Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 35 of 328
Found at i:10164340 original size:19 final size:17
Alignment explanation
Indices: 10164325--10164358 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10164315 TTTTTATGAA
10164325 CTTTTTTAAATTTTATTG
1 CTTTTTTAAATTTTA-TG
*
10164343 TTTTTTTAAATTTTAT
1 CTTTTTTAAATTTTAT
10164359 TTTTCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 1 0.07
18 14 0.93
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
CTTTTTTAAATTTTATG
Found at i:10168058 original size:36 final size:36
Alignment explanation
Indices: 10168011--10168084 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
10168001 CTGCCAGATT
*
10168011 AAAAACTGTTATACTTGGGTGAATAATGGTAATAAG
1 AAAAACTGTTATACTTAGGTGAATAATGGTAATAAG
10168047 AAAAACTGTTATACTTAGGTGAATAATGGTAATAAG
1 AAAAACTGTTATACTTAGGTGAATAATGGTAATAAG
10168083 AA
1 AA
10168085 TGATACTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (36 bp):
AAAAACTGTTATACTTAGGTGAATAATGGTAATAAG
Found at i:10175117 original size:27 final size:26
Alignment explanation
Indices: 10175057--10175118 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
10175047 ATTTTATTTT
10175057 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
10175083 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
10175111 ATTTTATT
1 ATTTTATT
10175119 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:10176314 original size:45 final size:46
Alignment explanation
Indices: 10176217--10176314 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
10176207 AATATTCCCA
* *
10176217 TATTCTTGAGTCTGCAGCAAATGCAGGAACTCGAAACCTATTTCCG
1 TATTCTTAAGTCTGCAGCAAATGCAGGAACTCGAAACCTACTTCCG
*
10176263 TGTTCTTAAGTCTGCAGCAAATGCAGGAACTC-AAACCTACTTCCG
1 TATTCTTAAGTCTGCAGCAAATGCAGGAACTCGAAACCTACTTCCG
10176308 TATTCTT
1 TATTCTT
10176315 GAGTTCGCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
45 18 0.38
46 30 0.62
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (46 bp):
TATTCTTAAGTCTGCAGCAAATGCAGGAACTCGAAACCTACTTCCG
Found at i:10180220 original size:102 final size:102
Alignment explanation
Indices: 10180039--10180232 Score: 293
Period size: 102 Copynumber: 1.9 Consensus size: 102
10180029 TTATAGCTTT
*
10180039 GATCTACTCCGTTGGAACTTCAAGAAGGTAAAAATTAGTAATTTCAACCTGCTCCACTGCAACTT
1 GATCTACTCCGCTGGAACTTCAAGAAGGTAAAAATTAGTAATTTCAACCTGCTCCACTGCAACTT
* *
10180104 CAGGGAGATCAGGCTGGTGGCTTCAATTTGTAGTTTC
66 CAGGGAGATAAGGCTAGTGGCTTCAATTTGTAGTTTC
* * * *
10180141 GATCTACTCTGCTGGAACTTCAATG-AGGTAAGAATTGGTAGTTTCAACCTGCTCCA-TCGCAAC
1 GATCTACTCCGCTGGAACTTCAA-GAAGGTAAAAATTAGTAATTTCAACCTGCTCCACT-GCAAC
10180204 TTCAGGGAGATAAGGCTAGTGGCTTCAAT
64 TTCAGGGAGATAAGGCTAGTGGCTTCAAT
10180233 CTGCTTTACT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
101 1 0.01
102 81 0.98
103 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (102 bp):
GATCTACTCCGCTGGAACTTCAAGAAGGTAAAAATTAGTAATTTCAACCTGCTCCACTGCAACTT
CAGGGAGATAAGGCTAGTGGCTTCAATTTGTAGTTTC
Found at i:10180361 original size:143 final size:143
Alignment explanation
Indices: 10180199--10180563 Score: 514
Period size: 143 Copynumber: 2.6 Consensus size: 143
10180189 CTGCTCCATC
* * **
10180199 GCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTTTACTGCAACTTCAGGAAGATAAGAT
1 GCAAATTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
* * *
10180264 TCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCTAGGGAAACAAGATTGGGTTTCTTC
66 CCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
*
10180329 AATCTGGTCCGCT
131 AATCTGCTCCGCT
* * *
10180342 GCAAATTTAGGGGGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGT
1 GCAAATTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
* * * * * *
10180407 CCGCCATAATTCGTAGCTTCAATTTGTTCCACTGCAACTCCAGGGAAATAAGATTCGTTTTCTTT
66 CCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
* *
10180472 AGTCTGCTCCGGT
131 AATCTGCTCCGCT
* * * * *
10180485 GCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCCATTGCAACTTCAGGAAGATAGGAT
1 GCAAATTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
10180550 CCGCCATAATTTGT
66 CCGCCATAATTTGT
10180564 TAGGGGTGAG
Statistics
Matches: 194, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
143 194 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (143 bp):
GCAAATTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
CCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
AATCTGCTCCGCT
Found at i:10180403 original size:44 final size:44
Alignment explanation
Indices: 10180325--10180545 Score: 129
Period size: 44 Copynumber: 4.8 Consensus size: 44
10180315 GATTGGGTTT
* * * * ** *
10180325 CTTCAATCTGGTCCGCTGCAAATTTAGGGGGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTGG
* * *
10180369 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTCCGCCATAATTCGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA-----G-----ACTGGTGG
* * * * * **
10180423 CTTCAATTTGTTCCACTGCAACTCCAGGGAA-ATAAGATTCGTTTT
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACT-GGTGG
* * **
10180468 CTTTAGTCTGCTCCGGTGCAACTTCAGGAAGATAAGACTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTGG
*
10180512 CTTCAATCTGCTCCATTGCAACTTCAGGAAGATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
10180546 GGATCCGCCA
Statistics
Matches: 132, Mismatches: 32, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
44 68 0.52
45 27 0.20
49 2 0.02
54 31 0.23
55 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTGG
Found at i:10182016 original size:46 final size:46
Alignment explanation
Indices: 10181958--10182107 Score: 203
Period size: 46 Copynumber: 3.3 Consensus size: 46
10181948 AAATTTGGTT
* * *
10181958 TCTTCTATCCATCCCACTGCAACTTAGGGGTATGGGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCA
*
10182004 TCTTCAATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCA
** * * *
10182050 TCTTCAATCCATCCCTTTACAACTCAGGGGTACATGATTTGTAT-A
1 TCTTCAATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCA
10182095 TTCTTCAATCCAT
1 -TCTTCAATCCAT
10182108 TGATCTGGGT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
46 93 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCA
Found at i:10182952 original size:19 final size:19
Alignment explanation
Indices: 10182930--10182989 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
10182920 CCTTGGCCTC
10182930 TCTTTTTTTATTTTTCTTT
1 TCTTTTTTTATTTTTCTTT
*
10182949 TCTTTTTTTATATTTTTTTGT
1 TCTTTTTTTAT-TTTTCTT-T
* *
10182970 TGTTTTTTTTTTTTTCTTT
1 TCTTTTTTTATTTTTCTTT
10182989 T
1 T
10182990 GAAGATACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 13 0.37
20 12 0.34
21 10 0.29
ACGTcount: A:0.05, C:0.07, G:0.03, T:0.85
Consensus pattern (19 bp):
TCTTTTTTTATTTTTCTTT
Found at i:10182956 original size:21 final size:20
Alignment explanation
Indices: 10182932--10182990 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
10182922 TTGGCCTCTC
*
10182932 TTTTTTTATTTTTCTTTTCT
1 TTTTTTTATTTTTCTTTTGT
10182952 TTTTTTATATTTTT-TTGTTGT
1 TTTTTT-TATTTTTCTT-TTGT
10182973 TTTTTTT-TTTTTCTTTTG
1 TTTTTTTATTTTTCTTTTG
10182991 AAGATACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 8 0.23
20 11 0.31
21 16 0.46
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.85
Consensus pattern (20 bp):
TTTTTTTATTTTTCTTTTGT
Found at i:10189881 original size:15 final size:16
Alignment explanation
Indices: 10189861--10189893 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10189851 CCAAGTTTAA
*
10189861 TTTTA-TTATTTTGTT
1 TTTTATTTATTTGGTT
10189876 TTTTATTTATTTGGTT
1 TTTTATTTATTTGGTT
10189892 TT
1 TT
10189894 GGGCTCAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTTGGTT
Found at i:10195318 original size:53 final size:53
Alignment explanation
Indices: 10195238--10195344 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
10195228 ATTCAAATGT
*
10195238 ATATAATACAATGGACCGGGTAACAAGTGTGATTGAGTTTCGGTCTGAATTAA
1 ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
*
10195291 ATATAATACAATGGACCGGGTAACAAGTGTGACTGGGTTTCGGTCTGAATTAA
1 ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
10195344 A
1 A
10195345 ATTTTGAGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (53 bp):
ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
Found at i:10195578 original size:29 final size:32
Alignment explanation
Indices: 10195526--10195627 Score: 106
Period size: 31 Copynumber: 3.3 Consensus size: 32
10195516 CCATTTTAAA
*
10195526 AATTATTTTAAAAATATTAATGATTAAATTAT
1 AATTATTTTAAAAATATTAGTGATTAAATTAT
*
10195558 AATT-TTTT-AAAAT-TTAGTGATTAAATCA-
1 AATTATTTTAAAAATATTAGTGATTAAATTAT
* * * **
10195586 GATTATTTTGAAAATATTAGTCACCAAATTAT
1 AATTATTTTAAAAATATTAGTGATTAAATTAT
10195618 AATT-TTTTAA
1 AATTATTTTAA
10195628 CGTTTAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.05
29 17 0.30
30 10 0.18
31 20 0.35
32 7 0.12
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (32 bp):
AATTATTTTAAAAATATTAGTGATTAAATTAT
Found at i:10203333 original size:99 final size:99
Alignment explanation
Indices: 10203162--10203360 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
10203152 CTATTACAAG
10203162 AGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAATACTGGGGGGAGGCTGTTTTAACTGCTACTC
1 AGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAATACTGGGGGGAGGCTGTTTTAACTGCTACTC
10203227 ATATGATAAATAGATTGCCTACAAAAGTCCTTGA
66 ATATGATAAATAGATTGCCTACAAAAGTCCTTGA
10203261 AGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAATACTGGGGGGAGGCTGTTTTAACTGCTACTC
1 AGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAATACTGGGGGGAGGCTGTTTTAACTGCTACTC
10203326 ATATGATAAATAGATTGCCTACAAAAGTCCTTGA
66 ATATGATAAATAGATTGCCTACAAAAGTCCTTGA
10203360 A
1 A
10203361 TCTCAAAGTC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (99 bp):
AGCCCTCTTGTTCCAAAAAAATGTCCCTAAACAATACTGGGGGGAGGCTGTTTTAACTGCTACTC
ATATGATAAATAGATTGCCTACAAAAGTCCTTGA
Found at i:10203728 original size:33 final size:33
Alignment explanation
Indices: 10203686--10203776 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
10203676 TTTCTTCTTG
**
10203686 ACATTCCAGCTATTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
10203719 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
10203752 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
10203777 TGAAACAGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.30, C:0.41, G:0.10, T:0.20
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:10221575 original size:33 final size:33
Alignment explanation
Indices: 10221538--10221661 Score: 230
Period size: 33 Copynumber: 3.8 Consensus size: 33
10221528 CTCTGTTTCA
10221538 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
10221571 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
10221604 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
10221637 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
10221662 CAAGAAGAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.18, C:0.10, G:0.43, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:10236411 original size:2 final size:2
Alignment explanation
Indices: 10236404--10236440 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10236394 GCCAACTGAT
10236404 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10236441 TTGCTGATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10237615 original size:372 final size:369
Alignment explanation
Indices: 10236926--10237672 Score: 1307
Period size: 372 Copynumber: 2.0 Consensus size: 369
10236916 ATTGGTCAAT
10236926 TTGAGAAATGGATTAATAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATTC
1 TTGAGAAATGGATTAATAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATTC
10236991 AATAGTTTTGTACGGTCTTGTAAAAAATTGTTACCAAAAGGAACAAAAAATTAAGACCATTCATA
66 AATAGTTTTGTACGGTCTTGTAAAAAATTGTTACCAAAAGGAAC---AAATTAAGACCATTCATA
* *
10237056 CTAACCTGGGCAGTTCTTAAGCAATCAAGCTTCGATCCTCCTGTTGGAAGATGCATCGTTGATAA
128 CTAACCTGGGCAATTCTTAAGCAATCAAGCTTCGATCCTCCTGTTGGAAGATACATCGTTGATAA
*
10237121 TATTATTATTGTATAAAAATGATTCATATATGTGAGAGGTCAGGCAAGTAAGAGCGGGTGGTGAC
193 TATTATTATTGTATAAAAATGATTCATATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTGGTGAC
10237186 TAAAATTAATCTCGAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTTGTTG
258 TAAAATTAATCTCGAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTTGTTG
* *
10237251 ATATTGAGCAACTTAGTCAATTACATAATTTTGTATTGTGTCATAAA
323 ATATTGAGCAACATAGTCAATTACATAACTTTGTATTGTGTCATAAA
*
10237298 TTGAGAAATGGATTAATCAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGACAATT
1 TTGAGAAATGGATTAAT-AGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATT
* * *
10237363 CAATAGTTTTGTACGGTCTTGTAAAAAATTGTTACCAAAAGTAAC-AATTAAGACCGTTCATATT
65 CAATAGTTTTGTACGGTCTTGTAAAAAATTGTTACCAAAAGGAACAAATTAAGACCATTCATACT
*
10237427 AACCTGGGCAATTCTTAAGCAATCAAGCTTCTATCCTCCTGTTGGAAGATACATCGTTGATAATA
130 AACCTGGGCAATTCTTAAGCAATCAAGCTTCGATCCTCCTGTTGGAAGATACATCGTTGATAATA
* *
10237492 TTATTATTGTATAAAAATGATTCATATAATATGTAAGAGGTTAGGTAAGTAAGAGCGGGTGGTGA
195 TTATTATTGTATAAAAATGATTC--AT-ATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTGGTGA
*
10237557 CTAAAATTAATCTCGAGAAAACTTATGATATATTGGATTGGAATTTTATAGAGGATGTACTTGTT
257 CTAAAATTAATCTCGAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTTGTT
10237622 GATATTGAGCAACATAGTCAATTACATAACTTTGTATTGTGTCATAAA
322 GATATTGAGCAACATAGTCAATTACATAACTTTGTATTGTGTCATAAA
10237670 TTG
1 TTG
10237673 CTTTCTATGT
Statistics
Matches: 358, Mismatches: 13, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
369 102 0.28
371 2 0.01
372 164 0.46
373 90 0.25
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (369 bp):
TTGAGAAATGGATTAATAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATTC
AATAGTTTTGTACGGTCTTGTAAAAAATTGTTACCAAAAGGAACAAATTAAGACCATTCATACTA
ACCTGGGCAATTCTTAAGCAATCAAGCTTCGATCCTCCTGTTGGAAGATACATCGTTGATAATAT
TATTATTGTATAAAAATGATTCATATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTGGTGACTAA
AATTAATCTCGAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTTGTTGATA
TTGAGCAACATAGTCAATTACATAACTTTGTATTGTGTCATAAA
Found at i:10240221 original size:14 final size:14
Alignment explanation
Indices: 10240202--10240228 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10240192 ATAAAATAAT
10240202 AATAGTAATAATAC
1 AATAGTAATAATAC
10240216 AATAGTAATAATA
1 AATAGTAATAATA
10240229 ATAAAGAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
AATAGTAATAATAC
Found at i:10243816 original size:2 final size:2
Alignment explanation
Indices: 10243809--10243888 Score: 76
Period size: 2 Copynumber: 41.0 Consensus size: 2
10243799 ATATTTTCTT
* *
10243809 AG AG AG AG AG AG AG AG AG ATG -G AG AG AG GG AG AG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG
* * * *
10243851 AG A- AG -G AG AG AG AA AG GG AG AG AG GG GG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10243889 GGAGGGAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
1 3 0.05
2 60 0.94
3 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.55, T:0.01
Consensus pattern (2 bp):
AG
Found at i:10243891 original size:12 final size:12
Alignment explanation
Indices: 10243809--10243921 Score: 104
Period size: 12 Copynumber: 9.4 Consensus size: 12
10243799 ATATTTTCTT
*
10243809 AGAGAGAGAGAG
1 AGAGAGAGGGAG
10243821 AGAGAGATGGAGAG
1 AGAGAGA-GG-GAG
*
10243835 AGGGAGAGGGAG
1 AGAGAGAGGGAG
*
10243847 AGAGAGAAGGAG
1 AGAGAGAGGGAG
*
10243859 AGAGAAAGGGAG
1 AGAGAGAGGGAG
10243871 AGAG-G-GGGAG
1 AGAGAGAGGGAG
10243881 AGAGAGAGGGAG
1 AGAGAGAGGGAG
* * *
10243893 GGAGGGAGGAAG
1 AGAGAGAGGGAG
* *
10243905 GGAGGGAGGGAG
1 AGAGAGAGGGAG
*
10243917 GGAGA
1 AGAGA
10243922 AGGAGCATTA
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
10 9 0.11
11 1 0.01
12 63 0.74
13 3 0.04
14 9 0.11
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.01
Consensus pattern (12 bp):
AGAGAGAGGGAG
Found at i:10243893 original size:4 final size:4
Alignment explanation
Indices: 10243876--10243920 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
10243866 GGGAGAGAGG
* * *
10243876 GGGA GAGA GAGA GGGA GGGA GGGA GGAA GGGA GGGA GGGA GGGA G
1 GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA G
10243921 AAGGAGCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (4 bp):
GGGA
Found at i:10248729 original size:2 final size:2
Alignment explanation
Indices: 10248722--10248799 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
10248712 AATGATTGGA
10248722 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10248764 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10248800 CCATAGAAAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10254657 original size:23 final size:22
Alignment explanation
Indices: 10254596--10254672 Score: 72
Period size: 23 Copynumber: 3.6 Consensus size: 22
10254586 TAAGATACTT
10254596 TATATATTATTTAT-T-TTA--
1 TATATATTATTTATATATTATC
* *
10254614 TAAATATTAGTTATATATTATC
1 TATATATTATTTATATATTATC
* *
10254636 TATTATATTATTTTTATCTTATC
1 TA-TATATTATTTATATATTATC
*
10254659 TATAAATTATTTAT
1 TATATATTATTTAT
10254673 TTTGTTATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
18 12 0.26
19 1 0.02
20 3 0.07
22 12 0.26
23 18 0.39
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (22 bp):
TATATATTATTTATATATTATC
Found at i:10255069 original size:19 final size:19
Alignment explanation
Indices: 10255045--10255087 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10255035 ATGTTTCTAT
10255045 TATTTAATATTCCTTATA-A
1 TATTT-ATATTCCTTATATA
* *
10255064 TATTTATCTTTCTTATATA
1 TATTTATATTCCTTATATA
10255083 TATTT
1 TATTT
10255088 TTTATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTATATTCCTTATATA
Found at i:10255105 original size:15 final size:14
Alignment explanation
Indices: 10255063--10255105 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
10255053 ATTCCTTATA
*
10255063 ATATTTATCTTTCTT
1 ATATATATCTTT-TT
10255078 ATATATAT-TTTTT
1 ATATATATCTTTTT
10255091 ATATATATCTATTTT
1 ATATATATCT-TTTT
10255106 GTTTTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 11 0.44
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATATATCTTTTT
Found at i:10258018 original size:40 final size:40
Alignment explanation
Indices: 10257916--10258095 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 40
10257906 TCGAATGGTG
* * * *
10257916 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
10257957 TCCGGGTCAACTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
10257997 ACTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
10258037 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
10258078 -CCGGGCTATGTCCCGAAG
1 TCCGGGTTAAGTCCCGAAG
10258096 ACAATCGAGC
Statistics
Matches: 113, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
40 86 0.76
41 27 0.24
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10258091 original size:80 final size:80
Alignment explanation
Indices: 10257917--10258109 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 80
10257907 CGAATGGTGT
* * * *
10257917 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
10257982 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * * *
10257998 CTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
10258062 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
10258078 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
10258110 CGCTATATCC
Statistics
Matches: 92, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
79 1 0.01
80 67 0.73
81 24 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:10258116 original size:40 final size:40
Alignment explanation
Indices: 10258038--10258121 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
10258028 GTTATTAAAT
* * *
10258038 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
10258078 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
10258118 CCGG
1 CCGG
10258122 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:10266091 original size:40 final size:40
Alignment explanation
Indices: 10265995--10266173 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
10265985 CGAATGGTGT
* * * *
10265995 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
10266036 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
10266076 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
10266116 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
10266156 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
10266174 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 89 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:10266134 original size:80 final size:80
Alignment explanation
Indices: 10265995--10266187 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
10265985 CGAATGGTGT
* * * *
10265995 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
10266060 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
10266076 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
10266140 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
10266156 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
10266188 CGCTATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:10266194 original size:40 final size:40
Alignment explanation
Indices: 10266116--10266199 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
10266106 GTTATTAAAT
* * *
10266116 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
10266156 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
10266196 CCGG
1 CCGG
10266200 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:10272455 original size:14 final size:14
Alignment explanation
Indices: 10272436--10272466 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10272426 CGGGACCGCT
10272436 AAACCGAGTCACCG
1 AAACCGAGTCACCG
10272450 AAACCGAGTCACCG
1 AAACCGAGTCACCG
10272464 AAA
1 AAA
10272467 TGTTTGAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.32, G:0.19, T:0.06
Consensus pattern (14 bp):
AAACCGAGTCACCG
Found at i:10272897 original size:21 final size:21
Alignment explanation
Indices: 10272872--10272912 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10272862 TGTTCATCTT
10272872 TTTTTTCA-TTCTTTGAGCTG
1 TTTTTTCATTTCTTTGAGCTG
10272892 TTTTTTCATTTCTTTGAGCTG
1 TTTTTTCATTTCTTTGAGCTG
10272913 AAAATTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.61
Consensus pattern (21 bp):
TTTTTTCATTTCTTTGAGCTG
Found at i:10274222 original size:40 final size:40
Alignment explanation
Indices: 10274126--10274304 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
10274116 CGAATGGTGT
* * * *
10274126 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
10274167 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
10274207 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
10274247 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
10274287 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
10274305 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 89 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:10274265 original size:80 final size:80
Alignment explanation
Indices: 10274126--10274318 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
10274116 CGAATGGTGT
* * * *
10274126 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
10274191 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
10274207 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
10274271 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
10274287 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
10274319 CGCTATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:10274325 original size:40 final size:40
Alignment explanation
Indices: 10274247--10274330 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
10274237 GTTATTAAAT
* * *
10274247 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
10274287 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
10274327 CCGG
1 CCGG
10274331 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:10278768 original size:14 final size:14
Alignment explanation
Indices: 10278747--10278787 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10278737 TTTCAACTTG
10278747 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
10278761 TGCAACTTGCAAAT
1 CACAACTTGCACAT
10278775 CACAACTTGCACA
1 CACAACTTGCACA
10278788 ATTAGGTAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:10280588 original size:2 final size:2
Alignment explanation
Indices: 10280583--10280611 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10280573 ATATTCTCTT
10280583 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10280612 AAGAAGAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10281263 original size:837 final size:830
Alignment explanation
Indices: 10279835--10281445 Score: 2110
Period size: 837 Copynumber: 1.9 Consensus size: 830
10279825 CAACACAGTC
*
10279835 ACTTACACTTTCATAATATCAGCTTACAATTAACTTAAAAAGAAGAGACAAGTAACAATTTTGAA
1 ACTTACACTTTCATAATAACAGCTTACAATTAACTTAAAAAGAAGAGACAAGTAACAATTTTGAA
* * * * * *
10279900 GTGTTATAAACAAGCAAGACATGTGTTAAAATGCTTATGCAATTAACTACTACTTCATATTTACT
66 GTCTTATAAAAAAGCAAGACATGTGTTAAAATGCTTATACAATTAACCACTACATCACATTTACT
*
10279965 AAACCATTCAGCTTGGTCTTCTTGTCTTCATGGAAGAATCTGAAAAAGATAAGGATGAAACCATC
131 AAACCATTCAGCTTGGTCTTCTTGTCTTCATGGAAGAACCTGAAAAAGATAAGGATGAAACCATC
*
10280030 ATACAACCCCCCCCCCCCAAAAAAAAAACCAATGCAATAAACCTTACAACATAGATATAATTACT
196 ATACAA-----CCCCCCCAAAAAAAAAACCAATGCAATAAACC-T-CAACATAGACATAATTACT
* * ** *
10280095 AACCTTGGATGATATTGTGGGGAGAGATAACCACAATTTTTTTAGAGAGAGAGAGAGGACATGTG
254 AACATTGAACCATATTGTGGGGAGAGATAACCACAATTTTCTTAGAGAGAGAGAGAGGACATGTG
* * ** *
10280160 GAAGAGCATTAAGAGGATTCTTTTCAAAATTGCCAAGGGAGTCACGTACACTTTCTTAATATTGA
319 CAAGAGCATTAAGAGGATTCTTCTCAAAATTGCCAAGACAGTCACGTACACTTTCTTAATACTGA
* ** * * * * *
10280225 CTAATAATTAACTTAAAAAGAAGAGACAAATAGCAGCTCTGGAGTCTTATAAATAAGGAAATTGC
384 CTAACAATTAACTTAAAAAGAAGAGACAAATAAAAACTCTGGAGTCTAATAAACAAGCAAATCGC
* *
10280290 ATGTTAAAACGCTTATGCAATTAACAATTACTACACATTTACTAAGCCAATTGGCTTGGTCTTTT
449 ATGTTAAAACGCTTATGCAATTAACAACTACTACACATTTACTAAACCAATTGGCTTGGTCTTTT
* * * *
10280355 TGTCTTCATGGAACTTGGTAAAGAGAGTGATGAAACCATCATACACCCCACAAAATGACAGATAA
514 TGTCTTCATGGAACCTGGTAAAGAAAGGGATGAAACCATCATACACCCCAAAAAATGACAGATAA
* * *
10280420 AATTACTAACCTTGACCGACATTGTTGAGAGGGACAGTTGCAAACTTAAATATGGACAGTAAAAT
579 AATTACTAACCTTGAACGACATTATTGAGAGGGACAGTTGCAAACTTAAACATGGACAGTAAAAT
* * * * *
10280485 GAACATGAAAAGT-ACTAA-ATATATATAATTACCGATATATAAATAATCTAGTATGTTGGTATT
644 GAACATGAAAAATGACAAATATATATATAATCACCGATATATAAACAATCCAGTATGTTGGTATT
*
10280548 ATAAATTTACTGTATTTCAAAATATATATTCTCTTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAA
709 ATAAATGTACTGTATTTC--AATATATATTCTCTTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAA
10280613 AGAAGAGGGAGGGAGGGAGGGAGAAGGAGCATTAGGAGGATTCTTCTACCAAGAGAGTG
772 AGAAGAGGGAGGGAGGGAGGGAGAAGGAGCATTAGGAGGATTCTTCTACCAAGAGAGTG
* **
10280672 ACTTATACTTTCATAATAACAGCTTACAATTTGCTTAAAAAGAAGAGACAAGTAACAATTTTTG-
1 ACTTACACTTTCATAATAACAGCTTACAATTAACTTAAAAAGAAGAGACAAGTAACAA-TTTTGA
* *
10280736 AGTCTTATAAAAAAGTAAGACTTGTGTTAAAATGCTTATACAATTAACCACTACATCACATTTAC
65 AGTCTTATAAAAAAGCAAGACATGTGTTAAAATGCTTATACAATTAACCACTACATCACATTTAC
* * *
10280801 TAAACCAATT-GGCTTGGTCTTCTTGTTTTCATGGAAGAACCTGCAAAAGATAAGGATGAAACCA
130 TAAACC-ATTCAGCTTGGTCTTCTTGTCTTCATGGAAGAACCTGAAAAAGATAAGGATGAAACCA
* ** * * * * ** *
10280865 TCATA-TA-CCCCCTTAAAAAAAAACTAATTCAATCAACC-CGATGT-TACATAATTACTAACAT
194 TCATACAACCCCCCCAAAAAAAAAACCAATGCAATAAACCTCAACATAGACATAATTACTAACAT
* * **
10280926 TTAACCATATTGTGGGGGAGAGGTAACCAGGATTTTCTTAGAGAGAGAGAGAGGACATGTGCAAG
259 TGAACCATATTGT-GGGGAGAGATAACCACAATTTTCTTAGAGAGAGAGAGAGGACATGTGCAAG
* * *
10280991 AGCATTAGGAGGATTCTTCTCAAAATTGCCAAGACAGTCACTTACACTTTCTTAATACTGACTTA
323 AGCATTAAGAGGATTCTTCTCAAAATTGCCAAGACAGTCACGTACACTTTCTTAATACTGACTAA
* * * **
10281056 CAATTAACTTAAAAA-AAGAAGACAAATAAAAATTTTGGAGTCTAATAAACAAGCAAGTCGTGTG
388 CAATTAACTTAAAAAGAAG-AGACAAATAAAAACTCTGGAGTCTAATAAACAAGCAAATCGCATG
* * *
10281120 TTAAAATGCTTATGCAATTAACCACTACTTCACATTTACTAAACCAATTGGCTTGGTCTTCTTT-
452 TTAAAACGCTTATGCAATTAACAACTACTACACATTTACTAAACCAATTGGCTTGGTCTT-TTTG
*
10281184 TTTTCATTGCGGAACCT-GTAAAAGAAAGGGATGAAACCATCATACACACCCTCGAAAAAAATGA
516 TCTTCA-T--GGAACCTGGT-AAAGAAAGGGATGAAACCATCAT--ACACCC-C--AAAAAATGA
* * * * *
10281248 CATAGATATAATTACTAACTTTGAACGACATTATTGGGAGGGACAGTTGCGAGCTTAAACATGGA
572 C--AGATAAAATTACTAACCTTGAACGACATTATTGAGAGGGACAGTTGCAAACTTAAACATGGA
* * *
10281313 CAGTAAAATGAACATGAAAAATGACAAATATATATATAATCATCGATTTCTAAACAATCCAGTAT
635 CAGTAAAATGAACATGAAAAATGACAAATATATATATAATCACCGATATATAAACAATCCAGTAT
* * * * * *
10281378 GTTGGTGTTATAAATGTAGTGTATTTCAATATATATTTTGTTAGAGAGGGGGAGAGAGAGAGAGA
700 GTTGGTATTATAAATGTACTGTATTTCAATATATATTCTCTTAGAGAGAGAGAGAGAGAGAGAGA
10281443 GAG
765 GAG
10281446 CATTAGGAGA
Statistics
Matches: 666, Mismatches: 90, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
826 26 0.04
827 214 0.32
828 4 0.01
829 2 0.00
830 53 0.08
832 6 0.01
833 1 0.00
835 9 0.01
836 1 0.00
837 284 0.43
838 12 0.02
839 54 0.08
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (830 bp):
ACTTACACTTTCATAATAACAGCTTACAATTAACTTAAAAAGAAGAGACAAGTAACAATTTTGAA
GTCTTATAAAAAAGCAAGACATGTGTTAAAATGCTTATACAATTAACCACTACATCACATTTACT
AAACCATTCAGCTTGGTCTTCTTGTCTTCATGGAAGAACCTGAAAAAGATAAGGATGAAACCATC
ATACAACCCCCCCAAAAAAAAAACCAATGCAATAAACCTCAACATAGACATAATTACTAACATTG
AACCATATTGTGGGGAGAGATAACCACAATTTTCTTAGAGAGAGAGAGAGGACATGTGCAAGAGC
ATTAAGAGGATTCTTCTCAAAATTGCCAAGACAGTCACGTACACTTTCTTAATACTGACTAACAA
TTAACTTAAAAAGAAGAGACAAATAAAAACTCTGGAGTCTAATAAACAAGCAAATCGCATGTTAA
AACGCTTATGCAATTAACAACTACTACACATTTACTAAACCAATTGGCTTGGTCTTTTTGTCTTC
ATGGAACCTGGTAAAGAAAGGGATGAAACCATCATACACCCCAAAAAATGACAGATAAAATTACT
AACCTTGAACGACATTATTGAGAGGGACAGTTGCAAACTTAAACATGGACAGTAAAATGAACATG
AAAAATGACAAATATATATATAATCACCGATATATAAACAATCCAGTATGTTGGTATTATAAATG
TACTGTATTTCAATATATATTCTCTTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAAGAGGG
AGGGAGGGAGGGAGAAGGAGCATTAGGAGGATTCTTCTACCAAGAGAGTG
Found at i:10284240 original size:17 final size:17
Alignment explanation
Indices: 10284218--10284251 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10284208 TTAATTTCTC
*
10284218 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
10284235 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
10284252 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:10284343 original size:21 final size:23
Alignment explanation
Indices: 10284292--10284370 Score: 61
Period size: 26 Copynumber: 3.2 Consensus size: 23
10284282 TTCATGTGTA
10284292 ATATTTAATTTAAACTGTTTTAT
1 ATATTTAATTTAAACTGTTTTAT
* *
10284315 ATGTTATTTACTTTAAA-TTTTTATAT
1 A---TATTTAATTTAAACTGTTT-TAT
* *
10284341 ATTATTTAATTTAAATTTCTTTTAT
1 A-TATTTAATTTAAA-CTGTTTTAT
10284366 ATATT
1 ATATT
10284371 ATTATTTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
23 1 0.02
24 17 0.37
25 8 0.17
26 20 0.43
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (23 bp):
ATATTTAATTTAAACTGTTTTAT
Found at i:10284345 original size:24 final size:26
Alignment explanation
Indices: 10284293--10284373 Score: 103
Period size: 24 Copynumber: 3.2 Consensus size: 26
10284283 TCATGTGTAA
* * *
10284293 TATTTAATTTAAACTGTTTTATATGT
1 TATTTAATTTAAATTCTTTTATATAT
*
10284319 TATTTACTTTAAA-T-TTTTATATAT
1 TATTTAATTTAAATTCTTTTATATAT
10284343 TATTTAATTTAAATTTCTTTTATATAT
1 TATTTAATTTAAA-TTCTTTTATATAT
10284370 TATT
1 TATT
10284374 ATTTTGAGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
24 21 0.43
25 1 0.02
26 13 0.27
27 14 0.29
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTAATTTAAATTCTTTTATATAT
Found at i:10284423 original size:22 final size:23
Alignment explanation
Indices: 10284383--10284433 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
10284373 TATTTTGAGC
* *
10284383 TCTTAATATTTATTTTAAA-TT-
1 TCTTTATATTTATTCTAAACTTG
10284404 TCTTTATATATTATTCTAAACTTG
1 TCTTTATAT-TTATTCTAAACTTG
10284428 TCTTTA
1 TCTTTA
10284434 CGTATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 2 0.08
24 6 0.24
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (23 bp):
TCTTTATATTTATTCTAAACTTG
Found at i:10284604 original size:26 final size:25
Alignment explanation
Indices: 10284542--10284593 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
10284532 GTATTTATTA
*
10284542 TATATATATATTA-CTTATTTTAATAT
1 TATATATATATCATC-TATTTTAA-AT
10284568 TATATATATATCATCTATTTTAAAT
1 TATATATATATCATCTATTTTAAAT
10284593 T
1 T
10284594 GATTTGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 20 0.83
27 1 0.04
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATATATATCATCTATTTTAAAT
Found at i:10291112 original size:66 final size:66
Alignment explanation
Indices: 10291006--10291130 Score: 205
Period size: 66 Copynumber: 1.9 Consensus size: 66
10290996 TATCATCCAT
* * * *
10291006 AACACATCTAATTAGGAGTATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACACATTCA
1 AACACATCTAATTAGAAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATTCA
10291071 C
66 C
*
10291072 AACACATCTAGTTAGAAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
1 AACACATCTAATTAGAAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
10291131 TAAGCATAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (66 bp):
AACACATCTAATTAGAAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATTCA
C
Found at i:10291645 original size:44 final size:45
Alignment explanation
Indices: 10291538--10291648 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 45
10291528 AAGATGGTAG
* * * *
10291538 ATCTTGTCTCCCTGAAGTTGTAGTGGAGCAGATCAAATACAGTGA
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAATACACTGA
* * *
10291583 ATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGT-CACT-A
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA-TCAAATACACTGA
*
10291627 GTCTTATCTCCCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTGCA
10291649 ATGGAACAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 21 0.38
45 31 0.55
46 4 0.07
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCAAATACACTGA
Found at i:10291665 original size:221 final size:221
Alignment explanation
Indices: 10291315--10291717 Score: 691
Period size: 221 Copynumber: 1.8 Consensus size: 221
10291305 TGAGAATTAC
* * *
10291315 AGATCTTGTCTCCCTGAAGTTGCTGTGGAACAGATCGAATCCAGTGAATCTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCTGTGGAACAGATCAAATACAGTGAATCTTATCTTCCTGAAGT
* * *
10291380 TACAGTGAAGTAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTACAGTGGAACAGATCGAAGA
66 TACAGTGAAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTACAATGGAACAGATCGAAGA
*
10291445 CGGTGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAG
131 CGGTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAG
10291510 CAGTAGGGAAACAGATAGAAGATGGT
196 CAGTAGGGAAACAGATAGAAGATGGT
*
10291536 AGATCTTGTCTCCCTGAAGTTG-TAGTGGAGCAGATCAAATACAGTGAATCTTATCTTCCTGAAG
1 AGATCTTGTCTCCCTGAAGTTGCT-GTGGAACAGATCAAATACAGTGAATCTTATCTTCCTGAAG
* *
10291600 TTGCAGTGAAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTGCAATGGAACAGATCGAAG
65 TTACAGTGAAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTACAATGGAACAGATCGAAG
*
10291665 ACGGTGAGCCTTAAACCCCTAAGTAGTAGGGTAAAAGGCTGAATTTACAGATC
130 ACGGTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATC
10291718 GAAGACGGTA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
220 1 0.01
221 169 0.99
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (221 bp):
AGATCTTGTCTCCCTGAAGTTGCTGTGGAACAGATCAAATACAGTGAATCTTATCTTCCTGAAGT
TACAGTGAAGCAGATTGAAGTCACTAGTCTTATCTCCCTGAAGTTACAATGGAACAGATCGAAGA
CGGTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAG
CAGTAGGGAAACAGATAGAAGATGGT
Found at i:10291886 original size:89 final size:89
Alignment explanation
Indices: 10291735--10292030 Score: 221
Period size: 89 Copynumber: 3.3 Consensus size: 89
10291725 GTAGATTTTG
* * * *
10291735 TCTCCCTGAAGTTACAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTGCAGT-G
1 TCTCCCTAAAGTTACAGTGGAGCAGATCGAAGACAGCAAATCTTATCTTCCTGAAGTTGCAGTGG
10291799 AAGCAGATTGAAGTCACTAGTCTTA
66 AA-CAGATTGAAGTCACTAGTCTTA
* * * *
10291824 TCTCCCTAAAGTTACAGTTGAGCAGA-CTGAAGATAGTAAATCTTAT-TTCCCTGAATTTGCAGT
1 TCTCCCTAAAGTTACAGTGGAGCAGATC-GAAGACAGCAAATCTTATCTT-CCTGAAGTTGCAGT
* *
10291887 GGAACAGATTGAAGCTAAATTACAGATCTTA
64 GGAACAGATTGAAG-T-CACT--AG-TCTTA
* * * * * *
10291918 TCTCTCTGAAGTTGCAGTAGAGCAGATC--A-TCA-CAAATCTTATC-TCTCTGAAGTTGCAGCG
1 TCTCCCTAAAGTTACAGTGGAGCAGATCGAAGACAGCAAATCTTATCTTC-CTGAAGTTGCAGTG
* * * * * *
10291978 GAGCAGACTAAAGATAACAAATCTTA
65 GAACAGATTGAAG-TCACTAGTCTTA
* * *
10292004 TCTCCCTGAAGTTGCAGTGGAACAGAT
1 TCTCCCTAAAGTTACAGTGGAGCAGAT
10292031 TAAAGCTAAA
Statistics
Matches: 167, Mismatches: 29, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
86 29 0.17
87 1 0.01
88 3 0.02
89 63 0.38
90 37 0.22
91 3 0.02
92 1 0.01
93 2 0.01
94 27 0.16
95 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (89 bp):
TCTCCCTAAAGTTACAGTGGAGCAGATCGAAGACAGCAAATCTTATCTTCCTGAAGTTGCAGTGG
AACAGATTGAAGTCACTAGTCTTA
Found at i:10291927 original size:49 final size:46
Alignment explanation
Indices: 10291861--10292114 Score: 197
Period size: 49 Copynumber: 5.6 Consensus size: 46
10291851 TGAAGATAGT
* * *
10291861 AAATCTTATTTCCCTGAATTTGCAGTGGAACAGATTGAAGCTAAATTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATT-AA-C-AAATTAC
* * * *
10291910 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T--C--ATCAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAACAAATTAC
* * * * *
10291951 AAATCTTATCTCTCTGAAGTTGCAGCGGAGCAGACTAA-AGATAAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAACAAATTAC
*
10291996 AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAAATTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATT-AA-C-AAATTAC
** * *
10292045 GGATCTTATCTCTCTAAAGTTGCAGTAGAACAGA-T--CAAA--AC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAACAAATTAC
* * *
10292086 AAACCTTATCTCCCTGTAGTTGCAGTGGA
1 AAATCTTATCTCTCTGAAGTTGCAGTGGA
10292115 GCAGTGGATT
Statistics
Matches: 167, Mismatches: 29, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
41 59 0.35
42 1 0.01
43 3 0.02
44 2 0.01
45 36 0.22
46 2 0.01
48 2 0.01
49 62 0.37
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (46 bp):
AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAACAAATTAC
Found at i:10291969 original size:41 final size:43
Alignment explanation
Indices: 10291912--10292118 Score: 163
Period size: 41 Copynumber: 4.7 Consensus size: 43
10291902 TAAATTACAG
* *
10291912 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATCACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAA
* *
10291953 ATCTTATCTCTCTGAAGTTGCAGCGGAGCAGACTAAAGATAACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT--ACATAACAA
* * * *
10291998 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAA-ATTA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACA--TAACA--A
* * * *
10292044 CGGATCTTATCTCTCTAAAGTTGCAGTAGAACAGA-T-CAAAACAA
1 ---ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAA
* * *
10292088 ACCTTATCTCCCTGTAGTTGCAGTGGAGCAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAG
10292119 TGGATTGGAA
Statistics
Matches: 134, Mismatches: 20, Indels: 24
0.75 0.11 0.13
Matches are distributed among these distances:
41 55 0.41
42 1 0.01
43 2 0.01
44 2 0.01
45 41 0.31
46 2 0.01
47 1 0.01
48 1 0.01
49 29 0.22
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAA
Found at i:10291992 original size:135 final size:135
Alignment explanation
Indices: 10291819--10292118 Score: 438
Period size: 135 Copynumber: 2.2 Consensus size: 135
10291809 AAGTCACTAG
* * * * ** * *
10291819 TCTTATCTCCCTAAAGTTACAGTTGAGCAGACTGAAGATAGTAAATCTTATTTCCCTGAATTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGAAGTTGC
* * * **
10291884 AGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATC
66 AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAAA
10291949 ACAAA
131 ACAAA
* *
10291954 TCTTATCTCTCTGAAGTTGCAGCGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGAAGTTGC
*
10292019 AGTGGAACAGATTAAAGCTAAATTACGGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAAA
66 AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAAA
10292084 ACAAA
131 ACAAA
* *
10292089 CCTTATCTCCCTGTAGTTGCAGTGGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
10292119 TGGATTGGAA
Statistics
Matches: 145, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
135 145 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (135 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGAAGTTGC
AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCAAA
ACAAA
Found at i:10292035 original size:45 final size:44
Alignment explanation
Indices: 10291735--10292114 Score: 195
Period size: 45 Copynumber: 8.5 Consensus size: 44
10291725 GTAGATTTTG
* * ** * *
10291735 TCTCCCTGAAGTTACAGTGGAGCAGATCGA-ATACAGCGAATCTTG
1 TCTCCCTGAAGTTGCAGTGGAACAGATAAAGATA-A-CAAATCTTA
* * * * *
10291780 TCTTCCTGAAGTTGCAGT-GAAGCAGATTGAAG-TCACTAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAA-CAGA-TAAAGATAACAAATCTTA
* * * * * **
10291824 TCTCCCTAAAGTTACAGTTGAGCAGACTGAAGATAGTAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGA-TAAAGATAACAAATCTTA
* * * * *
10291869 TTTCCCTGAATTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGA-T-AA---AGATAACAAATCTTA
* * * * *
10291918 TCTCTCTGAAGTTGCAGTAGAGCAGAT---CATCACAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATAAAGATAACAAATCTTA
* * *
10291959 TCTCTCTGAAGTTGCAGCGGAGCAGACTAAAGATAACAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGA-TAAAGATAACAAATCTTA
*
10292004 TCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAA-ATTACGGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGA-TAAAGATAACA--A---ATCTTA
* * * * *
10292053 TCTCTCTAAAGTTGCAGTAGAACAGAT-CA-A-AACAAACCTTA
1 TCTCCCTGAAGTTGCAGTGGAACAGATAAAGATAACAAATCTTA
*
10292094 TCTCCCTGTAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGA
10292115 GCAGTGGATT
Statistics
Matches: 257, Mismatches: 59, Indels: 42
0.72 0.16 0.12
Matches are distributed among these distances:
41 57 0.22
42 1 0.00
44 34 0.13
45 96 0.37
46 6 0.02
47 1 0.00
48 2 0.01
49 60 0.23
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAACAGATAAAGATAACAAATCTTA
Found at i:10293621 original size:17 final size:17
Alignment explanation
Indices: 10293599--10293632 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10293589 TTAATTTCCC
*
10293599 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
10293616 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
10293633 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:10293724 original size:21 final size:23
Alignment explanation
Indices: 10293673--10293736 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 23
10293663 TTCATGTGTA
10293673 ATATTTAATTTAAACTGTTTTAT
1 ATATTTAATTTAAACTGTTTTAT
* *
10293696 ATGTTATTTACTTTAAA-TTTTTATAT
1 A---TATTTAATTTAAACTGTTT-TAT
10293722 ATTATTTAATTTAAA
1 A-TATTTAATTTAAA
10293737 TTTCTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.03
24 13 0.38
25 4 0.12
26 16 0.47
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (23 bp):
ATATTTAATTTAAACTGTTTTAT
Found at i:10293726 original size:24 final size:24
Alignment explanation
Indices: 10293674--10293739 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
10293664 TCATGTGTAA
*
10293674 TATTTAATTTAAACTGTTTTATATGT
1 TATTTAATTTAAA-T-TTTTATATAT
*
10293700 TATTTACTTTAAATTTTTATATAT
1 TATTTAATTTAAATTTTTATATAT
10293724 TATTTAATTTAAATTT
1 TATTTAATTTAAATTT
10293740 CTTTTTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 24 0.65
25 1 0.03
26 12 0.32
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (24 bp):
TATTTAATTTAAATTTTTATATAT
Found at i:10293805 original size:22 final size:23
Alignment explanation
Indices: 10293765--10293815 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
10293755 TATTTTGAGC
* *
10293765 TCTTAATATTTATTTTAAA-TT-
1 TCTTTATATTTATTCTAAACTTG
10293786 TCTTTATATATTATTCTAAACTTG
1 TCTTTATAT-TTATTCTAAACTTG
10293810 TCTTTA
1 TCTTTA
10293816 CGTATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 2 0.08
24 6 0.24
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (23 bp):
TCTTTATATTTATTCTAAACTTG
Found at i:10293973 original size:26 final size:27
Alignment explanation
Indices: 10293918--10293977 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 27
10293908 GACATAGTAT
*
10293918 TTTTATATATATATATATATATTACTTA
1 TTTTA-ATATATATATATATATCACTTA
10293946 TTTTAATAT-TATATATATATCA-TCTA
1 TTTTAATATATATATATATATCACT-TA
10293972 TTTTAA
1 TTTTAA
10293978 ATTGATTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 1 0.03
26 20 0.67
27 4 0.13
28 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTAATATATATATATATATCACTTA
Found at i:10295720 original size:6 final size:6
Alignment explanation
Indices: 10295711--10295784 Score: 130
Period size: 6 Copynumber: 12.3 Consensus size: 6
10295701 TGCGGCTGTG
* *
10295711 GCTCCT GCTCCT GTTCCT GCTCCT GCTTCT GCTCCT GCTCCT GCTCCT
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT
10295759 GCTCCT GCTCCT GCTCCT GCTCCT GC
1 GCTCCT GCTCCT GCTCCT GCTCCT GC
10295785 ACCAGCTCCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.00, C:0.47, G:0.18, T:0.35
Consensus pattern (6 bp):
GCTCCT
Found at i:10296139 original size:2 final size:2
Alignment explanation
Indices: 10296132--10296167 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10296122 ACACGAAACC
10296132 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10296168 ACGAGTGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10315063 original size:21 final size:22
Alignment explanation
Indices: 10315020--10315063 Score: 56
Period size: 20 Copynumber: 2.0 Consensus size: 22
10315010 ATGATATATT
*
10315020 ATAATAATAAAAGAATAAAGAA
1 ATAATAATAAAAGAAAAAAGAA
10315042 ATAA-AAT-AAAGAAAAAATGAA
1 ATAATAATAAAAGAAAAAA-GAA
10315063 A
1 A
10315064 GAAAGAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 7 0.35
22 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (22 bp):
ATAATAATAAAAGAAAAAAGAA
Found at i:10322307 original size:3 final size:3
Alignment explanation
Indices: 10322299--10322358 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
10322289 AATTTAAAAC
10322299 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10322347 ATA ATA ATA ATA
1 ATA ATA ATA ATA
10322359 TTATTATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10322363 original size:3 final size:3
Alignment explanation
Indices: 10322357--10322386 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10322347 ATAATAATAA
10322357 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10322387 AATAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10344437 original size:33 final size:33
Alignment explanation
Indices: 10344394--10344541 Score: 164
Period size: 33 Copynumber: 4.6 Consensus size: 33
10344384 TCTTTCTGAG
*
10344394 TGGTACACACAAAGTATACCTTTCATTTTCATA
1 TGGTATACACAAAGTATACCTTTCATTTTCATA
10344427 TGGTATACAC--A--ATACCTTTCATTTTCATA
1 TGGTATACACAAAGTATACCTTTCATTTTCATA
*
10344456 TGGTATACACAAAGTATACCTTTCCTTTTCA-A
1 TGGTATACACAAAGTATACCTTTCATTTTCATA
* * * ** * *
10344488 -GTGTACACACAAAGTGTACATAACCTTTTCATG
1 TG-GTATACACAAAGTATACCTTTCATTTTCATA
10344521 TGGTATACACAAAGTATACCT
1 TGGTATACACAAAGTATACCT
10344542 AACCTTTTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
29 28 0.29
31 3 0.03
32 25 0.26
33 40 0.41
34 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCATTTTCATA
Found at i:10344442 original size:29 final size:29
Alignment explanation
Indices: 10344409--10344467 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10344399 CACACAAAGT
10344409 ATACCTTTCATTTTCATATGGTATACACA
1 ATACCTTTCATTTTCATATGGTATACACA
10344438 ATACCTTTCATTTTCATATGGTATACACA
1 ATACCTTTCATTTTCATATGGTATACACA
10344467 A
1 A
10344468 AGTATACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (29 bp):
ATACCTTTCATTTTCATATGGTATACACA
Found at i:10344586 original size:29 final size:29
Alignment explanation
Indices: 10344544--10344612 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
10344534 GTATACCTAA
* *
10344544 CCTTTTTACATTCGATAGTTGAAGCTATC
1 CCTTTTCACATTCGATAGTCGAAGCTATC
10344573 CCTTTTCACATTCGATAGTCGAAGCTATC
1 CCTTTTCACATTCGATAGTCGAAGCTATC
10344602 CCTTTTCACAT
1 CCTTTTCACAT
10344613 GGTACAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGTCGAAGCTATC
Found at i:10352999 original size:22 final size:22
Alignment explanation
Indices: 10352971--10353014 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10352961 CCTTGGAATA
10352971 TGCATTCCTTGGAAATAACTCT
1 TGCATTCCTTGGAAATAACTCT
10352993 TGCATTCCTTGGAAATAACTCT
1 TGCATTCCTTGGAAATAACTCT
10353015 ACATTACTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (22 bp):
TGCATTCCTTGGAAATAACTCT
Found at i:10354584 original size:16 final size:16
Alignment explanation
Indices: 10354545--10354577 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10354535 CTCTGAAGAA
10354545 CAATTTTTTGCTATAT
1 CAATTTTTTGCTATAT
10354561 CAATTTTTTGCTATAT
1 CAATTTTTTGCTATAT
10354577 C
1 C
10354578 TGATTTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (16 bp):
CAATTTTTTGCTATAT
Found at i:10356436 original size:12 final size:11
Alignment explanation
Indices: 10356414--10356462 Score: 62
Period size: 12 Copynumber: 4.2 Consensus size: 11
10356404 TATAAACACC
10356414 TATTATTTATTT
1 TATT-TTTATTT
10356426 TCATTTTTATTT
1 T-ATTTTTATTT
10356438 TATTTTTATCTT
1 TATTTTTAT-TT
*
10356450 TATTTATATTT
1 TATTTTTATTT
10356461 TA
1 TA
10356463 AAATTACTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
11 12 0.35
12 19 0.56
13 3 0.09
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:10356437 original size:6 final size:6
Alignment explanation
Indices: 10356414--10356461 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
10356404 TATAAACACC
* * *
10356414 TATTATT TATTTT CATTTT TA-TTT TATTTT TATCTT TATTTA TATTTT
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
10356462 AAAATTACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
5 5 0.15
6 25 0.74
7 4 0.12
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:10356439 original size:17 final size:17
Alignment explanation
Indices: 10356419--10356461 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10356409 ACACCTATTA
*
10356419 TTTATTTTCATTTTTAT
1 TTTATTTTCATCTTTAT
*
10356436 TTTATTTTTATCTTTAT
1 TTTATTTTCATCTTTAT
10356453 TTATATTTT
1 TT-TATTTT
10356462 AAAATTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTCATCTTTAT
Found at i:10372187 original size:33 final size:33
Alignment explanation
Indices: 10372140--10372271 Score: 135
Period size: 33 Copynumber: 4.0 Consensus size: 33
10372130 TCTTTCTGAG
* **
10372140 TGGTACACATAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTAACCTTTTCATA
* **
10372173 TGGTATACACAAAGTATACCTTTCCTTTTCA-A
1 TGGTACACACAAAGTATACCTAACCTTTTCATA
* * *
10372205 -GCATACACACAAAGTGTACATAACCTTTTCATGA
1 TG-GTACACACAAAGTATACCTAACCTTTTCAT-A
*
10372239 -GGTATACACAAAGTATACCTAACCTTTTCATA
1 TGGTACACACAAAGTATACCTAACCTTTTCATA
10372271 T
1 T
10372272 TAGATAGCAG
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
31 1 0.01
32 25 0.30
33 55 0.66
34 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (33 bp):
TGGTACACACAAAGTATACCTAACCTTTTCATA
Found at i:10372212 original size:65 final size:65
Alignment explanation
Indices: 10372143--10372268 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 65
10372133 TTCTGAGTGG
* * ** **
10372143 TACACATAAAGTATACCTTTCCTTTTCAT-ATGGTATACACAAAGTATACCTTTCCTTTTCAAGC
1 TACACACAAAGTATACATAACCTTTTCATGA-GGTATACACAAAGTATACCTAACCTTTTCAAGC
10372207 A
65 A
*
10372208 TACACACAAAGTGTACATAACCTTTTCATGAGGTATACACAAAGTATACCTAACCTTTTCA
1 TACACACAAAGTATACATAACCTTTTCATGAGGTATACACAAAGTATACCTAACCTTTTCA
10372269 TATTAGATAG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
65 52 0.98
66 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (65 bp):
TACACACAAAGTATACATAACCTTTTCATGAGGTATACACAAAGTATACCTAACCTTTTCAAGCA
Found at i:10372306 original size:29 final size:29
Alignment explanation
Indices: 10372261--10372358 Score: 142
Period size: 29 Copynumber: 3.4 Consensus size: 29
10372251 GTATACCTAA
* *
10372261 CCTTTTCATATTAGATAGCAGAAGCTATC
1 CCTTTTCACATTTGATAGCAGAAGCTATC
*
10372290 CCTTTTCACATTTGATAGCGGAAGCTATC
1 CCTTTTCACATTTGATAGCAGAAGCTATC
* * *
10372319 TCTTTTCACATTTGATAGCCGGAGCTATC
1 CCTTTTCACATTTGATAGCAGAAGCTATC
10372348 CCTTTTCACAT
1 CCTTTTCACAT
10372359 GGTACACACA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CCTTTTCACATTTGATAGCAGAAGCTATC
Found at i:10372866 original size:20 final size:21
Alignment explanation
Indices: 10372841--10372885 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
10372831 ACATTTAAGT
10372841 CTATCTGAATCA-ATTCATAA
1 CTATCTGAATCATATTCATAA
*
10372861 CTATCTGAATCATTTTCATAA
1 CTATCTGAATCATATTCATAA
10372882 CTAT
1 CTAT
10372886 GGCAGCCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (21 bp):
CTATCTGAATCATATTCATAA
Found at i:10393293 original size:58 final size:56
Alignment explanation
Indices: 10393230--10393394 Score: 174
Period size: 58 Copynumber: 2.9 Consensus size: 56
10393220 TTTTTATAGT
* * *
10393230 ATTATATATTATGATTT-TTTAATTCATA-TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATT-ATATTAATAATAATTATATTAA-AATATGATTAA
* *
10393288 ATTATATATTATTTTATTAAATTATATTTAGTAATAATTATGTTAAAATATGATTAA
1 ATTATATATTATTTTATTAAATTATA-TTAATAATAATTATATTAAAATATGATTAA
* *
10393345 ATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCT-TATTAAAAT
1 ATTATATATTA-TTTTATTAAATTA-TATTAATAATAAT-TATATTAAAAT
10393395 TTAATAATAA
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
56 6 0.07
57 25 0.27
58 59 0.64
59 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (56 bp):
ATTATATATTATTTTATTAAATTATATTAATAATAATTATATTAAAATATGATTAA
Found at i:10393582 original size:16 final size:16
Alignment explanation
Indices: 10393561--10393631 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
10393551 TGAATTACTG
*
10393561 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
10393577 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
10393593 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
10393609 ATTGCAGCTCTATTCC
1 ATTACAGCTCTATTCC
10393625 ATTACAG
1 ATTACAG
10393632 TGAACCAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:10395929 original size:5 final size:5
Alignment explanation
Indices: 10395919--10395970 Score: 52
Period size: 5 Copynumber: 9.6 Consensus size: 5
10395909 TACCCTTGTC
10395919 TTTAT TTTAT TTTATT TTTATT TCTTAT GTTCTAT TTTAT TTTA- TTTAT
1 TTTAT TTTAT TTTA-T TTTA-T T-TTAT -TT-TAT TTTAT TTTAT TTTAT
10395968 TTT
1 TTT
10395971 CATTCTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 4 0.10
5 19 0.45
6 12 0.29
7 7 0.17
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:10395976 original size:25 final size:25
Alignment explanation
Indices: 10395921--10395979 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
10395911 CCCTTGTCTT
* *
10395921 TATTTTATTTTATTTTTATTTCTTA
1 TATTCTATTTTATTTTTATTTATTA
* *
10395946 TGTTCTATTTTA-TTTTATTTATTT
1 TATTCTATTTTATTTTTATTTATTA
10395970 TCATTCTATT
1 T-ATTCTATT
10395980 CCTCTGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTCTATTTTATTTTTATTTATTA
Found at i:10397302 original size:14 final size:14
Alignment explanation
Indices: 10397283--10397309 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10397273 AATACTTGTT
10397283 TTTGTTCTTAATTA
1 TTTGTTCTTAATTA
10397297 TTTGTTCTTAATT
1 TTTGTTCTTAATT
10397310 CTTGATCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTGTTCTTAATTA
Found at i:10402945 original size:18 final size:18
Alignment explanation
Indices: 10402924--10402979 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
10402914 AGCATTCAAA
* *
10402924 AAAAAGGAAAATAAAATT
1 AAAAAGAAAAATAAAAAT
*
10402942 AAAAATAAAAATAAAAAT
1 AAAAAGAAAAATAAAAAT
* * *
10402960 AAAAATAATAATAATAAT
1 AAAAAGAAAAATAAAAAT
10402978 AA
1 AA
10402980 TAAAAGGGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAAAGAAAAATAAAAAT
Found at i:10402982 original size:6 final size:6
Alignment explanation
Indices: 10402931--10402979 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
10402921 AAAAAAAAGG
* * *
10402931 AAAATA AAATTA AAAATA AAAATA AAAATA AAAATA ATAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
10402979 A
1 A
10402980 TAAAAGGGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:10403695 original size:19 final size:19
Alignment explanation
Indices: 10403667--10403705 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10403657 AGAGAGAAAG
10403667 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
10403685 AAACAGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
10403705 A
1 A
10403706 TTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.54, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:10412927 original size:6 final size:6
Alignment explanation
Indices: 10412912--10412953 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
10412902 ATTGAGTCCA
* * *
10412912 TTTATC TTTATT TTTATT TTTATT TTTAGT TTTATG TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
10412954 CTATTTTCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:10413306 original size:14 final size:14
Alignment explanation
Indices: 10413289--10413318 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10413279 TAATTTTCTC
10413289 ATATTACTTTTAGA
1 ATATTACTTTTAGA
10413303 ATATTACTTTTAGA
1 ATATTACTTTTAGA
10413317 AT
1 AT
10413319 GAACTCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATTACTTTTAGA
Found at i:10419704 original size:101 final size:99
Alignment explanation
Indices: 10419486--10419686 Score: 267
Period size: 101 Copynumber: 2.0 Consensus size: 99
10419476 TATGTAGCCA
* * * * * *
10419486 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
*
10419551 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * * *
10419585 AACTATCTGATACACGTAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGTTATCGGGTATA
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACA
*
10419650 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
10419686 A
1 A
10419687 GCTACATATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 40 0.46
100 3 0.03
101 44 0.51
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:10420444 original size:26 final size:26
Alignment explanation
Indices: 10420408--10420489 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
10420398 TGATACAAAT
10420408 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10420434 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10420460 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10420486 TGAT
1 TGAT
10420490 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10430377 original size:8 final size:9
Alignment explanation
Indices: 10430346--10430374 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
10430336 CTTTTACAAA
10430346 TTTAAAATT
1 TTTAAAATT
10430355 TTTAAAATT
1 TTTAAAATT
10430364 TTTAAAATT
1 TTTAAAATT
10430373 TT
1 TT
10430375 AAAGGGCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:10432933 original size:16 final size:16
Alignment explanation
Indices: 10432908--10432939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10432898 ATATTATTAT
*
10432908 AATAACTAAAAGAAAA
1 AATAAATAAAAGAAAA
10432924 AATAAATAAAAGAAAA
1 AATAAATAAAAGAAAA
10432940 GAAACAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.12
Consensus pattern (16 bp):
AATAAATAAAAGAAAA
Found at i:10436090 original size:14 final size:15
Alignment explanation
Indices: 10436062--10436103 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10436052 TTAGTGCCAT
*
10436062 TATTATTATTGTTAC
1 TATTATTATTATTAC
10436077 TATT-TTATTATTAC
1 TATTATTATTATTAC
10436091 T-TTATTATCTATT
1 TATTATTAT-TATT
10436104 GATTTATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 2 0.08
14 14 0.58
15 8 0.33
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:10442898 original size:17 final size:17
Alignment explanation
Indices: 10442876--10442909 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10442866 ATTCCTTTAA
10442876 ATTTTGGTATTTAATTC
1 ATTTTGGTATTTAATTC
10442893 ATTTTGGTATTTAATTC
1 ATTTTGGTATTTAATTC
10442910 CTAACTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (17 bp):
ATTTTGGTATTTAATTC
Found at i:10449068 original size:93 final size:93
Alignment explanation
Indices: 10448956--10449127 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10448946 CGCCCATAAG
* *
10448956 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10449021 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
10449049 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10449114 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10449128 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10449124 original size:46 final size:46
Alignment explanation
Indices: 10448949--10449124 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10448939 TGTAACCCGC
* * *
10448949 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10448995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10449045 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10449088 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10449125 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10455388 original size:14 final size:14
Alignment explanation
Indices: 10455369--10455395 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10455359 ATATTTGACT
10455369 TGTTCTTAATTATG
1 TGTTCTTAATTATG
10455383 TGTTCTTAATTAT
1 TGTTCTTAATTAT
10455396 TATTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:10477855 original size:10 final size:10
Alignment explanation
Indices: 10477822--10477895 Score: 64
Period size: 12 Copynumber: 7.2 Consensus size: 10
10477812 TAATAAAGTC
10477822 ATTATTAT-T
1 ATTATTATAT
*
10477831 ATTATTATTT
1 ATTATTATAT
*
10477841 GTTATTATAT
1 ATTATTATAT
10477851 ATTA-TATAT
1 ATTATTATAT
10477860 A-TATATATAT
1 ATTAT-TATAT
10477870 ATATATATATAT
1 AT-TAT-TATAT
10477882 ATATATATATAT
1 AT-TAT-TATAT
10477894 AT
1 AT
10477896 AAAGTAAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
8 2 0.04
9 14 0.25
10 18 0.32
12 23 0.40
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (10 bp):
ATTATTATAT
Found at i:10477858 original size:2 final size:2
Alignment explanation
Indices: 10477846--10477896 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
10477836 TATTTGTTAT
10477846 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10477887 TA TA TA TA TA
1 TA TA TA TA TA
10477897 AAGTAAAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10480107 original size:46 final size:46
Alignment explanation
Indices: 10480055--10480236 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
10480045 AGTGTGTTCT
*
10480055 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
10480101 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
10480147 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
10480193 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
10480237 TCATGTCAAA
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 1 0.01
46 127 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:10482567 original size:22 final size:22
Alignment explanation
Indices: 10482539--10482590 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
10482529 GAATAGTACC
*
10482539 ACACGCCCATGTGGCTGGTGTA
1 ACACGCCCATGTGGCTGATGTA
*
10482561 ACACGCCCATGTGGCTGATGTG
1 ACACGCCCATGTGGCTGATGTA
10482583 ACACGCCC
1 ACACGCCC
10482591 GTGTCATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (22 bp):
ACACGCCCATGTGGCTGATGTA
Found at i:10485087 original size:2 final size:2
Alignment explanation
Indices: 10485082--10485119 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10485072 ACACACACAT
10485082 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10485120 CTTCAAGAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10485395 original size:4 final size:4
Alignment explanation
Indices: 10485386--10485411 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10485376 CCTCCCCTCC
10485386 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
10485412 CAAAAACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:10487350 original size:6 final size:6
Alignment explanation
Indices: 10487341--10487372 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
10487331 TGCGGCTGTG
*
10487341 GCTCCT GCTCCT GTTCCT GCTCCT GCTCCT GC
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GC
10487373 ACCAGCTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.47, G:0.19, T:0.34
Consensus pattern (6 bp):
GCTCCT
Found at i:10487380 original size:18 final size:18
Alignment explanation
Indices: 10487341--10487381 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10487331 TGCGGCTGTG
** *
10487341 GCTCCTGCTCCTGTTCCT
1 GCTCCTGCTCCTGCACCA
10487359 GCTCCTGCTCCTGCACCA
1 GCTCCTGCTCCTGCACCA
10487377 GCTCC
1 GCTCC
10487382 ATAGGTTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.49, G:0.17, T:0.29
Consensus pattern (18 bp):
GCTCCTGCTCCTGCACCA
Found at i:10487727 original size:2 final size:2
Alignment explanation
Indices: 10487720--10487759 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10487710 ACACGAAACC
10487720 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10487760 ACGAGTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10493898 original size:24 final size:23
Alignment explanation
Indices: 10493867--10493913 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
10493857 ATTACATGAT
*
10493867 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
10493890 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
10493914 ATCCGTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:10494007 original size:2 final size:2
Alignment explanation
Indices: 10494000--10494034 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10493990 ATCGTACTGA
10494000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10494035 AAAGAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10509441 original size:2 final size:2
Alignment explanation
Indices: 10509434--10509478 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
10509424 TGAAAGTCGA
*
10509434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10509475 AT AT
1 AT AT
10509479 TTTGAAAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10510591 original size:38 final size:38
Alignment explanation
Indices: 10510527--10510606 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
10510517 GATGTGTATT
* * *
10510527 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
* *
10510565 CGGGATAAATCCCGTAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
10510603 CGGG
1 CGGG
10510607 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:10510653 original size:43 final size:43
Alignment explanation
Indices: 10510599--10510808 Score: 305
Period size: 43 Copynumber: 4.9 Consensus size: 43
10510589 GCTGGTATTA
*
10510599 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
10510642 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * * *
10510685 TATTCAGGCCTTCGTGCCTAGCAAGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
10510728 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTTCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * * *
10510771 TATT-GGGCCTTCGTGCATAGCGGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
10510809 AATGATATGT
Statistics
Matches: 150, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 28 0.19
43 122 0.81
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:10511192 original size:45 final size:42
Alignment explanation
Indices: 10511125--10511232 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
10511115 TTGACTTGAT
* *
10511125 TATTCGGGCCTTTGAGCTTAGCAAACTATAATACCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
** *
10511170 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
10511212 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
10511233 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:10514164 original size:3 final size:3
Alignment explanation
Indices: 10514156--10514192 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10514146 ATTTAATTTA
10514156 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10514193 ACCTAATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10531640 original size:20 final size:19
Alignment explanation
Indices: 10531589--10531642 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
10531579 AATTAGATAA
10531589 TTATTATTTATTTAATATT
1 TTATTATTTATTTAATATT
* ** *
10531608 TTAATAAGATATTTATTATT
1 TT-ATTATTTATTTAATATT
10531628 TTATTATTTTATTTA
1 TTATTA-TTTATTTA
10531643 GTATATATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATTTATTTAATATT
Found at i:10534038 original size:7 final size:7
Alignment explanation
Indices: 10534024--10534054 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
10534014 ATTTTATTTA
10534024 ATTT-TT
1 ATTTCTT
10534030 ATTTCTT
1 ATTTCTT
10534037 ATTTCTT
1 ATTTCTT
10534044 ATTTCTT
1 ATTTCTT
10534051 ATTT
1 ATTT
10534055 TATTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTCTT
Found at i:10534047 original size:14 final size:13
Alignment explanation
Indices: 10534024--10534059 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
10534014 ATTTTATTTA
10534024 ATTTTTATTTCTT
1 ATTTTTATTTCTT
10534037 ATTTCTTATTTCTT
1 ATTT-TTATTTCTT
10534051 A-TTTTATTT
1 ATTTTTATTT
10534060 TATTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 6 0.27
14 10 0.45
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTTTATTTCTT
Found at i:10538838 original size:40 final size:40
Alignment explanation
Indices: 10538789--10538938 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
10538779 ATCACGATTT
*
10538789 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
10538829 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
10538869 GCATAAATGTCC-TC-GGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
10538908 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
10538939 TAATTTCCAG
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
38 3 0.03
39 27 0.30
40 58 0.64
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:10547054 original size:40 final size:38
Alignment explanation
Indices: 10546908--10547054 Score: 163
Period size: 40 Copynumber: 3.8 Consensus size: 38
10546898 ATCACGATTT
* *
10546908 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GACTA
* *
10546948 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGACTA
* *
10546986 GCATAAATGTCC-TC-GGACTTAGCCCGGATGTAGCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATGTAG--ACTA
* *
10547025 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
10547055 ATAATTTCCA
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
37 17 0.19
38 15 0.17
39 16 0.18
40 42 0.47
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (38 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGACTA
Found at i:10551201 original size:17 final size:17
Alignment explanation
Indices: 10551175--10551211 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
10551165 TTTTTTAAGG
10551175 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
10551192 AAAACGAATGAATCTTA
1 AAAACAAATGAATCTTA
10551209 AAA
1 AAA
10551212 TAAAAGAAAA
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:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:10572958 original size:30 final size:30
Alignment explanation
Indices: 10572914--10573002 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
10572904 CAAAGATAAC
10572914 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
10572943 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
10572973 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
10573003 CGATATTGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:10572962 original size:15 final size:15
Alignment explanation
Indices: 10572914--10572993 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
10572904 CAAAGATAAC
*
10572914 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
10572928 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
10572943 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
10572958 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
10572973 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
10572988 AAGAAA
1 AAGAAA
10572994 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:10573002 original size:15 final size:15
Alignment explanation
Indices: 10572925--10573002 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
10572915 AGAAAACCGA
10572925 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
10572940 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
10572954 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
10572969 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
10572985 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
10573000 ATA
1 ATA
10573003 CGATATTGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:10575664 original size:93 final size:93
Alignment explanation
Indices: 10575552--10575723 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
10575542 CGCCCATAAG
* *
10575552 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10575617 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
10575645 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
10575710 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
10575724 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Done.