Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 180 of 322
Found at i:59013116 original size:30 final size:30
Alignment explanation
Indices: 59013038--59013125 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
59013028 CATAGTATCG
* * * *
59013038 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
59013068 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
59013098 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
59013126 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:59015567 original size:46 final size:46
Alignment explanation
Indices: 59015517--59015689 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
59015507 TGGTTGAGCA
* *
59015517 TCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * ** *
59015563 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATATAAGTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
59015610 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
59015656 -CCTGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59015690 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 3 0.03
46 56 0.54
47 28 0.27
48 1 0.01
49 2 0.02
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:59015673 original size:93 final size:93
Alignment explanation
Indices: 59015514--59015684 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
59015504 GGATGGTTGA
* *
59015514 GCATCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
*
59015579 TGAGTCCGAGTTCGTAAGATATAAGTAG
66 TGAGTCCAAGTTCGTAAGATATAAGTAG
* *
59015607 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
59015671 TTGAGTCCAAGTTC
65 TTGAGTCCAAGTTC
59015685 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTAAGATATAAGTAG
Found at i:59032890 original size:22 final size:23
Alignment explanation
Indices: 59032851--59032893 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
59032841 AAAGTCCTAC
*
59032851 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAGCCTCTACACTCCACT
59032874 CCGTCCAGCC-CTACACTCCA
1 CCGTCCAGCCTCTACACTCCA
59032894 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (23 bp):
CCGTCCAGCCTCTACACTCCACT
Found at i:59035038 original size:28 final size:28
Alignment explanation
Indices: 59034998--59035053 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
59034988 TCCCCGTATG
*
59034998 ATAGTCAATCACTAATTCATAGTCTTTT
1 ATAGTCAATCACTAATTCATAGTATTTT
59035026 ATAGTCAATCACTAATTCATAGTATTTT
1 ATAGTCAATCACTAATTCATAGTATTTT
59035054 TGCAATTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (28 bp):
ATAGTCAATCACTAATTCATAGTATTTT
Found at i:59038315 original size:28 final size:28
Alignment explanation
Indices: 59038275--59038330 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
59038265 TCCCCGTATG
*
59038275 ATAGTCAATCACTAATTCATAGTCTTTT
1 ATAGTCAATCACTAATTCATAGTATTTT
59038303 ATAGTCAATCACTAATTCATAGTATTTT
1 ATAGTCAATCACTAATTCATAGTATTTT
59038331 TGCAATTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (28 bp):
ATAGTCAATCACTAATTCATAGTATTTT
Found at i:59044390 original size:27 final size:27
Alignment explanation
Indices: 59044354--59044569 Score: 261
Period size: 27 Copynumber: 8.0 Consensus size: 27
59044344 GTTATTTGAT
* *
59044354 CGTAATACCCCTGTAGGGTAAAATAAT
1 CGTAATACCCCTGTAGGGTAAAATGAC
* *
59044381 CGTAATACCCCTATAGGATAAAATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
*
59044408 CGTAATACCCTTGTAGGGTAAAATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
* * *
59044435 CATAATGCCACTGTAGGGTAAAATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
* *
59044462 CGTAATGCCCCTATAGGGTAAAATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
* * *
59044489 CGCAATATCCCTGAAGGGTAAAATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
* * * *
59044516 TGTAATGCTCCTGTAGGATAAAATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
* *
59044543 CGTAATATCCCTGTATGGTAAAATGAC
1 CGTAATACCCCTGTAGGGTAAAATGAC
59044570 GATTATGCCC
Statistics
Matches: 157, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 157 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
CGTAATACCCCTGTAGGGTAAAATGAC
Found at i:59054287 original size:12 final size:12
Alignment explanation
Indices: 59054270--59054294 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59054260 TGTGTGGCAT
59054270 GGTAGAGACACG
1 GGTAGAGACACG
59054282 GGTAGAGACACG
1 GGTAGAGACACG
59054294 G
1 G
59054295 CCATATGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.44, T:0.08
Consensus pattern (12 bp):
GGTAGAGACACG
Found at i:59058368 original size:56 final size:56
Alignment explanation
Indices: 59058282--59058457 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
59058272 ACAAGGGATT
59058282 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
59058338 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
59058394 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
59058450 ATGGGCAA
1 ATGGGCAA
59058458 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:59059725 original size:39 final size:40
Alignment explanation
Indices: 59059626--59059769 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
59059616 CGAATGATGT
* * *
59059626 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* * *
59059666 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
59059706 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
59059745 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59059770 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:59059783 original size:40 final size:39
Alignment explanation
Indices: 59059678--59059776 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
59059668 AGACTAAGAT
** * *
59059678 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
59059717 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
59059757 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
59059777 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:59059788 original size:79 final size:80
Alignment explanation
Indices: 59059625--59059775 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
59059615 TCGAATGATG
*
59059625 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
**
59059690 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
59059705 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCAGACTAAGAT-CCGAAGGCAT
59059767 TTGAACGAG
64 TTGAACGAG
59059776 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:59066153 original size:40 final size:40
Alignment explanation
Indices: 59066059--59066203 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
59066049 TACTCGAATG
*
59066059 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
59066100 ACATCCGGACTAAGAT-TCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
59066140 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
59066180 ATATCCGGGTTAAGACTCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
59066204 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:59070772 original size:6 final size:6
Alignment explanation
Indices: 59070761--59070813 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
59070751 TCCTCTTATC
* * *
59070761 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTC TTCTTA TTTTTGT TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA
59070810 TTTT
1 TTTT
59070814 CTTTTGAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
6 35 0.88
7 5 0.12
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:59073663 original size:13 final size:13
Alignment explanation
Indices: 59073647--59073679 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59073637 TTTAATTAAA
*
59073647 TTAGTTAATTAGT
1 TTAGATAATTAGT
59073660 TTAGATAATTAGT
1 TTAGATAATTAGT
59073673 TTA-ATAA
1 TTAGATAA
59073680 ACAAACTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:59097128 original size:40 final size:40
Alignment explanation
Indices: 59097084--59097271 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
59097074 GGATATAGCT
* * * *
59097084 ACTCGCTCAAATGCCTTCGGGGCATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
59097124 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
59097164 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
59097204 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
59097243 ACTAGTGCAGATGCCTTCGGGACTTAGCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCC
59097272 TGATTATCAT
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 32 0.24
40 97 0.74
41 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:59101588 original size:40 final size:40
Alignment explanation
Indices: 59101534--59101798 Score: 397
Period size: 40 Copynumber: 6.6 Consensus size: 40
59101524 CATTTGAATG
59101534 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
59101574 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
59101614 ATATCCGGGATAAGACCCAAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
59101654 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
59101694 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * *
59101734 ATATCCGGGCTAAGACCCGAAGGCAGTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
59101774 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
59101799 ATTGAGCTTG
Statistics
Matches: 206, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 203 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:59104317 original size:16 final size:15
Alignment explanation
Indices: 59104291--59104321 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
59104281 ACTAGATCGG
59104291 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
59104306 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
59104322 TGGTATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.26, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:59104756 original size:27 final size:26
Alignment explanation
Indices: 59104716--59104825 Score: 105
Period size: 27 Copynumber: 4.1 Consensus size: 26
59104706 AAGCGTCATA
* *
59104716 GTGGCTATGGCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
59104743 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
* *
59104770 GTGGCTCTCCCACGATCATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* *
59104798 GTGACTCTGTCACATTATCT-ATTCTG
1 GTGGCTCTGCCACATTATCTGA-TCTG
59104824 GT
1 GT
59104826 AGCCATGCTG
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
25 1 0.01
26 8 0.12
27 44 0.64
28 16 0.23
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:59106461 original size:55 final size:55
Alignment explanation
Indices: 59106390--59106507 Score: 227
Period size: 55 Copynumber: 2.1 Consensus size: 55
59106380 CCCAAAATGC
59106390 CACACGGCTAAAGCACACGCTCGTGTGCTAGGCCATGTCCCTCACACAGTTGAGA
1 CACACGGCTAAAGCACACGCTCGTGTGCTAGGCCATGTCCCTCACACAGTTGAGA
*
59106445 CACACGGCTAAGGCACACGCTCGTGTGCTAGGCCATGTCCCTCACACAGTTGAGA
1 CACACGGCTAAAGCACACGCTCGTGTGCTAGGCCATGTCCCTCACACAGTTGAGA
59106500 CACACGGC
1 CACACGGC
59106508 CGTGTCTCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.17
Consensus pattern (55 bp):
CACACGGCTAAAGCACACGCTCGTGTGCTAGGCCATGTCCCTCACACAGTTGAGA
Found at i:59108006 original size:29 final size:29
Alignment explanation
Indices: 59107939--59108034 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
59107929 AAGTCTACAT
* *
59107939 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
59107967 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
59107996 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
59108025 ACATTCATAT
1 ACATTCATAT
59108035 ACATGCTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 21 0.34
29 40 0.66
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:59109990 original size:46 final size:48
Alignment explanation
Indices: 59109860--59110077 Score: 168
Period size: 47 Copynumber: 4.6 Consensus size: 48
59109850 GCCTCAAACG
* ** * * * *
59109860 TGCCATGTCCCAAACACAGTCTTACACTA--ATTCATATCTTATGTTGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTA-GCTGA
59109907 TGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTAGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCAC--TCATCTCGTAGCTGA
* *
59109955 TG-CATGTCCTAGACAT-GTCTTACACTAGCACTCATCTCG-ATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTA-GCTGA
* * * * * * *
59110001 TGCCGTCTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGGTGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-CTCGTAGCTGA
*
59110049 T-ACATGTCCCAGACAT-GTCTTACACTAGC
1 TGCCATGTCCCAGACATGGTCTTACACTAGC
59110078 CCACAATAAC
Statistics
Matches: 139, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 36 0.26
47 63 0.45
48 30 0.22
49 9 0.06
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.30
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTAGCTGA
Found at i:59110024 original size:94 final size:94
Alignment explanation
Indices: 59109905--59110077 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
59109895 ATCTTATGTT
* * * *
59109905 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAT-CTCGTAGCTGATGCATGTCCTAGAC
1 GATGCCATCTCCCAGACATGGTCTTACACTGACTATCATAAT-GTAGCTGATACATGTCCCAGAC
59109969 ATGTCTTACACTAGCACTCATCTCGATGCC
65 ATGTCTTACACTAGCACTCATCTCGATGCC
* * * * *
59109999 GATGCCGTCTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGGTGATACATGTCCCAGACA
1 GATGCCATCTCCCAGACATGGTCTTACACTGACTATCATAATGTAGCTGATACATGTCCCAGACA
59110064 TGTCTTACACTAGC
66 TGTCTTACACTAGC
59110078 CCACAATAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCCATCTCCCAGACATGGTCTTACACTGACTATCATAATGTAGCTGATACATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCGATGCC
Found at i:59110037 original size:48 final size:48
Alignment explanation
Indices: 59109905--59110037 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 48
59109895 ATCTTATGTT
* * *
59109905 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGTAGCC
* * *
59109953 GATG-CATGTCCTAGACAT-GTCTTACACTAGCACTCATCTCG-ATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGTA-GCC
* *
59109999 GATGCCGTCTCCCAGACATGGTCTTACACTGGCTCTCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
59110038 AATGTGGGTG
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 25 0.35
47 24 0.34
48 21 0.30
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGTAGCC
Found at i:59120094 original size:20 final size:21
Alignment explanation
Indices: 59120062--59120100 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
59120052 CACTAGGATG
59120062 GTTGAGTTCCGAGCTCGTTGA
1 GTTGAGTTCCGAGCTCGTTGA
*
59120083 GTTGAG-TCCGAGTTCGTT
1 GTTGAGTTCCGAGCTCGTT
59120101 AATATGCGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.13, C:0.18, G:0.33, T:0.36
Consensus pattern (21 bp):
GTTGAGTTCCGAGCTCGTTGA
Found at i:59124143 original size:46 final size:46
Alignment explanation
Indices: 59124064--59124227 Score: 156
Period size: 47 Copynumber: 3.5 Consensus size: 46
59124054 TGTTGTCATA
* *
59124064 TCCCAGACATGGTCTTACGCT-G-ACTATCATCTCGTAACCGATGCATG
1 TCCCAGACAT-GTCTTACACTAGCAC--TCATCTCGTAGCCGATGCATG
*
59124111 TCCCAGACATGTCTTACACTAGCACTCGTCTCG-ATGCCGATGCCATG
1 TCCCAGACATGTCTTACACTAGCACTCATCTCGTA-GCCGATG-CATG
* * * * *
59124158 TCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTAGCACTCAT-CTCGTAGCCGATGCATG
*
59124205 TCCCAGACATGTCTTACAGTAGC
1 TCCCAGACATGTCTTACACTAGC
59124228 CCACAATAAC
Statistics
Matches: 99, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 33 0.33
47 39 0.39
48 25 0.25
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAGCACTCATCTCGTAGCCGATGCATG
Found at i:59131805 original size:43 final size:43
Alignment explanation
Indices: 59131740--59131851 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
59131730 GCTCGTACAA
* * * *
59131740 TGCCAACATCCTAGACGTGGTCTTACATGTAATCAATTATCG-T
1 TGCCAATATCCCAGACGTGGTCTTACATGAAATCAAGTA-CGAT
59131783 TGCCAATATCCCAGACAG-GGTCTTACATGAAATCAAGTACGAT
1 TGCCAATATCCCAGAC-GTGGTCTTACATGAAATCAAGTACGAT
* *
59131826 T-CCAATGTCCCAAACGTGGTCTTACA
1 TGCCAATATCCCAGACGTGGTCTTACA
59131852 CATAAATCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.02
42 23 0.38
43 35 0.58
44 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TGCCAATATCCCAGACGTGGTCTTACATGAAATCAAGTACGAT
Found at i:59132053 original size:14 final size:14
Alignment explanation
Indices: 59132036--59132063 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59132026 CATCTATCAC
59132036 AATTCAATATCATA
1 AATTCAATATCATA
59132050 AATTCAATATCATA
1 AATTCAATATCATA
59132064 TGAGCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTCAATATCATA
Found at i:59136419 original size:255 final size:255
Alignment explanation
Indices: 59135968--59136474 Score: 933
Period size: 255 Copynumber: 2.0 Consensus size: 255
59135958 GGGTTGTATT
*
59135968 AACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTTGTCACCCTATGT
1 AACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTTGTCACCCTATAT
* * * *
59136033 CTAGGCGCGCAAATAACTCTGCTTAATTATGACAAATGTACTCTTAGATAGGGTCTATTCCTCCT
66 CTAGGCGCGCAAACAACTCCGCTTAATTATGACAAATGTACTCTTAGACAAGGTCTATTCCTCCT
59136098 CTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAAT
131 CTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAAT
*
59136163 TAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCGTCTTCGG
196 TAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAAATTCGTCTTCGG
*
59136223 AACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGGCAAAATCTTGTCACCCTATAT
1 AACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTTGTCACCCTATAT
*
59136288 CTAGGTGCGCAAACAACTCCGCTTAATTATGACAAATGTACTCTTAGACAAGGTCTATTCCTCCT
66 CTAGGCGCGCAAACAACTCCGCTTAATTATGACAAATGTACTCTTAGACAAGGTCTATTCCTCCT
*
59136353 CTGAATAGGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAAT
131 CTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAAT
59136418 TAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAAATTCGTCTT
196 TAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAAATTCGTCTT
59136475 AGGTTTCATT
Statistics
Matches: 243, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
255 243 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (255 bp):
AACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCTGACAAAATCTTGTCACCCTATAT
CTAGGCGCGCAAACAACTCCGCTTAATTATGACAAATGTACTCTTAGACAAGGTCTATTCCTCCT
CTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATTAAGAACACATAAT
TAAGAACAAGTTAAATATTTATCATACAATTCAGAAAATAATAACAAAATTCGTCTTCGG
Found at i:59139660 original size:46 final size:46
Alignment explanation
Indices: 59139593--59139721 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
59139583 TGTAACCCGC
* * * * *
59139593 CCATAAGCGAACTCGGACTCAATTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59139639 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59139685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59139722 TGCCCAAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59141962 original size:15 final size:15
Alignment explanation
Indices: 59141942--59141970 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59141932 TCTATTGATA
59141942 ATCTCAAAATAATCC
1 ATCTCAAAATAATCC
59141957 ATCTCAAAATAATC
1 ATCTCAAAATAATC
59141971 TATAAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (15 bp):
ATCTCAAAATAATCC
Found at i:59148185 original size:20 final size:20
Alignment explanation
Indices: 59148160--59148200 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
59148150 CCACTACAGT
* *
59148160 TTAAATTTTCCAAATTTTTC
1 TTAAATGTTCCAAATGTTTC
59148180 TTAAATGTTCCAAATGTTTC
1 TTAAATGTTCCAAATGTTTC
59148200 T
1 T
59148201 GATTTAGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (20 bp):
TTAAATGTTCCAAATGTTTC
Found at i:59153999 original size:27 final size:27
Alignment explanation
Indices: 59153929--59154002 Score: 123
Period size: 26 Copynumber: 2.8 Consensus size: 27
59153919 ATTACCAAAG
*
59153929 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCGTTT
59153956 TA-CCTCAATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCGTTT
*
59153982 TACCCTCAATTTATAGAATTA
1 TACCCTCAATTTACAGAATTA
59154003 TCGAAATACC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 25 0.57
27 19 0.43
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCGTTT
Found at i:59154012 original size:27 final size:27
Alignment explanation
Indices: 59153918--59154042 Score: 92
Period size: 27 Copynumber: 4.7 Consensus size: 27
59153908 CAATTTGTAA
*
59153918 AATTACC-AAAGTACCCTCGATTTACAG
1 AATTACCGAAA-TACCCTCAATTTACAG
***
59153945 AATTACCGTTTTA-CCTCAATTTACAG
1 AATTACCGAAATACCCTCAATTTACAG
*** *
59153971 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCGAAATACCCTCAATTTACAG
* * * * *
59153998 AATTATCGAAATACCCTTAGTTTGCAA
1 AATTACCGAAATACCCTCAATTTACAG
* *
59154025 AATTTCCAAAATACCCTC
1 AATTACCGAAATACCCTC
59154043 GATCAATAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 25 0.32
27 53 0.68
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (27 bp):
AATTACCGAAATACCCTCAATTTACAG
Found at i:59154216 original size:27 final size:27
Alignment explanation
Indices: 59154006--59154200 Score: 232
Period size: 27 Copynumber: 7.2 Consensus size: 27
59153996 AGAATTATCG
* * *
59154006 AAATACCCTTAGTTTGCAAAATTTCCA
1 AAATACCCCTAGTTTGTAAAATTACCA
* ***
59154033 AAATA-CCCTCGATCAATAAAATTACCA
1 AAATACCCCTAG-TTTGTAAAATTACCA
*
59154060 AAATACCCCTAGTTTGTAAAATTACTA
1 AAATACCCCTAGTTTGTAAAATTACCA
*
59154087 AAATACCCCTGGTTTGTAAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCA
59154114 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCA
* *
59154141 AAATACCCCTGGCTTGTAAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCA
* * *
59154168 AAATACCCCT-GATTCGTGAAATTATCA
1 AAATACCCCTAG-TTTGTAAAATTACCA
59154195 AAATAC
1 AAATAC
59154201 TCTCAATTTG
Statistics
Matches: 144, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.03
27 134 0.93
28 5 0.03
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATACCCCTAGTTTGTAAAATTACCA
Found at i:59154248 original size:27 final size:27
Alignment explanation
Indices: 59154219--59154381 Score: 218
Period size: 27 Copynumber: 6.0 Consensus size: 27
59154209 TGTAAAATAT
* *
59154219 CGAAATACCCTTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
59154246 CGAAATGCCCCTGTAGGATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
59154273 CGAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
59154300 TGAAATACCCCTGTAGGGTAGAATCAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
59154327 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
59154354 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
59154381 C
1 C
59154382 ATTTTACCCC
Statistics
Matches: 118, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:59154660 original size:24 final size:25
Alignment explanation
Indices: 59154584--59154653 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
59154574 AGGAAGTGCT
* *
59154584 AAAAGGG-TTATGCCCCAGTTTACCG
1 AAAAGGGATT-TGCCCCAGTTTATCA
*
59154609 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGATTTGCCCCAGTTTATCA
59154634 AAAAGGGATTTGCCCCAGTT
1 AAAAGGGATTTGCCCCAGTT
59154654 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 39 0.95
26 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGATTTGCCCCAGTTTATCA
Found at i:59157106 original size:27 final size:27
Alignment explanation
Indices: 59157062--59157321 Score: 174
Period size: 27 Copynumber: 9.6 Consensus size: 27
59157052 TTAGTTTACC
* * *
59157062 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAGTTTGTA
* *
59157089 AAATTACCAAAGTACCCTC-GATTTATA
1 AAATTACCAAAATACCCTCAG-TTTGTA
* **** *
59157116 GAATTACCGTTTTACCCTC-GATTTATA
1 AAATTACCAAAATACCCTCAG-TTTGTA
* * * * * *
59157143 GAATTATCGAAATACCCTTAGCTTGCA
1 AAATTACCAAAATACCCTCAGTTTGTA
* **
59157170 AAATTTCCAAAATACCCTC-GATCAGTA
1 AAATTACCAAAATACCCTCAG-TTTGTA
59157197 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-AGTTTGTA
* *
59157224 AAATTACTAAAATA-ACTCTAGTTTGTA
1 AAATTACCAAAATACCCTC-AGTTTGTA
* *
59157251 AAATTACTAAAATACCC-CTAGTTTGGA
1 AAATTACCAAAATACCCTC-AGTTTGTA
* *
59157278 AAATTACCAAAATACCC-CTGGCTTGTA
1 AAATTACCAAAATACCCTC-AGTTTGTA
59157305 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
59157322 CTGATTCTCA
Statistics
Matches: 188, Mismatches: 38, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.02
27 182 0.97
28 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAGTTTGTA
Found at i:59157324 original size:27 final size:27
Alignment explanation
Indices: 59157152--59157323 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
59157142 AGAATTATCG
* * * *
59157152 AAATACCCTTAGCTTGCAAAATTTCCA
1 AAATACCCCTAGTTTGTAAAATTACCA
* **
59157179 AAATA-CCCTCGATCAGTAAAATTACCA
1 AAATACCCCTAG-TTTGTAAAATTACCA
*
59157206 AAATACCCCTAGTTTGTAAAATTACTA
1 AAATACCCCTAGTTTGTAAAATTACCA
* * *
59157233 AAATAACTCTAGTTTGTAAAATTACTA
1 AAATACCCCTAGTTTGTAAAATTACCA
*
59157260 AAATACCCCTAGTTTGGAAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCA
* *
59157287 AAATACCCCTGGCTTGTAAAATTACCA
1 AAATACCCCTAGTTTGTAAAATTACCA
59157314 AAATACCCCT
1 AAATACCCCT
59157324 GATTCTCAAA
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 4 0.03
27 114 0.93
28 5 0.04
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATACCCCTAGTTTGTAAAATTACCA
Found at i:59158586 original size:59 final size:59
Alignment explanation
Indices: 59158494--59158610 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
59158484 GATTAAGTCC
** *
59158494 TTTTATTTAATCGAACACCCAAATGATAAAATTAAATGACGAAAATTTCACAGATATGT
1 TTTTATTTAATCGAACACCCAAACAATAAAATTAAATCACGAAAATTTCACAGATATGT
* *
59158553 TTTTATTTAATCGGACACCCAAACAATAAAATTAAATCACGAAAATTTCACATATATG
1 TTTTATTTAATCGAACACCCAAACAATAAAATTAAATCACGAAAATTTCACAGATATG
59158611 AATTCACACA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (59 bp):
TTTTATTTAATCGAACACCCAAACAATAAAATTAAATCACGAAAATTTCACAGATATGT
Found at i:59162000 original size:73 final size:73
Alignment explanation
Indices: 59161881--59162023 Score: 250
Period size: 73 Copynumber: 2.0 Consensus size: 73
59161871 ACTTTTGCAC
*
59161881 CTTTTACAATTTAGTCCTTTTAACTAAATTGAGTGCCAAAATGTCAAAATTTTCGAACGAAATTT
1 CTTTTACAATTTAGTCCTTTTAACTAAATTGAGTGCCAAAACGTCAAAATTTTCGAACGAAATTT
59161946 TTTACAAA
66 TTTACAAA
* * *
59161954 CTTTTACAATTTAGTCCTTTTGACTAAATTTAGTGCCCAAACGTCAAAATTTTCGAACGAAATTT
1 CTTTTACAATTTAGTCCTTTTAACTAAATTGAGTGCCAAAACGTCAAAATTTTCGAACGAAATTT
59162019 TTTAC
66 TTTAC
59162024 GAAATATTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (73 bp):
CTTTTACAATTTAGTCCTTTTAACTAAATTGAGTGCCAAAACGTCAAAATTTTCGAACGAAATTT
TTTACAAA
Found at i:59170634 original size:30 final size:31
Alignment explanation
Indices: 59170593--59170654 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
59170583 CCTTTAATAC
*
59170593 AAACTTTTTGCAAAATTACATTTTTGCCCCT
1 AAACTTTTTGCAAAATTACACTTTTGCCCCT
*
59170624 AAAC-TTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTTGCAAAATTACACTTTTGCCCCT
59170654 A
1 A
59170655 GGCTCGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (31 bp):
AAACTTTTTGCAAAATTACACTTTTGCCCCT
Found at i:59182021 original size:13 final size:13
Alignment explanation
Indices: 59182003--59182028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59181993 AGGTAAGTTC
59182003 GTGTAATTATATT
1 GTGTAATTATATT
59182016 GTGTAATTATATT
1 GTGTAATTATATT
59182029 CTTTAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
GTGTAATTATATT
Found at i:59182262 original size:22 final size:23
Alignment explanation
Indices: 59182203--59182262 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
59182193 ACCGATACTC
*
59182203 AGCTCGTATGAGCTTACTATTATTT
1 AGCTCGTATGAGCTTAC--TTAGTT
* * *
59182228 AGGTCGGAGGAGCTTAC-TAGTT
1 AGCTCGTATGAGCTTACTTAGTT
59182250 AGCTCGTATGAGC
1 AGCTCGTATGAGC
59182263 CTACATGTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 14 0.50
25 14 0.50
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACTTAGTT
Found at i:59190290 original size:43 final size:44
Alignment explanation
Indices: 59190233--59190352 Score: 124
Period size: 43 Copynumber: 2.8 Consensus size: 44
59190223 AGAACATACA
*
59190233 CAATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAACAT
1 CAATGCCAACTGTCCCAAACGTGGTCTTACATGTAATCAAACAT
* * * *
59190276 CAATGCC-ACTGTCCCAAATAG-GGTCTTACACGAAATCAAATAT
1 CAATGCCAACTGTCCCAAA-CGTGGTCTTACATGTAATCAAACAT
* * *
59190319 -GATGCCGA-TGTCCCAAACATGGTCTTACATGTAA
1 CAATGCCAACTGTCCCAAACGTGGTCTTACATGTAA
59190353 AATAGAAGTC
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
42 28 0.44
43 34 0.54
44 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (44 bp):
CAATGCCAACTGTCCCAAACGTGGTCTTACATGTAATCAAACAT
Found at i:59191215 original size:11 final size:11
Alignment explanation
Indices: 59191188--59191217 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
59191178 ACCCTAGGTA
59191188 GTTATTTTCTT
1 GTTATTTTCTT
59191199 -TTATTTTCTT
1 GTTATTTTCTT
59191209 GTTATTTTC
1 GTTATTTTC
59191218 AGTCATGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.73
Consensus pattern (11 bp):
GTTATTTTCTT
Found at i:59194418 original size:20 final size:21
Alignment explanation
Indices: 59194393--59194439 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
59194383 GTTTTGATAT
*
59194393 ACATGATTGA-TATGATATGC
1 ACATGATTAAGTATGATATGC
59194413 ACATGA-TAAGTATGATATGC
1 ACATGATTAAGTATGATATGC
59194433 ACATGAT
1 ACATGAT
59194440 GTATTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (21 bp):
ACATGATTAAGTATGATATGC
Found at i:59194514 original size:24 final size:24
Alignment explanation
Indices: 59194487--59194618 Score: 167
Period size: 25 Copynumber: 5.4 Consensus size: 24
59194477 AGGAAGTGCA
* * *
59194487 AAAAGGGCTATGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* *
59194511 AAAAAGGGCTTTTGCCCAAGTTTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
59194537 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
59194562 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
59194586 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
59194609 AAAAGAGGCT
1 AAAAG-GGCT
59194619 AGGCCTCGAG
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 9 0.09
24 38 0.39
25 39 0.40
26 12 0.12
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:59194591 original size:49 final size:48
Alignment explanation
Indices: 59194487--59194618 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 48
59194477 AGGAAGTGCA
* * * *
59194487 AAAAGGGCTATGCCCTAGTTTACCAAAAAGGGCTTTTGCCCAAGTTTATT
1 AAAAGGGCTTTGCCCCAGTTTATC-AAAAGGGC-TTTGCCCAAGTTTATC
*
59194537 AAAAGGGCTTTTGCCCCAGTTTATCAAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATCAAAAGGGCTTTGCCCAAGTTTATC
*
59194586 AAAAGGGCTTTGCCCCAG-TTATTAAAAGAGGCT
1 AAAAGGGCTTTGCCCCAGTTTATCAAAAG-GGCT
59194619 AGGCCTCGAG
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
47 9 0.12
48 14 0.19
49 22 0.30
50 16 0.22
51 13 0.18
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (48 bp):
AAAAGGGCTTTGCCCCAGTTTATCAAAAGGGCTTTGCCCAAGTTTATC
Found at i:59194862 original size:31 final size:31
Alignment explanation
Indices: 59194827--59194913 Score: 111
Period size: 38 Copynumber: 2.6 Consensus size: 31
59194817 CGTTTACAGT
59194827 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59194858 AAAGGCTTCGGCCCAGTGTTAGGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G-T----AATATGAAATATGA
59194896 AAAGGCTTCGGCCCAGTA
1 AAAGGCTTCGGCCCAGTA
59194914 TACGCTGAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
31 16 0.33
33 1 0.02
34 1 0.02
35 1 0.02
36 1 0.02
38 29 0.59
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59197556 original size:46 final size:46
Alignment explanation
Indices: 59197512--59198261 Score: 1357
Period size: 46 Copynumber: 16.3 Consensus size: 46
59197502 AGCATCCGAA
* * * *
59197512 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC-GAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCTGAG
* *
59197558 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC--CTGAG
59197605 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59197651 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59197697 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59197743 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59197789 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59197835 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59197881 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59197927 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59197973 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59198019 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59198065 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59198111 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59198157 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59198203 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
59198249 CTCGTTGAGTTGA
1 CTCGTTGAGTTGA
59198262 NACTGTACTA
Statistics
Matches: 686, Mismatches: 8, Indels: 20
0.96 0.01 0.03
Matches are distributed among these distances:
42 2 0.00
43 4 0.01
44 1 0.00
45 3 0.00
46 639 0.93
47 25 0.04
48 4 0.01
50 5 0.01
51 3 0.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAG
Found at i:59203867 original size:219 final size:218
Alignment explanation
Indices: 59203483--59203924 Score: 638
Period size: 219 Copynumber: 2.0 Consensus size: 218
59203473 TTTCGTGATG
59203483 AAATTCTATGCCTAAAGTGCTTAAATTGAAAGTACGGACTAAATCGAATAAGTCGCAAAATTTGC
1 AAATTCTATGCCTAAAGTGCTTAAATTGAAAGTACGGACTAAATCGAATAAGTCGCAAAATTTGC
* **
59203548 ATTCTAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATTCGGAGATCTTAAATAGAAATTT
66 ATTATAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATGAGGAGATCTTAAATAGAAATTT
* *
59203613 GACCAATTTTAAGTTCATGGACAAAAATAGGACATGGAAGGAA-TTTTGAAAGTTTAGTAAGGAG
131 AACCAATTTTAAGTTCATGGACAAAAATAGGACATGGAAGGAATTTTTGAAAGTTTAGT-AGGAA
*
59203677 GGGCATTTTGGTCATTTGGATATT
195 GGGCATTTTGGTCATTTAGATATT
* * * * **
59203701 AAATTCCTATGCCTCAAGTGCTTAAATTGAAATTAGGGACTAAATCGAATAATTTTCAAAATTTG
1 AAATT-CTATGCCTAAAGTGCTTAAATTGAAAGTACGGACTAAATCGAATAAGTCGCAAAATTTG
* * * * *
59203766 CATTATAGGA-TTTTTTGTATGAAATTGCTTTGGAATATTAATGAGGAGGTCTTAAATAGAAATT
65 CATTATAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATGAGGAGATCTTAAATAGAAATT
* *
59203830 TAACCAATTTCTAAG-TCTATGGACAAAAATTGGACATGGATGGAATTTTTTTGAAAGTTTAGTA
130 TAACCAATTT-TAAGTTC-ATGGACAAAAATAGGACATGGAAGGAA--TTTTTGAAAGTTTAGTA
59203894 GGAAGGGCATTTTGGTCATTTAGATATT
191 GGAAGGGCATTTTGGTCATTTAGATATT
59203922 AAA
1 AAA
59203925 ATGAATTAAA
Statistics
Matches: 199, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
218 64 0.32
219 90 0.45
221 30 0.15
222 15 0.08
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.35
Consensus pattern (218 bp):
AAATTCTATGCCTAAAGTGCTTAAATTGAAAGTACGGACTAAATCGAATAAGTCGCAAAATTTGC
ATTATAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATGAGGAGATCTTAAATAGAAATTT
AACCAATTTTAAGTTCATGGACAAAAATAGGACATGGAAGGAATTTTTGAAAGTTTAGTAGGAAG
GGCATTTTGGTCATTTAGATATT
Found at i:59214156 original size:20 final size:20
Alignment explanation
Indices: 59214131--59214181 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
59214121 GTTTTAATAT
59214131 ACATGAT-TGATATGATATGC
1 ACATGATAT-ATATGATATGC
59214151 ACATGATATATATGATATGC
1 ACATGATATATATGATATGC
59214171 ACATGATATAT
1 ACATGATATAT
59214182 TAATAATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (20 bp):
ACATGATATATATGATATGC
Found at i:59214158 original size:11 final size:11
Alignment explanation
Indices: 59214142--59214179 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
59214132 CATGATTGAT
59214142 ATGATATGCAC
1 ATGATATGCAC
*
59214153 ATGATAT--AT
1 ATGATATGCAC
59214162 ATGATATGCAC
1 ATGATATGCAC
59214173 ATGATAT
1 ATGATAT
59214180 ATTAATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59214190 original size:20 final size:20
Alignment explanation
Indices: 59214131--59214191 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
59214121 GTTTTAATAT
*
59214131 ACATGAT-TGATATGATATGC
1 ACATGATAT-ATATAATATGC
*
59214151 ACATGATATATATGATATGC
1 ACATGATATATATAATATGC
59214171 ACATGATATAT-TAATAATGC
1 ACATGATATATATAAT-ATGC
59214191 A
1 A
59214192 TTGGGTTGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
19 3 0.08
20 34 0.89
21 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (20 bp):
ACATGATATATATAATATGC
Found at i:59214253 original size:26 final size:24
Alignment explanation
Indices: 59214225--59214319 Score: 104
Period size: 25 Copynumber: 3.9 Consensus size: 24
59214215 AGGAAGTGCA
* *
59214225 AAAAGGGC-TATGCCCTAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTA-C
*
59214249 GAAAAGGGCTTTTGCCCCAGTTTATT
1 -AAAAGGGCTTTTGCCCCAGTTTA-C
59214275 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTA-C
*
59214300 AAAAGGGC-TTTGCCCTAGTT
1 AAAAGGGCTTTTGCCCCAGTT
59214320 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.17
25 40 0.63
26 12 0.19
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCCCAGTTTAC
Found at i:59214579 original size:31 final size:31
Alignment explanation
Indices: 59214541--59214604 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
59214531 CTTTTACAGT
59214541 AAAGGCTTCAGCCC-GGCAATATGAAATATGA
1 AAAGGCTTCAGCCCAGGC-ATATGAAATATGA
* * *
59214572 AAAGGCTTCGGCCCAGTCTTATGAAATATGA
1 AAAGGCTTCAGCCCAGGCATATGAAATATGA
59214603 AA
1 AA
59214605 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGGCATATGAAATATGA
Found at i:59218425 original size:48 final size:47
Alignment explanation
Indices: 59218362--59218507 Score: 159
Period size: 48 Copynumber: 3.0 Consensus size: 47
59218352 TACTCAGGAG
* * * * *
59218362 TCTCGCACACTAAGTGCCAATGTCATGGCTTGAAGCCAACTCAATATA
1 TCTCGCACCCGAAGTGCCAATATCATGGC-CGAAGCCAAATCAATATA
* *
59218410 TCTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAGTCAATGA-A
1 TCTCGCACCCGAAGTGCCAATATCATGG-CCGAAGCCAAATCAAT-ATA
* * *
59218458 GCTCGCACCTGAAGTGCCAATATCATGGGCCGAAGCCAAATCAATGTA
1 TCTCGCACCCGAAGTGCCAATATCAT-GGCCGAAGCCAAATCAATATA
59218506 TC
1 TC
59218508 CTCTAACAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
48 78 0.95
49 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (47 bp):
TCTCGCACCCGAAGTGCCAATATCATGGCCGAAGCCAAATCAATATA
Found at i:59218519 original size:15 final size:15
Alignment explanation
Indices: 59218499--59218528 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
59218489 GAAGCCAAAT
59218499 CAATGTATCCTCTAA
1 CAATGTATCCTCTAA
59218514 CAATGTATCCTCTAA
1 CAATGTATCCTCTAA
59218529 TGACATATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (15 bp):
CAATGTATCCTCTAA
Found at i:59223261 original size:15 final size:15
Alignment explanation
Indices: 59223229--59223257 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59223219 TTTTTCTGTG
59223229 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
59223244 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
59223258 ATTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:59229419 original size:27 final size:27
Alignment explanation
Indices: 59229387--59229576 Score: 148
Period size: 27 Copynumber: 7.0 Consensus size: 27
59229377 CCTTAATCGA
59229387 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * **
59229414 TGAAATGATTGTTTTGCCCTTATGACG
1 TAAAATGACTATTTTGCCCTTATGTGG
* ***
59229441 TAAAATGACTGTTTTGCCCTTATAACG
1 TAAAATGACTATTTTGCCCTTATGTGG
**
59229468 TAAAATGACTATTTTGCCCTTGACTGTTT
1 TAAAATGACTATTTTGCCCTT-A-TGTGG
**** *
59229497 TCCCCTTGACT-TTTTGCCCTTATGTTG
1 T-AAAATGACTATTTTGCCCTTATGTGG
* * * *
59229524 TAAAATGACTGTTTTTCCCTTTTATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
59229551 TAAGATGACTATTTTACCCTTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
59229577 ATGTATTTTA
Statistics
Matches: 128, Mismatches: 31, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
26 5 0.04
27 104 0.81
28 2 0.02
29 12 0.09
30 5 0.04
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:59229516 original size:14 final size:15
Alignment explanation
Indices: 59229473--59229517 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
59229463 TAACGTAAAA
59229473 TGACTATTTTGCCCT
1 TGACTATTTTGCCCT
* *
59229488 TGACTGTTTTCCCCT
1 TGACTATTTTGCCCT
59229503 TGACT-TTTTGCCCT
1 TGACTATTTTGCCCT
59229517 T
1 T
59229518 ATGTTGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.09, C:0.29, G:0.13, T:0.49
Consensus pattern (15 bp):
TGACTATTTTGCCCT
Found at i:59234122 original size:27 final size:26
Alignment explanation
Indices: 59234092--59234403 Score: 225
Period size: 27 Copynumber: 11.7 Consensus size: 26
59234082 TTAGTTTACC
*
59234092 AAATCACCGAAATACCCCTGGTTTGTA
1 AAATTACCGAAATA-CCCTGGTTTGTA
* *
59234119 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TA-CCCTGGTTTGTA
* * * *
59234146 AAATTACCAAAATACCGTTGATTGTA
1 AAATTACCGAAATACCCTGGTTTGTA
* *
59234172 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCT-GGTTTGTA
* ** *
59234199 AAATTATCGAAATACCCTCAATTTGCA
1 AAATTACCGAAATACCCT-GGTTTGTA
* * *
59234226 AAATTACTGAAATACCCTTGATTTGCA
1 AAATTACCGAAATACCC-TGGTTTGTA
* **
59234253 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCT-GGTTTGTA
*
59234280 AAATTACC-AAAGTACCCTCGGTTTATA
1 AAATTACCGAAA-TACCCT-GGTTTGTA
* * * *
59234307 AAATTACTGAAATACCGTTGATTGTA
1 AAATTACCGAAATACCCTGGTTTGTA
* *
59234333 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCT-GGTTTGTA
* * **
59234360 AAATTACCAAAATACCCTTGTAGGGTA
1 AAATTACCGAAATACCCTGGT-TTGTA
59234387 TAAA-TACCGAAATACCC
1 -AAATTACCGAAATACCC
59234404 CTGTAGGGTA
Statistics
Matches: 232, Mismatches: 43, Indels: 20
0.79 0.15 0.07
Matches are distributed among these distances:
26 52 0.22
27 170 0.73
28 10 0.04
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (26 bp):
AAATTACCGAAATACCCTGGTTTGTA
Found at i:59234241 original size:54 final size:53
Alignment explanation
Indices: 59234100--59234377 Score: 292
Period size: 54 Copynumber: 5.2 Consensus size: 53
59234090 CCAAATCACC
* * * * * * *
59234100 GAAATACCCCTGGTTTGTAAAATTAC-CAAAGTACCCCCGGTTTATAAAATTACC
1 GAAATA-CCCTCGATTGTAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACT
* * *
59234154 AAAATACCGTTGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTA-T
1 GAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACT
* * * *
59234206 CGAAATACCCTCAATTTGCAAAATTACTGAAATACCCTTGATTTGCAAAATTACT
1 -GAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACT
* * *
59234261 GAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCCTCGGTTTATAAAATTACT
1 GAAATACCCTCGA-TTGTAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACT
* * *
59234315 GAAATACCGTTGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACT
*
59234368 AAAATACCCT
1 GAAATACCCT
59234378 TGTAGGGTAT
Statistics
Matches: 186, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
53 86 0.46
54 99 0.53
55 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
GAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACT
Found at i:59234284 original size:81 final size:79
Alignment explanation
Indices: 59234100--59234377 Score: 342
Period size: 80 Copynumber: 3.5 Consensus size: 79
59234090 CCAAATCACC
* * * ** * **
59234100 GAAATACCC-CTGGTTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCAAAATACCGT
1 GAAATACCCTC-GATTTGTAAAATTA-CAAAATACCCTCAATTTACAAAATTACTGAAATACCGT
59234164 TGATTGTAAAATTACT
64 TGATTGTAAAATTACT
* * *
59234180 GAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGCAAAATTACTGAAATACCCTT
1 GAAATACCCTCGATTTGTAAAATTA-CAAAATACCCTCAATTTACAAAATTACTGAAATACCGTT
*
59234245 GATTTGCAAAATTACT
65 GA-TTGTAAAATTACT
* * ** *
59234261 GAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACTGAAATACCGTT
1 GAAATACCCTCGATTTGTAAAATTA-CAAAATACCCTCAATTTACAAAATTACTGAAATACCGTT
59234326 GATTGTAAAATTACT
65 GATTGTAAAATTACT
59234341 GAAATACCCTCGATTTGTAAAATTACCAAAATACCCT
1 GAAATACCCTCGATTTGTAAAATTA-CAAAATACCCT
59234378 TGTAGGGTAT
Statistics
Matches: 171, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 100 0.58
81 71 0.42
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (79 bp):
GAAATACCCTCGATTTGTAAAATTACAAAATACCCTCAATTTACAAAATTACTGAAATACCGTTG
ATTGTAAAATTACT
Found at i:59234408 original size:27 final size:27
Alignment explanation
Indices: 59234361--59234610 Score: 329
Period size: 27 Copynumber: 9.3 Consensus size: 27
59234351 CGATTTGTAA
* * *
59234361 AATTACCAAAATACCCTTGTAGGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
*
59234388 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
59234415 AATTACTAAAATAGCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
59234442 AATTACTGAAACACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
59234469 AATTATCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
59234496 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
59234523 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
59234550 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
59234577 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
59234604 AATTACC
1 AATTACC
59234611 ATTTTGCCCC
Statistics
Matches: 194, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 194 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:59234421 original size:161 final size:161
Alignment explanation
Indices: 59234114--59234427 Score: 427
Period size: 161 Copynumber: 2.0 Consensus size: 161
59234104 TACCCCTGGT
59234114 TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCAAAATACCGTTGATTGTAAAATTAC
1 TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCAAAATACCGTTGATTGTAAAATTAC
* * ** * *
59234179 TGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGCAAAATTACTGAAATACCCT
66 TGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCAATGGGCAAAATTACCGAAATACCCC
** *
59234244 TGATTTGCAAAATTACTGAAATACCCTCGAC
131 TGATGGGCAAAATTACTAAAATACCCTCGAC
* **
59234275 TTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACTGAAATACCGTTGATTGTAAAATTAC
1 TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCAAAATACCGTTGATTGTAAAATTAC
** *
59234340 TGAAATACCCTCGATTTGTAAAATTACCAAAATACCCT-TGTAGGGTATAAA-TACCGAAATACC
66 TGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCAAT-GGGCA-AAATTACCGAAATACC
* *
59234403 CCTG-TAGGGTAGAATTACTAAAATA
129 CCTGAT-GGGCAAAATTACTAAAATA
59234428 GCCTTGTAGG
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
160 2 0.02
161 128 0.96
162 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (161 bp):
TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCAAAATACCGTTGATTGTAAAATTAC
TGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCAATGGGCAAAATTACCGAAATACCCC
TGATGGGCAAAATTACTAAAATACCCTCGAC
Found at i:59235296 original size:27 final size:26
Alignment explanation
Indices: 59235252--59235303 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59235242 CTCGCTGCAA
*
59235252 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
59235279 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
59235304 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:59235394 original size:27 final size:26
Alignment explanation
Indices: 59235342--59235400 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
59235332 CGACATATAT
*
59235342 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
59235368 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
59235395 ATATCT
1 ATATCT
59235401 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:59237926 original size:46 final size:46
Alignment explanation
Indices: 59237876--59238094 Score: 217
Period size: 47 Copynumber: 4.7 Consensus size: 46
59237866 TGAGCATCCA
*
59237876 AACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCG
*** * * * **
59237922 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAATC-TCCG
*
59237969 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCG
*** * * * **
59238015 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAATC-TCCG
*
59238062 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59238095 GCGGGTTACA
Statistics
Matches: 136, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
46 67 0.49
47 69 0.51
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCG
Found at i:59237980 original size:47 final size:47
Alignment explanation
Indices: 59237918--59238086 Score: 225
Period size: 47 Copynumber: 3.6 Consensus size: 47
59237908 GATGCGAATC
59237918 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* *** * * * **
59237965 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAATC-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
59238011 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
*
59238058 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
59238087 ACTTATGGGC
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 36 0.36
47 64 0.64
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:59238028 original size:93 final size:93
Alignment explanation
Indices: 59237869--59238094 Score: 425
Period size: 93 Copynumber: 2.4 Consensus size: 93
59237859 GTATGGTTGA
* * *
59237869 GCATCCAAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCGAACTCGTTGAGT
59237934 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
59237962 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCGAACTCGTTGAGT
59238027 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
59238055 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59238095 GCGGGTTACA
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 130 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:59241054 original size:15 final size:15
Alignment explanation
Indices: 59241016--59241059 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
59241006 CATAGTATCA
* *
59241016 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
59241031 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
59241046 TATCTTGGATTTCT
1 TATCTTGGATTTCT
59241060 TTATTCAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:59242297 original size:68 final size:64
Alignment explanation
Indices: 59242218--59242349 Score: 219
Period size: 68 Copynumber: 2.0 Consensus size: 64
59242208 ATCCGAGATA
59242218 GAAATAATTATTTTATGATTATTTTGAGGTCTATGATATATATGATTCCATGATTGTGTGAAAAT
1 GAAATAATTATTTTATGATTATTTTGAGGTCTATG----ATATGATTCCATGATTGTGTGAAAAT
59242283 TTC
62 TTC
*
59242286 GAAATAATTATTTTATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTC
1 GAAATAATTATTTTATGATTATTTTGAGGTCTATGATATGATTCCATGATTGTGTGAAAATTTC
59242350 TTGAAGAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
64 28 0.44
68 35 0.56
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.45
Consensus pattern (64 bp):
GAAATAATTATTTTATGATTATTTTGAGGTCTATGATATGATTCCATGATTGTGTGAAAATTTC
Found at i:59243569 original size:46 final size:46
Alignment explanation
Indices: 59243519--59243970 Score: 759
Period size: 46 Copynumber: 9.8 Consensus size: 46
59243509 TGGTTGAGCA
59243519 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
59243565 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
59243611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
59243657 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
59243703 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
59243749 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
59243795 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59243841 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
59243886 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59243934 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59243971 GCGGGTTACA
Statistics
Matches: 387, Mismatches: 10, Indels: 18
0.93 0.02 0.04
Matches are distributed among these distances:
42 2 0.01
43 5 0.01
45 3 0.01
46 339 0.88
47 29 0.07
48 3 0.01
50 4 0.01
51 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59247013 original size:42 final size:43
Alignment explanation
Indices: 59246906--59247015 Score: 109
Period size: 44 Copynumber: 2.6 Consensus size: 43
59246896 ATATGCGTTA
* * * *
59246906 TCGTATAAGACCATATTTAGAACATTGGCATCGACTTATGATT
1 TCGTGTAAGACCCTATTTGGGACATTGGCATCGACTTATGATT
* * *
59246949 TACGTGTAAGACCAC-GTCTGGGACGTTGGCATCGTA-TT-TGATT
1 T-CGTGTAAGACC-CTATTTGGGACATTGGCATCG-ACTTATGATT
59246992 TCGTGTAAGACCCTATTTGGGACA
1 TCGTGTAAGACCCTATTTGGGACA
59247016 GAGGCTTCAA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.02
42 18 0.34
43 7 0.13
44 26 0.49
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCCTATTTGGGACATTGGCATCGACTTATGATT
Found at i:59256313 original size:42 final size:42
Alignment explanation
Indices: 59256252--59256375 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 42
59256242 GTAATCACAT
* * *
59256252 ATCGATGCCACTGTCCCAGACAGGGTCTTACACGAACTCATAA
1 ATCGATGCCA-TGTCCCAGACAGGGTCTTACACGAAATAAAAA
* *
59256295 A-CGATGCCGATGTCCCAGACATGGCCTTACACGCAAATAAAAA
1 ATCGATGCC-ATGTCCCAGACAGGGTCTTACACG-AAATAAAAA
* *
59256338 ATCGATGCCAATGTCCTAGAC-GTCGTCTTACACGAAAT
1 ATCGATGCC-ATGTCCCAGACAG-GGTCTTACACGAAAT
59256376 CACATATCGA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.42
43 13 0.19
44 26 0.39
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
ATCGATGCCATGTCCCAGACAGGGTCTTACACGAAATAAAAA
Found at i:59256368 original size:44 final size:43
Alignment explanation
Indices: 59256216--59256375 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
59256206 TTGTACAACA
* * * * * * *
59256216 CCAACGTCCCAGACGTGTTCTTACATGTAATCACATATCGATG
1 CCAATGTCCCAGACGTGGTCTTACACGAAATAAAAAATCGATG
* * * *
59256259 CCACTGTCCCAGACAG-GGTCTTACACGAACTCATAAA-CGATG
1 CCAATGTCCCAGAC-GTGGTCTTACACGAAATAAAAAATCGATG
* * *
59256301 CCGATGTCCCAGACATGGCCTTACACGCAAATAAAAAATCGATG
1 CCAATGTCCCAGACGTGGTCTTACACG-AAATAAAAAATCGATG
* *
59256345 CCAATGTCCTAGACGTCGTCTTACACGAAAT
1 CCAATGTCCCAGACGTGGTCTTACACGAAAT
59256376 CACATATCGA
Statistics
Matches: 93, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
42 27 0.29
43 38 0.41
44 28 0.30
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
CCAATGTCCCAGACGTGGTCTTACACGAAATAAAAAATCGATG
Found at i:59257526 original size:15 final size:13
Alignment explanation
Indices: 59257494--59257518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59257484 ACAAACGATA
59257494 AAATTTTCACACG
1 AAATTTTCACACG
59257507 AAATTTTCACAC
1 AAATTTTCACAC
59257519 ATATAATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:59263289 original size:43 final size:43
Alignment explanation
Indices: 59263148--59263290 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 43
59263138 ATACCACGTT
* *
59263148 TGGGACGTTGGCATCGATATATGTGGTTACGTGTAAGACCATGTC
1 TGGGACGTTGGCATCG--ATATGTGATTACGTGTAAGACCATATC
* * * * * *
59263193 TGGGACATCGGTATCG-TATTTGATT-TGTGTAAGACCCTATC
1 TGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATATC
* * *
59263234 TGGGATAG-TGGCATCGATATGTGATTACATGTAAGACCAAATC
1 TGGGA-CGTTGGCATCGATATGTGATTACGTGTAAGACCATATC
59263277 TGGGACGTTGGCAT
1 TGGGACGTTGGCAT
59263291 TGTACGATAT
Statistics
Matches: 76, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
41 24 0.32
42 16 0.21
43 23 0.30
45 13 0.17
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (43 bp):
TGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATATC
Found at i:59269271 original size:23 final size:25
Alignment explanation
Indices: 59269225--59269278 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
59269215 ACTTTTCATT
* *
59269225 ATTTTTAAAGACTTGGATATTTTTA
1 ATTTTTAAAGACTTAGATACTTTTA
59269250 ATTTTT-AAG-CTTAGATACTTTTA
1 ATTTTTAAAGACTTAGATACTTTTA
59269273 ATTTTT
1 ATTTTT
59269279 TAGGTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 18 0.67
24 3 0.11
25 6 0.22
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.56
Consensus pattern (25 bp):
ATTTTTAAAGACTTAGATACTTTTA
Found at i:59270877 original size:22 final size:22
Alignment explanation
Indices: 59270827--59270880 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
59270817 CAGCCTCCAG
*
59270827 CACGGGCGTG-CCCCAGGATCA
1 CACGGGCGTGTCCCCAGGACCA
* **
59270848 CACCGGCGTGTCCCTTGGACCA
1 CACGGGCGTGTCCCCAGGACCA
59270870 CACGGGCGTGT
1 CACGGGCGTGT
59270881 GAGCCTTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (22 bp):
CACGGGCGTGTCCCCAGGACCA
Found at i:59272815 original size:10 final size:10
Alignment explanation
Indices: 59272791--59272837 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
59272781 TCTATCAACT
59272791 AACATT-AAA
1 AACATTCAAA
59272800 ATACATTCAAA
1 A-ACATTCAAA
59272811 AACA-T-AAA
1 AACATTCAAA
59272819 ATACATTCAAA
1 A-ACATTCAAA
59272830 AACATTCA
1 AACATTCA
59272838 TGGAAAGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.12
9 5 0.15
10 16 0.48
11 8 0.24
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (10 bp):
AACATTCAAA
Found at i:59272831 original size:20 final size:20
Alignment explanation
Indices: 59272791--59272835 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
59272781 TCTATCAACT
59272791 AACATTAAAATACATTCAAA
1 AACATTAAAATACATTCAAA
59272811 AACA-TAAAATACATTCAAA
1 AACATTAAAATACATTCAAA
59272830 AACATT
1 AACATT
59272836 CATGGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AACATTAAAATACATTCAAA
Found at i:59273901 original size:19 final size:20
Alignment explanation
Indices: 59273869--59273907 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
59273859 GATGAAACGA
59273869 AAAACTTCAGAAATTTTTAC
1 AAAACTTCAGAAATTTTTAC
59273889 AAAACTT-AGAAATTTTTAC
1 AAAACTTCAGAAATTTTTAC
59273908 CATGTACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTTCAGAAATTTTTAC
Found at i:59278182 original size:154 final size:154
Alignment explanation
Indices: 59277902--59278209 Score: 553
Period size: 154 Copynumber: 2.0 Consensus size: 154
59277892 AATGGGGAGA
* *
59277902 GACTACTACTCATGTCGCTATCTGAGGAAAAGAGGTGTTGATTAAGCCTCGAGAAGTATATCGAT
1 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
*
59277967 ATTAGGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
66 ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
59278032 ATAGATATGGAAGGGATAATTAAT
131 ATAGATATGGAAGGGATAATTAAT
59278056 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
1 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
* * *
59278121 ATTACGATGCCTCGTACTATACCTACGATTATTTGGAGAATTTAGTTTTGTTCATATTCGAGGAA
66 ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
*
59278186 TTAGATATGGAAGGGATAATTAAT
131 ATAGATATGGAAGGGATAATTAAT
59278210 TATTTGACAG
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
154 147 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (154 bp):
GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
ATAGATATGGAAGGGATAATTAAT
Found at i:59278888 original size:24 final size:23
Alignment explanation
Indices: 59278861--59278906 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
59278851 GAGGGATTGT
*
59278861 AGGAGGGAGTTGAGGAGAGATATG
1 AGGAGAGAGTTGAGGAG-GATATG
* *
59278885 AGGAGAGATTTTAGGAGGATAT
1 AGGAGAGAGTTGAGGAGGATAT
59278907 CAAGGGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.43, T:0.22
Consensus pattern (23 bp):
AGGAGAGAGTTGAGGAGGATATG
Found at i:59278941 original size:133 final size:133
Alignment explanation
Indices: 59278703--59278965 Score: 481
Period size: 133 Copynumber: 2.0 Consensus size: 133
59278693 GGGAGTAGAC
* *
59278703 TTTGAATTTGTCGTGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
1 TTTGAATTGGTCATGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
*
59278768 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAGGCACCTAGTG
66 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
59278833 GAG
131 GAG
**
59278836 TTTGAATTGGTCATGGAGGGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
1 TTTGAATTGGTCATGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
59278901 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
66 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
59278966 ATTTCGGTTT
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 125 1.00
ACGTcount: A:0.27, C:0.06, G:0.40, T:0.27
Consensus pattern (133 bp):
TTTGAATTGGTCATGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
GAG
Found at i:59280349 original size:53 final size:53
Alignment explanation
Indices: 59280286--59280720 Score: 518
Period size: 53 Copynumber: 8.2 Consensus size: 53
59280276 ACTAGACCCT
*
59280286 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAAACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
* *
59280339 CTTATGTGATAAATGACTATTTTGCCCATACGTGGTAAAAAGACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
* * *
59280392 CTTTTGTGATAAATGACTATTTTGCCTTTACATGGCAAAAAGACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
59280445 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
* *
59280498 CTTATGTGATAAATGACTATTTTTCCCTTACGTGGTAAAAAGACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
* * ** * *
59280551 CTTATATGATAAATGACTATTTTGCCCGTATGTCGTAAAATGAC-AGTTTTGCTC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTA-TTTTGC-C
* * * * * * *
59280605 C-TACGTGGTAAAATGATTATTTTTCCCTTATGA-GGTAAAATGATTATTTTGCC
1 CTTATGTGAT-AAATGACTATTTTGCCCTTA-CATGGTAAAAAGACTATTTTGCC
* * *** ** *
59280658 TTTATATCG-TAAAATGACTAAAATGCCCTTACATGGTAAATTGACTGTTTTGCC
1 CTTATGT-GAT-AAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
*
59280712 CCTATGTGA
1 CTTATGTGA
59280721 GTTATTTATA
Statistics
Matches: 329, Mismatches: 44, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
52 1 0.00
53 251 0.76
54 75 0.23
55 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (53 bp):
CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
Found at i:59280641 original size:27 final size:27
Alignment explanation
Indices: 59280286--59280719 Score: 398
Period size: 27 Copynumber: 16.3 Consensus size: 27
59280276 ACTAGACCCT
*
59280286 CTTATGTGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
** **
59280312 CTTACATGGTAAAAAAACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
*
59280339 CTTATGTGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* * *
59280365 CATACGTGGTAAAAAGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
59280392 CTTTTGTGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* ** * *
59280418 TTTACATGGCAAAAAGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
*
59280445 CTTATGTGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
** *
59280471 CTTACATGGTAAAAAGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
59280498 CTTATGTGAT-AAATGACTATTTTTCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
59280524 CTTACGTGGTAAAAAGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
59280551 CTTATATGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
59280577 CGTATGTCGTAAAATGAC-AGTTTTGCTC
1 CTTATGTGGTAAAATGACTA-TTTTGC-C
* * *
59280605 C-TACGTGGTAAAATGATTATTTTTCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
59280631 CTTATGAGGTAAAATGATTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* * * ***
59280658 TTTATATCGTAAAATGACTAAAATGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
** * *
59280685 CTTACATGGTAAATTGACTGTTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
*
59280712 CCTATGTG
1 CTTATGTG
59280720 AGTTATTTAT
Statistics
Matches: 319, Mismatches: 79, Indels: 19
0.76 0.19 0.05
Matches are distributed among these distances:
26 115 0.36
27 201 0.63
28 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (27 bp):
CTTATGTGGTAAAATGACTATTTTGCC
Found at i:59280695 original size:81 final size:80
Alignment explanation
Indices: 59280361--59280712 Score: 213
Period size: 80 Copynumber: 4.4 Consensus size: 80
59280351 ATGACTATTT
* * ** *
59280361 TGCCCATACGTGGTAAAAAGACTATTTTGCCCTT-TTGTGATAAATGACTATTTTGCCTTTACAT
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAG-GATAAATGACTATTTTGCCCGTATAT
* * * ***
59280425 GGCAAAAAGACTA-TTT
65 CGTAAAATGAC-AGAAA
* * * * *
59280441 TGCCCTTATGTGAT-AAATGACTATTTTGCCCTTACATGG-TAAAAAGACTATTTTGCCC-T-TA
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATA-GGAT-AAATGACTATTTTGCCCGTATA
***
59280502 T-GTGATAAATGACTA-TTT
64 TCGT-A-AAATGAC-AGAAA
* * *
59280520 TTCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATATGATAAATGACTATTTTGCCCGTATGTC
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAGGATAAATGACTATTTTGCCCGTATATC
***
59280585 GTAAAATGACAGTTT
66 GTAAAATGACAGAAA
* * * * **
59280600 TGCTCC-TACGTGGTAAAATGATTATTTTTCCCTTATGAGG-TAAAATGATTATTTTGCCTTTAT
1 TGC-CCTTACGTGGTAAAAAGACTATTTTGCCCTTAT-AGGAT-AAATGACTATTTTGCCCGTAT
59280663 ATCGTAAAATGACTA-AAA
63 ATCGTAAAATGAC-AGAAA
* ** *
59280681 TGCCCTTACATGGTAAATTGACTGTTTTGCCC
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCC
59280713 CTATGTGAGT
Statistics
Matches: 220, Mismatches: 36, Indels: 31
0.77 0.13 0.11
Matches are distributed among these distances:
77 1 0.00
78 3 0.01
79 60 0.27
80 91 0.41
81 62 0.28
82 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (80 bp):
TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAGGATAAATGACTATTTTGCCCGTATATC
GTAAAATGACAGAAA
Found at i:59284107 original size:40 final size:40
Alignment explanation
Indices: 59284009--59284311 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
59283999 TCCTCGTTCA
* * * * *
59284009 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59284048 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59284088 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59284128 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59284168 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
59284208 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
59284248 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
59284288 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59284312 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59284320 original size:41 final size:41
Alignment explanation
Indices: 59284243--59284320 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59284233 TTAGTATCTC
* * *
59284243 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59284284 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59284321 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59292114 original size:40 final size:40
Alignment explanation
Indices: 59292016--59292358 Score: 460
Period size: 40 Copynumber: 8.6 Consensus size: 40
59292006 TCCTCGTTCA
* * * ** *
59292016 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
59292055 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
59292095 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
59292135 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
59292175 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
59292215 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
59292255 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
59292295 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
59292335 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59292359 CAGCATTCAA
Statistics
Matches: 279, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
39 37 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:59295643 original size:43 final size:42
Alignment explanation
Indices: 59295577--59295694 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
59295567 AGCTTGTACA
* ** *
59295577 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAAACAAGGTCTTACACGTAATCAAATA-CG
**
59295620 ATGCC-ACTGTCCCAAACAAGGTCTTACACAAAATCAAATACG
1 ATGCCAAC-GTCCCAAACAAGGTCTTACACGTAATCAAATACG
* *
59295662 ATGCCAACGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAACGTCCCAAACAAGGTCTTACACGTAA
59295695 AACATAAGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACAAGGTCTTACACGTAATCAAATACG
Found at i:59295722 original size:44 final size:45
Alignment explanation
Indices: 59295577--59295745 Score: 133
Period size: 42 Copynumber: 3.9 Consensus size: 45
59295567 AGCTTGTACA
* * *
59295577 ATGCCAACGTCCCAGACGTGGTCTTACATG-TAATCAA-AT-A-TCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGATAA--AACATAAGTTG
* * * *
59295620 ATGCC-ACTGTCCCAAACAAGGTCTTACAC-A-AAATCA-AA-TACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGATAAAACATAAGT-TG
59295662 ATGCCAACGTCCCAGACATGGTCTTACACG-TAAAACATAAGTTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGATAAAACATAAGTTG
* * * *
59295706 ATGCCAATGTCTCAGACGTGGTCTTACACGATAACACATA
1 ATGCCAACGTCCCAGACATGGTCTTACACGATAAAACATA
59295746 TCGGATCCTA
Statistics
Matches: 102, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 30 0.29
43 29 0.28
44 30 0.29
45 9 0.09
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGATAAAACATAAGTTG
Found at i:59299363 original size:32 final size:32
Alignment explanation
Indices: 59299321--59299417 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
59299311 AATGCTTACC
59299321 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
59299353 ATGCTCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
59299385 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
59299417 A
1 A
59299418 AATGCATACA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:59302374 original size:82 final size:82
Alignment explanation
Indices: 59302217--59302374 Score: 185
Period size: 82 Copynumber: 1.9 Consensus size: 82
59302207 TATTGTCCGG
* * * * *
59302217 CCACACATGGAGAGAACAAAGTTAACTTCCTTACTAAAAATATCAAGGAAGACTCATTCTTCCTC
1 CCACACAAGGAGAGAACAAAGGTAACTTCCTTACTAAAAATAGCAAGAAAGACTCACTCTTCCTC
*
59302282 ACATCAAGGGATGGGAA
66 ACAACAAGGGATGGGAA
* * **
59302299 CCACACAAGGAGGGAATC-AAGGTAACTTCCTTGCTAAATTTAGCAAGAAAGACTCACTCTTCCA
1 CCACACAAGGAGAGAA-CAAAGGTAACTTCCTTACTAAAAATAGCAAGAAAGACTCACTCTTCC-
*
59302363 TCA-AACTAGGGA
64 TCACAACAAGGGA
59302375 CGACAACAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
82 59 0.94
83 4 0.06
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (82 bp):
CCACACAAGGAGAGAACAAAGGTAACTTCCTTACTAAAAATAGCAAGAAAGACTCACTCTTCCTC
ACAACAAGGGATGGGAA
Found at i:59303371 original size:16 final size:16
Alignment explanation
Indices: 59303352--59303408 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
59303342 TCCTTGTGTC
59303352 TATTTCCTATTGTGAT
1 TATTTCCTATTGTGAT
*
59303368 TATTTCATGCACTTGTG-T
1 TATTTCCT--A-TTGTGAT
*
59303386 CTATTTTCTATTGTGAT
1 -TATTTCCTATTGTGAT
59303403 TATTTC
1 TATTTC
59303409 ATGCAAGGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 17 0.53
17 2 0.06
18 2 0.06
19 11 0.34
ACGTcount: A:0.18, C:0.14, G:0.12, T:0.56
Consensus pattern (16 bp):
TATTTCCTATTGTGAT
Found at i:59303385 original size:35 final size:35
Alignment explanation
Indices: 59303344--59303413 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
59303334 TACATTATTC
59303344 CTTGTGTCTATTTCCTATTGTGATTATTTCATGCA
1 CTTGTGTCTATTTCCTATTGTGATTATTTCATGCA
*
59303379 CTTGTGTCTATTTTCTATTGTGATTATTTCATGCA
1 CTTGTGTCTATTTCCTATTGTGATTATTTCATGCA
59303414 AGGCATGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.53
Consensus pattern (35 bp):
CTTGTGTCTATTTCCTATTGTGATTATTTCATGCA
Found at i:59303884 original size:6 final size:6
Alignment explanation
Indices: 59303875--59303900 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59303865 TTTAGTTCTA
59303875 TTTTGT TTTTGT TTTTGT TTTTGT TT
1 TTTTGT TTTTGT TTTTGT TTTTGT TT
59303901 AGTTTGCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:59313875 original size:79 final size:81
Alignment explanation
Indices: 59313739--59313923 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
59313729 TTGAATGATG
*
59313739 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
59313803 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
59313818 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
59313880 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
59313898 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59313924 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:59313937 original size:40 final size:40
Alignment explanation
Indices: 59313740--59313923 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
59313730 TGAATGATGT
* * * *
59313740 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
59313780 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
59313820 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59313858 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59313899 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59313924 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:59313945 original size:79 final size:79
Alignment explanation
Indices: 59313792--59313956 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
59313782 GGACTAAGAT
* **
59313792 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59313857 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
59313871 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59313934 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59313950 CCGAAGG
1 CCGAAGG
59313957 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59315965 original size:29 final size:29
Alignment explanation
Indices: 59315895--59315967 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
59315885 TTTGCGGATT
* *
59315895 AACCGCCAAAACTCCCATATTTGCTAATA
1 AACCGCCAAAACTCCCATATTTACGAATA
** * * *
59315924 AACAACTAGAACTCTCATATTTACGAATA
1 AACCGCCAAAACTCCCATATTTACGAATA
59315953 AACCGCCAAAACTCC
1 AACCGCCAAAACTCC
59315968 ACAGAATTCC
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (29 bp):
AACCGCCAAAACTCCCATATTTACGAATA
Found at i:59319817 original size:43 final size:44
Alignment explanation
Indices: 59319654--59319825 Score: 144
Period size: 43 Copynumber: 4.0 Consensus size: 44
59319644 GACATAGGAT
* * * *
59319654 CCGATATGTGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGTA
1 CCGATATTTGATTACATGTAAGACCACGTCTGGGACAGTTGGCA
* * *
59319697 TCGACT-TATGATTTACATGTAAGACCACATCT-GGA-ATGTTGGCA
1 CCGA-TATTTGA-TTACATGTAAGACCACGTCTGGGACA-GTTGGCA
* * * *
59319741 TCG-TATTTGATTTCGTGTAAGACC-CTATCTGGGACAG-TGGCA
1 CCGATATTTGATTACATGTAAGACCAC-GTCTGGGACAGTTGGCA
*
59319783 CCGATATTTGATTACATGTAAGACCACGTTTGGGACA-TTGGCA
1 CCGATATTTGATTACATGTAAGACCACGTCTGGGACAGTTGGCA
59319826 TTGTACGATT
Statistics
Matches: 104, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
41 1 0.01
42 24 0.23
43 50 0.48
44 29 0.28
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
CCGATATTTGATTACATGTAAGACCACGTCTGGGACAGTTGGCA
Found at i:59321813 original size:19 final size:19
Alignment explanation
Indices: 59321789--59321827 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
59321779 CTCCAAAGTG
59321789 TTAGTTTTTTTTACTTTAC
1 TTAGTTTTTTTTACTTTAC
59321808 TTAGTTTTTTTTACTTTAC
1 TTAGTTTTTTTTACTTTAC
59321827 T
1 T
59321828 ATTTTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (19 bp):
TTAGTTTTTTTTACTTTAC
Found at i:59322011 original size:4 final size:4
Alignment explanation
Indices: 59321998--59322031 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
59321988 TTATTTGTGC
59321998 ATTT ATTTT ATTT ATTT ATTTT ATTT ATTT ATTT
1 ATTT A-TTT ATTT ATTT A-TTT ATTT ATTT ATTT
59322032 TTCTATGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:59322016 original size:13 final size:13
Alignment explanation
Indices: 59321998--59322032 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
59321988 TTATTTGTGC
59321998 ATTTATTTTATTT
1 ATTTATTTTATTT
59322011 ATTTATTTTATTT
1 ATTTATTTTATTT
59322024 ATTTATTTT
1 ATTTATTTT
59322033 TCTATGTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTATTTTATTT
Found at i:59323801 original size:19 final size:18
Alignment explanation
Indices: 59323777--59323823 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
59323767 CTTTGTTTCT
59323777 TTTGCATTCATTCCATGCA
1 TTTGCATTCATTCCAT-CA
*
59323796 TTTGCATTGCATTGCATCA
1 TTTGCATT-CATTCCATCA
59323815 TTTGCATTC
1 TTTGCATTC
59323824 GATTTTCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.69
20 7 0.27
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (18 bp):
TTTGCATTCATTCCATCA
Found at i:59328723 original size:44 final size:46
Alignment explanation
Indices: 59328686--59329031 Score: 159
Period size: 44 Copynumber: 7.7 Consensus size: 46
59328676 TTATCTCTTT
*
59328686 GAGGTAGCAAAGGAGCAGGCTGAAGATTGTAG-TCTTATCT-TCCC
1 GAGGTAGCAAAGGAGCAGACTGAAGATTGTAGATCTTATCTCTCCC
* * *
59328730 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTC-CCT
1 GAGGTAGCAAAGGAGCAGACTGAAGATTGTAGATCTTATCTCTCCC
** * ** * * *
59328775 GAAATAACAGTGGAGCA-AATCAAAGA-CG-ATGAATCTTATCT-TCCC
1 GAGGTAGCAAAGGAGCAGACT-GAAGATTGTA-G-ATCTTATCTCTCCC
** * ** **** * *
59328820 GAGGTAGCAGGGGAGCAGATTTTAGCCACTAG-CCTTATCTCT-CT
1 GAGGTAGCAAAGGAGCAGACTGAAGATTGTAGATCTTATCTCTCCC
* * *
59328864 GAGGTAGCAAGGGAGCATG-CTGAAAATTGTAG-TCTTATCT-TCCT
1 GAGGTAGCAAAGGAGCA-GACTGAAGATTGTAGATCTTATCTCTCCC
* * * *
59328908 GAGGTAGCAAGGGAACAGACTGAAGATTGTAGAT-TT-TGTCTCCTT
1 GAGGTAGCAAAGGAGCAGACTGAAGATTGTAGATCTTATCTCTCC-C
* ** * * * *
59328953 GAGATAGCAGTGGGGCAGA-TCAAAAGCTGT-GAATCTTATCT-TCCC
1 GAGGTAGCAAAGGAGCAGACTGAAGA-TTGTAG-ATCTTATCTCTCCC
* *
59328998 GAGGTAGCAAGGGAACAGACTGAAGATTGTAGAT
1 GAGGTAGCAAAGGAGCAGACTGAAGATTGTAGAT
59329032 TTTGTCTCCT
Statistics
Matches: 223, Mismatches: 57, Indels: 43
0.69 0.18 0.13
Matches are distributed among these distances:
43 5 0.02
44 110 0.49
45 92 0.41
46 13 0.06
47 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
GAGGTAGCAAAGGAGCAGACTGAAGATTGTAGATCTTATCTCTCCC
Found at i:59328821 original size:90 final size:90
Alignment explanation
Indices: 59328718--59329272 Score: 452
Period size: 90 Copynumber: 6.2 Consensus size: 90
59328708 AAGATTGTAG
* *
59328718 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAAATAAC
1 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAGATAGC
*
59328783 AGTGGAGCAAATC-AAAGAC-GATGAA
66 AGTGGAGCAGATCAAAAG-CTG-TGAA
* * ** **** * * * *
59328808 TCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAG-CCTTATCTCTCTGAGGTAGC
1 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAGATAGC
* * * *
59328872 AAG-GGAGCATGCTGAAAA-TTGT-AG
66 -AGTGGAGCA-GATCAAAAGCTGTGAA
* * * *
59328896 TCTTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATTTTGTCTCCTTGAGATAGC
1 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAGATAGC
*
59328961 AGTGGGGCAGATCAAAAGCTGTGAA
66 AGTGGAGCAGATCAAAAGCTGTGAA
* * *
59328986 TCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATTTTGTCTCCTTGAGATAGC
1 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAGATAGC
*
59329051 AGTGGGGCAGATCAAAAGCTGTGAA
66 AGTGGAGCAGATCAAAAGCTGTGAA
* * ** ** * * * * **
59329076 TCTTATCTTCCCGAGGTAGCAAGGGAGCAAATTTTAG---CCACCATCCTTATCTCTCTAAGGCA
1 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTA-GAT-CTTGTCTCCCTGAGATA
* * ** * *
59329138 GCAAG-GGAGTAG-GCTGAAGAT-TGTAG
64 GC-AGTGGAGCAGATCAAAAGCTGTG-AA
** * *
59329164 TCTTATCTTCTTGAGGTAGCAAGGGAGAAGACTGAAGATTGTAGATCTTGTCTCCTTGAGATAGC
1 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAGATAGC
* **
59329229 AGTGGGGCAGAT-AAAAAATGGTGAA
66 AGTGGAGCAGATCAAAAGCT-GTGAA
*
59329254 TCTTATCTTCTCGAGGTAG
1 TCTTATCTTCCCGAGGTAG
59329273 TAGGGGAGTA
Statistics
Matches: 359, Mismatches: 87, Indels: 38
0.74 0.18 0.08
Matches are distributed among these distances:
87 3 0.01
88 83 0.23
89 82 0.23
90 185 0.52
91 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (90 bp):
TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAGATAGC
AGTGGAGCAGATCAAAAGCTGTGAA
Found at i:59328868 original size:134 final size:132
Alignment explanation
Indices: 59328730--59329167 Score: 372
Period size: 134 Copynumber: 3.3 Consensus size: 132
59328720 TTATCTTCCC
* * *
59328730 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAAATAACAGTGGAGCAAAT
1 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-TCTTGTCTCCCTGAGATAGCAGTGGAGCAGAT
*
59328795 CAAAGACGATGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCT
65 CAAAGACG-TGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAACCTTATCT
59328860 CTCT
129 CTCT
* * * * *
59328864 GAGGTAGCAAGGGAGCATG-CTGAAAATTGTAGTCTTATCTTCCTGAGGTAGCAAG-GGAACAGA
1 GAGGTAGCAAGGGAGCA-GACTGAAGATTGTAGTCTTGTCTCCCTGAGATAGC-AGTGGAGCAGA
* * * * * * *** ** *
59328927 -CTGAAGA-TTGTAGATTTTGTC-TCCTTGAGATAGCAGTGGG-GCAGATCAAAAG-CTGTGAAT
64 TC-AAAGACGTG-A-ATCTTATCTTCC-CGAGGTAGCAG-GGGAGCAGAT-TTTAGCCACT-AAC
*
59328987 CTTATCT-TCCC
122 CTTATCTCT-CT
* * * *
59328998 GAGGTAGCAAGGGAACAGACTGAAGATTGTAGATTTTGTCTCCTTGAGATAGCAGTGGGGCAGAT
1 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-TCTTGTCTCCCTGAGATAGCAGTGGAGCAGAT
* * * *
59329063 CAAA-AGCTGTGAATCTTATCTTCCCGAGGTAGCAAGGGAGCAAATTTTAGCCACCATCCTTATC
65 CAAAGA-C-GTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAACCTTATC
59329127 TCTCT
128 TCTCT
* * * *
59329132 AAGGCAGCAAGGGAGTAGGCTGAAGATTGTAGTCTT
1 GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGTCTT
59329168 ATCTTCTTGA
Statistics
Matches: 229, Mismatches: 54, Indels: 43
0.70 0.17 0.13
Matches are distributed among these distances:
131 2 0.01
132 5 0.02
133 53 0.23
134 117 0.51
135 45 0.20
136 5 0.02
137 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (132 bp):
GAGGTAGCAAGGGAGCAGACTGAAGATTGTAGTCTTGTCTCCCTGAGATAGCAGTGGAGCAGATC
AAAGACGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAACCTTATCTCT
CT
Found at i:59328895 original size:178 final size:177
Alignment explanation
Indices: 59328581--59329016 Score: 651
Period size: 178 Copynumber: 2.4 Consensus size: 177
59328571 TCGATGAATT
* * *
59328581 TAGATTTTGTCTTCCTGAAATAGCAGTGGAGCAGATCGAAGACG-GCAAATCTTATCTTCCCAAG
1 TAGATTTTGTCTCCCTGAAATAGCAGTGGAGCAGATCAAAGACGTG--AATCTTATCTTCCCGAG
* *
59328645 GTATCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGCAAAGGAGCAGGCTGAA
64 GTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAAGGAGCAGGCTGAA
* *
59328710 GATTGTAGTCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTG
129 AATTGTAGTCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTG
* * *
59328759 TAGATCTTGTCTCCCTGAAATAACAGTGGAGCAAATCAAAGACGATGAATCTTATCTTCCCGAGG
1 TAGATTTTGTCTCCCTGAAATAGCAGTGGAGCAGATCAAAGACG-TGAATCTTATCTTCCCGAGG
* *
59328824 TAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGGGAGCATGCTGAAA
65 TAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAAGGAGCAGGCTGAAA
*
59328889 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTG
130 ATTGTAGTCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTG
* * *
59328937 TAGATTTTGTCTCCTTGAGATAGCAGTGGGGCAGATCAAA-AGCTGTGAATCTTATCTTCCCGAG
1 TAGATTTTGTCTCCCTGAAATAGCAGTGGAGCAGATCAAAGA-C-GTGAATCTTATCTTCCCGAG
* *
59329001 GTAGCAAGGGAACAGA
64 GTAGCAGGGGAGCAGA
59329017 CTGAAGATTG
Statistics
Matches: 233, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
177 1 0.00
178 230 0.99
179 1 0.00
180 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (177 bp):
TAGATTTTGTCTCCCTGAAATAGCAGTGGAGCAGATCAAAGACGTGAATCTTATCTTCCCGAGGT
AGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAAGGAGCAGGCTGAAAA
TTGTAGTCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTG
Found at i:59329169 original size:44 final size:46
Alignment explanation
Indices: 59329121--59329217 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 46
59329111 AGCCACCATC
* *
59329121 CTTATCTCTC-TAAGGCAGCAAGGGAGTAGGCTGAAGATTGTAG-T
1 CTTATCTCTCTTAAGGCAGCAAGGGAGAAGACTGAAGATTGTAGAT
* *
59329165 CTTATCT-TCTTGAGGTAGCAAGGGAGAAGACTGAAGATTGTAGAT
1 CTTATCTCTCTTAAGGCAGCAAGGGAGAAGACTGAAGATTGTAGAT
*
59329210 CTTGTCTC
1 CTTATCTC
59329218 CTTGAGATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 2 0.04
44 36 0.80
45 7 0.16
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (46 bp):
CTTATCTCTCTTAAGGCAGCAAGGGAGAAGACTGAAGATTGTAGAT
Found at i:59329198 original size:268 final size:268
Alignment explanation
Indices: 59328718--59329272 Score: 857
Period size: 268 Copynumber: 2.1 Consensus size: 268
59328708 AAGATTGTAG
*
59328718 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTGTCTCCCTGAAATAAC
1 TCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATCTTGTCTCCCTGAAATAAC
* *
59328783 AGTGGAGCAAATCAAAGACGATGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCA
66 AGTGGAGCAAATCAAAGACGATGAATCTTATCTTCCCGAGGTAGCAAGGGAGCAAATTTTAGCCA
* * * *
59328848 CTAGCCTTATCTCTCTGAGGTAGCAAGGGAGCATGCTGAAAATTGTAGTCTTATCTTCCTGAGGT
131 CCAGCCTTATCTCTCTAAGGCAGCAAGGGAGCAGGCTGAAAATTGTAGTCTTATCTTCCTGAGGT
*
59328913 AGCAAGGGAACAGACTGAAGATTGTAGATTTTGTCTCCTTGAGATAGCAGTGGGGCAGATCAAAA
196 AGCAAGGGAACAGACTGAAGATTGTAGATCTTGTCTCCTTGAGATAGCAGTGGGGCAGAT-AAAA
**
59328978 GCT-GTGAA
260 AATGGTGAA
* * * *
59328986 TCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATTTTGTCTCCTTGAGATAGC
1 TCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATCTTGTCTCCCTGAAATAAC
* *
59329051 AGTGGGGCAGATCAAA-AGCTG-TGAATCTTATCTTCCCGAGGTAGCAAGGGAGCAAATTTTAGC
66 AGTGGAGCAAATCAAAGA-C-GATGAATCTTATCTTCCCGAGGTAGCAAGGGAGCAAATTTTAGC
* * * *
59329114 CACCATCCTTATCTCTCTAAGGCAGCAAGGGAGTAGGCTGAAGATTGTAGTCTTATCTTCTTGAG
129 CACCAGCCTTATCTCTCTAAGGCAGCAAGGGAGCAGGCTGAAAATTGTAGTCTTATCTTCCTGAG
59329179 GTAGCAAGGGAGA-AGACTGAAGATTGTAGATCTTGTCTCCTTGAGATAGCAGTGGGGCAGATAA
194 GTAGCAAGGGA-ACAGACTGAAGATTGTAGATCTTGTCTCCTTGAGATAGCAGTGGGGCAGATAA
59329243 AAAATGGTGAA
258 AAAATGGTGAA
*
59329254 TCTTATCTTCTCGAGGTAG
1 TCTTATCTTCCCGAGGTAG
59329273 TAGGGGAGTA
Statistics
Matches: 262, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
267 6 0.02
268 254 0.97
269 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (268 bp):
TCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATCTTGTCTCCCTGAAATAAC
AGTGGAGCAAATCAAAGACGATGAATCTTATCTTCCCGAGGTAGCAAGGGAGCAAATTTTAGCCA
CCAGCCTTATCTCTCTAAGGCAGCAAGGGAGCAGGCTGAAAATTGTAGTCTTATCTTCCTGAGGT
AGCAAGGGAACAGACTGAAGATTGTAGATCTTGTCTCCTTGAGATAGCAGTGGGGCAGATAAAAA
ATGGTGAA
Found at i:59329472 original size:177 final size:178
Alignment explanation
Indices: 59328986--59329741 Score: 907
Period size: 177 Copynumber: 4.3 Consensus size: 178
59328976 AAGCTGTGAA
** * * * *
59328986 TCTTATCTTCCCGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATTTTGTCTCCTTGAGATAGC
1 TCTTATCTTCTTGAGGTAGCAAGGGAGCAAACTGAAGACTGCAGATTTTGTCTCCTTGAGATAGC
* * *
59329051 AGTGGGGCAGATCAAAAGCT-GTGAATCTTATCTTCCCGAGGTAGCA-AGGGAGCAAATTTTAGC
66 AGTGGGGCAGATCAAAA-ATGGTGAATCTTATCTTCCTGAGGTAGCAGA-GGAGCAGATTTTAGC
* * * *
59329114 CACCATCCTTATCTCTCTAAGGCAGCAAGGGAGTAGGCTGAAGATTGTAG
129 CACCAGCCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG
* * *
59329164 TCTTATCTTCTTGAGGTAGCAAGGGAG-AAGACTGAAGATTGTAGATCTTGTCTCCTTGAGATAG
1 TCTTATCTTCTTGAGGTAGCAAGGGAGCAA-ACTGAAGACTGCAGATTTTGTCTCCTTGAGATAG
* * * *
59329228 CAGTGGGGCAGATAAAAAATGGTGAATCTTATCTT-CTCGAGGTAGTAGGGGAGTAGATTTTAGC
65 CAGTGGGGCAGATCAAAAATGGTGAATCTTATCTTCCT-GAGGTAGCAGAGGAGCAGATTTTAGC
** *
59329292 CACTGGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG
129 CACCAGCCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG
* *
59329342 TCTTATCTTTTTGAGGTAGCAAGGGAGCAAACTGATGACT-CAGATTTTGTCT-CTTCGAGATAG
1 TCTTATCTTCTTGAGGTAGCAAGGGAGCAAACTGAAGACTGCAGATTTTGTCTCCTT-GAGATAG
* * *
59329405 CAGTAGGGCAGATTAAAAATGGTGAATCTTTTCTTCCTGAGGTAGCAGAGGAGCAGATTTTAGCC
65 CAGTGGGGCAGATCAAAAATGGTGAATCTTATCTTCCTGAGGTAGCAGAGGAGCAGATTTTAGCC
* *
59329470 ACTAGCCTTATCCCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG
130 ACCAGCCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG
* * * * *
59329519 TATTATCTTCTTGAGGTAACAAGGGAG-AAGACTGATGACT-CGGATTTTGTCTCCTTGGGATAG
1 TCTTATCTTCTTGAGGTAGCAAGGGAGCAA-ACTGAAGACTGCAGATTTTGTCTCCTTGAGATAG
* * ** *** * * * * *
59329582 AAGTGGGGCAGATCGAAAGCGACAAATCTTATCTTCCTAAGGTAGTAGGGGAGCAGATTTCAGCA
65 CAGTGGGGCAGATCAAAAATGGTGAATCTTATCTTCCTGAGGTAGCAGAGGAGCAGATTTTAGCC
** **
59329647 ACCAATCTTATCTCCCTGGGGTAGCAAGGGAGCAGGCTGAAGATTGTAG
130 ACCAGCCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG
* * * *
59329696 TCTCATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGACTGGAGAT
1 TCTTATCTTCTTGAGGTAGCAAGGGAGCAAACTGAAGACTGCAGAT
59329742 CTTATATCCC
Statistics
Matches: 500, Mismatches: 67, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
176 5 0.01
177 298 0.60
178 195 0.39
179 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (178 bp):
TCTTATCTTCTTGAGGTAGCAAGGGAGCAAACTGAAGACTGCAGATTTTGTCTCCTTGAGATAGC
AGTGGGGCAGATCAAAAATGGTGAATCTTATCTTCCTGAGGTAGCAGAGGAGCAGATTTTAGCCA
CCAGCCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG
Found at i:59331451 original size:12 final size:11
Alignment explanation
Indices: 59331424--59331462 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
59331414 TATTTAATCT
*
59331424 TTTTTTATTTCA
1 TTTTTTATAT-A
59331436 TTTTTTATA-A
1 TTTTTTATATA
59331446 TTTTTTATATA
1 TTTTTTATATA
59331457 TTTTTT
1 TTTTTT
59331463 CTTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 10 0.40
11 7 0.28
12 8 0.32
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:59331528 original size:3 final size:3
Alignment explanation
Indices: 59331520--59331559 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
59331510 TTTTTCATTC
* * *
59331520 TAT TAT TAT TAC TAC TAT TAT TCT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
59331560 TTAAAATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:59332721 original size:11 final size:10
Alignment explanation
Indices: 59332697--59332732 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
59332687 AAACATATAC
59332697 TTTGGTATGA
1 TTTGGTATGA
*
59332707 TTTGGTTTAGA
1 TTTGGTAT-GA
59332718 TTTGGTATGA
1 TTTGGTATGA
59332728 TTTGG
1 TTTGG
59332733 CTGGTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (10 bp):
TTTGGTATGA
Done.