Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 175 of 345
Found at i:49315604 original size:40 final size:40
Alignment explanation
Indices: 49315496--49315604 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 40
49315486 ATAATAGCTC
* * * *
49315496 GCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTC
1 GCACAAATGCCTTTGGGACTTAGCCCGGATATGGGAACTA
* * * **
49315536 GCACAAATGCC-TTCGGATGTTAGTCCGGATATGGTCACTTA
1 GCACAAATGCCTTTGGGA-CTTAGCCCGGATATGGGAAC-TA
49315577 GCACAAA-GCCTTTGGGACTTAGCCCGGA
1 GCACAAATGCCTTTGGGACTTAGCCCGGA
49315605 CATCATTCGA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
39 4 0.07
40 37 0.69
41 13 0.24
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTTGGGACTTAGCCCGGATATGGGAACTA
Found at i:49318310 original size:21 final size:23
Alignment explanation
Indices: 49318285--49318334 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
49318275 GCTTTTATGC
49318285 TTAAAAT-TAGAGT-TTT-AAAGG
1 TTAAAATCTAG-GTATTTGAAAGG
*
49318306 TTAAAATCTAGGTATTTGTAAGG
1 TTAAAATCTAGGTATTTGAAAGG
49318329 TTAAAA
1 TTAAAA
49318335 AAGTCGAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 9 0.36
22 6 0.24
23 10 0.40
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (23 bp):
TTAAAATCTAGGTATTTGAAAGG
Found at i:49329543 original size:41 final size:39
Alignment explanation
Indices: 49329456--49329595 Score: 122
Period size: 41 Copynumber: 3.4 Consensus size: 39
49329446 GACAATGTTT
* *
49329456 AGCACTTAGTGTGCGATTTGAGATAGCTTTGGCTA--TAGA
1 AGCACTTAGTGTGCGA-ATGAGATAGCTTCGGCTATGTA-A
* *
49329495 CGACACTTAGTGTGCGAGACTGAGATAGCTTCAGCTATGTAA
1 AG-CACTTAGTGTGCGA-A-TGAGATAGCTTCGGCTATGTAA
* * *
49329537 AGCACTTAGTGTGCGTAATTATAATAGCTTCGGCTATGCTAT
1 AGCACTTAGTGTGCG-AATGA-GATAGCTTCGGCTATG-TAA
*
49329579 GGCACTTAGTGTGCGAA
1 AGCACTTAGTGTGCGAA
49329596 AAATTGAGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
39 1 0.01
40 16 0.19
41 45 0.54
42 19 0.23
43 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (39 bp):
AGCACTTAGTGTGCGAATGAGATAGCTTCGGCTATGTAA
Found at i:49329654 original size:70 final size:70
Alignment explanation
Indices: 49329540--49329675 Score: 202
Period size: 70 Copynumber: 1.9 Consensus size: 70
49329530 TATGTAAAGC
** * * *
49329540 ACTTAGTGTGCGTAATTATAATAGCTTCGGCTATGCTATGGCACTTAGT-GTGCGAAAAATTGAG
1 ACTTAGTGTGCAAAATTATAATAGCTTCGGCTATGCAATAGCACTTA-TCGTGCGAAAAATCGAG
49329604 TAAGGA
65 TAAGGA
*
49329610 ACTTAGTGTGCAAAATTATAATAGCTTCGGCTATGCAATAGCACTTATCGTGCGAAACATCGAGT
1 ACTTAGTGTGCAAAATTATAATAGCTTCGGCTATGCAATAGCACTTATCGTGCGAAAAATCGAGT
49329675 A
66 A
49329676 TTCGATAGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 1 0.02
70 58 0.98
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (70 bp):
ACTTAGTGTGCAAAATTATAATAGCTTCGGCTATGCAATAGCACTTATCGTGCGAAAAATCGAGT
AAGGA
Found at i:49332397 original size:7 final size:7
Alignment explanation
Indices: 49332385--49332480 Score: 147
Period size: 7 Copynumber: 13.0 Consensus size: 7
49332375 AAGATACCTA
49332385 AAACCCT
1 AAACCCT
49332392 AAACCCT
1 AAACCCT
49332399 AAACCCT
1 AAACCCT
49332406 AAACCCT
1 AAACCCT
49332413 AAACCCT
1 AAACCCT
49332420 AAAACCCT
1 -AAACCCT
49332428 AAACCCT
1 AAACCCT
49332435 AAACCCT
1 AAACCCT
49332442 AAACCCT
1 AAACCCT
49332449 AAAACCCT
1 -AAACCCT
49332457 AAAACCCT
1 -AAACCCT
49332465 AAAACCCT
1 -AAACCCT
49332473 AAAACCCT
1 -AAACCCT
49332481 TAGAATGCAA
Statistics
Matches: 87, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
7 49 0.56
8 38 0.44
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:49343735 original size:26 final size:27
Alignment explanation
Indices: 49343650--49343748 Score: 103
Period size: 26 Copynumber: 3.6 Consensus size: 27
49343640 ATACAGAAAA
* *
49343650 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* *
49343679 TGTGGCAGTGCCACCAGAACAGATATA
1 TGTGGCAGAGCCACCAGAACAGATATT
*
49343706 TGTGGCAGGGCCACCA-AACA-ATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
49343732 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
49343749 GACGCTTCCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.03
26 20 0.33
27 16 0.27
28 7 0.12
29 15 0.25
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:49352814 original size:29 final size:29
Alignment explanation
Indices: 49352772--49352842 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
49352762 GACGAGATTA
49352772 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
49352801 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
49352830 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49352843 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:49352858 original size:29 final size:29
Alignment explanation
Indices: 49352772--49352902 Score: 124
Period size: 29 Copynumber: 4.5 Consensus size: 29
49352762 GACGAGATTA
* *
49352772 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAATGTATG
* *
49352801 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAATGTATG
**
49352830 GCACTAAGTGTGCGAGCTCGAAGGGTATG
1 GCACTAAGTGTGCGAGCTCGAAATGTATG
* * * *
49352859 GCACTATGTGTGCGGGCT-TAAATTGCATG
1 GCACTAAGTGTGCGAGCTCGAAA-TGTATG
49352888 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
49352903 AATCGAGTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
28 2 0.02
29 85 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTCGAAATGTATG
Found at i:49355217 original size:28 final size:28
Alignment explanation
Indices: 49355148--49355248 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
49355138 GACAAGAGTG
* * * *
49355148 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
49355178 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
49355206 GCACTAAGTGTGCGAG-CTGAATATATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
49355235 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49355249 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49355242 original size:29 final size:28
Alignment explanation
Indices: 49355177--49355248 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
49355167 AAAATTGTAC
*
49355177 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
49355205 AGCACTAAGTGTGCGAG-CTGAATATATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
49355234 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49355249 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:49358431 original size:40 final size:40
Alignment explanation
Indices: 49358365--49358515 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
49358355 AAATTGAATG
* * *
49358365 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
49358404 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
49358444 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
49358484 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
49358516 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:49358529 original size:40 final size:40
Alignment explanation
Indices: 49358402--49358531 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
49358392 ATGCTGGAAA
* * * *
49358402 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
49358442 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
49358482 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
49358522 TTATATCCGG
1 TTATATCCGG
49358532 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:49370919 original size:40 final size:40
Alignment explanation
Indices: 49370874--49371159 Score: 344
Period size: 40 Copynumber: 7.2 Consensus size: 40
49370864 CGGAATACAA
* * * *
49370874 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
49370914 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
49370954 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
*
49370994 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
** * *
49371034 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * *
49371074 CCGGAT-GTAGTCG-CTAGCA-AATTGCCTTCGGGTCTTAAC
1 CCGGATAG-A-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * ** * * * *
49371113 CCGAATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
49371153 CCGGATA
1 CCGGATA
49371160 TCATTCAATT
Statistics
Matches: 214, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
39 29 0.14
40 184 0.86
41 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49373969 original size:44 final size:43
Alignment explanation
Indices: 49373904--49374030 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 43
49373894 CATGTATCGT
* * * *
49373904 ATCCATAATGAACTCAGACCAACTCAACGAGTTCGGATGCTCGC
1 ATCCATAATGAACCCAAACCAACTCAATGAGTTTGGATGC-CGC
*
49373948 ATCCATAATGAACCCAAACCAACTCAATGAGTTTGGATGCCTC
1 ATCCATAATGAACCCAAACCAACTCAATGAGTTTGGATGCCGC
** *
49373991 ATATATATCACGAACCCAAACCAACTCAATGAGTTTGGAT
1 ATCCATA--ATGAACCCAAACCAACTCAATGAGTTTGGAT
49374031 TTCTTAATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
43 7 0.10
44 36 0.49
45 30 0.41
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (43 bp):
ATCCATAATGAACCCAAACCAACTCAATGAGTTTGGATGCCGC
Found at i:49380347 original size:71 final size:68
Alignment explanation
Indices: 49380259--49380453 Score: 275
Period size: 68 Copynumber: 2.8 Consensus size: 68
49380249 CGATTTGTCT
* * * *
49380259 CGTAGCTCTCTTGTCTACATGGTG-TCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTA
1 CGTAGCTCTCTTGTCTACATGG-GATACAT--C-TCGAATCACACATGCGACCTAGCTACATTTA
49380323 TCTTTCA
62 TCTTTCA
* *
49380330 CGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTACATTTATCTT
1 CGTAGCTCTCTTGTCTACATGGGATACATCTCGAATCACACATGCGACCTAGCTACATTTATCTT
49380395 TCA
66 TCA
* *
49380398 CGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGGATACATCTCGAATCACACATGCGACCTAGCTAC
49380454 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 90 0.77
69 1 0.01
70 1 0.01
71 25 0.21
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (68 bp):
CGTAGCTCTCTTGTCTACATGGGATACATCTCGAATCACACATGCGACCTAGCTACATTTATCTT
TCA
Found at i:49380391 original size:68 final size:68
Alignment explanation
Indices: 49380296--49380453 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 68
49380286 GTCACTTGGA
* *
49380296 ATCACGCATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCT
1 ATCACACATGTGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCT
49380361 CGT
66 CGT
49380364 ATCACACATGTGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCT
1 ATCACACATGTGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCT
49380429 CGT
66 CGT
49380432 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
49380454 TACAGGGTGT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCT
CGT
Found at i:49380470 original size:68 final size:68
Alignment explanation
Indices: 49380296--49380521 Score: 235
Period size: 68 Copynumber: 3.3 Consensus size: 68
49380286 GTCACTTGGA
* * ** * *
49380296 ATCACGCATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCT
1 ATCACACATGTGACCTAGCTACATACAGCTGTCACGTAGCTCTCTTGTCTACATGGGATACATCT
49380361 CGT
66 CGT
** * *
49380364 ATCACACATGTGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCT
1 ATCACACATGTGACCTAGCTACATACAGCTGTCACGTAGCTCTCTTGTCTACATGGGATACATCT
49380429 CGT
66 CGT
* * * * *
49380432 ATCACACATGTGACCTAGCTAC-TACAGGGTGTCTCGTAGCTTTCTTGTAC-ACATGATG-TGCA
1 ATCACACATGTGACCTAGCTACATACA-GCTGTCACGTAGCTCTCTTGT-CTACATG-GGATACA
*
49380494 -CTCGGC
63 TCTC-GT
*
49380500 ATCATACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
49380522 GCTCCATCTA
Statistics
Matches: 141, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
67 5 0.04
68 134 0.95
69 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATACAGCTGTCACGTAGCTCTCTTGTCTACATGGGATACATCT
CGT
Found at i:49389383 original size:89 final size:89
Alignment explanation
Indices: 49389219--49389392 Score: 199
Period size: 89 Copynumber: 2.0 Consensus size: 89
49389209 TTGAGCACAT
* * * * *
49389219 GTGTAACATCCCGAATTAGGGCCTAGTCGGAATAGTGGTTTTGAGACCATAAATCCGAGATAAAA
1 GTGTAACATCCCGAATTAGGGCCCAGTCAGAATAGTGGTCTTGAGACCACAAATCCGAAATAAAA
* *
49389284 ATAATGATTTTATGATTATTATGA
66 ATAAAGATTTTATCATTATTATGA
* * * **
49389308 GTGTAAC-TGCCCGATTTAGGGCCCAGTCAGAATAGTGGTCTTGGGGCCACAAATCCGAAAT-TG
1 GTGTAACAT-CCCGAATTAGGGCCCAGTCAGAATAGTGGTCTTGAGACCACAAATCCGAAATAAA
*
49389371 ACTAAAGTATTTTATCATTATT
65 AATAAAG-ATTTTATCATTATT
49389393 TTGGAGTCAT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
88 6 0.09
89 64 0.91
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (89 bp):
GTGTAACATCCCGAATTAGGGCCCAGTCAGAATAGTGGTCTTGAGACCACAAATCCGAAATAAAA
ATAAAGATTTTATCATTATTATGA
Found at i:49393576 original size:46 final size:46
Alignment explanation
Indices: 49393471--49393596 Score: 130
Period size: 46 Copynumber: 2.7 Consensus size: 46
49393461 GGTCACTTAT
* * **
49393471 GTAAGCCAGTGTAAGACCATGTCTGGGACACGACATTGGCATTAAGAC
1 GTAAGCCAGTGT-AGAACATGTCTGGGACATG-CATCAGCATTAAGAC
* * * *
49393519 G-AGTGCTAGTGTAGAACATGTCTGGTACATGCATCAGCCTTAAGAC
1 GTA-AGCCAGTGTAGAACATGTCTGGGACATGCATCAGCATTAAGAC
49393565 GTAAGCCAGTGTA-AGACATGTCTGGGACATGC
1 GTAAGCCAGTGTAGA-ACATGTCTGGGACATGC
49393597 GTCGGCTACA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.02
46 37 0.58
47 18 0.28
48 8 0.12
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GTAAGCCAGTGTAGAACATGTCTGGGACATGCATCAGCATTAAGAC
Found at i:49396119 original size:27 final size:26
Alignment explanation
Indices: 49396071--49396272 Score: 210
Period size: 27 Copynumber: 7.5 Consensus size: 26
49396061 GCGAGGCTGG
* *
49396071 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
49396097 ACAGATATTGTGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
49396124 CAGATATAAGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
** * *
49396151 CAGATAATCATGGCATAGCCACCAGAG
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
49396178 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
49396205 CAGATAATTGTGGCATAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
* *
49396232 CAGATATATGTGGTAGAGCCAGCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
49396259 CAGATAATGTGGCA
1 CAGATATTGTGGCA
49396273 TACCGACCAG
Statistics
Matches: 148, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
26 19 0.13
27 122 0.82
28 7 0.05
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:49396165 original size:54 final size:54
Alignment explanation
Indices: 49396089--49396282 Score: 277
Period size: 54 Copynumber: 3.6 Consensus size: 54
49396079 GTGACGAAGT
* *
49396089 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATAAGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
** *
49396143 CACCAGATCAGATAATCATGGCATAGCCACCAGAGCAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
49396197 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
49396251 CAGCAGATCAGATAA-TGTGGCATA-CCGACCAG
1 CACCAGATCAGATAATTGTGGCATAGCC-ACCAG
49396283 GATGCTTCCT
Statistics
Matches: 127, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
52 2 0.02
53 19 0.15
54 106 0.83
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:49398929 original size:39 final size:39
Alignment explanation
Indices: 49398877--49399040 Score: 229
Period size: 39 Copynumber: 4.2 Consensus size: 39
49398867 TATGAGATTG
*
49398877 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
* *
49398916 AAAATATCCGGACATGAGATCCGTAGGCTCTATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
* *
49398955 AAAATATCTGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
* * * * **
49398994 AATATATCCGGACTTGAGGTCCACAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
49399033 AAAATATC
1 AAAATATC
49399041 TGGGTTAAAG
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
Found at i:49401044 original size:26 final size:26
Alignment explanation
Indices: 49401013--49401120 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
49401003 TGAAATGCCC
49401013 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
49401039 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
49401065 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
49401091 ATCATGGAACATTTACC-GAACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
49401117 ATCA
1 ATCA
49401121 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 3 0.04
26 72 0.96
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:49406394 original size:27 final size:27
Alignment explanation
Indices: 49406351--49406560 Score: 218
Period size: 27 Copynumber: 7.8 Consensus size: 27
49406341 GCGAGGCTGC
* *
49406351 CAGATATTGTGAG-AAAGTCACCAGATA
1 CAGATATTGTG-GCAGAGCCACCAGATA
* *
49406378 CAAATATTGTGGCAAAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
49406404 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
49406431 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
49406458 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
49406485 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
49406512 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
49406539 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
49406561 TAGGATGCTT
Statistics
Matches: 156, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
26 12 0.08
27 138 0.88
28 6 0.04
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:49406444 original size:54 final size:54
Alignment explanation
Indices: 49406369--49406560 Score: 323
Period size: 54 Copynumber: 3.6 Consensus size: 54
49406359 GTGAGAAAGT
* *
49406369 CACCAGATACAAAT-ATTGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
49406423 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
49406477 CACTAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
49406531 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
49406561 TAGGATGCTT
Statistics
Matches: 130, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
53 4 0.03
54 126 0.97
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:49406561 original size:81 final size:80
Alignment explanation
Indices: 49406369--49406563 Score: 243
Period size: 81 Copynumber: 2.4 Consensus size: 80
49406359 GTGAGAAAGT
* *
49406369 CACCAGATACAAATATTGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAG
1 CACCAGAT-CAGATATTGTGGCAAAGCCACTAGAACAGATATATGTGGCAGAGCCACCAGATCAG
*
49406434 ATAATCGTGGCATAGC
65 ATAATCGTGGCAGAGC
* * * *
49406450 CACCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATA-ATTGTGGCATAGCCACCAGGA-C
1 CACCAGATCAGATAT-TGTGGCAAAGCCACTAGAACAGATATA-TGTGGCAGAGCCACCA-GATC
49406513 AGATATAT-GTGGCAGAGC
63 AGATA-ATCGTGGCAGAGC
*
49406531 CACCAGATCAGATAATTGTGGCATAGCCACTAG
1 CACCAGATCAGAT-ATTGTGGCAAAGCCACTAG
49406564 GATGCTTCCT
Statistics
Matches: 100, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
80 7 0.07
81 87 0.87
82 6 0.06
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (80 bp):
CACCAGATCAGATATTGTGGCAAAGCCACTAGAACAGATATATGTGGCAGAGCCACCAGATCAGA
TAATCGTGGCAGAGC
Found at i:49408197 original size:26 final size:26
Alignment explanation
Indices: 49408162--49408269 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
49408152 TGAAATGCCC
*
49408162 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
49408188 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
49408214 ATCATGGAATATTTACCTAATA-CATT
1 ATCATGGAACATTTACCTAA-ACCATT
49408240 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
49408266 ATCA
1 ATCA
49408270 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
24 1 0.01
25 2 0.03
26 71 0.96
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:49408240 original size:52 final size:52
Alignment explanation
Indices: 49408162--49408269 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
49408152 TGAAATGCCC
49408162 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* * *
49408214 ATCATGGAATATTTACCTAATA-CATTATCATGGAACATTTACCTAACCTATT
1 ATCATAGAACATTTACCTAA-ACCATTATCATGGAACATTTACCTAACCCATT
49408266 ATCA
1 ATCA
49408270 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 51 0.98
53 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:49410506 original size:26 final size:27
Alignment explanation
Indices: 49410463--49410513 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
49410453 TTATAGGTGG
*
49410463 AAAATTTATAGATTTACCCCTAGGAGC
1 AAAATTTATAGATATACCCCTAGGAGC
* *
49410490 AAAA-TTATTGATATACCTCTAGGA
1 AAAATTTATAGATATACCCCTAGGA
49410514 TTAAGGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (27 bp):
AAAATTTATAGATATACCCCTAGGAGC
Found at i:49410869 original size:33 final size:33
Alignment explanation
Indices: 49410832--49410927 Score: 106
Period size: 34 Copynumber: 2.9 Consensus size: 33
49410822 CTATGGGCCA
* *
49410832 TACTGTTATCTGAAAAGGGGCTGAGGCCCAGT-T
1 TACTGTTATCTGAAAA-GGGCTTAGGCCCAGTAC
* *
49410865 TACTG-TAGTTTGAAAAGGGCTTCGGCCCAGTACC
1 TACTGTTA-TCTGAAAAGGGCTTAGGCCCAGTA-C
*
49410899 TACTGTTATCTGAATAGGGCTTAGGCCCA
1 TACTGTTATCTGAAAAGGGCTTAGGCCCA
49410928 ATGGGCTTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
32 15 0.29
33 12 0.23
34 23 0.44
35 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGCTTAGGCCCAGTAC
Found at i:49412036 original size:34 final size:35
Alignment explanation
Indices: 49411985--49412056 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
49411975 ATTCTGTAGT
* *
49411985 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTAAGACAG
* *
49412019 TAGGG-AAAACTGAAAACTTTAGAAGACTAAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTAAGACAG
49412054 TAG
1 TAG
49412057 CTAGGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 6 0.19
34 15 0.47
35 11 0.34
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTAAGACAG
Found at i:49417814 original size:79 final size:82
Alignment explanation
Indices: 49417677--49417861 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 82
49417667 TCGAATGATG
*
49417677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
49417741 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTACTATAA
* * * **
49417757 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
49417819 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
49417837 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49417862 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.63
80 33 0.35
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:49417868 original size:40 final size:40
Alignment explanation
Indices: 49417677--49417861 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
49417667 TCGAATGATG
* * *
49417677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
49417717 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49417757 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49417796 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49417837 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49417862 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 40 0.30
40 83 0.62
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49417883 original size:79 final size:79
Alignment explanation
Indices: 49417677--49417894 Score: 252
Period size: 79 Copynumber: 2.7 Consensus size: 79
49417667 TCGAATGATG
* *
49417677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCAT
49417740 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* *
49417757 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCAT
49417819 TTGTGCGAGTTACTATAA
63 TTGTGCGAGTTACTA-AA
* **
49417837 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGA-TCCGAAGG
49417895 TACGTGATTC
Statistics
Matches: 119, Mismatches: 9, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
78 1 0.01
79 70 0.59
80 48 0.40
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:49417891 original size:119 final size:119
Alignment explanation
Indices: 49417677--49417894 Score: 282
Period size: 119 Copynumber: 1.8 Consensus size: 119
49417667 TCGAATGATG
*
49417677 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
** *
49417742 GTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
66 GAACGAGTTACTAAATCCGGGTTAACTCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
49417796 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
*
49417859 TTGAACGAG-TAGCTATATCC-GGTTAAACTCCGAAGG
64 TTGAACGAGTTA-CTAAATCCGGGTT-AACTCCGAAGG
49417895 TACGTGATTC
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
118 7 0.08
119 71 0.84
120 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAATCCGGGTTAACTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49425754 original size:40 final size:40
Alignment explanation
Indices: 49425697--49425842 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
49425687 TCGAATGATG
*
49425697 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACTAAA
* * *
49425737 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTGACTAAA
* * *
49425777 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTA-AA
* *
49425818 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49425843 AATGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAA
Found at i:49425860 original size:80 final size:80
Alignment explanation
Indices: 49425697--49425865 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
49425687 TCGAATGATG
* *
49425697 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
**
49425762 GTGCGAGTTACTAAA
66 GAACGAGTTACTAAA
* * * *
49425777 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCTGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGATCC-GAAGGCAT
* *
49425840 TTGAATGAG-TAGCTATA
64 TTGAACGAGTTA-CTAAA
49425857 TCC-GGTTAA
1 TCCGGGTTAA
49425866 ACTCCGAAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
79 11 0.14
80 58 0.76
81 7 0.09
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:49430099 original size:18 final size:18
Alignment explanation
Indices: 49430072--49430110 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49430062 TCTTATTACA
*
49430072 AAAATTTAAACCCA-AAAT
1 AAAATCTAAA-CCATAAAT
49430090 AAAATCTAAACCATAAAT
1 AAAATCTAAACCATAAAT
49430108 AAA
1 AAA
49430111 GTTCAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATCTAAACCATAAAT
Found at i:49430668 original size:31 final size:32
Alignment explanation
Indices: 49430516--49430677 Score: 220
Period size: 32 Copynumber: 5.1 Consensus size: 32
49430506 CACGGCTTAC
*
49430516 AGCCATCAGTAGCGGTAATATGATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* * * *
49430548 AGCAAACAATAGCTGTAATATGATCGACACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* *
49430580 AGCCATCAGTAGCTGTAATATGATCGACAGAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
49430612 AGCCATCAGTA-CTGTAATATGATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* * *
49430643 AGCCATAAGTA-CTGTAATATGATCGGTACCA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
49430674 AGCC
1 AGCC
49430678 GCTGGTAAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
31 50 0.43
32 66 0.57
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
AGCCATCAGTAGCTGTAATATGATCGGCACAA
Found at i:49438020 original size:27 final size:27
Alignment explanation
Indices: 49437966--49438076 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
49437956 AGCATGGCTG
** * *
49437966 CCAGAACAGATAA-TGTGATAGGGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
49437992 CCAGAACAGATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
49438019 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
49438046 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
49438073 CCAG
1 CCAG
49438077 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:49438058 original size:54 final size:53
Alignment explanation
Indices: 49437966--49438076 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
49437956 AGCATGGCTG
* * * *
49437966 CCAGAACAGATAATGTGATAGGGTCACCAGAACAGATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCA
* * * *
49438019 CCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCA
49438073 CCAG
1 CCAG
49438077 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCA
Found at i:49439292 original size:16 final size:16
Alignment explanation
Indices: 49439267--49439299 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49439257 CCAAAAGAAA
49439267 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
49439283 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
49439299 A
1 A
49439300 GAATTCAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:49443164 original size:29 final size:29
Alignment explanation
Indices: 49443129--49443228 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
49443119 GCCGAAGCCT
49443129 TTTTCAGAATAAACTGGACCTTAGCCCCA
1 TTTTCAGAATAAACTGGACCTTAGCCCCA
* * **
49443158 TTTTCAGATAATAGTATGTATTGGGCCGAAG-CCC-
1 TTTTCAG--AATA--A---ACTGGACCTTAGCCCCA
*
49443192 TTTTCAGAATAAACTGGACCTTAGCTCCA
1 TTTTCAGAATAAACTGGACCTTAGCCCCA
49443221 TTTTCAGA
1 TTTTCAGA
49443229 TAACAGTATG
Statistics
Matches: 53, Mismatches: 9, Indels: 18
0.66 0.11 0.22
Matches are distributed among these distances:
27 8 0.15
28 2 0.04
29 15 0.28
30 1 0.02
31 4 0.08
32 4 0.08
33 1 0.02
34 7 0.13
35 3 0.06
36 8 0.15
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (29 bp):
TTTTCAGAATAAACTGGACCTTAGCCCCA
Found at i:49443165 original size:63 final size:63
Alignment explanation
Indices: 49443097--49443238 Score: 257
Period size: 63 Copynumber: 2.3 Consensus size: 63
49443087 CCTAAGCCCA
*
49443097 TTCAGATAACAGTATGTATTGGGCCGAAGCCTTTTTCAGAATAAACTGGACCTTAGCCCCATT
1 TTCAGATAACAGTATGTATTGGGCCGAAGCCCTTTTCAGAATAAACTGGACCTTAGCCCCATT
* *
49443160 TTCAGATAATAGTATGTATTGGGCCGAAGCCCTTTTCAGAATAAACTGGACCTTAGCTCCATT
1 TTCAGATAACAGTATGTATTGGGCCGAAGCCCTTTTCAGAATAAACTGGACCTTAGCCCCATT
49443223 TTCAGATAACAGTATG
1 TTCAGATAACAGTATG
49443239 GCCCAGAGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 75 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (63 bp):
TTCAGATAACAGTATGTATTGGGCCGAAGCCCTTTTCAGAATAAACTGGACCTTAGCCCCATT
Found at i:49443196 original size:34 final size:34
Alignment explanation
Indices: 49443080--49443199 Score: 85
Period size: 33 Copynumber: 3.7 Consensus size: 34
49443070 AGCTCAAGCC
* * * *
49443080 TATTAGGCCTAAGCCC-ATTCAGATAACAGTATG
1 TATTGGGCCGAAGCCCTTTTCAGATAATAGTATG
*
49443113 TATTGGGCCGAAGCCTTTTTCAG--AATA--A--
1 TATTGGGCCGAAGCCCTTTTCAGATAATAGTATG
* * **
49443141 -ACTGGACCTTAGCCCCATTTTCAGATAATAGTATG
1 TATTGGGCCGAAG-CCC-TTTTCAGATAATAGTATG
49443176 TATTGGGCCGAAGCCCTTTTCAGA
1 TATTGGGCCGAAGCCCTTTTCAGA
49443200 ATAAACTGGA
Statistics
Matches: 63, Mismatches: 14, Indels: 19
0.66 0.15 0.20
Matches are distributed among these distances:
27 8 0.13
28 2 0.03
29 7 0.11
30 1 0.02
31 4 0.06
32 3 0.05
33 14 0.22
34 13 0.21
35 3 0.05
36 8 0.13
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (34 bp):
TATTGGGCCGAAGCCCTTTTCAGATAATAGTATG
Found at i:49453860 original size:43 final size:42
Alignment explanation
Indices: 49453782--49453894 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
49453772 AGCTTGTTCA
* * *
49453782 ATGCCAATGTCCCAGACATGGTCATACATGTAATCAAATATC
1 ATGCCACTGTCCCAGACATGGTCATACAGGGAATCAAATATC
* * * *
49453824 GATGCCACTGTCCCAGACAGGGTCTTATAGGGAATCAAGTATC
1 -ATGCCACTGTCCCAGACATGGTCATACAGGGAATCAAATATC
*
49453867 ATGCCAAC-ATCCCAGACATGGTCATACA
1 ATGCC-ACTGTCCCAGACATGGTCATACA
49453895 CGTAAATCAT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 21 0.36
43 37 0.64
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCATACAGGGAATCAAATATC
Found at i:49460202 original size:34 final size:35
Alignment explanation
Indices: 49460144--49460215 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
49460134 CGTATCATAG
*
49460144 CTACAGTCTCAGTCTTCTAAAGTTTTCAGT-TTTCC
1 CTACAGTCTCAGTCTTCTAAAG-TTTCAGTATTACC
* * *
49460179 CTACTGTCTTAGT-TTCTACAGTTTCAGTATTACC
1 CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
49460213 CTA
1 CTA
49460216 ACTACAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 7 0.22
34 14 0.44
35 11 0.34
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (35 bp):
CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
Found at i:49462850 original size:40 final size:40
Alignment explanation
Indices: 49462793--49463009 Score: 253
Period size: 40 Copynumber: 5.5 Consensus size: 40
49462783 TGAATGATAA
* * *
49462793 CCGGGCTAAGTCTCGAAGGCATTTGCT-CTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTA-TAT
* *
49462833 CTGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
49462873 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
49462913 CCGGGCTAAGTCCCAAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
49462953 CCGGGCTATGTCCCGACGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
49462993 CC-GGTTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
49463010 ATACGTGGCT
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 15 0.10
40 142 0.90
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49466724 original size:65 final size:65
Alignment explanation
Indices: 49466615--49466745 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 65
49466605 AATCTCACGC
* * *
49466615 ATCAAATAATAATAACATGGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAAATAATAATAACATGGCATGCAGAAAATAGTAACAGTCAAACATCCATTCAGGTCAACCTT
* *
49466680 ATCAGATAATAATGACATGGCATGCAGAAAATAGTAACAGTCAAACATCCATTCAGGTCAACCTT
1 ATCAAATAATAATAACATGGCATGCAGAAAATAGTAACAGTCAAACATCCATTCAGGTCAACCTT
49466745 A
1 A
49466746 AACCTAGTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (65 bp):
ATCAAATAATAATAACATGGCATGCAGAAAATAGTAACAGTCAAACATCCATTCAGGTCAACCTT
Found at i:49469310 original size:123 final size:123
Alignment explanation
Indices: 49469091--49469429 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
49469081 GAATTATGTG
*
49469091 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
49469156 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
49469214 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
49469279 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
49469337 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
49469402 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
49469430 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:49469453 original size:40 final size:40
Alignment explanation
Indices: 49469398--49469641 Score: 292
Period size: 40 Copynumber: 6.1 Consensus size: 40
49469388 TGAATGATAC
* * * * **
49469398 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
49469438 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
49469478 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
49469518 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * *
49469558 CCAGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
49469598 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
49469638 CCGG
1 CCGG
49469642 TTGTATTCCG
Statistics
Matches: 180, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 178 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:49479203 original size:30 final size:30
Alignment explanation
Indices: 49479167--49479297 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
49479157 GACAAGATTG
* * * * *
49479167 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49479197 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49479225 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49479255 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49479284 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49479298 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49479258 original size:58 final size:58
Alignment explanation
Indices: 49479167--49479297 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
49479157 GACAAGATTG
* * * * * *
49479167 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
49479225 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
49479284 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49479298 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:49486977 original size:30 final size:30
Alignment explanation
Indices: 49486941--49487071 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
49486931 GACAAGATTG
* * * * *
49486941 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49486971 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49486999 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49487029 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49487058 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49487072 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49487032 original size:58 final size:58
Alignment explanation
Indices: 49486941--49487071 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
49486931 GACAAGATTG
* * * * * *
49486941 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
49486999 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
49487058 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49487072 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:49490090 original size:123 final size:123
Alignment explanation
Indices: 49489871--49490209 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
49489861 GAATTATGTG
*
49489871 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
49489936 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
49489994 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
49490059 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
49490117 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
49490182 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
49490210 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:49490233 original size:40 final size:40
Alignment explanation
Indices: 49490178--49490400 Score: 295
Period size: 40 Copynumber: 5.6 Consensus size: 40
49490168 TGAATGATAC
* * * * **
49490178 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
49490218 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
49490258 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
49490298 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
49490338 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
49490378 CCGGGCTAAGACCCGAGGGCATT
1 CCGGGCTAAGACCCGAAGGCATT
49490401 CGTACGTGTG
Statistics
Matches: 165, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 163 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:49494099 original size:34 final size:35
Alignment explanation
Indices: 49494041--49494112 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
49494031 CGTATCCTAT
*
49494041 CTACAGTCTCAGTCTTCTAAAGTTTTCAGT-TTTCC
1 CTACAGTCTCAGTCTTCTAAAG-TTTCAGTATTACC
* *
49494076 CTACTGTCTCAGT-TTCTACAGTTTCAGTATTACC
1 CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
49494110 CTA
1 CTA
49494113 ACTACAGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 14 0.42
35 12 0.36
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (35 bp):
CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
Found at i:49495591 original size:27 final size:26
Alignment explanation
Indices: 49495538--49495591 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
49495528 CCTTAACCCA
* * *
49495538 AGGGGTATATCAGTAATTTTGCTCCT
1 AGGGGTAAATCAGTAATTTTCCACCT
*
49495564 AGGGGTAAATCTGTAAATTTTCCACCT
1 AGGGGTAAATCAGT-AATTTTCCACCT
49495591 A
1 A
49495592 TAAACGTACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (26 bp):
AGGGGTAAATCAGTAATTTTCCACCT
Found at i:49505011 original size:77 final size:79
Alignment explanation
Indices: 49504895--49505045 Score: 270
Period size: 77 Copynumber: 1.9 Consensus size: 79
49504885 GTGCGAATTG
49504895 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCC-GGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
49504958 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
*
49504972 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
*
49505037 ATTTGTGCG
66 AATTGTGCG
49505046 GGTTACCATA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 47 0.67
78 6 0.09
79 17 0.24
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:49505043 original size:40 final size:39
Alignment explanation
Indices: 49504884--49505045 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
49504874 TGTGTATGAA
*
49504884 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
49504923 TGTGCGAGTTGTGATATCC-GGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
49504961 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
49505000 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
49505040 TGTGCG
1 TGTGCG
49505046 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:49505061 original size:40 final size:39
Alignment explanation
Indices: 49504884--49505076 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
49504874 TGTGTATGAA
* *
49504884 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
49504923 TGTGCGAGTTGTGATATCC-GGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
49504961 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
49505000 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
49505040 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
49505077 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 36 0.26
39 61 0.44
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:49505103 original size:79 final size:77
Alignment explanation
Indices: 49504901--49505114 Score: 223
Period size: 79 Copynumber: 2.7 Consensus size: 77
49504891 ATTGTGATAT
** * *
49504901 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGCTAAGCCCGAAGGCAATTGTGC
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGTTAAGCCCGAAGGCAATTGTGC
** *
49504966 GAGCTATGATAT
66 GAGCTACCATAA
** * *
49504978 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGTTAAG-CCCGAAGGCAATTGT
* *
49505043 GCGGGTTACCATAA
64 GCGAGCTACCATAA
* ** *
49505057 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGTTAAGC-CCGAAGG
49505115 TATGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 41 0.35
78 7 0.06
79 45 0.38
80 24 0.20
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGTTAAGCCCGAAGGCAATTGTGC
GAGCTACCATAA
Found at i:49510239 original size:40 final size:39
Alignment explanation
Indices: 49510079--49510241 Score: 272
Period size: 39 Copynumber: 4.2 Consensus size: 39
49510069 TGTGTATGAA
*
49510079 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
49510118 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
49510157 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
49510196 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
49510236 TGTGCG
1 TGTGCG
49510242 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:49510257 original size:40 final size:39
Alignment explanation
Indices: 49510079--49510272 Score: 262
Period size: 39 Copynumber: 4.9 Consensus size: 39
49510069 TGTGTATGAA
* *
49510079 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
49510118 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
49510157 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
49510196 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
49510236 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
49510273 GTTTGAACGA
Statistics
Matches: 140, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 41 0.29
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:49510299 original size:79 final size:78
Alignment explanation
Indices: 49510096--49510310 Score: 227
Period size: 78 Copynumber: 2.7 Consensus size: 78
49510086 ATTGTGATAT
** * *
49510096 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
** *
49510161 CGAGCTATGATAT
66 CGAGCTACCATAA
** * *
49510174 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
49510239 GCGGGTTACCATAA
65 GCGAGCTACCATAA
* ** *
49510253 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
49510311 TATGTGATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 49 0.41
79 45 0.38
80 24 0.20
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:49514482 original size:40 final size:40
Alignment explanation
Indices: 49514427--49514614 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 40
49514417 TGAATGATAC
* * * * *
49514427 CCGGGCTAAGTCCCGAAGACATTTATTCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
* * * * * *
49514467 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTACAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
* **
49514507 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
* * **
49514547 CTGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
*
49514587 CCGGGCTAAGACCCGAAGGCATTCGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
49514615 GTGTGGTTAT
Statistics
Matches: 124, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATTATAT
Found at i:49514624 original size:40 final size:40
Alignment explanation
Indices: 49514461--49514630 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
49514451 ATTCTAGTAA
* * *
49514461 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGA
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGG
* * *
49514501 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGG
* * * *
49514541 TTATATCTGGGCTAATACCCGAAGGCATTTGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGG
**
49514581 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGG
49514621 TTATATCCGG
1 TTATATCCGG
49514631 TTGTATTCTG
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 3 0.03
40 108 0.97
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGG
Found at i:49517796 original size:71 final size:71
Alignment explanation
Indices: 49517708--49517871 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
49517698 GAGATGTATC
49517708 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
49517773 AGGACA
66 AGGACA
*
49517779 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
49517844 CGGACA
66 AGGACA
49517850 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
49517872 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:49519512 original size:28 final size:28
Alignment explanation
Indices: 49519477--49519533 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
49519467 CTTAAACAAG
49519477 TCTTAGTATTTATATAATCATCAAACCT
1 TCTTAGTATTTATATAATCATCAAACCT
*
49519505 TCTTAGTATTTTTATAATCATCAAACCT
1 TCTTAGTATTTATATAATCATCAAACCT
49519533 T
1 T
49519534 ACACATGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.46
Consensus pattern (28 bp):
TCTTAGTATTTATATAATCATCAAACCT
Found at i:49520066 original size:51 final size:51
Alignment explanation
Indices: 49519995--49520108 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
49519985 CTGATCACAT
*
49519995 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCAC
*
49520046 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCAC
* *
49520097 TTGTCGCTTGTC
1 TTATCACTTGTC
49520109 GCTTGTCACT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTATCAC
Found at i:49520106 original size:7 final size:7
Alignment explanation
Indices: 49520087--49520153 Score: 80
Period size: 7 Copynumber: 9.6 Consensus size: 7
49520077 CTAAAGCTAC
*
49520087 CACTTAT
1 CACTTGT
49520094 CACTTGT
1 CACTTGT
*
49520101 CGCTTGT
1 CACTTGT
*
49520108 CGCTTGT
1 CACTTGT
*
49520115 CACTTAT
1 CACTTGT
49520122 CACTTGT
1 CACTTGT
*
49520129 CGCTTGT
1 CACTTGT
49520136 CACTTGT
1 CACTTGT
*
49520143 CACTTAT
1 CACTTGT
49520150 CACT
1 CACT
49520154 GATGAGATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.15, C:0.30, G:0.13, T:0.42
Consensus pattern (7 bp):
CACTTGT
Found at i:49520119 original size:21 final size:21
Alignment explanation
Indices: 49520093--49520147 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
49520083 CTACCACTTA
*
49520093 TCACTTGTCGCTTGTCGCTTG
1 TCACTTGTCACTTGTCGCTTG
*
49520114 TCACTTATCACTTGTCGCTTG
1 TCACTTGTCACTTGTCGCTTG
49520135 TCACTTGTCACTT
1 TCACTTGTCACTT
49520148 ATCACTGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.11, C:0.29, G:0.16, T:0.44
Consensus pattern (21 bp):
TCACTTGTCACTTGTCGCTTG
Found at i:49520127 original size:28 final size:28
Alignment explanation
Indices: 49520087--49520153 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
49520077 CTAAAGCTAC
*
49520087 CACTTATCACTTGTCGCTTGTCGCTTGT
1 CACTTATCACTTGTCGCTTGTCACTTGT
49520115 CACTTATCACTTGTCGCTTGTCACTTGT
1 CACTTATCACTTGTCGCTTGTCACTTGT
49520143 CACTTATCACT
1 CACTTATCACT
49520154 GATGAGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.15, C:0.30, G:0.13, T:0.42
Consensus pattern (28 bp):
CACTTATCACTTGTCGCTTGTCACTTGT
Found at i:49527737 original size:51 final size:51
Alignment explanation
Indices: 49527680--49527782 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
49527670 CTGATCACAT
* *
49527680 TTATCACTTGTCACTGATTAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATAAGATAAGTGTAACTAAAACTACCACTTATCAC
*
49527731 TTATCACTTGTCACTGATAAGATAAGTGTAACTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATAAGATAAGTGTAACTAAAACTACCACTTATCAC
49527782 T
1 T
49527783 GATCGGATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATAAGATAAGTGTAACTAAAACTACCACTTATCAC
Found at i:49527776 original size:44 final size:42
Alignment explanation
Indices: 49527728--49527829 Score: 108
Period size: 37 Copynumber: 2.5 Consensus size: 42
49527718 TACCACTTAT
49527728 CACTTATCACTTGTCACTGATAAGATAAGTGTAACTAAAGCTAC
1 CACTTATCACTTGTCACTGAT--GATAAGTGTAACTAAAGCTAC
* * *
49527772 CACTTATCAC-TG--A-TCG--GATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTGTCACT-GATGATAAGTGTAACTAAAGCTAC
49527809 CACTTATCACTTGTCACTGAT
1 CACTTATCACTTGTCACTGAT
49527830 CAGAAGTACT
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
37 28 0.58
38 2 0.04
40 3 0.06
41 3 0.06
43 2 0.04
44 10 0.21
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
CACTTATCACTTGTCACTGATGATAAGTGTAACTAAAGCTAC
Found at i:49527785 original size:37 final size:37
Alignment explanation
Indices: 49527735--49527819 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
49527725 TATCACTTAT
*
49527735 CACTTGTCACTGATAAGATAAGTGTAACTAAAGCTAC
1 CACTTATCACTGATAAGATAAGTGTAACTAAAGCTAC
** * * *
49527772 CACTTATCACTGATCGGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTGATAAGATAAGTGTAACTAAAGCTAC
49527809 CACTTATCACT
1 CACTTATCACT
49527820 TGTCACTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (37 bp):
CACTTATCACTGATAAGATAAGTGTAACTAAAGCTAC
Found at i:49532394 original size:59 final size:60
Alignment explanation
Indices: 49532281--49532413 Score: 196
Period size: 59 Copynumber: 2.2 Consensus size: 60
49532271 GACAAGATTG
* * * *
49532281 GCACTAAGTGTGCGGGTTTAAAATTTGTACAGCACTAAGTGTACGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTTATACAGCACTAAGTGTACGAACTGAAAATATATA
* * *
49532341 GCACTAAGTGTGCGAGCTGAAAA-TTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTTATACAGCACTAAGTGTACGAACTGAAAATATATA
49532400 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49532414 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGCTGAAAATTTATACAGCACTAAGTGTACGAACTGAAAATATATA
Found at i:49532425 original size:29 final size:29
Alignment explanation
Indices: 49532311--49532413 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
49532301 AAATTTGTAC
* *
49532311 AGCACTAAGTGTACGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
49532340 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
49532370 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
49532399 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49532414 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:49534834 original size:35 final size:34
Alignment explanation
Indices: 49534795--49534876 Score: 119
Period size: 35 Copynumber: 2.4 Consensus size: 34
49534785 ACTTGCCTCT
*
49534795 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
*
49534829 CTCCCATTCTCCCATGCTGTCTGCCACCAACACCA
1 -TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
* *
49534864 TCACACACTCCCA
1 TCCCACTCTCCCA
49534877 CCGCACCTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.24
35 32 0.76
ACGTcount: A:0.21, C:0.50, G:0.09, T:0.21
Consensus pattern (34 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAACACCA
Found at i:49535258 original size:12 final size:12
Alignment explanation
Indices: 49535241--49535284 Score: 79
Period size: 12 Copynumber: 3.6 Consensus size: 12
49535231 ATTAAAACAT
49535241 AAAAAAATATAC
1 AAAAAAATATAC
49535253 AAAAAAAATATAC
1 -AAAAAAATATAC
49535266 AAAAAAATATAC
1 AAAAAAATATAC
49535278 AAAAAAA
1 AAAAAAA
49535285 AAAATTACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 19 0.61
13 12 0.39
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAATATAC
Found at i:49535259 original size:13 final size:13
Alignment explanation
Indices: 49535241--49535285 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
49535231 ATTAAAACAT
49535241 AAAAAAATATACA
1 AAAAAAATATACA
49535254 AAAAAAATATAC-
1 AAAAAAATATACA
49535266 AAAAAAATATACA
1 AAAAAAATATACA
49535279 AAAAAAA
1 AAAAAAA
49535286 AAATTACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAAATATACA
Found at i:49535396 original size:11 final size:11
Alignment explanation
Indices: 49535380--49535414 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
49535370 CCGGATTCCC
49535380 CTCCCTTCTCT
1 CTCCCTTCTCT
49535391 CTCCCTTCTCT
1 CTCCCTTCTCT
49535402 CTTCCC-TCTCT
1 C-TCCCTTCTCT
49535413 CT
1 CT
49535415 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:49535901 original size:3 final size:3
Alignment explanation
Indices: 49535893--49536119 Score: 135
Period size: 3 Copynumber: 73.0 Consensus size: 3
49535883 TGCATTTCAA
49535893 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
49535941 TAT TAT TAT TGT TAT TGA- AAT ACAT TAGT GTAT ATCT TCAT GTAT GTA-
1 TAT TAT TAT TAT TAT T-AT TAT -TAT TA-T -TAT -TAT T-AT -TAT -TAT
* * * * * *
49535989 TAT ATAT ATAT GTAG TAA TGT T-T CTAT TAC T-T TAT T-T TAA TAT TTT
1 TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
49536035 TAT AAT GGCT T-T TGT GT-T TCAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
49536081 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49536120 ATATCCTTGT
Statistics
Matches: 181, Mismatches: 25, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
2 10 0.06
3 142 0.78
4 26 0.14
5 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:49536176 original size:14 final size:16
Alignment explanation
Indices: 49536157--49536188 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
49536147 ATATTACTGT
49536157 TTTTAATA-C-TTTTA
1 TTTTAATATCATTTTA
49536171 TTTTAATATCATTTTA
1 TTTTAATATCATTTTA
49536187 TT
1 TT
49536189 ATATTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATATCATTTTA
Found at i:49543253 original size:59 final size:58
Alignment explanation
Indices: 49543157--49543288 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
49543147 AAAATTGTAC
49543157 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
49543215 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
49543274 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49543289 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:49543277 original size:88 final size:89
Alignment explanation
Indices: 49543127--49543288 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
49543117 GACAAGATTG
* * *
49543127 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
49543192 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
49543216 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
49543280 AAGTGTGCG
66 AAGTGTGCG
49543289 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:49543300 original size:29 final size:29
Alignment explanation
Indices: 49543157--49543288 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
49543147 AAAATTGTAC
*
49543157 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
49543186 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
49543215 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
49543245 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
49543274 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49543289 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:49548305 original size:30 final size:30
Alignment explanation
Indices: 49548269--49548427 Score: 220
Period size: 29 Copynumber: 5.4 Consensus size: 30
49548259 GACAAGATTG
* * * * *
49548269 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49548299 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49548327 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49548356 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49548386 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49548415 GCACTAAGTGTGC
1 GCACTAAGTGTGC
49548428 AGATTCACTA
Statistics
Matches: 119, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49548396 original size:59 final size:57
Alignment explanation
Indices: 49548269--49548427 Score: 221
Period size: 59 Copynumber: 2.7 Consensus size: 57
49548259 GACAAGATTG
* * * * * *
49548269 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
49548327 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
49548386 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGC
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGC
49548428 AGATTCACTA
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:49549937 original size:78 final size:77
Alignment explanation
Indices: 49549842--49550024 Score: 231
Period size: 78 Copynumber: 2.3 Consensus size: 77
49549832 CTCGTTCAAA
* * ** *
49549842 TGCCTTCGGGACATAGCCCGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTATC
1 TGCCTTCGGG-CTTAGCCCGATATCATAACCCGCACAAAGGCCTTCGGG-CTTAACCCGGATATC
49549907 ACAACTCGCACAAT
64 ACAACTCGCACAAT
* * ** *
49549921 TGCCTTCGGGCTTAGCCCGGATATCATAACTCTCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCC-GATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCA
*
49549986 CAATTCGCACAAT
65 CAACTCGCACAAT
49549999 TGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCC-GATATCA
49550025 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 59 0.64
79 33 0.36
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (77 bp):
TGCCTTCGGGCTTAGCCCGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCAC
AACTCGCACAAT
Found at i:49549952 original size:39 final size:39
Alignment explanation
Indices: 49549873--49550025 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
49549863 TATGGTAACC
** * *
49549873 CGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
49549913 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
49549952 CTCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
49549991 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
49550026 TCGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 88 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:49557709 original size:39 final size:39
Alignment explanation
Indices: 49557666--49557817 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
49557656 TATGGTAACC
** *
49557666 CGCACAAAGGCCTTCGGGACTTAACCCGG-TATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
49557705 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
49557744 AGCACAATTGCCTTCGGGCTTAGCCCGGATATAACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
49557783 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
49557818 TCGAACATTC
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 9 0.09
39 93 0.91
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:49567510 original size:30 final size:30
Alignment explanation
Indices: 49567455--49567585 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
49567445 ATAGTGAATC
*
49567455 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
49567484 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
49567514 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
49567542 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
49567572 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49567586 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:49567565 original size:58 final size:58
Alignment explanation
Indices: 49567454--49567585 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
49567444 TATAGTGAAT
* * * * *
49567454 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
49567513 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
49567571 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49567586 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:49575286 original size:30 final size:30
Alignment explanation
Indices: 49575231--49575361 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
49575221 ATAGTGAATC
*
49575231 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
49575260 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
49575290 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
49575318 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
49575348 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49575362 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:49575341 original size:58 final size:58
Alignment explanation
Indices: 49575230--49575361 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
49575220 TATAGTGAAT
* * * * *
49575230 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
49575289 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
49575347 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49575362 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:49576410 original size:40 final size:39
Alignment explanation
Indices: 49576318--49576467 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
49576308 GGATAGACTT
* *
49576318 GCACAAATGCCTTCGGGTATTAGCCCGGATTTAA-CAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TTAATC-ACTA
* **
49576358 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-TAATCACTA
* *
49576398 GCAC-AATGGCCTTCGGGTCTTAACCCGGATATAATTACTA
1 GCACAAAT-GCCTTCGGGTCTTAGCCCGGAT-TAATCACTA
* * *
49576438 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
49576468 ATCATTCAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 84 0.91
41 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATTAATCACTA
Found at i:49576412 original size:80 final size:80
Alignment explanation
Indices: 49576318--49576467 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
49576308 GGATAGACTT
* * * * *
49576318 GCACAAATGCCTTCGGGTATTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCC
49576383 CGGATGTGGTCACTA
66 CGGATGTGGTCACTA
* ** * *
49576398 GCAC-AATGGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 GCACAAAT-GCCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGC
49576462 CCGGAT
65 CCGGAT
49576468 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 3 0.05
80 56 0.95
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATGTGGTCACTA
Found at i:49577902 original size:27 final size:29
Alignment explanation
Indices: 49577872--49577962 Score: 96
Period size: 30 Copynumber: 3.2 Consensus size: 29
49577862 AAGCAAGAGC
*
49577872 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
49577899 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
49577928 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
49577958 ATATA
1 ATATA
49577963 ATCGACACTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.09
28 3 0.05
29 20 0.35
30 29 0.51
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:49577939 original size:30 final size:30
Alignment explanation
Indices: 49577884--49577964 Score: 155
Period size: 30 Copynumber: 2.7 Consensus size: 30
49577874 ATAGTGAATC
49577884 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
49577913 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
49577943 CGCACACTTAGTGCTATATAAT
1 CGCACACTTAGTGCTATATAAT
49577965 CGACACTTAG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 19 0.37
30 32 0.63
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:49583354 original size:40 final size:39
Alignment explanation
Indices: 49583309--49583436 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 39
49583299 CGGAATATAA
49583309 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
49583349 CCGGATAGAATGTC-TCGCACCGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCA-CAAATGCCTTCGGGTCTTAGC
* * * * *
49583390 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
49583430 CCGGATA
1 CCGGATA
49583437 ATAATTTCCA
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
39 1 0.01
40 36 0.51
41 32 0.46
42 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49583461 original size:81 final size:81
Alignment explanation
Indices: 49583325--49583476 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 81
49583315 ATAACCATGT
* *
49583325 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACCGAATGCCTTCGGG-TCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACAGAATGCCTTCGGGAT-TTAG
49583389 CCCGGATGTAGCCACTA
65 CCCGGATGTAGCCACTA
* * * *
49583406 GCACAATTGCCTTCGGGTCTTAACCCGGATAATAAT-T-TC-CAGCATAATTGTCTTCGGGATTT
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-AGAATGTCTCGCA-CAGAA-TGCCTTCGGGATTT
49583468 AGCCCGGAT
63 AGCCCGGAT
49583477 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
79 2 0.03
80 5 0.08
81 49 0.80
82 5 0.08
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (81 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACAGAATGCCTTCGGGATTTAGC
CCGGATGTAGCCACTA
Found at i:49591336 original size:40 final size:39
Alignment explanation
Indices: 49591291--49591420 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
49591281 CGGAATATAA
49591291 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
49591331 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
49591371 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
49591411 CCGGATATAA
1 CCGGATATAA
49591421 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49591435 original size:40 final size:40
Alignment explanation
Indices: 49591307--49591458 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
49591297 ATAACCATGT
* * *
49591307 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
49591347 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
49591387 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
49591427 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
49591459 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:49591441 original size:80 final size:80
Alignment explanation
Indices: 49591307--49591456 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49591297 ATAACCATGT
*
49591307 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49591371 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49591387 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49591450 CCCGGAT
64 CCCGGAT
49591457 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49593912 original size:17 final size:19
Alignment explanation
Indices: 49593870--49593913 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49593860 ATGAAATTTT
*
49593870 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
49593889 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
49593907 AA-TATTA
1 AATTATTA
49593914 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:49596317 original size:11 final size:11
Alignment explanation
Indices: 49596281--49596336 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
49596271 CATGGTCTGT
49596281 ATGATATGCAC
1 ATGATATGCAC
* *
49596292 ATGACATG--T
1 ATGATATGCAC
49596301 ATGATATGCAC
1 ATGATATGCAC
*
49596312 ATGATATG--T
1 ATGATATGCAC
49596321 ATGATATGCAC
1 ATGATATGCAC
49596332 ATGAT
1 ATGAT
49596337 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49596336 original size:20 final size:20
Alignment explanation
Indices: 49596278--49596336 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
49596268 AAACATGGTC
*
49596278 TGTATGATATGCACATGACA
1 TGTATGATATGCACATGATA
49596298 TGTATGATATGCACATGATA
1 TGTATGATATGCACATGATA
49596318 TGTATGATATGCACATGAT
1 TGTATGATATGCACATGAT
49596337 GTATTCATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (20 bp):
TGTATGATATGCACATGATA
Found at i:49596413 original size:24 final size:24
Alignment explanation
Indices: 49596386--49596553 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
49596376 GAGGAAGTGC
49596386 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49596410 AAAAGGGCTTATGCTCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49596434 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
49596458 AAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATT
49596482 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
49596506 AAAAAGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49596530 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49596554 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
24 118 0.91
25 11 0.09
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49597764 original size:24 final size:25
Alignment explanation
Indices: 49597705--49597817 Score: 122
Period size: 26 Copynumber: 4.5 Consensus size: 25
49597695 TATCATATAT
* * *
49597705 GCTCTTTCGAGCCATA-ATCGGTAA
1 GCTCTTACGAGCTATATATCAGTAA
* * * *
49597729 GCTCTAATGAGCT-TAAAACAGTAA
1 GCTCTTACGAGCTATATATCAGTAA
49597753 GCTCTTACGAGCTGATATATCAGTAA
1 GCTCTTACGAGCT-ATATATCAGTAA
*
49597779 GCTCTTACGAGCTGATATATCGGTAA
1 GCTCTTACGAGCT-ATATATCAGTAA
49597805 GCTCTTACGAGCT
1 GCTCTTACGAGCT
49597818 GTGGTGAGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
23 2 0.03
24 26 0.35
26 47 0.63
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (25 bp):
GCTCTTACGAGCTATATATCAGTAA
Found at i:49597781 original size:26 final size:26
Alignment explanation
Indices: 49597747--49597818 Score: 135
Period size: 26 Copynumber: 2.8 Consensus size: 26
49597737 GAGCTTAAAA
49597747 CAGTAAGCTCTTACGAGCTGATATAT
1 CAGTAAGCTCTTACGAGCTGATATAT
49597773 CAGTAAGCTCTTACGAGCTGATATAT
1 CAGTAAGCTCTTACGAGCTGATATAT
*
49597799 CGGTAAGCTCTTACGAGCTG
1 CAGTAAGCTCTTACGAGCTG
49597819 TGGTGAGTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
CAGTAAGCTCTTACGAGCTGATATAT
Found at i:49600434 original size:44 final size:43
Alignment explanation
Indices: 49600371--49600509 Score: 160
Period size: 44 Copynumber: 3.2 Consensus size: 43
49600361 TGTGTTATCG
* *
49600371 TGTAAGACCACGTGTGGGACGTTGGCATCGACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGACTT-TGATTTACA
49600415 TGTAAGACCACGTCTGGGACATTGGCATCGTAC-TTGATTT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ACTTTGATTTACA
* * * *
49600457 TGTAATA-CACTATCTGGGACATTGGCTTCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGA-CTTTGATTTACA
49600500 TGTAAGACCA
1 TGTAAGACCA
49600510 TGTTAGATAC
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
41 4 0.05
42 27 0.33
43 18 0.22
44 31 0.38
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGACTTTGATTTACA
Found at i:49601768 original size:15 final size:15
Alignment explanation
Indices: 49601712--49601776 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
49601702 TAAAGATAAC
*
49601712 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
49601726 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
49601741 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
49601756 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
49601771 AAGAAA
1 AAGAAA
49601777 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:49601778 original size:30 final size:31
Alignment explanation
Indices: 49601712--49601780 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
49601702 TAAAGATAAC
*
49601712 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
49601742 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
49601771 AAGAAACCCA
1 AAGAAACCCA
49601781 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:49604956 original size:50 final size:49
Alignment explanation
Indices: 49604792--49605023 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
49604782 CTGGTACGCA
* * *
49604792 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
49604841 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
49604890 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
49604940 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
* *
49604991 TAGTTGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
49605024 TCACAATAGA
Statistics
Matches: 161, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
49 79 0.49
50 43 0.27
51 38 0.24
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:49604960 original size:99 final size:101
Alignment explanation
Indices: 49604779--49605024 Score: 327
Period size: 99 Copynumber: 2.5 Consensus size: 101
49604769 TAGCCAAAGC
* * * * ** *
49604779 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTA
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
49604843 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * * * *
49604877 TATCCGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
*
49604942 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
49604978 TTTCAGGTACGCATAGTTGCCTGCACTTAGTACTACACATGTGACCT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT
49605025 CACAATAGAT
Statistics
Matches: 126, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 39 0.31
99 43 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (101 bp):
TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:49613621 original size:46 final size:46
Alignment explanation
Indices: 49613571--49613743 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
49613561 TGGTTAAGCA
49613571 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
49613617 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
49613662 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
49613710 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
49613744 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49613727 original size:93 final size:93
Alignment explanation
Indices: 49613568--49613738 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
49613558 GGATGGTTAA
* * *
49613568 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
49613633 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
49613661 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
49613726 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49613739 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:49616611 original size:2 final size:2
Alignment explanation
Indices: 49616604--49616628 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49616594 TCGATCGGAG
49616604 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
49616629 GAGTACGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.