Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 29 of 284
Found at i:10095697 original size:35 final size:35
Alignment explanation
Indices: 10095651--10095723 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
10095641 CCATGGTTTG
10095651 ATGCCTCATAGCATGCTACAAACTCTACTACCATA
1 ATGCCTCATAGCATGCTACAAACTCTACTACCATA
*
10095686 ATGCCTCATAGCATGCTACAAACTCTACTGCCATA
1 ATGCCTCATAGCATGCTACAAACTCTACTACCATA
10095721 ATG
1 ATG
10095724 GAAGAAGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (35 bp):
ATGCCTCATAGCATGCTACAAACTCTACTACCATA
Found at i:10102323 original size:68 final size:67
Alignment explanation
Indices: 10102251--10102402 Score: 166
Period size: 67 Copynumber: 2.3 Consensus size: 67
10102241 CATCATGTGT
* * * * *
10102251 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
10102314 TGTAG
63 TGTAG
* * * *
10102319 ACAAGATAGCTACGAG-ATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACTATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATG
10102383 TAG
65 TAG
10102386 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
10102403 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
64 23 0.33
65 3 0.04
66 3 0.04
67 26 0.37
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGT
AG
Found at i:10105917 original size:17 final size:17
Alignment explanation
Indices: 10105895--10105937 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
10105885 ATTTCATTTA
**
10105895 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
10105912 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
10105929 AAAT-TCAAT
1 AAATGTCAAT
10105938 GCAAACATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:10107236 original size:50 final size:51
Alignment explanation
Indices: 10107171--10107301 Score: 173
Period size: 50 Copynumber: 2.6 Consensus size: 51
10107161 CGGATACCCG
* *
10107171 GTGGCCTGCAGATAGTACCACCCTTGTAGTCAAAGCTA-C-TTCTTCACAAA
1 GTGGCCTTCACATAGTACCA-CCTTGTAGTCAAAGCTATCTTTCTTCACAAA
*
10107221 GTGGCCTTCACATAGTACCA-CTTGT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACCTTGTAG-TCAAAGCTATCTTTCTTCACAAA
10107271 GTGGCCTTCACATAGTACCACACTTG-AGTCA
1 GTGGCCTTCACATAGTACCAC-CTTGTAGTCA
10107302 CTAGTGACAT
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
47 1 0.01
48 13 0.18
49 1 0.01
50 49 0.69
51 2 0.03
52 5 0.07
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACCTTGTAGTCAAAGCTATCTTTCTTCACAAA
Found at i:10110875 original size:47 final size:47
Alignment explanation
Indices: 10110821--10110951 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
10110811 CACAACTAAT
* *
10110821 AAGTACCTATACCATGGCCCGTAACCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG
* * * *
10110868 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCT
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG
* * *
10110915 AAATACCTATATCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
10110952 TTATTCACAC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG
Found at i:10119002 original size:25 final size:24
Alignment explanation
Indices: 10118960--10119007 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10118950 GCTTTATCAT
*
10118960 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCATAGCC-CTTTTA
10118985 ATAACTGG-GGCATAAGCCCTTTT
1 ATAACTGGAGGCAT-AGCCCTTTT
10119008 TCGGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGAGGCATAGCCCTTTTA
Found at i:10139191 original size:40 final size:40
Alignment explanation
Indices: 10139132--10139213 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
10139122 AATAGATGCA
*
10139132 AAACTTGAATTCTATAAGTTAAAGGTGTCTAATTGTTATG
1 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
10139172 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
1 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
10139212 AA
1 AA
10139214 GTTTTAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (40 bp):
AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
Found at i:10139415 original size:21 final size:21
Alignment explanation
Indices: 10139390--10139429 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10139380 CCCCCATAGT
10139390 AGAAAATTTCAAGGGAAGAGC
1 AGAAAATTTCAAGGGAAGAGC
10139411 AGAAAATTTCAAGGGAAGA
1 AGAAAATTTCAAGGGAAGA
10139430 CATAGTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAAAATTTCAAGGGAAGAGC
Found at i:10139700 original size:21 final size:22
Alignment explanation
Indices: 10139674--10139714 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10139664 CTCTTAACAC
*
10139674 AGGGGT-ACACGCCCTTGTGGA
1 AGGGGTAACACGCCCGTGTGGA
10139695 AGGGGTAACACGCCCGTGTG
1 AGGGGTAACACGCCCGTGTG
10139715 ACATTTCAAC
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:0.24, G:0.39, T:0.17
Consensus pattern (22 bp):
AGGGGTAACACGCCCGTGTGGA
Found at i:10154449 original size:12 final size:12
Alignment explanation
Indices: 10154434--10154458 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10154424 AATATTAAAT
10154434 ATAATAAAATAA
1 ATAATAAAATAA
10154446 ATAATAAAATAA
1 ATAATAAAATAA
10154458 A
1 A
10154459 AAGTACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAAAATAA
Found at i:10155791 original size:39 final size:39
Alignment explanation
Indices: 10155737--10155816 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
10155727 TAGCCACATG
10155737 TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
1 TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
10155776 TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
1 TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
10155815 TT
1 TT
10155817 GCGTGTTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.15, C:0.17, G:0.05, T:0.62
Consensus pattern (39 bp):
TTACACTGTTTATTTTTACTATTCTTCCTATTGTTTCTT
Found at i:10157446 original size:40 final size:40
Alignment explanation
Indices: 10157355--10157524 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
10157345 TCCTCGTTCA
* * * * *
10157355 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10157394 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10157434 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
10157474 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10157514 AAGGCCTTCGG
1 AATGCCTTCGG
10157525 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10165423 original size:79 final size:78
Alignment explanation
Indices: 10165234--10165490 Score: 248
Period size: 79 Copynumber: 3.3 Consensus size: 78
10165224 AAATCACGTA
* * * ** * * * *
10165234 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
*
10165298 TAACTCACACAATG
65 TAACTCGCACAATG
* ** *
10165312 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATTT-AGTACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAA
10165377 TAACTCGCACGAATG
65 TAACTCGCAC-AATG
* * * * *
10165392 CCTTCGGGACTTAACCCGGATTTAGTTCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATATAT
1 CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAA
* * *
10165456 TCACTTAGCACAAAG
65 TAAC-TCGCACAATG
*
10165471 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
10165491 CAGCATTCAA
Statistics
Matches: 147, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
78 15 0.10
79 100 0.68
80 32 0.22
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAAT
AACTCGCACAATG
Found at i:10165444 original size:39 final size:40
Alignment explanation
Indices: 10165269--10165490 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
10165259 TCCTCGTTCA
* * * * *
10165269 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10165308 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10165348 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10165388 AATGCCTTCGGGACTTAACCCGGATTTAGT-TCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
10165427 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
10165467 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10165491 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 3 0.02
39 63 0.40
40 85 0.53
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10165450 original size:119 final size:119
Alignment explanation
Indices: 10165269--10165490 Score: 263
Period size: 119 Copynumber: 1.9 Consensus size: 119
10165259 TCCTCGTTCA
* * * *
10165269 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
10165334 TA-ACAAC-TCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TATAC-ACTTAGCAC-AAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
10165388 AATGCCTTCGGGACTTAACCCGGATTTAGT-TCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
10165451 TATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 TATATACACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
10165491 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
118 9 0.10
119 71 0.83
120 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TATACACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10178071 original size:32 final size:33
Alignment explanation
Indices: 10178026--10178094 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 33
10178016 ACAGTACTGC
* * *
10178026 TACTGTATAAGGGCTTGGCCCAGATTGTACGGA
1 TACTGAATAAGGGCATGGCCCAGACTGTACGGA
** *
10178059 TACTGAAT-AGGGCATGGCTTAGACTGTACTGA
1 TACTGAATAAGGGCATGGCCCAGACTGTACGGA
10178091 TACT
1 TACT
10178095 CTATTGTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (33 bp):
TACTGAATAAGGGCATGGCCCAGACTGTACGGA
Found at i:10188357 original size:47 final size:47
Alignment explanation
Indices: 10188304--10188471 Score: 273
Period size: 47 Copynumber: 3.6 Consensus size: 47
10188294 TATTTGAATA
* *
10188304 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
10188351 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
10188398 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
10188445 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
10188472 TCCCGAAGGG
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:10193945 original size:58 final size:57
Alignment explanation
Indices: 10193825--10193960 Score: 168
Period size: 58 Copynumber: 2.4 Consensus size: 57
10193815 TACATATATG
* *
10193825 CATATGGCCCACTT-GGCCCAATCTCATATATATGGCCCATCGGGCCCAATTCACATT
1 CATATGGCCCA-TTAGGCCCAATCTCATATATATGGCCCATCAGGCCCAAATCACATT
* *
10193882 CATATGGCCCATTAGGCCCAAT-TCATAATCATATGGCCCATTAGGCCCAAATCACCTT
1 CATATGGCCCATTAGGCCCAATCTCAT-AT-ATATGGCCCATCAGGCCCAAATCACATT
* **
10193940 TATATGGCCTGTTAGGCCCAA
1 CATATGGCCCATTAGGCCCAA
10193961 ATCACCTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 6 0.09
57 21 0.30
58 42 0.61
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (57 bp):
CATATGGCCCATTAGGCCCAATCTCATATATATGGCCCATCAGGCCCAAATCACATT
Found at i:10193968 original size:29 final size:29
Alignment explanation
Indices: 10193825--10193965 Score: 144
Period size: 29 Copynumber: 4.9 Consensus size: 29
10193815 TACATATATG
*
10193825 CATATGGCCCACTT-GGCCC-AATCTCATAT
1 CATATGGCCCA-TTAGGCCCAAATCACAT-T
** *
10193854 -ATATGGCCCATCGGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* * *
10193882 CATATGGCCCATTAGGCCCAATTCATAAT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
10193911 CATATGGCCCATTAGGCCCAAATCACCTT
1 CATATGGCCCATTAGGCCCAAATCACATT
* **
10193940 TATATGGCCTGTTAGGCCCAAATCAC
1 CATATGGCCCATTAGGCCCAAATCAC
10193966 CTTATATTCA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 16 0.17
29 78 0.82
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:10196077 original size:39 final size:40
Alignment explanation
Indices: 10195963--10196186 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
10195953 GCTACTCGTT
* *
10195963 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
10196003 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
10196043 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
10196082 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
10196121 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
10196162 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10196187 CATCATTCGA
Statistics
Matches: 165, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 76 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:10196170 original size:118 final size:120
Alignment explanation
Indices: 10195965--10196186 Score: 292
Period size: 118 Copynumber: 1.9 Consensus size: 120
10195955 TACTCGTTCA
*
10195965 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
10196030 TTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
66 ATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* **
10196084 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
10196146 ATATGGTCACTTAGCA-CAAAGCCTTTGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCCCGGA
10196187 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 58 0.65
119 27 0.30
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:10202312 original size:28 final size:27
Alignment explanation
Indices: 10202249--10202400 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
10202239 ATATTAAGTC
* *
10202249 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
10202276 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
10202304 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
10202331 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
10202359 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
10202386 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10202401 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:10202333 original size:55 final size:55
Alignment explanation
Indices: 10202249--10202425 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
10202239 ATATTAAGTC
* * *
10202249 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
10202304 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
10202359 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
10202415 CGCACACTTAG
1 CGCACACTTAG
10202426 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:10204930 original size:39 final size:39
Alignment explanation
Indices: 10204876--10204954 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
10204866 CCAAGTGTTG
10204876 GAACGGATCAACGATAATGTCTACAAAATAAATTTACCT
1 GAACGGATCAACGATAATGTCTACAAAATAAATTTACCT
10204915 GAACGGATCAACGATAATGTCTACAAAATAAATTTACCT
1 GAACGGATCAACGATAATGTCTACAAAATAAATTTACCT
10204954 G
1 G
10204955 GTGAGTATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (39 bp):
GAACGGATCAACGATAATGTCTACAAAATAAATTTACCT
Found at i:10205508 original size:27 final size:26
Alignment explanation
Indices: 10205463--10205516 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
10205453 TTAATATATG
* * *
10205463 TTTAATGTGTTTAGCTTAGGACATAAT
1 TTTAATGTGTCTAACTTAGAACA-AAT
*
10205490 TTTAATGTGTCTAATTTAGAACAAAT
1 TTTAATGTGTCTAACTTAGAACAAAT
10205516 T
1 T
10205517 AATTAGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (26 bp):
TTTAATGTGTCTAACTTAGAACAAAT
Found at i:10211991 original size:75 final size:76
Alignment explanation
Indices: 10211901--10212049 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 76
10211891 TATGGAAATT
10211901 TATATTCTTTTGGAAAGAATATAATT-CATTTTTCTAACTTTCCATTT-CTCTTCTCTATTAATA
1 TATATTCTTTTGGAAAGAATATAATTCCATTTTTCTAACTTTCCATTTGC-CTTCTCTATTAATA
*
10211964 AGGGAATAATCC
65 AGGAAATAATCC
* * *
10211976 TATATTCTTTTGGAAAGAATATAATTCCTTTTTTCTAATTTTCCATTTGCCTTCTTTATTAATAA
1 TATATTCTTTTGGAAAGAATATAATTCCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAA
10212041 GGAAATAAT
66 GGAAATAAT
10212050 ATTGGTTTTC
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
75 26 0.38
76 41 0.60
77 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (76 bp):
TATATTCTTTTGGAAAGAATATAATTCCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAA
GGAAATAATCC
Found at i:10219298 original size:46 final size:46
Alignment explanation
Indices: 10219231--10219322 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
10219221 ATGTACAAAC
*
10219231 ATACAAGGGGCGATTAGTCGCTAAAGGTTTTCGTTAAATTCATGGT
1 ATACAAGGGGCGATTAGTCGCTAAAGGTTTTCGTCAAATTCATGGT
10219277 ATACAAGGGGCGATTAGTCGCTAAAGGTTTTCGTCAAATTCATGGT
1 ATACAAGGGGCGATTAGTCGCTAAAGGTTTTCGTCAAATTCATGGT
10219323 GTTGACTATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (46 bp):
ATACAAGGGGCGATTAGTCGCTAAAGGTTTTCGTCAAATTCATGGT
Found at i:10220869 original size:39 final size:39
Alignment explanation
Indices: 10220814--10220892 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
10220804 TATTTTATAA
10220814 TAATGTCCTGACAATAATATGATTATTCTTAAAAGATCC
1 TAATGTCCTGACAATAATATGATTATTCTTAAAAGATCC
*
10220853 TAATGTCCTGAGAATAATATGATTATTCTTAAAAGATCC
1 TAATGTCCTGACAATAATATGATTATTCTTAAAAGATCC
10220892 T
1 T
10220893 TAGTCAAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (39 bp):
TAATGTCCTGACAATAATATGATTATTCTTAAAAGATCC
Found at i:10224158 original size:41 final size:41
Alignment explanation
Indices: 10224101--10224180 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
10224091 GGAGAAATCA
* *
10224101 AACACTGTTAGACATGGTTTGATCAATGATGAGTCATGTTG
1 AACACTGTTAGACATGGTTCGATCAATGATAAGTCATGTTG
**
10224142 AACACTGTTAGACATGGTTCGATCCTTGATAAGTCATGT
1 AACACTGTTAGACATGGTTCGATCAATGATAAGTCATGT
10224181 CGATCTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (41 bp):
AACACTGTTAGACATGGTTCGATCAATGATAAGTCATGTTG
Found at i:10228464 original size:20 final size:20
Alignment explanation
Indices: 10228439--10228483 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10228429 AGGGGCTAAA
* *
10228439 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
10228459 ATGAAAAATTATAAAATTTT
1 ATGAAAAATTATAAAATTTG
10228479 ATGAA
1 ATGAA
10228484 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:10232724 original size:20 final size:19
Alignment explanation
Indices: 10232688--10232738 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
10232678 AAGTGCGATT
*
10232688 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
10232707 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
10232727 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
10232739 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:10236400 original size:127 final size:126
Alignment explanation
Indices: 10236263--10236565 Score: 358
Period size: 127 Copynumber: 2.4 Consensus size: 126
10236253 AGTCCAACGA
* * * *
10236263 AAAACCAAAACCCAGCACGGTAGAGCAGGATTCCTCGAATTTCCAAACCTTGAACATTGCCTTGC
1 AAAATCAAAACCCAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGC
*
10236328 TTTAGAATTTATAAAACAC-GAGTGAAATACT-AAAGGAATATTCAATTATTTGAAACAAACCG
66 TTTAGAATTTAGAAAACACGGA-TGAAAT-CTCAAAGGAATATTCAATTATTTG-AACAAACCG
* * * * * * *
10236390 AAAATCAAAACCAAGCAAGATAGGGCACGAATCCCCAAATTTCCAAACATTGAACATTGCCTTGT
1 AAAATCAAAACCCAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGC
** * ** ** *
10236455 TTTAGAATTTAGAAAGTACGGATGAAATTTCAAAGGAATATTTGATTATTTGGTCAAACGG
66 TTTAGAATTTAGAAAACACGGATGAAATCTCAAAGGAATATTCAATTATTTGAACAAACCG
* * *
10236516 AAAATCGAAACCCAACACGGTAGGGCACGATTCCTCGAGTTTCCAAACAT
1 AAAATCAAAACCCAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACAT
10236566 CAATTATTAC
Statistics
Matches: 145, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
126 48 0.33
127 95 0.66
128 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (126 bp):
AAAATCAAAACCCAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGC
TTTAGAATTTAGAAAACACGGATGAAATCTCAAAGGAATATTCAATTATTTGAACAAACCG
Found at i:10238761 original size:21 final size:21
Alignment explanation
Indices: 10238720--10238761 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10238710 CGTGGAGCTT
* *
10238720 GTACGGGGGCTGTGCGCTGGC
1 GTACGGAGGCTGGGCGCTGGC
10238741 GTACGGAGGCGTGGGCG-TGGC
1 GTACGGAGGC-TGGGCGCTGGC
10238762 TGTGGTGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.07, C:0.21, G:0.55, T:0.17
Consensus pattern (21 bp):
GTACGGAGGCTGGGCGCTGGC
Found at i:10239325 original size:44 final size:43
Alignment explanation
Indices: 10239266--10239505 Score: 157
Period size: 45 Copynumber: 5.4 Consensus size: 43
10239256 CTACCCTACC
* * *
10239266 GCAACTTCAGAGAGATAAGGATTGTGGCTTTGATCTACTCCACT
1 GCAACTTCAGGGAGATAA-GATTGTGGCTTTCATCTGCTCCACT
* **
10239310 GCAACTTCAGGGAGATAAGATCTACTAAC-TTCAGTCTGCTCCACT
1 GCAACTTCAGGGAGATAAGAT-T-GTGGCTTTCA-TCTGCTCCACT
* * * * *
10239355 GAAACTTCAGGGAGATGAGACCTG-GGTAATTTTATCCTGC-CCTACT
1 GCAACTTCAGGGAGATAAGA-TTGTGG--CTTTCAT-CTGCTCC-ACT
* * *
10239401 GCAACTTCAGAGAGATAAGGATTGTGGC-TTCGATCTGCTCTAAT
1 GCAACTTCAGGGAGATAA-GATTGTGGCTTTC-ATCTGCTCCACT
* ** *
10239445 GCAACTTCAGGGAGACAAGATCTGCTATC-TTCAGTCTACTCCACT
1 GCAACTTCAGGGAGATAAGAT-TG-TGGCTTTCA-TCTGCTCCACT
10239490 GCAACTTCAGGGAGAT
1 GCAACTTCAGGGAGAT
10239506 GAGACTTCTA
Statistics
Matches: 150, Mismatches: 30, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
43 6 0.04
44 48 0.32
45 65 0.43
46 27 0.18
47 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (43 bp):
GCAACTTCAGGGAGATAAGATTGTGGCTTTCATCTGCTCCACT
Found at i:10239363 original size:45 final size:45
Alignment explanation
Indices: 10239303--10239541 Score: 195
Period size: 45 Copynumber: 5.4 Consensus size: 45
10239293 CTTTGATCTA
*
10239303 CTCCACTGCAACTTCAGGGAGATAAGATCTACTAACTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAGTCTG
* * * * * *
10239348 CTCCACTGAAACTTCAGGGAGATGAGACCTGGGTAATTTTA-TCCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GCTAACTTCAGT-CTG
* **
10239394 C-CCTACTGCAACTTCAGAGAGATAAGGAT-TG-TGGCTTC-GATCTG
1 CTCC-ACTGCAACTTCAGGGAGATAA-GATCTGCTAACTTCAG-TCTG
* * * * *
10239438 CTCTAATGCAACTTCAGGGAGACAAGATCTGCTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAGTCTG
* * * **
10239483 CTCCACTGCAACTTCAGGGAGATGAGA-CTTCT-ACTTCAGCCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAGTCTG
*
10239526 CTCTACTGCAACTTCA
1 CTCCACTGCAACTTCA
10239542 AAGAGATTAG
Statistics
Matches: 153, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
43 26 0.17
44 31 0.20
45 64 0.42
46 30 0.20
47 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTCAGTCTG
Found at i:10239388 original size:135 final size:135
Alignment explanation
Indices: 10239249--10239510 Score: 425
Period size: 135 Copynumber: 1.9 Consensus size: 135
10239239 GTTCTTGTAT
* *
10239249 TTTTATCCTACCCTACCGCAACTTCAGAGAGATAAGGATTGTGGCTTTGATCTACTCCACTGCAA
1 TTTTATCCTACCCTACCGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCCAATGCAA
* *
10239314 CTTCAGGGAGATAAGATCTACTAACTTCAGTCTGCTCCACTGAAACTTCAGGGAGATGAGACCTG
66 CTTCAGGGAGACAAGATCTACTAACTTCAGTCTACTCCACTGAAACTTCAGGGAGATGAGACCTG
10239379 GGTAA
131 GGTAA
* * * *
10239384 TTTTATCCTGCCCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCTAATGCAA
1 TTTTATCCTACCCTACCGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCCAATGCAA
* * *
10239449 CTTCAGGGAGACAAGATCTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATGAGAC
66 CTTCAGGGAGACAAGATCTACTAACTTCAGTCTACTCCACTGAAACTTCAGGGAGATGAGAC
10239511 TTCTACTTCA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
135 116 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (135 bp):
TTTTATCCTACCCTACCGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCCAATGCAA
CTTCAGGGAGACAAGATCTACTAACTTCAGTCTACTCCACTGAAACTTCAGGGAGATGAGACCTG
GGTAA
Found at i:10239534 original size:43 final size:45
Alignment explanation
Indices: 10239438--10239541 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 45
10239428 CTTCGATCTG
* * *
10239438 CTCTAATGCAACTTCAGGGAGACAAGATCTGCTATCTTCAGTCTA
1 CTCTACTGCAACTTCAGGGAGACAAGATCTGCTATCTTCAGCCCA
* ** *
10239483 CTCCACTGCAACTTCAGGGAGATGAGA-CTTCTA-CTTCAGCCCA
1 CTCTACTGCAACTTCAGGGAGACAAGATCTGCTATCTTCAGCCCA
10239526 CTCTACTGCAACTTCA
1 CTCTACTGCAACTTCA
10239542 AAGAGATTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 23 0.45
44 5 0.10
45 23 0.45
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (45 bp):
CTCTACTGCAACTTCAGGGAGACAAGATCTGCTATCTTCAGCCCA
Found at i:10251759 original size:127 final size:128
Alignment explanation
Indices: 10251436--10251738 Score: 409
Period size: 127 Copynumber: 2.4 Consensus size: 128
10251426 AGTCCAATGA
* * *
10251436 AAAACCGAAACCCAACACGGTAGGGCACGATTCCTCGAATTTCTAAACATTGAACATTGCCTTGC
1 AAAATCGAAACCCAACACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGT
*
10251501 TTTAGAATTTATAAAACACGAGTGAAATACTAAAGGAATATTCAATTATTTGAAACAAACTGG
66 TTTAGAATTTAGAAAACACGAGTGAAATACTAAAGGAATATTCAATTATTTGAAACAAACTGG
* * * *
10251564 -AAATCGAAACCCAGCACGATAGAGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTGT
1 AAAATCGAAACCCAACACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGT
** * ** **
10251628 TTTAGAATTTAGAAAGTACG-GATGAAAT-TTCAAAGGAATATTTGATTATTTG-GTCAAAC-GG
66 TTTAGAATTTAGAAAACACGAG-TGAAATACT-AAAGGAATATTCAATTATTTGAAACAAACTGG
*
10251689 AAAATCGAAACCCAACACGGTAGGGCACGATTCCTCGAGTTTCCAAACAT
1 AAAATCGAAACCCAACACGGTAGGGCACGATTCCTCGAATTTCCAAACAT
10251739 CAATTATTAC
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
125 2 0.01
126 51 0.34
127 99 0.65
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (128 bp):
AAAATCGAAACCCAACACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGT
TTTAGAATTTAGAAAACACGAGTGAAATACTAAAGGAATATTCAATTATTTGAAACAAACTGG
Found at i:10252639 original size:80 final size:80
Alignment explanation
Indices: 10252546--10252706 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
10252536 ATATACAAAG
10252546 AAAACTATATGTATAAAATAACATGGATTTAATGATGTATATAAACCAAACATATGTGCCAATAT
1 AAAACTATATGTATAAAATAACATGGATTTAATGATGTATATAAACCAAACATATGTGCCAATAT
*
10252611 ATATGTATATGTATA
66 ATATGTATATATATA
10252626 AAAACTATATGTATAAAATAACATGGATTTAATGATGTATATAAACCAAACATATGTGCCAATAT
1 AAAACTATATGTATAAAATAACATGGATTTAATGATGTATATAAACCAAACATATGTGCCAATAT
10252691 ATATGTATATATATA
66 ATATGTATATATATA
10252706 A
1 A
10252707 TAATAATTTA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.34
Consensus pattern (80 bp):
AAAACTATATGTATAAAATAACATGGATTTAATGATGTATATAAACCAAACATATGTGCCAATAT
ATATGTATATATATA
Found at i:10254920 original size:93 final size:93
Alignment explanation
Indices: 10254808--10254979 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
10254798 CGCCCATAAG
*
10254808 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
10254872 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
10254901 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10254966 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10254980 TTAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10254995 original size:46 final size:48
Alignment explanation
Indices: 10254801--10254979 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 48
10254791 TGTAACCCGC
* * * *
10254801 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--AGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCGCAT
*
10254847 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-C-A-TTCGCAT
* *
10254897 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCGCAT
10254940 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
10254980 TTAATCATCC
Statistics
Matches: 112, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.54
47 29 0.26
48 5 0.04
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCATTCGCAT
Found at i:10259060 original size:40 final size:40
Alignment explanation
Indices: 10259005--10259112 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
10258995 GAGCATTGGA
* * *
10259005 ATATATCTGAGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
10259045 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
10259085 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
10259113 ATGTGTTTGC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:10265047 original size:138 final size:137
Alignment explanation
Indices: 10264891--10265309 Score: 703
Period size: 138 Copynumber: 3.0 Consensus size: 137
10264881 GAGAACATAG
10264891 ATATAATTAATATATGAATTTGATTCATGCAAAATATTATTTGTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATGCAAAATATTATTT-TATATATTTTACCAAATTTATT
* *
10264956 AATATAAACAGTTATATTAATAAATTTCGGTCAAAATATAAAAAACATGGAAATTAATATTCTTT
65 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
10265021 TAGAAACA
130 TAGAAAGA
* * *
10265029 ATATAATTAATATATGAATTTGATTCATACAAAATATTATTTATATATATTTTACCGAATTTACT
1 ATATAATTAATATATGAATTTGATTCATGCAAAATATTATTT-TATATATTTTACCAAATTTATT
* *
10265094 AATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTGTTT
65 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
10265159 TAGAAAGA
130 TAGAAAGA
*
10265167 ATATAATTAATATATAAATTTGATTCATGCAAAATATTACTTTTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATGCAAAATATTA-TTTTATATATTTTACCAAATTTATT
* *
10265232 AATATAAACAGTTATATTAATTAATTCCGGTTAAAATATAAAAGACATGGAAATTAATATTCTTT
65 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
10265297 TGGAAAGA
130 TAGAAAGA
10265305 ATATA
1 ATATA
10265310 GTTTATTTTT
Statistics
Matches: 262, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
138 259 0.99
139 3 0.01
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCATGCAAAATATTATTTTATATATTTTACCAAATTTATTA
ATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
AGAAAGA
Found at i:10269843 original size:40 final size:40
Alignment explanation
Indices: 10269788--10269885 Score: 135
Period size: 40 Copynumber: 2.5 Consensus size: 40
10269778 TTCGAATACT
* *
10269788 TGAAAAGGTTGAAAAGGA-AATATCTAAAAAGGATATCAAA
1 TGAAAAGGTCGAAAAGGACAATATCCAAAAAGGATATC-AA
**
10269828 TGAAAAGGTCGAAAAGGACGTTATCCAAAAAGGATATCAA
1 TGAAAAGGTCGAAAAGGACAATATCCAAAAAGGATATCAA
*
10269868 TGAAAAGTTCGAAAAGGA
1 TGAAAAGGTCGAAAAGGA
10269886 TAGTAATGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
40 36 0.69
41 16 0.31
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.18
Consensus pattern (40 bp):
TGAAAAGGTCGAAAAGGACAATATCCAAAAAGGATATCAA
Found at i:10280282 original size:76 final size:76
Alignment explanation
Indices: 10280192--10280343 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
10280182 ACATCGTATG
10280192 GGCTAAACTATAAAAAAATAAAATTTTGACCAAAAAATCATTTTACAGCTATTCTTAAAAAAAAA
1 GGCTAAACTATAAAAAAATAAAATTTTGACCAAAAAATCATTTTACAGCTATTCTTAAAAAAAAA
*
10280257 AGTTTCTTTCT
66 AGTTACTTTCT
10280268 GGCTAAACTATAAAAAAATAAAATTTTGACCAAAAAATCATTTTACAGCTATTCTTAAAAAAAAA
1 GGCTAAACTATAAAAAAATAAAATTTTGACCAAAAAATCATTTTACAGCTATTCTTAAAAAAAAA
10280333 AGTTACTTTCT
66 AGTTACTTTCT
10280344 ACTTTTTTTC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (76 bp):
GGCTAAACTATAAAAAAATAAAATTTTGACCAAAAAATCATTTTACAGCTATTCTTAAAAAAAAA
AGTTACTTTCT
Found at i:10281407 original size:89 final size:89
Alignment explanation
Indices: 10281291--10281456 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 89
10281281 TTGGTACTTC
** * * *
10281291 GATCCACTCCACTGTAACTTCAGGGAGAAAAGACCTGTAGCTTTAATCTGCTCCACTGTAACTTT
1 GATCCACTCCACTACAACTTCAAGGAGAAAAGACCTGTAGCTTTAATATGCTCCACTGTAACTTC
10281356 AGGGAGATAAGACTTTCTAGTTTT
66 AGGGAGATAAGACTTTCTAGTTTT
* * * *** *
10281380 GATCTACTCCACTACAACTTTAAGGAGATAAGGTTTGTAGCTTTAATATGCTCTACTGTAACTTC
1 GATCCACTCCACTACAACTTCAAGGAGAAAAGACCTGTAGCTTTAATATGCTCCACTGTAACTTC
*
10281445 AGGTAGATAAGA
66 AGGGAGATAAGA
10281457 TTTGCTATCT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (89 bp):
GATCCACTCCACTACAACTTCAAGGAGAAAAGACCTGTAGCTTTAATATGCTCCACTGTAACTTC
AGGGAGATAAGACTTTCTAGTTTT
Found at i:10281488 original size:45 final size:44
Alignment explanation
Indices: 10281297--10281673 Score: 202
Period size: 44 Copynumber: 8.7 Consensus size: 44
10281287 CTTCGATCCA
* **
10281297 CTCCACTGTAACTTCAGGGAGAAAAGACCTGTAGCTTTAATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * * * *
10281341 CTCCACTGTAACTTTAGGGAGATAAGACTTTCTAGTTTTGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTG
** * * * *
10281386 CTCCACTACAACTTTAAGGAGATAAGGTTTGTAGCTTTAATATG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * * * *
10281430 CTCTACTGTAACTTCAGGTAGATAAGATTTGCTATCTTCAATTTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTG
* ** * * ** *
10281475 CTCCACTGCAACTTGTGAGAGATAAGATTTTTTTTTATTTTTAACCTG
1 CTCCACTGTAACTTCAGGGAGATAAGA----TTTGTAGCTTTAATCTG
* * * * * **
10281523 CTCCTCTATTACTTCAAGGAGATAAGGTTTGTATATTT--T-T-
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* *
10281563 AT-C-C--T-AC-TCAGGGAGATAAGCA-TTGTGGCTTTAATCTG
1 CTCCACTGTAACTTCAGGGAGATAAG-ATTTGTAGCTTTAATCTG
* * * * * * *
10281601 CTCCACT-TCAACTTCAGAGAGATACGATTAGTGGCTTCAATTTA
1 CTCCACTGT-AACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
*
10281645 CTCCACTGTAACTTCAGAGAGATAAGATT
1 CTCCACTGTAACTTCAGGGAGATAAGATT
10281674 CACCATGGTA
Statistics
Matches: 250, Mismatches: 64, Indels: 38
0.71 0.18 0.11
Matches are distributed among these distances:
34 19 0.08
35 2 0.01
36 2 0.01
37 1 0.00
38 2 0.01
39 2 0.01
40 2 0.01
41 2 0.01
43 3 0.01
44 119 0.48
45 66 0.26
48 27 0.11
49 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
Found at i:10281500 original size:89 final size:89
Alignment explanation
Indices: 10281326--10281488 Score: 213
Period size: 89 Copynumber: 1.8 Consensus size: 89
10281316 AGAAAAGACC
* * **
10281326 TGTAGCTTTAATCTGCTCCACTGTAACTTTAGGGAGATAAGACTTTCTAGTTTTGATCTACTCCA
1 TGTAGCTTTAATATGCTCCACTGTAACTTCAGGGAGATAAGACTTTCTAGTTTCAATCTACTCCA
10281391 CTACAACTTTAAGGAGATAAGGTT
66 CTACAACTTTAAGGAGATAAGGTT
* * * *
10281415 TGTAGCTTTAATATGCTCTACTGTAACTTCAGGTAGATAAGA-TTTGCTA-TCTTCAATTTGCTC
1 TGTAGCTTTAATATGCTCCACTGTAACTTCAGGGAGATAAGACTTT-CTAGT-TTCAATCTACTC
*
10281478 CACTGCAACTT
64 CACTACAACTT
10281489 GTGAGAGATA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
88 4 0.06
89 59 0.94
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (89 bp):
TGTAGCTTTAATATGCTCCACTGTAACTTCAGGGAGATAAGACTTTCTAGTTTCAATCTACTCCA
CTACAACTTTAAGGAGATAAGGTT
Found at i:10281874 original size:46 final size:47
Alignment explanation
Indices: 10281769--10281878 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 47
10281759 AAGATTCGCT
* * *
10281769 AACTTCAGGGAGATAAGTTTTGTTTTATTTTTAACCTACTCCTCTGC
1 AACTTCATGGAGATAAGGTTTGTTATATTTTTAACCTACTCCTCTGC
* * * *
10281816 AACTT-TTGGGAGATAAGGTTTG-TATATTTTTATCTTACT-TTACTGC
1 AACTTCAT-GGAGATAAGGTTTGTTATATTTTTAACCTACTCCT-CTGC
10281862 AACTTCATGGAGATAAG
1 AACTTCATGGAGATAAG
10281879 CATTGTGGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.02
46 32 0.62
47 19 0.37
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (47 bp):
AACTTCATGGAGATAAGGTTTGTTATATTTTTAACCTACTCCTCTGC
Found at i:10281912 original size:44 final size:44
Alignment explanation
Indices: 10281857--10282158 Score: 166
Period size: 44 Copynumber: 6.6 Consensus size: 44
10281847 ATCTTACTTT
*
10281857 ACTGCAACTTCATG-GAGATAAGCATT-GTGGCTTTAATCTACTCC
1 ACTGCAACTTCA-GAGAGATAAG-ATTAGTGGCTTCAATCTACTCC
* *
10281901 ACTGCAACTTCAGAGAGATAAGATTAGTGGCTTCAATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATTAGTGGCTTCAATCTACTCC
* * * ** *
10281945 ACTGCAACTTTAGAGAGATAAGATTCACCATGGTAGATTTGATCTGAC-CT
1 ACTGCAACTTCAGAGAGATAAGATT----A--GTGGCTTCAATCT-ACTCC
* * * * *
10281995 ACTACAACTTCAAAG-GTATAGGATTTATGACTTGTAGCTT-GATCTATTCC
1 ACTGCAACTTCAGAGAG-ATAAGA-TTA-G---TG--GCTTCAATCTACTCC
* * * ** *
10282045 ACTGCAACTTCAGGGATATAAGATTCGCTATCTTCAATTTACTCC
1 ACTGCAACTTCAGAGAGATAAGATTAG-TGGCTTCAATCTACTCC
* * **
10282090 ACTGCAACATCAGGGAGATAAGATTTA-TAACTTCAATCTACTCC
1 ACTGCAACTTCAGAGAGATAAGA-TTAGTGGCTTCAATCTACTCC
*
10282134 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGAGAGATAAGATT
10282159 CACCATTTGT
Statistics
Matches: 202, Mismatches: 36, Indels: 41
0.72 0.13 0.15
Matches are distributed among these distances:
43 6 0.03
44 99 0.49
45 28 0.14
46 4 0.02
47 1 0.00
48 2 0.01
49 5 0.02
50 51 0.25
51 6 0.03
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATTAGTGGCTTCAATCTACTCC
Found at i:10282111 original size:45 final size:45
Alignment explanation
Indices: 10282036--10282531 Score: 247
Period size: 44 Copynumber: 10.8 Consensus size: 45
10282026 TTGTAGCTTG
* * * *
10282036 ATCTATTCCACTGCAACTTCAGGGATATAAGATTCGCTATCTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGATAACTTCA
* * *
10282081 ATTTACTCCACTGCAACATCAGGGAGATAAGATT-TATAACTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGATAACTTCA
* *
10282125 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATTTGTAGCCTT-A
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATT--CGA----TA-ACTTCA
** * * * *
10282176 ATCTTGTTCCGCTGCAACTTCAAGGAGATAATACTT-GTTGTAACTTCA
1 ATC-TACTCCACTGCAACTTCAGGGAGATAAGA-TTCG--ATAACTTCA
* * * * * * *
10282224 ACCTACTCCAGTGCAACTTTAGGGAGATAAGGTT-TATAGCTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGATAACTTCA
* * * * * * *
10282268 ATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTCCG
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGATAACTTCA
* * * * *
10282313 ATCTACTCCATTACAA-TTCAAGGAGATAAGATTTGTAATTTATAGCTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCG--A--TA-A-CTTCA
** * * *
10282363 ATCTGTTCCACTACAACTTCAGGGAAATAAGATTC-ACTATCTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGA-TAACTTCA
* *
10282408 GTCTACTCCACTACAACTTCAGGGAGATAAGACTT--ATAACTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCGATAACTTCA
** * * * * ** *
10282452 A-CTTGTTCCATTGCAACTTTAGGGAGATAAGGTTAG-TGGCTTCG
1 ATC-TACTCCACTGCAACTTCAGGGAGATAAGATTCGATAACTTCA
* * * * *
10282496 ATATGCTTCACTACAACTTCAAGGAGATAAGATTCG
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCG
10282532 CCATGTTAGA
Statistics
Matches: 338, Mismatches: 87, Indels: 53
0.71 0.18 0.11
Matches are distributed among these distances:
43 3 0.01
44 151 0.45
45 80 0.24
46 4 0.01
47 27 0.08
48 8 0.02
50 15 0.04
51 21 0.06
52 27 0.08
53 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGATAACTTCA
Found at i:10282380 original size:95 final size:96
Alignment explanation
Indices: 10282256--10282439 Score: 237
Period size: 95 Copynumber: 1.9 Consensus size: 96
10282246 GGAGATAAGG
* * * ***
10282256 TTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTCC-GATCTACT
1 TTTATAGCTTTAATCTACTCCACTACAACTTCAGAGAAATAAGATTCACTATCTCCAG-TCTACT
*
10282320 CCATTACAA-TTCAAGGAGATAAGATTTGTAA
65 CCACTACAACTTCAAGGAGATAAGATTTGTAA
** * *
10282351 TTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTACTC
1 TTTATAGCTTTAATCTACTCCACTACAACTTCAGAGAAATAAGATTCACTATCTCCAGTCTACTC
*
10282416 CACTACAACTTCAGGGAGATAAGA
66 CACTACAACTTCAAGGAGATAAGA
10282440 CTTATAACTT
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
95 60 0.80
96 15 0.20
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34
Consensus pattern (96 bp):
TTTATAGCTTTAATCTACTCCACTACAACTTCAGAGAAATAAGATTCACTATCTCCAGTCTACTC
CACTACAACTTCAAGGAGATAAGATTTGTAA
Found at i:10285661 original size:32 final size:33
Alignment explanation
Indices: 10285571--10285725 Score: 143
Period size: 33 Copynumber: 4.8 Consensus size: 33
10285561 AGTGTACATT
* **
10285571 CCTTTCCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTCCAAATGGTACACACAAAGTATACCTAA
* * *
10285604 CCTTTTCATATGGTATACACAAAGTATACCTAA
1 CCTTTCCAAATGGTACACACAAAGTATACCTAA
* * * **
10285637 ACTTTCCAAAT-GTAAACACAAAGTATACATTT
1 CCTTTCCAAATGGTACACACAAAGTATACCTAA
* * *
10285669 CCTTTTCATATGGTATACACAAAGTATACCTAA
1 CCTTTCCAAATGGTACACACAAAGTATACCTAA
* * *
10285702 GCTTTCCAAGT-GTACACAAAAAGT
1 CCTTTCCAAATGGTACACACAAAGT
10285726 GTATATAACC
Statistics
Matches: 95, Mismatches: 26, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
32 36 0.38
33 59 0.62
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CCTTTCCAAATGGTACACACAAAGTATACCTAA
Found at i:10285741 original size:65 final size:65
Alignment explanation
Indices: 10285572--10285725 Score: 254
Period size: 65 Copynumber: 2.4 Consensus size: 65
10285562 GTGTACATTC
*
10285572 CTTTCCAAGTGGTACACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATACCTAA
1 CTTTCCAAGT-GTACACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTAA
10285637 A
65 A
* * *
10285638 CTTTCCAAATGTAAACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTAAG
1 CTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTAAA
*
10285703 CTTTCCAAGTGTACACAAAAAGT
1 CTTTCCAAGTGTACACACAAAGT
10285726 GTATATAACC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 72 0.89
66 9 0.11
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (65 bp):
CTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTAAA
Found at i:10295742 original size:65 final size:65
Alignment explanation
Indices: 10295656--10295826 Score: 261
Period size: 65 Copynumber: 2.6 Consensus size: 65
10295646 GGTGTACATT
*
10295656 CCTTTCCAAGTGGTACACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATACCTA
1 CCTTTCCAAGT-GTACACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTA
10295721 A
65 A
*
10295722 CCTTTCCAAGTGTACGCACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTAA
1 CCTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTAA
* * * * **
10295787 ACTTTCCAAATGTACACAAAAAGTGTACATAACCTTTTCA
1 CCTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCA
10295827 AGTTATACCA
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 85 0.89
66 11 0.11
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (65 bp):
CCTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTAA
Found at i:10295747 original size:32 final size:33
Alignment explanation
Indices: 10295656--10295829 Score: 158
Period size: 33 Copynumber: 5.3 Consensus size: 33
10295646 GGTGTACATT
**
10295656 CCTTTCCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTCCAAGTGGTACACACAAAGTATACCTAA
* *
10295689 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACCTAA
* * **
10295722 CCTTTCCAAGT-GTACGCACAAAGTATACATTT
1 CCTTTCCAAGTGGTACACACAAAGTATACCTAA
* *
10295754 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACCTAA
* * * * *
10295787 ACTTTCCAAAT-GTACACAAAAAGTGTACATAA
1 CCTTTCCAAGTGGTACACACAAAGTATACCTAA
*
10295819 CCTTTTCAAGT
1 CCTTTCCAAGT
10295830 TATACCATTT
Statistics
Matches: 111, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
32 51 0.46
33 59 0.53
34 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTGGTACACACAAAGTATACCTAA
Found at i:10301740 original size:48 final size:47
Alignment explanation
Indices: 10301564--10301741 Score: 180
Period size: 48 Copynumber: 3.7 Consensus size: 47
10301554 GATATGTGTA
* *
10301564 CTAGTGTAAGACCATGTCTAGGACATGGCATC-GACCAT-ATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CC-TGA-CATGAGAG
* * * * * * *
10301612 CTAGTGTAAGACCATGTCAGGGACATGGCACCGGCATTGAGACGAAAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTGACATGAGAG
* * *
10301660 CTAGTGTAAGACCATGTTTGGGAAATGGCATCAGCCTCGACATGTGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-GACATGAGAG
*
10301708 CCAGTGTAAGACCATGTCTGGGACATGGCATCAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAG
10301742 TAATTTACCC
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
47 1 0.01
48 103 0.97
49 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTGACATGAGAG
Found at i:10304736 original size:45 final size:45
Alignment explanation
Indices: 10304632--10304738 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
10304622 GTAGCAGTAG
* *
10304632 CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
* * *
10304677 CAGTAGCGGTAACAGTATTCGACACACAAAGTG-TCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCT-GAATCGGTAA
*
10304722 CAGTAACTGTAACAGTA
1 CAGTAACAGTAACAGTA
10304739 ACAGTAGTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 53 0.98
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
Found at i:10304742 original size:51 final size:50
Alignment explanation
Indices: 10304620--10304753 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 50
10304610 TAATCAGTAA
* * *
10304620 CGGTAGCAGTAGCAGTAACAGTAACAATATTCAACACACAAAGTGCTGAAT
1 CGGTAACAGTAAC-GTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
* * *
10304671 CTGTAACAGT-A-G---CGGTAACAGTATTCGACACACAAAGTG-TCGAAT
1 CGGTAACAGTAACGTAACAGTAACAGTATTCAACACACAAAGTGCT-GAAT
* *
10304716 CGGTAACAGTAACTGTAACAGTAACAGTAGTCAGCACA
1 CGGTAACAGTAAC-GTAACAGTAACAGTATTCAACACA
10304754 TAAGTGCCTG
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
44 1 0.02
45 37 0.57
46 1 0.02
48 2 0.03
51 24 0.37
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (50 bp):
CGGTAACAGTAACGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
Found at i:10307861 original size:14 final size:14
Alignment explanation
Indices: 10307842--10307869 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10307832 TTGCAGGTGA
10307842 CTGTGGCAGAGCTG
1 CTGTGGCAGAGCTG
10307856 CTGTGGCAGAGCTG
1 CTGTGGCAGAGCTG
10307870 AGAACGCACA
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:0.21, G:0.43, T:0.21
Consensus pattern (14 bp):
CTGTGGCAGAGCTG
Found at i:10311459 original size:21 final size:21
Alignment explanation
Indices: 10311435--10311482 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
10311425 GATAAATTGA
10311435 TTAAATGAGTTTAATTTATCT
1 TTAAATGAGTTTAATTTATCT
10311456 TTAAATGAGTTTAATTTATCT
1 TTAAATGAGTTTAATTTATCT
10311477 TTAAAT
1 TTAAAT
10311483 TAAGCTCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (21 bp):
TTAAATGAGTTTAATTTATCT
Found at i:10316293 original size:130 final size:130
Alignment explanation
Indices: 10316069--10316455 Score: 621
Period size: 130 Copynumber: 3.0 Consensus size: 130
10316059 TATGTAAAAG
* * * *
10316069 AGTTAGAGAATGCTATATTTCTATTAAATGAGTTCTTATGGTGGCTTTAAAGTTGTGAACTATTC
1 AGTTAGAGAAGGTTATATTTCTATTAAATGAGTTCTTATGGTGGCTTTTAAGTTGTGAACTGTTC
** * *
10316134 GGTAATACCTTGTAACCCTTCCGGTGACGGTTACAGGTTCGGGTGTTACATTTTATTGTTATCAT
66 GGTAATACCTTGTAACCCTTCCGACGACGGTTACGGGTTCGGGTGTTACATTTTATTGGTATCAT
*
10316199 AGTTAGAGAAGGTTATATTTCTATTAAATGAGTTTTTATGGTGGCTTTTAAGTTGTGAACTGTTC
1 AGTTAGAGAAGGTTATATTTCTATTAAATGAGTTCTTATGGTGGCTTTTAAGTTGTGAACTGTTC
* * * *
10316264 AGTAATACCTTGTAACCCTTTCAACGACGGTTACGGGTTCGAGTGTTACATTTTATTGGTATCAT
66 GGTAATACCTTGTAACCCTTCCGACGACGGTTACGGGTTCGGGTGTTACATTTTATTGGTATCAT
10316329 AGTTAGAGAAGGTTATATTTCTATTAAATGAGTTCTTATGGTGGCTTTTAAGTTGTGAACTGTTC
1 AGTTAGAGAAGGTTATATTTCTATTAAATGAGTTCTTATGGTGGCTTTTAAGTTGTGAACTGTTC
* * * *
10316394 GGTAATACCTTGTAACCCTTCCGACAACGGCTACGGGTTCAGGTGTTATATTTTATTGGTAT
66 GGTAATACCTTGTAACCCTTCCGACGACGGTTACGGGTTCGGGTGTTACATTTTATTGGTAT
10316456 TAGAGATATG
Statistics
Matches: 235, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 235 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (130 bp):
AGTTAGAGAAGGTTATATTTCTATTAAATGAGTTCTTATGGTGGCTTTTAAGTTGTGAACTGTTC
GGTAATACCTTGTAACCCTTCCGACGACGGTTACGGGTTCGGGTGTTACATTTTATTGGTATCAT
Found at i:10327716 original size:21 final size:21
Alignment explanation
Indices: 10327692--10327741 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
10327682 CCCAAGCAGA
*
10327692 GGGAGAAGGGATAATAGAAGG
1 GGGAGAAGGGACAATAGAAGG
10327713 GGGAGAAGGGACAATAGAAGG
1 GGGAGAAGGGACAATAGAAGG
10327734 GGGAGAAG
1 GGGAGAAG
10327742 AGAGAGATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.02, G:0.50, T:0.06
Consensus pattern (21 bp):
GGGAGAAGGGACAATAGAAGG
Found at i:10329670 original size:16 final size:17
Alignment explanation
Indices: 10329651--10329691 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10329641 AGGAGATATC
10329651 AATTTAATTTAAAT-CA
1 AATTTAATTTAAATACA
*
10329667 AATTTTA-TTAAATACA
1 AATTTAATTTAAATACA
10329683 ATATTTAAT
1 A-ATTTAAT
10329692 AAATTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.30
16 9 0.45
17 5 0.25
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTAATTTAAATACA
Found at i:10330163 original size:17 final size:18
Alignment explanation
Indices: 10330141--10330174 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10330131 AATGTCAAGA
*
10330141 TTACTAAGAAT-ATGCCC
1 TTACTAACAATAATGCCC
10330158 TTACTAACAATAATGCC
1 TTACTAACAATAATGCC
10330175 TTGACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (18 bp):
TTACTAACAATAATGCCC
Found at i:10345290 original size:48 final size:48
Alignment explanation
Indices: 10345234--10345356 Score: 192
Period size: 48 Copynumber: 2.6 Consensus size: 48
10345224 GTCAGTGCTA
10345234 ATGCCATGTCCCGGACATGGTCTTACACTAGCACACATATCAACGCCG
1 ATGCCATGTCCCGGACATGGTCTTACACTAGCACACATATCAACGCCG
* * * * *
10345282 ATGTCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGTCG
1 ATGCCATGTCCCGGACATGGTCTTACACTAGCACACATATCAACGCCG
*
10345330 ATGCCATGTCCTGGACATGGTCTTACA
1 ATGCCATGTCCCGGACATGGTCTTACA
10345357 TTGAATCTCG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCGGACATGGTCTTACACTAGCACACATATCAACGCCG
Found at i:10351654 original size:27 final size:27
Alignment explanation
Indices: 10351634--10351694 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 27
10351624 ATTTTTTGAA
10351634 TTTTTAGAAATTTTAATATTTTTAAAAT
1 TTTTTA-AAATTTTAATATTTTTAAAAT
* *
10351662 TTTTTAAAATTTTAACAATTTATTAATAT
1 TTTTTAAAATTTTAA-TATTT-TTAAAAT
10351691 TTTT
1 TTTT
10351695 ATTGAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.31
28 10 0.34
29 10 0.34
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTTAAAATTTTAATATTTTTAAAAT
Found at i:10351656 original size:9 final size:9
Alignment explanation
Indices: 10351632--10351695 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
10351622 ACATTTTTTG
10351632 AATTTTTAGA
1 AATTTTTA-A
10351642 AA-TTTTAA
1 AATTTTTAA
*
10351650 TATTTTTAA
1 AATTTTTAA
10351659 AATTTTTTAA
1 AA-TTTTTAA
10351669 AA-TTTTAA
1 AATTTTTAA
10351677 CAATTTATTAA
1 -AATTT-TTAA
*
10351688 TATTTTTA
1 AATTTTTA
10351696 TTGAAAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
8 8 0.17
9 17 0.37
10 17 0.37
11 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
AATTTTTAA
Found at i:10351666 original size:19 final size:18
Alignment explanation
Indices: 10351624--10351695 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 18
10351614 TAAATAACAC
*
10351624 ATTTTTTGAATTTTTAGAA
1 ATTTTTTAAATTTTTA-AA
10351643 A--TTTTAATATTTTTAAA
1 ATTTTTTAA-ATTTTTAAA
*
10351660 ATTTTTTAAAATTTTAACA
1 ATTTTTTAAATTTTTAA-A
*
10351679 ATTTATTAATATTTTTA
1 ATTTTTTAA-ATTTTTA
10351696 TTGAAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 8 0.18
18 14 0.32
19 16 0.36
20 6 0.14
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTTTTAAATTTTTAAA
Found at i:10353787 original size:65 final size:65
Alignment explanation
Indices: 10353678--10353890 Score: 266
Period size: 65 Copynumber: 3.3 Consensus size: 65
10353668 TGTTACGACT
* * * *
10353678 ACTCTTTGTGAGCATCCTATTTAT-TGATCGGTTGTGATCCTGCATATGTTGCGGATACAAACGC
1 ACTCTTTGTGAGCGTCCTA-TTATGCGATCGGTTGTGATCTTGCATATGTTGCGGACACAAACGC
10353742 A
65 A
* * * * *
10353743 GCTCTTTGTGAGCGTCCTATTATGCGATTGGTTGTGATCTTGCATATATTTCGGACACAAACACA
1 ACTCTTTGTGAGCGTCCTATTATGCGATCGGTTGTGATCTTGCATATGTTGCGGACACAAACGCA
* * * * * *
10353808 ACTCTTTGTGAGTGTCCTGTTATGCGAACGGTTGTGATCTTGTATATGTTGTGGACACAAATGCA
1 ACTCTTTGTGAGCGTCCTATTATGCGATCGGTTGTGATCTTGCATATGTTGCGGACACAAACGCA
*
10353873 ACTCTTTATGAGCGTCCT
1 ACTCTTTGTGAGCGTCCT
10353891 GATATACGGC
Statistics
Matches: 125, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
64 4 0.03
65 121 0.97
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (65 bp):
ACTCTTTGTGAGCGTCCTATTATGCGATCGGTTGTGATCTTGCATATGTTGCGGACACAAACGCA
Found at i:10356124 original size:19 final size:17
Alignment explanation
Indices: 10356085--10356121 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
10356075 TGATAAATGT
10356085 TATGTTATACGTGTGAA
1 TATGTTATACGTGTGAA
*
10356102 TATGTTATACGTGTGTA
1 TATGTTATACGTGTGAA
10356119 TAT
1 TAT
10356122 ATGAAAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (17 bp):
TATGTTATACGTGTGAA
Found at i:10360147 original size:210 final size:210
Alignment explanation
Indices: 10359778--10360201 Score: 744
Period size: 210 Copynumber: 2.0 Consensus size: 210
10359768 GATCAATTTG
* *
10359778 TAAAGTTATCAAAGTTTCAAAGTTTTTCCATGGATGAATATGCTGAAATTTTGAAATTTATGGTA
1 TAAAGTTATCAAAGTTTCAAAATTTTTCCATGGATGAATATGCTAAAATTTTGAAATTTATGGTA
10359843 GAAAATGAAAGGTTGTTGATAGATAAACAACTTTTACAAAGAGAATTTTGATGAAATTATGATTT
66 GAAAATGAAAGGTTGTTGATAGATAAACAACTTTTACAAAGAGAATTTTGATGAAATTATGATTT
10359908 AGGGACTAAATTGTAAAAAATGAAAAAGTCATGGAAAAATTCT-AATTTTTATGAAATACATAGG
131 AGGGACTAAATTGTAAAAAATGAAAAAGTCATGGAAAAATTCTGAA-TTTTATGAAATACATAGG
10359972 CTGTAAATGTTACTTC
195 CTGTAAATGTTACTTC
* *
10359988 TAAAGTTATCAAATTTTCAAAATTTTTCTATGGATGAATATGCTAAAATTTTGAAATTTATGGTA
1 TAAAGTTATCAAAGTTTCAAAATTTTTCCATGGATGAATATGCTAAAATTTTGAAATTTATGGTA
10360053 GAAAATGAAAGGTTGTTGATAGATAAACAACTTTTACAAAGAGAATTTTCG-TGAAATTATGATT
66 GAAAATGAAAGGTTGTTGATAGATAAACAACTTTTACAAAGAGAATTTT-GATGAAATTATGATT
* * *
10360117 TAGGGACTAAATTGTAAAAAATGGAAAAGTCATGGAAAAATTTTGAATTTTATGAAATACATGGG
130 TAGGGACTAAATTGTAAAAAATGAAAAAGTCATGGAAAAATTCTGAATTTTATGAAATACATAGG
*
10360182 CTGTAAATGTTACTTG
195 CTGTAAATGTTACTTC
10360198 TAAA
1 TAAA
10360202 ATTCGACTAG
Statistics
Matches: 204, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
210 201 0.99
211 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (210 bp):
TAAAGTTATCAAAGTTTCAAAATTTTTCCATGGATGAATATGCTAAAATTTTGAAATTTATGGTA
GAAAATGAAAGGTTGTTGATAGATAAACAACTTTTACAAAGAGAATTTTGATGAAATTATGATTT
AGGGACTAAATTGTAAAAAATGAAAAAGTCATGGAAAAATTCTGAATTTTATGAAATACATAGGC
TGTAAATGTTACTTC
Found at i:10361122 original size:23 final size:24
Alignment explanation
Indices: 10361077--10361122 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10361067 CCCGTTACAT
*
10361077 GGCTCTTTGTGAGCATTCCTGATA
1 GGCTCTTCGTGAGCATTCCTGATA
10361101 GGCTCTTCGTGAGC-TTCCTGAT
1 GGCTCTTCGTGAGCATTCCTGAT
10361123 TAAATGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (24 bp):
GGCTCTTCGTGAGCATTCCTGATA
Found at i:10366345 original size:33 final size:29
Alignment explanation
Indices: 10366279--10366337 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
10366269 AAATATTAGG
10366279 GAAGACCTGTTTCATTATTTATTTTCTTT
1 GAAGACCTGTTTCATTATTTATTTTCTTT
*
10366308 GAAGACCTGTTTCATTATTTATTTGCTTT
1 GAAGACCTGTTTCATTATTTATTTTCTTT
10366337 G
1 G
10366338 CTTGAAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (29 bp):
GAAGACCTGTTTCATTATTTATTTTCTTT
Found at i:10384528 original size:19 final size:19
Alignment explanation
Indices: 10384504--10384547 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
10384494 TCATAAGTAC
10384504 ATGTTAGAGTGAGAATTTG
1 ATGTTAGAGTGAGAATTTG
*
10384523 ATGTTAGAGTGAGAATTTT
1 ATGTTAGAGTGAGAATTTG
10384542 ATGTTA
1 ATGTTA
10384548 CCATGTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (19 bp):
ATGTTAGAGTGAGAATTTG
Found at i:10384628 original size:46 final size:48
Alignment explanation
Indices: 10384561--10384690 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 48
10384551 TGTAACCCAC
*
10384561 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-G-C-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCCAGTT-ACAT
* *
10384607 CCATAAGTGAACTCGGACTCAATTCAACGAGTTCGGATGCCGAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GCC-AGTTACAT
*
10384657 -C-TCA-TGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
10384691 ACTCAAATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
46 34 0.47
47 28 0.38
48 3 0.04
49 2 0.03
50 3 0.04
51 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCCAGTTACAT
Found at i:10385359 original size:38 final size:36
Alignment explanation
Indices: 10385303--10385380 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 36
10385293 ATTATGTCGT
10385303 TTTACTCGTTCACATAAAATCGCTTAGCAAAAGTTG
1 TTTACTCGTTCACATAAAATCGCTTAGCAAAAGTTG
*
10385339 TTTACTCGTTTTCACGTAAAATCGCTTAGCAAAAGTTG
1 TTTACTCG--TTCACATAAAATCGCTTAGCAAAAGTTG
10385377 TTTA
1 TTTA
10385381 ACATAATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 8 0.21
38 31 0.79
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (36 bp):
TTTACTCGTTCACATAAAATCGCTTAGCAAAAGTTG
Found at i:10386619 original size:44 final size:42
Alignment explanation
Indices: 10386481--10386637 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
10386471 AACATATACA
* * * *
10386481 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA-ATCG
* * * *
10386524 ATGCCACTGTCCCAGACAGGGTTTTACACGAAATCAGATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA-AAATCG
* *
10386566 ATGCCAATGTCCCAGACATGGTCTTGCACGCAAAACAAAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCAAAA-TCG
**
10386610 ATGCCAATGTCATAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
10386638 AGCAGAATAG
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 29 0.31
43 37 0.40
44 27 0.29
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAATCG
Found at i:10391431 original size:44 final size:44
Alignment explanation
Indices: 10391365--10391452 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
10391355 GCAGTAGTTT
10391365 AGTCATAACTTTGCCATGGCATTATTATGATATGAAAACATTCC
1 AGTCATAACTTTGCCATGGCATTATTATGATATGAAAACATTCC
* *
10391409 AGTCATAACTTTGCCATTGCATTATTATGATATGAAAATATTCC
1 AGTCATAACTTTGCCATGGCATTATTATGATATGAAAACATTCC
10391453 TTGAGTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (44 bp):
AGTCATAACTTTGCCATGGCATTATTATGATATGAAAACATTCC
Found at i:10391772 original size:18 final size:18
Alignment explanation
Indices: 10391726--10391773 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
10391716 TTATGGTTTT
10391726 AAAT-AAATTTTGGGTAA
1 AAATAAAATTTTGGGTAA
*
10391743 AAATAAATATTTTGGGTTA
1 AAATAAA-ATTTTGGGTAA
* *
10391762 AATTGAAATTTT
1 AAATAAAATTTT
10391774 AAAATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 15 0.58
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (18 bp):
AAATAAAATTTTGGGTAA
Found at i:10393430 original size:312 final size:311
Alignment explanation
Indices: 10392866--10393491 Score: 1128
Period size: 312 Copynumber: 2.0 Consensus size: 311
10392856 GTGAGTGATA
10392866 TTAAGGGCAATTTGATAAATTGGCCTAATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
1 TTAAGGGCAATTTGATAAATTGGCCTAATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
*
10392931 TGACTTATTGCATATTGAATGGTTGGATTTGAAAAAATAGGTTTTATTTTATAAAAGAGCAAAAT
66 TGACTTATTGCATATTGAATGGCTGGATTTGAAAAAATAGGTTTTATTTTATAAAAGAGCAAAAT
* * * *
10392996 AGCAATTGGTTTGGTAAGTTGTGTATTATGCTTTTAGTATGATTAAGTTGTATGAAATAAATTGA
131 AGAAATTGGTTTAGTAAGTTGTGTATTATGCTTTTAGCATGATTAAATTGTATGAAATAAATTGA
10393061 TATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATGAA
196 TATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATGAA
*
10393126 TATTGGTAAAATGATATTTGTTATGCTTAATTTTATTGATGTTAAAATTGC
261 TATTGGGAAAATGATATTTGTTATGCTTAATTTTATTGATGTTAAAATTGC
* *
10393177 TTAAGGGCAATTTGGTAAATTGGCCTGATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
1 TTAAGGGCAATTTGATAAATTGGCCTAATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
* *
10393242 TGAGTTAATTGCATATTGAATGGCTGGATTTGCAAAAATAGGTTTTATTTTATAAAAGAGCAAAA
66 TGACTT-ATTGCATATTGAATGGCTGGATTTGAAAAAATAGGTTTTATTTTATAAAAGAGCAAAA
10393307 TAGAAATTGGTTTAGTAAGTTGTGTATTATGCTTTTAGCATGATTAAATTGTAT-AGAATAAATT
130 TAGAAATTGGTTTAGTAAGTTGTGTATTATGCTTTTAGCATGATTAAATTGTATGA-AATAAATT
10393371 GATATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATG
194 GATATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATG
*
10393436 AATATTGGGAAAATGATATTTGTTATGCTTAATTTTGTTGATGTTAAAATTGC
259 AATATTGGGAAAATGATATTTGTTATGCTTAATTTTATTGATGTTAAAATTGC
10393489 TTA
1 TTA
10393492 GCAACATGCT
Statistics
Matches: 302, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
311 69 0.23
312 233 0.77
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (311 bp):
TTAAGGGCAATTTGATAAATTGGCCTAATTATGTGTTAAATTAAAGGTTTAATTGGTGTTATTAA
TGACTTATTGCATATTGAATGGCTGGATTTGAAAAAATAGGTTTTATTTTATAAAAGAGCAAAAT
AGAAATTGGTTTAGTAAGTTGTGTATTATGCTTTTAGCATGATTAAATTGTATGAAATAAATTGA
TATTTGGAGCATGAATTGCTGATTTATTGAACATTTGATAAAATGTGTTCTAATTGGTATATGAA
TATTGGGAAAATGATATTTGTTATGCTTAATTTTATTGATGTTAAAATTGC
Found at i:10401229 original size:47 final size:47
Alignment explanation
Indices: 10401170--10401754 Score: 927
Period size: 47 Copynumber: 12.3 Consensus size: 47
10401160 CAGCCAAGAG
*
10401170 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
10401217 AGTGTATGTATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
10401264 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
10401313 AGTGTATGTATATATGTAATAAGGCCTAATAGCTGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
10401364 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
10401411 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
10401458 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
10401505 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
10401552 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * *
10401599 AGTGTATATATGTAATAAGGCCTAATGGCCGATGCGATGAATGTGGA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
10401646 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
10401693 AGTGTATATGTGTGATAAGGCCTAATAGCCGGTGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
10401740 AGTGTATATATGTGA
1 AGTGTATATATGTGA
10401755 CAGGGTCGAG
Statistics
Matches: 508, Mismatches: 24, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
47 423 0.83
49 41 0.08
51 40 0.08
53 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:10401980 original size:37 final size:37
Alignment explanation
Indices: 10401924--10402002 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
10401914 CCGAGCTCTA
* * * *
10401924 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGAATATGTCCGGGT
*
10401961 AAGACCCGATAACTTCGTGTGGAGAATATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGAATATGTCCGGGT
10401998 AAGAC
1 AAGAC
10402003 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGAATATGTCCGGGT
Found at i:10409478 original size:42 final size:44
Alignment explanation
Indices: 10409421--10409524 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
10409411 CTATTATCCT
*
10409421 AGACAGGGTCTTACAC-AAAATCA-AA-TACGATGCCAAGGTCCC
1 AGACATGGTCTTACACGAAAATCATAAGT-CGATGCCAAGGTCCC
* *
10409463 AGACATGGTCTTACACGTAAATCATAAGTCGATGCCAATGTCCC
1 AGACATGGTCTTACACGAAAATCATAAGTCGATGCCAAGGTCCC
*
10409507 AAACATGGTCTTACACGA
1 AGACATGGTCTTACACGA
10409525 TAACACATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 15 0.28
43 6 0.11
44 32 0.59
45 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (44 bp):
AGACATGGTCTTACACGAAAATCATAAGTCGATGCCAAGGTCCC
Found at i:10417298 original size:33 final size:33
Alignment explanation
Indices: 10417261--10417326 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
10417251 CCTCGTACAG
10417261 ATTCAAATTTGTTTTCTTTGGTTCTTGATTAAA
1 ATTCAAATTTGTTTTCTTTGGTTCTTGATTAAA
10417294 ATTCAAATTTGTTTTCTTTGGTTCTTGATTAAA
1 ATTCAAATTTGTTTTCTTTGGTTCTTGATTAAA
10417327 CACATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (33 bp):
ATTCAAATTTGTTTTCTTTGGTTCTTGATTAAA
Found at i:10421480 original size:20 final size:20
Alignment explanation
Indices: 10421457--10421494 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10421447 TGTTTTTATA
* *
10421457 AAATTTTAGAATTTTTCACC
1 AAATTTTACAAATTTTCACC
10421477 AAATTTTACAAATTTTCA
1 AAATTTTACAAATTTTCA
10421495 TTTTAGTCCC
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:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATTTTACAAATTTTCACC
Found at i:10431354 original size:57 final size:58
Alignment explanation
Indices: 10431265--10431401 Score: 145
Period size: 57 Copynumber: 2.4 Consensus size: 58
10431255 GAGCCACATA
** * * * *
10431265 GATTACCAGTCCAAACTAAATCCTTTATATAACGTGTGCTC-AGAGG-AGCTCGATTAG
1 GATTACCAGTCCAGGCTAAATCCCTAATATAACGTATGCTCGAGAGGTA-CTAGATTAG
* * *
10431322 GATTACCAGTCCAGGCTAAA-CCCTAATCATAACGTATGCTCGAGAGGTATTATATTGG
1 GATTACCAGTCCAGGCTAAATCCCTAAT-ATAACGTATGCTCGAGAGGTACTAGATTAG
*
10431380 GATTACCCGTCCAGGCTAAATC
1 GATTACCAGTCCAGGCTAAATC
10431402 TTTCTATAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
56 5 0.08
57 30 0.45
58 29 0.44
59 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (58 bp):
GATTACCAGTCCAGGCTAAATCCCTAATATAACGTATGCTCGAGAGGTACTAGATTAG
Found at i:10434839 original size:43 final size:41
Alignment explanation
Indices: 10434791--10434911 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 41
10434781 TGTAATTACA
10434791 TGTAAGACCATGTTCAGGACATTGGCATTGTATTATGATTATG
1 TGTAAGACCATGTT-AGGACATTGGCATTGTA-TATGATTATG
* *
10434834 TGTAAGACCATGCTTAGGATATTGGCATCAT-TATATGATTTTG
1 TGTAAGACCATG-TTAGGACATTGGCAT--TGTATATGATTATG
*
10434877 TGTAAGACCATGTTTGGGACATTGGCATTG-ATATG
1 TGTAAGACCATG-TTAGGACATTGGCATTGTATATG
10434912 TGATAACATG
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 6 0.09
43 58 0.84
44 4 0.06
45 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (41 bp):
TGTAAGACCATGTTAGGACATTGGCATTGTATATGATTATG
Found at i:10434924 original size:43 final size:43
Alignment explanation
Indices: 10434785--10434930 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 43
10434775 CCGAGATGTA
*
10434785 ATTACATGTAAGACCATGTTCAGGACATTGGCATTG-TATTATG
1 ATTACATGTAAGACCATGTTTAGGACATTGGCATTGATA-TATG
** * * *
10434828 ATTATGTGTAAGACCATGCTTAGGATATTGGCA-TCATTATATG
1 ATTACATGTAAGACCATGTTTAGGACATTGGCATTGA-TATATG
*** * *
10434871 ATTTTGTGTAAGACCATGTTTGGGACATTGGCATTGATATGTG
1 ATTACATGTAAGACCATGTTTAGGACATTGGCATTGATATATG
* *
10434914 ATAACATGTAAGTCCAT
1 ATTACATGTAAGACCAT
10434931 ATCTGGGATA
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.01
43 78 0.94
44 4 0.05
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTTTAGGACATTGGCATTGATATATG
Found at i:10444338 original size:40 final size:40
Alignment explanation
Indices: 10444282--10444382 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 40
10444272 TATGTGCATA
* *
10444282 GCATTCGTGCGAGTTATTACAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTACAACCGGGTTAAGTCCCAAAG
*
10444322 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTACAACCGGGTTAAGTCCCAAAG
* *
10444362 GCATTCGTGCTGGTTGTTACA
1 GCATTCGTGCGGGTTATTACA
10444383 TCCGAGCCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTACAACCGGGTTAAGTCCCAAAG
Found at i:10455005 original size:40 final size:40
Alignment explanation
Indices: 10454949--10455049 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
10454939 TATGTGCATA
* *
10454949 GCATTCATGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGAGTTATTATAACCGGGTTAAGTCCCGAAG
10454989 GCATTCGTGCGAGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGAGTTATTATAACCGGGTTAAGTCCCGAAG
* *
10455029 GCATTCGTGCTAGTTGTTATA
1 GCATTCGTGCGAGTTATTATA
10455050 TCCGAGCCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGAGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:10455067 original size:40 final size:40
Alignment explanation
Indices: 10454949--10455067 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 40
10454939 TATGTGCATA
* * * ** *
10454949 GCATTCATGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGAGTTATTATAACCGAGCCAAATCCCGAAG
* ** *
10454989 GCATTCGTGCGAGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGAGTTATTATAACCGAGCCAAATCCCGAAG
* * * *
10455029 GCATTCGTGCTAGTTGTTATATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGAGTTATTATAACCGAGCCAAATCCCGAA
10455068 AGTATTTATG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGAGTTATTATAACCGAGCCAAATCCCGAAG
Found at i:10472241 original size:40 final size:40
Alignment explanation
Indices: 10472145--10472335 Score: 235
Period size: 40 Copynumber: 4.8 Consensus size: 40
10472135 TGGATGAAAA
* * *
10472145 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAT
* * *
10472184 CTGGGCTAAGTCCCGAAGGCACCTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAT
*
10472224 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAT
* *
10472264 CTGGGCTAAGTCCCGAAGGCAAT-TGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGC-ATCTGTGCGAGTTACT-AAAT
* * *
10472304 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGT
10472336 AGTTATATCC
Statistics
Matches: 133, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
39 33 0.25
40 96 0.72
41 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAT
Found at i:10472291 original size:80 final size:79
Alignment explanation
Indices: 10472142--10472335 Score: 282
Period size: 80 Copynumber: 2.4 Consensus size: 79
10472132 ATTTGGATGA
* * * *
10472142 AAACCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAATCTGGGCTAAGTCCCGAAGGCACC
1 AAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTAATCTGGGCTAAGTCCCGAAGGCAAC
10472207 TGTGCGAGTTACT-
66 TGTGCGAGTTACTC
* *
10472220 AAACCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCTGGGCTAAGTCCCGAAGGCA
1 AAA-CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACT-AATCTGGGCTAAGTCCCGAAGGCA
*
10472285 ATTGTGCGAGTTACTC
64 ACTGTGCGAGTTACTC
* *
10472301 TAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 AAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
10472336 AGTTATATCC
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 3 0.03
79 32 0.31
80 67 0.64
81 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (79 bp):
AAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTAATCTGGGCTAAGTCCCGAAGGCAAC
TGTGCGAGTTACTC
Found at i:10482486 original size:41 final size:41
Alignment explanation
Indices: 10482429--10482507 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
10482419 TGATGATATC
* *
10482429 GGAATGGAAATAGGATAGAGTTACTATGGATTTCTTATTGG
1 GGAATGAAAATAGGATAGAGTTACTATGAATTTCTTATTGG
*
10482470 GGAATGAAAATAGGATAGAGTTACTATGAATTTTTTAT
1 GGAATGAAAATAGGATAGAGTTACTATGAATTTCTTAT
10482508 CCGGGTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (41 bp):
GGAATGAAAATAGGATAGAGTTACTATGAATTTCTTATTGG
Found at i:10484838 original size:25 final size:25
Alignment explanation
Indices: 10484810--10484894 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
10484800 TTCAAACCAG
* *
10484810 AGGAGCTTACTGTTATTTAGCTCGT
1 AGGAGCTTACTGTTATTTAGCTTGA
** *
10484835 AGGAGCTTACCCTTATTCAGCTTGA
1 AGGAGCTTACTGTTATTTAGCTTGA
* *
10484860 AGGAGTTTACTGTTATTTAGCTTGG
1 AGGAGCTTACTGTTATTTAGCTTGA
10484885 AGGAGCTTAC
1 AGGAGCTTAC
10484895 CGTTTACAAC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (25 bp):
AGGAGCTTACTGTTATTTAGCTTGA
Found at i:10484853 original size:50 final size:50
Alignment explanation
Indices: 10484773--10484895 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
10484763 TAGGGTACCG
* * *
10484773 ATTTCAGCTCATATGAGCTTACCGTTATTCAAACCAG-AGGAGCTTACTGTT
1 ATTT-AGCTCGTAGGAGCTTACCCTTATTC-AACCAGAAGGAGCTTACTGTT
* ** *
10484824 ATTTAGCTCGTAGGAGCTTACCCTTATTCAGCTTGAAGGAGTTTACTGTT
1 ATTTAGCTCGTAGGAGCTTACCCTTATTCAACCAGAAGGAGCTTACTGTT
* *
10484874 ATTTAGCTTGGAGGAGCTTACC
1 ATTTAGCTCGTAGGAGCTTACC
10484896 GTTTACAACT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.05
50 55 0.89
51 4 0.06
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (50 bp):
ATTTAGCTCGTAGGAGCTTACCCTTATTCAACCAGAAGGAGCTTACTGTT
Found at i:10486516 original size:6 final size:6
Alignment explanation
Indices: 10486505--10486673 Score: 118
Period size: 6 Copynumber: 27.8 Consensus size: 6
10486495 AACCAAAATG
* * *
10486505 AGAATC AGAATC AGAATC AGTAA-G AGAATC A-ATATT AGTAA-C AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGA-ATC AG-AATC AGAATC
* * *
10486553 AGAATC AGAATC AAAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* * *
10486602 AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
10486650 AGGTGAT- AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
10486674 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 19, Indels: 32
0.72 0.11 0.18
Matches are distributed among these distances:
5 12 0.09
6 102 0.80
7 10 0.08
8 4 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:10486531 original size:24 final size:24
Alignment explanation
Indices: 10486505--10486645 Score: 153
Period size: 24 Copynumber: 5.8 Consensus size: 24
10486495 AACCAAAATG
*
10486505 AGAATCAGAATCAGAATCAGTAAG
1 AGAATCAGAATCAGAATCAGTAAC
* *
10486529 AGAATCA-ATATTAGTAA-CAG-AATT
1 AGAATCAGA-ATCAG-AATCAGTAA-C
* * *
10486553 AGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCA-GTAAC
10486578 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* *
10486602 AGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
10486626 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
10486646 AATTAGGTGA
Statistics
Matches: 96, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
23 5 0.05
24 69 0.72
25 21 0.22
26 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:10486550 original size:30 final size:31
Alignment explanation
Indices: 10486516--10486673 Score: 132
Period size: 31 Copynumber: 5.6 Consensus size: 31
10486506 GAATCAGAAT
* *
10486516 CAGAATCAGTAA-GAGAATCAATATTA-GTAA
1 CAGAATCAG-AATCAGAATCAAAATTAGGTAA
* *
10486546 CAGAATTAGAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAGAATCAAAATTAGGTAA
10486577 CAGAATCAGAATCAGAATC------A-GTAA
1 CAGAATCAGAATCAGAATCAAAATTAGGTAA
10486601 CAGAATCAGAATCAG--T----ATTA-GTAA
1 CAGAATCAGAATCAGAATCAAAATTAGGTAA
* *
10486625 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAAAATTAGGTAA
*
10486656 TAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
10486674 GTGAATGCAA
Statistics
Matches: 108, Mismatches: 8, Indels: 23
0.78 0.06 0.17
Matches are distributed among these distances:
22 1 0.01
24 38 0.35
25 1 0.01
26 1 0.01
29 2 0.02
30 24 0.22
31 41 0.38
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAAAATTAGGTAA
Found at i:10486630 original size:79 final size:79
Alignment explanation
Indices: 10486505--10486673 Score: 261
Period size: 79 Copynumber: 2.1 Consensus size: 79
10486495 AACCAAAATG
* *
10486505 AGAATCAGAATCAGAATCAGTAAGAGAATCAATATTAGTAACAGAATTAGAATCAGAATCAAAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAAT
10486570 TAGGTGACAGAATC
66 TAGGTGACAGAATC
* *
10486584 AGAATCAGAATCAGTAA-CAG-AATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGA
1 AGAATCAGAATCAG-AATCAGTAA-CAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAA
*
10486647 ATTAGGTGATAGAATC
64 ATTAGGTGACAGAATC
10486663 AGAATCAGAAT
1 AGAATCAGAAT
10486674 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
78 2 0.02
79 79 0.95
80 2 0.02
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAAAAT
TAGGTGACAGAATC
Found at i:10486820 original size:26 final size:26
Alignment explanation
Indices: 10486791--10486856 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
10486781 AGCATGGCTG
*
10486791 CCAGAACAGATATCATGACAGAGTCA
1 CCAGAACAGATATCATGACAGAGCCA
* ** **
10486817 CCAGATACAGACATTGTGGTAGAGCCA
1 CCAGA-ACAGATATCATGACAGAGCCA
10486844 CCAGAACAGATAT
1 CCAGAACAGATAT
10486857 TTGTGGCATC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCATGACAGAGCCA
Found at i:10486840 original size:27 final size:27
Alignment explanation
Indices: 10486810--10486878 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
10486800 ATATCATGAC
*
10486810 AGAGTCACCAGATACAGACA-TTGTGGT
1 AGAGCCACCAGA-ACAGACATTTGTGGT
* *
10486837 AGAGCCACCAGAACAGATATTTGTGGC
1 AGAGCCACCAGAACAGACATTTGTGGT
**
10486864 ATCGCCACCAGAACA
1 AGAGCCACCAGAACA
10486879 CTTCCTCCGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (27 bp):
AGAGCCACCAGAACAGACATTTGTGGT
Found at i:10487175 original size:27 final size:27
Alignment explanation
Indices: 10487137--10487250 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
10487127 TAGTGTTTTA
10487137 GTAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTGCG
10487164 GTAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTGCG
*
10487191 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTGCG
* * * * * *
10487218 ATAATTCTATCGTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTGCG
10487245 GTAATT
1 GTAATT
10487251 TCACAATCGA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTGCG
Found at i:10487289 original size:27 final size:27
Alignment explanation
Indices: 10487255--10487351 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
10487245 GTAATTTCAC
*
10487255 AATCGAGGATAAAACGATAATTTTCTA
1 AATCGAGGATAAAACGGTAATTTTCTA
* *
10487282 AA-CTGAGGGA-AAAATGGTAATTTTGTA
1 AATC-GA-GGATAAAACGGTAATTTTCTA
*
10487309 AATCGAGGGTAAAACGGTAATTTTAC-A
1 AATCGAGGATAAAACGGTAATTTT-CTA
*
10487336 AATCGAGGGTAAAACG
1 AATCGAGGATAAAACG
10487352 AGGGTAAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 3 0.05
27 52 0.88
28 4 0.07
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGATAAAACGGTAATTTTCTA
Found at i:10487324 original size:54 final size:54
Alignment explanation
Indices: 10487259--10487461 Score: 169
Period size: 54 Copynumber: 3.6 Consensus size: 54
10487249 TTTCACAATC
*
10487259 GAGGATAAAACGATAATTTTCTAAA-CTGAGGGAAAAATGGTAATTTTGTAAA-T
1 GAGGGTAAAACGATAATTTTCTAAATC-GAGGGAAAAATGGTAATTTTGTAAACT
* *
10487312 CGAGGGTAAAACGGTAATTTTAC-AAATCGAGGGTAAAACGAGGGTAAAATACTAATTCTGTAAA
1 -GAGGGTAAAACGATAATTTT-CTAAATCGAGGG-AAAA--ATGGT---A-A-T--TT-TGTAAA
10487376 CT
53 CT
* * * * *
10487378 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAAATTTGTAAACT
1 GAGGGTAAAACGATAATTTTCTAAATCGAGGGAAAAATGGTAATTTTGTAAACT
* *
10487432 GAGGGTAAAACGATAATTCTGTAAATCGAG
1 GAGGGTAAAACGATAATTTTCTAAATCGAG
10487462 AGTACTTTGG
Statistics
Matches: 125, Mismatches: 9, Indels: 30
0.76 0.05 0.18
Matches are distributed among these distances:
54 63 0.50
55 8 0.06
57 4 0.03
58 1 0.01
59 1 0.01
60 1 0.01
61 1 0.01
62 5 0.04
64 5 0.04
65 35 0.28
66 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.27
Consensus pattern (54 bp):
GAGGGTAAAACGATAATTTTCTAAATCGAGGGAAAAATGGTAATTTTGTAAACT
Found at i:10487368 original size:38 final size:38
Alignment explanation
Indices: 10487306--10487389 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 38
10487296 TGGTAATTTT
* **
10487306 GTAAATCGAGGGTAAAACGGTAATT-T-TACAAATCGAGG
1 GTAAAACGAGGGTAAAACACTAATTCTGTA-AAAT-GAGG
* *
10487344 GTAAAACGAGGGTAAAATACTAATTCTGTAAACTGAGG
1 GTAAAACGAGGGTAAAACACTAATTCTGTAAAATGAGG
10487382 GTAAAACG
1 GTAAAACG
10487390 GTAATTCTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
38 33 0.85
39 4 0.10
40 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACACTAATTCTGTAAAATGAGG
Found at i:10487374 original size:27 final size:27
Alignment explanation
Indices: 10487344--10487461 Score: 109
Period size: 27 Copynumber: 4.4 Consensus size: 27
10487334 CAAATCGAGG
*
10487344 GTAAAACGAGGGTAAAATACTAATTCT
1 GTAAAACGAGGGTAAAATAGTAATTCT
**
10487371 GT-AAACTGAGGGTAAAACGGTAATTCT
1 GTAAAAC-GAGGGTAAAATAGTAATTCT
* *
10487398 GTAAATCGAGGGTAAAATGGTAAATT-T
1 GTAAAACGAGGGTAAAATAGT-AATTCT
*
10487425 GT-AAACTGAGGGTAAAA-CGATAATTCT
1 GTAAAAC-GAGGGTAAAATAG-TAATTCT
*
10487452 GTAAATCGAG
1 GTAAAACGAG
10487462 AGTACTTTGG
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
26 12 0.16
27 54 0.71
28 10 0.13
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (27 bp):
GTAAAACGAGGGTAAAATAGTAATTCT
Found at i:10487390 original size:65 final size:66
Alignment explanation
Indices: 10487281--10487414 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 66
10487271 ATAATTTTCT
** * *
10487281 AAACTGAGGGAAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGT
1 AAACTGAGGGAAAAATACTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGT
10487346 A
66 A
* **
10487347 AAAC-GAGGGTAAAATACTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
1 AAACTGAGGGAAAAATACTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTACAAATCGAGGG
10487410 TA
65 TA
10487412 AAA
1 AAA
10487415 TGGTAAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 1 0.02
65 55 0.92
66 4 0.07
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.25
Consensus pattern (66 bp):
AAACTGAGGGAAAAATACTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGT
A
Found at i:10487936 original size:18 final size:18
Alignment explanation
Indices: 10487913--10487949 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10487903 ACTCTTATGT
10487913 TAGCTTCCCGATGCGGGA
1 TAGCTTCCCGATGCGGGA
10487931 TAGCTTCCCGATGCGGGA
1 TAGCTTCCCGATGCGGGA
10487949 T
1 T
10487950 CCCTCCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.24
Consensus pattern (18 bp):
TAGCTTCCCGATGCGGGA
Found at i:10489463 original size:18 final size:17
Alignment explanation
Indices: 10489435--10489468 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10489425 GACCTTAGCC
10489435 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
10489452 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
10489469 CCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:10489487 original size:6 final size:6
Alignment explanation
Indices: 10489456--10489644 Score: 127
Period size: 6 Copynumber: 31.3 Consensus size: 6
10489446 AAGAAACATT
* * * * * * *
10489456 ATCAGA ATTAGA ACCAAA ATGAGA ATCGGA ATCAGA ATCAGT AGCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * * *
10489504 ATCATA ATTAGA ATCA-A TATTAGTA A-CAGA ATTAGA ATCAGA ATAAAA
1 ATCAGA ATCAGA ATCAGA -ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
10489552 ATTAG- GTGACAGA ATCAGA ACCAGA ATCAGTA A-CAGA ATCAGA ATCAGA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA
* *
10489601 ATCAGT ATTAGTA A-CAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
10489645 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 35, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
5 8 0.06
6 121 0.88
7 6 0.04
8 2 0.01
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:10489518 original size:30 final size:30
Alignment explanation
Indices: 10489477--10489641 Score: 155
Period size: 30 Copynumber: 5.7 Consensus size: 30
10489467 AACCAAAATG
* *
10489477 AGAATCGGAATCAGAATCAGTAGCAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
* * * *
10489507 ATAATTAGAATCA-ATATTAGTAACAGAATT
1 AGAATCAGAATCAGA-ATCAGTAACAGAATC
* * *
10489537 AGAATCAGAATAAAAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATCA-GTAACAGAATC
*
10489562 AGAATCAGAACCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
* *
10489592 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
10489622 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
10489642 AATGTGAATG
Statistics
Matches: 107, Mismatches: 19, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
24 2 0.02
25 15 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 82 0.77
31 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGTAACAGAATC
Found at i:10489973 original size:27 final size:27
Alignment explanation
Indices: 10489934--10490127 Score: 282
Period size: 27 Copynumber: 7.2 Consensus size: 27
10489924 TAGTGTTTTA
*
10489934 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
10489961 ATAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
10489988 GTAATTCTA-CCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
10490014 ATAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
10490041 GTAATTCTACCTTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
10490068 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
10490095 GTAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
10490122 GTAATT
1 GTAATT
10490128 TCACAATCGA
Statistics
Matches: 150, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 24 0.16
27 126 0.84
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:10490073 original size:80 final size:80
Alignment explanation
Indices: 10489935--10490127 Score: 298
Period size: 80 Copynumber: 2.4 Consensus size: 80
10489925 AGTGTTTTAG
* *
10489935 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTGCGGTAATTCTA-CC
1 TAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCC
10489999 TACAGGGGTATTTCGA
65 TACAGGGGTATTTCGA
* *
10490015 TAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTGCGATAATTCTACCC
1 TAATTCTACC-TACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCC
*
10490080 TACAGGGGTATTTCGG
65 TACAGGGGTATTTCGA
*
10490096 TAATTCTATCCTACAAGGGTATTTCAGTAATT
1 TAATTCTA-CCTACAGGGGTATTTCAGTAATT
10490128 TCACAATCGA
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
79 2 0.02
80 55 0.53
81 44 0.43
82 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (80 bp):
TAATTCTACCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCT
ACAGGGGTATTTCGA
Found at i:10490179 original size:27 final size:27
Alignment explanation
Indices: 10490132--10490354 Score: 256
Period size: 27 Copynumber: 8.3 Consensus size: 27
10490122 GTAATTTCAC
* *
10490132 AATCGAGGATAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
10490159 AAGT-AAGGGTAAAATGGTAATTTTGTA
1 AA-TCGAGGGTAAAACGGTAATTTTGTA
10490186 AATCGAGGGTAAAACGGTAATTTTAG-A
1 AATCGAGGGTAAAACGGTAATTTT-GTA
* *
10490213 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* ***
10490240 AATCGAGGGTAAAACAGTAATTCCATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
10490267 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
10490294 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
10490321 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
10490348 AATCGAG
1 AATCGAG
10490355 AGTACTTTGG
Statistics
Matches: 168, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.02
27 160 0.95
28 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:10490369 original size:81 final size:80
Alignment explanation
Indices: 10490132--10490354 Score: 288
Period size: 81 Copynumber: 2.8 Consensus size: 80
10490122 GTAATTTCAC
* * * * * * *
10490132 AATCGAGGATAAAACGATAATTTTGTAAAGTAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAA-TGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
*
10490197 AAACGGTAATTTTAGA
65 AAACGGTAATTCTAGA
* * *
10490213 AATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCCATAAA-CTGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTGTAAAT-GAGGGTAAAACGGTAATTCTATAAATC-GAGGGT
10490277 AAAACGGTAATTCT-GTA
64 AAAACGGTAATTCTAG-A
10490294 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAG
1 AATCGAGGGTAAAATGGTAATTTTGTAAA-TGAGGGTAAAACGGTAATTCTATAAATCGAG
10490355 AGTACTTTGG
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
80 3 0.02
81 118 0.96
82 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (80 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAA
AACGGTAATTCTAGA
Found at i:10490371 original size:54 final size:54
Alignment explanation
Indices: 10490132--10490354 Score: 297
Period size: 54 Copynumber: 4.1 Consensus size: 54
10490122 GTAATTTCAC
* * * * * *
10490132 AATCGAGGATAAAACGATAATTTTGTAAAGTAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTA
*
10490186 AATCGAGGGTAAAACGGTAATTTTAG-AAA-TCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTT-GTAAACT-GAGGGTAAAACGGTAATTCTGTA
* ***
10490240 AATCGAGGGTAAAACAGTAATTCCATAAACTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTA
* *
10490294 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTA
10490348 AATCGAG
1 AATCGAG
10490355 AGTACTTTGG
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 147 0.98
55 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTGTA
Found at i:10490381 original size:81 final size:79
Alignment explanation
Indices: 10490122--10490383 Score: 285
Period size: 81 Copynumber: 3.2 Consensus size: 79
10490112 GGGTATTTCA
* * * * * * * *
10490122 GTAATTTCACAATCGAGGATAAAACGATAATTTTGTAAAGTAAGGGTAAAATGGTAATTTTGTAA
1 GTAATTTTACAATCGAGGGTAAAATGGTAATTTTGTAAA-TGAGGGTAAAACGGTAATTCTATAA
10490187 ATCGAGGGTAAAACG
65 ATCGAGGGTAAAACG
* * * *
10490202 GTAATTTTAGAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCCATA
1 GTAATTTTA-CAATCGAGGGTAAAATGGTAATTTTGTAAAT-GAGGGTAAAACGGTAATTCTATA
10490267 AA-CTGAGGGTAAAACG
64 AATC-GAGGGTAAAACG
10490283 GTAATTCTGTA-AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAACGGTAATTCTAT
1 GTAATT-T-TACAATCGAGGGTAAAATGGTAATTTTGTAAA-TGAGGGTAAAACGGTAATTCTAT
* ****
10490347 AAATCGAGAGTACTTTG
63 AAATCGAGGGTAAAACG
10490364 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAA-TCGAGGG
10490384 CATTTCAGTA
Statistics
Matches: 153, Mismatches: 20, Indels: 17
0.81 0.11 0.09
Matches are distributed among these distances:
79 2 0.01
80 13 0.08
81 133 0.87
82 3 0.02
83 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.29
Consensus pattern (79 bp):
GTAATTTTACAATCGAGGGTAAAATGGTAATTTTGTAAATGAGGGTAAAACGGTAATTCTATAAA
TCGAGGGTAAAACG
Found at i:10492380 original size:6 final size:6
Alignment explanation
Indices: 10492369--10492537 Score: 109
Period size: 6 Copynumber: 27.8 Consensus size: 6
10492359 AACCAAAATG
* *
10492369 AGAATC AGAATC AGAATC AGTAA-C AGAATC A-ATATT AGTAA-C AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGA-ATC AG-AATC AGAATC
* * *
10492417 AGAATC AGAATC AAAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* * * * *
10492466 CGAATC AGAATC AGTATT AGTAA-C AGAATC AAAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
10492514 AG-GTGAC AGAATC AGAATC AGAAT
1 AGAAT--C AGAATC AGAATC AGAAT
10492538 GGAATGCAAT
Statistics
Matches: 125, Mismatches: 22, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
5 11 0.09
6 101 0.81
7 10 0.08
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Done.