Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 117 of 125
Found at i:36524103 original size:143 final size:143
Alignment explanation
Indices: 36523838--36524127 Score: 467
Period size: 143 Copynumber: 2.0 Consensus size: 143
36523828 GCGTTGGATA
* *
36523838 AATTAATTTTTGGAGCAAATTATAGAGTAAAATTTAAAAGTTAAAATATGCTCTGACTACTTATA
1 AATTAATTTTTGGAGCAAATTATAGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTATA
36523903 TTCTTTGGACATTTTCAAACCTCAATACTTTTATTTTTAAGGAATTTAGTGCCTCTTAACAAGGT
66 TTCTTTGGACATTTTCAAACCTCAATACTTTTATTTTTAAGGAATTTAGTGCCTCTTAACAAGGT
36523968 ACACTTGTCAAGC
131 ACACTTGTCAAGC
* * *
36523981 AATTAGTTTTTGGAGCAAATTATGGAGTAAAATTTAAAAGTCAAAATATGGTCTAACTACTTATA
1 AATTAATTTTTGGAGCAAATTATAGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTATA
*
36524046 TTCTTTGGACATTTTCAAATCC-CAATACTTTTATTTTT-AGGAATTTAGTGCCTTCTTAACAAT
66 TTCTTTGGACATTTTCAAA-CCTCAATACTTTTATTTTTAAGGAATTTAGTGCC-TCTTAACAAG
** *
36524109 GTGTATTTGTCAAGC
129 GTACACTTGTCAAGC
36524124 AATT
1 AATT
36524128 TGGTTGAATA
Statistics
Matches: 136, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
142 14 0.10
143 120 0.88
144 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (143 bp):
AATTAATTTTTGGAGCAAATTATAGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTATA
TTCTTTGGACATTTTCAAACCTCAATACTTTTATTTTTAAGGAATTTAGTGCCTCTTAACAAGGT
ACACTTGTCAAGC
Found at i:36530303 original size:23 final size:23
Alignment explanation
Indices: 36530270--36530393 Score: 133
Period size: 23 Copynumber: 5.3 Consensus size: 23
36530260 GCTGGGCAAT
36530270 AGAGAGCACACACAGTGCTAAAC
1 AGAGAGCACACACAGTGCTAAAC
* * * *
36530293 AGAGAGTACACAAAGTACTAATC
1 AGAGAGCACACACAGTGCTAAAC
* * *
36530316 AGAGAGCACATAAAGTGCTAATC
1 AGAGAGCACACACAGTGCTAAAC
36530339 AGAGAGCACACACAGTGCTAATAAC
1 AGAGAGCACACACAGTGCT-A-AAC
*
36530364 AGAGAGCACGAGAC-GTGCTAAAC
1 AGAGAGCAC-ACACAGTGCTAAAC
*
36530387 AAAGAGC
1 AGAGAGC
36530394 GCGCTAGTGT
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
23 65 0.76
24 2 0.02
25 16 0.19
26 3 0.03
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (23 bp):
AGAGAGCACACACAGTGCTAAAC
Found at i:36530343 original size:69 final size:67
Alignment explanation
Indices: 36530220--36530369 Score: 196
Period size: 69 Copynumber: 2.1 Consensus size: 67
36530210 TATATGGAAC
*
36530220 AAACAAAGAGTACCAAAGTACTAACAGAGAGCACATAACTGCTGGGCAATAGAGAGCACACACAG
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAACTGCT--G-AATAGAGAGCACACACAG
36530285 TGCT-
63 TGCTA
*
36530289 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACATAAAGTGCT-AATCAGAGAGCACACACA
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACAT-AACTGCTGAAT-AGAGAGCACACACA
36530353 GTGCTA
62 GTGCTA
36530359 ATAACAGAGAG
1 A-AACAGAGAG
36530370 CACGAGACGT
Statistics
Matches: 73, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
68 3 0.04
69 31 0.42
70 12 0.16
71 21 0.29
72 6 0.08
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (67 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAACTGCTGAATAGAGAGCACACACAGTGC
TA
Found at i:36532220 original size:21 final size:22
Alignment explanation
Indices: 36532196--36532236 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
36532186 AATCAAAGAG
*
36532196 AAAATTAGTCT-TTTATGTTAA
1 AAAATTAATCTATTTATGTTAA
36532217 AAAATTAATCTATTTATGTT
1 AAAATTAATCTATTTATGTT
36532237 GTTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (22 bp):
AAAATTAATCTATTTATGTTAA
Found at i:36534043 original size:143 final size:143
Alignment explanation
Indices: 36533785--36534052 Score: 439
Period size: 143 Copynumber: 1.9 Consensus size: 143
36533775 AGTTAATTTT
* * * **
36533785 TGGAGTAAAATTTAAAAGTTAAAATATTCTCTAATTACTTACATTTATTGGACATTTTCAAATCA
1 TGGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTACATTTATTACACATTTTCAAATCA
36533850 CAATACTTTTATTTTTAGGAATTTAGTGCTTTCTTAACAATGTGCACTTGTCAAGCAATTAATTT
66 CAATACTTTTATTTTTAGGAATTTAGTGCTTTCTTAACAATGTGCACTTGTCAAGCAATTAATTT
36533915 TTGGAGCAAATTA
131 TTGGAGCAAATTA
* * *
36533928 TGGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTATTTATATTCT-TTACATATTTTCAAATC
1 TGGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTACATT-TATTACACATTTTCAAATC
*
36533992 CCAATACTTTTATTTTTAGGAATTTAGTGCTTTCTTAACAATGTGCACTTGTCAAGCAATT
65 ACAATACTTTTATTTTTAGGAATTTAGTGCTTTCTTAACAATGTGCACTTGTCAAGCAATT
36534053 TGGTTAAATA
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
143 114 0.99
144 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (143 bp):
TGGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTACATTTATTACACATTTTCAAATCA
CAATACTTTTATTTTTAGGAATTTAGTGCTTTCTTAACAATGTGCACTTGTCAAGCAATTAATTT
TTGGAGCAAATTA
Found at i:36535065 original size:2 final size:2
Alignment explanation
Indices: 36535054--36535087 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
36535044 TTTCAGCATT
36535054 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36535088 TTATTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36535414 original size:8 final size:7
Alignment explanation
Indices: 36535386--36535411 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36535376 AATTGCAAAA
36535386 AAAAATT
1 AAAAATT
36535393 AAAAATT
1 AAAAATT
36535400 AAAAATT
1 AAAAATT
36535407 AAAAA
1 AAAAA
36535412 ATTTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:36540033 original size:18 final size:17
Alignment explanation
Indices: 36540010--36540048 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
36540000 CTAGTAATGC
*
36540010 TTTTATTTAAAAAATGAT
1 TTTTATCTAAAAAAT-AT
*
36540028 TTTTATCTCAAAAATAT
1 TTTTATCTAAAAAATAT
36540045 TTTT
1 TTTT
36540049 GAGAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTTATCTAAAAAATAT
Found at i:36541811 original size:30 final size:30
Alignment explanation
Indices: 36541777--36541962 Score: 232
Period size: 30 Copynumber: 6.2 Consensus size: 30
36541767 ACATTAAAAC
* *
36541777 GGGGTTAAATTTTAATTTTT-GAAAACTTTA
1 GGGGTTAAATTTGAATTTTTAGAAAA-TTTG
*
36541807 GGGGTTAAATTTGAATTTTTAGAAAATTTAA
1 GGGGTTAAATTTGAATTTTTAGAAAATTT-G
*
36541838 GGGGTCAAATTTGAATTTTTAGAAAATTTG
1 GGGGTTAAATTTGAATTTTTAGAAAATTTG
* *
36541868 GGGATTAAATTTGAATTTTTGGAAAATTTG
1 GGGGTTAAATTTGAATTTTTAGAAAATTTG
* * * *
36541898 GGGGTGAATTTTTATTTTTTAGAAAATTTG
1 GGGGTTAAATTTGAATTTTTAGAAAATTTG
*
36541928 GGGGTTAAATTTAAATTTTTA-AAAACTTTG
1 GGGGTTAAATTTGAATTTTTAGAAAA-TTTG
36541958 GGGGT
1 GGGGT
36541963 CAAAAAATGA
Statistics
Matches: 137, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
29 4 0.03
30 99 0.72
31 34 0.25
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.44
Consensus pattern (30 bp):
GGGGTTAAATTTGAATTTTTAGAAAATTTG
Found at i:36542840 original size:11 final size:11
Alignment explanation
Indices: 36542824--36542848 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36542814 TTTATTTATT
36542824 TAATAAATAAA
1 TAATAAATAAA
36542835 TAATAAATAAA
1 TAATAAATAAA
36542846 TAA
1 TAA
36542849 AATAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:36543344 original size:50 final size:50
Alignment explanation
Indices: 36543282--36543416 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
36543272 GAAGATTGAT
* *
36543282 AATCTGCTCCTCTATTACTTTAAGGGTATAAGATTTGCTTTTGTAGCTTC
1 AATCTGCCCCTCTATAACTTTAAGGGTATAAGATTTGCTTTTGTAGCTTC
*
36543332 AATCTGCCCCTCTATAACTTTAGGGGTATAAGATTTGCTTTTGTAGCTTC
1 AATCTGCCCCTCTATAACTTTAAGGGTATAAGATTTGCTTTTGTAGCTTC
* * * * * *
36543382 AATCTGTCTCTTTGTAACTTTAGGGGTAAAAGATT
1 AATCTGCCCCTCTATAACTTTAAGGGTATAAGATT
36543417 GGATTGTTTC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (50 bp):
AATCTGCCCCTCTATAACTTTAAGGGTATAAGATTTGCTTTTGTAGCTTC
Found at i:36543458 original size:39 final size:40
Alignment explanation
Indices: 36543404--36543541 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
36543394 TGTAACTTTA
*
36543404 GGGGTAAAAGATTGGATTGT-TTCAACCCGCCAC-ATGGTT
1 GGGGTAAGAGATTGGATTGTATTCAACCCGCC-CTATGGTT
* * *
36543443 GGGGTAAGAGATTGGATTGTATTCAATCTGCCCTATTGTT
1 GGGGTAAGAGATTGGATTGTATTCAACCCGCCCTATGGTT
* ** * * *
36543483 GGGGTAAGAGATTGGATTGTCTTCAGTCTGCCCTCTGATT
1 GGGGTAAGAGATTGGATTGTATTCAACCCGCCCTATGGTT
* *
36543523 AGGGTAAAAGATTGGATTG
1 GGGGTAAGAGATTGGATTG
36543542 CTTCAATCTA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 20 0.23
40 66 0.77
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (40 bp):
GGGGTAAGAGATTGGATTGTATTCAACCCGCCCTATGGTT
Found at i:36543634 original size:119 final size:117
Alignment explanation
Indices: 36543405--36543856 Score: 394
Period size: 119 Copynumber: 3.8 Consensus size: 117
36543395 GTAACTTTAG
* * ** * ** * * *
36543405 GGGTAAAAGATTGGATTGTTTCAACCCGCCACATGGTTGGGGTAAGAGATTGGATTGTATTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTACCTCATGGTCAGGGTAAAAGATTGGATT-TCTTCAAC
* * * * *
36543470 CTGCCCTATTG-TTGGGGTAAGAGATTGGATTGTCTTCAGTCTGCCCTCTGATTA
65 CTGCCCCA-TGATCGGGGTAAAAGATTGGA-TGTCTTTAATCTGCCCTCTGATTA
*
36543524 GGGTAAAAGATTGGATTGCTTCAATCTACCTCATAGTCAGGGTAAAAGATTGGATTTCTTCAACC
1 GGGTAAAAGATTGGATTGCTTCAATCTACCTCATGGTCAGGGTAAAAGATTGGATTTCTTCAACC
* *
36543589 TGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTTAATCTTGCCCT-TTAGTTA
66 TGCCCCATGATCGGGGTAAAAGATTGGAT-GTCTTTAATC-TGCCCTCTGA-TTA
* * * * **
36543643 GGGTAAAAGATTGGATTTCTTCAATCTACCTCATGATCGGGGTAAAAGATCGGACGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTACCTCATGGTCAGGGTAAAAGATTGGA-TTTCTTCAA-
* ** * **
36543708 CTTGCCCTC-T-AGTTAGGGTAAAAGATTGGATTTCTTTAATCTGCCC-CATGATCG
64 CCTGCCC-CATGA-TCGGGGTAAAAGATTGGATGTCTTTAATCTGCCCTC-TGATTA
** * * * *
36543762 GGGTAAAAGATCAGATAGTCTTTAATCTTGCCCTC-TGGTTAGGGTAAAAGATTGGATTTCTTCA
1 GGGTAAAAGATTGGATTG-CTTCAATC-T-ACCTCATGGTCAGGGTAAAAGATTGGATTTCTTCA
**
36543826 ATTTGCCCCATGATCGGGGTAAAAGATTGGA
63 ACCTGCCCCATGATCGGGGTAAAAGATTGGA
36543857 GGTTGTTACT
Statistics
Matches: 270, Mismatches: 48, Indels: 30
0.78 0.14 0.09
Matches are distributed among these distances:
117 3 0.01
118 39 0.14
119 148 0.55
120 34 0.13
121 41 0.15
122 5 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (117 bp):
GGGTAAAAGATTGGATTGCTTCAATCTACCTCATGGTCAGGGTAAAAGATTGGATTTCTTCAACC
TGCCCCATGATCGGGGTAAAAGATTGGATGTCTTTAATCTGCCCTCTGATTA
Found at i:36543663 original size:80 final size:80
Alignment explanation
Indices: 36543405--36543852 Score: 530
Period size: 80 Copynumber: 5.6 Consensus size: 80
36543395 GTAACTTTAG
* * * * * * * * *
36543405 GGGTAAAAGATTGGATTGT-TTCAACCCGCCACATGGTTGGGGTAAGAGATTGGATTGTATTCAA
1 GGGTAAAAGATTGGATT-TCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAA
* * *
36543469 TC-TGCCCTATTGTTG
65 TCTTGCCCTCTAGTTA
* * ** * *
36543484 GGGTAAGAGATTGGATTGTCTTCAGTCTGCCCTC-TGATTAGGGTAAAAGATTGGATTG-CTTCA
1 GGGTAAAAGATTGGATT-TCTTCAATCTGCCC-CATGATCGGGGTAAAAGATCGGATGGTCTTCA
* *
36543547 ATC-T-ACCTCATAGTCA
64 ATCTTGCCCTC-TAGTTA
* *
36543563 GGGTAAAAGATTGGATTTCTTCAACCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTTAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
36543628 CTTGCCCTTTAGTTA
66 CTTGCCCTCTAGTTA
* * *
36543643 GGGTAAAAGATTGGATTTCTTCAATCTACCTCATGATCGGGGTAAAAGATCGGACGGTCTTCAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
36543708 CTTGCCCTCTAGTTA
66 CTTGCCCTCTAGTTA
* * * *
36543723 GGGTAAAAGATTGGATTTCTTTAATCTGCCCCATGATCGGGGTAAAAGATCAGATAGTCTTTAAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
*
36543788 CTTGCCCTCTGGTTA
66 CTTGCCCTCTAGTTA
*
36543803 GGGTAAAAGATTGGATTTCTTCAATTTGCCCCATGATCGGGGTAAAAGAT
1 GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGAT
36543853 TGGAGGTTGT
Statistics
Matches: 321, Mismatches: 41, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
77 1 0.00
78 35 0.11
79 52 0.16
80 229 0.71
81 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (80 bp):
GGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
CTTGCCCTCTAGTTA
Found at i:36543948 original size:50 final size:50
Alignment explanation
Indices: 36543910--36544137 Score: 303
Period size: 50 Copynumber: 4.6 Consensus size: 50
36543900 GTCCTTGTGA
* *
36543910 CTTCAATCTGCCCCTCTACAGCTTTAAGTGAATGAGATTTGTCATTGCGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
* * *
36543960 CTTCATTCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGCCTTTGCGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
* * *
36544010 TTTCAATCTGCACCTCTATAGCTTTAGGTGAATGAGATTTGCCATTGCGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
* * * * *
36544060 CTCCATTCTGCCCCTTTACAGCTTTAGGTGTATGAGATTTGCCTTTGCGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
* * * *
36544110 TTTCAATCTGCACCTCCATAGCTTTAGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGG
36544138 GGTAAAAGAT
Statistics
Matches: 152, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 152 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (50 bp):
CTTCAATCTGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTGCGG
Found at i:36544056 original size:100 final size:100
Alignment explanation
Indices: 36543911--36544137 Score: 391
Period size: 100 Copynumber: 2.3 Consensus size: 100
36543901 TCCTTGTGAC
* * * * *
36543911 TTCAATCTGCCCCTCTACAGCTTTAAGTGAATGAGATTTGTCATTGCGGCTTCATTCTGCCCCTC
1 TTCAATCTGCACCTCTATAGCTTTAGGTGAATGAGATTTGCCATTGCGGCTCCATTCTGCCCCTC
36543976 TACAGCTTTAGGTGTATGAGATTTGCCTTTGCGGT
66 TACAGCTTTAGGTGTATGAGATTTGCCTTTGCGGT
*
36544011 TTCAATCTGCACCTCTATAGCTTTAGGTGAATGAGATTTGCCATTGCGGCTCCATTCTGCCCCTT
1 TTCAATCTGCACCTCTATAGCTTTAGGTGAATGAGATTTGCCATTGCGGCTCCATTCTGCCCCTC
36544076 TACAGCTTTAGGTGTATGAGATTTGCCTTTGCGGT
66 TACAGCTTTAGGTGTATGAGATTTGCCTTTGCGGT
*
36544111 TTCAATCTGCACCTCCATAGCTTTAGG
1 TTCAATCTGCACCTCTATAGCTTTAGG
36544138 GGTAAAAGAT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 120 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (100 bp):
TTCAATCTGCACCTCTATAGCTTTAGGTGAATGAGATTTGCCATTGCGGCTCCATTCTGCCCCTC
TACAGCTTTAGGTGTATGAGATTTGCCTTTGCGGT
Found at i:36545878 original size:19 final size:20
Alignment explanation
Indices: 36545854--36545897 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
36545844 ACCCACTTAG
*
36545854 TAAAAT-AATCAATGACCAC
1 TAAAATGAACCAATGACCAC
* *
36545873 TAAAATGAACCTATGCCCAC
1 TAAAATGAACCAATGACCAC
36545893 TAAAA
1 TAAAA
36545898 GCTTTTGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.50, C:0.23, G:0.07, T:0.20
Consensus pattern (20 bp):
TAAAATGAACCAATGACCAC
Found at i:36555717 original size:15 final size:15
Alignment explanation
Indices: 36555697--36555734 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
36555687 ATTTATAAGT
36555697 ATACATAAATAAAAA
1 ATACATAAATAAAAA
* *
36555712 ATACATACATAAAAT
1 ATACATAAATAAAAA
36555727 ATA-ATAAA
1 ATACATAAA
36555735 ATGAAGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (15 bp):
ATACATAAATAAAAA
Found at i:36555837 original size:30 final size:29
Alignment explanation
Indices: 36555803--36555919 Score: 130
Period size: 30 Copynumber: 4.0 Consensus size: 29
36555793 TAAAACGGGG
36555803 TTAAATTTAAATTTTT-GAAAACTTTAGGGA
1 TTAAATTTAAATTTTTAGAAAA-TTT-GGGA
* *
36555833 TTAAATTTGAATTTTTGGAAAATTTGGGA
1 TTAAATTTAAATTTTTAGAAAATTTGGGA
* * * *
36555862 TGAATTTTCAATTTTTAGAAAATTTGGGGG
1 TTAAATTTAAATTTTTAGAAAATTT-GGGA
36555892 TTAAATTTAAATTTTTA-AAAACTTTGGG
1 TTAAATTTAAATTTTTAGAAAA-TTTGGG
36555920 GGTCAAAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.43
30 38 0.51
31 5 0.07
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (29 bp):
TTAAATTTAAATTTTTAGAAAATTTGGGA
Found at i:36558117 original size:17 final size:17
Alignment explanation
Indices: 36558095--36558133 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
36558085 ACCAAACCAT
* *
36558095 TTTAAATTTATTTTAAA
1 TTTAAAATTATTATAAA
36558112 TTTAAAATTATTATAAA
1 TTTAAAATTATTATAAA
36558129 TTTAA
1 TTTAA
36558134 TAAAATGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAAATTATTATAAA
Found at i:36558831 original size:21 final size:20
Alignment explanation
Indices: 36558797--36558841 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
36558787 GCATTAATAG
* *
36558797 TAAT-TAATAATATTGTTTA
1 TAATATAATAATATTATTAA
36558816 TAATATAATAAATATTATTAA
1 TAATATAAT-AATATTATTAA
36558837 TAATA
1 TAATA
36558842 ATATTAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATATAATAATATTATTAA
Found at i:36560159 original size:29 final size:29
Alignment explanation
Indices: 36559978--36560166 Score: 177
Period size: 29 Copynumber: 6.4 Consensus size: 29
36559968 AACTGTTCAA
* *
36559978 AAAATTACATTTTGACCCCCAAACTTTCT
1 AAAATTACATTTTGACCCTCAAACTTTCC
* *
36560007 AGAAATTATATTTTGACCCTTAAACTTCTCC
1 A-AAATTACATTTTGACCCTCAAACTT-TCC
* * * *
36560038 AAAATTATATTTTGACCCTAAAAATTTCT
1 AAAATTACATTTTGACCCTCAAACTTTCC
* * * *
36560067 AAAATCACATTTTCACCCTTAAATTTTCC
1 AAAATTACATTTTGACCCTCAAACTTTCC
*
36560096 AAAATT-CTATTTTTGA-CCTCAAACTTTCT
1 AAAATTAC-A-TTTTGACCCTCAAACTTTCC
36560125 AAAATTACCATTTT-ACCCTCAAACTTTCC
1 AAAATTA-CATTTTGACCCTCAAACTTTCC
* *
36560154 ACAATTTCATTTT
1 AAAATTACATTTT
36560167 CCCCCGATTT
Statistics
Matches: 132, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
28 8 0.06
29 69 0.52
30 51 0.39
31 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTCAAACTTTCC
Found at i:36560166 original size:58 final size:58
Alignment explanation
Indices: 36559978--36560166 Score: 206
Period size: 58 Copynumber: 3.2 Consensus size: 58
36559968 AACTGTTCAA
* * *
36559978 AAAATTACA-TTTTGACCCCCAAACTTTCTAGAAATTATATTTTGACCCTTAAACTTCTCC
1 AAAATT-CATTTTTGACCCTCAAACTTTCTA-AAATTACATTTTCACCCTTAAACTT-TCC
* * * *
36560038 AAAATT-ATATTTTGACCCTAAAAATTTCTAAAATCACATTTTCACCCTTAAATTTTCC
1 AAAATTCAT-TTTTGACCCTCAAACTTTCTAAAATTACATTTTCACCCTTAAACTTTCC
*
36560096 AAAATTCTATTTTTGA-CCTCAAACTTTCTAAAATTACCATTTT-ACCCTCAAACTTTCC
1 AAAATTC-ATTTTTGACCCTCAAACTTTCTAAAATTA-CATTTTCACCCTTAAACTTTCC
*
36560154 ACAATTTCATTTT
1 A-AAATTCATTTT
36560167 CCCCCGATTT
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
58 46 0.42
59 38 0.35
60 26 0.24
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (58 bp):
AAAATTCATTTTTGACCCTCAAACTTTCTAAAATTACATTTTCACCCTTAAACTTTCC
Found at i:36560197 original size:57 final size:58
Alignment explanation
Indices: 36560125--36560257 Score: 153
Period size: 57 Copynumber: 2.3 Consensus size: 58
36560115 CAAACTTTCT
* ** *
36560125 AAAATTACCATTTTACCCTCAAACTTTCCACAATTTCA-TTTT-CCCCCGATTTTACCA
1 AAAATTACCATTTTACCCTCAAACCTTCCA-AATCCCATTTTTGACCCCGATTTTACCA
* * * * *
36560182 AAAATTACCATTTTACCTTCGAACCTTGCAAATCCCATTTTTGACCTCGATTTTACCC
1 AAAATTACCATTTTACCCTCAAACCTTCCAAATCCCATTTTTGACCCCGATTTTACCA
*
36560240 AAAATTACCGTTTTACCC
1 AAAATTACCATTTTACCC
36560258 CCGAATGTCA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 5 0.08
57 30 0.48
58 28 0.44
ACGTcount: A:0.29, C:0.30, G:0.05, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCAAACCTTCCAAATCCCATTTTTGACCCCGATTTTACCA
Found at i:36568369 original size:2 final size:2
Alignment explanation
Indices: 36568362--36568412 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
36568352 ATAACAATTA
36568362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36568404 AT AT AT AT A
1 AT AT AT AT A
36568413 GGGTTCAAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36573007 original size:18 final size:18
Alignment explanation
Indices: 36572984--36573023 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
36572974 GATTTGTGAC
*
36572984 ATTAACTCAATCAACTAT
1 ATTAACTCAATCAACCAT
36573002 ATTAACTCAATCAACCAT
1 ATTAACTCAATCAACCAT
36573020 ATTA
1 ATTA
36573024 TCTATACTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAACTCAATCAACCAT
Found at i:36576827 original size:142 final size:143
Alignment explanation
Indices: 36576565--36576830 Score: 410
Period size: 142 Copynumber: 1.9 Consensus size: 143
36576555 GTTAATTTTG
* * * *
36576565 GGAGTAAAATTTAAAAGTGAAAATATGCTTTAATTACTTACATTTATTGAATATTTTCAAATCCC
1 GGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTACATTTATTGAACATTTTCAAATCCC
* * * *
36576630 AATACTTTTATTTTTAGGAATTTAGTGTTTTCTTAACAATGTACACTTGTCAAGCAATTAATTTT
66 AATACTTGTATTTTTAGAAATCTAGTGTCTTCTTAACAATGTACACTTGTCAAGCAATTAATTTT
36576695 TGGAGCAAATTAT
131 TGGAGCAAATTAT
* *
36576708 GGAGT-AAATTTAAAAGTCAAAATATGCTCTAACTATTTACATTCT-TTGCACATTTTCAAATCC
1 GGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTACATT-TATTGAACATTTTCAAATCC
*
36576771 CAATACTTGTATTTTTAGAAATCTAGTGTCTTCTTAACAATGTGCACTTGTCAAGCAATT
65 CAATACTTGTATTTTTAGAAATCTAGTGTCTTCTTAACAATGTACACTTGTCAAGCAATT
36576831 TGGTTGAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
142 105 0.95
143 6 0.05
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (143 bp):
GGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTACATTTATTGAACATTTTCAAATCCC
AATACTTGTATTTTTAGAAATCTAGTGTCTTCTTAACAATGTACACTTGTCAAGCAATTAATTTT
TGGAGCAAATTAT
Found at i:36577315 original size:11 final size:11
Alignment explanation
Indices: 36577301--36577329 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
36577291 TAATTTAAAG
36577301 TTTAAATTGAT
1 TTTAAATTGAT
36577312 TTTAAATTGAT
1 TTTAAATTGAT
36577323 TTTAAAT
1 TTTAAAT
36577330 CTAAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (11 bp):
TTTAAATTGAT
Found at i:36577336 original size:17 final size:17
Alignment explanation
Indices: 36577312--36577400 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 17
36577302 TTAAATTGAT
*
36577312 TTTAAATTGATTTTAAA
1 TTTAAATTTATTTTAAA
*
36577329 TCTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
36577346 TTTAAATTTA-TTTAAA
1 TTTAAATTTATTTTAAA
* *
36577362 TTTAAATTTA-ATCAAA
1 TTTAAATTTATTTTAAA
* * *
36577378 TTTAAAATAATATTAAA
1 TTTAAATTTATTTTAAA
36577395 TTTAAA
1 TTTAAA
36577401 ATTAAAATTG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
16 28 0.44
17 35 0.56
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:36577345 original size:11 final size:11
Alignment explanation
Indices: 36577301--36577399 Score: 53
Period size: 11 Copynumber: 9.0 Consensus size: 11
36577291 TAATTTAAAG
* *
36577301 TTTAAATTGAT
1 TTTAAATTTAA
* *
36577312 TTTAAATTGAT
1 TTTAAATTTAA
*
36577323 TTTAAATCTAAA
1 TTTAAAT-TTAA
*
36577335 TTT-ATTTTAAA
1 TTTAAATTT-AA
36577346 TTTAAATTT-A
1 TTTAAATTTAA
36577356 TTTAAATTTAAA
1 TTTAAATTT-AA
**
36577368 TTT-AATCAAA
1 TTTAAATTTAA
*
36577378 TTTAAA-ATAA
1 TTTAAATTTAA
36577388 TATTAAATTTAA
1 T-TTAAATTTAA
36577400 AATTAAAATT
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
10 19 0.27
11 35 0.50
12 16 0.23
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:36577349 original size:6 final size:6
Alignment explanation
Indices: 36577292--36577406 Score: 68
Period size: 6 Copynumber: 20.3 Consensus size: 6
36577282 CTTTAGTTTT
* * * * *
36577292 AATTTA AAGTTTA AA-TTG ATTTTA AA-TTG ATTTTA AATCTA AATTT-
1 AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
36577338 ATTTTA AATTTA AATTT- -ATTTA AATTTA AATTT- AA-TCA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
36577382 AA-AT- AATATTA AATTTA AAATTA AA
1 AATTTA AAT-TTA AATTTA AATTTA AA
36577407 ATTGAAAGTC
Statistics
Matches: 81, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
4 7 0.09
5 15 0.19
6 50 0.62
7 9 0.11
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:36577368 original size:33 final size:32
Alignment explanation
Indices: 36577312--36577405 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 32
36577302 TTAAATTGAT
* * * *
36577312 TTTAAATTGATTTTAAATCTAAATTTATTTTAAA
1 TTTAAATT-AATTTAAATTTAAATTTA-ATCAAA
*
36577346 TTTAAATTTATTTAAATTTAAATTTAATCAAA
1 TTTAAATTAATTTAAATTTAAATTTAATCAAA
* *
36577378 TTTAAAATAATATTAAATTTAAAATTAA
1 TTTAAATTAAT-TTAAATTTAAATTTAA
36577406 AATTGAAAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
32 13 0.25
33 30 0.59
34 8 0.16
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (32 bp):
TTTAAATTAATTTAAATTTAAATTTAATCAAA
Found at i:36579567 original size:116 final size:116
Alignment explanation
Indices: 36579217--36579707 Score: 718
Period size: 116 Copynumber: 4.2 Consensus size: 116
36579207 CCTGGACTGT
*
36579217 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACAAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCACAAAAA
* * *
36579282 ATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTCTTAACCCTGATTTCA
65 A-TACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGACTTCA
*
36579335 CCAAAAATTACCATTTTACCCCTAAAC-TTCTCAAAATCCCATTCTTAACCCCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTC-CAAAATCCCATT-TTAACCCCGATTTCA-CAAA
*
36579399 AAATACCATTTTACCCCCAAACTTCTCAAAATCCCATTTTTAACCCCGACTTCA
63 AAATACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGACTTCA
* *
36579453 CCAAAAATTACTATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCACTAAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCACAAAAAA
*
36579518 TACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCTACTTCA
66 TACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGACTTCA
* * *** *
36579569 ACAAAAATTACTATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCTTAATTTCATC-GAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCA-CAAAAA
* * * * *
36579633 CTACCATTTTACCCCCAAATTTTCTAAAATCCCATTTTTAACCCCGATTTCA
65 ATACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGACTTCA
36579685 CCAAAAATTA-CATTTTTACCCCC
1 CCAAAAATTACCA-TTTTACCCCC
36579708 GAAAGTAAAA
Statistics
Matches: 343, Mismatches: 24, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
115 1 0.00
116 177 0.52
117 21 0.06
118 134 0.39
119 10 0.03
ACGTcount: A:0.35, C:0.33, G:0.01, T:0.31
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTAACCCCGATTTCACAAAAAA
TACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGACTTCA
Found at i:36579720 original size:58 final size:59
Alignment explanation
Indices: 36579217--36579707 Score: 686
Period size: 59 Copynumber: 8.4 Consensus size: 59
36579207 CCTGGACTGT
* *
36579217 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
36579276 CAAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTCTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
36579335 CCAAAAATTACCATTTTACCCCTAAACTTCTCAAAATCCCATTCTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
36579394 CCAAAAAATACCATTTTACCCCCAAACTTCTCAAAATCCCATTTTTAACCCCGACTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
* *
36579453 CCAAAAATTACTATTTTACCCCCAAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
36579511 CTAAAAA-TACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCTACTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
* * * ***
36579569 ACAAAAATTACTATTTTACCCCCAAACTTTCCAAAATCCCA-TTTTAACCTTAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
* * * * * *
36579627 TC-GAAACTACCATTTTACCCCCAAATTTTCTAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
36579685 CCAAAAATTA-CATTTTTACCCCC
1 CCAAAAATTACCA-TTTTACCCCC
36579708 GAAAGTAAAA
Statistics
Matches: 384, Mismatches: 43, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
57 64 0.17
58 73 0.19
59 247 0.64
ACGTcount: A:0.35, C:0.33, G:0.01, T:0.31
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTCCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:36584387 original size:18 final size:18
Alignment explanation
Indices: 36584362--36584400 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36584352 AAGAAGGATT
*
36584362 AAATTGAAAAGAAAAT-A
1 AAATTGAAAAAAAAATGA
36584379 AAATCTGAAAAAAAAATGA
1 AAAT-TGAAAAAAAAATGA
36584398 AAA
1 AAA
36584401 GAACCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (18 bp):
AAATTGAAAAAAAAATGA
Found at i:36586213 original size:30 final size:30
Alignment explanation
Indices: 36586152--36586213 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
36586142 AGATAGGAGG
* * **
36586152 GGAGTAAAAGTTTTGAGAGAAAAGTGGAAA
1 GGAGTAAAAGTTTCGAGAAAAAAGTAAAAA
*
36586182 GGAGTAAAAGTTTCGGGAAAAAAGTAAAAA
1 GGAGTAAAAGTTTCGAGAAAAAAGTAAAAA
36586212 GG
1 GG
36586214 TTTGGAGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.32, T:0.18
Consensus pattern (30 bp):
GGAGTAAAAGTTTCGAGAAAAAAGTAAAAA
Found at i:36589140 original size:153 final size:151
Alignment explanation
Indices: 36588932--36589211 Score: 400
Period size: 153 Copynumber: 1.8 Consensus size: 151
36588922 ACATTGGATA
* * *
36588932 AATTAATTTTTGGAGAAAATTATGGAGTAAAATTTAAAAGTTAAAATATGCTCTAACTATTTATA
1 AATTAAATTTTGGAGAAAATTATGGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTATA
* *
36588997 TTCTTTGGACATTTTTAAATCCCAATACTTTTAGTTTTAAGAATTTAATGCC-TCCTAACAACCT
66 TTCATTGGACATTTTCAAATCCCAATACTTTTAGTTTTAAGAATTTAATGCCTTCCTAACAACCT
36589061 AACAATGTGCACTTGTCAAGC
131 AACAATGTGCACTTGTCAAGC
* * * * *
36589082 AATTAAATTTTGGAGCAAATTATGGTGTTGTAAATTTTAAAAGTCAAGATATGGTCTAACTACTT
1 AATTAAATTTTGGAGAAAATTAT-G-G-AGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTT
* * * *
36589147 ATATTCATTGGACATTTTCAAATCCCAATACTTTTATTTTTAGGAATTTAGTGCCTTCTTAACAA
63 ATATTCATTGGACATTTTCAAATCCCAATACTTTTAGTTTTAAGAATTTAATGCCTTCCTAACAA
36589212 TGTGTACTTG
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 21 0.19
151 1 0.01
152 1 0.01
153 81 0.72
154 8 0.07
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (151 bp):
AATTAAATTTTGGAGAAAATTATGGAGTAAAATTTAAAAGTCAAAATATGCTCTAACTACTTATA
TTCATTGGACATTTTCAAATCCCAATACTTTTAGTTTTAAGAATTTAATGCCTTCCTAACAACCT
AACAATGTGCACTTGTCAAGC
Found at i:36591570 original size:142 final size:143
Alignment explanation
Indices: 36591380--36591652 Score: 424
Period size: 142 Copynumber: 1.9 Consensus size: 143
36591370 AATTAAAATT
* * * *
36591380 AAATTTTGGAATAAAATTTAAAAGTAAAAATATGGTCTAACTATTTATATTCATTGGACATTTTC
1 AAATTATGGAATAAAATTTAAAAGTAAAAATATGATCTAACGACTTATATTCATTGGACATTTTC
* *
36591445 AAA-CTCCAATACTTTTATTTTTAGGAATTTAGTGC-CTCTTAGCAATGTGCACTTGTCAAGCAA
66 AAATCT-CAATACTTTTATTTTTAGGAATTTAGTGCACTCTTAACAATGTGCACTTATCAAGCAA
36591508 TTAATTTTTGGAGC
130 TTAATTTTTGGAGC
* *
36591522 AAATTATGGAGTAAAATTTAAAAGTCAAAATATGATCTAACGACTTATATTCATTGGACATTTTC
1 AAATTATGGAATAAAATTTAAAAGTAAAAATATGATCTAACGACTTATATTCATTGGACATTTTC
* * *
36591587 TAATCTCAATACTTTTATTTTTAGGAATTTAGTGCATTCTTAATAATGTGCACTTATCAAGCAAT
66 AAATCTCAATACTTTTATTTTTAGGAATTTAGTGCACTCTTAACAATGTGCACTTATCAAGCAAT
36591652 T
131 T
36591653 TGGTTGAATA
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
142 90 0.76
143 28 0.24
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (143 bp):
AAATTATGGAATAAAATTTAAAAGTAAAAATATGATCTAACGACTTATATTCATTGGACATTTTC
AAATCTCAATACTTTTATTTTTAGGAATTTAGTGCACTCTTAACAATGTGCACTTATCAAGCAAT
TAATTTTTGGAGC
Found at i:36599620 original size:31 final size:31
Alignment explanation
Indices: 36599585--36599643 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
36599575 AATTTTTTGC
* * *
36599585 AAAAAATTGAATTTGATCATCAACATTTCAA
1 AAAAAATCGAATTTAACCATCAACATTTCAA
*
36599616 AAAAAATCGAATTTAACCATCAATATTT
1 AAAAAATCGAATTTAACCATCAACATTT
36599644 TAAATAGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (31 bp):
AAAAAATCGAATTTAACCATCAACATTTCAA
Found at i:36605734 original size:27 final size:27
Alignment explanation
Indices: 36605694--36605745 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
36605684 TGTTTTGTTA
36605694 TTTTAATTTAAAA-TAAATAAATAAATT
1 TTTTAATTTAAAATTAAA-AAATAAATT
* *
36605721 TTTTATTTTTAAATTAAAAAATAAA
1 TTTTAATTTAAAATTAAAAAATAAA
36605746 ATGATACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTTAATTTAAAATTAAAAAATAAATT
Found at i:36606159 original size:27 final size:27
Alignment explanation
Indices: 36606129--36606200 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 27
36606119 CCATGTCTAA
36606129 TTAAAATATTTTAAAACTAAATTA-GTT
1 TTAAAATATTTTAAAA-TAAATTAGGTT
*
36606156 TTAAAATATATTAAAATAAATTAGGTT
1 TTAAAATATTTTAAAATAAATTAGGTT
*
36606183 TTAAATATATTTAAAAAT
1 TTAAA-ATATTTTAAAAT
36606201 TTTGGTTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 7 0.17
27 23 0.57
28 10 0.25
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (27 bp):
TTAAAATATTTTAAAATAAATTAGGTT
Found at i:36607216 original size:26 final size:27
Alignment explanation
Indices: 36607164--36607218 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
36607154 ATTTGGAAAT
*
36607164 TAAATTGAATTAGAGAAATATATTAAA
1 TAAATTGAATTAAAGAAATATATTAAA
36607191 TAAATTGAATTAAAG-AATATATTAAA
1 TAAATTGAATTAAAGAAATATATTAAA
36607217 TA
1 TA
36607219 CGTAGGAGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (27 bp):
TAAATTGAATTAAAGAAATATATTAAA
Found at i:36609408 original size:164 final size:165
Alignment explanation
Indices: 36609238--36609578 Score: 553
Period size: 165 Copynumber: 2.1 Consensus size: 165
36609228 AACTTGCTTG
*
36609238 ATGTCAAGGAACTTCATCTCAGATTCTAGGAAAGTATCT-ACTCCATTGTTCGAAAATCCAGGCT
1 ATGTCAAGGAACTTCATCTCAGATTCTAGGAAAGTAT-TGACTCCATTGTTCAAAAATCCAGGCT
* * *
36609302 AGCAATGATCT-ATCTTATC-TTCCCGAGAATTGTCATGTTGGTAGTTCTGCTTGAATTAATAAA
65 AGCAATGATCTAAAC-TATCTTTCCCCAGAATAGTCATGTTGGTAGTTCTGCTTGAATTAATAAA
*
36609365 ACTGGTTTATGAATCAAAATGGTTATTAGCTTGATCA
129 ACTGGTTTATAAATCAAAATGGTTATTAGCTTGATCA
* *
36609402 ATGTCAAGGAACTTCATCTCAGATTCTAGGAAAGTATTGACTCCATTGTTCAAAAATCCGGGTTA
1 ATGTCAAGGAACTTCATCTCAGATTCTAGGAAAGTATTGACTCCATTGTTCAAAAATCCAGGCTA
* * *
36609467 GCAATGATCTAAACTATCTTTCCCCAGAATAGTCATGTTGGTAGTTCTGCTTGAATTACTAGAAG
66 GCAATGATCTAAACTATCTTTCCCCAGAATAGTCATGTTGGTAGTTCTGCTTGAATTAATAAAAC
36609532 TGGTTTATAAATCAAAATGGTTATTAGCTTGATCA
131 TGGTTTATAAATCAAAATGGTTATTAGCTTGATCA
36609567 ATGTCAAGGAAC
1 ATGTCAAGGAAC
36609579 GTTGTTTCGA
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
163 1 0.01
164 74 0.45
165 89 0.54
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (165 bp):
ATGTCAAGGAACTTCATCTCAGATTCTAGGAAAGTATTGACTCCATTGTTCAAAAATCCAGGCTA
GCAATGATCTAAACTATCTTTCCCCAGAATAGTCATGTTGGTAGTTCTGCTTGAATTAATAAAAC
TGGTTTATAAATCAAAATGGTTATTAGCTTGATCA
Found at i:36642774 original size:15 final size:15
Alignment explanation
Indices: 36642731--36642804 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
36642721 CCTATAAAAA
*
36642731 TAATTATTTTTA-TT
1 TAATTATTTATATTT
*
36642745 TAATTCAAATTATATTT
1 TAATT--ATTTATATTT
36642762 TAATTATTTATATTT
1 TAATTATTTATATTT
* *
36642777 AAAATA-TTATATTT
1 TAATTATTTATATTT
* *
36642791 TAATCACTTATATT
1 TAATTATTTATATT
36642805 ATTATTTTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
14 16 0.33
15 20 0.42
16 5 0.10
17 7 0.15
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTATTTATATTT
Found at i:36642785 original size:29 final size:29
Alignment explanation
Indices: 36642731--36642804 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
36642721 CCTATAAAAA
*
36642731 TAATTATTTTTATTTAATTCAAATTATATTT
1 TAATTATTTATATTTAA-T-AAATTATATTT
36642762 TAATTATTTATATTTAA-AATATTATATTT
1 TAATTATTTATATTTAATAA-ATTATATTT
* *
36642791 TAATCACTTATATT
1 TAATTATTTATATT
36642805 ATTATTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 2 0.05
29 21 0.54
31 16 0.41
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (29 bp):
TAATTATTTATATTTAATAAATTATATTT
Found at i:36648065 original size:2 final size:2
Alignment explanation
Indices: 36648058--36648101 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
36648048 AATCTTCCAT
* *
36648058 TC TC TC TC TC TC TC TC TC TT TC TC TT TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
36648100 TC
1 TC
36648102 AAATTCCCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:36660613 original size:181 final size:183
Alignment explanation
Indices: 36660299--36660662 Score: 624
Period size: 181 Copynumber: 2.0 Consensus size: 183
36660289 ATGAAAATGT
*
36660299 TTCTTAGAATCAGATTCCTAACCTTTTAGTAGTTTTCCTTGTAATTGCTTTTTAGCTGTGATGTC
1 TTCTTAGAATCAGATTCCTAACCTTTTAGTAG-TTTCCTTGTAATTGCTTTTCAGCTGTGATGTC
* **
36660364 ATTTTGATTATTTTATGTTGTTGCTTTCATTGAATTTTTTTCATTTGCTTACAGAGATGCATTTA
65 ATTTTGATAATTTTATGTTGTTGCTTTCATTGAATTTTCCTCATTTGCTTACAGAGATGCATTTA
* *
36660429 TTGATTATTGGATCAACGGCAGCATGTTGACAATGGATGTAGCAACCCAAATAG
130 TTGATTATTGGATCAACGGCAGCATGTTGACAATGGATATAGCAACACAAATAG
* *
36660483 TTCTTATAATCAGATTCCTAACTTTTTAGTAG-TT-CTTGTAATTGCTTTTCAGCTGTGATGTCA
1 TTCTTAGAATCAGATTCCTAACCTTTTAGTAGTTTCCTTGTAATTGCTTTTCAGCTGTGATGTCA
*
36660546 TTTTGATAATTTTATGTTGTTGCTTTTATTGAATTTTCCTCATTTGCTTACAGAGATGCATTTAT
66 TTTTGATAATTTTATGTTGTTGCTTTCATTGAATTTTCCTCATTTGCTTACAGAGATGCATTTAT
36660611 TGATTATTGGATCAACGGCAGCATGTTGACAATGGATATAGCAACACAAATA
131 TGATTATTGGATCAACGGCAGCATGTTGACAATGGATATAGCAACACAAATA
36660663 TTTACAATAT
Statistics
Matches: 171, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
181 139 0.81
182 2 0.01
184 30 0.18
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.44
Consensus pattern (183 bp):
TTCTTAGAATCAGATTCCTAACCTTTTAGTAGTTTCCTTGTAATTGCTTTTCAGCTGTGATGTCA
TTTTGATAATTTTATGTTGTTGCTTTCATTGAATTTTCCTCATTTGCTTACAGAGATGCATTTAT
TGATTATTGGATCAACGGCAGCATGTTGACAATGGATATAGCAACACAAATAG
Found at i:36668604 original size:2 final size:2
Alignment explanation
Indices: 36668597--36668626 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36668587 AGTTTTTGGT
36668597 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
36668627 AATCAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36680122 original size:3 final size:3
Alignment explanation
Indices: 36680114--36680138 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36680104 CCCTAAAGGG
36680114 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
36680139 GCAAATCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:36680815 original size:13 final size:13
Alignment explanation
Indices: 36680797--36680821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36680787 ACAATTTAAA
36680797 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
36680810 AAAAGAAAAAAA
1 AAAAGAAAAAAA
36680822 AATTGTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:36685749 original size:29 final size:26
Alignment explanation
Indices: 36685724--36685778 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
36685714 ATAAATAATT
36685724 TAAAAATTATAAAAATAGTAAAAATAAAA
1 TAAAAA-T-TAAAAATA-TAAAAATAAAA
*
36685753 TAAAAATTAAAAATATAAAATTAAAA
1 TAAAAATTAAAAATATAAAAATAAAA
36685779 AAATAGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
27 8 0.32
28 1 0.04
29 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (26 bp):
TAAAAATTAAAAATATAAAAATAAAA
Found at i:36685772 original size:14 final size:14
Alignment explanation
Indices: 36685733--36685779 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
36685723 TTAAAAATTA
*
36685733 TAAAAATAGTAAAAA
1 TAAAAATA-TAAAAT
36685748 T-AAAATA-AAAAT
1 TAAAAATATAAAAT
36685760 TAAAAATATAAAAT
1 TAAAAATATAAAAT
36685774 TAAAAA
1 TAAAAA
36685780 AATAGTATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.17
13 6 0.21
14 17 0.59
15 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAAAATATAAAAT
Found at i:36685974 original size:23 final size:24
Alignment explanation
Indices: 36685908--36685967 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
36685898 TTAATTCTTT
36685908 TTAAAAAT-TAAAAACTAAATTTAA
1 TTAAAAATATAAAAA-TAAATTTAA
* *
36685932 TTAAAAAAATAAACCATAAA-TTAA
1 TTAAAAATATAAA-AATAAATTTAA
36685956 -TAAAAATATAAA
1 TTAAAAATATAAA
36685968 TATTAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 11 0.35
24 11 0.35
25 8 0.26
26 1 0.03
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (24 bp):
TTAAAAATATAAAAATAAATTTAA
Found at i:36689543 original size:14 final size:16
Alignment explanation
Indices: 36689518--36689552 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
36689508 TAAATTATTA
36689518 TTTTAATAATATA-AT
1 TTTTAATAATATATAT
36689533 TTTTAAT-ATATATAT
1 TTTTAATAATATATAT
36689548 TTTTA
1 TTTTA
36689553 TACGTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTAATAATATATAT
Found at i:36693254 original size:24 final size:24
Alignment explanation
Indices: 36693228--36693273 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
36693218 CACAAATATT
*
36693228 TTTTTATA-AAATATTTTTAAAAC
1 TTTTTACATAAATATTTTTAAAAC
*
36693251 TTTTTACATATATATTTTTAAAA
1 TTTTTACATAAATATTTTTAAAA
36693274 TCATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTTACATAAATATTTTTAAAAC
Found at i:36695311 original size:29 final size:28
Alignment explanation
Indices: 36695277--36695343 Score: 107
Period size: 29 Copynumber: 2.4 Consensus size: 28
36695267 GGATTTTTTT
36695277 AAAAATTGATTTAATTAATTTTAATATGA
1 AAAAATTGATTTAATTAATTTTAAT-TGA
*
36695306 AAAAATTGATTTGATTAATTTTAATTGA
1 AAAAATTGATTTAATTAATTTTAATTGA
*
36695334 AAAAACTGAT
1 AAAAATTGAT
36695344 CAAATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.42
Consensus pattern (28 bp):
AAAAATTGATTTAATTAATTTTAATTGA
Found at i:36695354 original size:29 final size:29
Alignment explanation
Indices: 36695289--36695351 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
36695279 AAATTGATTT
* **
36695289 AATTAATTTTAATATGAAAAAATTGATTT
1 AATTAATTTTAATATGAAAAAACTGATCA
*
36695318 GATTAATTTTAAT-TGAAAAAACTGATCA
1 AATTAATTTTAATATGAAAAAACTGATCA
36695346 AATTAA
1 AATTAA
36695352 ATTAATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (29 bp):
AATTAATTTTAATATGAAAAAACTGATCA
Found at i:36696486 original size:18 final size:16
Alignment explanation
Indices: 36696444--36696495 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 16
36696434 CTTGAAGGAT
36696444 TCAATGTAAAAAAAAA
1 TCAATGTAAAAAAAAA
**
36696460 AAAATTGTACAAAAAAAA
1 TCAA-TGTA-AAAAAAAA
36696478 GTCAATGTAAAATAAAAA
1 -TCAATGTAAAA-AAAAA
36696496 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 2 0.07
17 7 0.25
18 17 0.61
19 2 0.07
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.19
Consensus pattern (16 bp):
TCAATGTAAAAAAAAA
Found at i:36697448 original size:22 final size:23
Alignment explanation
Indices: 36697422--36697466 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36697412 TACTTGTAAA
36697422 TTTG-ACAATTTGTGTATTTTTT
1 TTTGAACAATTTGTGTATTTTTT
* *
36697444 TTTGAATAATTTGTGTGTTTTTT
1 TTTGAACAATTTGTGTATTTTTT
36697467 CGTCATAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.64
Consensus pattern (23 bp):
TTTGAACAATTTGTGTATTTTTT
Found at i:36699666 original size:18 final size:18
Alignment explanation
Indices: 36699640--36699675 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36699630 AGGTTTATCA
* *
36699640 AAATTAATTTTATATTTT
1 AAATAAATTTAATATTTT
36699658 AAATAAATTTAATATTTT
1 AAATAAATTTAATATTTT
36699676 TATCTAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATAAATTTAATATTTT
Found at i:36701692 original size:27 final size:25
Alignment explanation
Indices: 36701656--36701708 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
36701646 AGAAAATGTC
*
36701656 AAGTTTAGATATCAAATTGGAAAAAAA
1 AAGTTTAGATACCAAATT--AAAAAAA
36701683 AAGTTTAGATACCAAATTAAAAAAA
1 AAGTTTAGATACCAAATTAAAAAAA
36701708 A
1 A
36701709 TACTAAGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
27 17 0.68
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (25 bp):
AAGTTTAGATACCAAATTAAAAAAA
Found at i:36707272 original size:16 final size:16
Alignment explanation
Indices: 36707251--36707282 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36707241 TATGTGAGGT
36707251 ACCACGTGTGTTCGCA
1 ACCACGTGTGTTCGCA
36707267 ACCACGTGTGTTCGCA
1 ACCACGTGTGTTCGCA
36707283 GGAGAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (16 bp):
ACCACGTGTGTTCGCA
Found at i:36710769 original size:2 final size:2
Alignment explanation
Indices: 36710764--36710796 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
36710754 ATGTGAGTGT
36710764 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 G
36710797 TATTTGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36712870 original size:27 final size:26
Alignment explanation
Indices: 36712820--36712881 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 26
36712810 CCCCAGTTTT
36712820 TTTTTAAGTCTAATTCATGAATTT-G
1 TTTTTAAGTCTAATTCATGAATTTGG
36712845 TTTTTAAGTCTAA-TCTATGAATATTTGG
1 TTTTTAAGTCTAATTC-ATG-A-ATTTGG
36712873 TTTCTTAAG
1 TTT-TTAAG
36712882 CAGTAAGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.06
25 16 0.50
26 1 0.03
27 4 0.12
28 4 0.12
29 5 0.16
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (26 bp):
TTTTTAAGTCTAATTCATGAATTTGG
Found at i:36718248 original size:10 final size:9
Alignment explanation
Indices: 36718190--36718246 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
36718180 ACTGAATTTT
36718190 TTTTAAAAA
1 TTTTAAAAA
*
36718199 TTTTAAAAC
1 TTTTAAAAA
36718208 TTTTAAAAAA
1 TTTT-AAAAA
* * *
36718218 GCTGTAAAAG
1 -TTTTAAAAA
36718228 TTATTAAAAA
1 TT-TTAAAAA
36718238 TTTTAAAAA
1 TTTTAAAAA
36718247 ATAGTAAAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
9 20 0.54
10 15 0.41
11 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:36722396 original size:36 final size:36
Alignment explanation
Indices: 36722346--36722453 Score: 207
Period size: 36 Copynumber: 3.0 Consensus size: 36
36722336 TGGAGGGTCC
36722346 TTAGTGGGTCATATCCCCATAATGATGTTTGAATAT
1 TTAGTGGGTCATATCCCCATAATGATGTTTGAATAT
*
36722382 TTAGTGGGTAATATCCCCATAATGATGTTTGAATAT
1 TTAGTGGGTCATATCCCCATAATGATGTTTGAATAT
36722418 TTAGTGGGTCATATCCCCATAATGATGTTTGAATAT
1 TTAGTGGGTCATATCCCCATAATGATGTTTGAATAT
36722454 ATGTCAAACA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (36 bp):
TTAGTGGGTCATATCCCCATAATGATGTTTGAATAT
Found at i:36724853 original size:18 final size:18
Alignment explanation
Indices: 36724830--36724866 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36724820 AATATTGTTA
36724830 TTTGACATTACTATTTCT
1 TTTGACATTACTATTTCT
36724848 TTTGACATTACTATTTCT
1 TTTGACATTACTATTTCT
36724866 T
1 T
36724867 CGCATTTCTT
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:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTGACATTACTATTTCT
Found at i:36738359 original size:21 final size:21
Alignment explanation
Indices: 36738335--36738377 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
36738325 ACACAAAATT
36738335 ATGTAT-GTCTTTAAATTGGAA
1 ATGTATAGT-TTTAAATTGGAA
*
36738356 ATGTATAGTTTTGAATTGGAA
1 ATGTATAGTTTTAAATTGGAA
36738377 A
1 A
36738378 ATTAAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (21 bp):
ATGTATAGTTTTAAATTGGAA
Found at i:36745142 original size:101 final size:102
Alignment explanation
Indices: 36744963--36745154 Score: 251
Period size: 101 Copynumber: 1.9 Consensus size: 102
36744953 TTTCATTAGT
* * * * * *
36744963 AGATGTGTCGAATTGGTACAATTTTTAAATGAAGTAAAGCAAGGATTTATATCGTTGTATGGGTG
1 AGATGTGTCAAAATGATACAATTTTAAAATGAAATAAAG-AAGGATTTATATCGTTGTATAGGTG
*
36745028 ATGATAACAGTCTAATTAGAATTGCCTTGAATTATAAG
65 ATGATAACAGTCTAACTAGAATTGCCTTGAATTATAAG
* * *
36745066 AGATGTGTCAAAATGATACGATTTTAAAATGAAATAATG-AGGATTTATATTGTTGTATAGGTGA
1 AGATGTGTCAAAATGATACAATTTTAAAATGAAATAAAGAAGGATTTATATCGTTGTATAGGTGA
* * *
36745130 TGGTAGCTGTCTAACTAGAATTGCC
66 TGATAACAGTCTAACTAGAATTGCC
36745155 CTGCATTTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
101 44 0.58
103 32 0.42
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (102 bp):
AGATGTGTCAAAATGATACAATTTTAAAATGAAATAAAGAAGGATTTATATCGTTGTATAGGTGA
TGATAACAGTCTAACTAGAATTGCCTTGAATTATAAG
Found at i:36759421 original size:3 final size:3
Alignment explanation
Indices: 36759401--36759446 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
36759391 GATGCCAAAG
* * *
36759401 AGA AGG AGA AGA AAA AGA AGA AAA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
36759447 AGATAATAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:36759545 original size:117 final size:117
Alignment explanation
Indices: 36759337--36759566 Score: 270
Period size: 117 Copynumber: 2.0 Consensus size: 117
36759327 GGACAAAAAG
* *
36759337 AAGGATAAGGAGAAAAAGAAAGAAGAGAAGTCGGATAAAGAGGATGATGTAGAAGATGCCAAAGA
1 AAGGATAAGGAGAAAAAGAAAGAAGAGAAGTCGGATAAAGAGGACGATGAAGAAGATGCCAAAGA
*
36759402 GAAGGAGAAGAAAAAGAAGAAAAAGAAGAAGAAGAAGAAGAAGAAAGATAAT
66 GAAGGAGAAGAAAAAGAAGAAAAAGAAGAAGAAGAAGAAAAAGAAAGATAAT
* * * ** *
36759454 AAGGATAAGGAGAAAAAGGAAGACA-AGAAGT-GTGATACAGAGGACGTTGAAGAATTTGCCGAA
1 AAGGATAAGGAGAAAAAGAAAGA-AGAGAAGTCG-GATAAAGAGGACGATGAAGAAGATGCCAAA
* * * * *
36759517 GA-AGAGGAGAAGAAGAAGAA-AGATAAGAAGGATAAGGAGAAAAAGAAAGA
64 GAGA-AGGAGAAGAAAAAGAAGA-AAAAGAAGAAGAAGAAGAAAAAGAAAGA
36759567 AAAGAAGTCG
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
116 3 0.03
117 91 0.96
118 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.32, T:0.09
Consensus pattern (117 bp):
AAGGATAAGGAGAAAAAGAAAGAAGAGAAGTCGGATAAAGAGGACGATGAAGAAGATGCCAAAGA
GAAGGAGAAGAAAAAGAAGAAAAAGAAGAAGAAGAAGAAAAAGAAAGATAAT
Found at i:36759621 original size:90 final size:90
Alignment explanation
Indices: 36759423--36759626 Score: 250
Period size: 90 Copynumber: 2.3 Consensus size: 90
36759413 AAAAGAAGAA
* * *
36759423 AAAGAAGAAGAAGAAGAAGAAGAAAGATAATAAGGATAAGGAGAAAAAGGAAGACAAGAAGTGTG
1 AAAGAAG-AGAAGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGTG
* * **
36759488 ATACAGAGGACGTTGAAGAATTTGCC
65 ATAAAGAGGACGATGAAGAAGCTGCC
* *
36759514 GAAGAAGAGGAGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCG-G
1 AAAGAAGAGAAGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GTG
* * *
36759578 ATAAAGAGGATGATGTAGAAGCTGTC
65 ATAAAGAGGACGATGAAGAAGCTGCC
*
36759604 AAAGAGGAGAA-AGAGAAGAAGAA
1 AAAGAAGAGAAGA-AGAAGAAGAA
36759627 GGAGGAGGAG
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
89 1 0.01
90 88 0.92
91 7 0.07
ACGTcount: A:0.54, C:0.04, G:0.32, T:0.10
Consensus pattern (90 bp):
AAAGAAGAGAAGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGTGA
TAAAGAGGACGATGAAGAAGCTGCC
Found at i:36759632 original size:108 final size:107
Alignment explanation
Indices: 36759514--36759762 Score: 329
Period size: 108 Copynumber: 2.3 Consensus size: 107
36759504 AGAATTTGCC
* *
36759514 GAAGAAGAGGAGAAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-CGG
1 GAAGAAGAGGAGGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGC-A
* * *
36759578 ATAAAGAGGATGATGTAGAAGCTGTCAAAGAGGAGAAAGAGAA
65 ATAAAGAGGATGACGTAGAAGATGCCAAAGAGGAGAAAGAGAA
* * * * *
36759621 GAAGAAGGAGGAGGAGGAGGAGAAAGATAATAAGGATAAGGAGAAAAGGAAAGATAAGAAGTGCA
1 GAAGAA-GAGGAGGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGCA
*
36759686 ATAAAGAGGATGACGTAGAAGATGCCAAAGAGGAGAAGGAGAA
65 ATAAAGAGGATGACGTAGAAGATGCCAAAGAGGAGAAAGAGAA
** * *
36759729 GAAGAAAGATAAGGAGAAAAAGAAAGAAAAGAAG
1 GAAG-AAGAGGAGGAGAAGAAGAAAGATAAGAAG
36759763 TCGGATAAAG
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
107 6 0.05
108 112 0.93
109 3 0.02
ACGTcount: A:0.55, C:0.03, G:0.35, T:0.08
Consensus pattern (107 bp):
GAAGAAGAGGAGGAGAAGAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGCAA
TAAAGAGGATGACGTAGAAGATGCCAAAGAGGAGAAAGAGAA
Found at i:36759744 original size:18 final size:18
Alignment explanation
Indices: 36759721--36759755 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36759711 CAAAGAGGAG
*
36759721 AAGGAGAAGAAGAAAGAT
1 AAGGAGAAAAAGAAAGAT
36759739 AAGGAGAAAAAGAAAGA
1 AAGGAGAAAAAGAAAGA
36759756 AAAGAAGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (18 bp):
AAGGAGAAAAAGAAAGAT
Found at i:36759883 original size:14 final size:15
Alignment explanation
Indices: 36759864--36759912 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
36759854 AGGATGACAT
* *
36759864 AGAAGATGGCGAA-G
1 AGAAGAAGGCAAAGG
36759878 AGAAGAAGGCAAAGG
1 AGAAGAAGGCAAAGG
36759893 AGAAGAA-G-AAA-G
1 AGAAGAAGGCAAAGG
36759905 AGAAGAAG
1 AGAAGAAG
36759913 CATGAGGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 8 0.26
13 3 0.10
14 12 0.39
15 8 0.26
ACGTcount: A:0.55, C:0.04, G:0.39, T:0.02
Consensus pattern (15 bp):
AGAAGAAGGCAAAGG
Found at i:36759907 original size:12 final size:13
Alignment explanation
Indices: 36759875--36759914 Score: 55
Period size: 12 Copynumber: 3.0 Consensus size: 13
36759865 GAAGATGGCG
36759875 AAGAGAAGAAGGCA
1 AAGAGAAGAA-GCA
36759889 AAGGAGAAGAAG-A
1 AA-GAGAAGAAGCA
36759902 AAGAGAAGAAGCA
1 AAGAGAAGAAGCA
36759915 TGAGGATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.38
13 4 0.17
14 3 0.12
15 8 0.33
ACGTcount: A:0.60, C:0.05, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAGAAGAAGCA
Found at i:36759908 original size:81 final size:82
Alignment explanation
Indices: 36759655--36759899 Score: 311
Period size: 81 Copynumber: 3.0 Consensus size: 82
36759645 AGATAATAAG
* * *
36759655 GATAAGGAGAAAAGGAAAGATAAGAAGTGCAATAAAGAGGATGACGTAGAAGATGCCAAAGAGGA
1 GATAAGGAGAAAAAGAAAGA-AAGAAGTCCAATAAAGAGGATGACGTAGAAGATGACAAAGAGGA
36759720 GAAGG--AGAAGAAGAAA
65 GAAGGAAAGAAGAAGAAA
** *
36759736 GATAAGGAGAAAAAGAAAGAAAAGAAGTCGGATAAAGCGGATGGA-GTAGAAGATGACAAAGAGG
1 GATAAGGAGAAAAAGAAAG-AAAGAAGTCCAATAAAGAGGAT-GACGTAGAAGATGACAAAGAGG
36759800 AGAA--AAAGAAGAAGAAA
64 AGAAGGAAAGAAGAAGAAA
* * * *
36759817 GATAAGGAGAAAAAGAAAGAACAGAAGTCCAATAAAGAGGATGACATAGAAGATGGCGAAGAGAA
1 GATAAGGAGAAAAAGAAAGAA-AGAAGTCCAATAAAGAGGATGACGTAGAAGATGACAAAGAGGA
*
36759882 GAAGGCAAAGGAGAAGAA
65 GAAGG-AAAGAAGAAGAA
36759900 GAAAGAGAAG
Statistics
Matches: 141, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
80 4 0.03
81 123 0.87
82 3 0.02
84 11 0.08
ACGTcount: A:0.55, C:0.05, G:0.32, T:0.08
Consensus pattern (82 bp):
GATAAGGAGAAAAAGAAAGAAAGAAGTCCAATAAAGAGGATGACGTAGAAGATGACAAAGAGGAG
AAGGAAAGAAGAAGAAA
Found at i:36766645 original size:29 final size:29
Alignment explanation
Indices: 36766612--36766670 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
36766602 ACAACAAGGA
36766612 TTATTTAAATGGA-AATGAATTTTATTTTT
1 TTATTT-AATGGATAATGAATTTTATTTTT
** *
36766641 TTATTTAATTTATAATTAATTTTATTTTT
1 TTATTTAATGGATAATGAATTTTATTTTT
36766670 T
1 T
36766671 AACAGGGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (29 bp):
TTATTTAATGGATAATGAATTTTATTTTT
Found at i:36771492 original size:20 final size:18
Alignment explanation
Indices: 36771456--36771491 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
36771446 TTTAGAAAAT
36771456 ATAATTTTTTAAAATATA
1 ATAATTTTTTAAAATATA
36771474 ATAATTCTTTT-AAATATA
1 ATAATT-TTTTAAAATATA
36771492 TCTGTTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATTTTTTAAAATATA
Found at i:36772930 original size:23 final size:23
Alignment explanation
Indices: 36772904--36772947 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36772894 TTTTTTATAT
36772904 ATAAAATT-TTAATAAATTAAAAA
1 ATAAAATTATTAA-AAATTAAAAA
*
36772927 ATAAAATTATTAAAATTTAAA
1 ATAAAATTATTAAAAATTAAA
36772948 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAAAATTATTAAAAATTAAAAA
Found at i:36772963 original size:16 final size:15
Alignment explanation
Indices: 36772915--36772964 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
36772905 TAAAATTTTA
36772915 ATAAATT-AAAAAAT
1 ATAAATTAAAAAAAT
**
36772929 A-AAATTATTAAAAT
1 ATAAATTAAAAAAAT
*
36772943 TTAAATTAAAAATAAT
1 ATAAATTAAAAA-AAT
36772959 ATAAAT
1 ATAAAT
36772965 ATTTTGTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 8 0.30
16 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAAATTAAAAAAAT
Found at i:36773400 original size:59 final size:61
Alignment explanation
Indices: 36773288--36773403 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 61
36773278 AAATTGAATC
* * * * *
36773288 TAAAAAAAGGCTTAGGTATCAAATTAGGAAAAAAAGTGTCAAGTTCAAGTACCAAATTAGG
1 TAAAAAAAAGCTTAGATATCAAATTAAGAAAAAAAGTCTCAAGTTCAAATACCAAATTAGG
*
36773349 TAAAAAAAAGTTTAGATATCAAATTAAGAAAAAATA-TCT-AA-TTCAAATACCAAAT
1 TAAAAAAAAGCTTAGATATCAAATTAAGAAAAAA-AGTCTCAAGTTCAAATACCAAAT
36773404 ATTATATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 13 0.27
60 2 0.04
61 32 0.67
62 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (61 bp):
TAAAAAAAAGCTTAGATATCAAATTAAGAAAAAAAGTCTCAAGTTCAAATACCAAATTAGG
Found at i:36784495 original size:16 final size:16
Alignment explanation
Indices: 36784474--36784509 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36784464 TGACGGTGCT
* *
36784474 TTTTTTTTTTTTTTTC
1 TTTTTTTGTATTTTTC
36784490 TTTTTTTGTATTTTTC
1 TTTTTTTGTATTTTTC
36784506 TTTT
1 TTTT
36784510 CCTTTTCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTTTGTATTTTTC
Found at i:36805345 original size:6 final size:7
Alignment explanation
Indices: 36805328--36805352 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36805318 TTATTTATTA
36805328 AAAAAAC
1 AAAAAAC
36805335 AAAAAAC
1 AAAAAAC
36805342 AAAAAAC
1 AAAAAAC
36805349 AAAA
1 AAAA
36805353 TAAAAATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:36810782 original size:21 final size:20
Alignment explanation
Indices: 36810758--36810806 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
36810748 TGTTGTATTA
*
36810758 TCATTGTTTACTTGAATTTTT
1 TCATTGTTTACTTCAA-TTTT
* *
36810779 TCATTTATTTATTTCAATTTT
1 TCA-TTGTTTACTTCAATTTT
36810800 TCATTGT
1 TCATTGT
36810807 ATAGTCATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.13
21 10 0.43
22 10 0.43
ACGTcount: A:0.20, C:0.10, G:0.06, T:0.63
Consensus pattern (20 bp):
TCATTGTTTACTTCAATTTT
Found at i:36810789 original size:22 final size:21
Alignment explanation
Indices: 36810764--36810804 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36810754 ATTATCATTG
*
36810764 TTTACTTGAATTTTTTCATTTA
1 TTTACTTCAA-TTTTTCATTTA
*
36810786 TTTATTTCAATTTTTCATT
1 TTTACTTCAATTTTTCATT
36810805 GTATAGTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTACTTCAATTTTTCATTTA
Found at i:36811937 original size:41 final size:41
Alignment explanation
Indices: 36811892--36811972 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
36811882 CAAACCGTGT
* * *
36811892 AACAATGGTTAAA-AAGAAAAACCATTTATACACAGTCCCGG
1 AACAATAG-TAAACAAGAAAAACCATGTACACACAGTCCCGG
36811933 AACAATAGTAAACAAGAAAAACCATGTACACACAGTCCCG
1 AACAATAGTAAACAAGAAAAACCATGTACACACAGTCCCG
36811973 AACTCTCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 4 0.11
41 32 0.89
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.16
Consensus pattern (41 bp):
AACAATAGTAAACAAGAAAAACCATGTACACACAGTCCCGG
Found at i:36838293 original size:2 final size:2
Alignment explanation
Indices: 36838282--36838310 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36838272 AAATTTAAGA
36838282 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36838311 GTATTCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:36840311 original size:2 final size:2
Alignment explanation
Indices: 36840304--36840378 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
36840294 ATTTACATCA
36840304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36840346 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 A
36840379 AAAGGTCAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36842866 original size:2 final size:2
Alignment explanation
Indices: 36842859--36842897 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
36842849 AACCTCAGTT
36842859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36842898 CACAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36864211 original size:26 final size:28
Alignment explanation
Indices: 36864155--36864212 Score: 93
Period size: 26 Copynumber: 2.1 Consensus size: 28
36864145 AGCGAAGCCA
36864155 TAAAATTTTTCTACCAGAAGTTTGAAAT
1 TAAAATTTTTCTACCAGAAGTTTGAAAT
*
36864183 TAAAA-TTTTCTATCAGAA-TTTGAAAT
1 TAAAATTTTTCTACCAGAAGTTTGAAAT
36864209 TAAA
1 TAAA
36864213 TTGTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 12 0.41
27 12 0.41
28 5 0.17
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (28 bp):
TAAAATTTTTCTACCAGAAGTTTGAAAT
Found at i:36864650 original size:6 final size:6
Alignment explanation
Indices: 36864641--36864667 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
36864631 TTACATCATA
36864641 AAAATT AAAATT AAAATT AAAATT AAA
1 AAAATT AAAATT AAAATT AAAATT AAA
36864668 TAGAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:36864674 original size:11 final size:11
Alignment explanation
Indices: 36864642--36864685 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
36864632 TACATCATAA
*
36864642 AAATTAAAATT
1 AAATAAAAATT
*
36864653 AAAATTAAAATT
1 -AAATAAAAATT
*
36864665 AAATAGAAATT
1 AAATAAAAATT
36864676 AAATAAAAAT
1 AAATAAAAAT
36864686 AAGATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AAATAAAAATT
Found at i:36872864 original size:21 final size:22
Alignment explanation
Indices: 36872827--36872867 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36872817 ATCTTTTCAA
36872827 TTTTATTAAAATAAATAATATT
1 TTTTATTAAAATAAATAATATT
36872849 TTTTAATT-AAAT-AATAATA
1 TTTT-ATTAAAATAAATAATA
36872868 ATTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTATTAAAATAAATAATATT
Found at i:36882781 original size:62 final size:62
Alignment explanation
Indices: 36882562--36882780 Score: 180
Period size: 62 Copynumber: 3.6 Consensus size: 62
36882552 AGATCAAATT
* * * * * *
36882562 TTGCATGGCCAACACCCTTATTTA-CTAATAAAAAAA-TT-AAA-TTTTTTGGTGTTGACCA
1 TTGCATGACCGACACCCCTATTTATCAAATAAAAAAATTTCAAATTTTTTTGGTGTTAACAA
* * * * *
36882620 -TGCAATGATCGACATCTCCT-TTTTTCAGATAAAAAAATTTCAAATTTTTTTGGTGTTGACAA
1 TTGC-ATGACCGACA-CCCCTATTTATCAAATAAAAAAATTTCAAATTTTTTTGGTGTTAACAA
* * * * * * * *
36882682 TTGTATGGCCGACACCTCTATTTATCAGATAAAAAAATTTTAATTTTTTTTTGTGTTAACCA
1 TTGCATGACCGACACCCCTATTTATCAAATAAAAAAATTTCAAATTTTTTTGGTGTTAACAA
* *
36882744 TTGCATGACCTACACCCCTTTTTATCTAAATAAAAAA
1 TTGCATGACCGACACCCCTATTTATC-AAATAAAAAA
36882781 TCAAATTTTT
Statistics
Matches: 126, Mismatches: 26, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
57 3 0.02
58 10 0.08
59 13 0.10
60 2 0.02
61 6 0.05
62 81 0.64
63 11 0.09
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (62 bp):
TTGCATGACCGACACCCCTATTTATCAAATAAAAAAATTTCAAATTTTTTTGGTGTTAACAA
Found at i:36886559 original size:12 final size:12
Alignment explanation
Indices: 36886542--36886589 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
36886532 TATTTGTGTA
36886542 AAAATTAATTTG
1 AAAATTAATTTG
36886554 AAAATTAATTTAAG
1 AAAATTAATTT--G
*
36886568 TTGAAATTAATTTG
1 --AAAATTAATTTG
36886582 AAAATTAA
1 AAAATTAA
36886590 GGTACACGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 18 0.60
14 2 0.07
16 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAAATTAATTTG
Found at i:36886811 original size:84 final size:84
Alignment explanation
Indices: 36886693--36887249 Score: 825
Period size: 84 Copynumber: 6.6 Consensus size: 84
36886683 ATTTAAAATT
* * *
36886693 AATTTAACATTATTTAAATAAAAAAAATTATTATTATATTTCAATTTATATCAAATATTGTGTTG
1 AATTTAA-A-TATTTAAAT--AAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTG
36886758 ATTTGACAATACATTATTTA-TCA
62 ATTTGACAATACATTATTTACT-A
** * * *
36886781 AATTTTCATATTTAAATTACAAATTATTATTATATTACAATTTTTATCAAATAATATGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
* * *
36886846 AACAATATACTATTTACTA
66 GACAATACATTATTTACTA
* * *
36886865 AATTTGAATATTTAAATTAAAAATTATTATTATATTATAATTTTTATCAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
* *
36886930 GATAATATATTATTTACTA
66 GACAATACATTATTTACTA
* * *
36886949 AATTTGAATATTTAGATAAAAAATTATTATTATATTACAATTTTTATCAAATAATATGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
*
36887014 GACAATACATTATTTATTA
66 GACAATACATTATTTACTA
* *
36887033 AGTTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTAATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
36887098 GACAATACATTATTTACTA
66 GACAATACATTATTTACTA
*
36887117 AATTTAAATATTTAAAT-AAAAA--ATTATTATATTATAATTTTTATCAAATAATGTGTTGATTT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
36887179 GACAATACATTATTTACTA
66 GACAATACATTATTTACTA
*
36887198 AATTTAAATATTTAAATAAAAAATTATTACTATATTACAATTTTTATCAAAT
1 AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAAT
36887250 TTTAAATTTA
Statistics
Matches: 428, Mismatches: 37, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
81 74 0.17
82 5 0.01
83 5 0.01
84 328 0.77
85 1 0.00
86 9 0.02
87 1 0.00
88 5 0.01
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (84 bp):
AATTTAAATATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTT
GACAATACATTATTTACTA
Found at i:36887370 original size:22 final size:22
Alignment explanation
Indices: 36887342--36887402 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
36887332 TGGATCACCC
*
36887342 AAATTCCAGCTCACCTAAACCG
1 AAATTCCAGCTCACCAAAACCG
* *
36887364 AAATTCCAGCTCATCAAAATCG
1 AAATTCCAGCTCACCAAAACCG
*
36887386 AAATTCTAGCTCACCAA
1 AAATTCCAGCTCACCAA
36887403 CACCCTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.39, C:0.31, G:0.08, T:0.21
Consensus pattern (22 bp):
AAATTCCAGCTCACCAAAACCG
Found at i:36888397 original size:20 final size:19
Alignment explanation
Indices: 36888374--36888418 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
36888364 ATTTTCGAAT
*
36888374 TTTTTATAATATTTTTTTTA
1 TTTTTA-AATATTTTTTATA
*
36888394 TTTTCGAAATATTTTTTATA
1 TTTT-TAAATATTTTTTATA
36888414 TTTTT
1 TTTTT
36888419 GAACTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTAAATATTTTTTATA
Found at i:36888414 original size:29 final size:29
Alignment explanation
Indices: 36888363--36888418 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
36888353 ATGTAAGATA
36888363 TATTTTCGAATTTTTTATAATATTTTTTT
1 TATTTTCGAATTTTTTATAATATTTTTTT
36888392 TATTTTCGAAATATTTTT-T-ATATTTTT
1 TATTTTCG-AAT-TTTTTATAATATTTTT
36888419 GAACTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 16 0.64
30 4 0.16
31 5 0.20
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (29 bp):
TATTTTCGAATTTTTTATAATATTTTTTT
Found at i:36889109 original size:24 final size:24
Alignment explanation
Indices: 36889082--36889128 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
36889072 CCCAAGGATA
36889082 AGCCAGATGACGA-GCTCATAGACG
1 AGCCAGATGACGAGGCTCA-AGACG
* *
36889106 AGCCCGATTACGAGGCTCAAGAC
1 AGCCAGATGACGAGGCTCAAGAC
36889129 CAACCCGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.32, C:0.28, G:0.28, T:0.13
Consensus pattern (24 bp):
AGCCAGATGACGAGGCTCAAGACG
Found at i:36889135 original size:24 final size:24
Alignment explanation
Indices: 36889091--36889136 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
36889081 AAGCCAGATG
* *
36889091 ACGAGCTCATAGACGAGCCCGATT
1 ACGAGCTCATAGACCAACCCGATT
36889115 ACGAGGCTCA-AGACCAACCCGA
1 ACGA-GCTCATAGACCAACCCGA
36889137 GTACCTGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.33, C:0.33, G:0.24, T:0.11
Consensus pattern (24 bp):
ACGAGCTCATAGACCAACCCGATT
Found at i:36889703 original size:30 final size:30
Alignment explanation
Indices: 36889591--36889708 Score: 134
Period size: 30 Copynumber: 4.0 Consensus size: 30
36889581 GATTTTTTTC
* *
36889591 CGTTTACT-TTTTAAATTCAATTTGTAATTT
1 CGTTTA-TATTTTAAATTTAATTTCTAATTT
36889621 CGTTT-TATTTTAAATTTAATTTCTAATTT
1 CGTTTATATTTTAAATTTAATTTCTAATTT
* * *
36889650 CCTGTATATTTT-TATTTAAATTTCTAATTT
1 CGTTTATATTTTAAATTT-AATTTCTAATTT
* *
36889680 CGTTTATCTTTTAAATTTTATTTCTAATT
1 CGTTTATATTTTAAATTTAATTTCTAATT
36889709 ATTATTTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.01
29 27 0.36
30 42 0.57
31 4 0.05
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.60
Consensus pattern (30 bp):
CGTTTATATTTTAAATTTAATTTCTAATTT
Found at i:36890417 original size:60 final size:58
Alignment explanation
Indices: 36890340--36891006 Score: 329
Period size: 60 Copynumber: 11.4 Consensus size: 58
36890330 AGGGAAAGTT
* * *
36890340 GGTGTCGGCCATTGCATGGTCAACACAAAAAAAATTAATTTTTTAACAGATAAAAAAG
1 GGTGTCGACCATTGCATGGCCAACACAAAAAAAATTAATTTTTTATCAGATAAAAAAG
* * *** ** * *
36890398 AGTGTGTCGACCATGGCATGACCAACACAAAAAGTTTTTTAATTTTTTATTTGACAAAAAGG
1 -G-GTGTCGACCATTGCATGGCCAACACAAAAA--AAATTAATTTTTTATCAGATAAAAAAG
* *
36890460 GGATGTCGGCCATTGCATGGCCAACAC------AATT--TTTTTTATTAGATAAAAAAAG
1 GG-TGTCGACCATTGCATGGCCAACACAAAAAAAATTAATTTTTTATCAGAT-AAAAAAG
* * * * *
36890512 GAGTGTCGATCATGGCATGGCCAACAC-AAAAAAATTCAAATTTTTTATCTGACAAAAAGG
1 G-GTGTCGACCATTGCATGGCCAACACAAAAAAAATT--AATTTTTTATCAGATAAAAAAG
* * * ** * * * *
36890572 GTGTGTTGACCATGGCATGGCCAATACCCAAAAATTTGATTTTTTTTTTCAGATAAAAAGG
1 G-GTGTCGACCATTGCATGGCCAACACAAAAAAAATT-A-ATTTTTTATCAGATAAAAAAG
* * * *
36890633 GGTGTCGGCCA-TGCAATAGTCAACACAAAAAAAATTAAATTTTTTTTATCTG--AAAAAAG
1 GGTGTCGACCATTGC-ATGGCCAACACAAAAAAAATT-AA--TTTTTTATCAGATAAAAAAG
* * * * *
36890692 AGGTGTCGATCATTGCATTGCCAACACAAAAAAATTTGATTTTTTATCAG-TAAATAAG
1 -GGTGTCGACCATTGCATGGCCAACACAAAAAAAATTAATTTTTTATCAGATAAAAAAG
* * ** * * *
36890750 GGTGTCGGCCATTGCATGGTCAACACAAAAAATTTTGATTTTTTTATTAGAT-AAATAG
1 GGTGTCGACCATTGCATGGCCAACACAAAAAAAATT-AATTTTTTATCAGATAAAAAAG
* * * ** * * * *
36890808 GGATGTCAATCATTGCGTGGTTAACAC-TAAAAAATTAAATTTTTATCTGACAAAAAAGG
1 GG-TGTCGACCATTGCATGGCCAACACAAAAAAAATTAATTTTTTATCAGATAAAAAA-G
** *** * * **
36890867 GGTGTCGACCATTGCATGATCAAC-CCCTAAAATTTGATTTTTTTTATCAGATTAAAAGTG
1 GGTGTCGACCATTGCATGGCCAACACAAAAAAAATT-A-ATTTTTTATCAGA-TAAAAAAG
* ** *
36890927 GGTGTCGGCCA-TGCAATGG-C--CA-AAACTAAATT--TTTTTTGTCAGATAAAAAAAG
1 GGTGTCGACCATTGC-ATGGCCAACACAAAAAAAATTAATTTTTTATCAGAT-AAAAAAG
36890980 AGGTGTC-AGCCATTGCATGGCCAACAC
1 -GGTGTCGA-CCATTGCATGGCCAACAC
36891007 CAATTTTTTT
Statistics
Matches: 456, Mismatches: 110, Indels: 85
0.70 0.17 0.13
Matches are distributed among these distances:
51 11 0.02
52 29 0.06
53 19 0.04
54 13 0.03
55 4 0.01
57 63 0.14
58 55 0.12
59 38 0.08
60 132 0.29
61 73 0.16
62 19 0.04
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (58 bp):
GGTGTCGACCATTGCATGGCCAACACAAAAAAAATTAATTTTTTATCAGATAAAAAAG
Found at i:36890519 original size:52 final size:51
Alignment explanation
Indices: 36890440--36890540 Score: 130
Period size: 52 Copynumber: 2.0 Consensus size: 51
36890430 AGTTTTTTAA
* ** * *
36890440 TTTTTTATTTGACAAAAAGGGGATGTCGGCCATTGCATGGCCAACACAATT
1 TTTTTTATTAGACAAAAAAAGGATGTCGACCATGGCATGGCCAACACAATT
* *
36890491 TTTTTTATTAGATAAAAAAAGGAGTGTCGATCATGGCATGGCCAACACAA
1 TTTTTTATTAGACAAAAAAAGGA-TGTCGACCATGGCATGGCCAACACAA
36890541 AAAAATTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 19 0.45
52 23 0.55
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (51 bp):
TTTTTTATTAGACAAAAAAAGGATGTCGACCATGGCATGGCCAACACAATT
Found at i:36890834 original size:59 final size:57
Alignment explanation
Indices: 36890674--36890909 Score: 167
Period size: 57 Copynumber: 4.1 Consensus size: 57
36890664 AAATTAAATT
* * * * * * *
36890674 TTTTTTATCTG-AAAAAAGAGGTGTCGATCATTGCATTGCCAACACAAAAAAATTTGA
1 TTTTTTATCAGTAAATAAG-GGTGTCAACCATTGCATGGTCAACACAAAAAATTTTGA
**
36890731 TTTTTTATCAGTAAATAAGGGTGTCGGCCATTGCATGGTCAACACAAAAAATTTTGA
1 TTTTTTATCAGTAAATAAGGGTGTCAACCATTGCATGGTCAACACAAAAAATTTTGA
* * * * *
36890788 TTTTTTTATTAGATAAAT-AGGGATGTCAATCATTGCGTGGTTAACACTAAAAAA--TTAA
1 -TTTTTTATCAG-TAAATAAGGG-TGTCAACCATTGCATGGTCAACAC-AAAAAATTTTGA
* * * * * * * **
36890846 ATTTTTATCTGACAAAAAAGGGGTGTCGACCATTGCATGATCAACCCCTAAAA-TTTGA
1 TTTTTTATCAG-TAAATAA-GGGTGTCAACCATTGCATGGTCAACACAAAAAATTTTGA
36890904 TTTTTT
1 TTTTTT
36890910 TTATCAGATT
Statistics
Matches: 142, Mismatches: 29, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
57 59 0.42
58 50 0.35
59 27 0.19
60 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (57 bp):
TTTTTTATCAGTAAATAAGGGTGTCAACCATTGCATGGTCAACACAAAAAATTTTGA
Found at i:36890840 original size:117 final size:114
Alignment explanation
Indices: 36890349--36890910 Score: 322
Period size: 117 Copynumber: 4.8 Consensus size: 114
36890339 TGGTGTCGGC
* * * * * * *
36890349 CATTGCATGGTCAACACAAAAAAAATTAATTTTTTAACAGATAAAAAAGAGTGTGTCGACCATGG
1 CATTGCATGGCCAACAC-AAAAAATTTGATTTTTTATCAGAT-AAAAAG-GGGTGTCGGCCATTG
** * * * * * ***
36890414 CATGACCAACACAAAAAGTTTTTTAATTTTTTATTTGACAAAAAGGGGATGTCGGC
63 CATGGTCAACACAAAAA--ATTTGATTTTTTTATCTGA-AAAAAGAGG-TGTCAAT
* * ** *
36890470 CATTGCATGGCCAACAC----AA-TT--TTTTTTATTAGATAAAAAAAGGAGTGTCGATCATGGC
1 CATTGCATGGCCAACACAAAAAATTTGATTTTTTATCAGAT--AAAAAGGGGTGTCGGCCATTGC
* ** * * ** *
36890528 ATGGCCAACACAAAAAAATTCAAATTTTTTATCTGACAAAAAGGGTGTGTTGAC
64 ATGGTCAACAC-AAAAAATTTGATTTTTTTATCTGA-AAAAAGAG-GTGTCAAT
* * * *
36890582 CATGGCATGGCCAATACCCAAAAATTTGATTTTTTTTTTCAGATAAAAAGGGGTGTCGGCCA-TG
1 CATTGCATGGCCAACA-CAAAAAATTTGA--TTTTTTATCAGATAAAAAGGGGTGTCGGCCATTG
* ** *
36890646 CAATAGTCAACACAAAAAAAATTAAATTTTTTTTATCTGAAAAAAGAGGTGTCGAT
63 C-ATGGTCAACAC--AAAAAATTTGA-TTTTTTTATCTGAAAAAAGAGGTGTCAAT
*
36890702 CATTGCATTGCCAACACAAAAAAATTTGATTTTTTATCAG-TAAATAA-GGGTGTCGGCCATTGC
1 CATTGCATGGCCAACAC-AAAAAATTTGATTTTTTATCAGATAAA-AAGGGGTGTCGGCCATTGC
*
36890765 ATGGTCAACACAAAAAATTTTGATTTTTTTAT-TAGATAAATAG-GGATGTCAAT
64 ATGGTCAACACAAAAAA-TTTGATTTTTTTATCT-GA-AAAAAGAGG-TGTCAAT
* ** * * * * *
36890818 CATTGCGTGGTTAACACTAAAAAA-TTAAATTTTTATCTGACAAAAAAGGGGTGTCGACCATTGC
1 CATTGCATGGCCAACAC-AAAAAATTTGATTTTTTATCAGA-TAAAAAGGGGTGTCGGCCATTGC
* * **
36890882 ATGATCAACCCCTAAAATTTGATTTTTTT
64 ATGGTCAACACAAAAAATTTGATTTTTTT
36890911 TATCAGATTA
Statistics
Matches: 364, Mismatches: 51, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
112 43 0.12
113 37 0.10
114 13 0.04
115 33 0.09
116 49 0.13
117 59 0.16
118 17 0.05
119 3 0.01
120 53 0.15
121 34 0.09
122 23 0.06
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (114 bp):
CATTGCATGGCCAACACAAAAAATTTGATTTTTTATCAGATAAAAAGGGGTGTCGGCCATTGCAT
GGTCAACACAAAAAATTTGATTTTTTTATCTGAAAAAAGAGGTGTCAAT
Found at i:36891012 original size:53 final size:53
Alignment explanation
Indices: 36890903--36891018 Score: 135
Period size: 54 Copynumber: 2.2 Consensus size: 53
36890893 CTAAAATTTG
* ** *
36890903 ATTTTTTTTATCAGATTAAAAGTGGGTGTCGGCCATGCAATGGCCAAAACTAA
1 ATTTTTTTTATCAGATAAAAAAAGGGTGTCAGCCATGCAATGGCCAAAACTAA
* * *
36890956 ATTTTTTTTGTCAGATAAAAAAAGAGGTGTCAGCCATTGC-ATGGCCAACACCAA
1 ATTTTTTTTATCAGATAAAAAAAG-GGTGTCAGCCA-TGCAATGGCCAAAACTAA
*
36891010 TTTTTTTTT
1 ATTTTTTTT
36891019 CAAATTCTCG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 20 0.38
54 30 0.57
55 3 0.06
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (53 bp):
ATTTTTTTTATCAGATAAAAAAAGGGTGTCAGCCATGCAATGGCCAAAACTAA
Found at i:36895229 original size:39 final size:39
Alignment explanation
Indices: 36895186--36895264 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
36895176 CCAAGCCATG
36895186 CATAAACCACCACGAGACCCATCTGCTCCAACCTCAATT
1 CATAAACCACCACGAGACCCATCTGCTCCAACCTCAATT
36895225 CATAAACCACCACGAGACCCATCTGCTCCAACCTCAATT
1 CATAAACCACCACGAGACCCATCTGCTCCAACCTCAATT
36895264 C
1 C
36895265 CATTCCTAAA
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:0.33, C:0.42, G:0.08, T:0.18
Consensus pattern (39 bp):
CATAAACCACCACGAGACCCATCTGCTCCAACCTCAATT
Found at i:36899330 original size:18 final size:19
Alignment explanation
Indices: 36899290--36899331 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
36899280 TTTTGTTGAG
*
36899290 ATAAAATTCTTAAATAACT
1 ATAAAATACTTAAATAACT
*
36899309 -TAAAATACTT-AATAATT
1 ATAAAATACTTAAATAACT
36899326 ATAAAA
1 ATAAAA
36899332 AATTTGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAATACTTAAATAACT
Found at i:36901515 original size:37 final size:37
Alignment explanation
Indices: 36901414--36901521 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
36901404 TAATTTATAT
*
36901414 TATATAGATTTCTGACATATTTATAGATTCATATTATG
1 TATATAGATTT-TGACATATTTATAGATTCATGTTATG
* * * * * *
36901452 TAGATGGATTTTGGCTTGTTTGTAGATTCATGTTATG
1 TATATAGATTTTGACATATTTATAGATTCATGTTATG
* *
36901489 TATATAAATTTTGACATACTTATAGATTCATGT
1 TATATAGATTTTGACATATTTATAGATTCATGT
36901522 GTTATATATT
Statistics
Matches: 55, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
37 46 0.84
38 9 0.16
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (37 bp):
TATATAGATTTTGACATATTTATAGATTCATGTTATG
Found at i:36923417 original size:6 final size:6
Alignment explanation
Indices: 36923393--36923457 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
36923383 TAAATTGATC
* *
36923393 TAAATT T-ATTT TCAAATT TAAATT T-ATTT TAAATT TAAATT T-AA-T
1 TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
36923438 TAAATT TGAA-T T-AATT TAAA
1 TAAATT TAAATT TAAATT TAAA
36923458 ACTTAATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
4 4 0.09
5 16 0.34
6 23 0.49
7 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:36923428 original size:17 final size:17
Alignment explanation
Indices: 36923393--36923454 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
36923383 TAAATTGATC
36923393 TAAATTTATTTTCAAATT
1 TAAATTTATTTT-AAATT
36923411 TAAATTTATTTTAAATT
1 TAAATTTATTTTAAATT
*
36923428 TAAATTTA-ATTAAATT
1 TAAATTTATTTTAAATT
* *
36923444 TGAATTAATTT
1 TAAATTTATTT
36923455 AAAACTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
16 13 0.33
17 14 0.36
18 12 0.31
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:36923438 original size:11 final size:11
Alignment explanation
Indices: 36923407--36923457 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
36923397 TTTATTTTCA
36923407 AATTTAAATTT
1 AATTTAAATTT
*
36923418 ATTTTAAATTT
1 AATTTAAATTT
*
36923429 AAATTT-AATTA
1 -AATTTAAATTT
*
36923440 AATTTGAA-TT
1 AATTTAAATTT
36923450 AATTTAAA
1 AATTTAAA
36923458 ACTTAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 13 0.39
11 16 0.48
12 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:36923456 original size:16 final size:17
Alignment explanation
Indices: 36923393--36923457 Score: 80
Period size: 16 Copynumber: 3.9 Consensus size: 17
36923383 TAAATTGATC
*
36923393 TAAATTTATTTTCAAATT
1 TAAATTTAATTT-AAATT
*
36923411 TAAATTTATTTTAAATT
1 TAAATTTAATTTAAATT
36923428 TAAATTTAA-TTAAATT
1 TAAATTTAATTTAAATT
*
36923444 TGAA-TTAATTTAAA
1 TAAATTTAATTTAAA
36923458 ACTTAATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.09
16 15 0.34
17 13 0.30
18 12 0.27
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TAAATTTAATTTAAATT
Found at i:36924626 original size:15 final size:14
Alignment explanation
Indices: 36924589--36924638 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
36924579 AAAGTTTTAA
*
36924589 AAAGAAAAAAAAAG
1 AAAGAAAGAAAAAG
36924603 AATAGAAAGAAAAAG
1 AA-AGAAAGAAAAAG
*
36924618 AAAGTAAAGAGAAAG
1 AAAG-AAAGAAAAAG
36924633 CAAAGA
1 -AAAGA
36924639 TTTTTTTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 4 0.13
15 23 0.74
16 4 0.13
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:36924697 original size:21 final size:21
Alignment explanation
Indices: 36924671--36924745 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
36924661 GAAGGTTGGC
*
36924671 GACGGCGCGTGGGCAAGAACG
1 GACGGCGCGTGGGCGAGAACG
36924692 GACGGCGCGTGGGCGAGAACG
1 GACGGCGCGTGGGCGAGAACG
*
36924713 GACGGCGTGTGGGCGAGAACG
1 GACGGCGCGTGGGCGAGAACG
*
36924734 GATGGCGCGTGG
1 GACGGCGCGTGG
36924746 CGCACGCGCG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.19, C:0.21, G:0.52, T:0.08
Consensus pattern (21 bp):
GACGGCGCGTGGGCGAGAACG
Found at i:36925466 original size:30 final size:28
Alignment explanation
Indices: 36925416--36925657 Score: 133
Period size: 30 Copynumber: 8.1 Consensus size: 28
36925406 CCCTAGAGGT
* * *
36925416 CCCTAAACTGTCCAAAAATTATACTTTGA
1 CCCTAACCTTTCC-AAAATTATATTTTGA
36925445 CCCTCGAACCTTTCCAAAATTATATTTTGA
1 CCCT--AACCTTTCCAAAATTATATTTTGA
* * *
36925475 CCCTTAAACTTTCTATAAATTACATTTTGA
1 CCC-TAACCTTTCCA-AAATTATATTTTGA
* *
36925505 TCCCTATACTTTTCCAAAATTATATTTTAA
1 -CCCTA-ACCTTTCCAAAATTATATTTTGA
** * * *
36925535 CCCTAAATTTTTCTATAAATTACATTTTAA
1 CCCT-AACCTTTCCA-AAATTATATTTTGA
* * *
36925565 CCCCTTGAACTTTTCTAAAATTATATTTTAA
1 -CCC-T-AACCTTTCCAAAATTATATTTTGA
* * ** * *
36925596 CCTTAAAACTTTTTATATATTACATTTTGA
1 CCCT-AACCTTTCCA-AAATTATATTTTGA
*
36925626 TCCCTAAACATTTCCAAAATTATATTTTGA
1 -CCCT-AACCTTTCCAAAATTATATTTTGA
36925656 CC
1 CC
36925658 TAAAAACTTT
Statistics
Matches: 169, Mismatches: 32, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
29 33 0.20
30 83 0.49
31 43 0.25
32 10 0.06
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (28 bp):
CCCTAACCTTTCCAAAATTATATTTTGA
Found at i:36925519 original size:60 final size:60
Alignment explanation
Indices: 36925455--36925704 Score: 280
Period size: 60 Copynumber: 4.2 Consensus size: 60
36925445 CCCTCGAACC
*
36925455 TTTCCAAAATTATATTTTGACCCTTAAACTTTCTATAAATTACATTTTGATCCCTATACT
1 TTTCCAAAATTATATTTTGACCCTTAAACTTTCTATAAATTACATTTTGACCCCTATACT
* * *
36925515 TTTCCAAAATTATATTTTAACCC-TAAATTTTTCTATAAATTACATTTTAACCCCT-TGAACT
1 TTTCCAAAATTATATTTTGACCCTTAAA-CTTTCTATAAATTACATTTTGACCCCTAT--ACT
* * * * * * *
36925576 TTTCTAAAATTATATTTT-AACCTTAAAACTTTTTATATATTACATTTTGATCCCTAAACA
1 TTTCCAAAATTATATTTTGACCCTT-AAACTTTCTATAAATTACATTTTGACCCCTATACT
*
36925636 TTTCCAAAATTATATTTTGA-CCTAAAAACTTTCTA-AAATTACATGTTT-ACCCCTA-ACT
1 TTTCCAAAATTATATTTTGACCCT-TAAACTTTCTATAAATTACAT-TTTGACCCCTATACT
*
36925694 TTTCCATAATT
1 TTTCCAAAATT
36925705 CCATTTTAAC
Statistics
Matches: 161, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
58 12 0.07
59 19 0.12
60 83 0.52
61 44 0.27
62 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.44
Consensus pattern (60 bp):
TTTCCAAAATTATATTTTGACCCTTAAACTTTCTATAAATTACATTTTGACCCCTATACT
Found at i:36925618 original size:121 final size:119
Alignment explanation
Indices: 36925445--36925716 Score: 345
Period size: 121 Copynumber: 2.3 Consensus size: 119
36925435 TATACTTTGA
* * *
36925445 CCCTCGAACCTTTCCAAAATTATATTTTGACCCTTAAACTTTCTATAAATTACATTTTGATCCCT
1 CCCTTGAACTTTTCCAAAATTATATTTT-AACCTTAAACTTTCTATAAATTACATTTTGATCCCT
* * **
36925510 ATACTTTTCCAAAATTATATTTTAACCCT-AAATTTTTCTATAAATTACAT-TTTAAC
65 AAACATTTCCAAAATTATATTTTAA-CCTAAAAACTTTCTA-AAATTACATGTTT-AC
* * *
36925566 CCCTTGAACTTTTCTAAAATTATATTTTAACCTTAAAACTTTTTATATATTACATTTTGATCCCT
1 CCCTTGAACTTTTCCAAAATTATATTTTAACCTT-AAACTTTCTATAAATTACATTTTGATCCCT
*
36925631 AAACATTTCCAAAATTATATTTTGACCTAAAAACTTTCTAAAATTACATGTTTAC
65 AAACATTTCCAAAATTATATTTTAACCTAAAAACTTTCTAAAATTACATGTTTAC
* **
36925686 CCC-T-AACTTTTCCATAATTCCATTTTAACCT
1 CCCTTGAACTTTTCCAAAATTATATTTTAACCT
36925717 CGATTTTACC
Statistics
Matches: 133, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
118 23 0.17
119 1 0.01
120 22 0.17
121 87 0.65
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (119 bp):
CCCTTGAACTTTTCCAAAATTATATTTTAACCTTAAACTTTCTATAAATTACATTTTGATCCCTA
AACATTTCCAAAATTATATTTTAACCTAAAAACTTTCTAAAATTACATGTTTAC
Done.