Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 300 of 345
Found at i:90330309 original size:16 final size:18
Alignment explanation
Indices: 90330288--90330325 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
90330278 AAGGGAGAAT
90330288 AAAG-AAATG-GAAAAAA
1 AAAGAAAATGAGAAAAAA
90330304 AAAGAAAATGATGAAAAAA
1 AAAGAAAATGA-GAAAAAA
90330323 AAA
1 AAA
90330326 TGTGTGTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 5 0.26
19 10 0.53
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAGAAAATGAGAAAAAA
Found at i:90330842 original size:29 final size:29
Alignment explanation
Indices: 90330810--90330912 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
90330800 GTGACGAGAT
* *
90330810 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
90330839 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
90330868 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
90330897 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
90330913 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:90337223 original size:17 final size:19
Alignment explanation
Indices: 90337201--90337239 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
90337191 AAGGGAGAAT
90337201 AAAG-AAATG-GAAAAAAA
1 AAAGAAAATGAGAAAAAAA
90337218 AAAGAAAATGATGAAAAAAA
1 AAAGAAAATGA-GAAAAAAA
90337238 AA
1 AA
90337240 TGTGTGTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
20 10 0.53
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAGAAAATGAGAAAAAAA
Found at i:90337755 original size:29 final size:29
Alignment explanation
Indices: 90337723--90337825 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
90337713 GTGACGAGAT
* *
90337723 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
90337752 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
90337781 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
90337810 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
90337826 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:90340030 original size:22 final size:22
Alignment explanation
Indices: 90340005--90340087 Score: 85
Period size: 22 Copynumber: 3.8 Consensus size: 22
90339995 AGTAACATGT
* *
90340005 CTTCAATGTCTCGACATCCAAC
1 CTTCAATGTCACGACATCTAAC
***
90340027 CTTCAATGTTGTGACATCTAAC
1 CTTCAATGTCACGACATCTAAC
* * *
90340049 CTACAATGTCACAACATCTGAC
1 CTTCAATGTCACGACATCTAAC
*
90340071 CTTTAATGTCACGACAT
1 CTTCAATGTCACGACAT
90340088 TTTAGTTATA
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (22 bp):
CTTCAATGTCACGACATCTAAC
Found at i:90340230 original size:21 final size:22
Alignment explanation
Indices: 90340206--90340253 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
90340196 TTAAGCATAT
*
90340206 AAATGACTTGAAAACCTTTA-A
1 AAATGACTTGAAAAACTTTATA
*
90340227 AAATGTCTTGAAAAACTTTATA
1 AAATGACTTGAAAAACTTTATA
90340249 AAATG
1 AAATG
90340254 CTATTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (22 bp):
AAATGACTTGAAAAACTTTATA
Found at i:90341455 original size:53 final size:53
Alignment explanation
Indices: 90341375--90341480 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
90341365 AATAGACAAA
*
90341375 CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAATGCTTGTACT
1 CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAATGCATGTACT
*
90341428 CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAGTGCATGTACT
1 CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAATGCATGTACT
90341481 TTATAACATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (53 bp):
CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAATGCATGTACT
Found at i:90343138 original size:46 final size:44
Alignment explanation
Indices: 90343034--90343141 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
90343024 TGTCTTTGAC
** * * *
90343034 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
90343078 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
90343124 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
90343142 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:90350469 original size:46 final size:44
Alignment explanation
Indices: 90350365--90350472 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
90350355 TGTCTTTGAC
** * * *
90350365 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
90350409 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
90350455 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
90350473 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:90355587 original size:22 final size:22
Alignment explanation
Indices: 90355559--90355602 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
90355549 ACATTGCCCA
90355559 AGGTATCGTGATATCCA-CTTTT
1 AGGTATCGTGATA-CCACCTTTT
90355581 AGGTATCGTGATACCACCTTTT
1 AGGTATCGTGATACCACCTTTT
90355603 TCAGAGGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (22 bp):
AGGTATCGTGATACCACCTTTT
Found at i:90355800 original size:11 final size:11
Alignment explanation
Indices: 90355771--90355803 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
90355761 AGTTTTAGGT
90355771 TTAGTTTTCTC
1 TTAGTTTTCTC
*
90355782 -TAGGTTTCTC
1 TTAGTTTTCTC
90355792 TTAGTTTTCTC
1 TTAGTTTTCTC
90355803 T
1 T
90355804 GCATTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.18, G:0.12, T:0.61
Consensus pattern (11 bp):
TTAGTTTTCTC
Found at i:90362149 original size:36 final size:37
Alignment explanation
Indices: 90362011--90362249 Score: 232
Period size: 39 Copynumber: 6.4 Consensus size: 37
90362001 AGAAAATCTT
* * *
90362011 ATTCAGTATAATCAGTGGATAATGCTTGTTTGAGCAAAC
1 ATTCAGTAGAATCAGTAGATATTGCTTGTTTGAGC--AC
* * * *
90362050 ATTCAGTATAATCAGTGGATATTGCTCGTCTGAGCAAC
1 ATTCAGTAGAATCAGTAGATATTGCTTGTTTGAGC-AC
* * *
90362088 TATTTAGTAGAATCAATAGATATTGCTTATTTGAGCAC
1 -ATTCAGTAGAATCAGTAGATATTGCTTGTTTGAGCAC
* *
90362126 -TTCAGTAGAATCAGTAGACATTGCTCGTTTGAGCAC
1 ATTCAGTAGAATCAGTAGATATTGCTTGTTTGAGCAC
* * *
90362162 ATTCAGTGGGATCAGTAGATATTGCTT-ATTGAGCAC
1 ATTCAGTAGAATCAGTAGATATTGCTTGTTTGAGCAC
* * *
90362198 TTTCAATAGAATCAATAGATATTTGCTCT-TTTGAGCAC
1 ATTCAGTAGAATCAGTAGATA-TTGCT-TGTTTGAGCAC
*
90362236 TTTCAGTAGAATCA
1 ATTCAGTAGAATCA
90362250 ATATTCCTTT
Statistics
Matches: 169, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
36 55 0.33
37 27 0.16
38 27 0.16
39 60 0.36
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (37 bp):
ATTCAGTAGAATCAGTAGATATTGCTTGTTTGAGCAC
Found at i:90362210 original size:73 final size:73
Alignment explanation
Indices: 90362011--90362252 Score: 252
Period size: 73 Copynumber: 3.2 Consensus size: 73
90362001 AGAAAATCTT
* * * * * * * *
90362011 ATTCAGTATAATCAGTGGATAATGCTTGTTTGAGCAAACATTCAGTATAATCAGTGGATATTGCT
1 ATTCAGTAGAATCAATAGATATTGCTTATTTGAGC--AC-TTCAATAGAATCAGTAGATATTGCT
*
90362076 CGTCTGAGCAAC
63 CGTTTGAGC-AC
* * *
90362088 TATTTAGTAGAATCAATAGATATTGCTTATTTGAGCACTTCAGTAGAATCAGTAGACATTGCTCG
1 -ATTCAGTAGAATCAATAGATATTGCTTATTTGAGCACTTCAATAGAATCAGTAGATATTGCTCG
90362153 TTTGAGCAC
65 TTTGAGCAC
* * * *
90362162 ATTCAGTGGGATCAGTAGATATTGCTTA-TTGAGCACTTTCAATAGAATCAATAGATATTTGCTC
1 ATTCAGTAGAATCAATAGATATTGCTTATTTGAGCAC-TTCAATAGAATCAGTAGATA-TTGCTC
*
90362226 TTTTGAGCAC
64 GTTTGAGCAC
*
90362236 TTTCAGTAGAATCAATA
1 ATTCAGTAGAATCAATA
90362253 TTCCTTTTTT
Statistics
Matches: 140, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
72 8 0.06
73 41 0.29
74 30 0.21
75 30 0.21
76 2 0.01
78 29 0.21
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (73 bp):
ATTCAGTAGAATCAATAGATATTGCTTATTTGAGCACTTCAATAGAATCAGTAGATATTGCTCGT
TTGAGCAC
Found at i:90362681 original size:18 final size:18
Alignment explanation
Indices: 90362660--90362699 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90362650 CCAACAATAA
*
90362660 AATTAACTCATTTTATGC
1 AATTAACTCATTTTAGGC
* *
90362678 AATTAAGTCCTTTTAGGC
1 AATTAACTCATTTTAGGC
90362696 AATT
1 AATT
90362700 TTACTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (18 bp):
AATTAACTCATTTTAGGC
Found at i:90364238 original size:23 final size:23
Alignment explanation
Indices: 90364212--90364259 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
90364202 AGCATTCCAA
90364212 TGCTCCTAAAACTAGCACTTTAG
1 TGCTCCTAAAACTAGCACTTTAG
* **
90364235 TGCTTCTAAATTTAGCACTTTAG
1 TGCTCCTAAAACTAGCACTTTAG
90364258 TG
1 TG
90364260 TTCCCGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (23 bp):
TGCTCCTAAAACTAGCACTTTAG
Found at i:90364272 original size:22 final size:22
Alignment explanation
Indices: 90364224--90364282 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
90364214 CTCCTAAAAC
*
90364224 TAGCACTTTAGTGCTTCTAAATT
1 TAGCACTTTAGTG-TTCCAAATT
**
90364247 TAGCACTTTAGTGTTCCCGATT
1 TAGCACTTTAGTGTTCCAAATT
90364269 TAGCA-TTTA-TGTTC
1 TAGCACTTTAGTGTTC
90364283 TCTTGTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.15
21 4 0.12
22 11 0.33
23 13 0.39
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (22 bp):
TAGCACTTTAGTGTTCCAAATT
Found at i:90367156 original size:40 final size:40
Alignment explanation
Indices: 90367101--90367362 Score: 420
Period size: 40 Copynumber: 6.6 Consensus size: 40
90367091 TATTCGGATG
90367101 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
90367141 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
90367181 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
90367221 AGATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
90367261 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
90367301 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
90367341 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
90367363 TACTTGGTTT
Statistics
Matches: 209, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 17 0.08
40 192 0.92
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:90368122 original size:2 final size:2
Alignment explanation
Indices: 90368110--90368141 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
90368100 CTGCCACATT
*
90368110 AC AC AC GC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
90368142 TCTTTCTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:90372773 original size:33 final size:33
Alignment explanation
Indices: 90372731--90372797 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
90372721 TTCTTGGAAA
90372731 AATCGAAGGCAATGTCACACCCCTATCATGCAT
1 AATCGAAGGCAATGTCACACCCCTATCATGCAT
90372764 AATCGAAGGCAATGTCACACCCCTATCATGCAT
1 AATCGAAGGCAATGTCACACCCCTATCATGCAT
90372797 A
1 A
90372798 GTACACCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (33 bp):
AATCGAAGGCAATGTCACACCCCTATCATGCAT
Found at i:90383604 original size:21 final size:22
Alignment explanation
Indices: 90383578--90383618 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
90383568 CACTTGACAC
90383578 AGGGGC-ACACGCCCATGTGGG
1 AGGGGCAACACGCCCATGTGGG
*
90383599 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCATGTG
90383619 AGCATTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGG
Found at i:90387472 original size:23 final size:23
Alignment explanation
Indices: 90387446--90387498 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
90387436 GGGGACACAG
90387446 GCGTGTGCAATGTCTCTACACGA
1 GCGTGTGCAATGTCTCTACACGA
*
90387469 GCGTGTGCAATGTCTCTACACGG
1 GCGTGTGCAATGTCTCTACACGA
90387492 GCGTGTG
1 GCGTGTG
90387499 AAACATTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.26
Consensus pattern (23 bp):
GCGTGTGCAATGTCTCTACACGA
Found at i:90387997 original size:46 final size:46
Alignment explanation
Indices: 90387908--90388124 Score: 221
Period size: 46 Copynumber: 4.6 Consensus size: 46
90387898 TATTTCAAGT
*
90387908 CGATGCCATGTCCCCA-ACATGGTCTTACACTGACTATCATCTCGTA-GC
1 CGATG-CATGT-CCCAGACAT-GTCTTACACTGGCT-TCATCTCGTAGGC
*
90387956 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGTAGGC
* * * * * *
90388002 CGATACATGTCCGAGACATGTCTTACACTAGCCCTCATCTC-AATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGTAGGC
*
90388048 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-GGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGTAGGC
90388096 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
90388125 AGCTCACACA
Statistics
Matches: 144, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.01
46 74 0.51
47 41 0.28
48 26 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGTAGGC
Found at i:90388106 original size:94 final size:92
Alignment explanation
Indices: 90387954--90388127 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 92
90387944 TCATCTCGTA
* * *
90387954 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATACATGTCCGAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATACATGTCCCAGAC
90388019 ATGTCTTACACTAGCCCTCATCTCAAT
66 ATGTCTTACACTAGCCCTCATCTCAAT
* *
90388046 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATACATGTCCC
90388109 AGACATGTCTTACACTAGC
62 AGACATGTCTTACACTAGC
90388128 TCACACAAGT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 50 0.68
95 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATACATGTCCCAGAC
ATGTCTTACACTAGCCCTCATCTCAAT
Found at i:90394605 original size:2 final size:2
Alignment explanation
Indices: 90394598--90394623 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
90394588 CATTTTACAA
90394598 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
90394624 CTTGTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90396525 original size:13 final size:13
Alignment explanation
Indices: 90396507--90396534 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
90396497 TTACCCCTTC
90396507 CAGCTCCTAGTTA
1 CAGCTCCTAGTTA
90396520 CAGCTCCTAGTTA
1 CAGCTCCTAGTTA
90396533 CA
1 CA
90396535 CCCTTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (13 bp):
CAGCTCCTAGTTA
Found at i:90408338 original size:11 final size:11
Alignment explanation
Indices: 90408322--90408356 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
90408312 ACATTATTTA
90408322 AGGACCAGTTT
1 AGGACCAGTTT
*
90408333 AGGACCAATTT
1 AGGACCAGTTT
*
90408344 AAGACCAGTTT
1 AGGACCAGTTT
90408355 AG
1 AG
90408357 CATTGTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (11 bp):
AGGACCAGTTT
Found at i:90413919 original size:20 final size:20
Alignment explanation
Indices: 90413894--90413942 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
90413884 AGGGGCACAT
* *
90413894 GCCCGTGTGGCTTGGGACAC
1 GCCCGTGTGGCCTGGAACAC
*
90413914 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
90413934 GCCCGTGTG
1 GCCCGTGTG
90413943 CTGCAGCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.10, C:0.31, G:0.39, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:90414837 original size:52 final size:52
Alignment explanation
Indices: 90414706--90414915 Score: 168
Period size: 52 Copynumber: 4.1 Consensus size: 52
90414696 CACATTGTCA
* * * * *
90414706 CACATCACACACCGAAGCCATAGCCCTGCCATGGTCTTACACGG-ATTACATAT
1 CACATCAC-C-CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATAT
* * **
90414759 --CAT-A--CCGATGCCATATCCTAAATATGGTCTTATAC-GAATCACATTAT
1 CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-TAT
*
90414806 CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCTCGA-AT
1 CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-ATAT
******
90414858 CACATTGTATTGATGCCATAGCCCAGCTATGGTCTTATACGGAAGT-ACATAT
1 CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAA-TCACATAT
90414910 CACATC
1 CACATC
90414916 TTTTCCGTCA
Statistics
Matches: 124, Mismatches: 22, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
45 1 0.01
46 28 0.23
47 3 0.02
49 3 0.02
50 2 0.02
51 4 0.03
52 75 0.60
53 7 0.06
54 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (52 bp):
CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATAT
Found at i:90432364 original size:22 final size:22
Alignment explanation
Indices: 90432339--90432387 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
90432329 AGTGATTAGT
* *
90432339 AGTAGGCACCA-AAGTGCGAATC
1 AGTAGGAACCATAA-TGCAAATC
90432361 AGTAGGAACCATAATGCAAATC
1 AGTAGGAACCATAATGCAAATC
90432383 AGTAG
1 AGTAG
90432388 ATACTGTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.16
Consensus pattern (22 bp):
AGTAGGAACCATAATGCAAATC
Found at i:90435953 original size:20 final size:20
Alignment explanation
Indices: 90435928--90436025 Score: 99
Period size: 20 Copynumber: 4.9 Consensus size: 20
90435918 ATAGATGCAT
*
90435928 AACAGGGGCACTGAAGTGTA
1 AACAGGGGCACCGAAGTGTA
*
90435948 AACAGGGGCA-CAAATGTGTA
1 AACAGGGGCACCGAA-GTGTA
* * *
90435968 GACAGGGGCACCGTAGTGCA
1 AACAGGGGCACCGAAGTGTA
**
90435988 AACAGGGATACCGAAGTGTA
1 AACAGGGGCACCGAAGTGTA
* *
90436008 TACAGAGGCACCGAAGTG
1 AACAGGGGCACCGAAGTG
90436026 CAAATCTCGT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 57 0.93
21 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.34, T:0.13
Consensus pattern (20 bp):
AACAGGGGCACCGAAGTGTA
Found at i:90435991 original size:40 final size:40
Alignment explanation
Indices: 90435929--90436029 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
90435919 TAGATGCATA
* * *
90435929 ACAGGGGCACTGAAGTGTAAACAGGGGCA-CAAATGTGTAG
1 ACAGGGGCACCGAAGTGCAAACAGGGACACCAAA-GTGTAG
* * * *
90435969 ACAGGGGCACCGTAGTGCAAACAGGGATACCGAAGTGTAT
1 ACAGGGGCACCGAAGTGCAAACAGGGACACCAAAGTGTAG
*
90436009 ACAGAGGCACCGAAGTGCAAA
1 ACAGGGGCACCGAAGTGCAAA
90436030 TCTCGTACAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 48 0.94
41 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.33, T:0.13
Consensus pattern (40 bp):
ACAGGGGCACCGAAGTGCAAACAGGGACACCAAAGTGTAG
Found at i:90438690 original size:48 final size:48
Alignment explanation
Indices: 90438634--90438807 Score: 174
Period size: 48 Copynumber: 3.6 Consensus size: 48
90438624 TATGTGTGCC
* *
90438634 AGTGTAAGACTATGTTTGGAACATGGCATCAACAATGTAATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCAACAATGTAATGAGAGCT
* * *
90438682 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACAT-T-ATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATC-AACA-ATGTAATGAGAGCT
* * * * * *
90438730 AATTTAAAACCATGTTTGGGACATGGCATCAGCATTG-AGACGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCAACAATGTA-ATGAGAGCT
* * *
90438778 AGTGTAAGACCATGTCTAGGACACGGCATC
1 AGTGTAAGACCATGTTTGGGACATGGCATC
90438808 GTCCTCGACA
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 92 0.90
49 4 0.04
50 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCAACAATGTAATGAGAGCT
Found at i:90438825 original size:96 final size:96
Alignment explanation
Indices: 90438631--90438851 Score: 275
Period size: 96 Copynumber: 2.3 Consensus size: 96
90438621 TGATATGTGT
* * * *
90438631 GCCAGTGTAAGACTATGTTTGGAACATGGCATCAACAATGTAATGAGAGCTAGTGTAAGACCATG
1 GCCAATGTAAAACCATGTTTGGAACATGGCATCAACAATGTAACGAGAGCTAGTGTAAGACCATG
* * *
90438696 TCTGGGACATGGCATCGACCACATTATGAGA
66 TCTAGGACACGGCATCGACCACATCATGAGA
* * * *
90438727 GCCAATTTAAAACCATGTTTGGGACATGGCATCAGCATTG-AGACGAGAGCTAGTGTAAGACCAT
1 GCCAATGTAAAACCATGTTTGGAACATGGCATCAACAATGTA-ACGAGAGCTAGTGTAAGACCAT
* * *
90438791 GTCTAGGACACGGCATCGTCCTCGA-CATGTGA
65 GTCTAGGACACGGCATCGACCAC-ATCATGAGA
*
90438823 GCCAGTGTAAAACCATGTTTGGAACATGG
1 GCCAATGTAAAACCATGTTTGGAACATGG
90438852 TATTGGCAAT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
95 1 0.01
96 104 0.98
97 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (96 bp):
GCCAATGTAAAACCATGTTTGGAACATGGCATCAACAATGTAACGAGAGCTAGTGTAAGACCATG
TCTAGGACACGGCATCGACCACATCATGAGA
Found at i:90443139 original size:18 final size:17
Alignment explanation
Indices: 90443116--90443177 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
90443106 GGGAGGAGAG
* *
90443116 AAGAAAAGAAGAAAGATA
1 AAGAAAAGAAAAAAG-GA
*
90443134 AAGAAAGGAAAAAAGGA
1 AAGAAAAGAAAAAAGGA
*
90443151 AAGAAAAACGAGAAAATGGA
1 AAG-AAAA-GA-AAAAAGGA
90443171 AAGAAAA
1 AAGAAAA
90443178 ATAAAGGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.11
18 16 0.44
19 6 0.17
20 10 0.28
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.03
Consensus pattern (17 bp):
AAGAAAAGAAAAAAGGA
Found at i:90443302 original size:22 final size:22
Alignment explanation
Indices: 90443249--90443322 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 22
90443239 TGGTTGTTTA
90443249 AAATTCTAATTTTTTTTATAATTTTT
1 AAATTC-AA-TTTTTTT-T-ATTTTT
90443275 AAAAATTCAATTTTTTTTATTTTT
1 --AAATTCAATTTTTTTTATTTTT
* *
90443299 AAA-TGAATTTCTTATTATTTTT
1 AAATTCAATTT-TTTTTATTTTT
90443321 AA
1 AA
90443323 TATATTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.14
22 15 0.35
24 6 0.14
25 1 0.02
26 7 0.16
27 2 0.05
28 6 0.14
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (22 bp):
AAATTCAATTTTTTTTATTTTT
Found at i:90443329 original size:21 final size:22
Alignment explanation
Indices: 90443283--90443343 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
90443273 TTAAAAATTC
*
90443283 AATTT-TTTTTATTTTTAA-AT
1 AATTTCTTATTATTTTTAATAT
90443303 GAATTTCTTATTATTTTTAATAT
1 -AATTTCTTATTATTTTTAATAT
* *
90443326 -ATTTTTTATT-TTTATAAT
1 AATTTCTTATTATTTTTAAT
90443344 CTAAAAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 7 0.20
21 14 0.40
22 12 0.34
23 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
AATTTCTTATTATTTTTAATAT
Found at i:90443394 original size:11 final size:11
Alignment explanation
Indices: 90443380--90443406 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
90443370 TATTTTAGAA
90443380 TTTTTTTATAT
1 TTTTTTTATAT
90443391 TTTTTTTATAT
1 TTTTTTTATAT
90443402 TTTTT
1 TTTTT
90443407 ACAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTATAT
Found at i:90443673 original size:24 final size:24
Alignment explanation
Indices: 90443646--90443699 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
90443636 AAATATTTAT
90443646 TTATGAAATTATTTCAACAAATGA
1 TTATGAAATTATTTCAACAAATGA
90443670 TTATGAAATTATTTCAACAAATGA
1 TTATGAAATTATTTCAACAAATGA
90443694 TTATGA
1 TTATGA
90443700 GGTGGGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (24 bp):
TTATGAAATTATTTCAACAAATGA
Found at i:90445144 original size:16 final size:16
Alignment explanation
Indices: 90445106--90445158 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
90445096 ATTTTTTCTT
*
90445106 ATATTTTCTAAAATTTA
1 ATATTTT-TAAATTTTA
*
90445123 A-ATTTTT-AATTTTG
1 ATATTTTTAAATTTTA
90445137 ATATTTTTAAATTTTA
1 ATATTTTTAAATTTTA
90445153 ATATTT
1 ATATTT
90445159 AAATTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 6 0.19
15 7 0.23
16 17 0.55
17 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
ATATTTTTAAATTTTA
Found at i:90445698 original size:21 final size:21
Alignment explanation
Indices: 90445673--90445723 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
90445663 TGGTTCAAGG
*
90445673 TTTGAGGTTCAAAGTTTGATA
1 TTTGAGGTTCAAAGTTTGAGA
* **
90445694 TTTGAGATTTGAAGTTTGAGA
1 TTTGAGGTTCAAAGTTTGAGA
*
90445715 TTTAAGGTT
1 TTTGAGGTT
90445724 TAGGATTCGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (21 bp):
TTTGAGGTTCAAAGTTTGAGA
Found at i:90452781 original size:40 final size:39
Alignment explanation
Indices: 90452726--90452860 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 39
90452716 CACCAGTTTA
*
90452726 ACACCCAGTAG-CTCATCGGATAATTCGAAGTAATAATTTG
1 ACACCCAGT-GTCTCATCGGATAATCCGAAGTAATAA-TTG
*
90452766 ACACCCAGTGTCTCATCAGG-TAAACCGAAGT-A-AATTG
1 ACACCCAGTGTCTCATC-GGATAATCCGAAGTAATAATTG
* * *
90452803 GCACCCAGTGCCTCA-CGAATTAATCCGAAGTAATAGATTG
1 ACACCCAGTGTCTCATCGGA-TAATCCGAAGTAATA-ATTG
* *
90452843 ATACACAGTGTCTCATCG
1 ACACCCAGTGTCTCATCG
90452861 ACTCGTAGTC
Statistics
Matches: 77, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 26 0.34
38 3 0.04
39 3 0.04
40 39 0.51
41 4 0.05
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (39 bp):
ACACCCAGTGTCTCATCGGATAATCCGAAGTAATAATTG
Found at i:90453736 original size:22 final size:22
Alignment explanation
Indices: 90453711--90453754 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
90453701 AACCTTTGAA
90453711 ACCTTAACTTTTCTCTTTCTTT
1 ACCTTAACTTTTCTCTTTCTTT
90453733 ACCTTAACTTTTCTCTTTCTTT
1 ACCTTAACTTTTCTCTTTCTTT
90453755 CTTTCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.27, G:0.00, T:0.59
Consensus pattern (22 bp):
ACCTTAACTTTTCTCTTTCTTT
Found at i:90453755 original size:4 final size:4
Alignment explanation
Indices: 90453746--90453778 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
90453736 TTAACTTTTC
90453746 TCTT TCTT TCTT TCTCT T-TT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCT-T TCTT TCTT TCTT TCTT T
90453779 TTCTCCCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.07
4 23 0.85
5 2 0.07
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:90453769 original size:16 final size:15
Alignment explanation
Indices: 90453748--90453780 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
90453738 AACTTTTCTC
90453748 TTTCTTTCTTTCTCTT
1 TTTCTTTCTTTCT-TT
90453764 TTTCTTTCTTTCTTT
1 TTTCTTTCTTTCTTT
90453779 TT
1 TT
90453781 CTCCCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTCTTTCTTT
Found at i:90453771 original size:20 final size:21
Alignment explanation
Indices: 90453718--90453778 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
90453708 GAAACCTTAA
* **
90453718 CTTTTCTCTTTCTTTACCTTAA
1 CTTTTCTCTTTCTTT-CTTTCT
90453740 CTTTTCTCTTTCTTTCTTTCT
1 CTTTTCTCTTTCTTTCTTTCT
90453761 CTTTT-TCTTTCTTTCTTT
1 CTTTTCTCTTTCTTTCTTT
90453779 TTCTCCCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 13 0.36
21 8 0.22
22 15 0.42
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (21 bp):
CTTTTCTCTTTCTTTCTTTCT
Found at i:90453872 original size:14 final size:14
Alignment explanation
Indices: 90453853--90453879 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
90453843 TTGTTTTAAT
90453853 TATAATAATAATAA
1 TATAATAATAATAA
90453867 TATAATAATAATA
1 TATAATAATAATA
90453880 TGTACTTAAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:90454751 original size:23 final size:23
Alignment explanation
Indices: 90454722--90454783 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 23
90454712 AGAAATTATT
90454722 GAATTAAGTATTAAATTAGAAAA
1 GAATTAAGTATTAAATTAGAAAA
* *
90454745 TAATTAAGTA--AAAGTA-AAAA
1 GAATTAAGTATTAAATTAGAAAA
* *
90454765 GAATTGAGAATTAAATTAG
1 GAATTAAGTATTAAATTAG
90454784 TAAGATTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
20 11 0.37
21 5 0.17
22 5 0.17
23 9 0.30
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (23 bp):
GAATTAAGTATTAAATTAGAAAA
Found at i:90456678 original size:43 final size:43
Alignment explanation
Indices: 90456629--90456751 Score: 174
Period size: 43 Copynumber: 2.9 Consensus size: 43
90456619 CTTCGGTTTA
*
90456629 TCCAATGATGCACTATGAGTGCCAGTATAATTACTTCAACTTG
1 TCCAATGATGCACTATGTGTGCCAGTATAATTACTTCAACTTG
* * * * **
90456672 TCCAATGATGCACTGTGTGTGCTAATATAATTAATTTGACTTG
1 TCCAATGATGCACTATGTGTGCCAGTATAATTACTTCAACTTG
*
90456715 TCCAATGATGCACTATGTGTGCCAGTATAATTGCTTC
1 TCCAATGATGCACTATGTGTGCCAGTATAATTACTTC
90456752 GGTATATCTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (43 bp):
TCCAATGATGCACTATGTGTGCCAGTATAATTACTTCAACTTG
Found at i:90460758 original size:3 final size:3
Alignment explanation
Indices: 90460750--90460829 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
90460740 TTGCTTTGTT
90460750 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
90460798 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
90460830 TCAAGGTTGT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:90466704 original size:21 final size:21
Alignment explanation
Indices: 90466666--90466714 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
90466656 CAATGGTGCT
*
90466666 AACATAATTCAAATTCAAATATA
1 AACATAA-TCAAAATCAAATA-A
90466689 AACATAA-CAAAATCAAATAA
1 AACATAATCAAAATCAAATAA
90466709 AA-ATAA
1 AACATAA
90466715 ATAACATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 11 0.44
23 7 0.28
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.22
Consensus pattern (21 bp):
AACATAATCAAAATCAAATAA
Found at i:90471478 original size:2 final size:2
Alignment explanation
Indices: 90471471--90471500 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
90471461 TTAGAACAAC
90471471 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
90471501 GTAAGCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90476534 original size:39 final size:39
Alignment explanation
Indices: 90476453--90476607 Score: 256
Period size: 39 Copynumber: 3.9 Consensus size: 39
90476443 TATGGTAACC
* *
90476453 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
90476493 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
90476532 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
90476571 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
90476608 TTCACACATT
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 90 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:90481528 original size:20 final size:20
Alignment explanation
Indices: 90481505--90481568 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
90481495 AGTACTGGCA
*
90481505 GCTTATCTGCATTACTAGTG
1 GCTTATCTGCATTACTGGTG
** *
90481525 GCTTGA-CCACATTACTGGTA
1 GCTT-ATCTGCATTACTGGTG
90481545 GCTTATCTGCATTACTGGTG
1 GCTTATCTGCATTACTGGTG
90481565 GCTT
1 GCTT
90481569 GTCCATAGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
GCTTATCTGCATTACTGGTG
Found at i:90483094 original size:33 final size:32
Alignment explanation
Indices: 90483057--90483132 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
90483047 TGGCCTAGCC
* * **
90483057 ATGGTCTTACATTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACA-TCAAAATGCCATAACCCAACT
*
90483090 ATGGTCTTATCATCAAAATGCCATAGCCCAACT
1 ATGGTCTTA-CATCAAAATGCCATAACCCAACT
90483123 ATGGTCTTAC
1 ATGGTCTTAC
90483133 CTATATATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 1 0.03
33 34 0.92
34 2 0.05
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATCAAAATGCCATAACCCAACT
Found at i:90492646 original size:10 final size:10
Alignment explanation
Indices: 90492631--90492680 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
90492621 TAGATTTAGG
90492631 ATTTAT-TTT
1 ATTTATCTTT
90492640 CATTTATCTTT
1 -ATTTATCTTT
*
90492651 AATTATCTTT
1 ATTTATCTTT
90492661 ATTTAT-TTGT
1 ATTTATCTT-T
*
90492671 ATTTCTCTTT
1 ATTTATCTTT
90492681 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:90499040 original size:5 final size:5
Alignment explanation
Indices: 90499021--90499084 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
90499011 GCAACCTAAT
* *
90499021 TTTTA TTTT- TATTTA TTTTA TTTTA TTTTA TTTCA CTTTA TTTTA --TTA
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
90499069 TTTGCTA TTTTA TTTT
1 TTT--TA TTTTA TTTT
90499085 TGGATGTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 39 0.80
6 1 0.02
7 5 0.10
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:90502252 original size:10 final size:10
Alignment explanation
Indices: 90502239--90502286 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
90502229 TTATTTTCAT
90502239 TTATCTTTAA
1 TTATCTTTAA
90502249 TTATCTTTAA
1 TTATCTTTAA
*
90502259 TTATCTTTAT
1 TTATCTTTAA
*
90502269 TTAT-TTGTAT
1 TTATCTT-TAA
90502279 TTATCTTT
1 TTATCTTT
90502287 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:90502252 original size:20 final size:19
Alignment explanation
Indices: 90502229--90502286 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
90502219 GATTTAGGAT
90502229 TTATTTTCATTTATCTTTAA
1 TTATTTT-ATTTATCTTTAA
* *
90502249 TTATCTTTAATTATCTTTAT
1 TTAT-TTTATTTATCTTTAA
90502269 TTATTTGTATTTATCTTT
1 TTATTT-TATTTATCTTT
90502287 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTTTATTTATCTTTAA
Found at i:90502271 original size:30 final size:30
Alignment explanation
Indices: 90502229--90502286 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
90502219 GATTTAGGAT
90502229 TTATTTTCATTTATCTT-TAATTATCTTTAA
1 TTATTTTCATTTAT-TTGTAATTATCTTTAA
*
90502259 TTATCTTT-ATTTATTTGTATTTATCTTT
1 TTAT-TTTCATTTATTTGTAATTATCTTT
90502287 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 20 0.80
31 3 0.12
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (30 bp):
TTATTTTCATTTATTTGTAATTATCTTTAA
Found at i:90506142 original size:9 final size:9
Alignment explanation
Indices: 90506130--90506160 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
90506120 TTAAATTGCA
*
90506130 TGTTAAGAC
1 TGTTAATAC
90506139 TGTTAATAC
1 TGTTAATAC
90506148 TGTTAATAC
1 TGTTAATAC
90506157 TGTT
1 TGTT
90506161 GTGGATATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (9 bp):
TGTTAATAC
Found at i:90506382 original size:25 final size:25
Alignment explanation
Indices: 90506353--90506400 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90506343 TTATAATATG
* * *
90506353 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
90506378 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
90506401 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:90506462 original size:20 final size:20
Alignment explanation
Indices: 90506437--90506479 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
90506427 ATTTTGATAA
90506437 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
90506457 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
90506477 ACA
1 ACA
90506480 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90506487 original size:20 final size:20
Alignment explanation
Indices: 90506444--90506487 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
90506434 TAAACATGAT
* *
90506444 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
90506464 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
90506484 ATGT
1 ATGT
90506488 TCATAAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:90506577 original size:24 final size:24
Alignment explanation
Indices: 90506532--90506635 Score: 176
Period size: 24 Copynumber: 4.4 Consensus size: 24
90506522 GAGGAAGTGC
*
90506532 AAAAGGGCTTATG-CCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
90506555 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90506579 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90506603 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90506626 AAAAGAGGCT
1 AAAAG-GGCT
90506636 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
23 36 0.47
24 37 0.48
25 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:90506607 original size:47 final size:47
Alignment explanation
Indices: 90506532--90506635 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
90506522 GAGGAAGTGC
90506532 AAAAGGGCTTATGCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
*
90506579 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATG-CCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
90506626 AAAAGAGGCT
1 AAAAG-GGCT
90506636 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
47 41 0.76
48 13 0.24
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATT
Found at i:90506877 original size:31 final size:31
Alignment explanation
Indices: 90506842--90506905 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
90506832 CGTTTACAGT
90506842 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
90506873 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
90506904 AA
1 AA
90506906 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:90512294 original size:47 final size:47
Alignment explanation
Indices: 90512223--90512441 Score: 275
Period size: 47 Copynumber: 4.7 Consensus size: 47
90512213 CCCTTGGGGA
* * * * *
90512223 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
90512270 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
90512317 CTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
90512364 CTTATCAC----ATACGCTTTCACATTCATCAAATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
**
90512407 CTTATCACATATGTATACGTTTTCACATTCATCAC
1 CTTATCACATA--TATACACTTTCACATTCATCAC
90512442 GTAGAATCTT
Statistics
Matches: 153, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
43 41 0.27
47 93 0.61
49 19 0.12
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:90512301 original size:25 final size:25
Alignment explanation
Indices: 90512273--90512351 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
90512263 ACTCGGCCCT
90512273 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
90512298 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
*
90512320 ATCACATAAATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
90512345 ATCACAT
1 ATCACAT
90512352 CGGCCATTAG
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
22 7 0.19
23 7 0.19
24 8 0.22
25 14 0.39
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:90512373 original size:22 final size:22
Alignment explanation
Indices: 90512345--90512416 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
90512335 TTTCACATTC
90512345 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* *
90512367 ATCACATAC-G-CTTTCA--CATT
1 ATCACAT-CGGCCATT-AGGCCTT
*
90512387 CATCAAATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
90512410 ATCACAT
1 ATCACAT
90512417 ATGTATACGT
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
20 4 0.11
21 11 0.30
22 18 0.49
23 4 0.11
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:90519701 original size:40 final size:40
Alignment explanation
Indices: 90519642--90519862 Score: 347
Period size: 40 Copynumber: 5.5 Consensus size: 40
90519632 CATTTGAATG
*
90519642 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
90519682 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
90519722 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
90519762 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
90519802 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
90519842 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
90519863 AAACTTGGGT
Statistics
Matches: 169, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 156 0.92
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:90527756 original size:40 final size:40
Alignment explanation
Indices: 90527697--90527908 Score: 327
Period size: 40 Copynumber: 5.3 Consensus size: 40
90527687 CATTTGAATG
*
90527697 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
90527737 ATATCCAGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
90527777 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
90527817 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
90527857 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
90527897 ATATCC-GGCTAA
1 ATATCCGGGCTAA
90527909 ATCCCAAAGA
Statistics
Matches: 157, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 5 0.03
40 152 0.97
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:90529774 original size:40 final size:40
Alignment explanation
Indices: 90529719--90529928 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
90529709 AACATTGGAA
90529719 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
90529759 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
90529799 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
90529839 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
90529878 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
90529919 CTATATCCGG
1 ATATATCCGG
90529929 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:90533364 original size:25 final size:25
Alignment explanation
Indices: 90533335--90533382 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90533325 TTATAATATG
* * *
90533335 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
90533360 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
90533383 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:90533433 original size:9 final size:9
Alignment explanation
Indices: 90533421--90533477 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
90533411 TTTGATAAAC
90533421 ATGATATGT
1 ATGATATGT
*
90533430 ATGATATGCAC
1 ATGATATG--T
*
90533441 ATGACATGT
1 ATGATATGT
*
90533450 ATGATATGCAC
1 ATGATATG--T
90533461 ATGATATGT
1 ATGATATGT
90533470 ATGATATG
1 ATGATATG
90533478 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:90533444 original size:20 final size:20
Alignment explanation
Indices: 90533419--90533481 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
90533409 ATTTTGATAA
90533419 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90533439 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
90533459 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
90533479 ACA
1 ACA
90533482 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90533562 original size:24 final size:24
Alignment explanation
Indices: 90533535--90533663 Score: 215
Period size: 24 Copynumber: 5.4 Consensus size: 24
90533525 GAGGAAGTGC
90533535 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATA
90533559 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATA
*
90533583 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATA
90533607 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATA
* *
90533630 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATA
90533654 AAAAGAGGCT
1 AAAAG-GGCT
90533664 AGGCCTTCAG
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 22 0.22
24 74 0.74
25 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATA
Found at i:90533904 original size:30 final size:31
Alignment explanation
Indices: 90533870--90533933 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
90533860 CGTTTACAGT
90533870 AAAA-GCTTCGGCCCAGTAATATGAAATATG
1 AAAAGGCTTCGGCCCAGTAATATGAAATATG
** *
90533900 AAAAGGCTTCGGCCCAGTGTTATGAATTATG
1 AAAAGGCTTCGGCCCAGTAATATGAAATATG
90533931 AAA
1 AAA
90533934 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:90541447 original size:25 final size:25
Alignment explanation
Indices: 90541418--90541465 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90541408 TTATAATATG
* * *
90541418 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
90541443 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
90541466 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:90541516 original size:9 final size:9
Alignment explanation
Indices: 90541504--90541560 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
90541494 TTTGATAAAC
90541504 ATGATATGT
1 ATGATATGT
*
90541513 ATGATATGCAC
1 ATGATATG--T
*
90541524 ATGACATGT
1 ATGATATGT
*
90541533 ATGATATGCAC
1 ATGATATG--T
90541544 ATGATATGT
1 ATGATATGT
90541553 ATGATATG
1 ATGATATG
90541561 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:90541527 original size:20 final size:20
Alignment explanation
Indices: 90541502--90541564 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
90541492 ATTTTGATAA
90541502 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90541522 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
90541542 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
90541562 ACA
1 ACA
90541565 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90541645 original size:24 final size:24
Alignment explanation
Indices: 90541618--90541722 Score: 185
Period size: 24 Copynumber: 4.4 Consensus size: 24
90541608 GAGGAAGTGC
*
90541618 AAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT
90541642 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90541666 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90541690 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90541713 AAAAGAGGCT
1 AAAAG-GGCT
90541723 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
23 23 0.29
24 51 0.65
25 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:90541963 original size:31 final size:31
Alignment explanation
Indices: 90541928--90541991 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
90541918 CGTTTACAGT
90541928 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
90541959 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
90541990 AA
1 AA
90541992 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:90546392 original size:42 final size:42
Alignment explanation
Indices: 90546333--90546444 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
90546323 CCAAGGCTAT
*
90546333 GTGTAAGACCATATCTGGGATATGGCATC-ATTATAAGA-CTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATAAGATC-CC
* *
90546375 GTGTAAGACCATATCTGGGATATGCCATCGATATGAGATCCC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATAAGATCCC
* *
90546417 ATGTAAGACAATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
90546445 TGGTGTAGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 60 0.97
43 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATAAGATCCC
Found at i:90549432 original size:42 final size:42
Alignment explanation
Indices: 90549314--90549465 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 42
90549304 TACACCAATA
* *
90549314 CCATATCCCAAATATGGTCTTACATG-GGATCTCATATCGATGG
1 CCATATCCCAAATATGGTCTTACATGAAG-TCTCAAATCGAT-G
* * ** * * *
90549357 CAATAACCCAGCTATGGTCTTACACGAAATCTCACATCGATG
1 CCATATCCCAAATATGGTCTTACATGAAGTCTCAAATCGATG
* * *
90549399 CCATATCCCATATATAGTCTTATATGAAGTCTCATAAT-GATG
1 CCATATCCCAAATATGGTCTTACATGAAGTCTCA-AATCGATG
90549441 CCATATCCCAAATATGGTCTTACAT
1 CCATATCCCAAATATGGTCTTACAT
90549466 AGCCTCGGTA
Statistics
Matches: 87, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
42 53 0.61
43 34 0.39
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (42 bp):
CCATATCCCAAATATGGTCTTACATGAAGTCTCAAATCGATG
Found at i:90559321 original size:17 final size:17
Alignment explanation
Indices: 90559281--90559323 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
90559271 ATTATGATTT
90559281 AAATCAATA-ATCAACA
1 AAATCAATATATCAACA
* *
90559297 AAAACAATATATCAATA
1 AAATCAATATATCAACA
*
90559314 CAATCAATAT
1 AAATCAATAT
90559324 GTGATTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATCAATATATCAACA
Found at i:90559675 original size:47 final size:47
Alignment explanation
Indices: 90559606--90559702 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
90559596 ATGCAAGGAG
*
90559606 TGATCCTTATGCAATTTCTAATCTAAACGCAATTTTACATGAATGTA
1 TGATCCCTATGCAATTTCTAATCTAAACGCAATTTTACATGAATGTA
90559653 TGATCCCTATGCAATTTCTAATCTAAACGCAATTTTACATGAATGTA
1 TGATCCCTATGCAATTTCTAATCTAAACGCAATTTTACATGAATGTA
90559700 TGA
1 TGA
90559703 ATGAGGGCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (47 bp):
TGATCCCTATGCAATTTCTAATCTAAACGCAATTTTACATGAATGTA
Found at i:90562277 original size:3 final size:3
Alignment explanation
Indices: 90562269--90562308 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
90562259 AAAATGGTTC
* *
90562269 AAT AAT AAT AAT AAT AAC AAT AAT AAT ATT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
90562309 CAAGTAAATA
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:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:90564807 original size:40 final size:40
Alignment explanation
Indices: 90564757--90564962 Score: 141
Period size: 40 Copynumber: 5.1 Consensus size: 40
90564747 CGGAATTTAA
* * *
90564757 CCGGATATAGTGACTCGCTCGATTGTCTTCGGGACA-TAGC
1 CCGGATATAGTGACTCGCACAATTGCCTTCGGGA-ATTAGC
* *
90564797 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGC
1 CCGGATATAGTGACTCGCACAATTGCCTTCGGGAATTAGC
* * * * * *
90564837 CCGGATTTAATAACTCGCACGAA-TGCCTTTGGGACTTAAC
1 CCGGATATAGTGACTCGCAC-AATTGCCTTCGGGAATTAGC
* * * * * *
90564877 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT-GAC
1 CCGGATATAGTGACTCGCACAATTGCCTTCGGGAATTAG-C
* * * * *
90564917 CCGGATTTAGTCACTTAGCACAAAAT-CCTTCGGGACTTAGC
1 CCGGATATAGTGAC-TCGCAC-AATTGCCTTCGGGAATTAGC
90564958 CCGGA
1 CCGGA
90564963 CACCATTCGA
Statistics
Matches: 135, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.02
40 103 0.76
41 24 0.18
42 5 0.04
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAGTGACTCGCACAATTGCCTTCGGGAATTAGC
Found at i:90564881 original size:80 final size:80
Alignment explanation
Indices: 90564743--90564925 Score: 190
Period size: 80 Copynumber: 2.3 Consensus size: 80
90564733 GAATCACGTA
* * * * * * * * *
90564743 CCTTC-GGAATTTAACCGGATATAGTGACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGGAATTGACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACATAACCCGGTTATAG
* * *
90564807 TGATTCGCACAATTG
66 TAACTCGCACAAATG
* * * *
90564822 CCTTCGGGAATT-AGCCCGGATTTAATAACTCGCACGAATGCCTTTGGGACTTAACCCGGTTTTG
1 CCTTCGGGAATTGA-CCCGGATTTAATAACTCGCACGAATGCCTTCGGGACATAACCCGGTTATA
90564886 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
*
90564902 CCTTCGGGAGTTGACCCGGATTTA
1 CCTTCGGGAATTGACCCGGATTTA
90564926 GTCACTTAGC
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
79 6 0.07
80 78 0.92
81 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (80 bp):
CCTTCGGGAATTGACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACATAACCCGGTTATAG
TAACTCGCACAAATG
Found at i:90564961 original size:41 final size:40
Alignment explanation
Indices: 90564783--90564962 Score: 177
Period size: 40 Copynumber: 4.5 Consensus size: 40
90564773 GCTCGATTGT
* * * *
90564783 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
* * *
90564823 CTTCGGGAATTAGCCCGGATTTAATAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
90564863 CTTTGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
90564903 CTTCGGGAGTT-GACCCGGATTTAGTCACTTAGCACAAAAT-C
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCAC-AAATGC
90564944 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
90564963 CACCATTCGA
Statistics
Matches: 113, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
40 84 0.74
41 24 0.21
42 5 0.04
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:90567431 original size:143 final size:143
Alignment explanation
Indices: 90567215--90567678 Score: 592
Period size: 143 Copynumber: 3.3 Consensus size: 143
90567205 AATTGGTAAT
* * * * * * * *
90567215 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-C--GACTTGTAGCTTTAATCTGTT
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAATTTGTAGCTTTAATATGTT
* * * * *
90567277 CCTCTGTAACTTCAGGGAAATAAGATTCGCTGTCTTTAGTCTGCTCTGTTGCAACTTCAGGGAGA
66 CCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGA
90567342 TAAGGCTGGTGGC
131 TAAGGCTGGTGGC
* * * * *
90567355 TTAAATCTACTCCACTGCAACTTCATGAAGATAAGATTCGCCATAATTTGTAGCTTCAATTTGTT
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAATTTGTAGCTTTAATATGTT
** * * *
90567420 CCACTGCAACTTCAAAGAGATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCAGAGAGA
66 CCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGA
* *
90567485 TGATGCTGGTGGC
131 TAAGGCTGGTGGC
** * *
90567498 TTCAATCTGCTCCGTTGCAACTTCAAGAAGATAAGATCCGCCATAATTTGTAGCTTTAATATATT
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAATTTGTAGCTTTAATATGTT
* * * *
90567563 CCACTGCAACGTCAGGGAAGTAAGATTCGTTGTCTTCAGTTTGCTCCGCTGCAACTTCAGGGAGA
66 CCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGA
90567628 TAAGGCTGGTGGC
131 TAAGGCTGGTGGC
* *
90567641 TTCAATCTGCTCCACTGCAACTTCAGGAAGATGAGATT
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATT
90567679 TATGGATTCA
Statistics
Matches: 273, Mismatches: 48, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
140 33 0.12
141 1 0.00
143 239 0.88
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (143 bp):
TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGCCATAATTTGTAGCTTTAATATGTT
CCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGA
TAAGGCTGGTGGC
Found at i:90567477 original size:45 final size:46
Alignment explanation
Indices: 90567407--90567534 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 46
90567397 ATAATTTGTA
* * * * *
90567407 GCTTCAATTTGTTCCACTGCAACTTCAAAGAGATAAGATTC-GCTG
1 GCTTCAATCTGCTCCGCTACAACTTCAAAGAGATAAGATGCTGCTG
* * * *
90567452 TCTTCAGTCTGCTCCGCTACAACTTCAGAGAGAT--GATGCTGGTG
1 GCTTCAATCTGCTCCGCTACAACTTCAAAGAGATAAGATGCTGCTG
* *
90567496 GCTTCAATCTGCTCCGTTGCAACTTC-AAGAAGATAAGAT
1 GCTTCAATCTGCTCCGCTACAACTTCAAAG-AGATAAGAT
90567535 CCGCCATAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
43 6 0.09
44 29 0.45
45 27 0.42
46 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (46 bp):
GCTTCAATCTGCTCCGCTACAACTTCAAAGAGATAAGATGCTGCTG
Found at i:90568169 original size:46 final size:46
Alignment explanation
Indices: 90568036--90568175 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 46
90568026 GTTTCTTCCG
* *
90568036 TCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCATCTTCAA
1 TCCATCCCACTGTAACTCAAGGGTATAGGATTTGTATCTTCTTCAA
* *
90568082 TCCATCCCACTGTAACTCAGGGGTATAAGATTTGTATCTTCTTCAA
1 TCCATCCCACTGTAACTCAAGGGTATAGGATTTGTATCTTCTTCAA
* **
90568128 TCCATCCCACTGTAGCTCAAGGGTATAGGATTTGTGGCTTCTTCAA
1 TCCATCCCACTGTAACTCAAGGGTATAGGATTTGTATCTTCTTCAA
90568174 TC
1 TC
90568176 AATTGATCTG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (46 bp):
TCCATCCCACTGTAACTCAAGGGTATAGGATTTGTATCTTCTTCAA
Found at i:90568644 original size:53 final size:53
Alignment explanation
Indices: 90568559--90568662 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
90568549 GGGAGCATAG
*
90568559 CTCGAAATGAATAAATTAATCAAAGATGGCAAATGCAATAAAAAGGAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAAAAGGAAATTAA
* * *
90568612 CTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAAAAGGAAATT
90568663 GATTGGGAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAAAAGGAAATTAA
Found at i:90572857 original size:35 final size:35
Alignment explanation
Indices: 90572811--90572880 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
90572801 CGTCAGATCC
90572811 GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
1 GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
90572846 GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
1 GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
90572881 AAAAAAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (35 bp):
GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
Found at i:90573624 original size:23 final size:22
Alignment explanation
Indices: 90573594--90573649 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
90573584 CAAATCATCA
90573594 AACTTTTTTTATTTTTTATTTTT
1 AACTTTTTTTATTTTTT-TTTTT
*
90573617 AACTTTTTTCTCTTTTTTTTTTT
1 AACTTTTTT-TATTTTTTTTTTT
**
90573640 TTCTTTTTTT
1 AACTTTTTTT
90573650 CGAATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 21 0.72
24 7 0.24
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (22 bp):
AACTTTTTTTATTTTTTTTTTT
Found at i:90573637 original size:14 final size:14
Alignment explanation
Indices: 90573620--90573649 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90573610 TATTTTTAAC
90573620 TTTTTTCTCTTTTT
1 TTTTTTCTCTTTTT
*
90573634 TTTTTTTTCTTTTT
1 TTTTTTCTCTTTTT
90573648 TT
1 TT
90573650 CGAATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTCTCTTTTT
Found at i:90573691 original size:20 final size:20
Alignment explanation
Indices: 90573668--90573704 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
90573658 TTCTTCTTCT
90573668 TTTTTTTGT-TTTTTTTTGC
1 TTTTTTTGTCTTTTTTTTGC
90573687 TTTTTTTGTCTTTTTTTT
1 TTTTTTTGTCTTTTTTTT
90573705 TTGTGGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.86
Consensus pattern (20 bp):
TTTTTTTGTCTTTTTTTTGC
Found at i:90580946 original size:35 final size:35
Alignment explanation
Indices: 90580900--90580969 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
90580890 CGTCAGATCC
90580900 GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
1 GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
90580935 GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
1 GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
90580970 AAAAAAACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (35 bp):
GCGTCGTGCCCACGACTCCAGCCGCGACAGAATAA
Found at i:90583888 original size:2 final size:2
Alignment explanation
Indices: 90583881--90583915 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
90583871 TTCTCATCTC
90583881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90583916 CACACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90586167 original size:2 final size:2
Alignment explanation
Indices: 90586160--90586184 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90586150 TTCTCATCTC
90586160 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
90586185 CACACACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90596247 original size:26 final size:26
Alignment explanation
Indices: 90596216--90596265 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
90596206 GCATGTTAAG
*
90596216 GAATGAACTGTAGCAGCAGTTAAGCA
1 GAATGAACTATAGCAGCAGTTAAGCA
*
90596242 GAATGAACTATTGCAGCAGTTAAG
1 GAATGAACTATAGCAGCAGTTAAG
90596266 TTGGTTCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (26 bp):
GAATGAACTATAGCAGCAGTTAAGCA
Found at i:90599136 original size:27 final size:27
Alignment explanation
Indices: 90599106--90599203 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
90599096 TCCTGTTCAC
*
90599106 GAGGCAATCCGTCAGTCCTCTGTTTGT
1 GAGGCAATCCGTCAGTCCTCTGTTCGT
* * *
90599133 GAGGCAATCTGCCAGTCAC-CTATTCGT
1 GAGGCAATCCGTCAGTC-CTCTGTTCGT
*
90599160 GAGGCAA-CC-TACCAGTCCTCTGTTCGC
1 GAGGCAATCCGT--CAGTCCTCTGTTCGT
* * *
90599187 GAGACAGTCCGCCAGTC
1 GAGGCAATCCGTCAGTC
90599204 ACTTGTTTGC
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
26 2 0.04
27 49 0.91
28 3 0.06
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.24
Consensus pattern (27 bp):
GAGGCAATCCGTCAGTCCTCTGTTCGT
Found at i:90599210 original size:27 final size:27
Alignment explanation
Indices: 90599171--90599250 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
90599161 AGGCAACCTA
90599171 CCAGTC-CTCTGTTCGCGAGACAGTCCG
1 CCAGTCACT-TGTTCGCGAGACAGTCCG
* *
90599198 CCAGTCACTTGTTTGCGAGCCAGTCCG
1 CCAGTCACTTGTTCGCGAGACAGTCCG
* * *
90599225 CCAATCACTTGTTCGCTAGATAGTCC
1 CCAGTCACTTGTTCGCGAGACAGTCC
90599251 ACCAACCGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.17, C:0.34, G:0.23, T:0.26
Consensus pattern (27 bp):
CCAGTCACTTGTTCGCGAGACAGTCCG
Found at i:90607936 original size:8 final size:8
Alignment explanation
Indices: 90607923--90607947 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
90607913 AGGGTTCTTT
90607923 GTTTTCGG
1 GTTTTCGG
90607931 GTTTTCGG
1 GTTTTCGG
90607939 GTTTTCGG
1 GTTTTCGG
90607947 G
1 G
90607948 ATTTAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.40, T:0.48
Consensus pattern (8 bp):
GTTTTCGG
Found at i:90619063 original size:27 final size:26
Alignment explanation
Indices: 90619016--90619066 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
90619006 AAGTTTATTT
90619016 AAAATAAAAACATTAAAATTAAATTA
1 AAAATAAAAACATTAAAATTAAATTA
*
90619042 AAAATAGAAAA-ATATAATATTAAAT
1 AAAATA-AAAACAT-TAAAATTAAAT
90619067 ATTTAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (26 bp):
AAAATAAAAACATTAAAATTAAATTA
Found at i:90621179 original size:20 final size:20
Alignment explanation
Indices: 90621143--90621182 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
90621133 TTGTAAGGGA
*
90621143 TTGCACTTCAGTTCCTCTGT
1 TTGCACTTCAGTGCCTCTGT
90621163 TTGCACTTC-GATGCCTCTGT
1 TTGCACTTCAG-TGCCTCTGT
90621183 ATTTGCACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.10, C:0.30, G:0.17, T:0.42
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTGT
Found at i:90633355 original size:40 final size:40
Alignment explanation
Indices: 90633228--90633357 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
90633218 ATGCTGGAAA
* *
90633228 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * **
90633268 CTACATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
90633308 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
90633348 TTATATCCGG
1 TTATATCCGG
90633358 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 4 0.05
40 70 0.95
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:90636314 original size:87 final size:86
Alignment explanation
Indices: 90636190--90636349 Score: 243
Period size: 87 Copynumber: 1.8 Consensus size: 86
90636180 TGCATGAAGA
90636190 TGAGTTTTTACTTCTAATGAATTCATAGCCCAAATTTTGGGTAGTCCTATTGA-AACAGACTTGA
1 TGAGTTTTTACTTCTAATGAATTCATAGCCCAAATTTTGGGTAGTCCTATT-ACAACAGACTTGA
90636254 TGAATTCACCAACTTGAGAGGT
65 TGAATTCACCAACTTGAGAGGT
* * * *
90636276 TGAGTTTATTAC-TCTTAATGAGTTCATATCCCACATTTTGGGTAGTCCTATTACGACAGACTTG
1 TGAGTTT-TTACTTC-TAATGAATTCATAGCCCAAATTTTGGGTAGTCCTATTACAACAGACTTG
90636340 ATGAATTCAC
64 ATGAATTCAC
90636350 TGAACTTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
86 10 0.15
87 57 0.85
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (86 bp):
TGAGTTTTTACTTCTAATGAATTCATAGCCCAAATTTTGGGTAGTCCTATTACAACAGACTTGAT
GAATTCACCAACTTGAGAGGT
Found at i:90638008 original size:44 final size:47
Alignment explanation
Indices: 90637900--90638123 Score: 212
Period size: 49 Copynumber: 4.7 Consensus size: 47
90637890 TATTATGAGC
* * * *
90637900 CAGTGTGAGACCATGTCTGGGACATGGCATCGGCATTAAGACAAG-AG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC--TACGAGATGTAGT
* *
90637947 CTAGTGTAA-AACATGTCTGGGACAT-GCATCAGCTACGAGATGT-GT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTAGT
* * *
90637992 CAGTGTAAGA-CATGTCTGGGACATGACATCGGC-ACGAATATGTGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACG-AGATGT-AG-T
*
90638040 CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCT-CGATGATGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGA-GATG-TAGT
90638090 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
90638124 ATTCTACCCC
Statistics
Matches: 147, Mismatches: 15, Indels: 29
0.77 0.08 0.15
Matches are distributed among these distances:
44 31 0.21
45 13 0.09
46 7 0.05
47 17 0.12
48 8 0.05
49 40 0.27
50 22 0.15
51 8 0.05
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTAGT
Found at i:90645809 original size:45 final size:45
Alignment explanation
Indices: 90645741--90645832 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
90645731 GCCGTGGTAT
90645741 TCGTGGGCGTGGCAGACCCCTTAGGGGGCTCAAGTTGAGTCTTTC
1 TCGTGGGCGTGGCAGACCCCTTAGGGGGCTCAAGTTGAGTCTTTC
*
90645786 TCGTGGGCGTGGCAGACCGCTTAGGGGGCTCAAGTTGAGTCTTTC
1 TCGTGGGCGTGGCAGACCCCTTAGGGGGCTCAAGTTGAGTCTTTC
90645831 TC
1 TC
90645833 TCTAGGCAGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.13, C:0.24, G:0.36, T:0.27
Consensus pattern (45 bp):
TCGTGGGCGTGGCAGACCCCTTAGGGGGCTCAAGTTGAGTCTTTC
Found at i:90653928 original size:25 final size:25
Alignment explanation
Indices: 90653890--90653956 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
90653880 TCCTGTACAT
*
90653890 GTATGCTCAT-ACGAGCTATGAATT-G
1 GTATGCTC-TCACGAGCTAAG-ATTCG
90653915 GTATGCTCTCACGAGCTAAGATTCG
1 GTATGCTCTCACGAGCTAAGATTCG
*
90653940 GTAAGCTCTCACGAGCT
1 GTATGCTCTCACGAGCT
90653957 GCAATCGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 4 0.11
25 34 0.89
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.28
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTAAGATTCG
Found at i:90658068 original size:46 final size:46
Alignment explanation
Indices: 90658015--90658190 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
90658005 TATTTGGGCA
** **
90658015 TCCGAGCTTATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
* * * *
90658061 TCCGAGCTCGTTGAGTTGAGTCCAAGTTC-GTGA--GTTG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA-T--G
* *
90658106 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
* * *
90658154 CCCGAGCTTGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
90658191 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
Found at i:90658170 original size:93 final size:93
Alignment explanation
Indices: 90658011--90658183 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
90658001 AGGATATTTG
* * * *
90658011 GGCATCCGAGCTTATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
90658076 TTGAGTCCAAGTTCGTGAGTTGTAACTA
66 TTGAGTCCAAGTTCGTGAGTTGTAACTA
* *
90658104 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
90658169 TTGAGTCCAAGTTCG
66 TTGAGTCCAAGTTCG
90658184 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCAAGTTCGTGAGTTGTAACTA
Found at i:90663465 original size:28 final size:28
Alignment explanation
Indices: 90663425--90663490 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
90663415 AGCTGCGAGA
*
90663425 TGAATTGTGAAATGACACCATGAAGTGG
1 TGAATTGTGAAATGACACCACGAAGTGG
* **
90663453 TGAACTGTGAAATGACACTGCGAAGTGG
1 TGAATTGTGAAATGACACCACGAAGTGG
90663481 TGAATTGTGA
1 TGAATTGTGA
90663491 GATGTCTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (28 bp):
TGAATTGTGAAATGACACCACGAAGTGG
Found at i:90663924 original size:14 final size:14
Alignment explanation
Indices: 90663905--90663932 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90663895 AGAAAGAAAG
90663905 AATTTGTCTTGCTT
1 AATTTGTCTTGCTT
90663919 AATTTGTCTTGCTT
1 AATTTGTCTTGCTT
90663933 CTTCATTGTT
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:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
AATTTGTCTTGCTT
Found at i:90667111 original size:24 final size:24
Alignment explanation
Indices: 90667084--90667146 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
90667074 CTTATTATGT
90667084 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
90667108 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
90667132 TCGCACACATAGTGC
1 TCGCACACATAGTGC
90667147 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:90673346 original size:40 final size:40
Alignment explanation
Indices: 90673293--90673419 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
90673283 GCTGGAAATT
* * *
90673293 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTA
* * *
90673333 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACTA
* * *
90673373 GATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATTA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACTA
90673413 TATCCGG
1 TATCCGG
90673420 TTATATTCCG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.05
40 67 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTA
Found at i:90678166 original size:24 final size:24
Alignment explanation
Indices: 90678139--90678201 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
90678129 CTTATTATGT
90678139 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
90678163 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
90678187 TCGCACACATAGTGC
1 TCGCACACATAGTGC
90678202 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:90684910 original size:39 final size:38
Alignment explanation
Indices: 90684846--90684985 Score: 124
Period size: 39 Copynumber: 3.6 Consensus size: 38
90684836 AATTGAATGA
*
90684846 TATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 TATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAAATT
* * ****
90684884 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 TATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAAATT
* * *
90684923 AATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGAGTATT
1 TATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GA-AATT
90684961 CTATCCGGGCTAAGACCCGAAGGCA
1 -TATCCGGGCTAAGACCCGAAGGCA
90684986 TTGTGCACGT
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
36 1 0.01
37 2 0.03
38 16 0.20
39 61 0.76
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (38 bp):
TATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAAATT
Done.