Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 127 of 373
Found at i:41807458 original size:31 final size:31
Alignment explanation
Indices: 41807423--41807510 Score: 108
Period size: 31 Copynumber: 2.8 Consensus size: 31
41807413 TCACTTTTTC
* *
41807423 CTTTTTTTTCTACT-TTC-TTTTCTTTTTCTTT
1 CTTTTTTTTCT--TGTTCATTTTCATTTTCATT
41807454 CTTTTTTTTCTTGTTCATTTTCATTTTCATT
1 CTTTTTTTTCTTGTTCATTTTCATTTTCATT
* *
41807485 CTTTTTTTTCTTGTTCTTTTTAATTT
1 CTTTTTTTTCTTGTTCATTTTCATTT
41807511 GATTTTTCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 3 0.06
31 47 0.92
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (31 bp):
CTTTTTTTTCTTGTTCATTTTCATTTTCATT
Found at i:41809452 original size:50 final size:48
Alignment explanation
Indices: 41809377--41809614 Score: 206
Period size: 50 Copynumber: 4.8 Consensus size: 48
41809367 TGAATACACG
* * *
41809377 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCATACTTTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TTTTAA-TCACA
** * ** *
41809427 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TC-A-GATTTTAATCACA
* * * * *
41809478 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT-TTTA-ATCACA
* * * * *
41809528 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATT-TTAATCACA
* * *
41809577 TATGTAGTACTAATTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT
41809615 AGTTTCGGCT
Statistics
Matches: 151, Mismatches: 31, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
48 2 0.01
49 37 0.25
50 73 0.48
51 34 0.23
52 4 0.03
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTTTAATCACA
Found at i:41813238 original size:45 final size:45
Alignment explanation
Indices: 41813154--41813256 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 45
41813144 TCAGCTCGAA
* * * *
41813154 AGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCATTTCAGCTT-GT
1 AGAGCTTACTG--ATCAGCTCAATAGAGCTTACCATTTCAGCTTAAT
* *
41813200 ATGAGCTTACTGATCAGCTCAATAGAGCTTATCGTTTCAGCTTAAT
1 A-GAGCTTACTGATCAGCTCAATAGAGCTTACCATTTCAGCTTAAT
41813246 AGAGCTTACTG
1 AGAGCTTACTG
41813257 TTTATCAGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 36 0.73
46 3 0.06
47 10 0.20
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (45 bp):
AGAGCTTACTGATCAGCTCAATAGAGCTTACCATTTCAGCTTAAT
Found at i:41813259 original size:23 final size:23
Alignment explanation
Indices: 41813154--41813268 Score: 92
Period size: 23 Copynumber: 4.9 Consensus size: 23
41813144 TCAGCTCGAA
* *
41813154 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTTCAGCTTAAT
* ** *
41813178 GGAGCTTACCATTTCAGCTT-GT
1 AGAGCTTACTGTTTCAGCTTAAT
* *
41813200 ATGAGCTTACTG-ATCAGCTCAAT
1 A-GAGCTTACTGTTTCAGCTTAAT
41813223 AGAGCTTA-TCGTTTCAGCTTAAT
1 AGAGCTTACT-GTTTCAGCTTAAT
41813246 AGAGCTTACTGTTTATCAGCTTA
1 AGAGCTTACTG-TT-TCAGCTTA
41813269 GGAGGAGCTT
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
21 1 0.01
22 15 0.21
23 36 0.51
24 11 0.15
25 8 0.11
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTTAAT
Found at i:41816280 original size:27 final size:27
Alignment explanation
Indices: 41816223--41816284 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
41816213 CAAAACAGTC
* * * *
41816223 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGATATGTCGGTA
* *
41816250 ATTTTACACTACAAGGATATTTTGGTA
1 ATTTTACACTACAAGGATATGTCGGTA
41816277 ATTTTACA
1 ATTTTACA
41816285 AATCGAGGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGATATGTCGGTA
Found at i:41816457 original size:80 final size:81
Alignment explanation
Indices: 41816267--41816469 Score: 259
Period size: 80 Copynumber: 2.5 Consensus size: 81
41816257 ACTACAAGGA
* * * * *
41816267 TATTTTGGTAATTTTACAAA-TCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTCGATA
1 TATTTCGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCGATA
41816331 ATTTCACAAATAGGGAG
65 ATTTCACAAATAGGGAG
* *
41816348 TATTTCGATAATTTTACAAATCT-AAGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTCGATA
1 TATTTCGGTAATTTTACAAA-CTGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCGATA
* *
41816411 ATTTTACAAATCGGGAG
65 ATTTCACAAATAGGGAG
* **
41816428 TATTTCGGTAATTTTACAAACTGGGGGTATTTTTGTAATTTC
1 TATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTC
41816470 TCTTCATTAT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.02
80 67 0.64
81 35 0.33
83 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (81 bp):
TATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCGATAA
TTTCACAAATAGGGAG
Found at i:41816459 original size:27 final size:27
Alignment explanation
Indices: 41816267--41816447 Score: 215
Period size: 27 Copynumber: 6.7 Consensus size: 27
41816257 ACTACAAGGA
*
41816267 TATTTTGGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
*
41816294 TGTTTCGGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
* * * *
41816321 TGTTTCGATAATTTCACAAATAG-GGAG
1 TATTTCGGTAATTTTACAAATCGAGG-G
* * *
41816348 TATTTCGATAATTTTACAAATCTAAGG
1 TATTTCGGTAATTTTACAAATCGAGGG
* *
41816375 TATTTCAGTAATTTCAC-AATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
*
41816401 TATTTCGATAATTTTACAAATCG-GGAG
1 TATTTCGGTAATTTTACAAATCGAGG-G
41816428 TATTTCGGTAATTTTACAAA
1 TATTTCGGTAATTTTACAAA
41816448 CTGGGGGTAT
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 25 0.19
27 105 0.80
28 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCGAGGG
Found at i:41820373 original size:29 final size:29
Alignment explanation
Indices: 41820308--41820397 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
41820298 CACATACCTG
*
41820308 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
41820336 TATACGGCCCATTAGGCCCAAATCACGTT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
41820365 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
41820394 TATA
1 TATA
41820398 GTCATGCTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.31
29 37 0.69
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:41824357 original size:29 final size:29
Alignment explanation
Indices: 41824293--41824382 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
41824283 CGCATACCTG
*
41824293 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
41824321 TATTTGGCCCATTAGGCCCAAATCTCATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
41824350 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
41824379 TATA
1 TATA
41824383 GTCATGCGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.31
29 37 0.69
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:41824616 original size:16 final size:16
Alignment explanation
Indices: 41824595--41824637 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
41824585 GTAGTTAAAC
41824595 TTTCAGCTTTTTGGAA
1 TTTCAGCTTTTTGGAA
*
41824611 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGAA
41824627 TTTCAGCTTTT
1 TTTCAGCTTTT
41824638 GCCGATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTCAGCTTTTTGGAA
Found at i:41827734 original size:37 final size:37
Alignment explanation
Indices: 41827675--41827782 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
41827665 AGCTCAGACG
* *
41827675 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41827712 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41827749 TAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGG
41827783 GATATATTTC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41828042 original size:47 final size:47
Alignment explanation
Indices: 41827990--41828230 Score: 347
Period size: 47 Copynumber: 5.1 Consensus size: 47
41827980 CATACATATT
* ** * *
41827990 TCACATTAGCCATTCGGATTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
41828037 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
41828084 TCACATTGGCCATTCGACCCTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
41828131 TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
41828178 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
41828225 TCACAT
1 TCACAT
41828231 AAAATCCTAA
Statistics
Matches: 175, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 175 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:41828158 original size:22 final size:22
Alignment explanation
Indices: 41828130--41828201 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
41828120 GCTCACATTC
41828130 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
41828152 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
*
41828176 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
41828199 ATC
1 ATC
41828202 TCATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 13 0.34
23 7 0.18
24 7 0.18
25 11 0.29
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:41828180 original size:25 final size:25
Alignment explanation
Indices: 41828105--41828183 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
41828095 ATTCGACCCT
*
41828105 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* *
41828130 ATCACAT-T-GGCCA--TTCAGCCTT-
1 ATCACATATATG-CATGTTCA-CATTC
41828152 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
41828177 ATCACAT
1 ATCACAT
41828184 TGGCCATTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 18 0.43
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:41839378 original size:50 final size:50
Alignment explanation
Indices: 41839248--41839444 Score: 167
Period size: 49 Copynumber: 4.0 Consensus size: 50
41839238 TGATCTATTG
* * * *
41839248 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT-GCGTACCCGAAAACT
1 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATCGTGTA-CC--AGACT
* * **
41839300 GTGA--TCACTTGTGTAGTACTAAGGGCAGGCTACTATC-TGTATTAGA-T
1 -TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATCGTGTACCAGACT
41839347 GGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCAGACT
1 --TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATCGTGTACCAGACT
** * *
41839398 TTTGGTC-GGATGTGTAGTACTAAGTGCAGGCTACTAT-GCGTACCAGA
1 TGAGGTCACG-TGTGTAGTACTAAGTGCAGGCTACTATCGTGTACCAGA
41839445 TAGCTTTGGC
Statistics
Matches: 121, Mismatches: 15, Indels: 20
0.78 0.10 0.13
Matches are distributed among these distances:
47 1 0.01
48 7 0.06
49 41 0.34
50 36 0.30
51 33 0.27
53 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATCGTGTACCAGACT
Found at i:41844697 original size:43 final size:43
Alignment explanation
Indices: 41844634--41844717 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
41844624 CAACTCTGTC
*
41844634 GGAGCCATTTTGTACGGAGCTATTGATATCGATGATGTTCCCG
1 GGAGCCATTTTGTACAGAGCTATTGATATCGATGATGTTCCCG
*
41844677 GGAGCCATTTTGTACAGAGCTATTGATATCGGTGATGTTCC
1 GGAGCCATTTTGTACAGAGCTATTGATATCGATGATGTTCC
41844718 TGGTACTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
GGAGCCATTTTGTACAGAGCTATTGATATCGATGATGTTCCCG
Found at i:41870621 original size:12 final size:12
Alignment explanation
Indices: 41870604--41870629 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41870594 CATTCCGAAG
41870604 TATATATATACA
1 TATATATATACA
41870616 TATATATATACA
1 TATATATATACA
41870628 TA
1 TA
41870630 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:41876667 original size:47 final size:46
Alignment explanation
Indices: 41876598--41876961 Score: 228
Period size: 47 Copynumber: 7.8 Consensus size: 46
41876588 TTGTGCGTCG
* * *
41876598 GTGTAAGACATGTCTGGAACATGCTTCGGCCATATTATGAGAGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCA
* * * * *
41876644 GTGTAAGACCATGTCTGGGACATGGCATC-GACATCCA-AACGAGGGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAT--ATTATGAGAGCCA
*
41876692 GTGTAAGACATGTCTAGGG-CATGCATCAGCCATATTATGAGAGCCA
1 GTGTAAGACATGTCT-GGGACATGCATCGGCCATATTATGAGAGCCA
* ** *
41876738 GTGTAAGACCATGTCTGGGACATGGCATCGG-TATAGAGATGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATA-TTATGAGAGCCA
* * * *
41876786 GAGTAAGACATGTCTGGGACATGCATCAGCC-TCGA-CA-GAGACAACCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATTATGAG--AGCCA
* * * * * * *
41876833 GTGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGT-TG-TA-CTA
1 GTGTAAGACATGTCTGGGACATGCATCGGC-CATATTATGAGAGCCA
* * *
41876877 GTGTAAGACATGTTTGGGACATGCATCAGCACGCACA-TATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATC-G-GC-CATATTATGAGAGCCA
* *
41876925 GTGTAAGACCATGTCTGAGACATGTCATCGGCAATAT
1 GTGTAAGA-CATGTCTGGGACATG-CATCGGCCATAT
41876962 ATCCCATGTT
Statistics
Matches: 245, Mismatches: 45, Indels: 54
0.71 0.13 0.16
Matches are distributed among these distances:
44 26 0.11
45 7 0.03
46 44 0.18
47 91 0.37
48 58 0.24
49 15 0.06
50 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCA
Found at i:41876759 original size:94 final size:90
Alignment explanation
Indices: 41876598--41876957 Score: 338
Period size: 94 Copynumber: 3.9 Consensus size: 90
41876588 TTGTGCGTCG
* * * *
41876598 GTGTAAGACATGTCTGGAACATGCTTCGGCCATATTATGAGAGCTAGTGTAAGACCATGTCTGGG
1 GTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGAGCCAGTGTAAGACCATGTCTGGG
*
41876663 ACATGGCATCGACATCCAAACGAGGGCTA
65 ACATGGCATCGGCAT--AAA-GAGGGCTA
41876692 GTGTAAGACATGTCTAGGG-CATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 GTGTAAGACATGTCT-GGGACATGCATCAGCCATA-TATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
41876756 GACATGGCATCGGTATAGAGATGAGTGCCA
64 GACATGGCATCGGCATA-A-A-GAGGGCTA
* * * *
41876786 GAGTAAGACATGTCTGGGACATGCATCAGCC-TCGACA-GAGACAACCAGTGTAAGA-CGTGTCT
1 GTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATATGAG--AGCCAGTGTAAGACCATGTCT
* *
41876848 GGGACA-CGCATCGGC-T-AAGAGTTGTACTA
62 GGGACATGGCATCGGCATAAAGAG--G-GCTA
* *
41876877 GTGTAAGACATGTTTGGGACATGCATCAGCACGCACATATGAGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACATGTCTGGGACATGCATCAG--C-CATATATGAGAGCCAGTGTAAGACCATGTCTG
* *
41876942 AGACATGTCATCGGCA
63 GGACATGGCATCGGCA
41876958 ATATATCCCA
Statistics
Matches: 220, Mismatches: 27, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
88 3 0.01
89 1 0.00
90 1 0.00
91 29 0.13
92 14 0.06
93 29 0.13
94 128 0.58
95 15 0.07
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (90 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCCATATATGAGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCATAAAGAGGGCTA
Found at i:41876902 original size:91 final size:95
Alignment explanation
Indices: 41876735--41876955 Score: 249
Period size: 91 Copynumber: 2.4 Consensus size: 95
41876725 ATTATGAGAG
* *
41876735 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGATGAGTGCCAGAGTAAGACATGTC
1 CCAGTGTAAGACCATGTCTGGGACATCGCATCGGTATAGAGATGAGTACCAGAGTAAGACATGTC
41876800 TGGGACATGCATCAGCCTCGACAGAGACAA
66 TGGGACATGCATCAGCCTCGACAGAGACAA
* * * *
41876830 CCAGTGTAAGA-CGTGTCTGGGACA-CGCATCGGCTA-AGAG-T-TGTACTAGTGTAAGACATGT
1 CCAGTGTAAGACCATGTCTGGGACATCGCATCGG-TATAGAGATGAGTACCAGAGTAAGACATGT
* * * * *
41876890 TTGGGACATGCATCAG-CACGCACATATGAGAG
65 CTGGGACATGCATCAGCCTCG-ACAGA-GACAA
*
41876922 CCAGTGTAAGACCATGTCTGAGACAT-GTCATCGG
1 CCAGTGTAAGACCATGTCTGGGACATCG-CATCGG
41876956 CAATATATCC
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
90 3 0.03
91 35 0.33
92 15 0.14
93 23 0.21
94 20 0.19
95 11 0.10
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (95 bp):
CCAGTGTAAGACCATGTCTGGGACATCGCATCGGTATAGAGATGAGTACCAGAGTAAGACATGTC
TGGGACATGCATCAGCCTCGACAGAGACAA
Found at i:41877964 original size:43 final size:42
Alignment explanation
Indices: 41877872--41877984 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
41877862 TGAGATTTCG
** * *
41877872 TGTAAGACCACATTTGGGACA-TCGGCATCGTATATGATTTCA
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGTATATGATTACA
* * *
41877914 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGATTACA
* *
41877957 TGTAAGACCATGTTTGGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACAGTGGCAT
41877985 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 23 0.40
43 35 0.60
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
Found at i:41879179 original size:30 final size:30
Alignment explanation
Indices: 41879143--41879208 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
41879133 ATGGCCAAAG
41879143 CACACGGGCATGGTTGATAACCGTGTGAGT
1 CACACGGGCATGGTTGATAACCGTGTGAGT
*
41879173 CACACGGGCATGTTTGATAACCGTGTGAGT
1 CACACGGGCATGGTTGATAACCGTGTGAGT
41879203 CACACG
1 CACACG
41879209 AGCTGTTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (30 bp):
CACACGGGCATGGTTGATAACCGTGTGAGT
Found at i:41883781 original size:150 final size:142
Alignment explanation
Indices: 41883599--41883892 Score: 421
Period size: 150 Copynumber: 2.0 Consensus size: 142
41883589 TGAGTCAATA
*
41883599 TTTTATTATTTATAGAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAACGTTTAG
1 TTTTATTATTTATAGAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAACGATTAG
41883664 ATAGTTA-A-GTAAAAAGGACTAATTCGTAAAATCTGCAAAAGTTAGTTTCTATTAGCTATAGGT
66 ATAGTTAGACGTAAAAAGGACTAATTCGTAAAA---GC------TAGTTTCTATTAGCTA-AGGT
* *
41883727 GTTAAGTGGCTATAGAAATGTG
121 ATTAAATGGCTATAGAAATGTG
* *
41883749 TTTTATTATTTATATAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAAGGATTAG
1 TTTTATTATTTATAGAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAACGATTAG
41883814 ATAGTTAGGTACGTAAAAAGGACTAATTCGTAAAAGCTAGTTTCTATTAGCTAAGGTATTAAATG
66 ATAGTTA-G-ACGTAAAAAGGACTAATTCGTAAAAGCTAGTTTCTATTAGCTAAGGTATTAAATG
41883879 GCTATAGAAATGTG
129 GCTATAGAAATGTG
41883893 GGTTGATGGA
Statistics
Matches: 135, Mismatches: 5, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
144 24 0.18
145 16 0.12
150 69 0.51
151 2 0.01
153 1 0.01
154 23 0.17
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (142 bp):
TTTTATTATTTATAGAATTATTACAAGATCTTATTAAAATTTGGTTAGAAAATTTTAACGATTAG
ATAGTTAGACGTAAAAAGGACTAATTCGTAAAAGCTAGTTTCTATTAGCTAAGGTATTAAATGGC
TATAGAAATGTG
Found at i:41888148 original size:47 final size:47
Alignment explanation
Indices: 41888083--41888306 Score: 156
Period size: 47 Copynumber: 4.8 Consensus size: 47
41888073 ACCTTATAAG
* *
41888083 AGCCAGTGTAAGGCCATGTCTGGGACATGACATCGACATTAAGACGAT-
1 AGCCAGTGTAA-GACATGTCTGGGACATGGCATCGAC-TTAAGACGATA
* * **
41888131 AGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGAC-ATA
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATC-GACTTAAGACGATA
* * * * * *
41888177 AGCCAGTGTATGACATGTCTGAGACAT-TCATTGGC-TACGA-GATGA
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTAAGACGAT-A
** * * * * *
41888222 TAGTTAGTGTAAGACCATGTCTAGGACATGGCATCAACTTGAGA-TATG
1 -AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACTTAAGACGATA
*
41888270 AGCCAGTGTAAGACCATGTCTGGGATATGGCATCGAC
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC
41888307 ACCTTACCCA
Statistics
Matches: 135, Mismatches: 33, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
44 4 0.03
45 5 0.04
46 46 0.34
47 61 0.45
48 14 0.10
49 5 0.04
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTAAGACGATA
Found at i:41895594 original size:35 final size:35
Alignment explanation
Indices: 41895548--41895616 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
41895538 ATTAAGTGCT
* *
41895548 CTAATGGGTACCCTTGATTATGAGTTCACGGCTTA
1 CTAATGGGTACCCCTAATTATGAGTTCACGGCTTA
*
41895583 CTAATGGGTACCCCTAATTATGAGTTGACGGCTT
1 CTAATGGGTACCCCTAATTATGAGTTCACGGCTT
41895617 TCTATTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (35 bp):
CTAATGGGTACCCCTAATTATGAGTTCACGGCTTA
Found at i:41899846 original size:34 final size:34
Alignment explanation
Indices: 41899795--41899862 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
41899785 CTGTGACCGC
*
41899795 TACTGAATTGGGCTAAGGCCC-ACACTGATACTGA
1 TACTGAATTGGGCTAAGGCCCTA-ACTGAAACTGA
*
41899829 TACTGTAA-TGGGTTAAGGCCCTAACTGAAACTGA
1 TACTG-AATTGGGCTAAGGCCCTAACTGAAACTGA
41899863 GCTGTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (34 bp):
TACTGAATTGGGCTAAGGCCCTAACTGAAACTGA
Found at i:41902858 original size:46 final size:45
Alignment explanation
Indices: 41902726--41902946 Score: 171
Period size: 47 Copynumber: 4.8 Consensus size: 45
41902716 ATTATGAGAG
* * * *
41902726 CCAGTGTAAGACCATGTCTTGGACATGGCATAGGCATTGAGACGAGT-G
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TCGAGAC-A-TAA
* * *
41902774 CTAGTGTAAGACATGTC-GAGATAT-GCATCGGCCTCGAGACATAAA
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGG-CTCGAGACAT-AA
*
41902819 CCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGATAA
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGGCT-CGAGA-CATAA
* * * * * *
41902865 TCAGTGTAAGACCATGTATGGGACATGGCATCGACTTGAGATATGAG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTCGAGACAT-AA
* *
41902912 CCAGCGTAAGAACATGTTTGGGACATGGCATCGGC
1 CCAGTGTAAG-ACATGTCTGGGACATGGCATCGGC
41902947 ACCTTACCCC
Statistics
Matches: 142, Mismatches: 21, Indels: 21
0.77 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 30 0.21
46 36 0.25
47 55 0.39
48 19 0.13
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCGGCTCGAGACATAA
Found at i:41903853 original size:40 final size:42
Alignment explanation
Indices: 41903809--41903889 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
41903799 CATGTTTTTA
* *
41903809 CACATGGGCTA-GGACACGGGCATGT-CAAGGCCGTGTGAAG
1 CACATGGGCCAGGGACACGGGCATGTGCAAGGCCATGTGAAG
* *
41903849 CACATGGGCCAGGGACACGGGCGTGTGCCAGGCCATGTGAA
1 CACATGGGCCAGGGACACGGGCATGTGCAAGGCCATGTGAA
41903890 AATCCCTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 10 0.29
41 13 0.37
42 12 0.34
ACGTcount: A:0.23, C:0.25, G:0.38, T:0.14
Consensus pattern (42 bp):
CACATGGGCCAGGGACACGGGCATGTGCAAGGCCATGTGAAG
Found at i:41906040 original size:47 final size:47
Alignment explanation
Indices: 41905913--41906318 Score: 659
Period size: 47 Copynumber: 8.6 Consensus size: 47
41905903 CCCTTCGGGA
* * * * * *
41905913 CTTATCACATTTATACACTTTCACATCCATCACGTGGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
41905960 CCTATCACATAATATACACTCTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACAT-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
41906008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41906055 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41906102 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41906149 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41906196 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41906245 CTTATCACATATATACACTTTCACATTCATCACATCGGGCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41906292 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
41906319 TATTCAAATA
Statistics
Matches: 338, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 253 0.75
48 40 0.12
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41906274 original size:143 final size:142
Alignment explanation
Indices: 41905913--41906318 Score: 658
Period size: 143 Copynumber: 2.9 Consensus size: 142
41905903 CCCTTCGGGA
* * * * *
41905913 CTTATCACAT-T-TATACACTTTCACATCCATCACGTGGGCCACTCGGCCCTATCACATAATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAT-ATATA
* * *
41905976 CACTCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
41906041 ATCGGCCATTAGGC
129 ATCGGCCATTAGGC
*
41906055 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
41906118 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGC-ATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
41906183 TCGGCCATTAGGC
130 TCGGCCATTAGGC
*
41906196 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
41906261 ACTTTCACATTCATCACATCGGGCATTAGGCCTTATCACATATATACACTTTCACATT
66 ACTTTCACATTCATCACATC-GGCATTAGGCCTTATCACATATATACACTTTCACATT
41906319 TATTCAAATA
Statistics
Matches: 247, Mismatches: 11, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
140 1 0.00
141 88 0.36
142 48 0.19
143 107 0.43
144 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:41914476 original size:46 final size:46
Alignment explanation
Indices: 41914300--41914515 Score: 147
Period size: 46 Copynumber: 4.6 Consensus size: 46
41914290 ATTGTGAGCT
* * * * * * *
41914300 AGTGTAAGACATTTTTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATCATAACC
* * * * * *
41914346 AGTGTAAGACCATGTCTTGGACATGGCATAGGCATTGAGA-CGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATC-A-TAACC
* *
41914394 AGTGTAAGACATGTC-GAGATATGCATCGGCCTCGAGA-CATAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATCAT-AACC
* *
41914439 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGATAATC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATCATAACC
*
41914485 AGTGTAAGACCATGTATGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
41914516 ACTTGAGATA
Statistics
Matches: 134, Mismatches: 24, Indels: 22
0.74 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 31 0.23
46 42 0.31
47 32 0.24
48 26 0.19
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATCATAACC
Found at i:41914524 original size:47 final size:47
Alignment explanation
Indices: 41914426--41914564 Score: 140
Period size: 47 Copynumber: 3.0 Consensus size: 47
41914416 GCATCGGCCT
* * * *
41914426 CGAGACATAAACCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTA
1 CGAGATATGAACCAGTGTAAGACATGTATGGGACATGGCATCGACTA
*
41914472 CGAGATGAT-AATCAGTGTAAGACCATGTATGGGACATGGCATCGACT-
1 CGAGAT-ATGAACCAGTGTAAGA-CATGTATGGGACATGGCATCGACTA
* * ** *
41914519 TGAGATATGAGCCAACGTAAGAACATGTTTGGGACATGGCATCGAC
1 CGAGATATGAACCAGTGTAAG-ACATGTATGGGACATGGCATCGAC
41914565 ACCTTACCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
46 19 0.24
47 50 0.64
48 9 0.12
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (47 bp):
CGAGATATGAACCAGTGTAAGACATGTATGGGACATGGCATCGACTA
Found at i:41922200 original size:50 final size:47
Alignment explanation
Indices: 41922086--41922449 Score: 283
Period size: 50 Copynumber: 7.6 Consensus size: 47
41922076 AGATGCTGAC
* * * * * * *
41922086 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-ACTCTCATATCTAGGCCGAT
* *
41922134 GCCATGTCCCAAACATGGTCTTACACTGACTCTCATATACTGGGACCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-ACTCTCATAT-CTAGG-CCGAT
* * * * * *
41922184 GCCATGTCCCTGACATGGTCTTACACTAGCTCTCATCTGTCGGTGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTA-CTCTCATATCT-AG-GCCGAT
* * * * *
41922234 GCCATGTCCCA-ACATGGTCTTACACTA-ACACAAATC-AAGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTACTCTCATATCTAGGCCGAT
* *
41922278 GCCATGTCTCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTA-CTCTCATATCT--AGGCCGAT
* * * * * * *
41922328 GCCATGTCACAAACATGGTCTTACACTAGCTTTCGTCTCAACGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTA-CTCTCATATCTAGGCCGAT
*
41922376 GCCATGTCCCAGACATGGTCTTACACTTACTCTCATAATGC-A-GCCTAT
1 GCCATGTCCCAGACATGGTCTTACAC-TACTCTCAT-AT-CTAGGCCGAT
41922424 G-CATGTCCCAGACAT-GTCTTACACTA
1 GCCATGTCCCAGACATGGTCTTACACTA
41922450 GCACACATGT
Statistics
Matches: 257, Mismatches: 45, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
44 13 0.05
45 18 0.07
46 9 0.04
47 23 0.09
48 75 0.29
49 24 0.09
50 94 0.37
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTACTCTCATATCTAGGCCGAT
Found at i:41922293 original size:94 final size:97
Alignment explanation
Indices: 41922086--41922412 Score: 290
Period size: 98 Copynumber: 3.4 Consensus size: 97
41922076 AGATGCTGAC
* * * * * * * * *
41922086 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACA--TCAAAGTCGATGCCATGTCCCAAACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAATGCCATGTCACAAACA
* * * ***
41922149 TGGTCTTACACTGACTCTCATATACTGGGACCGAT
66 TGGTCTTACACTAACT-ACAAAT-CAACG-CCGAT
* * * * *
41922184 GCCATGTCCCTGACATGGTCTTACACTAGCTCTCATCTGTCG-GTGTCAATGCCATGTC-CCAAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG-GCCAATGCCATGTCACAAAC
*
41922247 ATGGTCTTACACTAAC-ACAAATCAA-GCTGAT
65 ATGGTCTTACACTAACTACAAATCAACGCCGAT
* * *
41922278 GCCATGTCTCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCCGATGCCATGTCACAAACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAATGCCATGTCACAAACA
* * ***
41922343 TGGTCTTACACTAGCTTTCGTCTCAACGCCGAT
66 TGGTCTTACACTAAC-TACAAATCAACGCCGAT
41922376 GCCATGTCCCAGACATGGTCTTACACTTA-CTCTCATA
1 GCCATGTCCCAGACATGGTCTTACAC-TAGCTCTCATA
41922413 ATGCAGCCTA
Statistics
Matches: 189, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
94 53 0.28
95 21 0.11
96 1 0.01
97 9 0.05
98 69 0.37
99 21 0.11
100 15 0.08
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (97 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAATGCCATGTCACAAACA
TGGTCTTACACTAACTACAAATCAACGCCGAT
Found at i:41922443 original size:144 final size:143
Alignment explanation
Indices: 41922086--41922451 Score: 363
Period size: 144 Copynumber: 2.5 Consensus size: 143
41922076 AGATGCTGAC
* ** * *
41922086 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAG-TCGATGCCATGTCCCAAACAT
1 GCCATGTCCC-AACATGGTCTTACACT--AACACAAATC-AAGCT-GATGCCATGTCCCAGACAT
* **
41922150 GGTCTTACACT-GACTCTCATATACTGGGACCGATGCCATGTCCCTGACATGGTCTTACACTAGC
61 GGTCTTACACTAG-CTCTCATATACTGGGACCGATGCCATGTCACAAACATGGTCTTACACTAGC
*** *
41922214 TCTCATCTGTCGGTGTCAAT
125 TCTCATC-GTCAACGCCAAT
*
41922234 GCCATGTCCCAACATGGTCTTACACTAACACAAATCAAGCTGATGCCATGTCTCAGACATGGTCT
1 GCCATGTCCCAACATGGTCTTACACTAACACAAATCAAGCTGATGCCATGTCCCAGACATGGTCT
* *
41922299 TACACTAGCTTTCATAT-CTCGAGG-CCGATGCCATGTCACAAACATGGTCTTACACTAGCTTTC
66 TACACTAGCTCTCATATACT-G-GGACCGATGCCATGTCACAAACATGGTCTTACACTAGCTCTC
* *
41922362 GTC-TCAACGCCGAT
129 ATCGTCAACGCCAAT
* *
41922376 GCCATGTCCCAGACATGGTCTTACACTTACTCTCATAATGC-AGCCT-ATG-CATGTCCCAGACA
1 GCCATGTCCCA-ACATGGTCTTACAC-TA-ACACA-AAT-CAAG-CTGATGCCATGTCCCAGACA
41922438 T-GTCTTACACTAGC
60 TGGTCTTACACTAGC
41922452 ACACATGTCA
Statistics
Matches: 188, Mismatches: 20, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
142 17 0.09
143 16 0.09
144 92 0.49
145 27 0.14
146 8 0.04
147 18 0.10
148 10 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (143 bp):
GCCATGTCCCAACATGGTCTTACACTAACACAAATCAAGCTGATGCCATGTCCCAGACATGGTCT
TACACTAGCTCTCATATACTGGGACCGATGCCATGTCACAAACATGGTCTTACACTAGCTCTCAT
CGTCAACGCCAAT
Found at i:41925345 original size:15 final size:13
Alignment explanation
Indices: 41925314--41925339 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41925304 CTACATTTGA
41925314 CACATGGCCATGT
1 CACATGGCCATGT
41925327 CACATGGCCATGT
1 CACATGGCCATGT
41925340 GTCACACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CACATGGCCATGT
Found at i:41941603 original size:40 final size:40
Alignment explanation
Indices: 41941501--41941721 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
41941491 TATTCGAATG
* * *
41941501 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
41941542 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * * *
41941582 ATATCCGGGCCAAAACTCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * * *
41941622 ATATCCGGGCGAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
41941662 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
41941701 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
41941722 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 15 0.10
40 93 0.62
41 28 0.19
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:41943650 original size:79 final size:81
Alignment explanation
Indices: 41943548--41943732 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
41943538 GCTCCTCATT
* *
41943548 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
41943611 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
41943628 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
41943692 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
41943708 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41943733 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:41943732 original size:40 final size:40
Alignment explanation
Indices: 41943548--41943732 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
41943538 GCTCCTCATT
* *
41943548 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
41943588 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
41943628 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
41943667 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
41943708 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41943733 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:41951636 original size:39 final size:40
Alignment explanation
Indices: 41951539--41951682 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
41951529 GCTCCTCGTT
* *
41951539 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAATATAGTAACTCGCA
* *
41951579 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGT-TCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCA
* * * *
41951617 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
41951658 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
41951683 CATCATTCAA
Statistics
Matches: 87, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
38 21 0.24
39 27 0.31
40 28 0.32
41 11 0.13
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:41970041 original size:7 final size:7
Alignment explanation
Indices: 41970031--41970060 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
41970021 GTTCTTGTCA
41970031 CTTGCCT
1 CTTGCCT
41970038 CTTGCCT
1 CTTGCCT
41970045 CTTGCCT
1 CTTGCCT
41970052 CTTGCCT
1 CTTGCCT
41970059 CT
1 CT
41970061 CTTACATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.43, G:0.13, T:0.43
Consensus pattern (7 bp):
CTTGCCT
Found at i:41971158 original size:29 final size:29
Alignment explanation
Indices: 41971119--41971195 Score: 154
Period size: 29 Copynumber: 2.7 Consensus size: 29
41971109 TTTGTCTCAA
41971119 ATTACATTTTAGTCACTTATGTTTGAAAT
1 ATTACATTTTAGTCACTTATGTTTGAAAT
41971148 ATTACATTTTAGTCACTTATGTTTGAAAT
1 ATTACATTTTAGTCACTTATGTTTGAAAT
41971177 ATTACATTTTAGTCACTTA
1 ATTACATTTTAGTCACTTA
41971196 CGTTATCGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (29 bp):
ATTACATTTTAGTCACTTATGTTTGAAAT
Found at i:41971353 original size:18 final size:18
Alignment explanation
Indices: 41971330--41971369 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
41971320 TAATTTTTTT
41971330 ATTAAATAAATTT-AATTA
1 ATTAAA-AAATTTAAATTA
*
41971348 ATTAAAAATTTTAAATTA
1 ATTAAAAAATTTAAATTA
41971366 ATTA
1 ATTA
41971370 CACCTTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAAAAATTTAAATTA
Found at i:41978133 original size:12 final size:12
Alignment explanation
Indices: 41978116--41978153 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
41978106 AATATATAAT
41978116 ACTATAATGTAA
1 ACTATAATGTAA
41978128 ACTATAATGTAA
1 ACTATAATGTAA
41978140 ACTATAATGTAA
1 ACTATAATGTAA
41978152 AC
1 AC
41978154 ATTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (12 bp):
ACTATAATGTAA
Found at i:41978402 original size:161 final size:161
Alignment explanation
Indices: 41978227--41978552 Score: 652
Period size: 161 Copynumber: 2.0 Consensus size: 161
41978217 AAACATTATA
41978227 TTAAAATATAAATATTTTTTAAATTTTAAAAATAATATGGACGAGCTTAAAATGGATTTAGGTTA
1 TTAAAATATAAATATTTTTTAAATTTTAAAAATAATATGGACGAGCTTAAAATGGATTTAGGTTA
41978292 GTTATTAACAAACATCAGGGAGCTTAGGCATAGCTTTAGACTTGTATATCTAGCTAGATTGAGCT
66 GTTATTAACAAACATCAGGGAGCTTAGGCATAGCTTTAGACTTGTATATCTAGCTAGATTGAGCT
41978357 TGAGCAAATGTAATGTGTGTTAATAGAATGC
131 TGAGCAAATGTAATGTGTGTTAATAGAATGC
41978388 TTAAAATATAAATATTTTTTAAATTTTAAAAATAATATGGACGAGCTTAAAATGGATTTAGGTTA
1 TTAAAATATAAATATTTTTTAAATTTTAAAAATAATATGGACGAGCTTAAAATGGATTTAGGTTA
41978453 GTTATTAACAAACATCAGGGAGCTTAGGCATAGCTTTAGACTTGTATATCTAGCTAGATTGAGCT
66 GTTATTAACAAACATCAGGGAGCTTAGGCATAGCTTTAGACTTGTATATCTAGCTAGATTGAGCT
41978518 TGAGCAAATGTAATGTGTGTTAATAGAATGC
131 TGAGCAAATGTAATGTGTGTTAATAGAATGC
41978549 TTAA
1 TTAA
41978553 GCTTAGTTTA
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 165 1.00
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (161 bp):
TTAAAATATAAATATTTTTTAAATTTTAAAAATAATATGGACGAGCTTAAAATGGATTTAGGTTA
GTTATTAACAAACATCAGGGAGCTTAGGCATAGCTTTAGACTTGTATATCTAGCTAGATTGAGCT
TGAGCAAATGTAATGTGTGTTAATAGAATGC
Found at i:41981617 original size:15 final size:15
Alignment explanation
Indices: 41981557--41981618 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
41981547 CCACCAGTTA
* *
41981557 TTAAATTTAAAAAGT
1 TTAAATATAAAAATT
41981572 TTAAATTATAAAACATT
1 TTAAA-TATAAAA-ATT
* *
41981589 ATATAAAAAGAAAAATT
1 -T-TAAATATAAAAATT
41981606 TTAAATATAAAAA
1 TTAAATATAAAAA
41981619 AATATATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
15 15 0.41
16 7 0.19
17 5 0.14
18 6 0.16
19 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAATATAAAAATT
Found at i:41981630 original size:34 final size:34
Alignment explanation
Indices: 41981565--41981630 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
41981555 TATTAAATTT
* *
41981565 AAAAAGTTTAAATTATAAAACATTATATAAAAAG
1 AAAAAGTTTAAATTATAAAAAAATATATAAAAAG
* *
41981599 AAAAATTTTAAA-TATAAAAAAATATATTAAAA
1 AAAAAGTTTAAATTATAAAAAAATATATAAAAA
41981631 CAGTGAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 17 0.61
34 11 0.39
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (34 bp):
AAAAAGTTTAAATTATAAAAAAATATATAAAAAG
Found at i:41996433 original size:93 final size:93
Alignment explanation
Indices: 41996274--41996443 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
41996264 GGATGGTTGA
* * * *
41996274 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGACCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
41996339 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* * * *
41996367 GCATCCGAACTCGTTGAGTTGAGACCGAGTTCACTTATGGATGTGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGACCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
41996432 TGAGTCCGAGTT
66 TGAGTCCGAGTT
41996444 CACTTAGGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGACCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:41996448 original size:46 final size:46
Alignment explanation
Indices: 41996278--41996449 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
41996268 GGTTGAGCAT
* * * * *
41996278 CCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
*
41996324 CCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAAC---GC
*
41996369 ATCCGAACTCGTTGAGTTGAGACCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* *
41996417 CCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41996450 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
45 2 0.02
46 54 0.52
47 24 0.23
48 3 0.03
50 5 0.05
51 7 0.07
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:42003958 original size:93 final size:93
Alignment explanation
Indices: 42003799--42003969 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
42003789 GGATGGTTGA
* ** *
42003799 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACCTATGGATGCGAACATCAGAACTCGTTGAGT
42003864 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
42003892 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGTGAACATCAGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACCTATGGATGCGAACATCAGAACTCGTTGAGT
42003957 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
42003970 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACCTATGGATGCGAACATCAGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42003972 original size:46 final size:46
Alignment explanation
Indices: 42003800--42003974 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
42003790 GATGGTTGAG
* *
42003800 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
** * * *
42003846 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGA--A
*
42003891 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGTGAA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
* *
42003939 CATCAGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
42003975 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 2 0.02
46 62 0.58
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
Found at i:42015448 original size:17 final size:19
Alignment explanation
Indices: 42015410--42015448 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
42015400 AAGAAAGAAA
*
42015410 AATAAAATTAGTAAATTAG
1 AATAAAATTAGCAAATTAG
42015429 AATAAAATTA-CAAA-TAG
1 AATAAAATTAGCAAATTAG
42015446 AAT
1 AAT
42015449 TAGATCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (19 bp):
AATAAAATTAGCAAATTAG
Found at i:42021755 original size:40 final size:40
Alignment explanation
Indices: 42021707--42022014 Score: 517
Period size: 40 Copynumber: 7.7 Consensus size: 40
42021697 GCAAACACAT
* * * * *
42021707 TTGCCTTCGGGTCTTAACCCAGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
42021747 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
42021787 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
42021827 TTGCCTTCGGATCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
42021867 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
42021907 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
42021947 TTGCCTTCGGGTCATAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
42021987 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCATAGCCCGGATATAT
42022015 TCCAATGCTC
Statistics
Matches: 257, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 257 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:42027894 original size:26 final size:27
Alignment explanation
Indices: 42027817--42027908 Score: 100
Period size: 26 Copynumber: 3.5 Consensus size: 27
42027807 ACACACCAAT
*
42027817 ATCGCAGCAAAGCTGCCAGTATCAAT-
1 ATCGCAGCAAAGCTGCCAGTATCAGTA
* *
42027843 ATCGCAGCAAAGCTGCCTGTAACAGTA
1 ATCGCAGCAAAGCTGCCAGTATCAGTA
* *
42027870 AT-GCAGTAAAGTTGCCAGTATCAGTA
1 ATCGCAGCAAAGCTGCCAGTATCAGTA
*
42027896 TATGGCA-CAAAGC
1 -ATCGCAGCAAAGC
42027909 CATGAGTAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
26 43 0.80
27 8 0.15
28 3 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (27 bp):
ATCGCAGCAAAGCTGCCAGTATCAGTA
Found at i:42028091 original size:20 final size:20
Alignment explanation
Indices: 42027899--42028079 Score: 238
Period size: 20 Copynumber: 9.1 Consensus size: 20
42027889 ATCAGTATAT
*
42027899 GGCACAAAGCCATGAGTAGC
1 GGCACAAAGCCATCAGTAGC
* *
42027919 GGCACGAAGCCGTCAGTAGC
1 GGCACAAAGCCATCAGTAGC
* * *
42027939 GGCACACAGCCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
* *
42027959 GGCCCAAAGCCATCAGTAGT
1 GGCACAAAGCCATCAGTAGC
*
42027979 GGCACAAAGCCATC-GATATC
1 GGCACAAAGCCATCAG-TAGC
*
42027999 GACACAAAGCCATCAGTAGC
1 GGCACAAAGCCATCAGTAGC
*
42028019 GGCACAAAGCCATCAGTAGT
1 GGCACAAAGCCATCAGTAGC
*
42028039 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAGTAGC
42028059 GGCACAAAGCCATCAGTAGC
1 GGCACAAAGCCATCAGTAGC
42028079 G
1 G
42028080 ACATCAAGCC
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
19 1 0.01
20 136 0.99
21 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.25, T:0.12
Consensus pattern (20 bp):
GGCACAAAGCCATCAGTAGC
Found at i:42030490 original size:23 final size:23
Alignment explanation
Indices: 42030421--42030490 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
42030411 TCATTAACAT
*
42030421 TGTTCGTAAACATGTTCAATTATA
1 TGTTCGTAAACATGTTCGATTA-A
* * * *
42030445 TGTTCATAAAGATGCTCGTTTAA
1 TGTTCGTAAACATGTTCGATTAA
*
42030468 TGTTCGTGAACATGTTCGATTAA
1 TGTTCGTAAACATGTTCGATTAA
42030491 GTTAAACGAA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (23 bp):
TGTTCGTAAACATGTTCGATTAA
Found at i:42036193 original size:28 final size:28
Alignment explanation
Indices: 42036162--42036214 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
42036152 TTTTTTATAA
42036162 AAAAAAAT-GAAAATTGTAAAAAAAACT
1 AAAAAAATAGAAAATTGTAAAAAAAACT
* *
42036189 AAAAAAATAGAAAATTTTTAAAAAAA
1 AAAAAAATAGAAAATTGTAAAAAAAA
42036215 TCTCAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.21
Consensus pattern (28 bp):
AAAAAAATAGAAAATTGTAAAAAAAACT
Found at i:42039229 original size:26 final size:26
Alignment explanation
Indices: 42039191--42039259 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
42039181 GCGGATTCTC
*
42039191 CACAGCTCATGTGAGTAGGCCCATTT
1 CACAGCTCATGTGAGCAGGCCCATTT
** *
42039217 CACAGCTTGTGTGAGCAGGCCCATTC
1 CACAGCTCATGTGAGCAGGCCCATTT
*
42039243 CATAGCTCATGTGAGCA
1 CACAGCTCATGTGAGCA
42039260 ATTACAGTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGGCCCATTT
Found at i:42049574 original size:40 final size:40
Alignment explanation
Indices: 42049528--42049711 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
42049518 CTTGCACAAG
* *
42049528 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
42049568 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
42049608 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
42049648 GCCTTTGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
42049688 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
42049712 CATTCGAATA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:42049623 original size:80 final size:79
Alignment explanation
Indices: 42049492--42049711 Score: 257
Period size: 80 Copynumber: 2.8 Consensus size: 79
42049482 ACCCAAGTAT
* * * * * *
42049492 CTTCGGGATTTAGCTGGATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
42049556 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
42049570 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
42049635 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * * *
42049650 CTT-TGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
42049712 CATTCGAATA
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 12 0.10
79 20 0.16
80 90 0.74
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:42055534 original size:17 final size:17
Alignment explanation
Indices: 42055512--42055544 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42055502 TTTTATTTCT
42055512 TTTATTTCTATTTTTTG
1 TTTATTTCTATTTTTTG
*
42055529 TTTATTTTTATTTTTT
1 TTTATTTCTATTTTTT
42055545 AAATTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTATTTCTATTTTTTG
Found at i:42055540 original size:32 final size:31
Alignment explanation
Indices: 42055499--42055558 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
42055489 ATAAATATGA
*
42055499 TATTTTTATTTCTTT-TATTTCTATTTTTTGTT
1 TATTTTTATTT-TTTAAATTTCT-TTTTTTGTT
42055531 TATTTTTATTTTTTAAATTTCTTTTTTT
1 TATTTTTATTTTTTAAATTTCTTTTTTT
42055559 ACTTTGTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (31 bp):
TATTTTTATTTTTTAAATTTCTTTTTTTGTT
Found at i:42063076 original size:42 final size:41
Alignment explanation
Indices: 42062946--42063100 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 41
42062936 TACCATACCA
* *
42062946 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* * * * * *
42062988 GTGCCAATAACCCAGTTATGGCCTTACATGAAATCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* * *
42063031 ATGCCATATCTCAGATATAGTCTTACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAA-TCTCATATCG
42063073 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
42063101 ATAGACTTAG
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 2 0.02
42 56 0.60
43 35 0.38
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:42064942 original size:25 final size:25
Alignment explanation
Indices: 42064890--42065300 Score: 188
Period size: 25 Copynumber: 16.6 Consensus size: 25
42064880 AAACCAAACC
* **
42064890 AAGCCTTTGTGGCATGA-CAACTGGG
1 AAGCCTTTGTGGCA-GATCATCTATG
* *
42064915 AAGCCTTTATGGCGGATCATCTATG
1 AAGCCTTTGTGGCAGATCATCTATG
* *
42064940 AAGCCTTTGTAGC-GAGTCATCTACG
1 AAGCCTTTGTGGCAGA-TCATCTATG
* * * * *
42064965 AAGCCTTTATGGCAAATTATCTGTA
1 AAGCCTTTGTGGCAGATCATCTATG
*
42064990 AAGCCTTTATGGCAAGA-CATCTGA-G
1 AAGCCTTTGTGGC-AGATCATCT-ATG
* * * * *
42065015 AAGCCTTTATGG-TGAATAATCTGTA
1 AAGCCTTTGTGGCAG-ATCATCTATG
* * * *
42065040 AAGACTTTGTGGCAGATAATCTGTA
1 AAGCCTTTGTGGCAGATCATCTATG
* * **
42065065 AAGCCTTTCTGGC-GAGTCATTTGGG
1 AAGCCTTTGTGGCAGA-TCATCTATG
* **
42065090 AAGCCTTTTTGGTGGATCATCGTA--
1 AAGCCTTTGTGGCAGATCATC-TATG
* *
42065114 AAGCCTTTGTGAC-GAGTCATCTAGG
1 AAGCCTTTGTGGCAGA-TCATCTATG
* * *
42065139 AAG-CTTTGTGGCAGATCATTTGTA
1 AAGCCTTTGTGGCAGATCATCTATG
* * *
42065163 AATCCTTTGTAGCAAGA-CATCTAAG
1 AAGCCTTTGTGGC-AGATCATCTATG
* *
42065188 AAGCCTTTGTGG-TGAGTCATCTAGG
1 AAGCCTTTGTGGCAGA-TCATCTATG
* * * *
42065213 AAG-CTTTATGGCAGATCATTTGTA
1 AAGCCTTTGTGGCAGATCATCTATG
*
42065237 AAGCCTTTGTGGCAAGA-CATCTAGG
1 AAGCCTTTGTGGC-AGATCATCTATG
*
42065262 AAGCCTTTTTGGCAAGA-CATCT-TGG
1 AAGCCTTTGTGGC-AGATCATCTAT-G
42065287 AAGCCTTTGTGGCA
1 AAGCCTTTGTGGCA
42065301 AGTCATCCGG
Statistics
Matches: 294, Mismatches: 68, Indels: 49
0.72 0.17 0.12
Matches are distributed among these distances:
23 7 0.02
24 53 0.18
25 221 0.75
26 13 0.04
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (25 bp):
AAGCCTTTGTGGCAGATCATCTATG
Found at i:42065164 original size:49 final size:50
Alignment explanation
Indices: 42065044--42065199 Score: 156
Period size: 49 Copynumber: 3.2 Consensus size: 50
42065034 TCTGTAAAGA
* * * * * *
42065044 CTTTGTGGCAGATAATCTGTAAAGCCTTTCTGGCGAGTCATTTGGGAAGC
1 CTTTGTGGCAGATCATTTGTAAAGCCTTTGTGACGAGTCATCTAGGAAGC
* ** *
42065094 CTTTTTGGTGGATCA-TCGTAAAGCCTTTGTGACGAGTCATCTAGGAAG-
1 CTTTGTGGCAGATCATTTGTAAAGCCTTTGTGACGAGTCATCTAGGAAGC
* * * *
42065142 CTTTGTGGCAGATCATTTGTAAATCCTTTGT-AGCAAGACATCTAAGAAGC
1 CTTTGTGGCAGATCATTTGTAAAGCCTTTGTGA-CGAGTCATCTAGGAAGC
42065192 CTTTGTGG
1 CTTTGTGG
42065200 TGAGTCATCT
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
48 13 0.15
49 53 0.62
50 19 0.22
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (50 bp):
CTTTGTGGCAGATCATTTGTAAAGCCTTTGTGACGAGTCATCTAGGAAGC
Found at i:42065194 original size:74 final size:74
Alignment explanation
Indices: 42065114--42065300 Score: 275
Period size: 74 Copynumber: 2.5 Consensus size: 74
42065104 GATCATCGTA
* *
42065114 AAGCCTTTGTGACGAGTCATCTAGGAAGCTTTGTGGCAGATCATTTGTAAATCCTTTGTAGCAAG
1 AAGCCTTTGTGGCGAGTCATCTAGGAAGCTTTGTGGCAGATCATTTGTAAAGCCTTTGTAGCAAG
42065179 ACATCTAAG
66 ACATCTAAG
* * *
42065188 AAGCCTTTGTGGTGAGTCATCTAGGAAGCTTTATGGCAGATCATTTGTAAAGCCTTTGTGGCAAG
1 AAGCCTTTGTGGCGAGTCATCTAGGAAGCTTTGTGGCAGATCATTTGTAAAGCCTTTGTAGCAAG
*
42065253 ACATCTAGG
66 ACATCTAAG
* * * *
42065262 AAGCCTTTTTGGCAAGACATCTTGGAAGCCTTTGTGGCA
1 AAGCCTTTGTGGCGAGTCATCTAGGAAG-CTTTGTGGCA
42065301 AGTCATCCGG
Statistics
Matches: 100, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 91 0.91
75 9 0.09
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (74 bp):
AAGCCTTTGTGGCGAGTCATCTAGGAAGCTTTGTGGCAGATCATTTGTAAAGCCTTTGTAGCAAG
ACATCTAAG
Found at i:42065244 original size:49 final size:50
Alignment explanation
Indices: 42065174--42065317 Score: 161
Period size: 50 Copynumber: 2.9 Consensus size: 50
42065164 ATCCTTTGTA
* **
42065174 GCAAGACATC-TAAGAAGCCTTTGTGGTGAGTCATCTAGGAAG-CTTTATG
1 GCAAGACATCTTGA-AAGCCTTTGTGGCAAGTCATCTAGGAAGCCTTTATG
* *
42065223 GC-AGATCAT-TTGTAAAGCCTTTGTGGCAAGACATCTAGGAAGCCTTTTTG
1 GCAAGA-CATCTTG-AAAGCCTTTGTGGCAAGTCATCTAGGAAGCCTTTATG
* **
42065273 GCAAGACATCTTGGAAGCCTTTGTGGCAAGTCATCCGGGAAGCCT
1 GCAAGACATCTTGAAAGCCTTTGTGGCAAGTCATCTAGGAAGCCT
42065318 GTAAGGTGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
48 3 0.04
49 31 0.39
50 40 0.50
51 6 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
GCAAGACATCTTGAAAGCCTTTGTGGCAAGTCATCTAGGAAGCCTTTATG
Found at i:42073424 original size:43 final size:43
Alignment explanation
Indices: 42073376--42073577 Score: 284
Period size: 43 Copynumber: 4.7 Consensus size: 43
42073366 TATGTGTGTG
* *
42073376 CGTGTAAGACCACGTCTGGAACGTTAGG-ATTGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTT-GGCATCGATATGTGATTA
* *
42073419 CGTGTAAGACCATGTCTGGGACGTTGGCATCGTTATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
42073462 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* *
42073505 TGTGTAAGACC-CTGACTGGGACAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTA
* *
42073548 CATGTAAGACCACGTCTGAGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
42073578 TGTACGATAT
Statistics
Matches: 142, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
42 4 0.03
43 136 0.96
44 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:42075448 original size:47 final size:46
Alignment explanation
Indices: 42075200--42075519 Score: 168
Period size: 47 Copynumber: 6.8 Consensus size: 46
42075190 GGGATAAGTT
* * *
42075200 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTA-TCATCATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATAAT-GTG
* * * * * * *
42075249 GCTGATGCCATGTCCCAGACATGGTCCTATAGTAGCTCTCGTATATACGT-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTC--ATA-ATGTG
* * * * * *
42075299 GCTGATGCATGTCCCAGACATGTTTTACACTAGCA--CA-ACTCTTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAAT-GTG
* ** * ** *
42075343 GCCGATGCGTGTCCCAGACACATCTTACTCTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATAAT-GTG
* * * * * *
42075390 GTCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGT-CTCTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTG
**
42075435 TGCCGATGCCATGTCCCAGACATTGTCTTTTACTGGCACTCATAATGTG
1 -GCCGATG-CATGTCCCAGACA-TGTCTTACACTGGCACTCATAATGTG
*
42075484 GCTGATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
42075520 ACTAGAAATT
Statistics
Matches: 205, Mismatches: 52, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
43 2 0.01
44 28 0.14
45 2 0.01
46 25 0.12
47 57 0.28
48 31 0.15
49 49 0.24
50 7 0.03
51 3 0.01
52 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTG
Found at i:42075893 original size:30 final size:30
Alignment explanation
Indices: 42075859--42075915 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
42075849 ATCTTTGAAG
*
42075859 AAAATGACCATTTTGCCCCTAAACTTTGGC
1 AAAATGACCATTTTACCCCTAAACTTTGGC
*
42075889 AAAATGACCATTTTACCCCTATACTTT
1 AAAATGACCATTTTACCCCTAAACTTT
42075916 AAAATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (30 bp):
AAAATGACCATTTTACCCCTAAACTTTGGC
Found at i:42082271 original size:42 final size:41
Alignment explanation
Indices: 42082169--42082321 Score: 130
Period size: 43 Copynumber: 3.6 Consensus size: 41
42082159 CTGTGACATT
* * * *
42082169 GTGTAAGACCGTGTCTAGGACA-CAGGCCTCGATTGAGATTTAC
1 GTGTAAGACCCTGTCTGGGACATC-GGCATCGATT-TGATTT-C
* * *
42082212 GTATAAGACCATATCTGGGACATCGGCATCGTATTTGATTTC
1 GTGTAAGACCCTGTCTGGGACATCGGCATCG-ATTTGATTTC
** *
42082254 GTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTAC
1 GTGTAAGACCCTGTCTGGGACATCGGCATCGAT-TTG-ATTTC
*
42082297 ATGTAAGACCAC-GTCTGGGACATCG
1 GTGTAAGACC-CTGTCTGGGACATCG
42082322 ACATTGTACT
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 30 0.33
43 53 0.59
44 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (41 bp):
GTGTAAGACCCTGTCTGGGACATCGGCATCGATTTGATTTC
Found at i:42082314 original size:85 final size:85
Alignment explanation
Indices: 42082169--42082336 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
42082159 CTGTGACATT
* * * *
42082169 GTGTAAGACCGTGTCTAGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATATCTGGGACA
1 GTGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACATATAAGACCACATCTGGGACA
* *
42082234 TCGGCATCGTATTTGATTTC
66 TCGACATCGTACTTGATTTC
* * * *
42082254 GTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTGGGA
1 GTGTAAGACCCTGTCTAGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACATCTGGGA
*
42082317 CATCGACATTGTACTTGATT
64 CATCGACATCGTACTTGATT
42082337 ATGAGCATCT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 64 0.91
86 1 0.01
87 5 0.07
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (85 bp):
GTGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACATATAAGACCACATCTGGGACA
TCGACATCGTACTTGATTTC
Found at i:42096263 original size:32 final size:32
Alignment explanation
Indices: 42096227--42096311 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
42096217 CCTATTACAG
* * **
42096227 TATCAATTGGGCCTAGCCCATCTCAGAATTAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
42096259 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
42096291 TATCAGTTGGGCCTAGCCCAT
1 TATCAGTTGGGCCTAGCCCAT
42096312 TTCAATTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (32 bp):
TATCAGTTGGGCCTAGCCCATATCAGAACCAA
Found at i:42108299 original size:22 final size:22
Alignment explanation
Indices: 42108266--42108309 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
42108256 AAGGGATTTC
42108266 AACAATAATGGGTTA-TGGGTT
1 AACAATAATGGGTTATTGGGTT
42108287 AACAATGAATGGGTTATTGGGTT
1 AACAAT-AATGGGTTATTGGGTT
42108310 TGAGGTGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.34
Consensus pattern (22 bp):
AACAATAATGGGTTATTGGGTT
Found at i:42114356 original size:14 final size:14
Alignment explanation
Indices: 42114339--42114368 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
42114329 ACTAAATTGC
*
42114339 AAATAAATAATTTA
1 AAATAAAAAATTTA
42114353 AAATAAAAAATTTA
1 AAATAAAAAATTTA
42114367 AA
1 AA
42114369 TTGCAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAAAAATTTA
Found at i:42120915 original size:18 final size:18
Alignment explanation
Indices: 42120892--42120933 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
42120882 CGGGTGTGTG
42120892 ACACGGCTGTGTGGCCCA
1 ACACGGCTGTGTGGCCCA
42120910 ACACGGCTGTGTGGCCCA
1 ACACGGCTGTGTGGCCCA
42120928 ACACGG
1 ACACGG
42120934 GCCTAAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.14
Consensus pattern (18 bp):
ACACGGCTGTGTGGCCCA
Found at i:42121654 original size:10 final size:10
Alignment explanation
Indices: 42121639--42121681 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
42121629 ATTTTTCTTG
*
42121639 TTTGATTTCA
1 TTTGATTTTA
*
42121649 TTTGATTTGA
1 TTTGATTTTA
*
42121659 TCTGATTTTA
1 TTTGATTTTA
*
42121669 TTTTATTTTA
1 TTTGATTTTA
42121679 TTT
1 TTT
42121682 TTCATTAGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.19, C:0.05, G:0.09, T:0.67
Consensus pattern (10 bp):
TTTGATTTTA
Found at i:42123208 original size:6 final size:6
Alignment explanation
Indices: 42123188--42123253 Score: 91
Period size: 6 Copynumber: 11.3 Consensus size: 6
42123178 ATTGAGTCCA
*
42123188 TTTA-T TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
42123234 TTTATG TTTATT GTTATT TT
1 TTTATT TTTATT TTTATT TT
42123254 CTTAAGATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
5 9 0.16
6 47 0.84
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:42131047 original size:40 final size:40
Alignment explanation
Indices: 42130986--42131179 Score: 318
Period size: 40 Copynumber: 4.9 Consensus size: 40
42130976 ATTCGGATTG
*
42130986 ATAACTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
42131025 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
42131065 ATAATCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
42131105 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
42131145 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
42131180 AAGCTATGTG
Statistics
Matches: 144, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.08
40 132 0.92
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:42134144 original size:94 final size:97
Alignment explanation
Indices: 42133846--42134164 Score: 304
Period size: 94 Copynumber: 3.4 Consensus size: 97
42133836 TGGGTAAAGT
* * * **
42133846 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTTCAAGGCTGTTGCCATGTTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-ACTCATC-TCAATGCTGATGCCATGTCC
*
42133910 CAGACATGGTCTTACACTAGCTCTCACATAACCGT-
64 CAGACATGGTCTTACACTGGCTCT-ACATAA-CGTG
* * * * *
42133945 GTCGATGCCATGTCCCAGACATGGTCTTACAAT-G-ACACATCTC-GTAGCCGATG-CATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAAT-GCTGATGCCATGTCCC
* * ** *
42134006 AGACAT-GTCTTATACTGGCT-TACGTCCCGAG
65 AGACATGGTCTTACACTGGCTCTACATAACGTG
** *
42134037 GCTAATG-CGTGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAATGCTGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATGCTGATGCCATGTCCCA
* *
42134100 AACATGGTCTTACACTGGCTCT-CATAATGTG
66 GACATGGTCTTACACTGGCTCTACATAACGTG
*
42134131 GCCGATG-CATGTCCCAGACAT-GTCTTACAGTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
42134165 TCACACAAAT
Statistics
Matches: 177, Mismatches: 34, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
90 9 0.05
91 16 0.09
92 21 0.12
93 15 0.08
94 59 0.33
95 13 0.07
96 8 0.05
97 4 0.02
98 1 0.01
99 31 0.18
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAATGCTGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCTACATAACGTG
Found at i:42135029 original size:7 final size:7
Alignment explanation
Indices: 42135019--42135043 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42135009 ATCATTTCCT
42135019 TTTTCTA
1 TTTTCTA
42135026 TTTTCTA
1 TTTTCTA
42135033 TTTTCTA
1 TTTTCTA
42135040 TTTT
1 TTTT
42135044 AGTCAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTA
Found at i:42135196 original size:21 final size:21
Alignment explanation
Indices: 42135166--42135207 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42135156 TTTAGGTTCT
*
42135166 CTATCTATTTAACACCTTTAC
1 CTATCAATTTAACACCTTTAC
* *
42135187 CTATCAATTTAAGACTTTTAC
1 CTATCAATTTAACACCTTTAC
42135208 ATTTTATGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (21 bp):
CTATCAATTTAACACCTTTAC
Found at i:42141817 original size:30 final size:30
Alignment explanation
Indices: 42141783--42141839 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
42141773 TTCCCGAGCC
42141783 TAGGGGCAAAAGTGTAAATATACAAAATTT
1 TAGGGGCAAAAGTGTAAATATACAAAATTT
* * *
42141813 TAGGGGCAAAATTGTAATTTTACAAAA
1 TAGGGGCAAAAGTGTAAATATACAAAA
42141840 GTTTGAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATACAAAATTT
Found at i:42149262 original size:49 final size:49
Alignment explanation
Indices: 42149190--42149377 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
42149180 TGAGGTCACG
**
42149190 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * ***
42149239 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
42149290 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
42149339 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
42149378 GCTTTGGCTA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 75 0.65
50 2 0.02
51 39 0.34
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:42149362 original size:100 final size:100
Alignment explanation
Indices: 42149189--42149372 Score: 323
Period size: 100 Copynumber: 1.8 Consensus size: 100
42149179 GTGAGGTCAC
**
42149189 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
42149254 GCAGGCTACTATGCGTACCCGAAAACTGTGATCAT
66 GCAGGCTACTATGCGTACCCGAAAACTGTGATCAT
* *
42149289 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTTGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
42149354 GCAGGCTACTATGTGTACC
66 GCAGGCTACTATGCGTACC
42149373 AGATAGCTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCCGAAAACTGTGATCAT
Found at i:42157699 original size:50 final size:49
Alignment explanation
Indices: 42157575--42157853 Score: 192
Period size: 46 Copynumber: 5.9 Consensus size: 49
42157565 TGGGTAAAGT
*
42157575 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAG
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTTCGAG
* * * *
42157624 GCCGATGCCATGTCGCAGACATGGTCTTACACTAGCTCTCA-CATAATC-AT
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-T--TCGAG
* *
42157674 GCTAATGCCATGTCCCAAACATGGTCTTACACT-GAC-A-CATC-TCGTA-
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTTCG-AG
** * * * *
42157720 GCTGATG-CATGTCCCAGACAT-GTCTTATACTGGCT-T-ATGTACCGAG
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCT-TCGAG
* * * *
42157766 GCTAATG-CATGTTCCAGACAT-GTCTTACACTAGC-ACTCATC-TCAAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTTCGAG
* * * * *
42157812 GCCGATGCCATGTCCCTGATATGGTCTTACACTGGCTCTCAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT
42157854 AATGTGGTCG
Statistics
Matches: 181, Mismatches: 30, Indels: 39
0.72 0.12 0.16
Matches are distributed among these distances:
44 12 0.07
45 17 0.09
46 45 0.25
47 13 0.07
48 21 0.12
49 40 0.22
50 31 0.17
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTTCGAG
Found at i:42157808 original size:92 final size:94
Alignment explanation
Indices: 42157578--42157848 Score: 257
Period size: 99 Copynumber: 2.9 Consensus size: 94
42157568 GTAAAGTGCC
* * * * *
42157578 AATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCCGATGCCATGTCGCAGA
1 AATGCCATGTCCCAAACATGGTCTTACACTGAC-A-CATC-TCAATGCCGATGCCATGTCCCAGA
* ** * *
42157643 CATGGTCTTACACTAGCTCTCACATAATC-ATGCT
63 CATGGTCTTACACTGGCT-T-ATGT-ACCGAGGCT
* *
42157677 AATGCCATGTCCCAAACATGGTCTTACACTGACACATCTC-GTAGCTGATG-CATGTCCCAGACA
1 AATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCAAT-GCCGATGCCATGTCCCAGACA
*
42157740 T-GTCTTATACTGGCTTATGTACCGAGGCT
65 TGGTCTTACACTGGCTTATGTACCGAGGCT
* * * * *
42157769 AATG-CATGTTCCAGACAT-GTCTTACACTAGCACTCATCTCAATGCCGATGCCATGTCCCTGAT
1 AATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCTCAATGCCGATGCCATGTCCCAGAC
42157832 ATGGTCTTACACTGGCT
64 ATGGTCTTACACTGGCT
42157849 CTCATAATGT
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
90 10 0.07
91 15 0.10
92 24 0.17
93 14 0.10
94 25 0.17
95 13 0.09
96 8 0.06
97 4 0.03
98 1 0.01
99 31 0.21
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (94 bp):
AATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCAATGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTTATGTACCGAGGCT
Found at i:42157837 original size:138 final size:143
Alignment explanation
Indices: 42157583--42157845 Score: 326
Period size: 138 Copynumber: 1.9 Consensus size: 143
42157573 GTGCCAATGC
* *
42157583 CATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCCGATGCCATGTCGCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATCTCCGAGGCCAATGCCATGTCGCAGACATGG
* *
42157648 TCTTACACTAGCTCTCACATAATCATGCTAATGCCATGTCCCAAACATGGTCTTACACTGACACA
66 TCTTACACTAGCACTCACATAA-CATGCCAATGCCATGTCCCAAACATGGTCTTACACTGACACA
42157713 TCTCGTAGCTGATG
130 TCTCGTAGCTGATG
* * *
42157727 CATGTCCCAGACAT-GTCTTATACTGGCT-T-ATGTACCGAGGCTAATG-CATGTTC-CAGACAT
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATCT-CCGAGGCCAATGCCATG-TCGCAGACAT
* * ** *
42157787 -GTCTTACACTAGCACTCATC-TCA-ATGCCGATGCCATGTCCCTGATATGGTCTTACACTG
64 GGTCTTACACTAGCACTCA-CATAACATGCCAATGCCATGTCCCAAACATGGTCTTACACTG
42157846 GCTCTCATAA
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
138 31 0.30
140 19 0.18
141 15 0.14
142 12 0.12
143 13 0.12
144 14 0.13
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (143 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCATCTCCGAGGCCAATGCCATGTCGCAGACATGG
TCTTACACTAGCACTCACATAACATGCCAATGCCATGTCCCAAACATGGTCTTACACTGACACAT
CTCGTAGCTGATG
Found at i:42161856 original size:3 final size:3
Alignment explanation
Indices: 42161791--42161840 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
42161781 AGACTTAAAA
*
42161791 AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
42161839 AA
1 AA
42161841 ACTGAGTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:42165060 original size:47 final size:47
Alignment explanation
Indices: 42165006--42165257 Score: 389
Period size: 47 Copynumber: 5.4 Consensus size: 47
42164996 TTAGGATTTT
** * * **
42165006 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
42165053 ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
42165100 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
42165147 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
42165194 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
42165241 ATGTGATGAATGT-AACA
1 ATGTGATGAATGTGAACA
42165258 CCCCGTACCC
Statistics
Matches: 191, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
46 4 0.02
47 187 0.98
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:42165128 original size:25 final size:24
Alignment explanation
Indices: 42165100--42165225 Score: 86
Period size: 25 Copynumber: 5.3 Consensus size: 24
42165090 CGAATGGCCA
42165100 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAA-ATGCATAT
* * * *
42165125 ATGTGAT-AAGGCCG-AATGGACA-
1 ATGTGATGAATG-TGAAATGCATAT
42165147 ATGTGATGAATGTGAATATGCATAT
1 ATGTGATGAATGTGAA-ATGCATAT
* * *
42165172 ATGTGAT-AAGGCCG-AATGGC-CA-
1 ATGTGATGAATG-TGAAAT-GCATAT
42165194 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAA-ATGCATAT
42165219 ATGTGAT
1 ATGTGAT
42165226 AAGGTAGAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 24
0.66 0.12 0.21
Matches are distributed among these distances:
22 16 0.21
23 18 0.24
24 18 0.24
25 23 0.31
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (24 bp):
ATGTGATGAATGTGAAATGCATAT
Found at i:42165153 original size:22 final size:22
Alignment explanation
Indices: 42165125--42165200 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
42165115 ACATGCATAT
42165125 ATGTGATAAGGCCGAATGGACA
1 ATGTGATAAGGCCGAATGGACA
* * * *
42165147 ATGTGATGAATG-TGAATATGCATA
1 ATGTGAT-AAGGCCG-A-ATGGACA
*
42165171 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGACA
42165194 ATGTGAT
1 ATGTGAT
42165201 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 9 0.22
25 8 0.20
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGACA
Found at i:42166719 original size:79 final size:81
Alignment explanation
Indices: 42166610--42166792 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
42166600 TACTCGTTCA
* *
42166610 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
42166673 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
42166690 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
42166753 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
42166769 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42166793 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:42166792 original size:40 final size:40
Alignment explanation
Indices: 42166589--42166792 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
42166579 CGGAATTTAA
** *
42166589 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42166629 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42166669 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
42166708 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
42166748 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42166788 CCGGA
1 CCGGA
42166793 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42174329 original size:40 final size:40
Alignment explanation
Indices: 42174280--42174483 Score: 175
Period size: 40 Copynumber: 5.1 Consensus size: 40
42174270 CAGAATTTAA
** *
42174280 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
42174320 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * * *
42174360 CCGGATTTAGTAACTCACACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * **
42174399 CCGGA-ATTAGTAACTCGCAAAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CATAAC
* * * *
42174439 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACATAAC
42174479 CCGGA
1 CCGGA
42174484 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.22
40 94 0.68
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:42174401 original size:79 final size:80
Alignment explanation
Indices: 42174301--42174483 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
42174291 TACTCGTTCA
* * *
42174301 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCAAAAATGCCTTC-GGATCTTAACCCGG
*
42174364 ATTTAGTAACTCA-CACC
64 ATATAGTAACTCAGCA-C
**
42174381 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGATCTTAACCCGGAT
* *
42174445 ATAGTCACTTAGCAC
66 ATAGTAACTCAGCAC
*
42174460 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42174484 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 61 0.68
80 26 0.29
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTCAGCAC
Found at i:42176251 original size:46 final size:46
Alignment explanation
Indices: 42176184--42176320 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
42176174 GGAAGTGTAT
*
42176184 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCTGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
42176230 ATATGAGGTAAAGCTGAATGGCGAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCTGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
42176276 ATATGTGGTAAAGCTAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCTGAATGGCTAATGCGAAATGTGTATGAGATG
42176321 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCTGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:42180352 original size:27 final size:27
Alignment explanation
Indices: 42180322--42180499 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42180312 ATATTGAGCC
* * * *
42180322 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42180349 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42180376 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42180404 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42180431 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42180458 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42180485 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42180500 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:42180461 original size:82 final size:81
Alignment explanation
Indices: 42180343--42180498 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42180333 TGCTATATAA
* *
42180343 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42180408 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42180425 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42180489 CACTTAGTGC
65 CACTTAGTGC
42180499 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:42183117 original size:22 final size:21
Alignment explanation
Indices: 42183087--42183145 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
42183077 ATACAATCGT
*
42183087 AGATTTGATATGTAATCTTAGG
1 AGATTTGATTTGTAATCTTA-G
*
42183109 AGATATGATTTTGTAAATCTTAG
1 AGATTTGA-TTTGT-AATCTTAG
42183132 AGATTTGATTTGTA
1 AGATTTGATTTGTA
42183146 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:42189331 original size:27 final size:27
Alignment explanation
Indices: 42189301--42189477 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
42189291 TATTGAGCCT
* * * *
42189301 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
42189328 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
*
42189355 ACACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
42189383 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
42189410 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
42189437 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
42189464 GCACACTTAGTGCT
1 GCACACTTAGTGCT
42189478 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:42189442 original size:82 final size:81
Alignment explanation
Indices: 42189321--42189476 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42189311 TGCTATATAA
* *
42189321 TCAACTCGCACACTTAGTGCTACGTAATCAAATCACACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAA-TCGCA
42189386 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
42189403 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCA
42189467 CACTTAGTGC
65 CACTTAGTGC
42189477 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42192093 original size:22 final size:21
Alignment explanation
Indices: 42192063--42192121 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
42192053 ATACAATCGT
*
42192063 AGATTTGATATGTAATCTTAGG
1 AGATTTGATTTGTAATCTTA-G
*
42192085 AGATATGATTTTGTAAATCTTAG
1 AGATTTGA-TTTGT-AATCTTAG
42192108 AGATTTGATTTGTA
1 AGATTTGATTTGTA
42192122 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:42205054 original size:19 final size:18
Alignment explanation
Indices: 42205010--42205057 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
42205000 AAATCTTAAT
* *
42205010 TTTTTATAATTTATATTA
1 TTTTTATAATTTAAAATA
42205028 -TTTTATAATTTAAAATA
1 TTTTTATAATTTAAAATA
42205045 TTTATTATAATTT
1 TTT-TTATAATTT
42205058 CTTAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 15 0.58
18 2 0.08
19 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTAAAATA
Found at i:42205330 original size:15 final size:16
Alignment explanation
Indices: 42205293--42205329 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
42205283 AATGTAGAGA
42205293 AAAAAATATCAAATTC
1 AAAAAATATCAAATTC
42205309 AAAAAATATCAAATTC
1 AAAAAATATCAAATTC
42205325 AAAAA
1 AAAAA
42205330 TTAAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAAATATCAAATTC
Found at i:42215042 original size:43 final size:42
Alignment explanation
Indices: 42214954--42215072 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
42214944 TGAGATTACG
* * * * * * *
42214954 TGTAAAACCATATCTAGAATATGGCGTCGATATGAGACTTCA
1 TGTAAGACCATAGCTGGGATATGGCATTGATATGAGACCTCA
* *
42214996 TGTAAGCCCATAGCTGGGCTAGTGGCATTGATATGAGATCCT-A
1 TGTAAGACCATAGCTGGGATA-TGGCATTGATATGAGA-CCTCA
* *
42215039 TGTAAGACCATATCTGGGATATGGCATTGGTATG
1 TGTAAGACCATAGCTGGGATATGGCATTGATATG
42215073 GTGCTATGAG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 27 0.44
43 33 0.53
44 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGATATGGCATTGATATGAGACCTCA
Found at i:42215996 original size:11 final size:11
Alignment explanation
Indices: 42215980--42216004 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
42215970 ATATGATATT
42215980 TTATTATTTTA
1 TTATTATTTTA
42215991 TTATTATTTTA
1 TTATTATTTTA
42216002 TTA
1 TTA
42216005 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:42217976 original size:55 final size:54
Alignment explanation
Indices: 42217888--42218145 Score: 262
Period size: 55 Copynumber: 4.9 Consensus size: 54
42217878 CATTAGGGTT
* *
42217888 CAAGGATACCATGTAAGACCATGCCAAGGCATGGAAGTTGGTAAGGTCTCTAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCA-TTGGTAAGGTCTCTAAGG
* * * * * *
42217943 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT-CTCTAAGG
* * *
42217998 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-G-CTCATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTC-TAAGG
* * *
42218051 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAA-GTTTC-AA--
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTCTAAGG
* * * *
42218101 -AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAGGT
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT
42218146 ACCCTCGTAT
Statistics
Matches: 171, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
50 2 0.01
52 8 0.05
53 39 0.23
54 10 0.06
55 69 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTCTCTAAGG
Found at i:42218095 original size:108 final size:110
Alignment explanation
Indices: 42217896--42218096 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
42217886 TTCAAGGATA
*
42217896 CCATGTAAGACCATGCCAAGGCATGGAAGTTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAGTTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
*
42217961 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
42218006 CCATGTAAGACCATGCCAAGGCATGGCA-TTGGTGA-G-CTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAGTTGGTAAGGTCTC-TAAGGCAAGGAAACCATGTAAG
*
42218068 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
42218097 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 6 0.07
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAGTTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:42218356 original size:16 final size:16
Alignment explanation
Indices: 42218335--42218365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42218325 ATAAATTTGA
42218335 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
42218351 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
42218366 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:42232337 original size:40 final size:40
Alignment explanation
Indices: 42232284--42232596 Score: 500
Period size: 40 Copynumber: 7.8 Consensus size: 40
42232274 CAGCCGCAAA
* * * *
42232284 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42232324 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42232364 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42232404 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42232444 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42232484 CATAATTGCCTTCGGATCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42232524 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42232564 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
42232597 TCCAATGTTC
Statistics
Matches: 251, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 251 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:42239430 original size:40 final size:40
Alignment explanation
Indices: 42239377--42239689 Score: 509
Period size: 40 Copynumber: 7.8 Consensus size: 40
42239367 CAGCCGCAAA
* * * *
42239377 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42239417 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42239457 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42239497 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42239537 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
42239577 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
42239617 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
42239657 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
42239690 TCCAATGTTC
Statistics
Matches: 253, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:42249719 original size:120 final size:120
Alignment explanation
Indices: 42249487--42249745 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 120
42249477 TTGAATGATG
* * *
42249487 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
42249552 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * **
42249607 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
42249670 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
42249727 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42249746 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
119 18 0.15
120 91 0.76
121 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:42249726 original size:40 final size:40
Alignment explanation
Indices: 42249487--42249712 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
42249477 TTGAATGATG
* * * *
42249487 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
42249527 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42249567 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42249607 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42249647 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42249688 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42249713 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42256109 original size:40 final size:40
Alignment explanation
Indices: 42256065--42256289 Score: 257
Period size: 40 Copynumber: 5.7 Consensus size: 40
42256055 GCTCCTCGTT
*
42256065 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
42256105 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
42256145 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
42256184 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTATCTCGCA
* * * * *
42256224 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
42256265 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42256290 CATCATTCAA
Statistics
Matches: 164, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 34 0.21
40 113 0.69
41 15 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:42256165 original size:79 final size:78
Alignment explanation
Indices: 42256065--42256289 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 78
42256055 GCTCCTCGTT
* *
42256065 CAAATGCCTTCGGGACATAGCCCGATTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGA-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
42256130 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
*
42256145 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGCTTAGCCC-GATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCC
*
42256207 GGATTTAGTATCTCGCA
62 GGATTTAGTAACTCGCA
** * * * *
42256224 CAAATGCCTTCGAATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCG-GGCTTAG-CCCGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
42256288 GA
63 GA
42256290 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
78 6 0.05
79 61 0.49
80 42 0.34
81 14 0.11
82 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:42256249 original size:119 final size:120
Alignment explanation
Indices: 42256065--42256289 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
42256055 GCTCCTCGTT
*
42256065 CAAATGCCTTCGGGACATAGCCCGATTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGATTATAGTAATTCGCACAAATGCCTTCGGAACTTAACCCGG
* *
42256130 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
42256184 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GAATCTTAGT
1 CAAATGCCTTCGGGA-CATAG-CCCGATTATAGTAAT-TCGCACAAATGCCTTCGGAA-CTTAAC
* *
42256245 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
42256290 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 7 0.08
119 59 0.65
120 25 0.27
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGATTATAGTAATTCGCACAAATGCCTTCGGAACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:42273572 original size:27 final size:27
Alignment explanation
Indices: 42273534--42273647 Score: 142
Period size: 27 Copynumber: 4.2 Consensus size: 27
42273524 CAGCATGGCT
* *
42273534 ACCAGA-ACAGATATTGTGACAGAGTC
1 ACCAGATACAGATATTGTGGCAGAGCC
42273560 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGATACAGATATTGTGGCAGAGCC
* * *
42273587 ACCAGAAACAGATATTCGTGGCAAAGCT
1 ACCAGATACAGATATT-GTGGCAGAGCC
*
42273615 ACCAGAT-CAGATATTTGTGGTAGAGCC
1 ACCAGATACAGATA-TTGTGGCAGAGCC
42273642 ACCAGA
1 ACCAGA
42273648 ACGCTTCCTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
ACCAGATACAGATATTGTGGCAGAGCC
Found at i:42273626 original size:54 final size:55
Alignment explanation
Indices: 42273534--42273648 Score: 157
Period size: 55 Copynumber: 2.1 Consensus size: 55
42273524 CAGCATGGCT
*
42273534 ACCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGAAACAGATATTGTGACAAAGTCACCAGATACAGATATTTGTGGCAGAGCC
* *
42273587 ACCAGAAACAGATATTCGTGGCAAAG-CTACCAGAT-CAGATATTTGTGGTAGAGCC
1 ACCAGAAACAGATATT-GTGACAAAGTC-ACCAGATACAGATATTTGTGGCAGAGCC
42273642 ACCAGAA
1 ACCAGAA
42273649 CGCTTCCTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
53 5 0.09
54 17 0.31
55 33 0.60
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (55 bp):
ACCAGAAACAGATATTGTGACAAAGTCACCAGATACAGATATTTGTGGCAGAGCC
Found at i:42278822 original size:29 final size:29
Alignment explanation
Indices: 42278783--42278861 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
42278773 CTTAATAATC
*
42278783 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
42278813 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
42278842 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42278862 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Done.