Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 320 of 410
Found at i:99433500 original size:29 final size:29
Alignment explanation
Indices: 99433463--99433551 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
99433453 TTTATTTTAG
* * *
99433463 ATTACATTTTAGTTACTTATGTTTTAAAT
1 ATTATATTTTAGTAATTTATGTTTTAAAT
*
99433492 ATTATATTTTAGTAATTTATGTTTAAAAT
1 ATTATATTTTAGTAATTTATGTTTTAAAT
* *
99433521 ATTATATTTTAGTCATTTATGTTAT-AAT
1 ATTATATTTTAGTAATTTATGTTTTAAAT
99433549 ATT
1 ATT
99433552 GTAACATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 6 0.11
29 47 0.89
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (29 bp):
ATTATATTTTAGTAATTTATGTTTTAAAT
Found at i:99433501 original size:14 final size:14
Alignment explanation
Indices: 99433479--99433531 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
99433469 TTTTAGTTAC
*
99433479 TTATGTTTTAAATA
1 TTATATTTTAAATA
99433493 TTATATTTTAGTAAT-
1 TTATATTTTA--AATA
* *
99433508 TTATGTTTAAAATA
1 TTATATTTTAAATA
99433522 TTATATTTTA
1 TTATATTTTA
99433532 GTCATTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 3 0.10
14 17 0.55
15 8 0.26
16 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
TTATATTTTAAATA
Found at i:99433776 original size:21 final size:20
Alignment explanation
Indices: 99433748--99433787 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
99433738 CCATTCTCTT
*
99433748 CTCCTTCTCCCTCTATTTTC
1 CTCCTTCTCCATCTATTTTC
*
99433768 CTCCATTCTCCATTTATTTT
1 CTCC-TTCTCCATCTATTTT
99433788 AATGTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.53
Consensus pattern (20 bp):
CTCCTTCTCCATCTATTTTC
Found at i:99434016 original size:13 final size:13
Alignment explanation
Indices: 99433998--99434023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99433988 AGATTGAATT
99433998 TCACTCAAAACTG
1 TCACTCAAAACTG
99434011 TCACTCAAAACTG
1 TCACTCAAAACTG
99434024 AATATCAATA
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:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TCACTCAAAACTG
Found at i:99438025 original size:2 final size:2
Alignment explanation
Indices: 99438013--99438043 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
99438003 CTTGCTCTAT
*
99438013 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99438044 GCCACATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:99447915 original size:31 final size:31
Alignment explanation
Indices: 99447877--99447938 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
99447867 ACAATGAGAC
99447877 AAAATTGGATGATTACAAATAAAGGGGAAGA
1 AAAATTGGATGATTACAAATAAAGGGGAAGA
99447908 AAAATTGGATGATTACAAATAAAGGGGAAGA
1 AAAATTGGATGATTACAAATAAAGGGGAAGA
99447939 CCTTTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.26, T:0.19
Consensus pattern (31 bp):
AAAATTGGATGATTACAAATAAAGGGGAAGA
Found at i:99449780 original size:27 final size:26
Alignment explanation
Indices: 99449757--99449806 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
99449747 TCAAATTATG
99449757 TTTTTTA-AAT-ATTCAATTGTAATTT
1 TTTTTTATAATAATT-AATTGTAATTT
99449782 TTTTTTATAATAATTAATTGTAATT
1 TTTTTTATAATAATTAATTGTAATT
99449807 GTAGTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 13 0.57
27 3 0.13
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTTTATAATAATTAATTGTAATTT
Found at i:99452893 original size:21 final size:20
Alignment explanation
Indices: 99452869--99452907 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
99452859 AATAAAAGTT
99452869 ATAAAAAATTATTTAATTTTA
1 ATAAAAAA-TATTTAATTTTA
*
99452890 ATAAGAAATATTT-ATTTT
1 ATAAAAAATATTTAATTTT
99452908 TTATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATAAAAAATATTTAATTTTA
Found at i:99452996 original size:31 final size:30
Alignment explanation
Indices: 99452929--99452985 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
99452919 GGAAAAAGAT
99452929 TATA-AAATCATAAAAAAATTTATAAAATA
1 TATAGAAATCATAAAAAAATTTATAAAATA
99452958 TATAGAAAT-ATAGAAAAAATTTTATAAA
1 TATAGAAATCATA-AAAAAA-TTTATAAA
99452986 GTCATAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 7 0.28
30 10 0.40
31 8 0.32
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (30 bp):
TATAGAAATCATAAAAAAATTTATAAAATA
Found at i:99453006 original size:31 final size:30
Alignment explanation
Indices: 99452932--99453006 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 30
99452922 AAAAGATTAT
99452932 AAAATCATAAAAAAATTTATAAAATATATAG
1 AAAAT-ATAAAAAAATTTATAAAATATATAG
*
99452963 -AAATATAGAAAAAATTTTATAAAGTCATA-AG
1 AAAATATA-AAAAAA-TTTATAAAAT-ATATAG
99452994 AAAATGATAAAAA
1 AAAAT-ATAAAAA
99453007 TGTAAAGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 3 0.08
30 10 0.26
31 11 0.29
32 11 0.29
33 3 0.08
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.27
Consensus pattern (30 bp):
AAAATATAAAAAAATTTATAAAATATATAG
Found at i:99453007 original size:51 final size:50
Alignment explanation
Indices: 99452928--99453024 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 50
99452918 TGGAAAAAGA
* *
99452928 TTATAAAATCATAAAAAAATTTATAAAATATATAGAAATATAGAAAAAATT
1 TTATAAAATCATAAAAAAATATATAAAATATAAAGAAATATA-AAAAAATT
* * * *
99452979 TTATAAAGTCATAAGAAAATGATA-AAAATGTAAAGAATTATAAAAA
1 TTATAAAATCATAAAAAAAT-ATATAAAATATAAAGAAATATAAAAA
99453025 TTATCATACC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
50 4 0.10
51 33 0.85
52 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (50 bp):
TTATAAAATCATAAAAAAATATATAAAATATAAAGAAATATAAAAAAATT
Found at i:99453331 original size:10 final size:9
Alignment explanation
Indices: 99453300--99453331 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
99453290 TTAAAGTTTA
99453300 ATAATTTTT
1 ATAATTTTT
99453309 ATAATTTTT
1 ATAATTTTT
99453318 AT--TTTTT
1 ATAATTTTT
99453325 ATAATTT
1 ATAATTT
99453332 ATTTGTCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATAATTTTT
Found at i:99454728 original size:28 final size:28
Alignment explanation
Indices: 99454666--99454729 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
99454656 ACAGTAGTTC
*
99454666 CTGAAAAAATAAATTAGAGAAGACTTAT
1 CTGAAAAAATAAATTAGAGAAGACGTAT
* *
99454694 CTAAAAAAATAAATTAGAGAAGACGTGT
1 CTGAAAAAATAAATTAGAGAAGACGTAT
99454722 CTGAAAAA
1 CTGAAAAA
99454730 TAATTTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.22
Consensus pattern (28 bp):
CTGAAAAAATAAATTAGAGAAGACGTAT
Found at i:99454861 original size:126 final size:125
Alignment explanation
Indices: 99454721--99455098 Score: 562
Period size: 126 Copynumber: 3.0 Consensus size: 125
99454711 AGAAGACGTG
* * * * * *
99454721 TCTG-AAAAATAATTTTGAAAAGATATTTCTAAACAAATAGTGCCAAAAATGCTTCAAGCAGAAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
99454785 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACATTCTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGAC-TTCTTTTTCTACAGTAGTT
* *
99454846 TTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* * *
99454911 GCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACTCTGTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACT-TCTTTTTCTACAGTAGTT
* *
99454972 TCTGAAAAAATAATTTTGCGAAGATGTTTCTGAACAGATAGTGTCAAAAACGCTTCAAGCAGGAT
1 TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
* *
99455037 ACACTGTCAGCAAAAGTACTGAAAAAAGCT-CTCACGTGGACGCTCTTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCT-ACGTGGAC-TTC-TTTTTCTACAGTAGTT
99455099 CCTATTTGGC
Statistics
Matches: 228, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
125 5 0.02
126 207 0.91
127 16 0.07
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (125 bp):
TCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
GCACTGTCAGCAAAAGTACTGAAAAAAGCTCCTACGTGGACTTCTTTTTCTACAGTAGTT
Found at i:99459331 original size:7 final size:7
Alignment explanation
Indices: 99459319--99459344 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99459309 TTAGTTACGT
99459319 AATACTA
1 AATACTA
99459326 AATACTA
1 AATACTA
99459333 AATACTA
1 AATACTA
99459340 AATAC
1 AATAC
99459345 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:99469188 original size:11 final size:11
Alignment explanation
Indices: 99469172--99469196 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99469162 TTATATATAC
99469172 TAATAAAATAA
1 TAATAAAATAA
99469183 TAATAAAATAA
1 TAATAAAATAA
99469194 TAA
1 TAA
99469197 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:99474078 original size:40 final size:39
Alignment explanation
Indices: 99474034--99474217 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
99474024 GCTAGTGAAT
* * *
99474034 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTAC
1 AATTCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTAC
* * * **
99474073 AAATTCCAGGCTAAGCCCCAAAGGCATTGGTGCGAGTTAC
1 -AATTCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTAC
* * *
99474113 TAATTACGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGC
1 -AATTCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTAC
* * *
99474153 TATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGAC
1 AAT-TCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTAC
*
99474193 CATATCCGGGCTAAGACCCGAAGGC
1 AAT-TCCGGGCTAAGACCCGAAGGC
99474218 CTTGTGCGAG
Statistics
Matches: 123, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 2 0.02
40 121 0.98
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
AATTCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTAC
Found at i:99474203 original size:80 final size:79
Alignment explanation
Indices: 99474034--99474253 Score: 223
Period size: 80 Copynumber: 2.8 Consensus size: 79
99474024 GCTAGTGAAT
* * * * *
99474034 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTAC-AAATTCCAGGCTAAGCCCCAAAGGC
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA-TCC-GGCTAAGACCCGAAGGC
* * *
99474098 ATTGGTGCGAGTTACT
64 ATTGATGCGAGTGACC
* *
99474114 AATTACGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAGACCCGAAGGCA
* *
99474179 TTTATGCTAGTGACC
65 TTGATGCGAGTGACC
* * * *
99474194 -ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTTATATCCGGCTAA-ATCCCGAAG
1 AAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGA-CCCGAAG
99474254 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
77 1 0.01
78 13 0.11
79 19 0.16
80 83 0.70
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGACCCGAAGGCAT
TGATGCGAGTGACC
Found at i:99482274 original size:40 final size:40
Alignment explanation
Indices: 99482213--99482426 Score: 227
Period size: 40 Copynumber: 5.3 Consensus size: 40
99482203 CTAACGGGGT
* * * * * *
99482213 TAAGTCCCGAAGACATGTGTGCTAATGATTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
* * *
99482253 TAAGTCCCAAAGGCATTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
*
99482293 TAAGTCCCGAAGGCATTGGTG-TGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCT-AGTTACTAATTCCGGGC
* *
99482333 TAAGTCCCGAAGGCATTTGTGCGAGTTGCT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCCGGGC
* * * *
99482373 TAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCCGGGC
*
99482413 TAAGACCCGAAGGC
1 TAAGTCCCGAAGGC
99482427 CTTGTGCGAA
Statistics
Matches: 149, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.01
40 147 0.99
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
Found at i:99482410 original size:80 final size:80
Alignment explanation
Indices: 99482243--99482462 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 80
99482233 GCTAATGATT
* * * * *
99482243 AATTTCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTAC-AAATTCCGGGCTAAGTCCCGAAGGC
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA-TCCGGGCTAAGACCCGAAGGC
* * *
99482307 ATTGGTGTGAGTTACT
65 ATTGATGTGAGTGACC
99482323 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
*
99482388 TTTATGCT-AGTGACC
66 TTGATG-TGAGTGACC
* * * * *
99482403 -ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAATGGTTATATCC-GGCTAA-ATCCCGAAG
1 AAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGA-CCCGAAG
99482463 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 13 0.11
79 19 0.16
80 86 0.70
81 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
TTGATGTGAGTGACC
Found at i:99486636 original size:79 final size:79
Alignment explanation
Indices: 99486525--99486749 Score: 303
Period size: 79 Copynumber: 2.8 Consensus size: 79
99486515 GCTACTCGTT
* * *
99486525 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
99486590 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
99486605 CCAATGCCTTCGGGCTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
99486668 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * * *
99486684 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
99486748 GA
64 GA
99486750 CATCATTCGA
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 3 0.02
79 69 0.54
80 45 0.35
81 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:99486709 original size:119 final size:120
Alignment explanation
Indices: 99486525--99486748 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
99486515 GCTACTCGTT
99486525 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
99486590 ATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCA
66 ATATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
* * **
99486644 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
*
99486706 CGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
99486749 ACATCATTCG
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
118 6 0.07
119 70 0.76
120 16 0.17
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
Found at i:99486749 original size:40 final size:40
Alignment explanation
Indices: 99486506--99486749 Score: 293
Period size: 40 Copynumber: 6.1 Consensus size: 40
99486496 CGGAATTTAA
** *
99486506 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
99486546 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
99486586 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
99486625 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
99486665 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
99486705 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
99486745 CCGGA
1 CCGGA
99486750 CATCATTCGA
Statistics
Matches: 182, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 34 0.19
40 135 0.74
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:99498784 original size:15 final size:15
Alignment explanation
Indices: 99498761--99498790 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99498751 TAAATTGAAC
*
99498761 TAAATAATCTAAAAT
1 TAAACAATCTAAAAT
99498776 TAAACAATCTAAAAT
1 TAAACAATCTAAAAT
99498791 AAATTATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAACAATCTAAAAT
Found at i:99504654 original size:20 final size:20
Alignment explanation
Indices: 99504621--99504658 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99504611 ACTAATTGTG
*
99504621 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
99504641 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
99504659 GGTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:99513595 original size:20 final size:20
Alignment explanation
Indices: 99513539--99513597 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
99513529 TAATGCTATA
99513539 CAGAGGCACCATAGTGCAAG
1 CAGAGGCACCATAGTGCAAG
* ** * *
99513559 CAGAAGCATGATTGTGCAAT
1 CAGAGGCACCATAGTGCAAG
*
99513579 CAGAGGCACCAAAGTGCAA
1 CAGAGGCACCATAGTGCAA
99513598 ACCTGTACAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (20 bp):
CAGAGGCACCATAGTGCAAG
Found at i:99520093 original size:15 final size:15
Alignment explanation
Indices: 99520068--99520116 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
99520058 TTGATAAACT
*
99520068 AAAAAATTAAGTACTG
1 AAAAAA-TAAGTATTG
99520084 AAAAAATAAGTATTG
1 AAAAAATAAGTATTG
*
99520099 -AAAAATAAATATTG
1 AAAAAATAAGTATTG
99520113 AAAA
1 AAAA
99520117 TTTAAATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 13 0.43
15 11 0.37
16 6 0.20
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (15 bp):
AAAAAATAAGTATTG
Found at i:99520220 original size:2 final size:2
Alignment explanation
Indices: 99520213--99520265 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
99520203 CCATATTTAA
*
99520213 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99520255 AT AT AT AT AT A
1 AT AT AT AT AT A
99520266 AATGGATCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:99527211 original size:25 final size:24
Alignment explanation
Indices: 99527175--99527222 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
99527165 TATAGCTATC
*
99527175 CGGAGCTTCCCGATTAATGGCTCTT
1 CGGAGCTACCCG-TTAATGGCTCTT
*
99527200 CGGAGCTACCCGTTACTGGCTCT
1 CGGAGCTACCCGTTAATGGCTCT
99527223 CATGAGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.15, C:0.31, G:0.25, T:0.29
Consensus pattern (24 bp):
CGGAGCTACCCGTTAATGGCTCTT
Found at i:99542307 original size:11 final size:10
Alignment explanation
Indices: 99542265--99542319 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
99542255 CTATTTATTC
99542265 AAAATTATAA
1 AAAATTATAA
**
99542275 AAAA-TATTG
1 AAAATTATAA
* *
99542284 AAATTTCTAA
1 AAAATTATAA
99542294 AAATATTAT-A
1 AAA-ATTATAA
99542304 AAAATTATAA
1 AAAATTATAA
99542314 AAAATT
1 AAAATT
99542320 CCAAAATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
9 11 0.32
10 20 0.59
11 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:99546506 original size:49 final size:48
Alignment explanation
Indices: 99546445--99546700 Score: 354
Period size: 49 Copynumber: 5.3 Consensus size: 48
99546435 TGTATGAGAT
*
99546445 ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAAGTG
1 ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
99546493 CATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 -ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
99546542 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 -ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
99546591 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACGTG
1 -ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
99546640 -TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
99546687 -TATAAATGTGATAA
1 ATATATATGTGATAA
99546701 ATCCCGAAGG
Statistics
Matches: 190, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 53 0.28
49 137 0.72
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (48 bp):
ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:99550802 original size:2 final size:2
Alignment explanation
Indices: 99550795--99550842 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
99550785 TATCTACTTA
99550795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99550837 -T AT AT A
1 AT AT AT A
99550843 AATTATATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99552028 original size:132 final size:132
Alignment explanation
Indices: 99551791--99552056 Score: 514
Period size: 132 Copynumber: 2.0 Consensus size: 132
99551781 AATTTACTTA
99551791 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTTATCAGCAA
1 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTTATCAGCAA
*
99551856 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACATCAAGTAAGTTCAATTCT
66 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACATCAAGTAAATTCAATTCT
99551921 TG
131 TG
99551923 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTTATCAGCAA
1 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTTATCAGCAA
*
99551988 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
66 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACATCAAGTAAATTCAATTCT
99552053 TG
131 TG
99552055 AT
1 AT
99552057 TATTTCTTAA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (132 bp):
ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTTATCAGCAA
AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACATCAAGTAAATTCAATTCT
TG
Found at i:99553531 original size:49 final size:50
Alignment explanation
Indices: 99553438--99553612 Score: 282
Period size: 49 Copynumber: 3.5 Consensus size: 50
99553428 CCATGGCAAC
99553438 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
99553488 AAGTGATAAGTAATAGCTTCGG-TACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
99553537 AAGTGATAAGTGATAG-TTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
99553586 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
99553613 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
48 5 0.04
49 65 0.57
50 35 0.31
51 9 0.08
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:99553626 original size:31 final size:31
Alignment explanation
Indices: 99553588--99553705 Score: 184
Period size: 31 Copynumber: 3.8 Consensus size: 31
99553578 ACAAATGACA
99553588 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
99553619 AGTGAAAAGTGGTAGC-TCTGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
99553650 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
99553681 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
99553706 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
30 2 0.03
31 75 0.96
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:99553875 original size:49 final size:48
Alignment explanation
Indices: 99553805--99553910 Score: 167
Period size: 49 Copynumber: 2.2 Consensus size: 48
99553795 GCATCAGTGA
* *
99553805 GATATGTGATTCGTGTAAGACCATAGTTGGGCTACGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTACGGCATCGATATAT
*
99553853 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTACGGCATCGATATAT
99553902 GAATATGTG
1 G-ATATGTG
99553911 TTGGACCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.66
50 7 0.13
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTACGGCATCGATATAT
Found at i:99553973 original size:42 final size:42
Alignment explanation
Indices: 99553866--99553963 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 42
99553856 ATGTGATTAC
*
99553866 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
** *
99553908 GTGTTGGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
99553950 GTGTAAGACCATAG
1 GTGTAAGACCATAG
99553964 TTGAACTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:99557854 original size:39 final size:39
Alignment explanation
Indices: 99557805--99557932 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
99557795 TAGGAGATTG
99557805 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
99557844 AAAATTTCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * **
99557883 AATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
99557922 AAAATATCCGG
1 AAAATATCCGG
99557933 GTTAAAGACC
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:99557946 original size:78 final size:77
Alignment explanation
Indices: 99557804--99557950 Score: 179
Period size: 78 Copynumber: 1.9 Consensus size: 77
99557794 GTAGGAGATT
* * * **
99557804 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATTTCCGGACATGAGGTCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
99557869 GGCTATATGCTA
66 GGCTATATGCTA
* * * **
99557881 GAAATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
99557945 CAGGCT
64 CAGGCT
99557951 TACACTAGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
77 5 0.09
78 53 0.91
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (77 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTATATGCTA
Found at i:99560209 original size:5 final size:5
Alignment explanation
Indices: 99560199--99560255 Score: 107
Period size: 5 Copynumber: 11.6 Consensus size: 5
99560189 AATAATTAAG
99560199 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
99560248 TATAT TAT
1 TATAT TAT
99560256 TATATATAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.08
5 47 0.92
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:99568614 original size:39 final size:39
Alignment explanation
Indices: 99568570--99568736 Score: 280
Period size: 39 Copynumber: 4.3 Consensus size: 39
99568560 TATGAGATTG
99568570 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
99568609 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
99568648 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * **
99568687 AATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
99568726 AAAATATCCGG
1 AAAATATCCGG
99568737 GTTAAAGACC
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:99570668 original size:4 final size:4
Alignment explanation
Indices: 99570659--99570696 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
99570649 GGTGACTGGA
99570659 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
99570697 TTATTCGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:99571538 original size:132 final size:132
Alignment explanation
Indices: 99571301--99571566 Score: 514
Period size: 132 Copynumber: 2.0 Consensus size: 132
99571291 AATTTGCTTA
99571301 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
1 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
* *
99571366 AAATGCCATGGAAGAGTTCCCTTAAGCTGGTTTTTCATATTTTTACTTCAAGTAAGTTCAATTCT
66 AAATGCCATGGAAGAGTTCCCTTAAACTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
99571431 TG
131 TG
99571433 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
1 ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
99571498 AAATGCCATGGAAGAGTTCCCTTAAACTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
66 AAATGCCATGGAAGAGTTCCCTTAAACTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
99571563 TG
131 TG
99571565 AT
1 AT
99571567 TATTTCTTAA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (132 bp):
ATAAAGCTAGGACTAAAGTGGAATTATCTAGATTTCTCTTTATTTTTCTGCATTCTCATCAGCAA
AAATGCCATGGAAGAGTTCCCTTAAACTGGTTTTTCATATTTTTACTTCAAGTAAATTCAATTCT
TG
Found at i:99572830 original size:14 final size:15
Alignment explanation
Indices: 99572802--99572830 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99572792 TAATTTTATG
99572802 AATTTCATGATGTAT
1 AATTTCATGATGTAT
99572817 AATTTCAT-ATGTAT
1 AATTTCATGATGTAT
99572831 TGATGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (15 bp):
AATTTCATGATGTAT
Found at i:99573024 original size:50 final size:50
Alignment explanation
Indices: 99572949--99573125 Score: 300
Period size: 50 Copynumber: 3.5 Consensus size: 50
99572939 CCATGGCAAC
99572949 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
99572999 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
99573049 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
99573099 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
99573126 CTGATCAGTG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 94 0.80
51 24 0.20
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:99573139 original size:31 final size:31
Alignment explanation
Indices: 99573101--99573249 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
99573091 ACAAATGACA
99573101 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
99573132 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
99573163 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
99573194 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
99573225 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
99573250 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:99573416 original size:42 final size:42
Alignment explanation
Indices: 99573349--99573517 Score: 207
Period size: 42 Copynumber: 4.0 Consensus size: 42
99573339 GCATCAGTGA
* *
99573349 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTACGGCATT
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
99573390 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
* * * *
99573432 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCAGC
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
** * * **
99573474 -ATTATGTGAAGATGTGTAAGACCATAGTTGAACTATGGCATC
1 GA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
99573516 GA
1 GA
99573518 GAAAACGAAG
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
41 12 0.11
42 100 0.88
43 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (42 bp):
GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:99577537 original size:23 final size:22
Alignment explanation
Indices: 99577511--99577554 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
99577501 AGTATTTTAA
*
99577511 TTTTAATTTTTTATTTTATATTG
1 TTTTAAGTTTTTATTTT-TATTG
99577534 TTTTAAGTTTTTATTTTTATT
1 TTTTAAGTTTTTATTTTTATT
99577555 TTTAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTAAGTTTTTATTTTTATTG
Found at i:99581979 original size:29 final size:30
Alignment explanation
Indices: 99581933--99581994 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
99581923 AACTTACAAG
99581933 CAAATACCACTAAAATAATAAAAAAATTAA
1 CAAATACCACTAAAATAATAAAAAAATTAA
* *
99581963 CAAATACC-TTAAAATAATAAGAAAATTAA
1 CAAATACCACTAAAATAATAAAAAAATTAA
99581992 CAA
1 CAA
99581995 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.21
Consensus pattern (30 bp):
CAAATACCACTAAAATAATAAAAAAATTAA
Found at i:99589122 original size:18 final size:18
Alignment explanation
Indices: 99589086--99589124 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
99589076 AACTCACATT
*
99589086 GCTTCCTTGTCCTCGGCA
1 GCTTCCTTGTCCTCAGCA
99589104 GCTTACCTTGTCCT-AGCA
1 GCTT-CCTTGTCCTCAGCA
99589122 GCT
1 GCT
99589125 AAGCATGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.10, C:0.36, G:0.21, T:0.33
Consensus pattern (18 bp):
GCTTCCTTGTCCTCAGCA
Found at i:99596653 original size:21 final size:20
Alignment explanation
Indices: 99596629--99596667 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
99596619 GAGTATTTTG
99596629 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
99596650 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
99596668 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:99598628 original size:25 final size:27
Alignment explanation
Indices: 99598591--99598643 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
99598581 TCAAACATGC
99598591 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
99598617 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
99598643 A
1 A
99598644 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:99600159 original size:32 final size:32
Alignment explanation
Indices: 99600122--99600218 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
99600112 AATGCTTATC
99600122 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
99600154 ATGCCCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
99600186 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
99600218 A
1 A
99600219 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:99606707 original size:25 final size:27
Alignment explanation
Indices: 99606670--99606722 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
99606660 TCAAACATGC
99606670 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
99606696 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
99606722 A
1 A
99606723 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:99608231 original size:32 final size:32
Alignment explanation
Indices: 99608194--99608290 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
99608184 AATGCTTATC
99608194 ATGCCCATCATCTATTAACTATTAAAATGCTA
1 ATGCCCATCATCTATTAACTATTAAAATGCTA
99608226 ATGCCCATCAT-TCATTAACTATTAAAATGCTA
1 ATGCCCATCATCT-ATTAACTATTAAAATGCTA
*
99608258 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCTATTAACTATTAAAATGCTA
99608290 A
1 A
99608291 AATGCATACA
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
31 1 0.02
32 61 0.98
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (32 bp):
ATGCCCATCATCTATTAACTATTAAAATGCTA
Found at i:99608310 original size:32 final size:30
Alignment explanation
Indices: 99608198--99608312 Score: 133
Period size: 32 Copynumber: 3.6 Consensus size: 30
99608188 CTTATCATGC
99608198 CCATCATCTATTAACTATTAAAATGCTAATG
1 CCATCAT-TATTAACTATTAAAATGCTAATG
99608229 CCCATCATTCATTAACTATTAAAATGCTAATG
1 -CCATCATT-ATTAACTATTAAAATGCTAATG
*
99608261 CCCATCATCCATTAACTATTAAAATGCTAAAATG
1 -CCATCAT-TATTAACTATTAAAATGCT--AATG
*
99608295 -CATACATTATCAACTATT
1 CCAT-CATTATTAACTATT
99608313 CATCACCTTG
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
31 1 0.01
32 67 0.89
33 3 0.04
34 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (30 bp):
CCATCATTATTAACTATTAAAATGCTAATG
Found at i:99609928 original size:20 final size:20
Alignment explanation
Indices: 99609899--99609937 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99609889 TGATTGGTTG
* *
99609899 TGATTGAATTGTATTTGAAT
1 TGATTAAATTGTATATGAAT
99609919 TGATTAAATTGTATATGAA
1 TGATTAAATTGTATATGAA
99609938 ATGTATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TGATTAAATTGTATATGAAT
Found at i:99611683 original size:41 final size:41
Alignment explanation
Indices: 99611605--99611728 Score: 117
Period size: 40 Copynumber: 3.0 Consensus size: 41
99611595 AGCTATAACG
* * *
99611605 ATATCGCACACTTAGTGCCATCACATTAAACCGAAGCTATCTCA
1 ATATCACACACTTAGTGCCA-CATA-T-AGCCGAAGCTATCTCA
*
99611649 GTATCACACACTTAGTGCCACATATAGCCGAAGCTAT-TCCA
1 ATATCACACACTTAGTGCCACATATAGCCGAAGCTATCT-CA
* * ** *
99611690 AT-TCACACACTAAGTGCTATTTATAGCTGAAGCTATCTC
1 ATATCACACACTTAGTGCCACATATAGCCGAAGCTATCTC
99611729 GAAATGCACA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
40 31 0.46
41 15 0.22
42 1 0.01
43 3 0.04
44 18 0.26
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (41 bp):
ATATCACACACTTAGTGCCACATATAGCCGAAGCTATCTCA
Found at i:99611715 original size:40 final size:42
Alignment explanation
Indices: 99611635--99611748 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 42
99611625 TCACATTAAA
* *
99611635 CCGAAGCTA-TCTCAGTATCACACACTTAGTGCCACATATAG
1 CCGAAGCTATTCTCAATATCACACACTAAGTGCCACATATAG
* **
99611676 CCGAAGCTATTC-CAAT-TCACACACTAAGTGCTATTTATAG
1 CCGAAGCTATTCTCAATATCACACACTAAGTGCCACATATAG
* *
99611716 CTGAAGCTA-TCTCGAA-AT-GCACACTAAGTGCCA
1 CCGAAGCTATTCTC-AATATCACACACTAAGTGCCA
99611749 AACATAGTCG
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.03
40 42 0.69
41 15 0.25
42 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
CCGAAGCTATTCTCAATATCACACACTAAGTGCCACATATAG
Found at i:99621133 original size:31 final size:31
Alignment explanation
Indices: 99621098--99621164 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
99621088 CACATATTCA
99621098 ACACAAGAATGACTACACAACATAGAGAATC
1 ACACAAGAATGACTACACAACATAGAGAATC
99621129 ACACAAGAATGACTACACAACATAGAGAATC
1 ACACAAGAATGACTACACAACATAGAGAATC
99621160 ACACA
1 ACACA
99621165 TAAACACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (31 bp):
ACACAAGAATGACTACACAACATAGAGAATC
Found at i:99621134 original size:17 final size:17
Alignment explanation
Indices: 99621112--99621164 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
99621102 AAGAATGACT
99621112 ACACAACATAGAGAATC
1 ACACAACATAGAGAATC
* * *
99621129 ACACAAGA-A-TGACT-
1 ACACAACATAGAGAATC
99621143 ACACAACATAGAGAATC
1 ACACAACATAGAGAATC
99621160 ACACA
1 ACACA
99621165 TAAACACATG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 4 0.15
17 12 0.44
ACGTcount: A:0.53, C:0.25, G:0.11, T:0.11
Consensus pattern (17 bp):
ACACAACATAGAGAATC
Found at i:99621373 original size:14 final size:14
Alignment explanation
Indices: 99621354--99621380 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99621344 GCAGCATTAG
99621354 GCGTTAGATTCGGA
1 GCGTTAGATTCGGA
99621368 GCGTTAGATTCGG
1 GCGTTAGATTCGG
99621381 GTTTTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.37, T:0.30
Consensus pattern (14 bp):
GCGTTAGATTCGGA
Found at i:99623238 original size:21 final size:20
Alignment explanation
Indices: 99623206--99623246 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
99623196 ATACATGAGT
99623206 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
99623226 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
99623247 TTGTACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:99623333 original size:29 final size:28
Alignment explanation
Indices: 99623275--99623338 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
99623265 GTGATTTTTG
*
99623275 GTGAAA-ATGCAAATTAAGGATTAAATT
1 GTGAAATATGCAAATTAAGGATTAAAAT
*
99623302 GTGAAATATGGAAATTTAGAGG-TTAAAAT
1 GTGAAATATGCAAA-TTA-AGGATTAAAAT
99623331 GTGAAATA
1 GTGAAATA
99623339 AATGAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 17 0.53
30 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.30
Consensus pattern (28 bp):
GTGAAATATGCAAATTAAGGATTAAAAT
Found at i:99625670 original size:12 final size:12
Alignment explanation
Indices: 99625655--99625688 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
99625645 AAAGAAAGAT
99625655 AAATCAAAAATA
1 AAATCAAAAATA
99625667 AAATCAAAAATA
1 AAATCAAAAATA
*
99625679 AAATGAAAAA
1 AAATCAAAAA
99625689 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATCAAAAATA
Found at i:99625688 original size:13 final size:12
Alignment explanation
Indices: 99625634--99625698 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
99625624 AAAAAGCAAT
99625634 TAAAAAATTAAAA
1 TAAAAAA-TAAAA
*
99625647 -AGAAAGAT-AAA
1 TA-AAAAATAAAA
*
99625658 TCAAAAATAAAA
1 TAAAAAATAAAA
*
99625670 TCAAAAATAAAA
1 TAAAAAATAAAA
99625682 TGAAAAAATAATAA
1 T-AAAAAATAA-AA
99625696 TAA
1 TAA
99625699 TAAACTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 8 0.19
12 18 0.42
13 14 0.33
14 3 0.07
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:99625788 original size:5 final size:5
Alignment explanation
Indices: 99625774--99625839 Score: 61
Period size: 5 Copynumber: 13.6 Consensus size: 5
99625764 TAAGAATAAT
99625774 AAAT- AAATA AAAT- -AATA AAAT- AAATA AAATA AAATAA CAAATA ATAAT-
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A -AAATA A-AATA
*
99625822 AAATA AAATA AAACA AAA
1 AAATA AAATA AAATA AAA
99625840 GGGGTGGCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 15
0.77 0.01 0.22
Matches are distributed among these distances:
3 3 0.06
4 11 0.21
5 30 0.57
6 5 0.09
7 4 0.08
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:99625788 original size:22 final size:22
Alignment explanation
Indices: 99625763--99625834 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
99625753 AAATCTAAGT
*
99625763 ATAAGAATAATAAATAAATAAA
1 ATAAAAATAATAAATAAATAAA
*
99625785 ATAATAA-AATAAATAAAATAAA
1 ATAAAAATAATAAAT-AAATAAA
99625807 ATAACAAATAAT-AATAAATAAA
1 ATAA-AAATAATAAATAAATAAA
99625829 ATAAAA
1 ATAAAA
99625835 CAAAAGGGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.20
22 28 0.62
23 5 0.11
24 3 0.07
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (22 bp):
ATAAAAATAATAAATAAATAAA
Found at i:99625794 original size:17 final size:18
Alignment explanation
Indices: 99625763--99625833 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 18
99625753 AAATCTAAGT
99625763 ATAAGAATAAT-AAATAA
1 ATAAGAATAATAAAATAA
99625780 ATAA-AATAATAAAATAA
1 ATAAGAATAATAAAATAA
*
99625797 ATAA-AATAA-AATAACAA
1 ATAAGAATAATAA-AATAA
*
99625814 ATAATAATAAATAAAATAA
1 ATAAGAAT-AATAAAATAA
99625833 A
1 A
99625834 ACAAAAGGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.17
17 27 0.57
18 3 0.06
19 7 0.15
20 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (18 bp):
ATAAGAATAATAAAATAA
Found at i:99625822 original size:27 final size:23
Alignment explanation
Indices: 99625763--99625834 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 23
99625753 AAATCTAAGT
*
99625763 ATAAGAATAATAAAT-AAATAAA
1 ATAATAATAATAAATAAAATAAA
99625785 ATAATAA-AATAAATAAAATAAA
1 ATAATAATAATAAATAAAATAAA
99625807 ATAACAAATAATAATAAATAAAATAAA
1 AT----AATAATAATAAATAAAATAAA
99625834 A
1 A
99625835 CAAAAGGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
21 7 0.16
22 15 0.35
26 5 0.12
27 16 0.37
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (23 bp):
ATAATAATAATAAATAAAATAAA
Found at i:99630170 original size:35 final size:35
Alignment explanation
Indices: 99630124--99630193 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
99630114 ATTTTGTACA
99630124 CCAAAAGAATCTGCTAAAAAAACATGTAAAAGAAG
1 CCAAAAGAATCTGCTAAAAAAACATGTAAAAGAAG
*
99630159 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
1 CCAAAAGAATCTGCTAAAAAAACATGTAAAAGAAG
99630194 TCAGGACGCA
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:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (35 bp):
CCAAAAGAATCTGCTAAAAAAACATGTAAAAGAAG
Found at i:99630945 original size:16 final size:16
Alignment explanation
Indices: 99630924--99630957 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
99630914 TTTATTATTT
*
99630924 TTTGAAAATTGATTGA
1 TTTGAAAATTGAGTGA
*
99630940 TTTGAAAGTTGAGTGA
1 TTTGAAAATTGAGTGA
99630956 TT
1 TT
99630958 GTTTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (16 bp):
TTTGAAAATTGAGTGA
Found at i:99633912 original size:31 final size:31
Alignment explanation
Indices: 99633877--99633943 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
99633867 CACATATTCA
99633877 ACACAAGAATGACTACACAACATAGAGAATC
1 ACACAAGAATGACTACACAACATAGAGAATC
99633908 ACACAAGAATGACTACACAACATAGAGAATC
1 ACACAAGAATGACTACACAACATAGAGAATC
99633939 ACACA
1 ACACA
99633944 TAAACACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (31 bp):
ACACAAGAATGACTACACAACATAGAGAATC
Found at i:99633913 original size:17 final size:17
Alignment explanation
Indices: 99633891--99633943 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
99633881 AAGAATGACT
99633891 ACACAACATAGAGAATC
1 ACACAACATAGAGAATC
* * *
99633908 ACACAAGA-A-TGACT-
1 ACACAACATAGAGAATC
99633922 ACACAACATAGAGAATC
1 ACACAACATAGAGAATC
99633939 ACACA
1 ACACA
99633944 TAAACACATG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 4 0.15
17 12 0.44
ACGTcount: A:0.53, C:0.25, G:0.11, T:0.11
Consensus pattern (17 bp):
ACACAACATAGAGAATC
Found at i:99634152 original size:14 final size:14
Alignment explanation
Indices: 99634133--99634159 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99634123 GCAGCATTAG
99634133 GCGTTAGATTCGGA
1 GCGTTAGATTCGGA
99634147 GCGTTAGATTCGG
1 GCGTTAGATTCGG
99634160 GTTTTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.37, T:0.30
Consensus pattern (14 bp):
GCGTTAGATTCGGA
Found at i:99636017 original size:21 final size:20
Alignment explanation
Indices: 99635985--99636025 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
99635975 ATACATGAGT
99635985 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
99636005 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
99636026 TTGTACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:99636112 original size:29 final size:28
Alignment explanation
Indices: 99636054--99636117 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
99636044 GTGATTTTTG
*
99636054 GTGAAA-ATGCAAATTAAGGATTAAATT
1 GTGAAATATGCAAATTAAGGATTAAAAT
*
99636081 GTGAAATATGGAAATTTAGAGG-TTAAAAT
1 GTGAAATATGCAAA-TTA-AGGATTAAAAT
99636110 GTGAAATA
1 GTGAAATA
99636118 AATGAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 17 0.53
30 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.30
Consensus pattern (28 bp):
GTGAAATATGCAAATTAAGGATTAAAAT
Found at i:99638448 original size:12 final size:12
Alignment explanation
Indices: 99638433--99638466 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
99638423 AAAGAAAGAT
99638433 AAATCAAAAATA
1 AAATCAAAAATA
99638445 AAATCAAAAATA
1 AAATCAAAAATA
*
99638457 AAATGAAAAA
1 AAATCAAAAA
99638467 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATCAAAAATA
Found at i:99638466 original size:13 final size:12
Alignment explanation
Indices: 99638412--99638476 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
99638402 AAAAAGCAAT
99638412 TAAAAAATTAAAA
1 TAAAAAA-TAAAA
*
99638425 -AGAAAGAT-AAA
1 TA-AAAAATAAAA
*
99638436 TCAAAAATAAAA
1 TAAAAAATAAAA
*
99638448 TCAAAAATAAAA
1 TAAAAAATAAAA
99638460 TGAAAAAATAATAA
1 T-AAAAAATAA-AA
99638474 TAA
1 TAA
99638477 TAAACTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 8 0.19
12 18 0.42
13 14 0.33
14 3 0.07
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:99638566 original size:5 final size:5
Alignment explanation
Indices: 99638552--99638622 Score: 71
Period size: 5 Copynumber: 14.6 Consensus size: 5
99638542 TAAGAATAAT
99638552 AAAT- AAATA AAAT- -AATA AAAT- AAATA AAATA AAATAA CAAATA ATAAT-
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A -AAATA A-AATA
*
99638600 AAATA AAATA AAATA AAACA AAA
1 AAATA AAATA AAATA AAATA AAA
99638623 GGGGTGGCTT
Statistics
Matches: 58, Mismatches: 1, Indels: 15
0.78 0.01 0.20
Matches are distributed among these distances:
3 3 0.05
4 11 0.19
5 35 0.60
6 5 0.09
7 4 0.07
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:99638566 original size:22 final size:21
Alignment explanation
Indices: 99638541--99638615 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 21
99638531 AAATCTAAGT
99638541 ATAAGAATAATAAATAAATAAA
1 ATAA-AATAATAAATAAATAAA
99638563 ATAATAA-AATAAATAAAATAAA
1 ATAA-AATAATAAAT-AAATAAA
99638585 ATAACAAATAAT-AATAAATAAA
1 AT-A-AAATAATAAATAAATAAA
99638607 ATAAAATAA
1 ATAAAATAA
99638616 AACAAAAGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
20 6 0.12
21 8 0.17
22 24 0.50
23 6 0.12
24 4 0.08
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (21 bp):
ATAAAATAATAAATAAATAAA
Found at i:99638572 original size:17 final size:17
Alignment explanation
Indices: 99638541--99638617 Score: 86
Period size: 17 Copynumber: 4.4 Consensus size: 17
99638531 AAATCTAAGT
99638541 ATAAGAATAAT-AAATAA
1 ATAA-AATAATAAAATAA
99638558 ATAAAATAATAAAATAA
1 ATAAAATAATAAAATAA
*
99638575 ATAAAATAA-AATAACAA
1 ATAAAATAATAA-AATAA
99638592 ATAATAATAAATAAAATAAA
1 ATAA-AAT-AATAAAAT-AA
99638612 ATAAAA
1 ATAAAA
99638618 CAAAAGGGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.15
17 27 0.52
18 3 0.06
19 6 0.12
20 8 0.15
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (17 bp):
ATAAAATAATAAAATAA
Found at i:99638600 original size:27 final size:25
Alignment explanation
Indices: 99638546--99638617 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 25
99638536 TAAGTATAAG
99638546 AATAATAAAT-AAATAAAAT--AAT
1 AATAATAAATAAAATAAAATAAAAT
99638568 AA-AATAAATAAAATAAAATAACAAAT
1 AATAATAAATAAAATAAAAT-A-AAAT
99638594 AATAATAAATAAAATAAAATAAAA
1 AATAATAAATAAAATAAAATAAAA
99638618 CAAAAGGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.16
22 11 0.25
25 3 0.07
26 6 0.14
27 17 0.39
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (25 bp):
AATAATAAATAAAATAAAATAAAAT
Found at i:99646681 original size:31 final size:31
Alignment explanation
Indices: 99646646--99646712 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
99646636 CACATATTCA
99646646 ACACAAGAATGACTACACAACATAGAGAATC
1 ACACAAGAATGACTACACAACATAGAGAATC
99646677 ACACAAGAATGACTACACAACATAGAGAATC
1 ACACAAGAATGACTACACAACATAGAGAATC
99646708 ACACA
1 ACACA
99646713 TAAACACATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (31 bp):
ACACAAGAATGACTACACAACATAGAGAATC
Found at i:99646682 original size:17 final size:17
Alignment explanation
Indices: 99646660--99646712 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
99646650 AAGAATGACT
99646660 ACACAACATAGAGAATC
1 ACACAACATAGAGAATC
* * *
99646677 ACACAAGA-A-TGACT-
1 ACACAACATAGAGAATC
99646691 ACACAACATAGAGAATC
1 ACACAACATAGAGAATC
99646708 ACACA
1 ACACA
99646713 TAAACACATG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 4 0.15
17 12 0.44
ACGTcount: A:0.53, C:0.25, G:0.11, T:0.11
Consensus pattern (17 bp):
ACACAACATAGAGAATC
Found at i:99646921 original size:14 final size:14
Alignment explanation
Indices: 99646902--99646928 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99646892 GCAGCATTAG
99646902 GCGTTAGATTCGGA
1 GCGTTAGATTCGGA
99646916 GCGTTAGATTCGG
1 GCGTTAGATTCGG
99646929 GTTTTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.37, T:0.30
Consensus pattern (14 bp):
GCGTTAGATTCGGA
Found at i:99648786 original size:21 final size:20
Alignment explanation
Indices: 99648754--99648794 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
99648744 ATACATGAGT
99648754 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
99648774 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
99648795 TTGTACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:99648881 original size:29 final size:28
Alignment explanation
Indices: 99648823--99648886 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
99648813 GTGATTTTTG
*
99648823 GTGAAA-ATGCAAATTAAGGATTAAATT
1 GTGAAATATGCAAATTAAGGATTAAAAT
*
99648850 GTGAAATATGGAAATTTAGAGG-TTAAAAT
1 GTGAAATATGCAAA-TTA-AGGATTAAAAT
99648879 GTGAAATA
1 GTGAAATA
99648887 AATGAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 17 0.53
30 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.30
Consensus pattern (28 bp):
GTGAAATATGCAAATTAAGGATTAAAAT
Found at i:99651218 original size:12 final size:12
Alignment explanation
Indices: 99651203--99651236 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
99651193 AAAGAAAGAT
99651203 AAATCAAAAATA
1 AAATCAAAAATA
99651215 AAATCAAAAATA
1 AAATCAAAAATA
*
99651227 AAATGAAAAA
1 AAATCAAAAA
99651237 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (12 bp):
AAATCAAAAATA
Found at i:99651236 original size:13 final size:12
Alignment explanation
Indices: 99651182--99651246 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
99651172 AAAAAGCAAT
99651182 TAAAAAATTAAAA
1 TAAAAAA-TAAAA
*
99651195 -AGAAAGAT-AAA
1 TA-AAAAATAAAA
*
99651206 TCAAAAATAAAA
1 TAAAAAATAAAA
*
99651218 TCAAAAATAAAA
1 TAAAAAATAAAA
99651230 TGAAAAAATAATAA
1 T-AAAAAATAA-AA
99651244 TAA
1 TAA
99651247 TAAACTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 8 0.19
12 18 0.42
13 14 0.33
14 3 0.07
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:99651336 original size:5 final size:5
Alignment explanation
Indices: 99651322--99651392 Score: 71
Period size: 5 Copynumber: 14.6 Consensus size: 5
99651312 TAAGAATAAT
99651322 AAAT- AAATA AAAT- -AATA AAAT- AAATA AAATA AAATAA CAAATA ATAAT-
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A -AAATA A-AATA
*
99651370 AAATA AAATA AAATA AAACA AAA
1 AAATA AAATA AAATA AAATA AAA
99651393 GGGGTGGCTT
Statistics
Matches: 58, Mismatches: 1, Indels: 15
0.78 0.01 0.20
Matches are distributed among these distances:
3 3 0.05
4 11 0.19
5 35 0.60
6 5 0.09
7 4 0.07
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:99651336 original size:22 final size:21
Alignment explanation
Indices: 99651311--99651385 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 21
99651301 AAATCTAAGT
99651311 ATAAGAATAATAAATAAATAAA
1 ATAA-AATAATAAATAAATAAA
99651333 ATAATAA-AATAAATAAAATAAA
1 ATAA-AATAATAAAT-AAATAAA
99651355 ATAACAAATAAT-AATAAATAAA
1 AT-A-AAATAATAAATAAATAAA
99651377 ATAAAATAA
1 ATAAAATAA
99651386 AACAAAAGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
20 6 0.12
21 8 0.17
22 24 0.50
23 6 0.12
24 4 0.08
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (21 bp):
ATAAAATAATAAATAAATAAA
Found at i:99651342 original size:17 final size:17
Alignment explanation
Indices: 99651311--99651387 Score: 86
Period size: 17 Copynumber: 4.4 Consensus size: 17
99651301 AAATCTAAGT
99651311 ATAAGAATAAT-AAATAA
1 ATAA-AATAATAAAATAA
99651328 ATAAAATAATAAAATAA
1 ATAAAATAATAAAATAA
*
99651345 ATAAAATAA-AATAACAA
1 ATAAAATAATAA-AATAA
99651362 ATAATAATAAATAAAATAAA
1 ATAA-AAT-AATAAAAT-AA
99651382 ATAAAA
1 ATAAAA
99651388 CAAAAGGGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.15
17 27 0.52
18 3 0.06
19 6 0.12
20 8 0.15
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (17 bp):
ATAAAATAATAAAATAA
Found at i:99651370 original size:27 final size:25
Alignment explanation
Indices: 99651316--99651387 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 25
99651306 TAAGTATAAG
99651316 AATAATAAAT-AAATAAAAT--AAT
1 AATAATAAATAAAATAAAATAAAAT
99651338 AA-AATAAATAAAATAAAATAACAAAT
1 AATAATAAATAAAATAAAAT-A-AAAT
99651364 AATAATAAATAAAATAAAATAAAA
1 AATAATAAATAAAATAAAATAAAA
99651388 CAAAAGGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.16
22 11 0.25
25 3 0.07
26 6 0.14
27 17 0.39
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (25 bp):
AATAATAAATAAAATAAAATAAAAT
Found at i:99655722 original size:35 final size:35
Alignment explanation
Indices: 99655676--99655745 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
99655666 ATTTTGTACA
99655676 CCAAAAGAATCTGCTAAAAAAACATGTAAAAGAAG
1 CCAAAAGAATCTGCTAAAAAAACATGTAAAAGAAG
*
99655711 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
1 CCAAAAGAATCTGCTAAAAAAACATGTAAAAGAAG
99655746 TCAGGACGCA
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:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (35 bp):
CCAAAAGAATCTGCTAAAAAAACATGTAAAAGAAG
Found at i:99656498 original size:16 final size:16
Alignment explanation
Indices: 99656477--99656510 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
99656467 TTTATTATTT
*
99656477 TTTGAAAATTGATTGA
1 TTTGAAAATTGAGTGA
*
99656493 TTTGAAAGTTGAGTGA
1 TTTGAAAATTGAGTGA
99656509 TT
1 TT
99656511 GTTTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (16 bp):
TTTGAAAATTGAGTGA
Found at i:99657874 original size:131 final size:131
Alignment explanation
Indices: 99657613--99658132 Score: 922
Period size: 131 Copynumber: 4.0 Consensus size: 131
99657603 TACCTGCCTC
* *
99657613 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATCTTTTTTCTGCTGAAGGGAAA
1 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
*
99657678 TCACAATTTAC-TT---TGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAGCTTCC
66 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
99657739 A
131 A
* * *
99657740 TGTTTTCCCCATCCCATCAATCAAGACGCCAATACCAACATCATTTTTTTTGTGCTGAAGGGACA
1 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
* *
99657805 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCTTTTCATTACTACTAGCTAACTTCC
66 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
99657870 A
131 A
*
99657871 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTCTCTGCTGAAGGGACA
1 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
99657936 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
66 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
99658001 A
131 A
*
99658002 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTGTGCTGAAGGGACA
1 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
99658067 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
66 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
99658132 A
131 A
99658133 ATTTTCACTG
Statistics
Matches: 373, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
127 71 0.19
128 2 0.01
131 300 0.80
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (131 bp):
TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
A
Found at i:99676989 original size:2 final size:2
Alignment explanation
Indices: 99676984--99677019 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
99676974 TTTTTAATGT
99676984 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
99677020 TTAGACAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:99681402 original size:3 final size:3
Alignment explanation
Indices: 99681394--99681463 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
99681384 ACTGAAACTC
99681394 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
99681442 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
99681464 TTGCAACTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:99687587 original size:59 final size:59
Alignment explanation
Indices: 99687521--99687638 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
99687511 AAGGTTACAA
*
99687521 ATAAGAAACAAAAATTATCTTCCTAGTCTATTTTCTTTTACATTGACCAAAAGCCATTG
1 ATAAGAAACAAAAATTATCTTCCTAATCTATTTTCTTTTACATTGACCAAAAGCCATTG
* *
99687580 ATAAGAAACAAAAATTATCTTCCTAATCTGTTTTCTTTTATATTGACCAAAAGCCATTG
1 ATAAGAAACAAAAATTATCTTCCTAATCTATTTTCTTTTACATTGACCAAAAGCCATTG
99687639 TTAAAGACCT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.36
Consensus pattern (59 bp):
ATAAGAAACAAAAATTATCTTCCTAATCTATTTTCTTTTACATTGACCAAAAGCCATTG
Found at i:99692033 original size:13 final size:13
Alignment explanation
Indices: 99692015--99692041 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99692005 AAGCCACTCA
99692015 CACACGGGCGTGT
1 CACACGGGCGTGT
99692028 CACACGGGCGTGT
1 CACACGGGCGTGT
99692041 C
1 C
99692042 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:99702826 original size:33 final size:31
Alignment explanation
Indices: 99702754--99702826 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
99702744 ATTGATATTG
*
99702754 TATTATT-C-TTTTTGTATGTCATGCATTAT
1 TATTATTACTTTTTTGTATATCATGCATTAT
*
99702783 T-TTATTACTTTTTTGTATATCATGTATTATT
1 TATTATTACTTTTTTGTATATCATGCATTA-T
99702814 TAATTATTACTTT
1 T-ATTATTACTTT
99702827 GTATGTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 5 0.14
29 2 0.05
30 18 0.49
31 2 0.05
33 10 0.27
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.62
Consensus pattern (31 bp):
TATTATTACTTTTTTGTATATCATGCATTAT
Found at i:99705606 original size:11 final size:12
Alignment explanation
Indices: 99705589--99705632 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
99705579 AATAAGAGAC
99705589 AAAATAAAATT-
1 AAAATAAAATTA
* *
99705600 TAAATAATATTA
1 AAAATAAAATTA
*
99705612 AAAATAAAAATA
1 AAAATAAAATTA
99705624 AAAATAAAA
1 AAAATAAAA
99705633 AATAGTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:99707254 original size:3 final size:3
Alignment explanation
Indices: 99707246--99707308 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
99707236 CCCTAACATA
99707246 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
99707294 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
99707309 GAGAGGGGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:99721161 original size:46 final size:46
Alignment explanation
Indices: 99720916--99721232 Score: 179
Period size: 46 Copynumber: 6.7 Consensus size: 46
99720906 TAGGGTAAGG
* *
99720916 TGCTGATGTCATGTCCCAGACATGGTCTTCCACTGGCTA-TCATCTTCGA
1 TGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATC-TCAA
* * * * * **
99720965 GGCTGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCACATATCTG
1 TGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCACT--CATCTCAA
* *
99721015 TG-TCGATGACATGTCCCAGACATGCTCTTATACT-G-ACACATCTC-A
1 TGCT-GATG-CATGTCCCAGACATG-TCTTACACTGGCACTCATCTCAA
* * * * *
99721060 TAGCCGATGCATGTCTCAAACATGTCTTACATTGGCTTACGT--TC-CGA
1 T-GCTGATGCATGTCCCAGACATGTCTTACACTGGC--AC-TCATCTCAA
* * *
99721107 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAA
1 TGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAA
* *
99721153 TGCTGATGCTATGTCCCAGACATGGTCTTACACTGGCTCGCA--T-AA
1 TGCTGATGC-ATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCAA
*
99721198 TGTGGCCGATGCATGTCCCAGACATGTCTTACACT
1 --T-GCTGATGCATGTCCCAGACATGTCTTACACT
99721233 AGCCCACAAT
Statistics
Matches: 213, Mismatches: 34, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.00
44 9 0.04
45 19 0.09
46 62 0.29
47 30 0.14
48 25 0.12
49 36 0.17
50 28 0.13
51 3 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
TGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAA
Found at i:99721205 original size:94 final size:93
Alignment explanation
Indices: 99720920--99721232 Score: 280
Period size: 94 Copynumber: 3.3 Consensus size: 93
99720910 GTAAGGTGCT
* * *
99720920 GATGTCATGTCCCAGACATGGTCTTCCACTGGCTA-TCATCTTCGAGGCTGATGCCATGTCCCAG
1 GATGACATGTCCCAGACAT-GTCTTACACTGGC-ACTCATC-TC-ATGCTGATG-CATGTCCCAG
* * * *
99720984 ACATGGTTTTACACTAGCTCTCACAT-ATCTGTGTC
61 ACATGGTCTTACACT-G-GCTCACATAATGTG-GCC
* * * * *
99721019 GATGACATGTCCCAGACATGCTCTTATACT-G-ACACATCTCATAGCCGATGCATGTCTCAAACA
1 GATGACATGTCCCAGACATG-TCTTACACTGGCACTCATCTCAT-GCTGATGCATGTCCCAGACA
* * * *** *
99721082 T-GTCTTACATTGGCTTACGTTCCGAGGCC
64 TGGTCTTACACTGGCTCACATAATGTGGCC
*
99721111 GATG-CATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAATGCTGATGCTATGTCCCAGACA
1 GATGACATGTCCCAGACATGTCTTACACTGGCACTCATCTC-ATGCTGATGC-ATGTCCCAGACA
*
99721175 TGGTCTTACACTGGCTCGCATAATGTGGCC
64 TGGTCTTACACTGGCTCACATAATGTGGCC
99721205 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGACATGTCCCAGACATGTCTTACACT
99721233 AGCCCACAAT
Statistics
Matches: 173, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
90 8 0.05
91 16 0.09
92 25 0.14
93 15 0.09
94 56 0.32
95 13 0.08
96 9 0.05
97 4 0.02
98 2 0.01
99 25 0.14
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
GATGACATGTCCCAGACATGTCTTACACTGGCACTCATCTCATGCTGATGCATGTCCCAGACATG
GTCTTACACTGGCTCACATAATGTGGCC
Found at i:99721209 original size:48 final size:46
Alignment explanation
Indices: 99721018--99721232 Score: 187
Period size: 46 Copynumber: 4.6 Consensus size: 46
99721008 ATATCTGTGT
* * * *
99721018 CGATGACATGTCCCAGACATGCTCTTATACT-GACACATCTC-ATAGC
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGACTCGTCTCAATGGC
* * * *
99721064 CGATGCATGTCTCAAACATGTCTTACATTGG-CTTACGT-TCCGA-GGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGAC-T-CGTCT-CAATGGC
99721110 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAAT-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGG-ACTCGTCTCAATGGC
*
99721156 TGATGCTATGTCCCAGACATGGTCTTACACTGG-CTCG-CAT-AATGTGGC
1 CGATGC-ATGTCCCAGACAT-GTCTTACACTGGACTCGTC-TCAA--TGGC
99721204 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
99721233 AGCCCACAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
44 8 0.06
45 18 0.13
46 65 0.46
47 30 0.21
48 20 0.14
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGACTCGTCTCAATGGC
Found at i:99723793 original size:42 final size:42
Alignment explanation
Indices: 99723716--99723829 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
99723706 GTTTCAATGT
* * * ** * *
99723716 CATATCCCCGATATGGTCTTACATGAAAT-ATCATATCGATGC
1 CATATCCCCAACATGGTCTTATACAAAATCA-CATATCAAGGC
*
99723758 CATGTCCCCAACATGGTCTTATACAAAATCACATATCAAGGC
1 CATATCCCCAACATGGTCTTATACAAAATCACATATCAAGGC
* * *
99723800 CATATCCCGAATATGGTCTTATACGAAATC
1 CATATCCCCAACATGGTCTTATACAAAATC
99723830 TTAATAACCT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 58 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (42 bp):
CATATCCCCAACATGGTCTTATACAAAATCACATATCAAGGC
Found at i:99731214 original size:13 final size:13
Alignment explanation
Indices: 99731196--99731220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99731186 GAGATGAAAG
99731196 TAGAAAGTAGAAC
1 TAGAAAGTAGAAC
99731209 TAGAAAGTAGAA
1 TAGAAAGTAGAA
99731221 ACGGGGGAGA
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:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (13 bp):
TAGAAAGTAGAAC
Found at i:99742756 original size:24 final size:24
Alignment explanation
Indices: 99742724--99742770 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
99742714 AGGCCCGAAG
99742724 TATGACTATTTTCTGATATCTGTC
1 TATGACTATTTTCTGATATCTGTC
*
99742748 TATGACTATTTTTTGATATCTGT
1 TATGACTATTTTCTGATATCTGT
99742771 TTGTATGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (24 bp):
TATGACTATTTTCTGATATCTGTC
Found at i:99748419 original size:44 final size:44
Alignment explanation
Indices: 99748364--99748477 Score: 183
Period size: 44 Copynumber: 2.6 Consensus size: 44
99748354 ATCACCCAAG
99748364 GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
99748408 GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
** ** *
99748452 GATTACCCATCCAGGCTAAATCCTTT
1 GAACACCTGTCCAGGCTAGATCCTTT
99748478 TCTGCAACAC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (44 bp):
GAACACCTGTCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
Found at i:99750216 original size:20 final size:20
Alignment explanation
Indices: 99750191--99750230 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
99750181 TGTACCAAGA
99750191 CTTGTGAGAGTTGTATTAGT
1 CTTGTGAGAGTTGTATTAGT
99750211 CTTGTGAGAGTTGTATTAGT
1 CTTGTGAGAGTTGTATTAGT
99750231 GGCCAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
CTTGTGAGAGTTGTATTAGT
Found at i:99752923 original size:32 final size:32
Alignment explanation
Indices: 99752864--99752924 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
99752854 CATTGCATTG
* *
99752864 GGGTGGGTTTGATGAAGTGAAATAAGTATTTA
1 GGGTGGGTTTAATGAAGTGAAAGAAGTATTTA
*
99752896 GGGTGGGTTTAATGAAGTGAAGGAAGTAT
1 GGGTGGGTTTAATGAAGTGAAAGAAGTAT
99752925 CTGAAAGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (32 bp):
GGGTGGGTTTAATGAAGTGAAAGAAGTATTTA
Found at i:99753061 original size:40 final size:40
Alignment explanation
Indices: 99753000--99753075 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
99752990 TGGTACCTTA
* *
99753000 TGGTGTGTAGGGTTGGATGGGTCAATATTATCCCCATATT
1 TGGTGTGCAGGGATGGATGGGTCAATATTATCCCCATATT
* *
99753040 TGGTGTGCAGGGAT-GAGTGGGTCGATTTTATCCCCA
1 TGGTGTGCAGGGATGGA-TGGGTCAATATTATCCCCA
99753076 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.34
Consensus pattern (40 bp):
TGGTGTGCAGGGATGGATGGGTCAATATTATCCCCATATT
Found at i:99753835 original size:31 final size:29
Alignment explanation
Indices: 99753800--99753858 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
99753790 AAAGTACAGA
* *
99753800 GACTAAAATTTATCAATTCAAATAGTATAAG
1 GACTAAAATTGATCAAAT-AAA-AGTATAAG
99753831 GACTAAAATTGATCAAATAAAAGTATAA
1 GACTAAAATTGATCAAATAAAAGTATAA
99753859 AGATTGAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 3 0.12
31 16 0.62
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (29 bp):
GACTAAAATTGATCAAATAAAAGTATAAG
Found at i:99755227 original size:38 final size:38
Alignment explanation
Indices: 99755176--99755253 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
99755166 GACGAGTAAG
99755176 TATGTAAATATTATTATTTAATATTTATGAGTCAAATA
1 TATGTAAATATTATTATTTAATATTTATGAGTCAAATA
*
99755214 TATGTAAATATTATTATTTAATATTTATGAGTTAAATA
1 TATGTAAATATTATTATTTAATATTTATGAGTCAAATA
99755252 TA
1 TA
99755254 CTATTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (38 bp):
TATGTAAATATTATTATTTAATATTTATGAGTCAAATA
Found at i:99756430 original size:10 final size:10
Alignment explanation
Indices: 99756415--99756450 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
99756405 ATGTGAATAG
99756415 GTATATATAT
1 GTATATATAT
99756425 G--TATATAT
1 GTATATATAT
99756433 GTATATATAT
1 GTATATATAT
99756443 GTATATAT
1 GTATATAT
99756451 GTATGTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (10 bp):
GTATATATAT
Found at i:99756431 original size:8 final size:8
Alignment explanation
Indices: 99756418--99756454 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
99756408 TGAATAGGTA
99756418 TATATATG
1 TATATATG
99756426 TATATATG
1 TATATATG
99756434 TATATATATG
1 --TATATATG
99756444 TATATATG
1 TATATATG
99756452 TAT
1 TAT
99756455 GTACATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 19 0.70
10 8 0.30
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:99756436 original size:18 final size:18
Alignment explanation
Indices: 99756415--99756454 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
99756405 ATGTGAATAG
99756415 GTATATATATGTATATAT
1 GTATATATATGTATATAT
99756433 GTATATATATGTATATAT
1 GTATATATATGTATATAT
99756451 GTAT
1 GTAT
99756455 GTACATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (18 bp):
GTATATATATGTATATAT
Found at i:99757355 original size:2 final size:2
Alignment explanation
Indices: 99757348--99757400 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
99757338 ATTCATCTAC
99757348 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99757390 TA TA TA TA TA T
1 TA TA TA TA TA T
99757401 TCATATGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.