Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 104 of 163
Found at i:29660627 original size:138 final size:139
Alignment explanation
Indices: 29660422--29660773 Score: 326
Period size: 147 Copynumber: 2.5 Consensus size: 139
29660412 GATTTTGGGA
* *
29660422 AAAGTTTTTGTTTTTTTTAAACAATTTCGAAATAAAAGCTTTGATTTTTAAGTAAAATAGTGTTT
1 AAAGTTTTTGTTTTTTTTAAACAATTTCGAAATAAAAGCTTTGATTTTTAAATAAAATAGTGATT
* * *
29660487 TTCTTTAAAAAA-AAAGAAAGTTTAGATTTTAAAAAATAAAAATTTGTTTTTTTAGAAAAGTTTA
66 TTCATTAAAAAAGAAA-AAA-TTTAGATTTTAAAAAATAAAAATATATTTTTTTAGAAAAGTTTA
29660551 AGTATTTAAAC
129 AGTATTTAAAC
* **
29660562 AAAG-TTTTGATTTTTTTT-AACTATTTC-AAATCGAAG-TTTGGATTTTTAAATAAAACT-GTG
1 AAAGTTTTTG-TTTTTTTTAAACAATTTCGAAATAAAAGCTTT-GATTTTTAAATAAAA-TAGTG
* * *
29660622 ATTTTCATTAAAAAAGATAAAATTTATATTTTTAAAAATAAAAATATATTTTTTAGTGATTTTAA
63 ATTTTCATTAAAAAAGAAAAAATTTAGATTTTAAAAAATAAAAATATA----TT--T--TTTT--
* *
29660687 AAAAAAGTTTAAAT-TTTAAAC
118 AGAAAAGTTTAAGTATTTAAAC
* * * * * *
29660708 AAAGTTTTT-TATTTTTTT-AACTATTTCAAAATAAAAGTTTTGATTTTGAAATAAAGTAGAGAT
1 AAAGTTTTTGT-TTTTTTTAAACAATTTCGAAATAAAAGCTTTGATTTTTAAATAAAATAGTGAT
29660771 TTT
65 TTT
29660774 GTTTTAATCA
Statistics
Matches: 175, Mismatches: 18, Indels: 31
0.78 0.08 0.14
Matches are distributed among these distances:
137 25 0.14
138 40 0.23
139 16 0.09
140 12 0.07
141 2 0.01
143 1 0.01
145 5 0.03
146 28 0.16
147 43 0.25
148 3 0.02
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.45
Consensus pattern (139 bp):
AAAGTTTTTGTTTTTTTTAAACAATTTCGAAATAAAAGCTTTGATTTTTAAATAAAATAGTGATT
TTCATTAAAAAAGAAAAAATTTAGATTTTAAAAAATAAAAATATATTTTTTTAGAAAAGTTTAAG
TATTTAAAC
Found at i:29662239 original size:239 final size:239
Alignment explanation
Indices: 29661784--29662257 Score: 754
Period size: 240 Copynumber: 2.0 Consensus size: 239
29661774 AAAATAATAA
29661784 TAATGATAAAAGATCGAATAAGCTGTAAAGGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
1 TAATGATAAAAGATCGAATAAGCTGTAAAGGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
29661849 TTAGGTTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAGGAATTTTACTAGAAT
66 TTAGGTTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAGGAATTTTACTAGAAT
* * *
29661914 TATTTAAGTATCTTTTAGGATTCCCGTTAAAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGAT
131 TATTTAAGTATCCTTTAGGATTCCCATTAAAAGTAAAAATCTCTAATTTAAGTGTTAAATTAGAT
29661979 AAGTTTAGTGAACACGTCTTAGTCAAGTTAAAAGTAAATTGGAG
196 AAGTTTAGTGAACACGTCTTAGTCAAGTTAAAAGTAAATTGGAG
* * * *
29662023 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAATTT
1 TAATGATAAAAGATCGAATAAGCTGTAAAGGAATTTTAATATTTCTCTTAATTCATTAGTAA--C
* *
29662088 TTTTAGG-TTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTTAAGGTATTTTACTAGA
64 TTTTAGGTTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAGGAATTTTACTAGA
* * ** **
29662152 ATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTGTTAAATTAG
129 ATTATTTAAGTATCCTTTAGGATTCCCATTAAAAGTAAAAATCTCTAATTTAAGTGTTAAATTAG
* * *
29662217 ATAAGTTTGGT-AACACGTCTTAGTCAAGTTACAATTAAATT
194 ATAAGTTTAGTGAACACGTCTTAGTCAAGTTAAAAGTAAATT
29662258 AGAGACATTT
Statistics
Matches: 215, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
239 87 0.40
240 121 0.56
241 7 0.03
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (239 bp):
TAATGATAAAAGATCGAATAAGCTGTAAAGGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
TTAGGTTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAGGAATTTTACTAGAAT
TATTTAAGTATCCTTTAGGATTCCCATTAAAAGTAAAAATCTCTAATTTAAGTGTTAAATTAGAT
AAGTTTAGTGAACACGTCTTAGTCAAGTTAAAAGTAAATTGGAG
Found at i:29668225 original size:21 final size:21
Alignment explanation
Indices: 29668176--29668232 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
29668166 TAGTACAGAT
* *
29668176 TTCTACTGATACAAGTGATAG
1 TTCTACCGATACAAGTGATAC
*
29668197 TTCCACCGATACAAGTG-TCAC
1 TTCTACCGATACAAGTGAT-AC
*
29668218 TTCTACCGACACAAG
1 TTCTACCGATACAAG
29668233 CCATGCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (21 bp):
TTCTACCGATACAAGTGATAC
Found at i:29671893 original size:18 final size:18
Alignment explanation
Indices: 29671870--29671914 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
29671860 GAAAAAATTA
* **
29671870 TCGATGCAACTACCGATG
1 TCGATGCAACCAAAGATG
29671888 TCGATGCAACCAAAGATG
1 TCGATGCAACCAAAGATG
29671906 TCGATGCAA
1 TCGATGCAA
29671915 TCTGATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (18 bp):
TCGATGCAACCAAAGATG
Found at i:29676958 original size:50 final size:50
Alignment explanation
Indices: 29676902--29676996 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
29676892 TCAAATCTTG
*
29676902 TTTATTTATATTGCTTTGTTCAGATCTTATGTTTTACATAAATATAAATA
1 TTTATTTAAATTGCTTTGTTCAGATCTTATGTTTTACATAAATATAAATA
* *
29676952 TTTATTTAAATTGTTTTGTTCAGATCTTGTGTTTTACATAAATAT
1 TTTATTTAAATTGCTTTGTTCAGATCTTATGTTTTACATAAATAT
29676997 TTTATATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.54
Consensus pattern (50 bp):
TTTATTTAAATTGCTTTGTTCAGATCTTATGTTTTACATAAATATAAATA
Found at i:29681210 original size:15 final size:15
Alignment explanation
Indices: 29681190--29681230 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29681180 GTTGTGGCTT
29681190 TTAAATTGTGAAAGC
1 TTAAATTGTGAAAGC
29681205 TTAAATTGT---AGC
1 TTAAATTGTGAAAGC
29681217 TTCAAATTGTGAAA
1 TT-AAATTGTGAAA
29681231 TCAAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
15 9 0.41
16 1 0.05
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (15 bp):
TTAAATTGTGAAAGC
Found at i:29693660 original size:36 final size:34
Alignment explanation
Indices: 29693587--29693652 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
29693577 CCCTTCGGTA
* *
29693587 AATAGGGAGAAAATGAGCATCATGACCTTTGTGTC
1 AATAGGGAGAAAATGA-CATAATGACCTTTGAGTC
29693622 AATAGGGAGTAAAATGA-ATAATGACCTTTGA
1 AATAGGGAG-AAAATGACATAATGACCTTTGA
29693653 AGTTCAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 12 0.43
35 9 0.32
36 7 0.25
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (34 bp):
AATAGGGAGAAAATGACATAATGACCTTTGAGTC
Found at i:29694671 original size:12 final size:13
Alignment explanation
Indices: 29694649--29694677 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29694639 TTAAATTTTT
29694649 GAAATATAAAAAA
1 GAAATATAAAAAA
29694662 GAAA-ATAAAAAA
1 GAAATATAAAAAA
29694674 GAAA
1 GAAA
29694678 GGGATCAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
GAAATATAAAAAA
Found at i:29695617 original size:22 final size:22
Alignment explanation
Indices: 29695589--29695641 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
29695579 TTTCCTTATT
*
29695589 TTTTATTTATGTGTTCATTCTA
1 TTTTATTTATGTATTCATTCTA
* * *
29695611 TTTTATTTATTTATTTATTTTA
1 TTTTATTTATGTATTCATTCTA
29695633 TTTTATTTA
1 TTTTATTTA
29695642 CTTTTAGCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTATTTATGTATTCATTCTA
Found at i:29700587 original size:37 final size:37
Alignment explanation
Indices: 29700537--29700742 Score: 207
Period size: 37 Copynumber: 5.6 Consensus size: 37
29700527 TTGCATTTAA
29700537 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * **
29700574 GTATTCGGGCTATGTGCCTAGC-AGACTTTGTGTCATT
1 GTATTCGGGCTATGTGCCTAGCAAG-CTTCGTGCCGGT
* * * *
29700611 GAATTCGGGCTATGTGGCTAGCAAGCTTTGTGTCGGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * * * *
29700648 GAATTTGAGCTATGTGCCTAGCAGGCTTCGTGCCAGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * ***
29700685 GTATTCGGGCAATATGCCTAGCAAGCCAAGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * *
29700722 GTACTCGGGCGATATGCCTAG
1 GTATTCGGGCTATGTGCCTAG
29700743 TAGGCCTTTG
Statistics
Matches: 140, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
36 2 0.01
37 136 0.97
38 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (37 bp):
GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
Found at i:29700740 original size:74 final size:74
Alignment explanation
Indices: 29700537--29700756 Score: 251
Period size: 74 Copynumber: 3.0 Consensus size: 74
29700527 TTGCATTTAA
* *
29700537 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGTGTATTCGGGCTATGTGCCTAGCAGACTT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTAGTGCCGGTGTATTCGGGCTATGTGCCTAGCAGGCTT
* *
29700602 TGTGTCATT
66 TGTGCCAGT
* * * * * * *
29700611 GAATTCGGGCTATGTGGCTAGCAAGCTTTGTGTCGGTGAATTTGAGCTATGTGCCTAGCAGGCTT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTAGTGCCGGTGTATTCGGGCTATGTGCCTAGCAGGCTT
*
29700676 CGTGCCAGT
66 TGTGCCAGT
* * ** * * * *
29700685 GTATTCGGGCAATATGCCTAGCAAGCCAAGTGCCGGTGTACTCGGGCGATATGCCTAGTAGGCCT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTAGTGCCGGTGTATTCGGGCTATGTGCCTAGCAGG-CT
29700750 TTGTGCC
65 TTGTGCC
29700757 GATGATTATA
Statistics
Matches: 118, Mismatches: 27, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
74 110 0.93
75 8 0.07
ACGTcount: A:0.17, C:0.22, G:0.31, T:0.30
Consensus pattern (74 bp):
GTATTCGGGCTATGTGCCTAGCAAGCTTAGTGCCGGTGTATTCGGGCTATGTGCCTAGCAGGCTT
TGTGCCAGT
Found at i:29703709 original size:12 final size:12
Alignment explanation
Indices: 29703692--29703716 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29703682 AAAAGGTCCG
29703692 ATGACTATAGGA
1 ATGACTATAGGA
29703704 ATGACTATAGGA
1 ATGACTATAGGA
29703716 A
1 A
29703717 AACACACTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (12 bp):
ATGACTATAGGA
Found at i:29706781 original size:24 final size:22
Alignment explanation
Indices: 29706754--29706802 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
29706744 GCAATAAAAA
* *
29706754 CTTCCTTTTTCTCTCCTTTCTTTT
1 CTTCCTTCTT-TCTCCTCT-TTTT
29706778 CTT-CTTCTTTCTCCTCTTTTT
1 CTTCCTTCTTTCTCCTCTTTTT
29706799 CTTC
1 CTTC
29706803 TTCCAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 5 0.23
24 3 0.14
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (22 bp):
CTTCCTTCTTTCTCCTCTTTTT
Found at i:29714545 original size:21 final size:21
Alignment explanation
Indices: 29714519--29714564 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
29714509 TGAGACAATA
*
29714519 CTACTGATACAAGT-ATGACTT
1 CTACTGAAACAAGTCATG-CTT
*
29714540 CTACTGAAACATGTCATGCTT
1 CTACTGAAACAAGTCATGCTT
29714561 CTAC
1 CTAC
29714565 CAATACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (21 bp):
CTACTGAAACAAGTCATGCTT
Found at i:29719491 original size:21 final size:21
Alignment explanation
Indices: 29719465--29719534 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
29719455 TGAGACAATA
* *
29719465 CTACCGATACAAGT-ATGACTT
1 CTACCGAAACATGTCATG-CTT
29719486 CTACCGAAACATGTCATGCTT
1 CTACCGAAACATGTCATGCTT
*
29719507 CTATCGAAACATGTCATGCTT
1 CTACCGAAACATGTCATGCTT
29719528 CTACCGA
1 CTACCGA
29719535 TACTAAAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 41 0.93
22 3 0.07
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (21 bp):
CTACCGAAACATGTCATGCTT
Found at i:29720710 original size:201 final size:191
Alignment explanation
Indices: 29720361--29720718 Score: 430
Period size: 201 Copynumber: 1.8 Consensus size: 191
29720351 TTCCTTAATG
* * ** *
29720361 ATGCTGCTCACACGAGCTGTCGAGAGTATGCAATAAGCATAGTCCCAGTCATCGTAGGGCCTGTA
1 ATGCTGCTCACACGAGCTGTCGAGAATATGCAATAAGCATAATCCCAACCATCGTAAGGCCTGTA
* * *
29720426 ATCCATTTAGGATTCATATCTTTTTCCCGAGTCATGATGCAGCTCACACGAGCTATCGAGGACTC
66 ATCCATTTAGGATCCATATCTTTTTCCCGACTCATGATGCAGCTCACACGAGCTATCAAGGACTC
*
29720491 GTAACATATACAGTACCTCAGCCATCGATACGGTATTTGTGCATATAACTATTCCCTAACA
131 GTAACATACACAGTACCTCAGCCATCGATACGGTATTTGTGCATATAACTATTCCCTAACA
* * *
29720552 ATGCTGCTCACATGAGCTGTCGAGAATATGCACTTATA-CATAAATCTCAACCATCGTAAGGCCT
1 ATGCTGCTCACACGAGCTGTCGAGAATATGCA-ATA-AGCAT-AATCCCAACCATCGTAAGGCCT
* * * *
29720616 GTACTCCATTTAGGATCCATATTTCTTTTCTCATTTCCTGACTCATTATGCTGCTCGCACGAGCT
63 GTAATCCATTTAGGATCCATA--TCTTTT-TC----CC-GACTCATGATGCAGCTCACACGAGCT
* ***
29720681 GTCAAGGACTCGTAACATACGTGGTACCTCAGCCATCG
120 ATCAAGGACTCGTAACATACACAGTACCTCAGCCATCG
29720719 CGTCGATTTC
Statistics
Matches: 136, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
191 30 0.22
192 5 0.04
193 37 0.27
195 6 0.04
196 2 0.01
200 2 0.01
201 54 0.40
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (191 bp):
ATGCTGCTCACACGAGCTGTCGAGAATATGCAATAAGCATAATCCCAACCATCGTAAGGCCTGTA
ATCCATTTAGGATCCATATCTTTTTCCCGACTCATGATGCAGCTCACACGAGCTATCAAGGACTC
GTAACATACACAGTACCTCAGCCATCGATACGGTATTTGTGCATATAACTATTCCCTAACA
Found at i:29743045 original size:15 final size:15
Alignment explanation
Indices: 29743025--29743056 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
29743015 AGCCTGTGAG
29743025 ACTTAATCTTGGTAC
1 ACTTAATCTTGGTAC
29743040 ACTTAATCTTGGTAC
1 ACTTAATCTTGGTAC
29743055 AC
1 AC
29743057 CCTCACGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (15 bp):
ACTTAATCTTGGTAC
Found at i:29744624 original size:37 final size:37
Alignment explanation
Indices: 29744574--29744777 Score: 196
Period size: 37 Copynumber: 5.6 Consensus size: 37
29744564 TTGCATTTAA
29744574 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * *
29744611 GTATTCGGGCTA--TGCCTAGCAGGCTTTGTGCCAGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * ** *
29744646 GAATTCGGGCTATGTGCCTAGCAAGCTTTGTGTTGCT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * * *
29744683 GAATTCGAGCTATGTGCCTAGCAGGCTTCGTGCTGGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * * ***
29744720 GTATTCAGGCTATATGCCCAGCAAGCCAAGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
* * * *
29744757 GTACTCAGGCGATATGCCTAG
1 GTATTCGGGCTATGTGCCTAG
29744778 TAGGCCTTTG
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
35 31 0.22
37 107 0.78
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (37 bp):
GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
Found at i:29744744 original size:74 final size:72
Alignment explanation
Indices: 29744574--29744745 Score: 209
Period size: 72 Copynumber: 2.4 Consensus size: 72
29744564 TTGCATTTAA
* * * *
29744574 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGTGTATTCGGGCTATGCCTAGCAGGCTTTG
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGCTGAATTCGAGCTATGCCTAGCAGGCTTCG
29744639 TGCCAGT
66 TGCCAGT
* * **
29744646 GAATTCGGGCTATGTGCCTAGCAAGCTTTGTGTTGCTGAATTCGAGCTATGTGCCTAGCAGGCTT
1 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGCTGAATTCGAGCTA--TGCCTAGCAGGCTT
**
29744711 CGTGCTGGT
64 CGTGCCAGT
* * *
29744720 GTATTCAGGCTATATGCCCAGCAAGC
1 GTATTCGGGCTATGTGCCTAGCAAGC
29744746 CAAGTGCCGG
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 42 0.50
74 42 0.50
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (72 bp):
GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGCTGAATTCGAGCTATGCCTAGCAGGCTTCG
TGCCAGT
Found at i:29745370 original size:16 final size:17
Alignment explanation
Indices: 29745327--29745388 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
29745317 AATGTTGATT
*
29745327 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* * *
29745343 ATTGATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
29745359 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
29745376 TTTAAATTTAAAT
1 TTTAAATTTAAAT
29745389 ACATTTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 16 0.44
17 20 0.56
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:29745372 original size:27 final size:27
Alignment explanation
Indices: 29745348--29745408 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
29745338 TTTGAATTGA
29745348 TTTTAAATTTATTTAAATTTAAATTTG
1 TTTTAAATTTATTTAAATTTAAATTTG
** * * *
29745375 TTTTAAATTTAAATACATTTAAAATAG
1 TTTTAAATTTATTTAAATTTAAATTTG
29745402 TTTTAAA
1 TTTTAAA
29745409 CTTAAAATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (27 bp):
TTTTAAATTTATTTAAATTTAAATTTG
Found at i:29747315 original size:29 final size:29
Alignment explanation
Indices: 29747233--29747437 Score: 198
Period size: 29 Copynumber: 7.0 Consensus size: 29
29747223 GAAGGTCCCT
** *
29747233 AAACTATCCAAAAATTGTATTTTGACCCCC
1 AAACT-TCCAAAAATTACATTTTGACCCCG
* *
29747263 AGACTTCTCCAAAATTACATTTTTGACCCCG
1 AAACTTC-CAAAAATTACA-TTTTGACCCCG
*
29747294 AAACTTCCAAAAATTACATTTTTACCCTCG
1 AAACTTCCAAAAATTACATTTTGACCC-CG
* *
29747324 -AACTTCC-AAAATTCCATTTTTGACCCCT
1 AAACTTCCAAAAATTACA-TTTTGACCCCG
* * * *
29747352 TAACTTCCAAAAATTCCATTTTTACCCCT
1 AAACTTCCAAAAATTACATTTTGACCCCG
* **
29747381 AAACTTCCAAAAATTCCATTTTGACCTTG
1 AAACTTCCAAAAATTACATTTTGACCCCG
* *
29747410 AAACTTCCAAGAATTACATTTTTACCCC
1 AAACTTCCAAAAATTACATTTTGACCCC
29747438 CGTGTCCAAA
Statistics
Matches: 147, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
28 9 0.06
29 89 0.61
30 33 0.22
31 16 0.11
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTGACCCCG
Found at i:29747348 original size:58 final size:58
Alignment explanation
Indices: 29747233--29747437 Score: 234
Period size: 58 Copynumber: 3.5 Consensus size: 58
29747223 GAAGGTCCCT
** * * * *
29747233 AAACTATCCAAAAATTGTATTTTGACCCCCAGACTTCTCCAAAATTACATTTTTGACCCCG
1 AAACT-TCCAAAAATTACATTTTTACCCCTAAAC-T-TCCAAAATTCCATTTTTGACCCCG
* *
29747294 AAACTTCCAAAAATTACATTTTTA-CCCTCGAACTTCCAAAATTCCATTTTTGACCCCT
1 AAACTTCCAAAAATTACATTTTTACCCCT-AAACTTCCAAAATTCCATTTTTGACCCCG
* * **
29747352 TAACTTCCAAAAATTCCATTTTTACCCCTAAACTTCCAAAAATTCCA-TTTTGACCTTG
1 AAACTTCCAAAAATTACATTTTTACCCCTAAACTTCC-AAAATTCCATTTTTGACCCCG
*
29747410 AAACTTCCAAGAATTACATTTTTACCCC
1 AAACTTCCAAAAATTACATTTTTACCCC
29747438 CGTGTCCAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
58 84 0.68
59 17 0.14
60 18 0.15
61 5 0.04
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (58 bp):
AAACTTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAATTCCATTTTTGACCCCG
Found at i:29747392 original size:87 final size:88
Alignment explanation
Indices: 29747273--29747437 Score: 237
Period size: 87 Copynumber: 1.9 Consensus size: 88
29747263 AGACTTCTCC
*
29747273 AAAATTACATTTTTGACCCCGAAACTTCCAAAAATTACATTTTTACCCTCG-AACTTCCAA-AAT
1 AAAATTACATTTTTGACCCCGAAACTTCCAAAAATTACATTTTGA-CCTCGAAACTTCCAAGAAT
*
29747336 TCCATTTTTGACCCCTTAACTTCCA
65 TACATTTTT-ACCCCTTAACTTCCA
* * * *
29747361 AAAATTCCATTTTT-ACCCCTAAACTTCCAAAAATTCCATTTTGACCTTGAAACTTCCAAGAATT
1 AAAATTACATTTTTGACCCCGAAACTTCCAAAAATTACATTTTGACCTCGAAACTTCCAAGAATT
29747425 ACATTTTTACCCC
66 ACATTTTTACCCC
29747438 CGTGTCCAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
86 4 0.06
87 41 0.59
88 24 0.35
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (88 bp):
AAAATTACATTTTTGACCCCGAAACTTCCAAAAATTACATTTTGACCTCGAAACTTCCAAGAATT
ACATTTTTACCCCTTAACTTCCA
Found at i:29752607 original size:24 final size:22
Alignment explanation
Indices: 29752580--29752628 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
29752570 GCAATAAAAA
* *
29752580 CTTCCTTTTTCTCTCCTTTCTTTT
1 CTTCCTTCTT-TCTCCTCT-TTTT
29752604 CTT-CTTCTTTCTCCTCTTTTT
1 CTTCCTTCTTTCTCCTCTTTTT
29752625 CTTC
1 CTTC
29752629 TTCCAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 5 0.23
24 3 0.14
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (22 bp):
CTTCCTTCTTTCTCCTCTTTTT
Found at i:29761272 original size:21 final size:22
Alignment explanation
Indices: 29761248--29761299 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
29761238 GAGAGAATAC
29761248 ACCGATACTA-G-TATGGCTTCT
1 ACCGATACTATGTTAT-GCTTCT
*
29761269 ACCGAAAC-ATGTTATGCTTCT
1 ACCGATACTATGTTATGCTTCT
29761290 ACCGATACTA
1 ACCGATACTA
29761300 AAAACTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 21 0.81
22 4 0.15
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (22 bp):
ACCGATACTATGTTATGCTTCT
Found at i:29768434 original size:18 final size:18
Alignment explanation
Indices: 29768413--29768454 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
29768403 TAGTTTTCAT
29768413 TGCATTTTTATTTGTCAC
1 TGCATTTTTATTTGTCAC
*
29768431 TGCA-TTTTATTTGTTAC
1 TGCATTTTTATTTGTCAC
*
29768448 TACATTT
1 TGCATTT
29768455 GCATTGTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.19, C:0.14, G:0.10, T:0.57
Consensus pattern (18 bp):
TGCATTTTTATTTGTCAC
Found at i:29777929 original size:100 final size:99
Alignment explanation
Indices: 29777746--29778362 Score: 650
Period size: 100 Copynumber: 6.2 Consensus size: 99
29777736 TGGAACGGAG
* * * * * * **
29777746 TGAAGCTACAACAACAAATCCTATATCCCTAAAGATGCAATGGATCGGATTAAAACTACAGTAAA
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAG-TTCAGTGGATCGGATTGAAACTACAATAGC
* * **
29777811 AAATC-CTATCTCCCTGAAGATGCGGTATAGCAAGA
65 AAATCTC-ATCTCCCTAAAGATGCAGTGGAGCAAGA
* * * *
29777846 TGAAGATACAACATCAAATCCCATATCCCTGAAGTCTCAGTGGATCGGATTGAAACTACAACATC
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGT-TCAGTGGATCGGATTGAAACTACAATAGC
* * * *
29777911 AAAT-TCTATATCCTTGAAGATGCAGTGGAGCAAAA
65 AAATCTC-ATCTCCCTAAAGATGCAGTGGAGCAAGA
* * * *
29777946 TGAAGCTACAACATCAAATCCTATATTCTTGAAG-TCGTAATGGATCGGATTGAAACTACAGTAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGTTC--AGTGGATCGGATTGAAACTACAATAG
* *
29778010 CAAATCTCATCTCCCTGAAGATGCAGTGGAGCGAGA
64 CAAATCTCATCTCCCTAAAGATGCAGTGGAGCAAGA
* * * * *
29778046 TGAAGCTATAATATCAAATCC-ATATCCCT-AATGTTGTAGTGGATCGGATTGAATCTACGATAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAA-GTT-CAGTGGATCGGATTGAAACTACAATAG
29778109 CAAATCTCATCTCCCTAAAGATGCAGTGGAGCAAGA
64 CAAATCTCATCTCCCTAAAGATGCAGTGGAGCAAGA
** * * * * *
29778145 TGAAGCTACAACATCAAATATTATATCCGTAAAGTCACAGTGGATCGGATTGAAACTACGATAGG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGT-TCAGTGGATCGGATTGAAACTACAATAGC
* **
29778210 AAATCTCAACTCCCTAAAGATGGGGTGGAGCAAGA
65 AAATCTCATCTCCCTAAAGATGCAGTGGAGCAAGA
* * * * * *
29778245 TGAAGCTATAATATCAAATCCTATATCCCTGAAGTTACAGTCGATTGGCTTGAAACTACGATAGC
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGTT-CAGTGGATCGGATTGAAACTACAATAGC
* * *
29778310 AAATTTCATCTCCCTAAAGATGTAGTGAAGCAAGA
65 AAATCTCATCTCCCTAAAGATGCAGTGGAGCAAGA
*
29778345 TGAAGTTACAACATCAAA
1 TGAAGCTACAACATCAAA
29778363 ACGACGTCGT
Statistics
Matches: 434, Mismatches: 71, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
98 4 0.01
99 81 0.19
100 345 0.79
101 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (99 bp):
TGAAGCTACAACATCAAATCCTATATCCCTGAAGTTCAGTGGATCGGATTGAAACTACAATAGCA
AATCTCATCTCCCTAAAGATGCAGTGGAGCAAGA
Found at i:29778178 original size:50 final size:49
Alignment explanation
Indices: 29777731--29778278 Score: 245
Period size: 50 Copynumber: 11.0 Consensus size: 49
29777721 CGAACAATGT
* * * *
29777731 TGCAGTGGAACGGAGTGAAGCTACAACAACAAATC-CTATATCCCTAAAGA
1 TGCAGTGGAGCAGA-TGAAGCTACAACATCAAATCTC-ATATCCCTGAAGA
* * * * * ** ** *
29777781 TGCAATGGATCGGATTAAAACTACAGTAAAAAATC-CTATCTCCCTGAAGA
1 TGCAGTGGAGCAGA-TGAAGCTACAACATCAAATCTC-ATATCCCTGAAGA
* ** * *
29777831 TGCGGTATAGCAAGATGAAGATACAACATCAAATCCCATATCCCTGAAG-
1 TGCAGTGGAGC-AGATGAAGCTACAACATCAAATCTCATATCCCTGAAGA
* * * * *
29777880 TCTCAGTGGATCGGATTGAAACTACAACATCAAAT-TCTATATCCTTGAAGA
1 T-GCAGTGGAGCAGA-TGAAGCTACAACATCAAATCTC-ATATCCCTGAAGA
* * *
29777931 TGCAGTGGAGCAAAATGAAGCTACAACATCAAATC-CTATATTCTTGAAG-
1 TGCAGTGGAGC-AGATGAAGCTACAACATCAAATCTC-ATATCCCTGAAGA
* * * * * ** * *
29777980 TCGTAATGGATCGGATTGAAACTACAGTAGCAAATCTCATCTCCCTGAAGA
1 T-GCAGTGGAGCAGA-TGAAGCTACAACATCAAATCTCATATCCCTGAAGA
* * *
29778031 TGCAGTGGAGCGAGATGAAGCTATAATATCAAATC-CATATCCCT-AATGT
1 TGCAGTGGAGC-AGATGAAGCTACAACATCAAATCTCATATCCCTGAA-GA
* * * * * * * * *
29778080 TGTAGTGGATCGGATTGAATCTACGATAGCAAATCTCATCTCCCTAAAGA
1 TGCAGTGGAGCAGA-TGAAGCTACAACATCAAATCTCATATCCCTGAAGA
* * * *
29778130 TGCAGTGGAGCAAGATGAAGCTACAACATCAAATATTATATCCGTAAAG-
1 TGCAGTGGAGC-AGATGAAGCTACAACATCAAATCTCATATCCCTGAAGA
* * * * * * ** *
29778179 TCACAGTGGATCGGATTGAAACTACGATAGGAAATCTCA-ACTCCCTAAAGA
1 T-GCAGTGGAGCAGA-TGAAGCTACAACATCAAATCTCATA-TCCCTGAAGA
** * *
29778230 TGGGGTGGAGCAAGATGAAGCTATAATATCAAATC-CTATATCCCTGAAG
1 TGCAGTGGAGC-AGATGAAGCTACAACATCAAATCTC-ATATCCCTGAAG
29778279 TTACAGTCGA
Statistics
Matches: 369, Mismatches: 104, Indels: 50
0.71 0.20 0.10
Matches are distributed among these distances:
48 4 0.01
49 45 0.12
50 303 0.82
51 17 0.05
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (49 bp):
TGCAGTGGAGCAGATGAAGCTACAACATCAAATCTCATATCCCTGAAGA
Found at i:29778312 original size:299 final size:299
Alignment explanation
Indices: 29777731--29778362 Score: 713
Period size: 299 Copynumber: 2.1 Consensus size: 299
29777721 CGAACAATGT
*
29777731 TGCAGTGGAACG-GAGTGAAGCTACAACAACAAATCCTATATCCCTAAAGATGCAATGGATCGGA
1 TGCAGTGGAGCGAGA-TGAAGCTACAACAACAAATCCTATATCCCTAAAGATGCAATGGATCGGA
* * *
29777795 TTAAAACTACAGTAAAAAATCCTATCTCCCTGAAGATGCGGTATAGCAAGATGAAGATACAACAT
65 TTAAAACTACAGTAAAAAATCCTATCTCCCTAAAGATGCAGTAGAGCAAGATGAAGATACAACAT
* * * * *
29777860 CAAATCCCATATCCCTGAAGTCTCAGTGGATCGGATTGAAACTACAACATCAAATTCTATATCCT
130 CAAATACCATATCCCTAAAGTCACAGTGGATCGGATTGAAACTACAACAGCAAATTCTATATCCC
* * * *
29777925 TGAAGATGCAGTGGAGCAAAATGAAGCTACAACATCAAATCCTATATTCTTGAAGTCGTAATGGA
195 TAAAGATGCAGTGGAGCAAAATGAAGCTACAACATCAAATCCTATATCCCTGAAGTC-TAATCGA
*
29777990 TCGGATTGAAACTACAGTAGCAAATCTCATCTCCCTGAAGA
259 TCGGATTGAAACTACAGTAGCAAATCTCATCTCCCTAAAGA
* * * * * * *
29778031 TGCAGTGGAGCGAGATGAAGCTATAATATCAAATCC-ATATCCCTAATGTTGTAGTGGATCGGAT
1 TGCAGTGGAGCGAGATGAAGCTACAACAACAAATCCTATATCCCTAAAGATGCAATGGATCGGAT
* * ** * *
29778095 TGAATCTAC-GATAGCAAAT-CTCATCTCCCTAAAGATGCAGTGGAGCAAGATGAAGCTACAACA
66 TAAAACTACAG-TAAAAAATCCT-ATCTCCCTAAAGATGCAGTAGAGCAAGATGAAGATACAACA
** * * * *
29778158 TCAAATATTATATCCGTAAAGTCACAGTGGATCGGATTGAAACTACGATAGGAAA-TCTCA-ACT
129 TCAAATACCATATCCCTAAAGTCACAGTGGATCGGATTGAAACTACAACAGCAAATTCT-ATA-T
** * * *
29778221 CCCTAAAGATGGGGTGGAGCAAGATGAAGCTATAATATCAAATCCTATATCCCTGAAGT-TACAG
192 CCCTAAAGATGCAGTGGAGCAAAATGAAGCTACAACATCAAATCCTATATCCCTGAAGTCTA-A-
* * *
29778285 TCGATTGGCTTGAAACTAC-GATAGCAAATTTCATCTCCCTAAAGA
255 TCGATCGGATTGAAACTACAG-TAGCAAATCTCATCTCCCTAAAGA
* * * * *
29778330 TGTAGTGAAGCAAGATGAAGTTACAACATCAAA
1 TGCAGTGGAGCGAGATGAAGCTACAACAACAAA
29778363 ACGACGTCGT
Statistics
Matches: 277, Mismatches: 47, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
297 2 0.01
298 9 0.03
299 235 0.85
300 29 0.10
301 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (299 bp):
TGCAGTGGAGCGAGATGAAGCTACAACAACAAATCCTATATCCCTAAAGATGCAATGGATCGGAT
TAAAACTACAGTAAAAAATCCTATCTCCCTAAAGATGCAGTAGAGCAAGATGAAGATACAACATC
AAATACCATATCCCTAAAGTCACAGTGGATCGGATTGAAACTACAACAGCAAATTCTATATCCCT
AAAGATGCAGTGGAGCAAAATGAAGCTACAACATCAAATCCTATATCCCTGAAGTCTAATCGATC
GGATTGAAACTACAGTAGCAAATCTCATCTCCCTAAAGA
Found at i:29778785 original size:13 final size:13
Alignment explanation
Indices: 29778767--29778812 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
29778757 CCTTATTTTT
*
29778767 TTTATTTTATGTG
1 TTTATTTTATGTA
*
29778780 TTTATTTTATTTA
1 TTTATTTTATGTA
* *
29778793 TTTATTTTGTTTA
1 TTTATTTTATGTA
29778806 TTTATTT
1 TTTATTT
29778813 ACTTTTAGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTATTTTATGTA
Found at i:29778786 original size:22 final size:22
Alignment explanation
Indices: 29778759--29778813 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
29778749 AATCCTTTCC
*
29778759 TTATTTTTTTTATTT-TATGTGT
1 TTATTTTATTTATTTAT-TGTGT
*
29778781 TTATTTTATTTATTTATTTTGT
1 TTATTTTATTTATTTATTGTGT
29778803 TTA-TTTATTTA
1 TTATTTTATTTA
29778814 CTTTTAGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 8 0.27
22 21 0.70
23 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (22 bp):
TTATTTTATTTATTTATTGTGT
Found at i:29778805 original size:17 final size:18
Alignment explanation
Indices: 29778785--29778818 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
29778775 ATGTGTTTAT
29778785 TTTATTTATTTA-TTTTG
1 TTTATTTATTTACTTTTG
29778802 TTTATTTATTTACTTTT
1 TTTATTTATTTACTTTT
29778819 AGCACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTATTTATTTACTTTTG
Found at i:29778983 original size:29 final size:30
Alignment explanation
Indices: 29778949--29779006 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
29778939 TTATTTCATG
29778949 CCATTTATATTCTCACCCGTTAA-ATTATA
1 CCATTTATATTCTCACCCGTTAATATTATA
* * *
29778978 CCATTTATATTTTCATCCTTTAATATTAT
1 CCATTTATATTCTCACCCGTTAATATTAT
29779007 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (30 bp):
CCATTTATATTCTCACCCGTTAATATTATA
Found at i:29787714 original size:25 final size:25
Alignment explanation
Indices: 29787677--29787725 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
29787667 TATAGAATCT
* *
29787677 AAAGAAACAAATTAA-AGTAAAATA
1 AAAGAAAAAAATTAACAGAAAAATA
29787701 AAAGACAAAAAATTAACAGAAAAAT
1 AAAGA-AAAAAATTAACAGAAAAAT
29787726 TTTCAATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.14
Consensus pattern (25 bp):
AAAGAAAAAAATTAACAGAAAAATA
Found at i:29793592 original size:39 final size:39
Alignment explanation
Indices: 29793538--29793615 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
29793528 ACAGAGATGG
* * *
29793538 TTGTTTATGTTTATAATTTTTGATTCAATTCAAGTTAAA
1 TTGTTTATGTTTATAATTGTTGATTCAATTAAAGCTAAA
29793577 TTGTTTATGTTTATAATTGTTGATTCAATTAAAGCTAAA
1 TTGTTTATGTTTATAATTGTTGATTCAATTAAAGCTAAA
29793616 ATAAGAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (39 bp):
TTGTTTATGTTTATAATTGTTGATTCAATTAAAGCTAAA
Found at i:29799446 original size:30 final size:29
Alignment explanation
Indices: 29799412--29799504 Score: 71
Period size: 30 Copynumber: 3.1 Consensus size: 29
29799402 TTTAGGGGCC
*
29799412 AAATTCAAATTTTTTGAAAGATTAAGGGTT
1 AAATTCAAATTTTTAGAAAG-TTAAGGGTT
** * * **
29799442 AAATTTGAATTTTTGGAAAGTTCAGGTGCC
1 AAATTCAAATTTTTAGAAAGTTAAGG-GTT
*
29799472 AAA-ACATAATTTTTAGAAAGTTTAAGGGTT
1 AAATTCA-AATTTTTAGAAAG-TTAAGGGTT
29799502 AAA
1 AAA
29799505 AATGGAATTG
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 5 0.11
30 37 0.79
31 5 0.11
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (29 bp):
AAATTCAAATTTTTAGAAAGTTAAGGGTT
Found at i:29799458 original size:60 final size:60
Alignment explanation
Indices: 29799387--29799504 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
29799377 GGGTCAAAAA
* * *
29799387 TGAAATTTTGGAAAGTTTAGGGGCCAAATTCA-AATTTTTTGAAAGATTAAGGGTTAAATT
1 TGAAATTTTGGAAAGTTCAGGGGCCAAA-ACATAATTTTTAGAAAGATTAAGGGTTAAATT
* * *
29799447 TGAATTTTTGGAAAGTTCAGGTGCCAAAACATAATTTTTAGAAAGTTTAAGGGTTAAA
1 TGAAATTTTGGAAAGTTCAGGGGCCAAAACATAATTTTTAGAAAGATTAAGGGTTAAA
29799505 AATGGAATTG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
59 2 0.04
60 49 0.96
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (60 bp):
TGAAATTTTGGAAAGTTCAGGGGCCAAAACATAATTTTTAGAAAGATTAAGGGTTAAATT
Found at i:29802232 original size:16 final size:16
Alignment explanation
Indices: 29802211--29802242 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29802201 TTCTATATTT
29802211 TTTAAATTAAATTAAA
1 TTTAAATTAAATTAAA
*
29802227 TTTAAATTAACTTAAA
1 TTTAAATTAAATTAAA
29802243 ATTTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAATTAAATTAAA
Found at i:29802950 original size:29 final size:30
Alignment explanation
Indices: 29802907--29802987 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
29802897 GAATTGGATC
29802907 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATCAAAA-TTCATGTATAAAATTGCACAT
*
29802937 AAATCAAAATTCATGTATACAATTGCACATT
1 AAATCAAAATTCATGTATAAAATTGCACA-T
* *
29802968 AAACCATAATTCATGTATAA
1 AAATCAAAATTCATGTATAA
29802988 TTTTGGAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 19 0.42
30 9 0.20
31 17 0.38
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTCATGTATAAAATTGCACAT
Found at i:29803477 original size:21 final size:21
Alignment explanation
Indices: 29803453--29803507 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
29803443 GAAATTTAAA
* *
29803453 ACAAACATAATGAGGAGTGTT
1 ACAAACATAATGAGAAGAGTT
29803474 ACAAA-ATATTATGAGAAGAGTT
1 ACAAACATA--ATGAGAAGAGTT
29803496 ACAAACATAATG
1 ACAAACATAATG
29803508 TTTTGTAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 3 0.10
21 8 0.28
22 15 0.52
23 3 0.10
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.24
Consensus pattern (21 bp):
ACAAACATAATGAGAAGAGTT
Found at i:29807207 original size:21 final size:21
Alignment explanation
Indices: 29807183--29807237 Score: 92
Period size: 22 Copynumber: 2.6 Consensus size: 21
29807173 GAAATTTAAA
29807183 ACAAACATAATGAGGAGAGTT
1 ACAAACATAATGAGGAGAGTT
*
29807204 ACAAAACATTATGAGGAGAGTT
1 AC-AAACATAATGAGGAGAGTT
29807226 ACAAACATAATG
1 ACAAACATAATG
29807238 TTTTGTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (21 bp):
ACAAACATAATGAGGAGAGTT
Found at i:29807898 original size:76 final size:76
Alignment explanation
Indices: 29807798--29808046 Score: 331
Period size: 76 Copynumber: 3.3 Consensus size: 76
29807788 GAAAGGTTAA
* * * *
29807798 TTTAAAATTTTAATTGTTAGCTTTAAAAAATTGGTTTTACTTAAAAACTACTTTTGAAAGTCAAT
1 TTTAAAATTTTAATTTTTGGCTTTAAAAAATTGGTTTTGCTTAAAAACCACTTTTGAAAGTCAAT
*
29807863 ACTAGAGAAAG
66 ACTAAAGAAAG
* *
29807874 TTTAAAATTTTAATTTTTGGCTTTAAAAAGTTGGTTTTGCTTAAAAACCAATTTTGAAAGTCAAT
1 TTTAAAATTTTAATTTTTGGCTTTAAAAAATTGGTTTTGCTTAAAAACCACTTTTGAAAGTCAAT
29807939 ACTAAAGAAAG
66 ACTAAAGAAAG
* * * ** *
29807950 CTTAAAATTTTAATTTTTGAC-TTAAAAAAGTTGTTTTTGCTTAAAAACCACTTTTGAGTGTAAA
1 TTTAAAATTTTAATTTTTGGCTTTAAAAAA-TTGGTTTTGCTTAAAAACCACTTTTGAAAGTCAA
*
29808014 TGCTAAAGAAAG
65 TACTAAAGAAAG
*
29808026 TCT-AAATATTTAATTTTTGGC
1 TTTAAAAT-TTTAATTTTTGGC
29808047 CTAAAGATTG
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
75 11 0.07
76 141 0.93
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (76 bp):
TTTAAAATTTTAATTTTTGGCTTTAAAAAATTGGTTTTGCTTAAAAACCACTTTTGAAAGTCAAT
ACTAAAGAAAG
Found at i:29809301 original size:21 final size:20
Alignment explanation
Indices: 29809277--29809322 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
29809267 CAAAATATAG
*
29809277 AACTCTAAACCTAAACCCTTA
1 AACTCTAAACCCAAACCC-TA
*
29809298 AACTTTAAACCCAAACCCTA
1 AACTCTAAACCCAAACCCTA
29809318 AACTC
1 AACTC
29809323 ATATCCCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (20 bp):
AACTCTAAACCCAAACCCTA
Found at i:29809551 original size:17 final size:18
Alignment explanation
Indices: 29809529--29809562 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29809519 TTATTTATAA
29809529 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
29809546 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
29809563 AAATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:29809811 original size:59 final size:60
Alignment explanation
Indices: 29809647--29809814 Score: 250
Period size: 58 Copynumber: 2.8 Consensus size: 60
29809637 TGATATGACA
* *
29809647 CTATTTTATTGGTGCATAAAAATTATACTTTTTAAGATGATTTTAATATAATTTATTCTC
1 CTATTTTATTGGTGCCTAAAAATTATACTTTTTAAGATGATTCTAATATAATTTATTCTC
* * *
29809707 CTATTTTATTGGTGCCTAAAAATTATACTTTGT-AGATGGTCCTAATATAATTTA-TCTC
1 CTATTTTATTGGTGCCTAAAAATTATACTTTTTAAGATGATTCTAATATAATTTATTCTC
* * *
29809765 TTATTTTATTGGTGCCTAGAAATTATATTTTTTAAGATGATTCTAATATA
1 CTATTTTATTGGTGCCTAAAAATTATACTTTTTAAGATGATTCTAATATA
29809815 TAAAATTAGT
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
58 33 0.34
59 32 0.33
60 31 0.32
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.48
Consensus pattern (60 bp):
CTATTTTATTGGTGCCTAAAAATTATACTTTTTAAGATGATTCTAATATAATTTATTCTC
Found at i:29820797 original size:13 final size:13
Alignment explanation
Indices: 29820776--29820815 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
29820766 TACTTTTAAG
* *
29820776 AAATGTTTTTAAA
1 AAATATTTTGAAA
*
29820789 AAGTATTTTGAAA
1 AAATATTTTGAAA
29820802 AAATATTTTGAAA
1 AAATATTTTGAAA
29820815 A
1 A
29820816 GTACTTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (13 bp):
AAATATTTTGAAA
Found at i:29820823 original size:13 final size:12
Alignment explanation
Indices: 29820782--29820827 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
29820772 TAAGAAATGT
*
29820782 TTTTAAAAAGTA
1 TTTTGAAAAGTA
*
29820794 TTTTGAAAAAATA
1 TTTTG-AAAAGTA
29820807 TTTTGAAAAGTA
1 TTTTGAAAAGTA
29820819 CTTTTGAAA
1 -TTTTGAAA
29820828 TGCTTGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (12 bp):
TTTTGAAAAGTA
Found at i:29825411 original size:15 final size:15
Alignment explanation
Indices: 29825391--29825423 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
29825381 TTGTCCTTAT
29825391 ACCTAAAATAGAGTC
1 ACCTAAAATAGAGTC
29825406 ACCTAAAATAGAGTC
1 ACCTAAAATAGAGTC
29825421 ACC
1 ACC
29825424 AAGAAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (15 bp):
ACCTAAAATAGAGTC
Found at i:29830950 original size:50 final size:50
Alignment explanation
Indices: 29830865--29831375 Score: 573
Period size: 50 Copynumber: 10.2 Consensus size: 50
29830855 AGGAGATAAA
* * * * *
29830865 GATTTGCTTCTGTAGCTTCAATCCGCTCCTCTACAACTTTAGGGGTATAG
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
* * * * *
29830915 GATTTGATTTTGTAGCTTTAATCTACCCCTTTACAACTTTAGGGGTATAA
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
* * * * *
29830965 GATTTGGTGTCGTATCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
* * *
29831015 GATTTGATTTTGTAGCTTTAGTCCGCTCCTCTGCAACTTTAGGAGTATAG
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
* * *
29831065 GATTTGATTTTGTAGCTTTAATCTACTCCTATACGACTTTAGGA-TATAG
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
* *
29831114 GATTTGATTTTGTAGCTTCAATCCACTCCTCTACAATTTTA-GAGGTATAG
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGA-GTATAG
* * * * * * * * *
29831164 GATTTGGTGTTATAGCTTTAATTCGCTCATTTGA-AAATTTAGGAGTATAA
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCT-ACAACTTTAGGAGTATAG
* *
29831214 AATTTGATTTCGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
* * * *
29831264 GATTTGATTTTGTAACTTTAATCCACTCCGCTACGACTTTAGGATTATAG
1 GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
* * * *
29831314 GATTTGATTTTGTAACTTCAATCCAC-CCATCTGCAACTTTA-GAGGTATAA
1 GATTTGATTTTGTAGCTTTAATCCACTCC-TCTACAACTTTAGGA-GTATAG
29831364 GATTTGATTTTG
1 GATTTGATTTTG
29831376 AATTGATCCC
Statistics
Matches: 386, Mismatches: 68, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
48 2 0.01
49 46 0.12
50 335 0.87
51 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (50 bp):
GATTTGATTTTGTAGCTTTAATCCACTCCTCTACAACTTTAGGAGTATAG
Found at i:29831355 original size:249 final size:250
Alignment explanation
Indices: 29830857--29831375 Score: 681
Period size: 249 Copynumber: 2.1 Consensus size: 250
29830847 CAACTTCAAG
* * * *
29830857 GAGATA-AAGATTTGCTTCTGTAGCTTCAATCCGCTCCTCTACAACTTTAGGGGTATAGGATTTG
1 GAGATATAAGATTTGATTTTGTAGCTTCAATCCACTCCTCTACAACTTTAGAGGTATAGGATTTG
* * * * * * * *
29830921 ATTTTGTAGCTTTAATCTACCCCTTTACAACTTTAGGGGTATAAGATTTGGTGTCGTATCTTTAA
66 ATGTTATAGCTTTAATCTACCCATTTACAAATTTAGGAGTATAAAATTTGATGTCGTAGCTTTAA
* * * * * *
29830986 TCCGCTCCTCTACAACTTTAGGAGTATAGGATTTGATTTTGTAGCTTTAGTCCGCTCCTCTGCAA
131 TCCACTCCTCTACAACTTTAGGAGTATAGGATTTGATTTTGTAACTTTAATCCACTCCGCTACAA
* * * *
29831051 CTTTAGGAGTATAGGATTTGATTTTGTAGCTTTAATCTACTCCTATACGACTTTA
196 CTTTAGGAGTATAGGATTTGATTTTGTAACTTCAATCCACTCCTATACAACTTTA
* *
29831106 G-GATATAGGATTTGATTTTGTAGCTTCAATCCACTCCTCTACAATTTTAGAGGTATAGGATTTG
1 GAGATATAAGATTTGATTTTGTAGCTTCAATCCACTCCTCTACAACTTTAGAGGTATAGGATTTG
* *
29831170 GTGTTATAGCTTTAAT-T-CGCTCATTTGA-AAATTTAGGAGTATAAAATTTGATTTCGTAGCTT
66 ATGTTATAGCTTTAATCTAC-C-CATTT-ACAAATTTAGGAGTATAAAATTTGATGTCGTAGCTT
29831232 TAATCCACTCCTCTACAACTTTAGGAGTATAGGATTTGATTTTGTAACTTTAATCCACTCCGCTA
128 TAATCCACTCCTCTACAACTTTAGGAGTATAGGATTTGATTTTGTAACTTTAATCCACTCCGCTA
* * * *
29831297 CGACTTTAGGATTATAGGATTTGATTTTGTAACTTCAATCCAC-CCATCTGCAACTTTA
193 CAACTTTAGGAGTATAGGATTTGATTTTGTAACTTCAATCCACTCC-TATACAACTTTA
*
29831355 GAGGTATAAGATTTGATTTTG
1 GAGATATAAGATTTGATTTTG
29831376 AATTGATCCC
Statistics
Matches: 232, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
247 1 0.00
248 8 0.03
249 205 0.88
250 18 0.08
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (250 bp):
GAGATATAAGATTTGATTTTGTAGCTTCAATCCACTCCTCTACAACTTTAGAGGTATAGGATTTG
ATGTTATAGCTTTAATCTACCCATTTACAAATTTAGGAGTATAAAATTTGATGTCGTAGCTTTAA
TCCACTCCTCTACAACTTTAGGAGTATAGGATTTGATTTTGTAACTTTAATCCACTCCGCTACAA
CTTTAGGAGTATAGGATTTGATTTTGTAACTTCAATCCACTCCTATACAACTTTA
Found at i:29840441 original size:38 final size:38
Alignment explanation
Indices: 29840349--29840431 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
29840339 GTAGTGACAT
** *
29840349 TTCTGAACATTGTCATGTAGTGACAATTTTGGGCGCAA
1 TTCTGAACATCATCATGTAGTGACAATTTAGGGCGCAA
*
29840387 TTCTGGACATCATCATGTAGTGACAATTCTAGGG-GCAA
1 TTCTGAACATCATCATGTAGTGACAATT-TAGGGCGCAA
*
29840425 TTTTGAA
1 TTCTGAA
29840432 TATACTCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 34 0.89
39 4 0.11
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (38 bp):
TTCTGAACATCATCATGTAGTGACAATTTAGGGCGCAA
Found at i:29841240 original size:17 final size:17
Alignment explanation
Indices: 29841207--29841240 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29841197 CACTAACACT
*
29841207 AAAATGCAATGACAATG
1 AAAATGCAACGACAATG
*
29841224 AAAATGCAACGATAATG
1 AAAATGCAACGACAATG
29841241 CTTACTAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAATGCAACGACAATG
Found at i:29844408 original size:50 final size:50
Alignment explanation
Indices: 29844307--29845266 Score: 470
Period size: 50 Copynumber: 19.0 Consensus size: 50
29844297 AGAAGAGTAC
* * * * *
29844307 TCCTATATCCCTGAAGTTGTAGTGGCATGA-AGT-AAACCTACAACATG-AAA
1 TCCTATATCCCTGAAGATGCAGTGG-ATCAGATTGAAA-CTACAATA-GCAAA
* * * *
29844357 TCCTATATCCCTGAAGATGCAATGGATCAGATTAAAACTATAGTAGCAAA
1 TCCTATATCCCTGAAGATGCAGTGGATCAGATTGAAACTACAATAGCAAA
* * * * * * * * *
29844407 TCCTATCTCCCTGAAGATGTAGTGGAGCAAAATGAAGCTATAACATCAAA
1 TCCTATATCCCTGAAGATGCAGTGGATCAGATTGAAACTACAATAGCAAA
*
29844457 TCCTATATCCCTAAAG-T-CATAGTGGATCAGATTGAAACTACAATAGCAAA
1 TCCTATATCCCTGAAGATGC--AGTGGATCAGATTGAAACTACAATAGCAAA
* * * * * *
29844507 T-CTCATCTCCTTGAAAATGCAGTGGAGCAAGA-TGAAGCTAC-ATCATCAAA
1 TCCT-ATATCCCTGAAGATGCAGTGGATC-AGATTGAAACTACAAT-AGCAAA
* * *
29844557 TCCTATATCCTTGAAGATGCAGTGGATCAGATTAAAACTACAGTAGCAAA
1 TCCTATATCCCTGAAGATGCAGTGGATCAGATTGAAACTACAATAGCAAA
* * *** * * *
29844607 TCTTATCTATGTGAAGATACAGTGGAGCAAGA-TGAAGA-TACAATATCAAA
1 TCCTATATCCCTGAAGATGCAGTGGATC-AGATTGAA-ACTACAATAGCAAA
* * * * *
29844657 TCCTATATCCCTGAAG-TCACAGAGGATCGGATTGAAACTACGATAGCTAA
1 TCCTATATCCCTGAAGAT-GCAGTGGATCAGATTGAAACTACAATAGCAAA
* * * * * *
29844707 T-CTCATCTCCCGGAAGATGCAGTGGAGCAAGA-TGAAGCTACAACATCAAA
1 TCCT-ATATCCCTGAAGATGCAGTGGATC-AGATTGAAACTACAATAGCAAA
* * * * *
29844757 TCCTATATCCTTGAAG-TCGTAGAGGATC-GAATTGAAACTACGATAGCTAA
1 TCCTATATCCCTGAAGAT-GCAGTGGATCAG-ATTGAAACTACAATAGCAAA
* * * *
29844807 T-CT-CATCTCTCGAAAGATGCAGTGGTCGTAGAGGATCAGATTGAAACTACGATAGCTAA
1 TCCTATATCCCT-G-AAGATGCA------GT---GGATCAGATTGAAACTACAATAGCAAA
* ** * * * * *
29844866 T-CTCATCTTTCGGAAGATGCAGTGGAGCAAGA-TGAAGCTACAACATCAAA
1 TCCT-ATATCCCTGAAGATGCAGTGGATC-AGATTGAAACTACAATAGCAAA
* * * * *
29844916 TCCTATATCCTTGAAGACGCA-TAGGATCGGATTGAAACTACGATAGCTAA
1 TCCTATATCCCTGAAGATGCAGT-GGATCAGATTGAAACTACAATAGCAAA
* * * * * *
29844966 T-CT-CATCTCCTAGAAGATGTAGTGGAGCAAGA-TGAAGCTACAACATCAAA
1 TCCTATATC-CCT-GAAGATGCAGTGGATC-AGATTGAAACTACAATAGCAAA
* ** * *
29845016 TCCTATATCCCTGAAG-TCGCAGAGGATTGGATTGAAACTACGATAGCTAA
1 TCCTATATCCCTGAAGAT-GCAGTGGATCAGATTGAAACTACAATAGCAAA
* * * *
29845066 T-CTCATCTCCC-GAAAGATGCAGTGGAGCAAGA-TGAAGCTACAATATCAAA
1 TCCT-ATATCCCTG-AAGATGCAGTGGATC-AGATTGAAACTACAATAGCAAA
* * *
29845116 TCCTATATCCCTGAAG-TCGCGGTGGATCAGATTG-ATCTACGATAGCAAA
1 TCCTATATCCCTGAAGAT-GCAGTGGATCAGATTGAAACTACAATAGCAAA
* * * * *
29845165 T-CTCATCTCCCTGAAGATGCAGTGGAGCAAGA-TGAAGCTACAACATCAAA
1 TCCT-ATATCCCTGAAGATGCAGTGGATC-AGATTGAAACTACAATAGCAAA
* * * ** *
29845215 TCCTATATACCTGAAGTTGTAGTGGATTGGATTGAAACTACGATAGCAAA
1 TCCTATATCCCTGAAGATGCAGTGGATCAGATTGAAACTACAATAGCAAA
29845265 TC
1 TC
29845267 TCGTCTTCTT
Statistics
Matches: 675, Mismatches: 169, Indels: 132
0.69 0.17 0.14
Matches are distributed among these distances:
48 10 0.01
49 76 0.11
50 500 0.74
51 41 0.06
52 4 0.01
53 2 0.00
56 1 0.00
59 36 0.05
60 2 0.00
61 3 0.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (50 bp):
TCCTATATCCCTGAAGATGCAGTGGATCAGATTGAAACTACAATAGCAAA
Found at i:29844697 original size:200 final size:200
Alignment explanation
Indices: 29844344--29844772 Score: 642
Period size: 200 Copynumber: 2.1 Consensus size: 200
29844334 TGAAGTAAAC
* * *
29844344 CTACAACATGAAATCCTATATCCCTGAAGATGCAATGGATCAGATTAAAACTATAGTAGCAAATC
1 CTACAACATCAAATCCTATATCCTTGAAGATGCAATGGATCAGATTAAAACTACAGTAGCAAATC
* ** * *
29844409 CTATCTCCCTGAAGATGTAGTGGAGCAAAATGAAGCTATAACATCAAATCCTATATCCCTAAAGT
66 CTATCTACCTGAAGATACAGTGGAGCAAAATGAAGATACAACATCAAATCCTATATCCCTAAAGT
* * **
29844474 CATAGTGGATCAGATTGAAACTACAATAGCAAATCTCATCTCCTTGAAAATGCAGTGGAGCAAGA
131 CACAGAGGATCAGATTGAAACTACAATAGCAAATCTCATCTCCCGGAAAATGCAGTGGAGCAAGA
29844539 TGAAG
196 TGAAG
* *
29844544 CTACATCATCAAATCCTATATCCTTGAAGATGCAGTGGATCAGATTAAAACTACAGTAGCAAATC
1 CTACAACATCAAATCCTATATCCTTGAAGATGCAATGGATCAGATTAAAACTACAGTAGCAAATC
* ** * * *
29844609 TTATCTATGTGAAGATACAGTGGAGCAAGATGAAGATACAATATCAAATCCTATATCCCTGAAGT
66 CTATCTACCTGAAGATACAGTGGAGCAAAATGAAGATACAACATCAAATCCTATATCCCTAAAGT
* * * *
29844674 CACAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGA
131 CACAGAGGATCAGATTGAAACTACAATAGCAAATCTCATCTCCCGGAAAATGCAGTGGAGCAAGA
29844739 TGAAG
196 TGAAG
29844744 CTACAACATCAAATCCTATATCCTTGAAG
1 CTACAACATCAAATCCTATATCCTTGAAG
29844773 TCGTAGAGGA
Statistics
Matches: 204, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
200 204 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (200 bp):
CTACAACATCAAATCCTATATCCTTGAAGATGCAATGGATCAGATTAAAACTACAGTAGCAAATC
CTATCTACCTGAAGATACAGTGGAGCAAAATGAAGATACAACATCAAATCCTATATCCCTAAAGT
CACAGAGGATCAGATTGAAACTACAATAGCAAATCTCATCTCCCGGAAAATGCAGTGGAGCAAGA
TGAAG
Found at i:29844773 original size:100 final size:100
Alignment explanation
Indices: 29844344--29844831 Score: 551
Period size: 100 Copynumber: 4.9 Consensus size: 100
29844334 TGAAGTAAAC
* * *
29844344 CTACAACATGAAATCCTATATCCCTGAAGATGCA-A-TGGATCAGATTAAAACTA-TAGTAGCAA
1 CTACAACATCAAATCCTATATCCCTGAAG-T-CACAGTGGATCAGATTGAAACTACGA-TAGCAA
* * *
29844406 ATC-CTATCTCCCTGAAGATGTAGTGGAGCAAAATGAAG
63 ATCTC-ATCTCCCGGAAGATGCAGTGGAGCAAGATGAAG
* * * *
29844444 CTATAACATCAAATCCTATATCCCTAAAGTCATAGTGGATCAGATTGAAACTACAATAGCAAATC
1 CTACAACATCAAATCCTATATCCCTGAAGTCACAGTGGATCAGATTGAAACTACGATAGCAAATC
** *
29844509 TCATCTCCTTGAAAATGCAGTGGAGCAAGATGAAG
66 TCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAG
* * * *
29844544 CTACATCATCAAATCCTATATCCTTGAAGAT-GCAGTGGATCAGATTAAAACTAC-AGTAGCAAA
1 CTACAACATCAAATCCTATATCCCTGAAG-TCACAGTGGATCAGATTGAAACTACGA-TAGCAAA
* ** *
29844607 TCTTATCT-ATGTGAAGATACAGTGGAGCAAGATGAAG
64 TCTCATCTCCCG-GAAGATGCAGTGGAGCAAGATGAAG
* * * * *
29844644 ATACAATATCAAATCCTATATCCCTGAAGTCACAGAGGATCGGATTGAAACTACGATAGCTAATC
1 CTACAACATCAAATCCTATATCCCTGAAGTCACAGTGGATCAGATTGAAACTACGATAGCAAATC
29844709 TCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAG
66 TCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAG
* ** * *
29844744 CTACAACATCAAATCCTATATCCTTGAAGTCGTAGAGGATC-GAATTGAAACTACGATAGCTAAT
1 CTACAACATCAAATCCTATATCCCTGAAGTCACAGTGGATCAG-ATTGAAACTACGATAGCAAAT
* *
29844808 CTCATCTCTCGAAAGATGCAGTGG
65 CTCATCTCCCGGAAGATGCAGTGG
29844832 TCGTAGAGGA
Statistics
Matches: 336, Mismatches: 41, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
98 2 0.01
99 6 0.02
100 323 0.96
101 5 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (100 bp):
CTACAACATCAAATCCTATATCCCTGAAGTCACAGTGGATCAGATTGAAACTACGATAGCAAATC
TCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAG
Found at i:29844850 original size:59 final size:59
Alignment explanation
Indices: 29844772--29844890 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
29844762 TATCCTTGAA
29844772 GTCGTAGAGGATCGAATTGAAACTACGATAGCTAATCTCATCTCTCGAAAGATGCAGTG
1 GTCGTAGAGGATCGAATTGAAACTACGATAGCTAATCTCATCTCTCGAAAGATGCAGTG
* *
29844831 GTCGTAGAGGATC-AGATTGAAACTACGATAGCTAATCTCATCTTTCGGAAGATGCAGTG
1 GTCGTAGAGGATCGA-ATTGAAACTACGATAGCTAATCTCATCTCTCGAAAGATGCAGTG
29844890 G
1 G
29844891 AGCAAGATGA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 1 0.02
59 56 0.98
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (59 bp):
GTCGTAGAGGATCGAATTGAAACTACGATAGCTAATCTCATCTCTCGAAAGATGCAGTG
Found at i:29844870 original size:159 final size:159
Alignment explanation
Indices: 29844677--29844974 Score: 533
Period size: 159 Copynumber: 1.9 Consensus size: 159
29844667 CTGAAGTCAC
*
29844677 AGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGA
1 AGAGGATCAGATTGAAACTACGATAGCTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGA
* *
29844742 AGCTACAACATCAAATCCTATATCCTTGAAGTCGTAGAGGATCGAATTGAAACTACGATAGCTAA
66 AGCTACAACATCAAATCCTATATCCTTGAAGACGCAGAGGATCGAATTGAAACTACGATAGCTAA
29844807 TCTCATCTCTCGAAAGATGCAGTGGTCGT
131 TCTCATCTCTCGAAAGATGCAGTGGTCGT
**
29844836 AGAGGATCAGATTGAAACTACGATAGCTAATCTCATCTTTCGGAAGATGCAGTGGAGCAAGATGA
1 AGAGGATCAGATTGAAACTACGATAGCTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGA
* *
29844901 AGCTACAACATCAAATCCTATATCCTTGAAGACGCATAGGATCGGATTGAAACTACGATAGCTAA
66 AGCTACAACATCAAATCCTATATCCTTGAAGACGCAGAGGATCGAATTGAAACTACGATAGCTAA
29844966 TCTCATCTC
131 TCTCATCTC
29844975 CTAGAAGATG
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
159 132 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (159 bp):
AGAGGATCAGATTGAAACTACGATAGCTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGA
AGCTACAACATCAAATCCTATATCCTTGAAGACGCAGAGGATCGAATTGAAACTACGATAGCTAA
TCTCATCTCTCGAAAGATGCAGTGGTCGT
Found at i:29844905 original size:100 final size:99
Alignment explanation
Indices: 29844831--29845314 Score: 612
Period size: 100 Copynumber: 4.9 Consensus size: 99
29844821 AGATGCAGTG
* * *
29844831 GTCGTAGAGGATCAGATTGAAACTACGATAGCTAATCTCATCTTTCGGAAGATGCAGTGGAGCAA
1 GTCGCAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTTCCGGAAGATGCAGTGGAGCAA
*
29844896 GATGAAGCTACAACATCAAATCCTATATCCTTGAA
66 GATGAAGCTACAACATCAAATCCTATATCCCTG-A
* * * *
29844931 GACGCATAGGATCGGATTGAAACTACGATAGCTAATCTCATC-TCCTAGAAGATGTAGTGGAGCA
1 GTCGCAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTTCC-GGAAGATGCAGTGGAGCA
29844995 AGATGAAGCTACAACATCAAATCCTATATCCCTGAA
65 AGATGAAGCTACAACATCAAATCCTATATCCCTG-A
* * *
29845031 GTCGCAGAGGATTGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCAA
1 GTCGCAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTTCCGGAAGATGCAGTGGAGCAA
*
29845096 GATGAAGCTACAATATCAAATCCTATATCCCTGAA
66 GATGAAGCTACAACATCAAATCCTATATCCCTG-A
* * * * * * *
29845131 GTCGCGGTGGATCAGATTG-ATCTACGATAGCAAATCTCATCTCCCTGAAGATGCAGTGGAGCAA
1 GTCGCAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTTCCGGAAGATGCAGTGGAGCAA
*
29845195 GATGAAGCTACAACATCAAATCCTATATACCTGAA
66 GATGAAGCTACAACATCAAATCCTATATCCCTG-A
* * * * * * ** * * * *
29845230 GTTGTAGTGGATTGGATTGAAACTACGATAGCAAATCTCGTCTTCTTGAATATACAATGGAGCTA
1 GTCGCAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTTCCGGAAGATGCAGTGGAGCAA
*
29845295 GATGAAGCTATAACATCAAA
66 GATGAAGCTACAACATCAAA
29845315 ACGATGTCAT
Statistics
Matches: 341, Mismatches: 40, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
99 90 0.26
100 249 0.73
101 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (99 bp):
GTCGCAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTTCCGGAAGATGCAGTGGAGCAA
GATGAAGCTACAACATCAAATCCTATATCCCTGA
Found at i:29844992 original size:359 final size:357
Alignment explanation
Indices: 29844480--29845189 Score: 1063
Period size: 359 Copynumber: 2.0 Consensus size: 357
29844470 AAGTCATAGT
29844480 GGATCAGATTGAAACTACAATAGCAAATCTCATCTCCTTGAAAATGCAGTGGAGCAAGATGAAGC
1 GGATCAGATTGAAACTACAATAGCAAATCTCATCT-CTTGAAAATGCAGTGGAGCAAGATGAAGC
* *
29844545 TACATCATCAAATCCTATATCCTTGAAGATGCAGTGGATCAGATTAAAACTACAGTAGCAAATCT
65 TACAACATCAAATCCTATATCCTTGAAGACGCAGTGGATCAGATTAAAACTACAGTAGCAAATCT
* * *
29844610 TATCTATGTGAAGATACAGTGGAGCAAGATGAAGATACAATATCAAATCCTATATCCCTGAAGTC
130 CATCTATGAGAAGATACAGTGGAGCAAGATGAAGATACAACATCAAATCCTATATCCCTGAAGTC
*
29844675 ACAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGAT
195 ACAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCAAGAT
* *
29844740 GAAGCTACAACATCAAATCCTATATCCTTGAAGTCGTAGAGGATC-GAATTGAAACTACGATAGC
260 GAAGCTACAACATCAAATCCTATATCCCTGAAGTCGCAGAGGATCAG-ATTG-AACTACGATAGC
* *
29844804 TAATCTCATCTCTC-GAAAGATGCAGTGGTCGTAGA
323 AAATCTCATCTCCCTG-AAGATGCAGTGGTCGTAGA
* * *
29844839 GGATCAGATTGAAACTACGATAGCTAATCTCATCT-TTCGGAAGATGCAGTGGAGCAAGATGAAG
1 GGATCAGATTGAAACTACAATAGCAAATCTCATCTCTT--GAAAATGCAGTGGAGCAAGATGAAG
* * *
29844903 CTACAACATCAAATCCTATATCCTTGAAGACGCA-TAGGATCGGATTGAAACTAC-GATAGCTAA
64 CTACAACATCAAATCCTATATCCTTGAAGACGCAGT-GGATCAGATTAAAACTACAG-TAGCAAA
* ** *
29844966 TCTCATCTCCT-AGAAGATGTAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTGA
127 TCTCATCT-ATGAGAAGATACAGTGGAGCAAGATGAAGATACAACATCAAATCCTATATCCCTGA
* *
29845030 AGTCGCAGAGGATTGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCA
191 AGTCACAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCA
* * * *
29845095 AGATGAAGCTACAATATCAAATCCTATATCCCTGAAGTCGCGGTGGATCAGATTGATCTACGATA
256 AGATGAAGCTACAACATCAAATCCTATATCCCTGAAGTCGCAGAGGATCAGATTGAACTACGATA
29845160 GCAAATCTCATCTCCCTGAAGATGCAGTGG
321 GCAAATCTCATCTCCCTGAAGATGCAGTGG
29845190 AGCAAGATGA
Statistics
Matches: 318, Mismatches: 26, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
357 2 0.01
358 37 0.12
359 277 0.87
360 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (357 bp):
GGATCAGATTGAAACTACAATAGCAAATCTCATCTCTTGAAAATGCAGTGGAGCAAGATGAAGCT
ACAACATCAAATCCTATATCCTTGAAGACGCAGTGGATCAGATTAAAACTACAGTAGCAAATCTC
ATCTATGAGAAGATACAGTGGAGCAAGATGAAGATACAACATCAAATCCTATATCCCTGAAGTCA
CAGAGGATCGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCAAGATG
AAGCTACAACATCAAATCCTATATCCCTGAAGTCGCAGAGGATCAGATTGAACTACGATAGCAAA
TCTCATCTCCCTGAAGATGCAGTGGTCGTAGA
Found at i:29845042 original size:259 final size:259
Alignment explanation
Indices: 29844580--29845090 Score: 819
Period size: 259 Copynumber: 2.0 Consensus size: 259
29844570 AAGATGCAGT
*
29844580 GGATCAGATTAAAACTACAGTAGCAAATCTTATCTATGTGAAGATACAGTGGAGCAAGATGAAGA
1 GGATCAGATTAAAACTACAGTAGCAAATCTCATCTATGTGAAGATACAGTGGAGCAAGATGAAGA
* *
29844645 TACAATATCAAATCCTATATCCCTGAAGTCACAGAGGATCGGATTGAAACTACGATAGCTAATCT
66 TACAACATCAAATCCTATATCCCTGAAGACACAGAGGATCGGATTGAAACTACGATAGCTAATCT
* *
29844710 CATCTCCCGGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCTTGAAGTC
131 CATCTCCCAGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTGAAGTC
* *
29844775 GTAGAGGATCGAATTGAAACTACGATAGCTAATCTCATCTCTCGAAAGATGCAGTGGTCGTAGA
196 GCAGAGGATCGAATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGTCGTAGA
* * * *
29844839 GGATCAGATTGAAACTAC-GATAGCTAATCTCATCTTTCG-GAAGATGCAGTGGAGCAAGATGAA
1 GGATCAGATTAAAACTACAG-TAGCAAATCTCATCTAT-GTGAAGATACAGTGGAGCAAGATGAA
* * * *
29844902 GCTACAACATCAAATCCTATATCCTTGAAGACGCATAGGATCGGATTGAAACTACGATAGCTAAT
64 GATACAACATCAAATCCTATATCCCTGAAGACACAGAGGATCGGATTGAAACTACGATAGCTAAT
* *
29844967 CTCATCTCCTAGAAGATGTAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTGAAG
129 CTCATCTCCCAGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTGAAG
* *
29845032 TCGCAGAGGATTGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGG
194 TCGCAGAGGATCGAATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGG
29845091 AGCAAGATGA
Statistics
Matches: 231, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
258 1 0.00
259 229 0.99
260 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (259 bp):
GGATCAGATTAAAACTACAGTAGCAAATCTCATCTATGTGAAGATACAGTGGAGCAAGATGAAGA
TACAACATCAAATCCTATATCCCTGAAGACACAGAGGATCGGATTGAAACTACGATAGCTAATCT
CATCTCCCAGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTGAAGTC
GCAGAGGATCGAATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGTCGTAGA
Found at i:29845244 original size:199 final size:200
Alignment explanation
Indices: 29844831--29845314 Score: 670
Period size: 199 Copynumber: 2.4 Consensus size: 200
29844821 AGATGCAGTG
* ** ** *
29844831 GTCGTAGAGGATCAGATTGAAACTACGATAGCTAATCTCATCTTTCGGAAGATGCAGTGGAGCAA
1 GTCGCAGAGGATTGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCAA
* *
29844896 GATGAAGCTACAACATCAAATCCTATATCCTTGAAGACGCATAGGATCGGATTGAAACTACGATA
66 GATGAAGCTACAACATCAAATCCTATATCCCTGAAGACGCATAGGATCAGATTGAAACTACGATA
* * *
29844961 GCTAATCTCATCTCCTAGAAGATGTAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCC
131 GCAAATCTCATCTCCTAGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATAC
29845026 CTGAA
196 CTGAA
29845031 GTCGCAGAGGATTGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCAA
1 GTCGCAGAGGATTGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCAA
* * * *
29845096 GATGAAGCTACAATATCAAATCCTATATCCCTGAAGTCGCGGT-GGATCAGATTG-ATCTACGAT
66 GATGAAGCTACAACATCAAATCCTATATCCCTGAAGACGC-ATAGGATCAGATTGAAACTACGAT
29845159 AGCAAATCTCATCTCCCT-GAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATAT
130 AGCAAATCTCATCT-CCTAGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATAT
29845223 ACCTGAA
194 ACCTGAA
* * * * * ** * * * *
29845230 GTTGTAGTGGATTGGATTGAAACTACGATAGCAAATCTCGTCTTCTTG-AATATACAATGGAGCT
1 GTCGCAGAGGATTGGATTGAAACTACGATAGCTAATCTCATC-TCCCGAAAGATGCAGTGGAGCA
*
29845294 AGATGAAGCTATAACATCAAA
65 AGATGAAGCTACAACATCAAA
29845315 ACGATGTCAT
Statistics
Matches: 253, Mismatches: 28, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
199 140 0.55
200 112 0.44
201 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (200 bp):
GTCGCAGAGGATTGGATTGAAACTACGATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCAA
GATGAAGCTACAACATCAAATCCTATATCCCTGAAGACGCATAGGATCAGATTGAAACTACGATA
GCAAATCTCATCTCCTAGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATAC
CTGAA
Found at i:29845795 original size:4 final size:4
Alignment explanation
Indices: 29845760--29845810 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
29845750 CCTTTCCTTA
* *
29845760 ATTT -TTT ATTT ATGT GTTT ATTTT ATTTT ATTT ATTTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT A-TTT A-TTT ATTT A-TTT ATTT ATTT ATTT
29845810 A
1 A
29845811 CTTTTAATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 3 0.08
4 24 0.60
5 13 0.32
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:29845795 original size:9 final size:9
Alignment explanation
Indices: 29845776--29845816 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
29845766 TATTTATGTG
29845776 TTTATTTTAT
1 TTTA-TTTAT
29845786 TTTATTTAT
1 TTTATTTAT
29845795 TTTATTTA-
1 TTTATTTAT
29845803 TTTATTTACT
1 TTTATTTA-T
29845813 TTTA
1 TTTA
29845817 ATACTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
10 8 0.28
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:29845911 original size:18 final size:17
Alignment explanation
Indices: 29845883--29845929 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
29845873 CGATCTAGTC
29845883 TTTGCTTATTTAT-TTATT
1 TTTG-TTATTT-TGTTATT
29845901 TATTGTTATTTTGTTATT
1 T-TTGTTATTTTGTTATT
*
29845919 TTTTTTATTTT
1 TTTGTTATTTT
29845930 TCAAGCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.38
18 13 0.50
19 3 0.12
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTGTTATTTTGTTATT
Found at i:29845930 original size:18 final size:18
Alignment explanation
Indices: 29845896--29845929 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29845886 GCTTATTTAT
29845896 TTATTTATTGTTATTTTG
1 TTATTTATTGTTATTTTG
*
29845914 TTATTT-TTTTTATTTT
1 TTATTTATTGTTATTTT
29845930 TCAAGCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (18 bp):
TTATTTATTGTTATTTTG
Found at i:29845984 original size:29 final size:30
Alignment explanation
Indices: 29845950--29846007 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
29845940 TCATTTCATG
29845950 CCATTTATATTTTCACCCTTTAA-ATTATA
1 CCATTTATATTTTCACCCTTTAATATTATA
* *
29845979 CCATTTTTATTTTCATCCTTTAATATTAT
1 CCATTTATATTTTCACCCTTTAATATTAT
29846008 TTGCAGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (30 bp):
CCATTTATATTTTCACCCTTTAATATTATA
Found at i:29847267 original size:94 final size:95
Alignment explanation
Indices: 29847105--29847295 Score: 375
Period size: 94 Copynumber: 2.0 Consensus size: 95
29847095 TCAGCATAAA
29847105 AATTGAACCCGACCTGTTTTACCCCAAGGTCCGCGTGTTTTGTAAGCGGAGGATCGATTTTCCAA
1 AATTGAACCCGACCTGTTTTACCCCAAGGTCCGCGTGTTTTGTAAGCGGAGGATCGATTTTCCAA
29847170 ATCAATCCCTCCTCTTTTCCATGGACTTCC
66 ATCAATCCCTCCTCTTTTCCATGGACTTCC
29847200 AATTGAACCCGACCTGTTTTA-CCCAAGGTCCGCGTGTTTTGTAAGCGGAGGATCGATTTTCCAA
1 AATTGAACCCGACCTGTTTTACCCCAAGGTCCGCGTGTTTTGTAAGCGGAGGATCGATTTTCCAA
29847264 ATCAATCCCTCCTCTTTTCCATGGACTTCC
66 ATCAATCCCTCCTCTTTTCCATGGACTTCC
29847294 AA
1 AA
29847296 ATTAGTCCTT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 75 0.78
95 21 0.22
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (95 bp):
AATTGAACCCGACCTGTTTTACCCCAAGGTCCGCGTGTTTTGTAAGCGGAGGATCGATTTTCCAA
ATCAATCCCTCCTCTTTTCCATGGACTTCC
Found at i:29848307 original size:108 final size:108
Alignment explanation
Indices: 29848074--29848396 Score: 450
Period size: 108 Copynumber: 3.0 Consensus size: 108
29848064 AAAGGGGGCA
* * *
29848074 ATGTTCTTTTATTTAGGGAATTCGAAAAATTGTGCTCAAACATACTGAGTATGATTTTTTTCTTT
1 ATGTTCTTTTATTTAGGGGATTCGAAAAATTGTGCTCAAACGTACTGGGTATGA--TTTTTCTTT
* *
29848139 GAACATAAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCG
64 AAACCTAAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCG
* *
29848184 ATGTTCTTTTTTTTAGGGGATTCGAGAAATTGTGCTCAAACGTACTGGGTATGATTTTTCTTTAA
1 ATGTTCTTTTATTTAGGGGATTCGAAAAATTGTGCTCAAACGTACTGGGTATGATTTTTCTTTAA
* *
29848249 ACCTAAATAATCGAGTGTCCTTTTTAAAATCAATAAATGTTCG
66 ACCTAAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCG
* * * *
29848292 ATGTTCTTTTATTTA-GAGAGTTCGATAAATTGTGCTTAAACGTACTGGGTATGATTTTTCTTTT
1 ATGTTCTTTTATTTAGGGGA-TTCGAAAAATTGTGCTCAAACGTACTGGGTATGATTTTTCTTTA
* * * * *
29848356 AACCTAAGTAGTCAAATATCCTATTTAAAATCGATAAATGT
65 AACCTAAATAATCGAGTATCCTATTTAAAATCAATAAATGT
29848397 CCTTTATCTT
Statistics
Matches: 191, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
107 3 0.02
108 139 0.73
110 49 0.26
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (108 bp):
ATGTTCTTTTATTTAGGGGATTCGAAAAATTGTGCTCAAACGTACTGGGTATGATTTTTCTTTAA
ACCTAAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCG
Found at i:29861985 original size:23 final size:22
Alignment explanation
Indices: 29861949--29862004 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
29861939 ACGTGGAGTC
*
29861949 CAGTCAGCAGCTTCTAGAAGGTT
1 CAGTCAGCAACTTCTAGAAGG-T
*
29861972 CAGTCAGTAACTTCTAGAAGGT
1 CAGTCAGCAACTTCTAGAAGGT
29861994 CTAGTCAGCAA
1 C-AGTCAGCAA
29862005 GGATGGACGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 2 0.07
23 27 0.93
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (22 bp):
CAGTCAGCAACTTCTAGAAGGT
Found at i:29864068 original size:19 final size:19
Alignment explanation
Indices: 29864044--29864085 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
29864034 TTTTCTTCGA
29864044 AAAAATAACAA-AAGAAAAT
1 AAAAATAA-AATAAGAAAAT
*
29864063 AAAAATAAAATAATAAAAT
1 AAAAATAAAATAAGAAAAT
29864082 AAAA
1 AAAA
29864086 TAGCAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAATAAAATAAGAAAAT
Found at i:29864077 original size:14 final size:13
Alignment explanation
Indices: 29864045--29864087 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
29864035 TTTCTTCGAA
* *
29864045 AAAATAACAAAAG
1 AAAATAATAAAAT
29864058 AAAAT-A-AAAAT
1 AAAATAATAAAAT
29864069 AAAATAATAAAAT
1 AAAATAATAAAAT
29864082 AAAATA
1 AAAATA
29864088 GCAATAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 9 0.33
12 2 0.07
13 16 0.59
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:29864258 original size:11 final size:11
Alignment explanation
Indices: 29864244--29864281 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
29864234 GGCACAAAAT
*
29864244 AAATAACATAT
1 AAATAACATAA
*
29864255 AAATAA-TTAA
1 AAATAACATAA
29864265 AAATAACATAA
1 AAATAACATAA
29864276 AAATAA
1 AAATAA
29864282 TAAATAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAACATAA
Found at i:29864353 original size:30 final size:31
Alignment explanation
Indices: 29864309--29864369 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
29864299 AATACCAAAA
29864309 TAAATAAAAGAATAAAAATA-AATAAAAGGAT
1 TAAATAAAAGAAT-AAAATAGAATAAAAGGAT
* *
29864340 TAAATTAAA-AATAAAATAGAATAAAGGGAT
1 TAAATAAAAGAATAAAATAGAATAAAAGGAT
29864370 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 13 0.48
31 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.21
Consensus pattern (31 bp):
TAAATAAAAGAATAAAATAGAATAAAAGGAT
Found at i:29866386 original size:95 final size:96
Alignment explanation
Indices: 29866266--29866447 Score: 210
Period size: 95 Copynumber: 1.9 Consensus size: 96
29866256 AATCTGATGC
* ** * *
29866266 ACTACAACTTCAGGGATATAAGATTTGGTG-CTATAGCTTCATCTTACTCTACTATAACTTCATA
1 ACTACAACTTCAAGGATATAAGATTTAATGTC-ATAGCTTCATCTTACTCCACTACAACTTCA-A
* *
29866330 -GAGAT-AAGATTTGTTTTTGTAGATCTGACCT
64 GGAGATAAAGATTTGCTTCTGTAGATCTGACCT
* * * *
29866361 ACTACAACTTCAAAGG-TATAGGATTTAATGTCGTAGCTTCATCTTGCTCCACTGCAACTTCAAG
1 ACTACAACTTC-AAGGATATAAGATTTAATGTCATAGCTTCATCTTACTCCACTACAACTTCAAG
29866425 GAGATAAAGATTTGCTTCTGTAG
65 GAGATAAAGATTTGCTTCTGTAG
29866448 CTTCAATCCG
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
94 1 0.01
95 52 0.72
96 19 0.26
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (96 bp):
ACTACAACTTCAAGGATATAAGATTTAATGTCATAGCTTCATCTTACTCCACTACAACTTCAAGG
AGATAAAGATTTGCTTCTGTAGATCTGACCT
Found at i:29866510 original size:50 final size:50
Alignment explanation
Indices: 29866433--29866991 Score: 587
Period size: 50 Copynumber: 11.2 Consensus size: 50
29866423 AGGAGATAAA
* * * * *
29866433 GATTTGCTTCTGTAGCTTCAATCCGCCCCTCTACAACTTTAGGGGTATAG
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
* * *
29866483 GATTTGATTTTGTAGCTTTAATTCGC-CCATTTACAACTTTAGCG-GTATAA
1 GATTTGATTTTGTAGCTTTAATCCGCTCC-TCTACAACTTTAG-GAGTATAG
* * * * * *
29866533 GATTTGGTGTCGTATCTTTAATCCGCTCCTCTATAACTTTAGGAGTATAA
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
* * * *
29866583 GATTTGATTTTGTAGCTTTAATCCACTCCTCTGCAACTTTAGAAGTATAT
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
* * *
29866633 GATTTGATTTTGTAGCTTTAATCCACTCCTCTGCAACTTT--GAATATAG
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
* *** *
29866681 GATTTGATTTTATAGCTTTAATATACTCCTCTACAATTTTAGGA-TATAG
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
* *
29866730 GATTTGATTTTGTAGCTTCAATCCACTCCTCTACAACTTTA-GAGGTATAG
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGA-GTATAG
* * * * * *
29866780 GATTTGGTGTCGTAGCTTTAATTCGCTCCTTTGCAACTTTAGGAGTATAG
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
* *
29866830 GATTTGATTTTGTAGCTTT-ATTCGCTCCTCTGCAACTTTAGGAGTATAG
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
* * * *
29866879 GATTTGATTTTTGTA-ATGTTAATCCACTCCGCTACGACTTTAGGAGTATAG
1 GATTTGA-TTTTGTAGCT-TTAATCCGCTCCTCTACAACTTTAGGAGTATAG
* * * ** *
29866930 GATTTGATTTTGTAACTTCAATCCGCCCCTCTGGAACTTTA-GAGGTATAA
1 GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGA-GTATAG
29866980 GATTTGATTTTG
1 GATTTGATTTTG
29866992 AATTGATCCC
Statistics
Matches: 433, Mismatches: 62, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
48 42 0.10
49 83 0.19
50 270 0.62
51 38 0.09
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (50 bp):
GATTTGATTTTGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAG
Found at i:29866786 original size:247 final size:249
Alignment explanation
Indices: 29866460--29866940 Score: 684
Period size: 247 Copynumber: 1.9 Consensus size: 249
29866450 TCAATCCGCC
* * * * *
29866460 CCTCTACAACTTTAGGGGTATAGGATTTGATTTTGTAGCTTTAATTCGCCCATTTACAACTTTAG
1 CCTCTACAACTTTAGGGATATAGGATTTGATTTTGTAGCTTCAATCCACCCATCTACAACTTTAG
* * *
29866525 CGGTATAAGATTTGGTGTCGTATCTTTAATCCGCTCCTCTATAACTTTAGGAGTATAAGATTTGA
66 AGGTATAAGATTTGGTGTCGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAAGATTTGA
* *
29866590 TTTTGTAGCTTTAATCCACTCCTCTGCAACTTTAGAAGTATATGATTTGA-TTTTGTAGCT-TTA
131 TTTTGTAGCTTT-ATCCACTCCTCTGCAACTTTAGAAGTATAGGATTTGATTTTTGTA-ATGTTA
* *
29866653 ATCCACTCCTCTGCAACTTT-GAATATAGGATTTGATTTTATAGCTTTAATATACT
194 ATCCACTCCGCTACAACTTTAGAATATAGGATTTGATTTTATAGCTTTAATATACT
*
29866708 CCTCTACAATTTTA-GGATATAGGATTTGATTTTGTAGCTTCAATCCACTCC-TCTACAACTTTA
1 CCTCTACAACTTTAGGGATATAGGATTTGATTTTGTAGCTTCAATCCAC-CCATCTACAACTTTA
* * * * *
29866771 GAGGTATAGGATTTGGTGTCGTAGCTTTAATTCGCTCCTTTGCAACTTTAGGAGTATAGGATTTG
65 GAGGTATAAGATTTGGTGTCGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAAGATTTG
* * *
29866836 ATTTTGTAGCTTTATTCGCTCCTCTGCAACTTTAGGAGTATAGGATTTGATTTTTGTAATGTTAA
130 ATTTTGTAGCTTTATCCACTCCTCTGCAACTTTAGAAGTATAGGATTTGATTTTTGTAATGTTAA
* *
29866901 TCCACTCCGCTACGACTTTAGGAGTATAGGATTTGATTTT
195 TCCACTCCGCTACAACTTTA-GAATATAGGATTTGATTTT
29866941 GTAACTTCAA
Statistics
Matches: 205, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
246 34 0.17
247 138 0.67
248 15 0.07
249 18 0.09
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (249 bp):
CCTCTACAACTTTAGGGATATAGGATTTGATTTTGTAGCTTCAATCCACCCATCTACAACTTTAG
AGGTATAAGATTTGGTGTCGTAGCTTTAATCCGCTCCTCTACAACTTTAGGAGTATAAGATTTGA
TTTTGTAGCTTTATCCACTCCTCTGCAACTTTAGAAGTATAGGATTTGATTTTTGTAATGTTAAT
CCACTCCGCTACAACTTTAGAATATAGGATTTGATTTTATAGCTTTAATATACT
Found at i:29866893 original size:297 final size:299
Alignment explanation
Indices: 29866433--29866990 Score: 759
Period size: 297 Copynumber: 1.9 Consensus size: 299
29866423 AGGAGATAAA
* * * * *
29866433 GATTTGCTTCTGTAGCTTCAATCCGCCCCTCTACAACTTTAGGGGTATAGGATTTGATTTTGTAG
1 GATTTGATTCTGTAGCTTCAATCCACCCCTCTACAACTTTAGAGGTATAGGATTTGATGTCGTAG
* *
29866498 CTTTAATTCGCCCATTTACAACTTTAGCGGTATAAGATTTGGTGTCGTATCTTTAATCCGCTCCT
66 CTTTAATTCGCCCATTTACAACTTTAGCGGTATAAGATTTGATGTCGTAGCTTTAATCCGCTCCT
* * * *
29866563 CTATAACTTTAGGAGTATAAGATTTGATTTTGTAGCT-TTAATCCACTCCTCTGCAACTTTAGAA
131 CTACAACTTTAGGAGTATAAGATTTGATTTTGTA-ATGTTAATCCACTCCGCTACAACTTTAGAA
* * * * *
29866627 GTATATGATTTGATTTTGTAGCTTTAATCCACTCCTCTGCAACTTT-GA-ATATAGGATTTGATT
195 GTATAGGATTTGATTTTGTAACTTCAATCCACCCCTCTGCAACTTTAGAGATATAAGATTTGATT
29866690 TTATAGCTTTAATATACTCCTCTACAATTTTAGGATATAG
260 TTATAGCTTTAATATACTCCTCTACAATTTTAGGATATAG
* * *
29866730 GATTTGATTTTGTAGCTTCAATCCACTCCTCTACAACTTTAGAGGTATAGGATTTGGTGTCGTAG
1 GATTTGATTCTGTAGCTTCAATCCACCCCTCTACAACTTTAGAGGTATAGGATTTGATGTCGTAG
* * * * *
29866795 CTTTAATTCGCTCC-TTTGCAACTTTAG-GAGTATAGGATTTGATTTTGTAGCTTT-ATTCGCTC
66 CTTTAATTCGC-CCATTTACAACTTTAGCG-GTATAAGATTTGATGTCGTAGCTTTAATCCGCTC
* * *
29866857 CTCTGCAACTTTAGGAGTATAGGATTTGATTTTTGTAATGTTAATCCACTCCGCTACGACTTTAG
129 CTCTACAACTTTAGGAGTATAAGATTTGA-TTTTGTAATGTTAATCCACTCCGCTACAACTTTAG
* * * *
29866922 GAGTATAGGATTTGATTTTGTAACTTCAATCCGCCCCTCTGGAACTTTAGAGGTATAAGATTTGA
193 AAGTATAGGATTTGATTTTGTAACTTCAATCCACCCCTCTGCAACTTTAGAGATATAAGATTTGA
29866987 TTTT
258 TTTT
29866991 GAATTGATCC
Statistics
Matches: 224, Mismatches: 31, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
296 35 0.16
297 170 0.76
298 4 0.02
299 15 0.07
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (299 bp):
GATTTGATTCTGTAGCTTCAATCCACCCCTCTACAACTTTAGAGGTATAGGATTTGATGTCGTAG
CTTTAATTCGCCCATTTACAACTTTAGCGGTATAAGATTTGATGTCGTAGCTTTAATCCGCTCCT
CTACAACTTTAGGAGTATAAGATTTGATTTTGTAATGTTAATCCACTCCGCTACAACTTTAGAAG
TATAGGATTTGATTTTGTAACTTCAATCCACCCCTCTGCAACTTTAGAGATATAAGATTTGATTT
TATAGCTTTAATATACTCCTCTACAATTTTAGGATATAG
Found at i:29869935 original size:120 final size:120
Alignment explanation
Indices: 29869722--29870071 Score: 492
Period size: 120 Copynumber: 3.0 Consensus size: 120
29869712 ATAGATACTA
* * **
29869722 TATCGATGGCTGGGGAATCGTATATGTTGCGAGTCCTTGACAGCTCGTGCAAGCAGCATCGTATA
1 TATCGATGGCTGGGGTATCGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGCATCGTATA
*
29869787 TTGGTAACAGAGTTGATACAGACATGAGAATGAAATTCTGGATTATAGCATACCG
66 CTGGTAACAGAGTTGATACAGACATGAGAATGAAATTCTGGATTATAGCATACCG
* * * * *
29869842 TATCGATGGCAGGGGTATCGCATATGTTGCGAGTCCTCGACAGCTCATGTGAGCAACACCGTATA
1 TATCGATGGCTGGGGTATCGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGCATCGTATA
* *
29869907 CTGGTAACAGAGTTGATACAGTCATGAGAATGAAATTTTGGATTATAGCATACCG
66 CTGGTAACAGAGTTGATACAGACATGAGAATGAAATTCTGGATTATAGCATACCG
* * * * *
29869962 TATTGATGGTTGGGGTACCACATATGTTGCGAGTCCTTGA-AGTTCGTGTGAGCAGCATCGTATA
1 TATCGATGGCTGGGGTATCGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGCATCGTATA
* * *
29870026 CTGATAACAAAGTTGATACAGACAT--G-ATGAAATTCTAGATTATAGC
66 CTGGTAACAGAGTTGATACAGACATGAGAATGAAATTCTGGATTATAGC
29870072 TTGTGGAAGC
Statistics
Matches: 203, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
116 18 0.09
117 1 0.00
119 42 0.21
120 142 0.70
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (120 bp):
TATCGATGGCTGGGGTATCGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCAGCATCGTATA
CTGGTAACAGAGTTGATACAGACATGAGAATGAAATTCTGGATTATAGCATACCG
Found at i:29876569 original size:26 final size:26
Alignment explanation
Indices: 29876533--29876598 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
29876523 CAGTTGTTAG
* * *
29876533 ATGCGGTGACAATTCTGGATA-TGCTC
1 ATGCAGTGACAATTCTGAACATTG-TC
* *
29876559 ATGCAGTGACATTTCTGAACATTGTT
1 ATGCAGTGACAATTCTGAACATTGTC
29876585 ATGCAGTGACAATT
1 ATGCAGTGACAATT
29876599 TTGGGCGCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 31 0.94
27 2 0.06
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (26 bp):
ATGCAGTGACAATTCTGAACATTGTC
Found at i:29880941 original size:100 final size:99
Alignment explanation
Indices: 29880820--29881737 Score: 972
Period size: 100 Copynumber: 9.2 Consensus size: 99
29880810 TGGAATATAG
* * * *
29880820 TGAAGCTACAACATGAAATCCTATATCCCTGAAGATGCAATGGATTGGATTAAAAATAC-AGTAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAG-TGCAATGGATCGGATTGAAACTACGA-TAG
* * ** *
29880884 CAAATCTTATCTCCCTGAAGATGTAGTACAGCAAAA
64 CAAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGA
* * * * ** * *
29880920 TGAAGTTATAACATAAAATCCTACATCCAAGAAGTCGTAGTGGATCGGATTGAAACTACGATAGC
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGT-GCAATGGATCGGATTGAAACTACGATAGC
* *
29880985 AAATCTCATCTCCTTGAAGATGCAATGGAGCAAGA
65 AAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGA
* * * * * * *
29881020 TGAAGCTACATCATCAAATCCTTTATCCTTGAAGATGTAGTGGATCAGATTAAAACTAC-AGTAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAG-TGCAATGGATCGGATTGAAACTACGA-TAG
* * * *
29881084 CAAATCTTATCTACATGAAGATACAGTGGAGCAAGA
64 CAAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGA
** * *
29881120 TGAAGAAACAACATCAAATCCTATATCCCTGAAGT-CATAGAGGATCGAATTGAAACTACGATAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGTGCA-A-TGGATCGGATTGAAACTACGATAG
* * * *
29881184 CTAATCTCATCTCTC-GAAAGATGCAGTGGTGCATGA
64 CAAATCTCATCTCCCTG-AAGATGCAGTGGAGCAAGA
* * *
29881220 TGAAGCTACAACATCAAATCCTATATCTCTGAAGT-CACAGAGGATCGGATTAAAACTACGATAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGTGCA-A-TGGATCGGATTGAAACTACGATAG
*
29881284 CTAATCTCATCT-CCTAGAAGATGCAGTGGAGCAAGA
64 CAAATCTCATCTCCCT-GAAGATGCAGTGGAGCAAGA
* * *
29881320 TGAAGCTACAACATCAAATCCTATATCCTTGAAATCGCAGA-GGATCAGATTGAAACTACGATAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGT-GCA-ATGGATCGGATTGAAACTACGATAG
*
29881384 CTAATCTCATCTCCC-GAAAGATGCAGTGGAGCAAGA
64 CAAATCTCATCTCCCTG-AAGATGCAGTGGAGCAAGA
* * * * *
29881420 TGAAGCAATAACATCAAATCCTATATCCCTGAAGT-CATAGAGGATCGAATTAAAACTACGATAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGTGCA-A-TGGATCGGATTGAAACTACGATAG
* *
29881484 CTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGA
64 CAAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGA
* * *
29881520 TGAAGCTACAACATCAAATCCTATATCCCTGAAGTCGCAGTGGATCAGATTGAAACTACAATAGC
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGT-GCAATGGATCGGATTGAAACTACGATAGC
* * *
29881585 AAATCTCATCTCCCTAAAGATGAAGTAGAGCAAGA
65 AAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGA
* * * * *
29881620 TAAAGCTACAACACCAAATCCTATATACCTGAAGTTGCAGTGGATTGGATTGAAACTACGATAGC
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAG-TGCAATGGATCGGATTGAAACTACGATAGC
* * * * * *
29881685 AAATCTCATATTCTTGAAGATACAATGGAGCTAGA
65 AAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGA
*
29881720 TGAAGCTATAACATCAAA
1 TGAAGCTACAACATCAAA
29881738 ACGACGTCAT
Statistics
Matches: 692, Mismatches: 106, Indels: 40
0.83 0.13 0.05
Matches are distributed among these distances:
98 4 0.01
99 6 0.01
100 669 0.97
101 8 0.01
102 5 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (99 bp):
TGAAGCTACAACATCAAATCCTATATCCCTGAAGTGCAATGGATCGGATTGAAACTACGATAGCA
AATCTCATCTCCCTGAAGATGCAGTGGAGCAAGA
Found at i:29881079 original size:50 final size:49
Alignment explanation
Indices: 29880956--29881705 Score: 192
Period size: 50 Copynumber: 15.0 Consensus size: 49
29880946 CCAAGAAGTC
* *
29880956 GTAGTGGATCGGATTGAAACTACGATAGCAAATCTCATCTCCTTGAAGAT
1 GTAGTGGATCAGATTGAAACTAC-ATAGCAAATCTCATATCCTTGAAGAT
* * * * * *
29881006 GCAATGGAGCAAGA-TGAAGCTACATCATCAAATC-CTTTATCCTTGAAGAT
1 GTAGTGGATC-AGATTGAAACTACAT-AGCAAATCTC-ATATCCTTGAAGAT
* * * * *
29881056 GTAGTGGATCAGATTAAAACTACAGTAGCAAATCTTATCTACATGAAGAT
1 GTAGTGGATCAGATTGAAACTACA-TAGCAAATCTCATATCCTTGAAGAT
** * * * *
29881106 ACAGTGGAGCAAGATGAAGAAACAACAT--CAAATC-CTATATCCCTGAAG-T
1 GTAGTGGATC-AGAT--TGAAACTACATAGCAAATCTC-ATATCCTTGAAGAT
* * * * *
29881155 CATAGAGGATC-GAATTGAAACTACGATAGCTAATCTCATCT-CTCGAAAGAT
1 -GTAGTGGATCAG-ATTGAAACTAC-ATAGCAAATCTCATATCCTTG-AAGAT
* * * *
29881206 GCAGTGG-TGCATGA-TGAAGCTACAACATCAAATC-CTATAT-CTCTGAAG-T
1 GTAGTGGAT-CA-GATTGAAACTAC-ATAGCAAATCTC-ATATCCT-TGAAGAT
** * * * * * *
29881255 CACAGAGGATCGGATTAAAACTACGATAGCTAATCTCATCTCCTAGAAGAT
1 -GTAGTGGATCAGATTGAAACTAC-ATAGCAAATCTCATATCCTTGAAGAT
* * * * *
29881306 GCAGTGGAGCAAGA-TGAAGCTACAACATCAAATC-CTATATCCTTGAA-AT
1 GTAGTGGATC-AGATTGAAACTAC-ATAGCAAATCTC-ATATCCTTGAAGAT
* * * * *
29881355 CGCAGAGGATCAGATTGAAACTACGATAGCTAATCTCATCTCC-CGAAAGAT
1 -GTAGTGGATCAGATTGAAACTAC-ATAGCAAATCTCATATCCTTG-AAGAT
* * * *
29881406 GCAGTGGAGCAAGA-TGAAGCAATAACAT--CAAATC-CTATATCCCTGAAG-T
1 GTAGTGGATC-AGATTGAA--ACT-ACATAGCAAATCTC-ATATCCTTGAAGAT
* * * * * **
29881455 CATAGAGGATC-GAATTAAAACTACGATAGCTAATCTCATCTCCCGGAAGAT
1 -GTAGTGGATCAG-ATTGAAACTAC-ATAGCAAATCTCATATCCTTGAAGAT
* * * * * *
29881506 GCAGTGGAGCAAGA-TGAAGCTACAACATCAAATC-CTATATCCCTGAAG-T
1 GTAGTGGATC-AGATTGAAACTAC-ATAGCAAATCTC-ATATCCTTGAAGAT
* * * *
29881555 CGCAGTGGATCAGATTGAAACTACAATAGCAAATCTCATCTCCCTAAAGAT
1 -GTAGTGGATCAGATTGAAACTAC-ATAGCAAATCTCATATCCTTGAAGAT
* * * * * *
29881606 GAAGTAGAGCAAGA-T-AAAGCTACAACACCAAATC-CTATATACC-TGAAGTT
1 GTAGTGGATC-AGATTGAAA-CTAC-ATAGCAAATCTC-ATAT-CCTTGAAGAT
* ** *
29881656 GCAGTGGATTGGATTGAAACTACGATAGCAAATCTCATATTCTTGAAGAT
1 GTAGTGGATCAGATTGAAACTAC-ATAGCAAATCTCATATCCTTGAAGAT
29881706 ACAATGGAGC
Statistics
Matches: 504, Mismatches: 131, Indels: 130
0.66 0.17 0.17
Matches are distributed among these distances:
47 9 0.02
48 8 0.02
49 38 0.08
50 394 0.78
51 39 0.08
52 7 0.01
53 9 0.02
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (49 bp):
GTAGTGGATCAGATTGAAACTACATAGCAAATCTCATATCCTTGAAGAT
Found at i:29881174 original size:200 final size:200
Alignment explanation
Indices: 29880820--29881737 Score: 1073
Period size: 200 Copynumber: 4.6 Consensus size: 200
29880810 TGGAATATAG
* * * *
29880820 TGAAGCTACAACATGAAATCCTATATCCCTGAAGATGCAATGGATTGGATTAAAAATAC-AGTAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAG-TGCAGTGGATCGGATTAAAACTACGA-TAG
* * ** * * * * * *
29880884 CAAATCTTATCTCCCTGAAGATGTAGTACAGCAAAATGAAGTTATAACATAAAATCCTACATCCA
64 CAAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCC
* * * * *
29880949 AGAAGTCGTAGTGGATCGGATTGAAACTACGATAGCAAATCTCATCTCCTTG-AAGATGCAATGG
129 TGAAGTCGCAGAGGATCAGATTGAAACTACGATAGCAAATCTCATCTCCTCGAAAGATGCAATGG
29881013 AGCAAGA
194 AGCAAGA
* * * * *
29881020 TGAAGCTACATCATCAAATCCTTTATCCTTGAAGATGTAGTGGATCAGATTAAAACTAC-AGTAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAG-TGCAGTGGATCGGATTAAAACTACGA-TAG
* * * * **
29881084 CAAATCTTATCTACATGAAGATACAGTGGAGCAAGATGAAGAAACAACATCAAATCCTATATCCC
64 CAAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCC
** * *
29881149 TGAAGTCATAGAGGATC-GAATTGAAACTACGATAGCTAATCTCATCT-CTCGAAAGATGCAGTG
129 TGAAGTCGCAGAGGATCAG-ATTGAAACTACGATAGCAAATCTCATCTCCTCGAAAGATGCAATG
* *
29881212 GTGCATGA
193 GAGCAAGA
* * *
29881220 TGAAGCTACAACATCAAATCCTATATCTCTGAAGTCACAGAGGATCGGATTAAAACTACGATAGC
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGT-GCAGTGGATCGGATTAAAACTACGATAGC
* *
29881285 TAATCTCATCT-CCTAGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCT
65 AAATCTCATCTCCCT-GAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCC
* * *
29881349 TGAAATCGCAGAGGATCAGATTGAAACTACGATAGCTAATCTCATCTCC-CGAAAGATGCAGTGG
129 TGAAGTCGCAGAGGATCAGATTGAAACTACGATAGCAAATCTCATCTCCTCGAAAGATGCAATGG
29881413 AGCAAGA
194 AGCAAGA
* * * *
29881420 TGAAGCAATAACATCAAATCCTATATCCCTGAAGT-CATAGAGGATCGAATTAAAACTACGATAG
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAGTGC--AGTGGATCGGATTAAAACTACGATAG
* *
29881484 CTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCC
64 CAAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCC
* * * *
29881549 TGAAGTCGCAGTGGATCAGATTGAAACTACAATAGCAAATCTCATCTCC-CTAAAGATG-AAGTA
129 TGAAGTCGCAGAGGATCAGATTGAAACTACGATAGCAAATCTCATCTCCTCGAAAGATGCAA-TG
29881612 GAGCAAGA
193 GAGCAAGA
* * * * *
29881620 TAAAGCTACAACACCAAATCCTATATACCTGAAGTTGCAGTGGATTGGATTGAAACTACGATAGC
1 TGAAGCTACAACATCAAATCCTATATCCCTGAAG-TGCAGTGGATCGGATTAAAACTACGATAGC
* * * * * * *
29881685 AAATCTCATATTCTTGAAGATACAATGGAGCTAGATGAAGCTATAACATCAAA
65 AAATCTCATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAA
29881738 ACGACGTCAT
Statistics
Matches: 624, Mismatches: 81, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
198 1 0.00
199 8 0.01
200 608 0.97
201 6 0.01
202 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (200 bp):
TGAAGCTACAACATCAAATCCTATATCCCTGAAGTGCAGTGGATCGGATTAAAACTACGATAGCA
AATCTCATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCTG
AAGTCGCAGAGGATCAGATTGAAACTACGATAGCAAATCTCATCTCCTCGAAAGATGCAATGGAG
CAAGA
Found at i:29881725 original size:300 final size:299
Alignment explanation
Indices: 29880820--29881737 Score: 1139
Period size: 300 Copynumber: 3.1 Consensus size: 299
29880810 TGGAATATAG
* * * * * *
29880820 TGAAGCTACAACATGAAATCCTATATCCCTGAAGATGCA-A-TGGATTGGATTAAAAATAC-AGT
1 TGAAGCAACAACATCAAATCCTATATCCCTGAAG-T-CATAGAGGATCGAATTAAAACTACGA-T
* * * * ** * * * * *
29880882 AGCAAATCTTATCTCCCTGAAGATGTAGTACAGCAAAATGAAGTTATAACATAAAATCCTACATC
63 AGCTAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATC
** * * *
29880947 CAAGAAGTCGTAGTGGATCGGATTGAAACTACGATAGCAAATCTCATCTCCTTGAAGATGCAA-T
128 CCTGAAGTCGCAGTGGATCGGATTGAAACTACGATAGCAAATCTCATCTCCCTAAAGATG-AAGT
* * * * *
29881011 GGAGCAAGATGAAGCTACATCATCAAATCCTTTATCCTTGAAGATGTAGTGGATCAGATTAAAAC
192 GGAGCAAGATGAAGCTACAACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCAGATTGAAAC
* *
29881076 TAC-AGTAGCAAATCTTATCTACATGAAGATACAGTGGAGCAAGA
257 TACGA-TAGCAAATCTCAT-TTCATGAAGATACAGTGGAGCAAGA
* *
29881120 TGAAGAAACAACATCAAATCCTATATCCCTGAAGTCATAGAGGATCGAATTGAAACTACGATAGC
1 TGAAGCAACAACATCAAATCCTATATCCCTGAAGTCATAGAGGATCGAATTAAAACTACGATAGC
* * * * *
29881185 TAATCTCATCTCTCGAAAGATGCAGTGGTGCATGATGAAGCTACAACATCAAATCCTATATCTCT
66 TAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCT
* * * * *
29881250 GAAGTCACAGAGGATCGGATTAAAACTACGATAGCTAATCTCATCT-CCTAGAAGATGCAGTGGA
131 GAAGTCGCAGTGGATCGGATTGAAACTACGATAGCAAATCTCATCTCCCTA-AAGATGAAGTGGA
* * *
29881314 GCAAGATGAAGCTACAACATCAAATCCTATATCCTTGAAATCGCAGAGGATCAGATTGAAACTAC
195 GCAAGATGAAGCTACAACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCAGATTGAAACTAC
* * ** *
29881379 GATAGCTAATCTCATCTCCCGAAAGATGCAGTGGAGCAAGA
260 GATAGCAAATCTCATTTCATG-AAGATACAGTGGAGCAAGA
*
29881420 TGAAGCAATAACATCAAATCCTATATCCCTGAAGTCATAGAGGATCGAATTAAAACTACGATAGC
1 TGAAGCAACAACATCAAATCCTATATCCCTGAAGTCATAGAGGATCGAATTAAAACTACGATAGC
29881485 TAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCT
66 TAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCT
* * *
29881550 GAAGTCGCAGTGGATCAGATTGAAACTACAATAGCAAATCTCATCTCCCTAAAGATGAAGTAGAG
131 GAAGTCGCAGTGGATCGGATTGAAACTACGATAGCAAATCTCATCTCCCTAAAGATGAAGTGGAG
* * **
29881615 CAAGATAAAGCTACAACACCAAATCCTATATACC-TGAAGTTGCAGTGGATTGGATTGAAACTAC
196 CAAGATGAAGCTACAACATCAAATCCTATAT-CCTTGAAGTTGCAGTGGATCAGATTGAAACTAC
* * *
29881679 GATAGCAAATCTCATATTCTTGAAGATACAATGGAGCTAGA
260 GATAGCAAATCTCAT-TTCATGAAGATACAGTGGAGCAAGA
* *
29881720 TGAAGCTATAACATCAAA
1 TGAAGCAACAACATCAAA
29881738 ACGACGTCAT
Statistics
Matches: 528, Mismatches: 80, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
298 2 0.00
299 7 0.01
300 508 0.96
301 11 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (299 bp):
TGAAGCAACAACATCAAATCCTATATCCCTGAAGTCATAGAGGATCGAATTAAAACTACGATAGC
TAATCTCATCTCCCGGAAGATGCAGTGGAGCAAGATGAAGCTACAACATCAAATCCTATATCCCT
GAAGTCGCAGTGGATCGGATTGAAACTACGATAGCAAATCTCATCTCCCTAAAGATGAAGTGGAG
CAAGATGAAGCTACAACATCAAATCCTATATCCTTGAAGTTGCAGTGGATCAGATTGAAACTACG
ATAGCAAATCTCATTTCATGAAGATACAGTGGAGCAAGA
Found at i:29882208 original size:22 final size:20
Alignment explanation
Indices: 29882181--29882234 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
29882171 CTTTCCTTAA
*
29882181 TTTTTATTTATGTGTTTATT
1 TTTTTATTTATGTATTTATT
*
29882201 CTATTTTATTTATTTATTTATT
1 -T-TTTTATTTATGTATTTATT
29882223 TTGTTTATTTAT
1 TT-TTTATTTAT
29882235 TTACTTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
22 17 0.59
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTTTATTTATGTATTTATT
Found at i:29882214 original size:4 final size:4
Alignment explanation
Indices: 29882183--29882237 Score: 56
Period size: 4 Copynumber: 13.0 Consensus size: 4
29882173 TTCCTTAATT
* * *
29882183 TTTA TTTA TGTG TTTA TTCTA TTTTA TTTA TTTA TTTA TTTTG TTTA TTTA
1 TTTA TTTA TTTA TTTA TT-TA -TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
29882234 TTTA
1 TTTA
29882238 CTTTTAGCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 33 0.79
5 7 0.17
6 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:29882222 original size:17 final size:17
Alignment explanation
Indices: 29882195--29882243 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
29882185 TATTTATGTG
29882195 TTTATTCTATTTTATTTA
1 TTTATT-TATTTTATTTA
*
29882213 TTTATTTATTTTGTTTA
1 TTTATTTATTTTATTTA
29882230 TTTATTTACTTTTA
1 TTTATTTA-TTTTA
29882244 GCACTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:29882406 original size:29 final size:30
Alignment explanation
Indices: 29882373--29882429 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
29882363 TCATTTCATG
29882373 CCATTTATATTCTCACCCTTTAA-ATTATA
1 CCATTTATATTCTCACCCTTTAATATTATA
* * *
29882402 CCATTTTTATTTTCATCCTTTAATATTA
1 CCATTTATATTCTCACCCTTTAATATTA
29882430 ATTGCAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (30 bp):
CCATTTATATTCTCACCCTTTAATATTATA
Found at i:29882553 original size:26 final size:27
Alignment explanation
Indices: 29882498--29882557 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
29882488 TTAAAACCTA
*
29882498 AAATCC-ATTAAAATAGACCAAAATAC
1 AAATCCAAATAAAATAGACCAAAATAC
* *
29882524 -AATCCAAATAAAATA-CCCAAATTAC
1 AAATCCAAATAAAATAGACCAAAATAC
29882549 AAATCCAAA
1 AAATCCAAA
29882558 CCTAAACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.58, C:0.22, G:0.02, T:0.18
Consensus pattern (27 bp):
AAATCCAAATAAAATAGACCAAAATAC
Found at i:29884602 original size:108 final size:107
Alignment explanation
Indices: 29884389--29884708 Score: 444
Period size: 108 Copynumber: 2.9 Consensus size: 107
29884379 GGGGGCAATG
* * *
29884389 TTCTTTTATTTAGGGAATTTGAAAAATTGTGCTCAAACATACTGGGTATAATTTTTTTCTTTGAA
1 TTCTTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACATACTGGGTATGA--TTTTTCTTTGAA
29884454 CATAAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCCATA
64 C-TAAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCCATA
* * *
29884499 TTCTTTTATTTAGGGGATTCGAGAAATTGTGCTCAAACATATTGGGTATGATTTTCCTTTGAATC
1 TTCTTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACATACTGGGTATGATTTTTCTTTGAA-C
* * *
29884564 TAAATAATCGAGTATCCTTTTTAAAATCAATAAATGTTCGATG
65 TAAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCCATA
* *
29884607 TTCTTTTATTTA-GAAAGTTCGAGAAATTGTGCTCAAACGTACTGGGTATGATTTTTCTTTGAAC
1 TTCTTTTATTTAGGGAA-TTCGAGAAATTGTGCTCAAACATACTGGGTATGATTTTTCTTTGAA-
* * * *
29884671 CTAAGTAGTCGAATATCCTATTTAAAATCGATAAATGT
64 CTAAATAATCGAGTATCCTATTTAAAATCAATAAATGT
29884709 CCTTTATCTT
Statistics
Matches: 188, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
107 2 0.01
108 139 0.74
109 1 0.01
110 46 0.24
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (107 bp):
TTCTTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACATACTGGGTATGATTTTTCTTTGAACT
AAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCCATA
Found at i:29885417 original size:19 final size:19
Alignment explanation
Indices: 29885376--29885434 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
29885366 CTACTATTCC
* * *
29885376 TATTATTATTTGATTGTAG
1 TATTATTATTTTATTTTAT
29885395 TATTATTATTTTATTTTAT
1 TATTATTATTTTATTTTAT
29885414 TATTCATGTA-TTTATTTTAT
1 TATT-AT-TATTTTATTTTAT
29885434 T
1 T
29885435 TTTGTCATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.57
20 13 0.37
21 2 0.06
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (19 bp):
TATTATTATTTTATTTTAT
Found at i:29889123 original size:75 final size:75
Alignment explanation
Indices: 29888903--29889158 Score: 327
Period size: 76 Copynumber: 3.4 Consensus size: 75
29888893 GAAAGGTTAA
* * * * * * * *
29888903 TTTATAATTTTAATTGTTAGCTTTAAAAAGTTGGTTTTGCTTAACAACCACTCTTCAAAGTCAGT
1 TTTAAAATTTTAATTTTTAAC-TTAAAAAATTGGTTTTGCTTAAAAACCACTTTTGAAAGTCAAT
29888968 ACTAAAGAAAG
65 ACTAAAGAAAG
* *
29888979 CTTAAAATTTTAATTTTTAACTTGAAAAAATTGAG-TTTGCTTAAAAACCAATTTTGAAAGTCAA
1 TTTAAAATTTTAATTTTTAACTT-AAAAAATTG-GTTTTGCTTAAAAACCACTTTTGAAAGTCAA
29889043 TACTAAAGAAAG
64 TACTAAAGAAAG
* *
29889055 TTTAAAATTTTAATTTTTAACTTAAAAAATTGGTTTTGCTTAAAAACCACTTTTGAATGTGAATA
1 TTTAAAATTTTAATTTTTAACTTAAAAAATTGGTTTTGCTTAAAAACCACTTTTGAAAGTCAATA
*
29889120 CTAAATAAAG
66 CTAAAGAAAG
* *
29889130 TCT-AAATATTTAATTTTTTACTTAAAAAA
1 TTTAAAAT-TTTAATTTTTAACTTAAAAAA
29889159 GTTTTTAATT
Statistics
Matches: 159, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
74 5 0.03
75 70 0.44
76 83 0.52
77 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (75 bp):
TTTAAAATTTTAATTTTTAACTTAAAAAATTGGTTTTGCTTAAAAACCACTTTTGAAAGTCAATA
CTAAAGAAAG
Found at i:29891688 original size:25 final size:24
Alignment explanation
Indices: 29891650--29891697 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
29891640 GATGATTGCG
29891650 GTCGCAATTGAAAAAAAAGATTTT
1 GTCGCAATTGAAAAAAAAGATTTT
*
29891674 GTCGCAATTGAAAAATAAGATTTT
1 GTCGCAATTGAAAAAAAAGATTTT
29891698 ATCATATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (24 bp):
GTCGCAATTGAAAAAAAAGATTTT
Found at i:29893523 original size:27 final size:26
Alignment explanation
Indices: 29893475--29893528 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
29893465 TAATTTTTAT
29893475 AATTTTTTAGCCAAAACCAAAAATCC
1 AATTTTTTAGCCAAAACCAAAAATCC
*
29893501 AATTTTTTAGCCTAAACCAAAAATCC
1 AATTTTTTAGCCAAAACCAAAAATCC
29893527 AA
1 AA
29893529 AACCATGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (26 bp):
AATTTTTTAGCCAAAACCAAAAATCC
Found at i:29893608 original size:6 final size:7
Alignment explanation
Indices: 29893573--29893700 Score: 52
Period size: 7 Copynumber: 18.3 Consensus size: 7
29893563 AAATACAAAA
29893573 CTTAAAC
1 CTTAAAC
29893580 AC-TAAAC
1 -CTTAAAC
29893587 TCTTAAAC
1 -CTTAAAC
*
29893595 TTTAAAC
1 CTTAAAC
29893602 C-TAAAC
1 CTTAAAC
29893608 CTTAAA-
1 CTTAAAC
*
29893614 CTCAAA-
1 CTTAAAC
*
29893620 CTCGATAAC
1 CT-TA-AAC
*
29893629 CTCAAACC
1 CTTAAA-C
29893637 CTTAAAC
1 CTTAAAC
*
29893644 CTTCAA-
1 CTTAAAC
*
29893650 CTTACAC
1 CTTAAAC
* *
29893657 CCTAATC
1 CTTAAAC
* *
29893664 CTCAAAA
1 CTTAAAC
*
29893671 TTATAAAC
1 CT-TAAAC
29893679 CTTAAAC
1 CTTAAAC
29893686 C-TAAAC
1 CTTAAAC
*
29893692 ATTAAAC
1 CTTAAAC
29893699 CT
1 CT
29893701 CAAATCCAAA
Statistics
Matches: 88, Mismatches: 23, Indels: 19
0.68 0.18 0.15
Matches are distributed among these distances:
6 22 0.25
7 45 0.51
8 19 0.22
9 2 0.02
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.27
Consensus pattern (7 bp):
CTTAAAC
Found at i:29894211 original size:20 final size:20
Alignment explanation
Indices: 29894186--29894239 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
29894176 CTCCAGTGAG
* *
29894186 ACTTCTACCGGTAGAACTCC
1 ACTTCTACCGATACAACTCC
**
29894206 ACTTCTACTTATACAACTCC
1 ACTTCTACCGATACAACTCC
29894226 ACTTCTACCGATAC
1 ACTTCTACCGATAC
29894240 CTTGAAGACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTCC
Found at i:29894470 original size:20 final size:20
Alignment explanation
Indices: 29894447--29894491 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
29894437 ATAACTCCTC
*
29894447 TTCTACTGATACAACTATAG
1 TTCTACCGATACAACTATAG
* *
29894467 TTCTACCGATACAAGTATGG
1 TTCTACCGATACAACTATAG
29894487 TTCTA
1 TTCTA
29894492 TCGGAACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (20 bp):
TTCTACCGATACAACTATAG
Found at i:29897402 original size:239 final size:239
Alignment explanation
Indices: 29896983--29897459 Score: 900
Period size: 239 Copynumber: 2.0 Consensus size: 239
29896973 AAAAGGGGAG
* **
29896983 AAGAGAAAGGTAAATTTTATGGTTGATTGATTGCTTATATTAGTGACAAATTTTTCAAAGGAAAA
1 AAGAGAAAGGAAAATTTTATGGTTGATTGATTGCTTATATTAGTGACAAATTTTTCAAAAAAAAA
29897048 TGAATGTCAAATTTGAACTTATTGGAAATTTATGCTCCAAACCTTTATGTTTTAAATTGAAAATG
66 TGAATGTCAAATTTGAACTTATTGGAAATTTATGCTCCAAACCTTTATGTTTTAAATTGAAAATG
29897113 ACTTTTATATAAGGAGAGCTTGAATTGAAAATGACTTTTATTAAGGGGGAGAAATCTATTCAAAA
131 ACTTTTATATAAGGAGAGCTTGAATTGAAAATGACTTTTATTAAGGGGGAGAAATCTATTCAAAA
29897178 ATAAATTTACAAAATGTTTTGTTATATCAAAAAGGGGGAGATTC
196 ATAAATTTACAAAATGTTTTGTTATATCAAAAAGGGGGAGATTC
29897222 AAGAGAAAGGAAAATTTTATGGTTGATTGATTGCTTATATTAGTGACAAATTTTTCAAAAAAAAA
1 AAGAGAAAGGAAAATTTTATGGTTGATTGATTGCTTATATTAGTGACAAATTTTTCAAAAAAAAA
29897287 TGAATGTCAAATTTGAACTTATTGGAAATTTATGCTCCAAACCTTTATGTTTTAAATTGAAAATG
66 TGAATGTCAAATTTGAACTTATTGGAAATTTATGCTCCAAACCTTTATGTTTTAAATTGAAAATG
* *
29897352 ATTTTTATATAAGGGGAGCTTGAATTGAAAATGACTTTTATTAAGGGGGAGAAATCTATTCAAAA
131 ACTTTTATATAAGGAGAGCTTGAATTGAAAATGACTTTTATTAAGGGGGAGAAATCTATTCAAAA
*
29897417 ATAAATTTACAAAATGTTTTGTTATATCAAAAATGGGGAGATT
196 ATAAATTTACAAAATGTTTTGTTATATCAAAAAGGGGGAGATT
29897460 GTTAAACTAA
Statistics
Matches: 232, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
239 232 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (239 bp):
AAGAGAAAGGAAAATTTTATGGTTGATTGATTGCTTATATTAGTGACAAATTTTTCAAAAAAAAA
TGAATGTCAAATTTGAACTTATTGGAAATTTATGCTCCAAACCTTTATGTTTTAAATTGAAAATG
ACTTTTATATAAGGAGAGCTTGAATTGAAAATGACTTTTATTAAGGGGGAGAAATCTATTCAAAA
ATAAATTTACAAAATGTTTTGTTATATCAAAAAGGGGGAGATTC
Found at i:29897592 original size:26 final size:26
Alignment explanation
Indices: 29897538--29897593 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
29897528 AGTAGAAAAG
* *
29897538 ACTCCAGTGAGAGTTCTACCAGTAGA
1 ACTCCAGTGAGACTTCTACCAGTACA
29897564 ACTCCAGTGAGACTTCTACC-GATACA
1 ACTCCAGTGAGACTTCTACCAG-TACA
29897590 ACTC
1 ACTC
29897594 TACTTCTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (26 bp):
ACTCCAGTGAGACTTCTACCAGTACA
Found at i:29899187 original size:29 final size:30
Alignment explanation
Indices: 29899155--29899217 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
29899145 AAACGGGACC
*
29899155 TTTGGA-TGCTCGGGGG-TGAAATGGTAATT
1 TTTGGACT-CTCGGGGGATAAAATGGTAATT
*
29899184 TTT-GACTTTCGGGGGATAAAATGGTAATT
1 TTTGGACTCTCGGGGGATAAAATGGTAATT
29899213 TTTGG
1 TTTGG
29899218 GTAAAATCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 9 0.31
29 19 0.66
30 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.33, T:0.38
Consensus pattern (30 bp):
TTTGGACTCTCGGGGGATAAAATGGTAATT
Found at i:29899297 original size:59 final size:59
Alignment explanation
Indices: 29899195--29899453 Score: 281
Period size: 59 Copynumber: 4.3 Consensus size: 59
29899185 TTGACTTTCG
* *
29899195 GGGGATAAAATGGTAATTTTTGGGTAAAATCGAGGTTAAAAATGAGATTTCGGAAAGTTCA
1 GGGG-TAAAATGGTAATTTTT-GATAAAATCGAGGTTAAAAATGAGATTTTGGAAAGTTCA
* * *
29899256 TGGGTAAAATGGTAATTTTTGATAAAAT-TAGGGTTAAAAATGGGATTTTGGAAAGTTC-
1 GGGGTAAAATGGTAATTTTTGATAAAATCGA-GGTTAAAAATGAGATTTTGGAAAGTTCA
* * * **
29899314 GAGGGTAAAATAGTAATTTTTGGTGAAATCGAGGTTAAAAATG-GAATTTTGGAAAGTTTG
1 G-GGGTAAAATGGTAATTTTTGATAAAATCGAGGTTAAAAATGAG-ATTTTGGAAAGTTCA
* * * * * * *
29899374 GGGGTGAAATAGTAATTTTGGATGAAATCGGGGTTAAAAATGGAAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGATAAAATCGAGGTTAAAAAT-GAGATTTTGGAAAGTTCA
*
29899434 GGGGTGAAATGGTAATTTTT
1 GGGGTAAAATGGTAATTTTT
29899454 CGGAAGTTTC
Statistics
Matches: 172, Mismatches: 19, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
58 2 0.01
59 116 0.67
60 51 0.30
61 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGATAAAATCGAGGTTAAAAATGAGATTTTGGAAAGTTCA
Found at i:29899319 original size:30 final size:30
Alignment explanation
Indices: 29899224--29899431 Score: 104
Period size: 29 Copynumber: 7.0 Consensus size: 30
29899214 TTGGGTAAAA
*
29899224 TCGA-GGTTAAAAAT-GAGATTTCGGAAAGT
1 TCGAGGGTTAAAAATGGA-ATTTTGGAAAGT
* *
29899253 TC-ATGGG-T-AAAATGGTAATTTTTGATAAAAT
1 TCGA-GGGTTAAAAATGG-AA-TTTTG-GAAAGT
*
29899284 T--AGGGTTAAAAATGGGATTTTGGAAAGT
1 TCGAGGGTTAAAAATGGAATTTTGGAAAGT
*
29899312 TCGAGGG-T-AAAATAGTAATTTTTGGTGAAA--
1 TCGAGGGTTAAAAAT-GGAA-TTTT-G-GAAAGT
29899342 TCGA-GGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGGTTAAAAATGGAATTTTGGAAAGT
* * * * * *
29899371 TTGGGGGTGAAATA-GTAATTTTGGATGAA-A
1 TCGAGGGTTAAAAATGGAATTTTGGA--AAGT
29899401 TCG-GGGTTAAAAATGGAAATTTTGGAAAGT
1 TCGAGGGTTAAAAATGG-AATTTTGGAAAGT
29899431 T
1 T
29899432 TAGGGGTGAA
Statistics
Matches: 135, Mismatches: 20, Indels: 47
0.67 0.10 0.23
Matches are distributed among these distances:
27 4 0.03
28 17 0.13
29 44 0.33
30 37 0.27
31 29 0.21
32 4 0.03
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.33
Consensus pattern (30 bp):
TCGAGGGTTAAAAATGGAATTTTGGAAAGT
Found at i:29899390 original size:118 final size:120
Alignment explanation
Indices: 29899191--29899453 Score: 327
Period size: 118 Copynumber: 2.2 Consensus size: 120
29899181 ATTTTTGACT
*
29899191 TTCGGGGGATAAAATGGTAATTTTTGGGTAAAATCGAGGTTAAAAATGAGATTTCGGAAAGTTCA
1 TTCGAGGG-TAAAATGGTAATTTTTGGGTAAAATCGAGGTTAAAAATGAGATTTCGGAAAGTTCA
* * * * *
29899256 TGGGTAAAATGGTAATTTTTGATAAAATTAGGGTTAAAAATGG-GATTTTGGAAAG
65 GGGGTAAAATAGTAATTTTGGATAAAATCAGGGTTAAAAATGGAAATTTTGGAAAG
* * * **
29899311 TTCGAGGGTAAAATAGTAATTTTT-GGTGAAATCGAGGTTAAAAATG-GAATTTTGGAAAGTTTG
1 TTCGAGGGTAAAATGGTAATTTTTGGGTAAAATCGAGGTTAAAAATGAG-ATTTCGGAAAGTTCA
* * *
29899374 GGGGTGAAATAGTAATTTTGGATGAAATCGGGGTTAAAAATGGAAATTTTGGAAAG
65 GGGGTAAAATAGTAATTTTGGATAAAATCAGGGTTAAAAATGGAAATTTTGGAAAG
* *
29899430 TT-TAGGGGTGAAATGGTAATTTTT
1 TTCGA-GGGTAAAATGGTAATTTTT
29899454 CGGAAGTTTC
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
117 1 0.01
118 70 0.57
119 45 0.37
120 7 0.06
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (120 bp):
TTCGAGGGTAAAATGGTAATTTTTGGGTAAAATCGAGGTTAAAAATGAGATTTCGGAAAGTTCAG
GGGTAAAATAGTAATTTTGGATAAAATCAGGGTTAAAAATGGAAATTTTGGAAAG
Found at i:29901465 original size:10 final size:11
Alignment explanation
Indices: 29901412--29901465 Score: 60
Period size: 10 Copynumber: 5.0 Consensus size: 11
29901402 TAATACTATT
29901412 TTAAATTT-AA
1 TTAAATTTAAA
29901422 TTAAATTTAAA
1 TTAAATTTAAA
*
29901433 CTTAAA-GTAAA
1 -TTAAATTTAAA
29901444 TGTAAATTTAAA
1 T-TAAATTTAAA
29901456 -TAAATTTAAA
1 TTAAATTTAAA
29901466 ATCAATTTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 19 0.50
11 10 0.26
12 9 0.24
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:29901467 original size:17 final size:16
Alignment explanation
Indices: 29901411--29901465 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
29901401 TTAATACTAT
*
29901411 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
*
29901427 TTTAAACTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
*
29901444 TGTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
29901460 TTTAAA
1 TTTAAA
29901466 ATCAATTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 19 0.58
17 14 0.42
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:29902607 original size:59 final size:60
Alignment explanation
Indices: 29902476--29902654 Score: 279
Period size: 59 Copynumber: 3.0 Consensus size: 60
29902466 TAATGTGGCA
* * *
29902476 CTATTTTATTGGTGCATAAAAATTAAACTTTTTACGATGATTCTAATATAATTTATTCTC
1 CTATTTTATTGGTGCATAAAAATTATACTTTTTAAGATGATCCTAATATAATTTATTCTC
* * *
29902536 CTATTTTATTGGTGCTTAAAAATTATACTTTTT-TGATGGTCCTAATATAATTTATTCTC
1 CTATTTTATTGGTGCATAAAAATTATACTTTTTAAGATGATCCTAATATAATTTATTCTC
* *
29902595 CTATTTTATTGGTGCCTAAAAATTATACTTTTTAAGATGATCTTAATATAATTTATTCTC
1 CTATTTTATTGGTGCATAAAAATTATACTTTTTAAGATGATCCTAATATAATTTATTCTC
29902655 TTGAAATAAA
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
59 55 0.50
60 54 0.50
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.49
Consensus pattern (60 bp):
CTATTTTATTGGTGCATAAAAATTATACTTTTTAAGATGATCCTAATATAATTTATTCTC
Found at i:29904842 original size:30 final size:30
Alignment explanation
Indices: 29904808--29904972 Score: 149
Period size: 29 Copynumber: 5.5 Consensus size: 30
29904798 TAATTTCGAG
* *
29904808 AGTTTCGAGGTCAAGAATGGAATTTTTGGA
1 AGTTTCGAGGTCAAAAATGTAATTTTTGGA
* *
29904838 AGTTT-GGGGGCAAAAATGTAATTTTTGGA
1 AGTTTCGAGGTCAAAAATGTAATTTTTGGA
* * *
29904867 AGTTTTGAGATCAAAAATAG-AATTTTTGAA
1 AGTTTCGAGGTCAAAAAT-GTAATTTTTGGA
* * *
29904897 AGTTTGGGGGT-AAAAATGTAATTTTTAGA
1 AGTTTCGAGGTCAAAAATGTAATTTTTGGA
* * * *
29904926 AATTTTGGGGTCAAAAATGTAATTTTAGAGA
1 AGTTTCGAGGTCAAAAATGTAATTTTTG-GA
29904957 AG-TTCGAGGGTCAAAA
1 AGTTTCGA-GGTCAAAA
29904973 TACAATTTTT
Statistics
Matches: 109, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.01
29 48 0.44
30 48 0.44
31 12 0.11
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (30 bp):
AGTTTCGAGGTCAAAAATGTAATTTTTGGA
Found at i:29904890 original size:59 final size:58
Alignment explanation
Indices: 29904791--29904991 Score: 190
Period size: 59 Copynumber: 3.4 Consensus size: 58
29904781 ATCCAGGGAT
** * *
29904791 AAAATGGTAATTTCGAG-AGTTTCGAGGTCAAGAATGGAATTTTTGGAAGTTTGGGGGCA
1 AAAAT-GTAATTTTTAGAAGTTTTGAGGTCAAAAAT-GAATTTTTGGAAGTTTGGGGGCA
* * * *
29904850 AAAATGTAATTTTTGGAAGTTTTGAGATCAAAAATAGAATTTTTGAAAGTTTGGGGGTA
1 AAAATGTAATTTTTAGAAGTTTTGAGGTCAAAAAT-GAATTTTTGGAAGTTTGGGGGCA
* * * * *
29904909 AAAATGTAATTTTTAGAAATTTTGGGGTCAAAAATGTAATTTTAGAGAAGTTCGAGGGTC-
1 AAAATGTAATTTTTAGAAGTTTTGAGGTCAAAAATG-AATTTTTG-GAAGTTTG-GGGGCA
**
29904969 AAAATACAATTTTTAGACAGTTT
1 AAAATGTAATTTTTAGA-AGTTT
29904992 AGGGACCTCC
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
58 9 0.08
59 79 0.68
60 21 0.18
61 7 0.06
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (58 bp):
AAAATGTAATTTTTAGAAGTTTTGAGGTCAAAAATGAATTTTTGGAAGTTTGGGGGCA
Found at i:29904973 original size:30 final size:31
Alignment explanation
Indices: 29904791--29904972 Score: 154
Period size: 30 Copynumber: 6.1 Consensus size: 31
29904781 ATCCAGGGAT
*
29904791 AAAATGGTAA-TTTCGAG-AGTTTCGA-GGTCA
1 AAAAT-GTAATTTTTGAGAAGTTT-GAGGGTCA
* * *
29904821 AGAATGGAATTTTTG-GAAGTTTG-GGGGCA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTCA
*
29904850 AAAATGTAATTTTTG-GAAGTTTTGA-GATCA
1 AAAATGTAATTTTTGAGAAG-TTTGAGGGTCA
*
29904880 AAAATAG-AATTTTTGA-AAGTTTGGGGGT-A
1 AAAAT-GTAATTTTTGAGAAGTTTGAGGGTCA
*
29904909 AAAATGTAATTTTT-AGAAATTTTG-GGGTCA
1 AAAATGTAATTTTTGAG-AAGTTTGAGGGTCA
* *
29904939 AAAATGTAATTTTAGAGAAGTTCGAGGGTCA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTCA
29904970 AAA
1 AAA
29904973 TACAATTTTT
Statistics
Matches: 124, Mismatches: 14, Indels: 27
0.75 0.08 0.16
Matches are distributed among these distances:
28 2 0.02
29 47 0.38
30 63 0.51
31 12 0.10
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (31 bp):
AAAATGTAATTTTTGAGAAGTTTGAGGGTCA
Found at i:29904983 original size:31 final size:29
Alignment explanation
Indices: 29904828--29904991 Score: 111
Period size: 30 Copynumber: 5.6 Consensus size: 29
29904818 TCAAGAATGG
* * *
29904828 AATTTTT-GGAAGTTTGGGGGCAAAAATGT
1 AATTTTTAGAAAGTTTGGGGTC-AAAATAT
* * * *
29904857 AATTTTT-GGAAGTTTTGAGATCAAAAATAG
1 AATTTTTAGAAAG-TTTGGGGTC-AAAATAT
* *
29904887 AATTTTT-GAAAGTTTGGGGGTAAAAATGT
1 AATTTTTAGAAAGTTT-GGGGTCAAAATAT
* *
29904916 AATTTTTAGAAATTTTGGGGTCAAAAATGT
1 AATTTTTAGAAAGTTTGGGGTC-AAAATAT
* *
29904946 AA-TTTTAGAGAAGTTCGAGGGTCAAAATAC
1 AATTTTTAGA-AAGTTTG-GGGTCAAAATAT
*
29904976 AATTTTTAGACAGTTT
1 AATTTTTAGAAAGTTT
29904992 AGGGACCTCC
Statistics
Matches: 109, Mismatches: 19, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
29 39 0.36
30 58 0.53
31 12 0.11
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
AATTTTTAGAAAGTTTGGGGTCAAAATAT
Found at i:29905711 original size:17 final size:17
Alignment explanation
Indices: 29905689--29905749 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
29905679 CTTTTCTTTA
29905689 TAAATTTATAA-TAATAT
1 TAAATTTA-AATTAATAT
29905706 TAAATTTAAATTAA-AT
1 TAAATTTAAATTAATAT
*
29905722 TCAAATTTAAATTAAAAT
1 T-AAATTTAAATTAATAT
*
29905740 TGAATTTAAA
1 TAAATTTAAA
29905750 ATGAATTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
16 5 0.12
17 32 0.80
18 3 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTAATAT
Found at i:29905718 original size:11 final size:11
Alignment explanation
Indices: 29905704--29905790 Score: 68
Period size: 11 Copynumber: 7.8 Consensus size: 11
29905694 TTATAATAAT
29905704 ATTAAATTTAA
1 ATTAAATTTAA
*
29905715 ATTAAATTCAA
1 ATTAAATTTAA
*
29905726 ATTTAAATTAAA
1 A-TTAAATTTAA
*
29905738 ATTGAATTTAA
1 ATTAAATTTAA
* *
29905749 AATGAATTTAA
1 ATTAAATTTAA
* *
29905760 AATGAATTTAAA
1 ATTAAATTT-AA
*
29905772 ATTAAA-ATAA
1 ATTAAATTTAA
*
29905782 ATTTAATTT
1 ATTAAATTT
29905791 CAAAATGGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
10 7 0.11
11 40 0.63
12 16 0.25
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:29905735 original size:28 final size:27
Alignment explanation
Indices: 29905704--29905787 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
29905694 TTATAATAAT
*
29905704 ATTAAATTTAAATTAAATTCAAATTTAA
1 ATTAAATTTAAATTAAAAT-AAATTTAA
* * *
29905732 ATTAAAATTGAATTTAAAATGAATTTAA
1 ATT-AAATTTAAATTAAAATAAATTTAA
* *
29905760 AATGAATTTAAAATTAAAATAAATTTAA
1 ATTAAATTT-AAATTAAAATAAATTTAA
29905788 TTTCAAAATG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
27 4 0.09
28 28 0.62
29 13 0.29
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (27 bp):
ATTAAATTTAAATTAAAATAAATTTAA
Found at i:29905748 original size:12 final size:11
Alignment explanation
Indices: 29905733--29905773 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
29905723 CAAATTTAAA
29905733 TTAAAATTGAAT
1 TTAAAA-TGAAT
29905745 TTAAAATGAAT
1 TTAAAATGAAT
29905756 TTAAAATGAAT
1 TTAAAATGAAT
29905767 TTAAAAT
1 TTAAAAT
29905774 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 23 0.79
12 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (11 bp):
TTAAAATGAAT
Found at i:29905778 original size:17 final size:17
Alignment explanation
Indices: 29905725--29905787 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 17
29905715 ATTAAATTCA
29905725 AATTT-AAATTAAAATTG
1 AATTTAAAATTAAAA-TG
29905742 AATTTAAAATGAATTTAAAATG
1 AATTT--AA--AA-TTAAAATG
*
29905764 AATTTAAAATTAAAATA
1 AATTTAAAATTAAAATG
29905781 AATTTAA
1 AATTTAA
29905788 TTTCAAAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
17 19 0.49
18 2 0.05
20 3 0.08
22 9 0.23
23 6 0.15
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
AATTTAAAATTAAAATG
Found at i:29905782 original size:22 final size:22
Alignment explanation
Indices: 29905704--29905796 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 22
29905694 TTATAATAAT
* * *
29905704 ATTAAATTTAAATTAAATTCAAA
1 ATTAAA-TTAAAATGAATTTAAA
*
29905727 TTTAAATTAAAATTGAATTTAAA
1 ATTAAATTAAAA-TGAATTTAAA
* *
29905750 ATGAATTTAAAATGAATTTAAA
1 ATTAAATTAAAATGAATTTAAA
* * *
29905772 ATTAAAATAAATTTAATTTCAAA
1 ATTAAATTAAAATGAATTT-AAA
29905795 AT
1 AT
29905797 GGTTTGGGCC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
22 29 0.52
23 27 0.48
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (22 bp):
ATTAAATTAAAATGAATTTAAA
Found at i:29905796 original size:17 final size:17
Alignment explanation
Indices: 29905689--29905760 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
29905679 CTTTTCTTTA
*
29905689 TAAATTTATAAT-AATAT
1 TAAATTTAAAATAAAT-T
*
29905706 TAAATTTAAATTAAATT
1 TAAATTTAAAATAAATT
* * *
29905723 CAAATTTAAATTAAAAT
1 TAAATTTAAAATAAATT
* *
29905740 TGAATTTAAAATGAATT
1 TAAATTTAAAATAAATT
29905757 TAAA
1 TAAA
29905761 ATGAATTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
17 41 0.93
18 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:29906279 original size:91 final size:92
Alignment explanation
Indices: 29906048--29907471 Score: 1545
Period size: 92 Copynumber: 15.5 Consensus size: 92
29906038 ATGTCGGGGT
* *
29906048 TTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTA-ACTCTT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA-ACTT
* **
29906112 CAAGAGGATAGG-GATTGATGTTTGATGC
65 CAAGAGGATAGGAAATTGATG-TTGAAAC
*
29906140 TTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
**
29906205 AAGAGGATAGGAAATT-ATGTTGATGC
66 AAGAGGATAGGAAATTGATGTTGAAAC
** *
29906231 TTCATCTAACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAGCTTTACTACAACTTC
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
* **
29906296 AAGAGGATAGGAAA-TAATGTTGATGC
66 AAGAGGATAGGAAATTGATGTTGAAAC
* *
29906322 TTCATCTAGCTC-T--TACAACTTCAGAGAGATAAAGACTCG-TATCCAACTTTACTACAACTTC
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
**
29906383 AAGAGGATAGGAAA-TGATGTTGATGC
66 AAGAGGATAGGAAATTGATGTTGAAAC
* *
29906409 TTCATCTAGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAGCTTTACTACAACTTC
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
* **
29906474 AAGAGGATAGTAAA-TGATGTTGATGC
66 AAGAGGATAGGAAATTGATGTTGAAAC
* *
29906500 TTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAGCTTTACTACAACTTC
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
*
29906565 AAGAGGATAGGAAA-TGATGTTGATAC
66 AAGAGGATAGGAAATTGATGTTGAAAC
* * * *
29906591 TTAATCTAGCTCTTACTACAACTTCATTCAGAGAGATAAAGACTCGTTATCCAACTTTACTACAA
1 TTCATCTTGCTCTTACTACAA---C-TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAA
**
29906656 CTTCAAGAGGATAGGAAA-TGATGTTGATGC
62 CTTCAAGAGGATAGGAAATTGATGTTGAAAC
* *
29906686 TTCATCTAGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAGCTTTACTACAACTTC
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
*
29906751 AAGAGGATA-GAAAATGATGTTTGAAAC
66 AAGAGGATAGGAAATTGATG-TTGAAAC
* * *
29906778 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAG-GTT-CATTATCCAACTTTACTATAACT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAACT
** *
29906841 TCAAGAGGATAAAAAATTGACGTTTGAAAC
64 TCAAGAGGATAGGAAATTGATG-TTGAAAC
* * * * *
29906871 TTCATCTTGCTCCTACTATAACTTTAGAGAGATAAAG-GTT-CATTATCCAACTTTACTATAACT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAACT
** * **
29906934 TCAAGAATAAAAATAAAATTGACAT-TTGAAAC
64 TCAAG-A-GGATAGGAAATTG--ATGTTGAAAC
* * * *
29906966 TTCATCTTGCTCTTACTATAACTTCAAAGAGATAAAG-GTT-CATTATCCAACTTTACTATAACT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAACT
* * *
29907029 TCAAGAGGATAAG-AATTGACGTTTGAAAA
64 TCAAGAGGATAGGAAATTGATG-TTGAAAC
* * *
29907058 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAG-GTT-CATTATCCAACTTTACTATAACT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAACT
* *
29907121 TCAAGAGGATAAG-AATTGACGTTTGAAAC
64 TCAAGAGGATAGGAAATTGATG-TTGAAAC
* * * * *
29907150 TTTATTTTGCTCTTACTATAACTTCAGAGAGATAAAG-GTT-CATTATCCAACTTTACTATAACT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAACT
* *
29907213 TCAAGAGGATAAG-AATTGACGTTTGAAAC
64 TCAAGAGGATAGGAAATTGATG-TTGAAAC
* * * *
29907242 TTCATCTTACTCTTACTATAACTTCAGAGAGATAAAG-GTT-CATTATCCAACTTTACTATAACT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAACT
29907305 TCAAGAGGAT--GAGAATTGACAT-TTGAAAC
64 TCAAGAGGATAGGA-AATTG--ATGTTGAAAC
* * * *
29907334 TTCATCTTGCTCTTACTAGAACTTCAGAGAGATAATG-GTT-CATTATCCAACTTTACTATAACT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAACT
*
29907397 TCAAGAGGATA-AAAATTGACAT-TTGAAAC
64 TCAAGAGGATAGGAAATTG--ATGTTGAAAC
* *
29907426 TGCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGA-TTCGCTAT
1 TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTT-GCTAT
29907472 TTTTGATCTG
Statistics
Matches: 1230, Mismatches: 72, Indels: 60
0.90 0.05 0.04
Matches are distributed among these distances:
87 58 0.05
88 26 0.02
90 34 0.03
91 311 0.25
92 542 0.44
93 88 0.07
94 5 0.00
95 165 0.13
97 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (92 bp):
TTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
AAGAGGATAGGAAATTGATGTTGAAAC
Found at i:29907022 original size:40 final size:40
Alignment explanation
Indices: 29906978--29907308 Score: 155
Period size: 40 Copynumber: 7.4 Consensus size: 40
29906968 CATCTTGCTC
29906978 TTACTATAACTTCAAAGAGATAAAGGTTCATTATCCAACT
1 TTACTATAACTTCAAAGAGATAAAGGTTCATTATCCAACT
* ***
29907018 TTACTATAACTTC-AAGAGGATAAGAATTGACGTTTGAAAATTCATCTTGCT
1 TTACTATAACTTCAAAGA-GAT-A-AA--G--G-TT---CATT-ATCCAACT
*
29907069 CTTACTATAACTTCAGAGAGATAAAGGTTCATTATCCAACT
1 -TTACTATAACTTCAAAGAGATAAAGGTTCATTATCCAACT
* ****
29907110 TTACTATAACTTC-AAGAGGATAAGAATTGACGTTTGAAACTTTATTTTGCT
1 TTACTATAACTTCAAAGA-GAT-A-AA--G--G-TT----CATTATCCAACT
*
29907161 CTTACTATAACTTCAGAGAGATAAAGGTTCATTATCCAACT
1 -TTACTATAACTTCAAAGAGATAAAGGTTCATTATCCAACT
* **
29907202 TTACTATAACTTC-AAGAGGATAAGAATTGACGTTTGAAACTTCATCTTACT
1 TTACTATAACTTCAAAGA-GAT-A-AA--G--G-TT--CA-TT-ATCCAACT
*
29907253 CTTACTATAACTTCAGAGAGATAAAGGTTCATTATCCAACT
1 -TTACTATAACTTCAAAGAGATAAAGGTTCATTATCCAACT
29907294 TTACTATAACTTCAA
1 TTACTATAACTTCAA
29907309 GAGGATGAGA
Statistics
Matches: 219, Mismatches: 30, Indels: 84
0.66 0.09 0.25
Matches are distributed among these distances:
39 10 0.05
40 62 0.28
41 21 0.10
42 11 0.05
43 1 0.00
44 3 0.01
45 6 0.03
46 6 0.03
47 6 0.03
48 3 0.01
49 1 0.00
50 11 0.05
51 21 0.10
52 48 0.22
53 9 0.04
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (40 bp):
TTACTATAACTTCAAAGAGATAAAGGTTCATTATCCAACT
Found at i:29907717 original size:101 final size:102
Alignment explanation
Indices: 29907527--29907933 Score: 491
Period size: 102 Copynumber: 4.0 Consensus size: 102
29907517 GTGGATTTGA
* * * * * * *
29907527 CCTTCCATGTTTCTAAGGTAC-CAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTTT-TTATCTT
1 CCTTCCATGCTTCTAAGGTACAC-GGTCCGCCATTACGACTTAGACCTTTCCCTTTTAGTATCTT
* * *
29907590 TGTGGTACTGGATCTGCCATTGCGGTCTTATATCTTTC
65 TGCGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTC
* * * * * *
29907628 CCTT-CATGCTTCTAAGGTACACGGTCCGTCATTATGACTTAGAGCTTTCCCTTTTTGTGTTTTT
1 CCTTCCATGCTTCTAAGGTACACGGTCCGCCATTACGACTTAGACCTTTCCCTTTTAGTATCTTT
*
29907692 GCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTC
66 GCGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTC
* * *
29907729 CCTTCCATGCTTCTGAGGTACATGGTCCGCCGTTACGACTTAGACCTTTCCCTTTTAGTATCTTT
1 CCTTCCATGCTTCTAAGGTACACGGTCCGCCATTACGACTTAGACCTTTCCCTTTTAGTATCTTT
* *
29907794 GTGGTACTGGATCCGCCATTGCGGCCTTAGATCCTTTC
66 GCGGTACTGGATCCGCCATTGCGGTCTTAGAT-CTTTC
* * * * *
29907832 CCGT-CGTGTTTCTAAGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCC-TTTACTATCTTT
1 CCTTCCATGCTTCTAAGGTACACGGTCCGCCATTACGACTTAGACCTTTCCCTTTTAGTATCTTT
* * *
29907895 ACGGTACTGGATCCACCATTACGGTCTTAGATCTTTC
66 GCGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTC
29907932 CC
1 CC
29907934 ATCAAACCTG
Statistics
Matches: 265, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
100 49 0.18
101 87 0.33
102 121 0.46
103 8 0.03
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.38
Consensus pattern (102 bp):
CCTTCCATGCTTCTAAGGTACACGGTCCGCCATTACGACTTAGACCTTTCCCTTTTAGTATCTTT
GCGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTC
Done.