size:25 final size:23
Alignment explanation
Indices: 58452807--58452928 Score: 118
Period size: 25 Copynumber: 5.0 Consensus size: 23
58452797 GATTTATCAT
**
58452807 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTA
58452832 ATAACTGGGGCAAAGCCCTTTTA
1 ATAACTGGGGCAAAGCCCTTTTA
*
58452855 ACAAACTGGGGCAAAAGCCCTTTTA
1 A-TAACTGGGGC-AAAGCCCTTTTA
*
58452880 ATAAACTGGGGCAAAAGCCCTTTTCG
1 AT-AACTGGGGC-AAAGCCCTTTT-A
* *
58452906 GTAAACTGGGGCATAGCCCTTTT
1 AT-AACTGGGGCAAAGCCCTTTT
58452929 TGCACTTCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
23 7 0.08
24 16 0.19
25 52 0.60
26 11 0.13
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTA
Found at i:58452861 original size:24 final size:25
Alignment explanation
Indices: 58452821--58452928 Score: 141
Period size: 25 Copynumber: 4.4 Consensus size: 25
58452811 CTGGAGGCCT
58452821 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
58452845 AGCCCTTTTAACAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
58452870 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
** *
58452895 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-AATAAACTGGGGCAAA
58452920 AGCCCTTTT
1 AGCCCTTTT
58452929 TGCACTTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 45 0.59
26 11 0.14
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:58452999 original size:20 final size:20
Alignment explanation
Indices: 58452976--58453022 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
58452966 TTATGAATAC
58452976 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
58452995 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
58453016 ATCATGT
1 ATCATGT
58453023 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:58460725 original size:31 final size:31
Alignment explanation
Indices: 58460687--58460750 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
58460677 CCTTTTCATA
*
58460687 TTTCATATTTCTTAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
58460718 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
58460749 TT
1 TT
58460751 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:58461067 original size:26 final size:25
Alignment explanation
Indices: 58460959--58461066 Score: 141
Period size: 25 Copynumber: 4.4 Consensus size: 25
58460949 CTGGAGGCCT
*
58460959 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
58460983 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
58461008 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
58461033 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-GATAAACTGGGGCAAA
58461058 AGCCCTTTT
1 AGCCCTTTT
58461067 TGCACTTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 45 0.59
26 11 0.14
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:58461137 original size:20 final size:20
Alignment explanation
Indices: 58461114--58461340 Score: 438
Period size: 20 Copynumber: 11.3 Consensus size: 20
58461104 TTATGAATAC
58461114 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461134 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461154 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461174 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461194 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461214 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461234 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461254 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461274 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461294 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58461314 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
58461334 ATCATGT
1 ATCATGT
58461341 ATATCAAAAC
Statistics
Matches: 206, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
20 204 0.99
21 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58464851 original size:40 final size:40
Alignment explanation
Indices: 58464803--58464987 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
58464793 GCTACTCGTT
* *
58464803 CAAATGCCTTCGGGACATAGCCCGG-TTATATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
58464843 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
58464883 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
58464922 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
58464963 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58464988 CATCATTCAA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58468895 original size:27 final size:27
Alignment explanation
Indices: 58468848--58468996 Score: 174
Period size: 27 Copynumber: 5.6 Consensus size: 27
58468838 ATTTTGCCCT
* *
58468848 TATAGGGT-AAATGACTGAAATACCCT
1 TATAGGGTAAAATGACCGAAATACCCC
*
58468874 TATAGGGTAAAATGACCAAAATACCCC
1 TATAGGGTAAAATGACCGAAATACCCC
*
58468901 TATAGGGTAAAATGATCGAAATACCCC
1 TATAGGGTAAAATGACCGAAATACCCC
* * *
58468928 CATAGGGTAGAATGACCTAAATACCCC
1 TATAGGGTAAAATGACCGAAATACCCC
* ** *
58468955 TGTAGGGTAAAATGATTGTAATACCCC
1 TATAGGGTAAAATGACCGAAATACCCC
* *
58468982 TGTAAGGTAAAATGA
1 TATAGGGTAAAATGA
58468997 TAGATTTGTT
Statistics
Matches: 105, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 8 0.08
27 97 0.92
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (27 bp):
TATAGGGTAAAATGACCGAAATACCCC
Found at i:58468933 original size:54 final size:54
Alignment explanation
Indices: 58468848--58468996 Score: 194
Period size: 54 Copynumber: 2.8 Consensus size: 54
58468838 ATTTTGCCCT
*
58468848 TATAGGGT-AAATGA-CTGAAATACCCTTATAGGGTAAAATGACCAAAATACCCC
1 TATAGGGTAAAATGATC-GAAATACCCCTATAGGGTAAAATGACCAAAATACCCC
* * *
58468901 TATAGGGTAAAATGATCGAAATACCCCCATAGGGTAGAATGACCTAAATACCCC
1 TATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGACCAAAATACCCC
* * * * *
58468955 TGTAGGGTAAAATGATTGTAATACCCCTGTAAGGTAAAATGA
1 TATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGA
58468997 TAGATTTGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 8 0.10
54 74 0.89
55 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (54 bp):
TATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGACCAAAATACCCC
Found at i:58468961 original size:81 final size:80
Alignment explanation
Indices: 58468849--58468997 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 80
58468839 TTTTGCCCTT
* *
58468849 ATAGGGTAAATGACTGAAATACCCTTATAGGGTAAAATGACCAAAATACCCCTATAGGGTAAAAT
1 ATAGGGTAAATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAAT
58468914 GATCGAAATACCCCC
66 GATCGAAATACCCCC
* **** *
58468929 ATAGGGTAGAATGACCT-AAATACCCCTGTAGGGTAAAATGATTGTAATACCCCTGTAAGGTAAA
1 ATAGGGTA-AATGA-CTGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAA
58468993 ATGAT
64 ATGAT
58468998 AGATTTGTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
80 8 0.14
81 49 0.83
82 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (80 bp):
ATAGGGTAAATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAAT
GATCGAAATACCCCC
Found at i:58469378 original size:34 final size:34
Alignment explanation
Indices: 58469334--58469428 Score: 145
Period size: 34 Copynumber: 2.8 Consensus size: 34
58469324 CATTGATTAA
* *
58469334 TGTTATTGAAATGGGCTAAAGCCCAGACCGCTAC
1 TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
*
58469368 TGTTACTGAAATGGGCTAAGGCCCAGACTGCTAC
1 TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
* *
58469402 TGTTACTGATATGGGCTTAGGCCCAGA
1 TGTTACTGAAATGGGCTAAGGCCCAGA
58469429 ATGTATTCGC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (34 bp):
TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
Found at i:58491908 original size:118 final size:118
Alignment explanation
Indices: 58491700--58491935 Score: 472
Period size: 118 Copynumber: 2.0 Consensus size: 118
58491690 GGTGCATTGC
58491700 CGTGTGACTAACTCTTTGGTTGAGTGCATGTGATAGGGAACCATGTCTTACTTGTTGGTTTCTTT
1 CGTGTGACTAACTCTTTGGTTGAGTGCATGTGATAGGGAACCATGTCTTACTTGTTGGTTTCTTT
58491765 ATCTATTATGGATGTATGCTAATAAATTGGTAAGTTTACCTTCCGGTTATTCA
66 ATCTATTATGGATGTATGCTAATAAATTGGTAAGTTTACCTTCCGGTTATTCA
58491818 CGTGTGACTAACTCTTTGGTTGAGTGCATGTGATAGGGAACCATGTCTTACTTGTTGGTTTCTTT
1 CGTGTGACTAACTCTTTGGTTGAGTGCATGTGATAGGGAACCATGTCTTACTTGTTGGTTTCTTT
58491883 ATCTATTATGGATGTATGCTAATAAATTGGTAAGTTTACCTTCCGGTTATTCA
66 ATCTATTATGGATGTATGCTAATAAATTGGTAAGTTTACCTTCCGGTTATTCA
58491936 AGCTTACTAA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (118 bp):
CGTGTGACTAACTCTTTGGTTGAGTGCATGTGATAGGGAACCATGTCTTACTTGTTGGTTTCTTT
ATCTATTATGGATGTATGCTAATAAATTGGTAAGTTTACCTTCCGGTTATTCA
Found at i:58495118 original size:19 final size:19
Alignment explanation
Indices: 58495094--58495135 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
58495084 GTTATTTCAT
58495094 TAAGGGCATATTAGTAAAC
1 TAAGGGCATATTAGTAAAC
58495113 TAAGGGCATATTAGTAAAC
1 TAAGGGCATATTAGTAAAC
58495132 TAAG
1 TAAG
58495136 TGTAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (19 bp):
TAAGGGCATATTAGTAAAC
Found at i:58495636 original size:8 final size:8
Alignment explanation
Indices: 58495623--58495663 Score: 82
Period size: 8 Copynumber: 5.1 Consensus size: 8
58495613 ATTAGGGACT
58495623 AAAATGTG
1 AAAATGTG
58495631 AAAATGTG
1 AAAATGTG
58495639 AAAATGTG
1 AAAATGTG
58495647 AAAATGTG
1 AAAATGTG
58495655 AAAATGTG
1 AAAATGTG
58495663 A
1 A
58495664 GGGCTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:58496176 original size:42 final size:42
Alignment explanation
Indices: 58496030--58496176 Score: 131
Period size: 42 Copynumber: 3.5 Consensus size: 42
58496020 TGTGTTTTCT
* *
58496030 TGTAAGACCACGTATGGGACATTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACA-TGGCATCGAATT-TGATTTACG
* * * * *
58496074 TGCAAGACCATGTCTGGGACATCAGCATTGTATTTGATTTA-G
1 TGTAAGACCACGTCTGGGACAT-GGCATCGAATTTGATTTACG
* *
58496116 TGTAAGACC-C-TCTTTGGGACAGTGGCATCAAATTTGA-TTACA
1 TGTAAGACCACGTC--TGGGACA-TGGCATCGAATTTGATTTACG
58496158 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
58496177 TGTTGGCACT
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
40 2 0.02
41 3 0.04
42 40 0.49
43 10 0.12
44 27 0.33
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATGGCATCGAATTTGATTTACG
Found at i:58497623 original size:20 final size:20
Alignment explanation
Indices: 58497598--58497645 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
58497588 GCACACGCTT
58497598 GTGTGGCCTGGGACATGCCC
1 GTGTGGCCTGGGACATGCCC
58497618 GTGTGGCCTGGGACATGCCC
1 GTGTGGCCTGGGACATGCCC
*
58497638 GTGGGGCC
1 GTGTGGCC
58497646 AGGCCGTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.29, G:0.44, T:0.19
Consensus pattern (20 bp):
GTGTGGCCTGGGACATGCCC
Found at i:58498497 original size:6 final size:6
Alignment explanation
Indices: 58498486--58498517 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
58498476 ACCGCAGGGC
58498486 AACAGT AACAGT AACAGT AACAGT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AA
58498518 TAGTCATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:58499459 original size:8 final size:8
Alignment explanation
Indices: 58499443--58499475 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
58499433 TATTCATTCT
*
58499443 TTATTTTA
1 TTATATTA
58499451 TTATATTA
1 TTATATTA
58499459 TTATATTA
1 TTATATTA
58499467 TTATATTA
1 TTATATTA
58499475 T
1 T
58499476 ATTTAGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTATATTA
Found at i:58503947 original size:39 final size:40
Alignment explanation
Indices: 58503839--58504063 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
58503829 TTGAATGATG
* * * *
58503839 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
58503879 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58503919 TCCGGGCTAAG-CCCGAACGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58503958 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58503998 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58504039 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58504064 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 119 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58504081 original size:80 final size:80
Alignment explanation
Indices: 58503839--58504096 Score: 224
Period size: 80 Copynumber: 3.2 Consensus size: 80
58503829 TTGAATGATG
* * * * * * * *
58503839 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
58503902 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* * *
58503919 TCCGGGCTAAG-CCCGAACGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
58503983 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
58503998 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
58504062 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
58504078 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58504097 TACGTGATTT
Statistics
Matches: 151, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.01
79 72 0.48
80 75 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:58504085 original size:119 final size:119
Alignment explanation
Indices: 58503839--58504096 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
58503829 TTGAATGATG
* * *
58503839 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
58503904 GTGCGAGATACTAATTCCGGGCTAAGCCCGAACGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAACGCATTGGAACGAGTGACTAAA
* * * **
58503958 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
58504021 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAACGCATTGGAACGAGTGA-CTAAA
* *
58504078 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58504097 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAACGCATTGGAACGAGTGACTAAA
Found at i:58512096 original size:66 final size:66
Alignment explanation
Indices: 58511990--58512777 Score: 1501
Period size: 66 Copynumber: 11.9 Consensus size: 66
58511980 GTGCCTTCAG
58511990 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512055 C
66 C
58512056 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512121 C
66 C
58512122 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512187 C
66 C
58512188 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512253 C
66 C
58512254 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512319 C
66 C
58512320 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512385 C
66 C
58512386 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512451 C
66 C
58512452 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512517 C
66 C
58512518 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512583 C
66 C
58512584 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
58512649 C
66 C
** *
58512650 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAAT-G-C-AAGTGCCT
1 GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGAC-
58512712 TC
65 TC
58512714 AGGATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTG
1 --GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTG
58512778 TCCGGACTGC
Statistics
Matches: 711, Mismatches: 5, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
63 4 0.01
64 3 0.00
65 1 0.00
66 698 0.98
67 1 0.00
68 1 0.00
69 3 0.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (66 bp):
GATTACTTCAGCCGATCATGATACCCGAGTGGAAATGGGATCGAGTCACAATGGACTTTGTGACT
C
Found at i:58519524 original size:6 final size:6
Alignment explanation
Indices: 58519513--58519554 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
58519503 ACACCGTAGG
* * *
58519513 GTAATA GTAATA GTAACA ATAACA GTAACA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
58519555 ATCATAGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:58520490 original size:8 final size:8
Alignment explanation
Indices: 58520464--58520513 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
58520454 TTTATATTTC
58520464 TTTTATTCA
1 TTTTATT-A
*
58520473 TTCT-TTA
1 TTTTATTA
58520480 TTTTATTA
1 TTTTATTA
58520488 TTTTATTA
1 TTTTATTA
*
58520496 TATTATTA
1 TTTTATTA
*
58520504 TATTA-TA
1 TTTTATTA
58520511 TTT
1 TTT
58520514 AGTAATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 8 0.22
8 25 0.69
9 3 0.08
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTATTA
Found at i:58520494 original size:13 final size:13
Alignment explanation
Indices: 58520476--58520512 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
58520466 TTATTCATTC
*
58520476 TTTATTTTATTAT
1 TTTATTATATTAT
58520489 TTTATTATATTAT
1 TTTATTATATTAT
*
58520502 TATATTATATT
1 TTTATTATATT
58520513 TAGTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTATATTAT
Found at i:58522632 original size:13 final size:13
Alignment explanation
Indices: 58522614--58522640 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58522604 AAAGTAATCG
58522614 CACACGGGCGTGT
1 CACACGGGCGTGT
58522627 CACACGGGCGTGT
1 CACACGGGCGTGT
58522640 C
1 C
58522641 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:58528288 original size:40 final size:40
Alignment explanation
Indices: 58528205--58528510 Score: 317
Period size: 40 Copynumber: 7.7 Consensus size: 40
58528195 TTGAATGATG
* * * *
58528205 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
58528245 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58528285 TCCGGGTTTAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
58528326 -CCGGGCTATGTCCCGAAGGCATTTGAATGAGTCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG--T--G-CGAGTTACTAAA
*
58528370 TCCGGGCTAAG-CCCGAAGGCA----TACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58528405 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58528445 TCCGGGTTTAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58528486 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58528511 AATGAGTAGC
Statistics
Matches: 223, Mismatches: 25, Indels: 36
0.79 0.09 0.13
Matches are distributed among these distances:
35 20 0.09
36 9 0.04
38 1 0.00
39 2 0.01
40 148 0.66
41 12 0.05
42 1 0.00
44 12 0.05
45 18 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58529234 original size:59 final size:59
Alignment explanation
Indices: 58529168--58529285 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
58529158 AATGGTTAAT
58529168 CACTATCATAAATTGTGCTATTTATGCTAAAAGGGCTAGTTGAATCATGGAAACTATGA
1 CACTATCATAAATTGTGCTATTTATGCTAAAAGGGCTAGTTGAATCATGGAAACTATGA
*
58529227 CACTATCATAATTTGTGCTATTTATGCTAAAAGGGCTAGTTGAATCATGGAAACTATGA
1 CACTATCATAAATTGTGCTATTTATGCTAAAAGGGCTAGTTGAATCATGGAAACTATGA
58529286 AATAGGTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (59 bp):
CACTATCATAAATTGTGCTATTTATGCTAAAAGGGCTAGTTGAATCATGGAAACTATGA
Found at i:58533251 original size:18 final size:17
Alignment explanation
Indices: 58533230--58533264 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58533220 TTATTATTAA
*
58533230 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
58533248 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
58533265 TCTAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:58533350 original size:26 final size:28
Alignment explanation
Indices: 58533321--58533396 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
58533311 TGATACTATA
*
58533321 AAATATAATTTGAAATAATTA-AT-ATT
1 AAATATAATTTAAAATAATTATATGATT
* * *
58533347 AAATATATTTTAAAAAAAATATATGATT
1 AAATATAATTTAAAATAATTATATGATT
* *
58533375 TAATAAAATTTAAAATAATTAT
1 AAATATAATTTAAAATAATTAT
58533397 CTAGATTCAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 17 0.44
27 2 0.05
28 20 0.51
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (28 bp):
AAATATAATTTAAAATAATTATATGATT
Found at i:58535453 original size:71 final size:71
Alignment explanation
Indices: 58535337--58535586 Score: 500
Period size: 71 Copynumber: 3.5 Consensus size: 71
58535327 TCTGATATGT
58535337 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
1 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
58535402 ATACCA
66 ATACCA
58535408 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
1 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
58535473 ATACCA
66 ATACCA
58535479 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
1 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
58535544 ATACCA
66 ATACCA
58535550 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATAC
1 ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATAC
58535587 GGCATTGAAA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 179 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (71 bp):
ATGCAGCTAGTAGTATTTTTAGAGGTTATATATATACAGTCAAAAACACTAGCTGATCTCCATGA
ATACCA
Found at i:58537911 original size:29 final size:30
Alignment explanation
Indices: 58537872--58537950 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
58537862 CTTAATAATC
58537872 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
58537902 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
58537931 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
58537951 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:58542921 original size:31 final size:31
Alignment explanation
Indices: 58542883--58542946 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
58542873 CCTTTTCATA
58542883 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
58542914 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
58542945 TT
1 TT
58542947 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:58543263 original size:26 final size:25
Alignment explanation
Indices: 58543155--58543262 Score: 141
Period size: 25 Copynumber: 4.4 Consensus size: 25
58543145 CTGGAGGCCT
*
58543155 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
58543179 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
58543204 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
58543229 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-GATAAACTGGGGCAAA
58543254 AGCCCTTTT
1 AGCCCTTTT
58543263 TGCACTTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 45 0.59
26 11 0.14
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:58543333 original size:20 final size:20
Alignment explanation
Indices: 58543310--58543356 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
58543300 TTATGAATAC
58543310 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
58543329 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
58543350 ATCATGT
1 ATCATGT
58543357 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:58543420 original size:25 final size:25
Alignment explanation
Indices: 58543392--58543439 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58543382 ATAATTAAAC
* * *
58543392 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
58543417 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
58543440 CATAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:58546223 original size:12 final size:11
Alignment explanation
Indices: 58546202--58546234 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
58546192 AAAATATATT
58546202 TTTA-TTTTTA
1 TTTATTTTTTA
58546212 TTTATTTATTTA
1 TTTATTT-TTTA
58546224 TTTATTTTTTA
1 TTTATTTTTTA
58546235 CTCGGATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:58548709 original size:46 final size:46
Alignment explanation
Indices: 58548659--58548828 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
58548649 TTGAGCATCT
*
58548659 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * * *
58548705 GAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * * *
58548752 CAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * *
58548798 GAGCTCATTGAGTTCAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58548829 GGGGCGGGTT
Statistics
Matches: 98, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 54 0.55
47 27 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:58549090 original size:19 final size:20
Alignment explanation
Indices: 58549053--58549090 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58549043 ATAAGGTGGT
58549053 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58549073 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58549091 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58556300 original size:46 final size:46
Alignment explanation
Indices: 58556247--58556419 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
58556237 TGGTTGAGCA
*
58556247 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
58556293 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
58556340 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
58556386 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58556420 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58556403 original size:93 final size:93
Alignment explanation
Indices: 58556244--58556414 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
58556234 GGATGGTTGA
* * *
58556244 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58556309 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
58556337 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58556402 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58556415 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58556681 original size:19 final size:20
Alignment explanation
Indices: 58556644--58556681 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58556634 ATAAGGTGGT
58556644 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58556664 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58556682 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58557818 original size:27 final size:27
Alignment explanation
Indices: 58557771--58557890 Score: 143
Period size: 27 Copynumber: 4.5 Consensus size: 27
58557761 GTTTTGCCCT
** *
58557771 TATAGGGT-AAATGAGTGAAATACCCT
1 TATAGGGTAAAATGACCGAAATACCCC
*
58557797 TATAGGGTAAAATGACCAAAATACCCC
1 TATAGGGTAAAATGACCGAAATACCCC
* *
58557824 TATATGGTAAAATGATCGAAATACCCC
1 TATAGGGTAAAATGACCGAAATACCCC
* * *
58557851 CATAGGGTAGAATGACCTAAATACCCC
1 TATAGGGTAAAATGACCGAAATACCCC
*
58557878 TGTAGGGTAAAAT
1 TATAGGGTAAAAT
58557891 AATTGTAATA
Statistics
Matches: 78, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 8 0.10
27 70 0.90
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (27 bp):
TATAGGGTAAAATGACCGAAATACCCC
Found at i:58557847 original size:54 final size:54
Alignment explanation
Indices: 58557771--58557904 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 54
58557761 GTTTTGCCCT
**
58557771 TATAGGGT-AAATGAGTGAAATACCCTTATAGGGTAAAATGACCAAAATACCCC
1 TATAGGGTAAAATGAGTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCC
* * *
58557824 TATATGGTAAAATGA-TCGAAATACCCCCATAGGGTAGAATGACCTAAATACCCC
1 TATAGGGTAAAATGAGT-GAAATACCCCCATAGGGTAAAATGACCAAAATACCCC
* * * *
58557878 TGTAGGGTAAAATAATTGTAATACCCC
1 TATAGGGTAAAATGAGTGAAATACCCC
58557905 TGTAAGGTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 8 0.12
54 60 0.87
55 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (54 bp):
TATAGGGTAAAATGAGTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCC
Found at i:58558285 original size:18 final size:18
Alignment explanation
Indices: 58558262--58558299 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58558252 TCTGCTTGCA
*
58558262 TACTGCACTGATTACTGT
1 TACTGCACTGATTAATGT
*
58558280 TACTGCATTGATTAATGT
1 TACTGCACTGATTAATGT
58558298 TA
1 TA
58558300 TTGAAATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (18 bp):
TACTGCACTGATTAATGT
Found at i:58558339 original size:34 final size:34
Alignment explanation
Indices: 58558295--58558389 Score: 138
Period size: 34 Copynumber: 2.8 Consensus size: 34
58558285 CATTGATTAA
*
58558295 TGTTATTGAAATGGGCTAAAGCCCAGACCGCTAC
1 TGTTACTGAAATGGGCTAAAGCCCAGACCGCTAC
* *
58558329 TGTTACTGAAATGGGCTAAGGCCCAGACTGCTAC
1 TGTTACTGAAATGGGCTAAAGCCCAGACCGCTAC
*
58558363 TGTTACT-AATATGGGCTTAAGCCCAGA
1 TGTTACTGAA-ATGGGCTAAAGCCCAGA
58558390 ATGTATTTGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 2 0.04
34 53 0.96
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (34 bp):
TGTTACTGAAATGGGCTAAAGCCCAGACCGCTAC
Found at i:58562759 original size:27 final size:26
Alignment explanation
Indices: 58562728--58562904 Score: 176
Period size: 27 Copynumber: 6.5 Consensus size: 26
58562718 TAAATTGTAC
58562728 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
58562755 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
58562781 ATGCACTAAGTGTGCGAATTGACAATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
58562809 GGCACTAAGTGTGCGAGGTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
58562837 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
58562864 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
58562891 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
58562905 AGGCTCAATA
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.80
28 25 0.20
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:58562844 original size:82 final size:81
Alignment explanation
Indices: 58562729--58562884 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
58562719 AAATTGTACA
* *
58562729 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58562793 TGCGAATTGACAATGCG
65 TGCGAATTGACAATGCG
** *
58562810 GCACTAAGTGTGCGAGGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA--TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
58562874 GTGCGAGTTGA
64 GTGCGAATTGA
58562885 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 15 0.23
82 48 0.73
83 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACAATGCG
Found at i:58562896 original size:82 final size:81
Alignment explanation
Indices: 58562725--58562904 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
58562715 GATTAAATTG
* *
58562725 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58562790 GTGTGCGAATTGACAA
66 GTGTGCGAATTGACAA
* * ** *
58562806 TGCGGCACTAAGTGTGCGAGGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA--TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
58562869 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACAA
* *
58562888 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
58562905 AGGCTCAATA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 18 0.22
82 62 0.76
83 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACAA
Found at i:58576272 original size:38 final size:38
Alignment explanation
Indices: 58576218--58576294 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
58576208 TTTTGTTATG
* *
58576218 TGTCATTTGATTTCCAAATGAAGGCATGTAAAGATGTA
1 TGTCATTTGATATCCAAATGAAGGCATGGAAAGATGTA
58576256 TGTCATTTGATATCCAAATGAAGGCATGGAAAGATGTA
1 TGTCATTTGATATCCAAATGAAGGCATGGAAAGATGTA
58576294 T
1 T
58576295 CTATCTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (38 bp):
TGTCATTTGATATCCAAATGAAGGCATGGAAAGATGTA
Found at i:58587463 original size:8 final size:8
Alignment explanation
Indices: 58587450--58587482 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
58587440 ATTAGGGACT
58587450 AAAATGTG
1 AAAATGTG
58587458 AAAATGTG
1 AAAATGTG
58587466 AAAATGTG
1 AAAATGTG
58587474 AAAATGTG
1 AAAATGTG
58587482 A
1 A
58587483 GGGCTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:58587994 original size:42 final size:42
Alignment explanation
Indices: 58587848--58587995 Score: 115
Period size: 42 Copynumber: 3.5 Consensus size: 42
58587838 TGTCTTTTCT
* * *
58587848 TGTAAGACCACGTAC-GGGACATTGGCATCGACTTATGATTTACG
1 TGTAAGACCAAGT-CTGGGACA-TGGCATCAAATT-TGATTTACG
* * * * *
58587892 TGCAGGACCATGTCTGGGACATCAGCATCATATTTGATTTA-G
1 TGTAAGACCAAGTCTGGGACAT-GGCATCAAATTTGATTTACG
* * *
58587934 TGTAAGACCCTA-TTTGGGACAGTGGCATCAAATTTGA-TTACA
1 TGTAAGA-CCAAGTCTGGGACA-TGGCATCAAATTTGATTTACG
58587976 TGTAAGACCAAGTCTGGGAC
1 TGTAAGACCAAGTCTGGGAC
58587996 GTTGGCACTG
Statistics
Matches: 81, Mismatches: 17, Indels: 14
0.72 0.15 0.12
Matches are distributed among these distances:
41 6 0.07
42 40 0.49
43 12 0.15
44 23 0.28
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCAAGTCTGGGACATGGCATCAAATTTGATTTACG
Found at i:58589439 original size:20 final size:20
Alignment explanation
Indices: 58589414--58589461 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
58589404 GCACACGCCT
58589414 GTGTGGCCTGGGACATGCCC
1 GTGTGGCCTGGGACATGCCC
*
58589434 GTGTGGCTTGGGACATGCCC
1 GTGTGGCCTGGGACATGCCC
*
58589454 GTGGGGCC
1 GTGTGGCC
58589462 AGGCCGTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.08, C:0.27, G:0.44, T:0.21
Consensus pattern (20 bp):
GTGTGGCCTGGGACATGCCC
Found at i:58590447 original size:56 final size:56
Alignment explanation
Indices: 58590380--58590499 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
58590370 TATTAGTTTA
58590380 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
58590436 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58590492 TTGCCCAT
1 TTGCCCAT
58590500 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:58601011 original size:19 final size:19
Alignment explanation
Indices: 58600987--58601025 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
58600977 CTTCCTGCAA
58600987 TTGCGGTTAATCGAAATCC
1 TTGCGGTTAATCGAAATCC
*
58601006 TTGCGGTTATTCGAAATCC
1 TTGCGGTTAATCGAAATCC
58601025 T
1 T
58601026 GTTCCATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (19 bp):
TTGCGGTTAATCGAAATCC
Found at i:58617418 original size:29 final size:29
Alignment explanation
Indices: 58617385--58617461 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
58617375 AATCGTATTC
*
58617385 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
58617414 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
58617443 ATATGGCCCGTTCGGCCCA
1 ATATGGCCCATTAGGCCCA
58617462 GTCACATTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:58620739 original size:24 final size:24
Alignment explanation
Indices: 58620712--58620804 Score: 141
Period size: 24 Copynumber: 3.9 Consensus size: 24
58620702 CTGCTCCTCG
* * *
58620712 ATCAGATCCTAAATCTTCTCCTTT
1 ATCAGCTCCTAAATCCTCTCCCTT
58620736 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
*
58620760 ATCAGCTCCTAAGTCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
*
58620784 ATCAGCTCCTAAATCTTCTCC
1 ATCAGCTCCTAAATCCTCTCC
58620805 TGACAGCCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.22, C:0.38, G:0.05, T:0.35
Consensus pattern (24 bp):
ATCAGCTCCTAAATCCTCTCCCTT
Found at i:58627062 original size:24 final size:23
Alignment explanation
Indices: 58627035--58627135 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 23
58627025 GCCAACTCTG
*
58627035 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTT-ATCAGCTCCTAAATCCT
58627059 CTCCTTTATCAGCTCCTAAATCCT
1 CTCC-TTATCAGCTCCTAAATCCT
*
58627083 CTCCCTTATCAGCTGCTAAATCCT
1 CT-CCTTATCAGCTCCTAAATCCT
*
58627107 CTCCCTTATCAGCTCCTAAATCTT
1 CT-CCTTATCAGCTCCTAAATCCT
58627131 CTCCT
1 CTCCT
58627136 GACAGCCTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 64 0.90
25 4 0.06
ACGTcount: A:0.20, C:0.38, G:0.06, T:0.37
Consensus pattern (23 bp):
CTCCTTATCAGCTCCTAAATCCT
Found at i:58627116 original size:48 final size:49
Alignment explanation
Indices: 58627037--58627134 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 49
58627027 CAACTCTGCT
* *
58627037 CCTTGATCAGCTCCTAAATCTTCTCCTTTATCAGCTCCTAAATCCTCTC
1 CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
* *
58627086 CCTT-ATCAGCTGCTAAATCCTCTCCCTTATCAGCTCCTAAATCTTCTC
1 CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
58627134 C
1 C
58627135 TGACAGCCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.20, C:0.38, G:0.06, T:0.36
Consensus pattern (49 bp):
CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
Found at i:58631208 original size:30 final size:29
Alignment explanation
Indices: 58631174--58631234 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
58631164 ACTTTAGCTA
* *
58631174 TTTATTTTTTTTAC-AATATAATTTAATTTT
1 TTTATTATTATTACTAAT-TAATTT-ATTTT
58631204 TTTATTATTATTACTAATTAATTTATTTT
1 TTTATTATTATTACTAATTAATTTATTTT
58631233 TT
1 TT
58631235 CTTTCTCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.25
30 18 0.64
31 3 0.11
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTATTATTATTACTAATTAATTTATTTT
Found at i:58633250 original size:80 final size:80
Alignment explanation
Indices: 58633102--58633313 Score: 286
Period size: 80 Copynumber: 2.7 Consensus size: 80
58633092 CATTTGAATG
* * * *
58633102 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCTGGGCCAAGACCTGAAGGCA
1 ATATCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCTGAAGGCA
*
58633167 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
58633182 ATA-CCTGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CTCGAAGG
1 ATATCC-GGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCT-GAAGG
58633245 CATTTGTGCGAGTTGAT
64 CATTTGTGCGAGTTGAT
* * * * * *
58633262 ATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
58633314 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
79 10 0.08
80 106 0.90
81 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (80 bp):
ATATCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCTGAAGGCA
TTTGTGCGAGTTGAT
Found at i:58633305 original size:40 final size:40
Alignment explanation
Indices: 58633102--58633313 Score: 221
Period size: 40 Copynumber: 5.3 Consensus size: 40
58633092 CATTTGAATG
* * *
58633102 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
* * * * * * *
58633142 TTATCTGGGCCAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
* * *
58633182 ATA-CCTGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
* * * * *
58633222 TTATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
* *
58633262 ATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
58633302 ATATCC-GGCTAA
1 ATATCCGGGCTAA
58633314 ATTCCGAAGA
Statistics
Matches: 135, Mismatches: 35, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
39 7 0.05
40 126 0.93
41 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
Found at i:58643928 original size:17 final size:17
Alignment explanation
Indices: 58643906--58643940 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58643896 AGTTGTGAAA
58643906 GGTACTTACTATTGGTT
1 GGTACTTACTATTGGTT
58643923 GGTACTTACTATTGGTT
1 GGTACTTACTATTGGTT
58643940 G
1 G
58643941 ACTTCGCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.46
Consensus pattern (17 bp):
GGTACTTACTATTGGTT
Found at i:58646036 original size:46 final size:46
Alignment explanation
Indices: 58645842--58646061 Score: 180
Period size: 46 Copynumber: 4.7 Consensus size: 46
58645832 GGTTATTGTA
* * ** *
58645842 AGCTAGTGTAAGACATGTCTGGGACATGAATCGGCCACATTATGAG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAT
* *
58645888 AGCCT-GGGTAAGACCATGTCTGGGACATGGCATCAGC-ATCAAGATGAGT
1 AG-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGATGA-T
* * *
58645937 -GCTAGTCTAAGACATGTCTGGGACATGCATCGGCCT-CGAGAAG-T
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGAT
* * *
58645981 AAGCCAGTGTAAGACATGTTTAGGACATGCATCGGCTACAAGATGAT
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAT
* * *
58646028 AGTTAGTGTAAGACCATATCTGGGATATGGCATC
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
58646062 AGCACCCTAC
Statistics
Matches: 137, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 65 0.47
47 45 0.33
48 24 0.18
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAT
Found at i:58647408 original size:8 final size:8
Alignment explanation
Indices: 58647395--58647419 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58647385 TGGCTAGGGT
58647395 TTCCAAGC
1 TTCCAAGC
58647403 TTCCAAGC
1 TTCCAAGC
58647411 TTCCAAGC
1 TTCCAAGC
58647419 T
1 T
58647420 CGATTGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.28
Consensus pattern (8 bp):
TTCCAAGC
Found at i:58648597 original size:49 final size:49
Alignment explanation
Indices: 58648431--58648655 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
58648421 TGAGGTCGCA
* * * * *
58648431 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * * **
58648482 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
58648532 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
58648581 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
58648630 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
58648656 TGCGTACCAG
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 79 0.51
50 44 0.28
51 32 0.21
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:58650230 original size:22 final size:21
Alignment explanation
Indices: 58650205--58650245 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
58650195 TCTAATTGGT
*
58650205 CACACGGGCATGTTACCCCTCC
1 CACACAGGCAT-TTACCCCTCC
*
58650227 CACACAGGCATTTGCCCCT
1 CACACAGGCATTTACCCCT
58650246 GTGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.44, G:0.17, T:0.20
Consensus pattern (21 bp):
CACACAGGCATTTACCCCTCC
Found at i:58656673 original size:42 final size:42
Alignment explanation
Indices: 58656562--58656717 Score: 206
Period size: 42 Copynumber: 3.7 Consensus size: 42
58656552 TACCATACCA
* * * *
58656562 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATTG
* * *
58656604 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGCCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
58656647 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
* *
58656689 ATGCCATATCTCAGATATGATCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
58656718 TAATATTAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 66 0.66
43 33 0.33
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
Found at i:58656692 original size:85 final size:84
Alignment explanation
Indices: 58656562--58656717 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
58656552 TACCATACCA
* * * * *
58656562 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCGTATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGCC-ATAGCCCAGATATGATC
58656627 TTACACGAAGCCTCATATTG
65 TTACACGAAGCCTCATATTG
* * *
58656647 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCATATTGATGCCATATCTCAGATATGATC
1 ATGCCATATCCCAGATATGGTCTTACACGAGA-TCTCATATCGATGCCATAGCCCAGATATGATC
58656711 TTACACG
65 TTACACG
58656718 TAATATTAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 21 0.34
85 41 0.66
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGCCATAGCCCAGATATGATCT
TACACGAAGCCTCATATTG
Found at i:58658026 original size:24 final size:23
Alignment explanation
Indices: 58657999--58658049 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
58657989 CAAGCCACAT
*
58657999 AATAACATTGTGGATAAACCACTC
1 AATAACATTGTGG-CAAACCACTC
***
58658023 AATAGTGTTGTGGCAAACCACTC
1 AATAACATTGTGGCAAACCACTC
58658046 AATA
1 AATA
58658050 TTGTAGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (23 bp):
AATAACATTGTGGCAAACCACTC
Found at i:58660621 original size:31 final size:30
Alignment explanation
Indices: 58660572--58660644 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 30
58660562 GATGATACTA
*
58660572 ATTTTTTACTTAGTTTAATTATGATTTATTT
1 ATTTTTTA-TTACTTTAATTATGATTTATTT
58660603 ATTTATTTATTACTTTAATTATGATTTATTT
1 ATTT-TTTATTACTTTAATTATGATTTATTT
58660634 ATTTTTT-TTAC
1 ATTTTTTATTAC
58660645 CTTTTTACCT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 4 0.10
30 3 0.08
31 29 0.73
32 4 0.10
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (30 bp):
ATTTTTTATTACTTTAATTATGATTTATTT
Found at i:58661570 original size:24 final size:26
Alignment explanation
Indices: 58661543--58661598 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
58661533 GAACGAGAAT
58661543 AAAATCTAAA-ACCTAAAA-GAAAG-G
1 AAAATCTAAAGA-CTAAAATGAAAGAG
*
58661567 AAAAACTAAAGACTAAAATTGAAAGAG
1 AAAATCTAAAGACTAAAA-TGAAAGAG
58661594 AAAAT
1 AAAAT
58661599 TATACAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 15 0.58
25 1 0.04
26 5 0.19
27 5 0.19
ACGTcount: A:0.64, C:0.09, G:0.12, T:0.14
Consensus pattern (26 bp):
AAAATCTAAAGACTAAAATGAAAGAG
Found at i:58666191 original size:28 final size:29
Alignment explanation
Indices: 58666155--58666235 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
58666145 GGAATGGTGA
*
58666155 CGACCATCGAAT-TGAAAAGGGATAGCTT
1 CGACTATCGAATATGAAAAGGGATAGCTT
* * *
58666183 CTACTATCGATTATGAAAAGGGATAGTTT
1 CGACTATCGAATATGAAAAGGGATAGCTT
*
58666212 CGGCTATC-AATTATGAAAAGGGAT
1 CGACTATCGAA-TATGAAAAGGGAT
58666236 GGTGAGGATC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 10 0.23
29 34 0.77
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (29 bp):
CGACTATCGAATATGAAAAGGGATAGCTT
Found at i:58666202 original size:29 final size:29
Alignment explanation
Indices: 58666167--58666235 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
58666157 ACCATCGAAT
* *
58666167 TGAAAAGGGATAGCTTCTACTATCGATTA
1 TGAAAAGGGATAGCTTCGACTATCAATTA
* *
58666196 TGAAAAGGGATAGTTTCGGCTATCAATTA
1 TGAAAAGGGATAGCTTCGACTATCAATTA
58666225 TGAAAAGGGAT
1 TGAAAAGGGAT
58666236 GGTGAGGATC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (29 bp):
TGAAAAGGGATAGCTTCGACTATCAATTA
Found at i:58675339 original size:30 final size:30
Alignment explanation
Indices: 58675305--58675401 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
58675295 AGCTCACTCC
58675305 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
58675335 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
58675365 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
58675395 TAGCTCA
1 TAGCTCA
58675402 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:58687408 original size:22 final size:22
Alignment explanation
Indices: 58687382--58687425 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
58687372 AAAAATAATC
*
58687382 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
58687404 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
58687426 GTTACTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:58691116 original size:27 final size:27
Alignment explanation
Indices: 58691086--58691357 Score: 347
Period size: 27 Copynumber: 10.1 Consensus size: 27
58691076 AGTACTCCCA
*
58691086 ATTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
58691113 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
58691140 ATTTTTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
58691167 ATTTACA-AGATTATCGTTTTACCCTC-
1 ATTTACAGA-ATTACCGTTTTACCCTCG
* *
58691193 AGTTTATAGAATTACCGTTTTACCCTTG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
58691221 ATTTATAGAATTACC-ATTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
58691246 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
58691274 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
58691300 AGTTTATAGAATTACTGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
58691328 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
58691355 ATT
1 ATT
58691358 NNNNNNNNNN
Statistics
Matches: 216, Mismatches: 20, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
25 1 0.00
26 23 0.11
27 188 0.87
28 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:58691125 original size:54 final size:54
Alignment explanation
Indices: 58691087--58691353 Score: 387
Period size: 54 Copynumber: 5.0 Consensus size: 54
58691077 GTACTCCCAA
*
58691087 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-G
1 TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
58691140 ATTTTTAAAATTACCGTTTTACCCTCGATTTACA-AGATTATCGTTTTACCCTCAG
1 -TTTATAGAATTACTGTTTTACCCTCGATTTACAGA-ATTACCGTTTTACCCTCAG
* * * *
58691195 TTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACC-ATTTACCCTCAG
1 TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
58691248 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
1 TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
*
58691302 TTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC
1 TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
58691354 GATTNNNNNN
Statistics
Matches: 189, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
53 48 0.25
54 139 0.74
55 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (54 bp):
TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:58691274 original size:134 final size:134
Alignment explanation
Indices: 58691103--58691357 Score: 367
Period size: 134 Copynumber: 1.9 Consensus size: 134
58691093 GAATTACTGT
* **
58691103 TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTC-G
1 TTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAG
*
58691167 ATTTACAAG-ATTA-TCGTTTTACCCTC-AGTTTATAGAATTACCGTTTTACCCTTGATTTATAG
66 -TTTA-AAGAATTACT-GTTTTACCCTCGA-TTTATAGAATTACCGTTTTACCCTCGATTTATAG
58691229 AATTACCA
127 AATTACCA
* *
58691237 TTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA
1 TTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCA
*
58691301 GTTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
65 GTTTAAAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
58691358 NNNNNNNNNN
Statistics
Matches: 109, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
133 3 0.03
134 103 0.94
135 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (134 bp):
TTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAG
TTTAAAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATT
ACCA
Found at i:58697100 original size:27 final size:27
Alignment explanation
Indices: 58697070--58697247 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 27
58697060 ATATTAAGTC
* *
58697070 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
58697097 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
58697124 CGCACAATTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
58697152 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
58697179 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
58697206 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
58697233 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
58697248 GTACAATTTA
Statistics
Matches: 120, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
27 98 0.82
28 22 0.18
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:58697182 original size:55 final size:54
Alignment explanation
Indices: 58697070--58697247 Score: 178
Period size: 54 Copynumber: 3.3 Consensus size: 54
58697060 ATATTAAGTC
* * *
58697070 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
* * * * ** *
58697124 CGCACAATTAGTGCTACATAGTCAGACTCGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACATAATCAAAT
* ** * * *
58697179 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
*
58697233 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
58697248 GTACAATTTA
Statistics
Matches: 100, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
54 56 0.56
55 44 0.44
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:58697209 original size:82 final size:81
Alignment explanation
Indices: 58697091--58697246 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
58697081 TGCTATATAA
* * * *
58697091 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACAATTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATGAGTGCAACATAGTCA-AATCGCA
*
58697156 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * ** *
58697173 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACAATGAGTGCAACATAGTCAAATCGCA
58697237 CCCTTAGTGC
65 CCCTTAGTGC
58697247 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 17 0.27
82 46 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATGAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:58704398 original size:95 final size:95
Alignment explanation
Indices: 58704235--58704423 Score: 360
Period size: 95 Copynumber: 2.0 Consensus size: 95
58704225 TTACTTCCTC
*
58704235 ATGAAAACAGACTCATCGAGCTTCGCTTACATAATTTATTCATCAATTAATTCCACTCCTACTAT
1 ATGAAAACAGACTCATCGAGCTTCGCTTACATAATTTATTCATCAACTAATTCCACTCCTACTAT
58704300 TTTTAGTGATTTTTCAATCTCATGACACTG
66 TTTTAGTGATTTTTCAATCTCATGACACTG
*
58704330 ATGAAAACAGACTCATCGAGCTTCGCTTTCATAATTTATTCATCAACTAATTCCACTCCTACTAT
1 ATGAAAACAGACTCATCGAGCTTCGCTTACATAATTTATTCATCAACTAATTCCACTCCTACTAT
58704395 TTTTAGTGATTTTTCAATCTCATGACACT
66 TTTTAGTGATTTTTCAATCTCATGACACT
58704424 ACTGCTGCCA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (95 bp):
ATGAAAACAGACTCATCGAGCTTCGCTTACATAATTTATTCATCAACTAATTCCACTCCTACTAT
TTTTAGTGATTTTTCAATCTCATGACACTG
Found at i:58705123 original size:93 final size:93
Alignment explanation
Indices: 58704964--58705150 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 93
58704954 CCATCCTACG
58704964 ATAAATTTTATGTACGTGACTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACA
1 ATAAATTTTATGTACGTGACTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACA
58705029 CCAAGTATAAGCATAGCACCTATTAGCC
66 CCAAGTATAAGCATAGCACCTATTAGCC
* *
58705057 ATAAATTTTATGTACGTGACTTCAAGTATATTTGTCACATAGGTTCGAACTTACCGAGCTCAACA
1 ATAAATTTTATGTACGTGACTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACA
58705122 CCAAGTATAAGCATAGCACCTATTAGCC
66 CCAAGTATAAGCATAGCACCTATTAGCC
58705150 A
1 A
58705151 CGTACTCAAG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (93 bp):
ATAAATTTTATGTACGTGACTTCAAGTATAGTTGTCACATAGGTTCAAACTTACCGAGCTCAACA
CCAAGTATAAGCATAGCACCTATTAGCC
Found at i:58705276 original size:27 final size:27
Alignment explanation
Indices: 58705246--58705423 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58705236 ATATTGAGCC
* * * *
58705246 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
58705273 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58705300 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
58705328 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
58705355 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
58705382 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58705409 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58705424 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:58705385 original size:82 final size:81
Alignment explanation
Indices: 58705267--58705422 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58705257 TGCTATATAA
* *
58705267 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
58705332 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
58705349 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
58705413 CACTTAGTGC
65 CACTTAGTGC
58705423 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58709164 original size:27 final size:27
Alignment explanation
Indices: 58709134--58709192 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
58709124 CGACTTGTAA
58709134 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCGATTTACAG
***
58709161 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
58709188 AATTA
1 AATTA
58709193 TCGTTTTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Done.