Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 91 of 141
Found at i:25671352 original size:28 final size:28
Alignment explanation
Indices: 25671300--25671366 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
25671290 ATCATTTTAT
*
25671300 TTTAAGTTTTACGGTTTAAAATTTAAGA
1 TTTAAGGTTTACGGTTTAAAATTTAAGA
* *** *
25671328 TTTAATGTTTACGGTTTAGGGTTTAAGG
1 TTTAAGGTTTACGGTTTAAAATTTAAGA
25671356 TTTAAGGTTTA
1 TTTAAGGTTTA
25671367 TGGTATAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (28 bp):
TTTAAGGTTTACGGTTTAAAATTTAAGA
Found at i:25671434 original size:20 final size:19
Alignment explanation
Indices: 25671411--25671462 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
25671401 ATGTGTTAGA
25671411 GTTTGAGTTTGGGGTTTAAG
1 GTTT-AGTTTGGGGTTTAAG
* * *
25671431 GTTTAAGTTTAAGGTTTTAGG
1 GTTT-AGTTT-GGGGTTTAAG
25671452 GTTTAGTTTGG
1 GTTTAGTTTGG
25671463 AAATTGAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.54
21 11 0.42
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (19 bp):
GTTTAGTTTGGGGTTTAAG
Found at i:25671926 original size:147 final size:148
Alignment explanation
Indices: 25671738--25672020 Score: 424
Period size: 148 Copynumber: 1.9 Consensus size: 148
25671728 AAAAACGCCG
* * *
25671738 CAAATATTTATTACGAGTTGAGGAAACGGCGTCGTTTCCTATTTTTATTAGTGGCGC-TTAGCTA
1 CAAATATTTAATACGAGTTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGATA
* * * *
25671802 ATATGCCGCAAAAATGTTTAACGTTATCTTATAACAGTGCCGTTTTGTATATGTTATTAGTGGCG
66 AAACGCCGCAAAAATGTTTAACGTTACCTTATAACAGTGCCGTTTTGTACATGTTATTAGTGGCG
25671867 TTTTTAGCGTAAGCGTCA
131 TTTTTAGCGTAAGCGTCA
* * *
25671885 CAAATATTTAATAGGGGTTGAGGTAACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGATA
1 CAAATATTTAATACGAGTTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGATA
* * * * *
25671950 AAACGCCGTAAAAATGTTTAATGTTACCTTATAACGGTGTCGTTTTGTCCATGTTATTAGTGGCG
66 AAACGCCGCAAAAATGTTTAACGTTACCTTATAACAGTGCCGTTTTGTACATGTTATTAGTGGCG
25672015 TTTTTA
131 TTTTTA
25672021 CTCTAAGCGC
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
147 52 0.43
148 68 0.57
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (148 bp):
CAAATATTTAATACGAGTTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGATA
AAACGCCGCAAAAATGTTTAACGTTACCTTATAACAGTGCCGTTTTGTACATGTTATTAGTGGCG
TTTTTAGCGTAAGCGTCA
Found at i:25671994 original size:73 final size:72
Alignment explanation
Indices: 25671762--25671986 Score: 156
Period size: 73 Copynumber: 3.1 Consensus size: 72
25671752 GAGTTGAGGA
* * * * *
25671762 AACGGCGTCGTTTCCTATTTTTATTAGTGGCGC-TTAGCTAATATGCCGCAAAAATGTTTAACGT
1 AACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGATAA-AAGCCGTAAAAATGTTTAATGT
*
25671826 TATCTTAT
65 TACCTTAT
* * ** * * * * *
25671834 AACAGTGCCGTTTTGTATATGTTATTAGTGGCGTTTTTAGCGT--AAG-CGTCACAAATATTTAA
1 AACGGCGCCGTTTCCTAT-TTTTATTAGTGGCG-CTTTAG-ATAAAAGCCGT-AAAAATGTTTAA
***
25671896 TAG--GGGTTGAGGT
62 T-GTTACCTT-A--T
25671909 AACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGATAAAACGCCGTAAAAATGTTTAATGT
1 AACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGATAAAA-GCCGTAAAAATGTTTAATGT
25671974 TACCTTAT
65 TACCTTAT
25671982 AACGG
1 AACGG
25671987 TGTCGTTTTG
Statistics
Matches: 110, Mismatches: 28, Indels: 29
0.66 0.17 0.17
Matches are distributed among these distances:
72 18 0.16
73 37 0.34
74 17 0.15
75 32 0.29
76 6 0.05
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (72 bp):
AACGGCGCCGTTTCCTATTTTTATTAGTGGCGCTTTAGATAAAAGCCGTAAAAATGTTTAATGTT
ACCTTAT
Found at i:25672263 original size:44 final size:44
Alignment explanation
Indices: 25672200--25672291 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
25672190 TCCCCCAAAA
25672200 TCCCATTCTCCCCAAAATCCCTAAAATTTCCCCTAATCCATATT
1 TCCCATTCTCCCCAAAATCCCTAAAATTTCCCCTAATCCATATT
* * *
25672244 TCCCATTC-CCCCTCAAATCCCTACAATTTCCCTTAATCCATATT
1 TCCCATTCTCCCC-AAAATCCCTAAAATTTCCCCTAATCCATATT
25672288 TCCC
1 TCCC
25672292 CAAACCCGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 4 0.09
44 40 0.91
ACGTcount: A:0.26, C:0.41, G:0.00, T:0.33
Consensus pattern (44 bp):
TCCCATTCTCCCCAAAATCCCTAAAATTTCCCCTAATCCATATT
Found at i:25676533 original size:42 final size:42
Alignment explanation
Indices: 25676467--25676663 Score: 243
Period size: 42 Copynumber: 4.7 Consensus size: 42
25676457 TTTGTGAATA
* **
25676467 AAGCGCCGCTAAAGAACAT-TTCTTTAGTAGCGTTTTTTTTG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTG
*
25676508 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTTG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTG
* * * *
25676550 AAGCGCCACTAAAAAACATGAACTTTAGCGGCGTTTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTG
* * * *
25676592 TAGCGCCGTTAAAGAACATGATCTTCAGCGGCGTCTTTTTTAG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTTG
* * *
25676635 AAGCGCCGCTAAAGATCATGTTCGTTAGC
1 AAGCGCCGCTAAAGAACATGATCTTTAGC
25676664 AGCAGTCCAA
Statistics
Matches: 131, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
41 19 0.15
42 83 0.63
43 29 0.22
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTG
Found at i:25676688 original size:41 final size:42
Alignment explanation
Indices: 25676638--25676746 Score: 130
Period size: 41 Copynumber: 2.6 Consensus size: 42
25676628 TTTTTAGAAG
* *
25676638 CGCCGCTAAAGATCATGTTCGTTAGCAGCAGTCCA-AAAAAA
1 CGCCGCTAAAGATCATGTTCTTTAGCAGCACTCCAGAAAAAA
* * ** *
25676679 CGCTGCTAAAGATTATGTTCTTTAGTGGCACTTCAGAAAAAA
1 CGCCGCTAAAGATCATGTTCTTTAGCAGCACTCCAGAAAAAA
* *
25676721 CGCCGCTAAAGAACATGATCTTTAGC
1 CGCCGCTAAAGATCATGTTCTTTAGC
25676747 GGCGTTTATT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
41 28 0.51
42 27 0.49
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (42 bp):
CGCCGCTAAAGATCATGTTCTTTAGCAGCACTCCAGAAAAAA
Found at i:25681637 original size:14 final size:14
Alignment explanation
Indices: 25681614--25681650 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
25681604 TACAATATCT
*
25681614 AAATAATAACAACA
1 AAATAGTAACAACA
25681628 AAATAGTAACAACA
1 AAATAGTAACAACA
*
25681642 TAATAGTAA
1 AAATAGTAA
25681651 AATGGTTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:25682772 original size:21 final size:21
Alignment explanation
Indices: 25682733--25682772 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25682723 AAATAATATA
*
25682733 TATAAAATATTAATAAATAAT
1 TATAAAATATAAATAAATAAT
* *
25682754 TATAAATTATAAATGAATA
1 TATAAAATATAAATAAATA
25682773 TTGAAGAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TATAAAATATAAATAAATAAT
Found at i:25694368 original size:13 final size:13
Alignment explanation
Indices: 25694341--25694407 Score: 82
Period size: 13 Copynumber: 5.1 Consensus size: 13
25694331 AGTTCTTCAT
25694341 TGCTTTTGAAAAAG
1 TGCTTTTG-AAAAG
25694355 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
25694368 TG-TTGTGGAAAAA
1 TGCTT-TTGAAAAG
*
25694381 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
25694394 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
25694407 T
1 T
25694408 TTGGTTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
12 2 0.04
13 33 0.73
14 10 0.22
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:25695244 original size:66 final size:65
Alignment explanation
Indices: 25695151--25695277 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 65
25695141 TCATCAAATG
* * *
25695151 GCGTATTACCTTAAAAGGTAAAGCCACTTTAAAGAAGTGGGCTATCTAAGTTCGTTTTAAAATAA
1 GCGTATTACCTTAAAAGGTAAAACCACTTTAAAAAAGTGGGCTATCTAAGTTCGCTTTAAAATAA
* * *
25695216 GCGTGTTACCTTAAAGAGGTAAAACCACTTTAAAAAAGTGTGTTATCTAAGTTCGCTTTAAA
1 GCGTATTACCTTAAA-AGGTAAAACCACTTTAAAAAAGTGGGCTATCTAAGTTCGCTTTAAA
25695278 GAAGCATGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 14 0.25
66 41 0.75
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (65 bp):
GCGTATTACCTTAAAAGGTAAAACCACTTTAAAAAAGTGGGCTATCTAAGTTCGCTTTAAAATAA
Found at i:25695305 original size:79 final size:79
Alignment explanation
Indices: 25695210--25695359 Score: 212
Period size: 79 Copynumber: 1.9 Consensus size: 79
25695200 GTTCGTTTTA
* *
25695210 AAATAAGCGTGTTACCTTA-AAGAGGTAAAACCACTTTAAAAAAGTGTGTTATCTAAGTTCGCTT
1 AAATAAGCGTGTTACCTTACAA-AGGTAAAACCACTTTAAAAAAGTGTGCTATCTAAGTCCGCTT
25695274 TAAAGAAGCATGTTT
65 TAAAGAAGCATGTTT
* ** * * *
25695289 AAATAAGTGTGTTACCTTACAAAGGTAAAGTCGCTTTAAAGAAGTGTGCTATCTAGGTCCGCTTT
1 AAATAAGCGTGTTACCTTACAAAGGTAAAACCACTTTAAAAAAGTGTGCTATCTAAGTCCGCTTT
25695354 AAAGAA
66 AAAGAA
25695360 ACGAATTACC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 60 0.97
80 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (79 bp):
AAATAAGCGTGTTACCTTACAAAGGTAAAACCACTTTAAAAAAGTGTGCTATCTAAGTCCGCTTT
AAAGAAGCATGTTT
Found at i:25695550 original size:6 final size:6
Alignment explanation
Indices: 25695539--25695563 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25695529 TCTTAATCCT
25695539 CTCCAC CTCCAC CTCCAC CTCCAC C
1 CTCCAC CTCCAC CTCCAC CTCCAC C
25695564 ATCTATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCCAC
Found at i:25705480 original size:256 final size:259
Alignment explanation
Indices: 25705025--25705540 Score: 939
Period size: 256 Copynumber: 2.0 Consensus size: 259
25705015 GCCTAAAGTA
*
25705025 AATGTTATGAGTAGAATTTAAATCAGGAAAATATGATGTATGGGATGAAACGGTGCGTTAGAATT
1 AATGTTATGAGTAGAATTTAAATCAGGAAAATATGATGTATGGGATGAAACAGTGCGTTAGAATT
* *
25705090 AAGGGGTAATGTCTTTAGTGAAATGGTGGCAGCATCAACGGACTAGCTGGCGATTGTAACTAACT
66 AAGGGGTAATGTCTTTAGTGAAATGGTGACAGCATCAACGGACTAGCTGGCGATTATAACTAACT
*
25705155 TTGCCACGTTTACTTTCTCTTTCTTTTAAACTCTAGCTGTAAGGAAAGGTGGTTATCAAAATACA
131 TTGCCACGTCTACTTTCTCTTTCTTTTAAACTCTAGCTGTAAGGAAAGGTGGTTATCAAAATACA
*
25705220 TACACAAAAAAGTTGCAGAAAACTTCTCTCCCTTTCTCCTTTTTTTTC-T-TT-TGTTTTCCTT
196 TACACAAAAAAGTTGCACAAAACTTCTCTCCCTTTCTCCTTTTTTTTCTTCTTCTGTTTTCCTT
*
25705281 AATGTTATGGGTAGAATTTAAATCAGGAAAATATGATGTATGGGATGAAACAGTGCGTTAGAATT
1 AATGTTATGAGTAGAATTTAAATCAGGAAAATATGATGTATGGGATGAAACAGTGCGTTAGAATT
25705346 AAGGGGTAATGTCTTTAGTGAAATGGTGACAGCATCAACGGACTAGCTGGCGATTATAACTAACT
66 AAGGGGTAATGTCTTTAGTGAAATGGTGACAGCATCAACGGACTAGCTGGCGATTATAACTAACT
25705411 TTGCCACGTCTACTTTCTCTTTCTTTTAAACTCTAGCTGTAAGGAAAGGTGGTTATCAAAATACA
131 TTGCCACGTCTACTTTCTCTTTCTTTTAAACTCTAGCTGTAAGGAAAGGTGGTTATCAAAATACA
* *
25705476 TACACAAAAAAGTTGTACTAAACTTCTCTCCCTTTCTCCTTTTTTTTCTTCTTCTGTTTTCCTT
196 TACACAAAAAAGTTGCACAAAACTTCTCTCCCTTTCTCCTTTTTTTTCTTCTTCTGTTTTCCTT
25705540 A
1 A
25705541 TTGCTCTAAC
Statistics
Matches: 249, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
256 235 0.94
257 1 0.00
258 2 0.01
259 11 0.04
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (259 bp):
AATGTTATGAGTAGAATTTAAATCAGGAAAATATGATGTATGGGATGAAACAGTGCGTTAGAATT
AAGGGGTAATGTCTTTAGTGAAATGGTGACAGCATCAACGGACTAGCTGGCGATTATAACTAACT
TTGCCACGTCTACTTTCTCTTTCTTTTAAACTCTAGCTGTAAGGAAAGGTGGTTATCAAAATACA
TACACAAAAAAGTTGCACAAAACTTCTCTCCCTTTCTCCTTTTTTTTCTTCTTCTGTTTTCCTT
Found at i:25706175 original size:13 final size:13
Alignment explanation
Indices: 25706157--25706194 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
25706147 AGTTCTTTAT
25706157 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
25706170 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
25706183 TGCTTTTGAGAA
1 TGCTTTTGAGAA
25706195 ATTTGAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:25707121 original size:61 final size:61
Alignment explanation
Indices: 25707045--25707167 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
25707035 GGCCCTTTTT
25707045 TTCAAAACACCAAAAGTTCGTTCAATCACACTACATAATGATGAATGTGAATGATTGAATA
1 TTCAAAACACCAAAAGTTCGTTCAATCACACTACATAATGATGAATGTGAATGATTGAATA
* * *
25707106 TTCAAAACACTAAAAGTTCGTTCAATCACGCTACGTAATGATGAATGTGAATGATTGAATA
1 TTCAAAACACCAAAAGTTCGTTCAATCACACTACATAATGATGAATGTGAATGATTGAATA
25707167 T
1 T
25707168 CTCTTCTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (61 bp):
TTCAAAACACCAAAAGTTCGTTCAATCACACTACATAATGATGAATGTGAATGATTGAATA
Found at i:25708405 original size:72 final size:72
Alignment explanation
Indices: 25708292--25708460 Score: 245
Period size: 72 Copynumber: 2.4 Consensus size: 72
25708282 AAATCATATT
* * *
25708292 AACAACTATTGATAAAACTA-ATTTAG-TATAAATAAGTAGAACATAAATTCAATATCCAAAGAC
1 AACAACTATTGATAAAACTAGA-TTAGACATAAATAAATAGAACATAAATTCAATATCCAAAAAC
25708355 CAAACATA
65 CAAACATA
*
25708363 AACAACTA-TGAATAAAGCTAGATTAGACATAAATAAATAGAACATAAATTCAATATCCAAAAAC
1 AACAACTATTG-ATAAAACTAGATTAGACATAAATAAATAGAACATAAATTCAATATCCAAAAAC
25708427 CAAACATA
65 CAAACATA
* *
25708435 AATAACTATTGATAAAACTAGTTTAG
1 AACAACTATTGATAAAACTAGATTAG
25708461 CATTGTTGTT
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
70 2 0.02
71 20 0.23
72 63 0.72
73 2 0.02
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.25
Consensus pattern (72 bp):
AACAACTATTGATAAAACTAGATTAGACATAAATAAATAGAACATAAATTCAATATCCAAAAACC
AAACATA
Found at i:25712604 original size:879 final size:878
Alignment explanation
Indices: 25710876--25712632 Score: 3379
Period size: 879 Copynumber: 2.0 Consensus size: 878
25710866 TTAGTGGATA
*
25710876 AAATAAGAGAACAATGATAACAAATCCTGATTAAAAAAATTATTTCCAACGATCAAAGAACTACT
1 AAATAAGAGAACAATGATAACAAATCCTGATTAAAAAAATTATTTCCAACGACCAAAGAACTACT
*
25710941 GCAAGGTTTACTAAAAGAATAATGTATACTATATAAATGTAGCTTAAGGGATAGAAAACATAGGT
66 GCAAGGTTTACTAAAAGAATAATGTATACTATATAAATGTAGCTTAAGGAATAGAAAACATAGGT
*
25711006 GAAGATTATATTAACCATTAGCTTTTGATGTAATTCAATAATCAATTATGTCAGTTTGAATTTTA
131 GAAGATTATATTAACCATTAGCTTTTGATGTAATTCAATAATCAATTATGTCAGTTTAAATTTTA
*
25711071 TTTACAATAAATGTATTTAATTAATTGTCCTAATCCAGTTATGCCGGAATACAAACTTAGAAAAA
196 TTTACAATAAATGTATTTAATTAATTGTCCTAATCCAGTTATGCCAGAATACAAACTTAGAAAAA
* *
25711136 TTTATAATTCTTGTCAATCAAATAACTAACCATAATTGAAAATTACATAGATTACTCATTGAAGG
261 GTTATAAATCTTGTCAATCAAATAACTAACCATAATTGAAAATTACATAGATTACTCATTGAAGG
* *
25711201 AATTCCCATCTTATAAAAATAACATTTAAATAGTATTATTTTAGTAAAATAATTAAAACAATAAA
326 AATTCCCATCATATAAAAATAACATTTAAATAGTATTATTTTAGTAAAATAATTAAAAAAATAAA
25711266 TAATGCAATTCACATGCAAATCACATGAAATTAACTGCAAACTAATTACGAAAGGTCAACCGGTT
391 TAATGCAATTCACATGCAAATCACATGAAATTAACTGCAAACTAATTACGAAAGGTCAACCGGTT
25711331 GATGCATATCATTATACTTTTAGTAATAAATTACCCTGATTTCATGGATTCATTAAATATTTTAA
456 GATGCATATCATTATACTTTTAGTAATAAATTACCCTGATTTCATGGATTCATTAAATATTTTAA
25711396 ATGAGTAAAAGAAAGGGAAAAAATCTTCAAATAGTTAAAAGTCTGTCTACCTTAAGGTAAATTGT
521 ATGAGTAAAAGAAAGGGAAAAAATCTTCAAATAGTTAAAAGTCTGTCTACCTTAAGGTAAATTGT
25711461 AATTAGATGGCCAGACAGTAAAATTTCCTGATTTTGCAAAGAATCTGAGTTATCAGGCGCAGAAG
586 AATTAGATGGCCAGACAGTAAAATTTCCTGATTTTGCAAAGAATCTGAGTTATCAGGCGCAGAAG
25711526 TTTGATCTACAAGCGAGAAAAGTTTCTGCACCATAAAGCTGAAAAGAAGAAGTTAAACAGAAAAC
651 TTTGATCTACAAGCGAGAAAAGTTTCTGCACCATAAAGCTGAAAAGAAGAAGTTAAACAGAAAAC
25711591 AAAAAGGTACAAAGAATGTGTTCATGAAACAACAGTACGTGACAAGTTTACTCTAAAATATTAAG
716 AAAAAGGTACAAAGAATGTGTTCATGAAACAACAGTACGTGACAAGTTTACTCTAAAATATTAAG
25711656 TTGAAGCTAGGGTAAAGAGAACCTCTATAACTTACATAAGCAGATTAAACTTGTCATTGTTGTCA
781 TTGAAGCTAGGGTAAAGAGAACCTCTATAACTTACATAAGCAGATTAAACTTGTCATTGTTGTCA
25711721 TTCAAGTGAACAAATATGTGATTCCTCAGCACT
846 TTCAAGTGAACAAATATGTGATTCCTCAGCACT
25711754 AAATAAGAGAACAATGATAACAAATCCTGATTAAAAAAAATTATTTCCAACGACCAAAGAACTAC
1 AAATAAGAGAACAATGATAACAAATCCTGATT-AAAAAAATTATTTCCAACGACCAAAGAACTAC
25711819 TGCAAGGTTTACTAAAAGAATAATGTATACTATATAAATGTAGCTTAAGGAATAGAAAACATAGG
65 TGCAAGGTTTACTAAAAGAATAATGTATACTATATAAATGTAGCTTAAGGAATAGAAAACATAGG
* *
25711884 TGAAGATTATATTACCCATTAGCTTTTGATGTAATTCAATAATCAATTATGTCGGTTTAAATTTT
130 TGAAGATTATATTAACCATTAGCTTTTGATGTAATTCAATAATCAATTATGTCAGTTTAAATTTT
25711949 ATTTACAATAAATGTATTTAATTAATTGTCCTAATCCAGTTATGCCAGAATACAAACTTAGAAAA
195 ATTTACAATAAATGTATTTAATTAATTGTCCTAATCCAGTTATGCCAGAATACAAACTTAGAAAA
*
25712014 AGTTATAAATCTTGTCAATCAAATAACTAACCATCATTGAAAATTACATAGATTACTCATTGAAG
260 AGTTATAAATCTTGTCAATCAAATAACTAACCATAATTGAAAATTACATAGATTACTCATTGAAG
*
25712079 GAATTCCCATCATATAAAAATAACTTTTAAATAGTATTATTTTAGTAAAATAATTAAAAAAATAA
325 GAATTCCCATCATATAAAAATAACATTTAAATAGTATTATTTTAGTAAAATAATTAAAAAAATAA
25712144 ATAATGCAATTCACATGCAAATCACATGAAATTAACTGCAAACTAATTACGAAAGGTCAACCGGT
390 ATAATGCAATTCACATGCAAATCACATGAAATTAACTGCAAACTAATTACGAAAGGTCAACCGGT
25712209 TGATGCATATCATTATACTTTTAGTAATAAATTACCCTGATTTCATGGATTCATTAAATATTTTA
455 TGATGCATATCATTATACTTTTAGTAATAAATTACCCTGATTTCATGGATTCATTAAATATTTTA
25712274 AATGAGTAAAAGAAAGGGAAAAAATCTTCAAATAGTTAAAAGTCTGTCTACCTTAAGGTAAATTG
520 AATGAGTAAAAGAAAGGGAAAAAATCTTCAAATAGTTAAAAGTCTGTCTACCTTAAGGTAAATTG
25712339 TAATTAGATGGCCAGACAGTAAAATTTCCTGATTTTGCAAAGAATCTGAGTTATCAGGCGCAGAA
585 TAATTAGATGGCCAGACAGTAAAATTTCCTGATTTTGCAAAGAATCTGAGTTATCAGGCGCAGAA
25712404 GTTTGATCTACAAGCGAGAAAAGTTTCTGCACCATAAAGCTGAAAAGAAGAAGTTAAACAGAAAA
650 GTTTGATCTACAAGCGAGAAAAGTTTCTGCACCATAAAGCTGAAAAGAAGAAGTTAAACAGAAAA
* *
25712469 CAAAAAGGTACAAAGAATGTGTTCATGGAGCAACAGTACGTGACAAGTTTACTCTAAAATATTAA
715 CAAAAAGGTACAAAGAATGTGTTCATGAAACAACAGTACGTGACAAGTTTACTCTAAAATATTAA
25712534 GTTGAAGCTAGGGTAAAGAGAACCTCTATAACTTACATAAGCAGATTAAACTTGTCATTGTTGTC
780 GTTGAAGCTAGGGTAAAGAGAACCTCTATAACTTACATAAGCAGATTAAACTTGTCATTGTTGTC
25712599 ATTCAAGTGAACAAATATGTGATTCCTCAGCACT
845 ATTCAAGTGAACAAATATGTGATTCCTCAGCACT
25712633 GATTCAGCAA
Statistics
Matches: 864, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
878 32 0.04
879 832 0.96
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (878 bp):
AAATAAGAGAACAATGATAACAAATCCTGATTAAAAAAATTATTTCCAACGACCAAAGAACTACT
GCAAGGTTTACTAAAAGAATAATGTATACTATATAAATGTAGCTTAAGGAATAGAAAACATAGGT
GAAGATTATATTAACCATTAGCTTTTGATGTAATTCAATAATCAATTATGTCAGTTTAAATTTTA
TTTACAATAAATGTATTTAATTAATTGTCCTAATCCAGTTATGCCAGAATACAAACTTAGAAAAA
GTTATAAATCTTGTCAATCAAATAACTAACCATAATTGAAAATTACATAGATTACTCATTGAAGG
AATTCCCATCATATAAAAATAACATTTAAATAGTATTATTTTAGTAAAATAATTAAAAAAATAAA
TAATGCAATTCACATGCAAATCACATGAAATTAACTGCAAACTAATTACGAAAGGTCAACCGGTT
GATGCATATCATTATACTTTTAGTAATAAATTACCCTGATTTCATGGATTCATTAAATATTTTAA
ATGAGTAAAAGAAAGGGAAAAAATCTTCAAATAGTTAAAAGTCTGTCTACCTTAAGGTAAATTGT
AATTAGATGGCCAGACAGTAAAATTTCCTGATTTTGCAAAGAATCTGAGTTATCAGGCGCAGAAG
TTTGATCTACAAGCGAGAAAAGTTTCTGCACCATAAAGCTGAAAAGAAGAAGTTAAACAGAAAAC
AAAAAGGTACAAAGAATGTGTTCATGAAACAACAGTACGTGACAAGTTTACTCTAAAATATTAAG
TTGAAGCTAGGGTAAAGAGAACCTCTATAACTTACATAAGCAGATTAAACTTGTCATTGTTGTCA
TTCAAGTGAACAAATATGTGATTCCTCAGCACT
Found at i:25714533 original size:21 final size:21
Alignment explanation
Indices: 25714508--25714551 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
25714498 ACCATCTCGG
25714508 TTGCAAGACCATAAGATTCCC
1 TTGCAAGACCATAAGATTCCC
25714529 TTGCAAGACCATAAGATTCCC
1 TTGCAAGACCATAAGATTCCC
25714550 TT
1 TT
25714552 CCATTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (21 bp):
TTGCAAGACCATAAGATTCCC
Found at i:25718609 original size:39 final size:39
Alignment explanation
Indices: 25718566--25718640 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
25718556 CAATATCCCC
25718566 TGCATAATTACTATCAATATACCCAAAAAAATTAACCCA
1 TGCATAATTACTATCAATATACCCAAAAAAATTAACCCA
* *
25718605 TGCATAATTACTATCAGTATACTCAAAAAAATTAAC
1 TGCATAATTACTATCAATATACCCAAAAAAATTAAC
25718641 ATCAATATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (39 bp):
TGCATAATTACTATCAATATACCCAAAAAAATTAACCCA
Found at i:25720760 original size:21 final size:21
Alignment explanation
Indices: 25720736--25720775 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25720726 AAAACCCTAG
*
25720736 AAAAAGTACAGAAAACTAAGA
1 AAAAACTACAGAAAACTAAGA
* *
25720757 AAAACCTAGAGAAAACTAA
1 AAAAACTACAGAAAACTAA
25720776 ACCTAAAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAACTACAGAAAACTAAGA
Found at i:25721497 original size:3 final size:3
Alignment explanation
Indices: 25721489--25721534 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
25721479 TATATCTCAT
25721489 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
25721535 AAAATTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:25724168 original size:31 final size:30
Alignment explanation
Indices: 25724133--25724203 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
25724123 GCCCACAGTT
*
25724133 CACACACCCGTGTGTCATGCCCGTGTGGGCC
1 CACACACCCATGTGTCATGCCCGTGT-GGCC
* * *
25724164 CACACGCCAATGTGTCATTCCCGTGTGGCC
1 CACACACCCATGTGTCATGCCCGTGTGGCC
*
25724194 TACACACCCA
1 CACACACCCA
25724204 AATTGACCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.18, C:0.39, G:0.23, T:0.20
Consensus pattern (30 bp):
CACACACCCATGTGTCATGCCCGTGTGGCC
Found at i:25726835 original size:23 final size:21
Alignment explanation
Indices: 25726808--25726859 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
25726798 TAACTTGATT
25726808 TTGATATTAATTAAATAAATATA
1 TTGATATTAATT--ATAAATATA
*
25726831 TTGAT-TGTAATTATAATTATA
1 TTGATAT-TAATTATAAATATA
*
25726852 TTTATATT
1 TTGATATT
25726860 TATCTATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 13 0.52
22 2 0.08
23 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
TTGATATTAATTATAAATATA
Found at i:25727764 original size:15 final size:14
Alignment explanation
Indices: 25727744--25727773 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
25727734 ACTCAAAACT
25727744 AAATTAAACACTAAA
1 AAATTAAACAC-AAA
25727759 AAATTAAACACAAA
1 AAATTAAACACAAA
25727773 A
1 A
25727774 TTATGTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATTAAACACAAA
Found at i:25730443 original size:31 final size:31
Alignment explanation
Indices: 25730396--25730456 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
25730386 AAAGAAGGGT
25730396 AAAAATAACAGTGCAAAAACAATTTGA-TTTTC
1 AAAAATAACAGTGC-AAAAC-ATTTGACTTTTC
25730428 AAAAATAA-AGTGCAAAACATTTGACTTTT
1 AAAAATAACAGTGCAAAACATTTGACTTTT
25730457 TATACTGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 6 0.21
30 9 0.32
31 5 0.18
32 8 0.29
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (31 bp):
AAAAATAACAGTGCAAAACATTTGACTTTTC
Found at i:25735439 original size:5 final size:5
Alignment explanation
Indices: 25735429--25735454 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25735419 TGAGCATTCG
25735429 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
25735455 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:25736427 original size:30 final size:30
Alignment explanation
Indices: 25736367--25736427 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
25736357 GTTGGGAGGG
**
25736367 GAGTAAAAGTTTTAAAGGGAAAGTGGAAAT
1 GAGTAAAAGTTTTAAAGGGAAAGTAAAAAT
*
25736397 GAGTAAAAGTTTT-GAGGGAAAAGTAAAAAT
1 GAGTAAAAGTTTTAAAGGG-AAAGTAAAAAT
25736427 G
1 G
25736428 TTTGGGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.23
Consensus pattern (30 bp):
GAGTAAAAGTTTTAAAGGGAAAGTAAAAAT
Found at i:25736568 original size:9 final size:9
Alignment explanation
Indices: 25736551--25736581 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
25736541 TCGAGTTGAT
25736551 TCGAATAAC
1 TCGAATAAC
*
25736560 TCGATTAAC
1 TCGAATAAC
25736569 TCGAATAAC
1 TCGAATAAC
25736578 TCGA
1 TCGA
25736582 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:25737472 original size:16 final size:18
Alignment explanation
Indices: 25737451--25737491 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
25737441 CGAAATTATC
25737451 AACAAAAT-TAAAAAG-A
1 AACAAAATATAAAAAGCA
*
25737467 AACAAAATATCAAAAGCA
1 AACAAAATATAAAAAGCA
25737485 AACAAAA
1 AACAAAA
25737492 AATGACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.73, C:0.12, G:0.05, T:0.10
Consensus pattern (18 bp):
AACAAAATATAAAAAGCA
Found at i:25740238 original size:106 final size:106
Alignment explanation
Indices: 25740065--25740274 Score: 366
Period size: 106 Copynumber: 2.0 Consensus size: 106
25740055 CTTTAAAATT
* * * * *
25740065 TTAAGAGGATATTTGGCTATTTGGTTGAACGAGAAATCGAAATCCAGCACGTTAGGGCATGTTTT
1 TTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
25740130 CTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAACC
66 CTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAACC
25740171 TTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
*
25740236 CTCGAATTTCCAAACGCAAAATATTGTCTTACTTTGAAA
66 CTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAA
25740275 TTTTCATTTT
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 98 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (106 bp):
TTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAACC
Found at i:25742399 original size:45 final size:45
Alignment explanation
Indices: 25742269--25742573 Score: 323
Period size: 45 Copynumber: 6.8 Consensus size: 45
25742259 CCAATCTCTA
* * *
25742269 ATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACAATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
* * * * *** * *
25742314 ACCTACTCCACTACTGCT-CAGGGAGACAAGATATGCTATCTTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
*
25742358 ATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATCTTC-
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
*
25742402 ACTCTACTTCACTGCCAATACAGGAAGACAAGA-CTTGCTATCTTCG
1 A-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTTCG
** * *
25742448 ATCTACTTTACTGCCAATACAGGAAGATAAGATCTGTTATCTTC-
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
* * * *
25742492 AGTCTACTTCGCTACCAATACAGAAAAACAAGA-CTTGCTATCTACG
1 A-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTTCG
* *
25742538 ATCTACTTTGCTGCCAATACAGGAAGATAAGATCTG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
25742574 TTGTTTTTAG
Statistics
Matches: 211, Mismatches: 40, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
44 37 0.18
45 170 0.81
46 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (45 bp):
ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
Found at i:25742466 original size:90 final size:90
Alignment explanation
Indices: 25742269--25742573 Score: 418
Period size: 90 Copynumber: 3.4 Consensus size: 90
25742259 CCAATCTCTA
* * * * ***
25742269 ATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACAATCTTCGAC-CTACTCCACTACTGCT-
1 ATCTACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATCTTC-ACTCTACTTCACTACCAATA
*
25742332 CAGGGAGACAAGA-TATGCTATCTTCG
65 CAGGAAGACAAGACT-TGCTATCTTCG
* *
25742358 ATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATCTTCACTCTACTTCACTGCCAATAC
1 ATCTACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATCTTCACTCTACTTCACTACCAATAC
25742423 AGGAAGACAAGACTTGCTATCTTCG
66 AGGAAGACAAGACTTGCTATCTTCG
* * * *
25742448 ATCTACTTTACTGCCAATACAGGAAGATAAGATCTGTTATCTTCAGTCTACTTCGCTACCAATAC
1 ATCTACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATCTTCACTCTACTTCACTACCAATAC
* * *
25742513 AGAAAAACAAGACTTGCTATCTACG
66 AGGAAGACAAGACTTGCTATCTTCG
25742538 ATCTACTTTGCTGCCAATACAGGAAGATAAGATCTG
1 ATCTACTTTGCTGCCAATACAGGAAGATAAGATCTG
25742574 TTGTTTTTAG
Statistics
Matches: 193, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
88 2 0.01
89 51 0.26
90 139 0.72
91 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (90 bp):
ATCTACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATCTTCACTCTACTTCACTACCAATAC
AGGAAGACAAGACTTGCTATCTTCG
Found at i:25744610 original size:9 final size:9
Alignment explanation
Indices: 25744593--25744659 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
25744583 GTAGTGATTC
*
25744593 AATTTGGTT
1 AATTCGGTT
25744602 AATTCGGTT
1 AATTCGGTT
*
25744611 AATTCGGGT
1 AATTCGGTT
25744620 AATTCGGTT
1 AATTCGGTT
*
25744629 AATTCGGGT
1 AATTCGGTT
25744638 AATTCGAG-T
1 AATTCG-GTT
25744647 AATTCGGTT
1 AATTCGGTT
25744656 AATT
1 AATT
25744660 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
8 1 0.02
9 50 0.96
10 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:25744628 original size:27 final size:27
Alignment explanation
Indices: 25744593--25744659 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
25744583 GTAGTGATTC
* * *
25744593 AATTTGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGTAATTCGAGT
25744620 AATTCGGTTAATTCGGGTAATTCGAGT
1 AATTCGGTTAATTCGGGTAATTCGAGT
25744647 AATTCGGTTAATT
1 AATTCGGTTAATT
25744660 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATTCGAGT
Found at i:25748780 original size:16 final size:17
Alignment explanation
Indices: 25748735--25748784 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
25748725 AATAAACACC
*
25748735 AAAAAAAATTT-AAAAT
1 AAAAAAATTTTAAAAAT
25748751 AAAAAAGTATTTTAAAAAT
1 AAAAAA--ATTTTAAAAAT
25748770 -AAAAAATTTTAAAAA
1 AAAAAAATTTTAAAAA
25748785 AAGTATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 16 0.53
18 9 0.30
19 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAAAAATTTTAAAAAT
Found at i:25748813 original size:30 final size:29
Alignment explanation
Indices: 25748736--25748815 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 29
25748726 ATAAACACCA
*
25748736 AAAAAAATTTAAAAT-AAAAAAGTATTTT
1 AAAAATATTTAAAATAAAAAAAGTATTTT
*
25748764 AAAAATA--AAAAATTTTAAAAAAAGTATTTT
1 AAAAATATTTAAAA---TAAAAAAAGTATTTT
25748794 AAAAATATTTTAAAATAAAAAA
1 AAAAATA-TTTAAAATAAAAAA
25748816 TAAAAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
26 4 0.10
28 6 0.14
29 1 0.02
30 27 0.64
33 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAATATTTAAAATAAAAAAAGTATTTT
Found at i:25748814 original size:16 final size:16
Alignment explanation
Indices: 25748743--25748797 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 16
25748733 CCAAAAAAAA
25748743 TTTAAAATAAAAAAGTAT
1 TTTAAAAT-AAAAA-TAT
25748761 TTTAAAAATAAAAA-AT
1 TTT-AAAATAAAAATAT
*
25748777 TTT-AAA-AAAAGTAT
1 TTTAAAATAAAAATAT
25748791 TTTAAAA
1 TTTAAAA
25748798 ATATTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
13 4 0.12
14 8 0.24
15 3 0.09
16 5 0.15
18 8 0.24
19 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
TTTAAAATAAAAATAT
Found at i:25748833 original size:41 final size:42
Alignment explanation
Indices: 25748752--25748834 Score: 100
Period size: 40 Copynumber: 2.0 Consensus size: 42
25748742 ATTTAAAATA
** *
25748752 AAAAAGTATTTTAAAAATAAAAAATTTTAAAAAAAGTATTTT
1 AAAAAGTATTTTAAAAATAAAAAATTAAAAAAAAAATATTTT
*
25748794 AAAAA-TATTTT-AAAATAAAAAA-TAAAAAATAAATATATTT
1 AAAAAGTATTTTAAAAATAAAAAATTAAAAAAAAAATAT-TTT
25748834 A
1 A
25748835 TTATATTCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 10 0.28
40 15 0.42
41 6 0.17
42 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (42 bp):
AAAAAGTATTTTAAAAATAAAAAATTAAAAAAAAAATATTTT
Found at i:25760613 original size:24 final size:25
Alignment explanation
Indices: 25760572--25760618 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
25760562 AATCCATTTA
* *
25760572 TTTTTTATCTTGAGAATTAAATTCT
1 TTTTTTATCTTAAAAATTAAATTCT
25760597 TTTTTTAT-TTAAAAATTAAATT
1 TTTTTTATCTTAAAAATTAAATT
25760619 TCAATTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTTTTATCTTAAAAATTAAATTCT
Found at i:25765408 original size:16 final size:16
Alignment explanation
Indices: 25765387--25765431 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
25765377 CTTCCGTGTT
25765387 TTTTTTTTTTTGCTTA
1 TTTTTTTTTTTGCTTA
* * *
25765403 TTTTTTGTTTGGTTTA
1 TTTTTTTTTTTGCTTA
25765419 TTTTTCTTTTTTG
1 TTTTT-TTTTTTG
25765432 TTCTGTTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.04, C:0.04, G:0.11, T:0.80
Consensus pattern (16 bp):
TTTTTTTTTTTGCTTA
Found at i:25777431 original size:7 final size:7
Alignment explanation
Indices: 25777419--25777444 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25777409 ATATGTTTCT
25777419 TTATTTA
1 TTATTTA
25777426 TTATTTA
1 TTATTTA
25777433 TTATTTA
1 TTATTTA
25777440 TTATT
1 TTATT
25777445 CTCTTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:25778179 original size:9 final size:9
Alignment explanation
Indices: 25778165--25778189 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25778155 ATAATAAAAA
25778165 ATATTTTTT
1 ATATTTTTT
25778174 ATATTTTTT
1 ATATTTTTT
25778183 ATATTTT
1 ATATTTT
25778190 AAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATATTTTTT
Found at i:25778218 original size:12 final size:11
Alignment explanation
Indices: 25778186--25778215 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
25778176 ATTTTTTATA
25778186 TTTT-AAAATT
1 TTTTAAAAATT
25778196 TTTTAAAAATT
1 TTTTAAAAATT
25778207 TTTTAAAAA
1 TTTTAAAAA
25778216 ATTGGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTAAAAATT
Found at i:25782286 original size:22 final size:23
Alignment explanation
Indices: 25782235--25782287 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
25782225 ATAAGCTATG
*
25782235 ATAAAAAAAATTATAATATTTTT
1 ATAAAATAAATTATAATATTTTT
*
25782258 -TATAAATAAA-TATATTATTTTT
1 ATA-AAATAAATTATAATATTTTT
25782280 ATAAAATA
1 ATAAAATA
25782288 TAACATGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATAAAATAAATTATAATATTTTT
Found at i:25783813 original size:17 final size:17
Alignment explanation
Indices: 25783783--25783814 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25783773 AAAAAATTTA
25783783 AATACTAAATATATATT
1 AATACTAAATATATATT
25783800 AATA-TAAATA-ATATT
1 AATACTAAATATATATT
25783815 TTAAATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 6 0.40
17 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATACTAAATATATATT
Found at i:25783818 original size:17 final size:17
Alignment explanation
Indices: 25783763--25783818 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
25783753 TTAAATTATT
25783763 TATTTT-ATATAAA-AA
1 TATTTTAATATAAATAA
*
25783778 -ATTTAAATACTAAAT-A
1 TATTTTAATA-TAAATAA
*
25783794 TATATTAATATAAATAA
1 TATTTTAATATAAATAA
25783811 TATTTTAA
1 TATTTTAA
25783819 ATAGATATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 4 0.12
15 3 0.09
16 10 0.31
17 15 0.47
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTTTAATATAAATAA
Found at i:25784405 original size:22 final size:22
Alignment explanation
Indices: 25784380--25784421 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25784370 TTCTAATTCT
*
25784380 AATATATTT-AAAGAAATATATA
1 AATAT-TTTCAAAAAAATATATA
25784402 AATATTTTCAAAAAAATATA
1 AATATTTTCAAAAAAATATA
25784422 ATAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTTTCAAAAAAATATATA
Found at i:25784427 original size:22 final size:21
Alignment explanation
Indices: 25784379--25784432 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
25784369 ATTCTAATTC
*
25784379 TAATATATTTAAAGAAATATA
1 TAATATATTTAAAAAAATATA
25784400 TAA-ATATTTTCAAAAAAATATAA
1 TAATATA-TTT-AAAAAAATAT-A
*
25784423 TAATAAATTT
1 TAATATATTT
25784433 TAATATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 6 0.22
22 9 0.33
23 7 0.26
24 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATATATTTAAAAAAATATA
Found at i:25784441 original size:6 final size:6
Alignment explanation
Indices: 25784432--25784471 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
25784422 ATAATAAATT
25784432 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
25784472 ATAAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:25799003 original size:15 final size:15
Alignment explanation
Indices: 25798982--25799020 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
25798972 GATCATCGTT
*
25798982 TATTTATAAT-TATT
1 TATTTATAATCTATC
25798996 TAATTTATAATCTATC
1 T-ATTTATAATCTATC
25799012 TATTTATAA
1 TATTTATAA
25799021 ACATTTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.77
16 4 0.18
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTATAATCTATC
Found at i:25805755 original size:14 final size:14
Alignment explanation
Indices: 25805736--25805765 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25805726 TATTTCACTG
25805736 AAAATAATTTTTAA
1 AAAATAATTTTTAA
*
25805750 AAAATATTTTTTAA
1 AAAATAATTTTTAA
25805764 AA
1 AA
25805766 TTGATTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:25806343 original size:13 final size:13
Alignment explanation
Indices: 25806322--25806360 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
25806312 ATGTGAAGAA
25806322 TATTATTTAAAAT
1 TATTATTTAAAAT
*
25806335 TATTTTTTAAAATT
1 TATTATTTAAAA-T
25806349 TATTA-TTAAAAT
1 TATTATTTAAAAT
25806361 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 1 0.04
13 17 0.74
14 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:25806380 original size:18 final size:18
Alignment explanation
Indices: 25806342--25806377 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25806332 AATTATTTTT
*
25806342 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
25806360 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
25806378 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:25813730 original size:15 final size:17
Alignment explanation
Indices: 25813710--25813741 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
25813700 TTATATATTA
25813710 TATTTT-TAA-ATTTTT
1 TATTTTCTAATATTTTT
25813725 TATTTTCTAATATTTTT
1 TATTTTCTAATATTTTT
25813742 AATGGTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTTCTAATATTTTT
Found at i:25830069 original size:14 final size:15
Alignment explanation
Indices: 25830050--25830078 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25830040 CAAGCATTCA
25830050 TTATG-TTTTCTTTG
1 TTATGTTTTTCTTTG
25830064 TTATGTTTTTCTTTG
1 TTATGTTTTTCTTTG
25830079 GACTTAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.72
Consensus pattern (15 bp):
TTATGTTTTTCTTTG
Found at i:25831099 original size:13 final size:13
Alignment explanation
Indices: 25831083--25831148 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
25831073 TTTAAACCAA
25831083 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
25831096 ACTTCTCAAAAAC
1 ACTTTTCAAAAGC
* *
25831109 ATTTTTTC-ACAGC
1 A-CTTTTCAAAAGC
*
25831122 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
25831135 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25831148 A
1 A
25831149 ATGAAGAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 5 0.12
13 32 0.78
14 4 0.10
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:25831148 original size:26 final size:26
Alignment explanation
Indices: 25831083--25831148 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
25831073 TTTAAACCAA
25831083 ACTTTTCAAAAGCACTTCTCAAAAAC
1 ACTTTTCAAAAGCACTTCTCAAAAAC
* * *
25831109 ATTTTTTC-ACAGCACTTTTCAAAAAC
1 A-CTTTTCAAAAGCACTTCTCAAAAAC
25831135 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
25831149 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 5 0.15
26 23 0.70
27 5 0.15
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAAC
Found at i:25843488 original size:18 final size:18
Alignment explanation
Indices: 25843444--25843480 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25843434 AAACAATTTA
25843444 AAATATAAATTTATTAAT
1 AAATATAAATTTATTAAT
25843462 AAATATAAATTTATTAAT
1 AAATATAAATTTATTAAT
25843480 A
1 A
25843481 TATGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATAAATTTATTAAT
Found at i:25845722 original size:12 final size:12
Alignment explanation
Indices: 25845705--25845740 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
25845695 TGGATATGAG
25845705 GAGGAAGAAGAA
1 GAGGAAGAAGAA
*
25845717 GAGGAAGAGGAA
1 GAGGAAGAAGAA
25845729 GAGGAAGAAGAA
1 GAGGAAGAAGAA
25845741 ACCAGGCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (12 bp):
GAGGAAGAAGAA
Found at i:25845723 original size:6 final size:6
Alignment explanation
Indices: 25845705--25845736 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25845695 TGGATATGAG
*
25845705 GAGGAA GAAGAA GAGGAA GAGGAA GAGGAA GA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GA
25845737 AGAAACCAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:25847558 original size:36 final size:36
Alignment explanation
Indices: 25847514--25847764 Score: 272
Period size: 36 Copynumber: 7.0 Consensus size: 36
25847504 GAAAGCAGCA
*
25847514 TGGTGTTAGCAATGGTATGGGGCCAGGCCGGCCTGG
1 TGGTGTTAGCAATGGTATGGGGCCTGGCCGGCCTGG
*
25847550 TGGTGTTAGCAATGGTATGGGGCCTGGCCAGCCTGG
1 TGGTGTTAGCAATGGTATGGGGCCTGGCCGGCCTGG
*
25847586 TGGTGCTAGCAATGGTATGGGGCCTGGCCGGCCTGG
1 TGGTGTTAGCAATGGTATGGGGCCTGGCCGGCCTGG
* ** * *
25847622 TGGTGCTAGCAATGGTACCGGGCCTAGCCGACCTGG
1 TGGTGTTAGCAATGGTATGGGGCCTGGCCGGCCTGG
* *
25847658 TGGTGTAAGCAATGGTACT-GGGCCTGGTCGGCCTGG
1 TGGTGTTAGCAATGGTA-TGGGGCCTGGCCGGCCTGG
* * * * * *
25847694 TGGTGCTAACAGTGGT-TCTGGTCCTGGCCGGGCTGG
1 TGGTGTTAGCAATGGTAT-GGGGCCTGGCCGGCCTGG
* * *** *
25847730 TGCTGCTAGCAATGGTGCAGGGTCTGGCCGGCCTG
1 TGGTGTTAGCAATGGTATGGGGCCTGGCCGGCCTG
25847765 TTGGCTCAAG
Statistics
Matches: 182, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
34 1 0.01
36 181 0.99
ACGTcount: A:0.13, C:0.22, G:0.41, T:0.24
Consensus pattern (36 bp):
TGGTGTTAGCAATGGTATGGGGCCTGGCCGGCCTGG
Found at i:25850930 original size:41 final size:41
Alignment explanation
Indices: 25850777--25850918 Score: 198
Period size: 41 Copynumber: 3.5 Consensus size: 41
25850767 ACAGATTCAA
** *
25850777 CGGCACTT-AGCCTGCTAGACTTATAGCCTGATTTAGATCAC
1 CGGCA-TTAAGCCTGCTAGGTTTATAACCTGATTTAGATCAC
** *
25850818 CGGCACGAAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCATTAAGCCTGCTAGGTTTATAACCTGATTTAGATCAC
25850859 CGGCATGT-AGCCTGCTAGGTTTATAACCTGATTTAGATCAC
1 CGGCAT-TAAGCCTGCTAGGTTTATAACCTGATTTAGATCAC
25850900 CGGCATTAAGCCTGCTAGG
1 CGGCATTAAGCCTGCTAGG
25850919 CGCTTAGCCT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
40 1 0.01
41 88 0.99
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (41 bp):
CGGCATTAAGCCTGCTAGGTTTATAACCTGATTTAGATCAC
Found at i:25851694 original size:12 final size:12
Alignment explanation
Indices: 25851649--25851699 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
25851639 AATAACTTTT
**
25851649 ATATATATATGT
1 ATATATATATAC
*
25851661 ATATATATTCTAGC
1 ATATATA-TATA-C
25851675 AT-TATATATAC
1 ATATATATATAC
25851686 ATATATATATAC
1 ATATATATATAC
25851698 AT
1 AT
25851700 GCTTATTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 3 0.09
12 21 0.66
13 6 0.19
14 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (12 bp):
ATATATATATAC
Found at i:25852873 original size:17 final size:17
Alignment explanation
Indices: 25852840--25852875 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25852830 GTTGAGTTCT
**
25852840 AATAGCTATAGGTTTCA
1 AATAGCTATAGAATTCA
25852857 AATAGCTATAGAATTCA
1 AATAGCTATAGAATTCA
25852874 AA
1 AA
25852876 AATTGGAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
AATAGCTATAGAATTCA
Found at i:25854167 original size:76 final size:75
Alignment explanation
Indices: 25854060--25854207 Score: 183
Period size: 76 Copynumber: 2.0 Consensus size: 75
25854050 TGGCTCTTAG
* * *
25854060 GAGCTTACTGATTAATGGCTTTTCGGAGCTTCCCTATATTGGCTCACT-TGAACTTCCCGATTAA
1 GAGCTTACTGATTAATGACTTCTCGGAGCTTCCCGATATTGGCTC-CTATGAACTTCCCG-TTAA
25854124 AGGCTCTTTCAT
64 AGGCTCTTTCAT
* * * * *
25854136 GAGCTTCCTGATTAATGAC-TCTCTGGAGCTTCCCGATTTTGGCTCGTATGAGCTTCCCGTTAAT
1 GAGCTTACTGATTAATGACTTCTC-GGAGCTTCCCGATATTGGCTCCTATGAACTTCCCGTTAAA
25854200 GGCTCTTT
65 GGCTCTTT
25854208 AGAGTTTTCC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
75 16 0.26
76 46 0.74
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.37
Consensus pattern (75 bp):
GAGCTTACTGATTAATGACTTCTCGGAGCTTCCCGATATTGGCTCCTATGAACTTCCCGTTAAAG
GCTCTTTCAT
Found at i:25854173 original size:25 final size:25
Alignment explanation
Indices: 25853986--25854206 Score: 145
Period size: 25 Copynumber: 8.9 Consensus size: 25
25853976 TGGTTCTTGC
* *
25853986 GAGCTTCCCGATT-ATGACTCTTAT
1 GAGCTTCCCGATTAATGGCTCTTAG
* * *
25854010 GAGCTT-CCTAATAATTGGCTCTTCG
1 GAGCTTCCCGATTAA-TGGCTCTTAG
25854035 GAGCTTCCCGA-TAACTGGCTCTTAG
1 GAGCTTCCCGATTAA-TGGCTCTTAG
* * * *
25854060 GAGCTTACTGATTAATGGCTTTTCG
1 GAGCTTCCCGATTAATGGCTCTTAG
* *
25854085 GAGCTTCCCTA-TATTGGCTCACTT--
1 GAGCTTCCCGATTAATGGCT--CTTAG
* * *
25854109 GAACTTCCCGATTAAAGGCTCTTTCAT
1 GAGCTTCCCGATTAATGGCTC-TT-AG
* *
25854136 GAGCTTCCTGATTAATGACTCTCT-G
1 GAGCTTCCCGATTAATGGCTCT-TAG
* * *
25854161 GAGCTTCCCGATT-TTGGCTCGTAT
1 GAGCTTCCCGATTAATGGCTCTTAG
25854185 GAGCTTCCCG-TTAATGGCTCTT
1 GAGCTTCCCGATTAATGGCTCTT
25854207 TAGAGTTTTC
Statistics
Matches: 150, Mismatches: 33, Indels: 28
0.71 0.16 0.13
Matches are distributed among these distances:
23 8 0.05
24 47 0.31
25 68 0.45
26 9 0.06
27 18 0.12
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTTAG
Found at i:25856342 original size:42 final size:41
Alignment explanation
Indices: 25856295--25856429 Score: 151
Period size: 41 Copynumber: 3.5 Consensus size: 41
25856285 ATTCATTGGT
25856295 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATGTG-AAGG
* * *
25856337 GGTTGCTAAGTGCTGATTCC-CCG---ACT-CAT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATGTGAAGG
* *
25856370 GGTTGCAAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATGTGAAGG
*
25856411 AGTTGCTAAGTGCTGATTC
1 GGTTGCTAAGTGCTGATTC
25856430 TCCCGAGGGG
Statistics
Matches: 75, Mismatches: 10, Indels: 17
0.74 0.10 0.17
Matches are distributed among these distances:
33 20 0.27
34 3 0.04
36 2 0.03
37 3 0.04
38 4 0.05
39 2 0.03
41 21 0.28
42 20 0.27
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATATTAAATGTGAAGG
Found at i:25856381 original size:75 final size:74
Alignment explanation
Indices: 25856258--25856435 Score: 302
Period size: 75 Copynumber: 2.4 Consensus size: 74
25856248 TGATTCCCCT
* *
25856258 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCAAAGTGCTGATTCCACCGTATA
25856323 TTAAATGTG
66 TTAAATGTG
25856332 AAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCAAAGTGCTGATTCCACCGTAT
1 -AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCAAAGTGCTGATTCCACCGTAT
*
25856397 CTTAAATGTG
65 ATTAAATGTG
*
25856407 AAGGAGTTGCTAAGTGCTGATTCTCCCGA
1 AAGGGGTTGCTAAGTGCTGATTC-CCCGA
25856436 GGGGTTGCTA
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
74 22 0.22
75 76 0.78
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (74 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCAAAGTGCTGATTCCACCGTATA
TTAAATGTG
Found at i:25856459 original size:101 final size:101
Alignment explanation
Indices: 25856334--25856536 Score: 338
Period size: 101 Copynumber: 2.0 Consensus size: 101
25856324 TAAATGTGAA
* *
25856334 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCAAAGTGCTGATTCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCAAAGTGCTGATCCCACCGTATCT
25856399 TAAATGTG-AAG-GAGTTGCTAAGTGCTGATTCTCCCG
66 TAAATGTGAAAGTG-GTTGCTAAGTGCTGATTC-CCCG
* *
25856435 AGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCAAAGTGCTGATCCCACCGTATCT
25856500 TAAATGTGAAAGTGGTTGCTAAGTGCTGATTCCCCG
66 TAAATGTGAAAGTGGTTGCTAAGTGCTGATTCCCCG
25856536 A
1 A
25856537 CTCATTGGTG
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
101 74 0.77
102 21 0.22
103 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCAAAGTGCTGATCCCACCGTATCT
TAAATGTGAAAGTGGTTGCTAAGTGCTGATTCCCCG
Found at i:25856530 original size:176 final size:176
Alignment explanation
Indices: 25856236--25856569 Score: 580
Period size: 176 Copynumber: 1.9 Consensus size: 176
25856226 TATAAAGGGG
*
25856236 GTTGCTAAGTGCTGATTCCCCTAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
1 GTTGCTAAGTGCTGATTCCCCTAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGC
*
25856301 TAAGTGCTGATTCCACCGTATATTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACTCAT
66 TAAGTGCTGATCCCACCGTATATTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACTCAT
*
25856366 TGGTGGTTGCAAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGA
131 TGGTGGTTGCAAAGTGCTGAATCCACCGTATCTTAAATGTGAAGGA
* *
25856412 GTTGCTAAGTGCTGATTCTCCC-GAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTG
1 GTTGCTAAGTGCTGATTC-CCCTAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTG
* *
25856476 CTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGTGGTTGCTAAGTGCTGATTCCCCGACTCA
65 CTAAGTGCTGATCCCACCGTATATTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACTCA
*
25856541 TTGGTGGTTGCTAAGTGCTGAATCCACCG
130 TTGGTGGTTGCAAAGTGCTGAATCCACCG
25856570 ATAACGGGTA
Statistics
Matches: 149, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
176 146 0.98
177 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (176 bp):
GTTGCTAAGTGCTGATTCCCCTAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGC
TAAGTGCTGATCCCACCGTATATTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACTCAT
TGGTGGTTGCAAAGTGCTGAATCCACCGTATCTTAAATGTGAAGGA
Found at i:25856926 original size:90 final size:90
Alignment explanation
Indices: 25856772--25856935 Score: 276
Period size: 90 Copynumber: 1.8 Consensus size: 90
25856762 CACCAATGAG
* **
25856772 TCGGGGAATCAGCACTTAGCAACCACTTTCACATTTAAGATACGGTGGGGTCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCACCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
25856837 CACCAATGAAACACTTAGCAACCCC
66 CACCAATGAAACACTTAGCAACCCC
*
25856862 TCGGGAGAATCAGCACTTAGCAACC-CCTTCACATTTAAGATACGGTGGAATCAGCACTTTGCAA
1 TCGGG-GAATCAGCACTTAGCAACCACCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
25856926 CCACCAATGA
65 CCACCAATGA
25856936 GTCGGGGAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
90 50 0.72
91 19 0.28
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (90 bp):
TCGGGGAATCAGCACTTAGCAACCACCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
CACCAATGAAACACTTAGCAACCCC
Found at i:25856985 original size:75 final size:75
Alignment explanation
Indices: 25856862--25857039 Score: 295
Period size: 75 Copynumber: 2.4 Consensus size: 75
25856852 TAGCAACCCC
*
25856862 TCGGGAGAATCAGCACTTAGCAACCCC-TTCACATTTAAGATACGGTGGAATCAGCACTTTGCAA
1 TCGGG-GAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
*
25856926 CCACCAATGAG
65 CCACCAATGAA
* *
25856937 TCGGGGAATTAGCACTTAGCAACCCCTTTCACATTTAATATACGGTGGAATCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
25857002 CACCAATGAA
66 CACCAATGAA
*
25857012 TCGGGGAATCAGCACTCAGCAACCCCTT
1 TCGGGGAATCAGCACTTAGCAACCCCTT
25857040 AGGGGAATCA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
74 20 0.21
75 76 0.79
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (75 bp):
TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
CACCAATGAA
Found at i:25857581 original size:27 final size:26
Alignment explanation
Indices: 25857542--25857594 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
25857532 CACTAATGAT
* *
25857542 TCGGGGATTCAGCTCTTAACAACCCC
1 TCGGGGAATCAGCACTTAACAACCCC
*
25857568 TCGGGAGAATCAGCACTTAGCAACCCC
1 TCGGG-GAATCAGCACTTAACAACCCC
25857595 CTTCACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAACAACCCC
Found at i:25857621 original size:42 final size:41
Alignment explanation
Indices: 25857574--25857711 Score: 112
Period size: 42 Copynumber: 3.5 Consensus size: 41
25857564 CCCCTCGGGA
*
25857574 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTG
1 GAATCAACACTTAGCAACCCCCTTCACATTTAAGAT-CGGTG
* * * * * *
25857616 GAATCAGCTCTTTGTAA-CCAC--CA-A--TGAG-TCGG-G
1 GAATCAACACTTAGCAACCCCCTTCACATTTAAGATCGGTG
* * *
25857649 GAATCAACACTTAGCAAACCCTTTCACATTTAATATGCGGTG
1 GAATCAACACTTAGCAACCCCCTTCACATTTAAGAT-CGGTG
25857691 GAATCAACACTTAGCAACCCC
1 GAATCAACACTTAGCAACCCC
25857712 TTGGGGGAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
33 14 0.19
34 5 0.07
35 1 0.01
36 5 0.07
37 1 0.01
38 1 0.01
39 4 0.05
40 1 0.01
41 6 0.08
42 35 0.48
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (41 bp):
GAATCAACACTTAGCAACCCCCTTCACATTTAAGATCGGTG
Found at i:25857648 original size:102 final size:101
Alignment explanation
Indices: 25857466--25857650 Score: 280
Period size: 102 Copynumber: 1.8 Consensus size: 101
25857456 CCACCAATGA
* * *
25857466 CTCGGGGAATCATCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGTATCAGCACTTAGCAA
1 CTCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
* * *
25857531 TCACTAATGATTCGGGGATTCAGCTCTTAACAACCC
66 CCACCAATGAGTCGGGGATTCAGCTCTTAACAACCC
* * *
25857567 CTCGGGAGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCTCTTTGTA
1 CTCGGG-GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCA
25857632 ACCACCAATGAGTCGGGGA
65 ACCACCAATGAGTCGGGGA
25857651 ATCAACACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 6 0.08
102 68 0.92
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (101 bp):
CTCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
CCACCAATGAGTCGGGGATTCAGCTCTTAACAACCC
Found at i:25859509 original size:11 final size:11
Alignment explanation
Indices: 25859495--25859522 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
25859485 ATAAGGACAA
25859495 TATGATTGATT
1 TATGATTGATT
25859506 TATGATTGATT
1 TATGATTGATT
25859517 TATGAT
1 TATGAT
25859523 ACGAATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.54
Consensus pattern (11 bp):
TATGATTGATT
Found at i:25872498 original size:39 final size:39
Alignment explanation
Indices: 25872440--25872526 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
25872430 TTGTGGAGGA
*
25872440 GGGGTAAGTCATTATTTATATAACTTCAAGAAGTATCAT
1 GGGGTAAGTCATTAATTATATAACTTCAAGAAGTATCAT
* *
25872479 GGGGTAGGTCGTTAATTATATAACTTCAAGAAGTATCAT
1 GGGGTAAGTCATTAATTATATAACTTCAAGAAGTATCAT
25872518 GGGGTAAGT
1 GGGGTAAGT
25872527 TTAAGTGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (39 bp):
GGGGTAAGTCATTAATTATATAACTTCAAGAAGTATCAT
Found at i:25878537 original size:13 final size:13
Alignment explanation
Indices: 25878516--25878548 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
25878506 GTGCAAAAAG
*
25878516 AAAGGAAAAAGAA
1 AAAGAAAAAAGAA
25878529 AAAGAAAAAAGAA
1 AAAGAAAAAAGAA
25878542 AAAGAAA
1 AAAGAAA
25878549 GAGAAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:25878555 original size:6 final size:6
Alignment explanation
Indices: 25878510--25878554 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
25878500 GTATAAGTGC
* *
25878510 AAAAAG -AAAGG AAAAAG AAAAAG AAAAAAG AAAAAG AAAGAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAA
25878555 GTAAACTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.12
6 24 0.71
7 6 0.18
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:25884371 original size:100 final size:100
Alignment explanation
Indices: 25884198--25884391 Score: 316
Period size: 100 Copynumber: 1.9 Consensus size: 100
25884188 ACTTGTATTT
*
25884198 GCTGTTTTCCTTGACCAAGTGGCTGTTGTACTTCGGTGGAGGTATTGTCATTGGGAAGGACGGTG
1 GCTGTTTTCCTTGACCAAGTGGCTGTTGTACTTCGGTGGAGGTATTGTCATTGGGAAGGACAGTG
* *
25884263 TTAAATTCTTGCTGTATAGGGGAAACAACTAAATC
66 TTAAATTCTTGCTGCACAGGGGAAACAACTAAATC
* * * * *
25884298 GCTGTTTTCTTTGATCAGGTGGCTGTTGTACTTTGGTGGAGGTATTGTTATTGGGAAGGACAGTG
1 GCTGTTTTCCTTGACCAAGTGGCTGTTGTACTTCGGTGGAGGTATTGTCATTGGGAAGGACAGTG
25884363 TTAAATTCTTGCTGCACAGGGGAAACAAC
66 TTAAATTCTTGCTGCACAGGGGAAACAAC
25884392 AACTAAATCT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (100 bp):
GCTGTTTTCCTTGACCAAGTGGCTGTTGTACTTCGGTGGAGGTATTGTCATTGGGAAGGACAGTG
TTAAATTCTTGCTGCACAGGGGAAACAACTAAATC
Found at i:25890052 original size:46 final size:46
Alignment explanation
Indices: 25889987--25890159 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
25889977 CGTCGAGCTA
* *
25889987 CTTACCATTCGATCTCACGAG-TGGTTAGTAGAGTAGCATCGAGTTT
1 CTTACCATTCGATCCCACGAGCT-GTTAGTAGAGTAGTATCGAGTTT
* ** * *
25890033 CTTACCATTTGATCCCACGAGCTACTGGTAGAGTAGTATTGAGTTT
1 CTTACCATTCGATCCCACGAGCTGTTAGTAGAGTAGTATCGAGTTT
* * * *
25890079 TTTACCATTCAATTCCACGAGCTGTTAATAGAGTAGTATCGAGTTCT
1 CTTACCATTCGATCCCACGAGCTGTTAGTAGAGTAGTATCGAGTT-T
* * *
25890126 TTTATCATTCGATCCCACGAACTGTTAGTAGAGT
1 CTTACCATTCGATCCCACGAGCTGTTAGTAGAGT
25890160 TAACTTACTT
Statistics
Matches: 104, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
46 73 0.70
47 31 0.30
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (46 bp):
CTTACCATTCGATCCCACGAGCTGTTAGTAGAGTAGTATCGAGTTT
Found at i:25897200 original size:9 final size:9
Alignment explanation
Indices: 25897186--25897227 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
25897176 TATATTTTTA
25897186 ATTTTAAAT
1 ATTTTAAAT
25897195 ATTTTAAAT
1 ATTTTAAAT
25897204 ACTTTTATAA-
1 A-TTTTA-AAT
25897214 ATTTTAAATT
1 ATTTTAAA-T
25897224 ATTT
1 ATTT
25897228 CTTGATGTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.07
9 15 0.52
10 10 0.34
11 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:25898394 original size:22 final size:23
Alignment explanation
Indices: 25898369--25898411 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
25898359 AAAAACTATT
25898369 AAAAATTACAAAAA-TTATAAAC
1 AAAAATTACAAAAATTTATAAAC
* *
25898391 AAAAGTTATAAAAATTTATAA
1 AAAAATTACAAAAATTTATAA
25898412 TTATAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAATTACAAAAATTTATAAAC
Found at i:25902765 original size:29 final size:31
Alignment explanation
Indices: 25902706--25902765 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
25902696 GACCCATTTT
25902706 TAAAATAAACATTAAAAAATTATTTTAAAAA
1 TAAAATAAACATTAAAAAATTATTTTAAAAA
25902737 TAAAA-AAA-ATTAAAAACATTATTTTAAAA
1 TAAAATAAACATTAAAAA-ATTATTTTAAAA
25902766 GTATTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.29
30 15 0.54
31 5 0.18
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (31 bp):
TAAAATAAACATTAAAAAATTATTTTAAAAA
Found at i:25904542 original size:13 final size:13
Alignment explanation
Indices: 25904524--25904554 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
25904514 AGTGACGGTA
25904524 TTTGGGACTAAGT
1 TTTGGGACTAAGT
25904537 TTTGGGACTAAGT
1 TTTGGGACTAAGT
25904550 TTTGG
1 TTTGG
25904555 TAGCTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.32, T:0.42
Consensus pattern (13 bp):
TTTGGGACTAAGT
Found at i:25907716 original size:21 final size:21
Alignment explanation
Indices: 25907690--25907733 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
25907680 AGCCCGAGAA
25907690 TATTTTAAATATATAAATTTT
1 TATTTTAAATATATAAATTTT
25907711 TATTTTAAATATATAAATTTT
1 TATTTTAAATATATAAATTTT
25907732 TA
1 TA
25907734 AAAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTAAATATATAAATTTT
Found at i:25908128 original size:45 final size:45
Alignment explanation
Indices: 25908077--25908172 Score: 158
Period size: 45 Copynumber: 2.1 Consensus size: 45
25908067 TATAAATGGA
25908077 ACATTAGCCGATTGTTTATATAATGGAAAATTAGCTCA-AAATTTC
1 ACATTAGCCGATTGTTTATATAATGGAAAATTAGCT-AGAAATTTC
* *
25908122 ACATTAGCCTATTGTTTATATAATGGAACATTAGCTAGAAATTTC
1 ACATTAGCCGATTGTTTATATAATGGAAAATTAGCTAGAAATTTC
25908167 ACATTA
1 ACATTA
25908173 TTGCCTTGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (45 bp):
ACATTAGCCGATTGTTTATATAATGGAAAATTAGCTAGAAATTTC
Found at i:25910416 original size:12 final size:12
Alignment explanation
Indices: 25910399--25910427 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
25910389 CAAAAGGGAC
25910399 GATGACGACGAT
1 GATGACGACGAT
25910411 GATGACGACGAT
1 GATGACGACGAT
25910423 GATGA
1 GATGA
25910428 TGTTTCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.17
Consensus pattern (12 bp):
GATGACGACGAT
Found at i:25910636 original size:16 final size:16
Alignment explanation
Indices: 25910615--25910648 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
25910605 GGTGACAGGA
25910615 TAAAATTAAGTATGTT
1 TAAAATTAAGTATGTT
25910631 TAAAATTAAGTATGTT
1 TAAAATTAAGTATGTT
25910647 TA
1 TA
25910649 TTGCTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAAATTAAGTATGTT
Found at i:25910901 original size:52 final size:52
Alignment explanation
Indices: 25910823--25910926 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
25910813 TTCTTTTAAT
* *
25910823 TGTTTAATAGAAAGAGACCCAAGTGATTCAATGTCCAGTGAATAGGATGGTG
1 TGTTTAATAGAAAGAAACCCAAGTGATTCAATGTCCAGTGAACAGGATGGTG
25910875 TGTTTAATAGAAAGAAACCCAAGTGATTCAATGTCCAGTGAACAGGATGGTG
1 TGTTTAATAGAAAGAAACCCAAGTGATTCAATGTCCAGTGAACAGGATGGTG
25910927 AACATGCAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (52 bp):
TGTTTAATAGAAAGAAACCCAAGTGATTCAATGTCCAGTGAACAGGATGGTG
Found at i:25911109 original size:16 final size:16
Alignment explanation
Indices: 25911090--25911130 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
25911080 AATTTGATAC
25911090 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
25911106 AATTTTGATAACAATT
1 AATTTTAATAACAATT
*
25911122 AGTTTTAAT
1 AATTTTAAT
25911131 TTTATTACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:25911132 original size:22 final size:23
Alignment explanation
Indices: 25911104--25911157 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
25911094 TTAATAACAA
*
25911104 TTAATTTTGATAACA-AT-TAGTT
1 TTAATTTT-ATAACAGATATAATT
*
25911126 TTAATTTTATTACAGATATAATT
1 TTAATTTTATAACAGATATAATT
25911149 TTAATTTTA
1 TTAATTTTA
25911158 ATTAAAACCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.18
22 10 0.36
23 13 0.46
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (23 bp):
TTAATTTTATAACAGATATAATT
Found at i:25913389 original size:27 final size:27
Alignment explanation
Indices: 25913354--25913420 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
25913344 ATAGAGTATG
25913354 CAGTCATTTTATAACATAGGGGCATAA
1 CAGTCATTTTATAACATAGGGGCATAA
** * *
25913381 CAGTCATTTTACCACGTGGGGGCATAA
1 CAGTCATTTTATAACATAGGGGCATAA
*
25913408 CAGTTATTTTATA
1 CAGTCATTTTATA
25913421 TCAGTTTGAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (27 bp):
CAGTCATTTTATAACATAGGGGCATAA
Found at i:25914944 original size:89 final size:89
Alignment explanation
Indices: 25914793--25914971 Score: 340
Period size: 89 Copynumber: 2.0 Consensus size: 89
25914783 AAGACCTCCG
* *
25914793 ATACTTGCCACTCTATTTATCCACTAGACCAGCAGGCCCATTCTAACATATTTCACTAACATTTA
1 ATACTTGCCACTCTATTTATCCACCAGACCAGCAGACCCATTCTAACATATTTCACTAACATTTA
25914858 TTTATAAGCCTACTGGCTAAAGAT
66 TTTATAAGCCTACTGGCTAAAGAT
25914882 ATACTTGCCACTCTATTTATCCACCAGACCAGCAGACCCATTCTAACATATTTCACTAACATTTA
1 ATACTTGCCACTCTATTTATCCACCAGACCAGCAGACCCATTCTAACATATTTCACTAACATTTA
25914947 TTTATAAGCCTACTGGCTAAAGAT
66 TTTATAAGCCTACTGGCTAAAGAT
25914971 A
1 A
25914972 GGGGTTTATT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (89 bp):
ATACTTGCCACTCTATTTATCCACCAGACCAGCAGACCCATTCTAACATATTTCACTAACATTTA
TTTATAAGCCTACTGGCTAAAGAT
Found at i:25918729 original size:44 final size:44
Alignment explanation
Indices: 25918593--25918751 Score: 144
Period size: 44 Copynumber: 3.6 Consensus size: 44
25918583 TTTTAATCCA
* * * * *
25918593 CTCCACTGCAACTTCAAGGAGATAGGATTAGTTGTCTTCAATTTG
1 CTCCACTGCAACTTCAAGGAGATAAGATT-GGTATATTCAATATG
* * * *
25918638 CTCCACTGTAACTT-TAGAGAGATAAGACTT-GTA-ATTTTAATAAG
1 CTCCACTGCAACTTCAAG-GAGATAAGA-TTGGTATA-TTCAATATG
* * **
25918682 CTCCACTGCAACTTTAGGGAGATAAGATTGGTATATTCAACCTG
1 CTCCACTGCAACTTCAAGGAGATAAGATTGGTATATTCAATATG
25918726 CTCCACTGCAACTTCAAGGAGATAAG
1 CTCCACTGCAACTTCAAGGAGATAAG
25918752 GTTTACTCTG
Statistics
Matches: 90, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
43 2 0.02
44 63 0.70
45 23 0.26
46 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAAGGAGATAAGATTGGTATATTCAATATG
Found at i:25918780 original size:41 final size:41
Alignment explanation
Indices: 25918723--25918832 Score: 161
Period size: 41 Copynumber: 2.7 Consensus size: 41
25918713 TATATTCAAC
* * *
25918723 CTGCTCCACTGCAACTTCA-AGGAGATAAGGTTT-ACTCTGAT
1 CTGCTCTACTACAACTTCAGA-GAGATAAGGTTTGA-TATGAT
25918764 CTGCTCTACTACAACTTCAGAGAGATAAGGTTTGATATGAT
1 CTGCTCTACTACAACTTCAGAGAGATAAGGTTTGATATGAT
25918805 CTGCTCTACTACAACTTCAGAGAGATAA
1 CTGCTCTACTACAACTTCAGAGAGATAA
25918833 TATCTGCAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 62 0.97
42 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (41 bp):
CTGCTCTACTACAACTTCAGAGAGATAAGGTTTGATATGAT
Found at i:25919199 original size:44 final size:43
Alignment explanation
Indices: 25919105--25919218 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 43
25919095 TTCAATTTGT
* ** *
25919105 TCCACTATAACTTCAAGAAAATAAGATTCACTATCTTCAGTCTGC
1 TCCACTATAACTTCAAG-AGATAAGATT-ACTATCTTCAACCTAC
*
25919150 TCCACTATAACTTCACAGAGATAAGACTT-GTATCTTCAACCTAC
1 TCCACTATAACTTCA-AGAGATAAGA-TTACTATCTTCAACCTAC
* *
25919194 TCCACTGTAACTTCAGGGAGATAAG
1 TCCACTATAACTTCA-AGAGATAAG
25919219 GTTTGCTATG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
44 33 0.56
45 22 0.37
46 4 0.07
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (43 bp):
TCCACTATAACTTCAAGAGATAAGATTACTATCTTCAACCTAC
Found at i:25919314 original size:44 final size:43
Alignment explanation
Indices: 25919233--25919391 Score: 105
Period size: 44 Copynumber: 3.6 Consensus size: 43
25919223 GCTATGATAG
* *
25919233 ATTTAATCCGAC-CTACTGCAACCTCAGAGGTA-A-AGGATTTATC
1 ATTTAATCCG-CTCCACTGCAACTTCAG-GG-AGATAGGATTTATC
*
25919276 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAAT-
1 A-TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTATC
* * * * * *
25919319 AGCTTCAATCTGCGCCACTGCAACTTCAAGGATATAAGATTGGTATC
1 A--TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT--TATC
*
25919366 -TTTAA-CCTGTTCCACTGCAACTTCAG
1 ATTTAATCC-GCTCCACTGCAACTTCAG
25919392 AAAGATAAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 7 0.08
44 81 0.89
46 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
ATTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTATC
Found at i:25919631 original size:94 final size:94
Alignment explanation
Indices: 25919514--25919723 Score: 298
Period size: 94 Copynumber: 2.2 Consensus size: 94
25919504 TCAGTCTGCT
* *
25919514 CCACTACAACTTCAGGGAG-ATAAGACTAGTGGCTTCAAAT-TGCTCCACTACATCTTCAGGGAG
1 CCACTACAACTTTAGGG-GTATAAGACTAGTGGCTTC-AATCTGCTCCACTACAACTTCAGGGAG
* *
25919577 ATAAGATTCACTAGGATGACTTCAATTCATC
64 ATAAGATTCACCAGGATAACTTCAATTCATC
* * *
25919608 CCACTACAACTTTAGGGGTATAAGATTAGTGGCTTCAATCTGCTTCACTGCAACTTCAGGGAGAT
1 CCACTACAACTTTAGGGGTATAAGACTAGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT
* *
25919673 AAGATTCGCCATGATAACTTCAATTCATC
66 AAGATTCACCAGGATAACTTCAATTCATC
*
25919702 CCACTGCAACTTTAGGGGTATA
1 CCACTACAACTTTAGGGGTATA
25919724 GGATTTGTGG
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
93 4 0.04
94 100 0.96
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (94 bp):
CCACTACAACTTTAGGGGTATAAGACTAGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGAT
AAGATTCACCAGGATAACTTCAATTCATC
Found at i:25919659 original size:363 final size:363
Alignment explanation
Indices: 25918913--25919678 Score: 829
Period size: 363 Copynumber: 2.1 Consensus size: 363
25918903 TTGCGGCTTT
* * * **
25918913 AATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGTAGCCCGTCTTCAATCTGCCCCACTACA
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAATA----G-CTTCAATCTGCCCCACTACA
* * ** **
25918978 ACTTCAAGAATATAAGATTTGTAGCTCCAACCTACTCCATTGCAACTTCAGGGAGATAAGGTTTG
61 ACTTCAAGAATATAAGATTGGTAGCTCCAACCTACTCCACTGCAACTTCAGAAAGATAAAATTTG
* * * * * *
25919043 ATATGATCTGCTCTACCGCAACTTCAGATAGATAAGATTTGTTATTTACAACTTCAATTTGTTCC
126 ATATGATCTACACTACCGCAACTTCAGAGAGATAAGATATGTTATTTACAACTTCAATCTATTCC
*
25919108 ACTATAACTTCAAGAAAATAAGATTCACTATCTTCAGTCTGCTCCACTATAACTTCACAGAGATA
191 ACTATAACTTCAAGAAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCACAGAGATA
* * * ** * ** * *
25919173 AGACTTGTATCTTCAACCTACTCCACTGTAACTTCAGGGAGATAAGGTTTGCTATGATAGATTTA
256 AGACTAGTAGCTTCAAACTACTCCACTACAACTTCAGGGAGATAAGATTCACTAGGATAGATTCA
* * * *
25919238 ATCCGACCTACTGCAACCTCAGAGGTAAAGGATTTATCATTTT
321 ATCCGACCCACTACAACCTCAGAGGTAAAGGATTTATCACTTC
* * *
25919281 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCGCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAATCTGCCCCACTACAACTTC
* * ** ** *
25919346 AAGGATATAAGATTGGTATCTTTAACCTGTTCCACTGCAACTTCAGAAAGATAAAATTTTATATG
66 AAGAATATAAGATTGGTAGCTCCAACCTACTCCACTGCAACTTCAGAAAGATAAAATTTGATATG
** * * * *
25919411 ATCTACACTATTGCAACTTCAGAGAGATAAGATATGTTATTTATAGCTTCAATCTATTCTACTGT
131 ATCTACACTACCGCAACTTCAGAGAGATAAGATATGTTATTTACAACTTCAATCTATTCCACTAT
** * * **
25919476 AACTTCTGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACT
196 AACTTCAAGAAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCACAGAGATAAGACT
* * * * *
25919541 AGTGGCTTCAAATTGCTCCACTACATCTTCAGGGAGATAAGATTCACTAGGAT-GACTTCAATTC
261 AGTAGCTTCAAACTACTCCACTACAACTTCAGGGAGATAAGATTCACTAGGATAGA-TTCAATCC
* * * **
25919605 -ATCCCACTACAACTTTAGGGGTATAA-GA-TTAGTGGCTTC
325 GA-CCCACTACAACCTCAGAGGTA-AAGGATTTA-TCACTTC
* *
25919644 AATCTGCTTCACTGCAACTTCAGGGAGATAAGATT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATT
25919679 CGCCATGATA
Statistics
Matches: 327, Mismatches: 67, Indels: 13
0.80 0.16 0.03
Matches are distributed among these distances:
362 6 0.02
363 285 0.87
364 3 0.01
368 33 0.10
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (363 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAATCTGCCCCACTACAACTTC
AAGAATATAAGATTGGTAGCTCCAACCTACTCCACTGCAACTTCAGAAAGATAAAATTTGATATG
ATCTACACTACCGCAACTTCAGAGAGATAAGATATGTTATTTACAACTTCAATCTATTCCACTAT
AACTTCAAGAAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCACAGAGATAAGACT
AGTAGCTTCAAACTACTCCACTACAACTTCAGGGAGATAAGATTCACTAGGATAGATTCAATCCG
ACCCACTACAACCTCAGAGGTAAAGGATTTATCACTTC
Found at i:25919677 original size:44 final size:45
Alignment explanation
Indices: 25919502--25919678 Score: 168
Period size: 44 Copynumber: 3.9 Consensus size: 45
25919492 GATTCGCTAT
* *
25919502 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAG-TGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGATGG
* *
25919546 CTTCAAAT-TGCTCCACTACATCTTCAGGGAGATAAGATTCACTAGGATGA
1 CTTC-AATCTGCTCCACTACAACTTCAGGGAGATAAGA-T---TA-GATGG
*
25919596 CTTCAAT-T-CATCCCACTACAACTTTAGGG-GTATAAGATTAG-TGG
1 CTTCAATCTGC-T-CCACTACAACTTCAGGGAG-ATAAGATTAGATGG
* *
25919640 CTTCAATCTGCTTCACTGCAACTTCAGGGAGATAAGATT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
25919679 CGCCATGATA
Statistics
Matches: 110, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
44 63 0.57
45 6 0.05
46 3 0.03
48 3 0.03
49 8 0.07
50 27 0.25
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGATGG
Found at i:25919707 original size:50 final size:47
Alignment explanation
Indices: 25919514--25919718 Score: 144
Period size: 44 Copynumber: 4.4 Consensus size: 47
25919504 TCAGTCTGCT
* *
25919514 CCACTACAACTTCAGGGAGATAAGA--CTAG-TGGCTTCAAATTGC-T-
1 CCACTACAACTTCAGGGAGATAAGATTCCAGATGACTTC-AATT-CATC
*
25919558 CCACTACATCTTCAGGGAGATAAGATTCACTAGGATGACTTCAATTCATC
1 CCACTACAACTTCAGGGAGATAAGATTC-C-A-GATGACTTCAATTCATC
* *
25919608 CCACTACAACTTTAGGG-GTATAAGATT--AG-TGGCTTCAA-TC-TGC
1 CCACTACAACTTCAGGGAG-ATAAGATTCCAGATGACTTCAATTCAT-C
* * *
25919651 TTCACTGCAACTTCAGGGAGATAAGATTCGCCATGATAACTTCAATTCATC
1 -CCACTACAACTTCAGGGAGATAAGATT--CCA-GATGACTTCAATTCATC
* *
25919702 CCACTGCAACTTTAGGG
1 CCACTACAACTTCAGGG
25919719 GTATAGGATT
Statistics
Matches: 128, Mismatches: 13, Indels: 34
0.73 0.07 0.19
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 54 0.42
45 2 0.02
46 2 0.02
48 3 0.02
49 8 0.06
50 51 0.40
51 3 0.02
52 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (47 bp):
CCACTACAACTTCAGGGAGATAAGATTCCAGATGACTTCAATTCATC
Found at i:25920593 original size:12 final size:12
Alignment explanation
Indices: 25920563--25920595 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
25920553 TTGACCTCTC
*
25920563 CTTTTTGTTTTT
1 CTTTTTTTTTTT
25920575 CTTTTTTTTTTT
1 CTTTTTTTTTTT
25920587 CTTTTTTTT
1 CTTTTTTTT
25920596 ATAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:25926836 original size:13 final size:13
Alignment explanation
Indices: 25926799--25926836 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
25926789 CCAAAATACA
25926799 AAAACAGTGGCCC
1 AAAACAGTGGCCC
25926812 AAATACAGTGGCCC
1 AAA-ACAGTGGCCC
*
25926826 AAAATAGTGGC
1 AAAACAGTGGC
25926837 AAAAACCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (13 bp):
AAAACAGTGGCCC
Found at i:25928413 original size:20 final size:19
Alignment explanation
Indices: 25928388--25928433 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
25928378 TCATGTACTT
*
25928388 TTTATTCTTTATATTT-TTTG
1 TTTATT-TTT-TATTTGTTTA
25928408 TTTATTTTTTATTTGTTTA
1 TTTATTTTTTATTTGTTTA
25928427 TTTATTT
1 TTTATTT
25928434 GTGTTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 13 0.54
20 6 0.25
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTATTTTTTATTTGTTTA
Found at i:25930775 original size:39 final size:39
Alignment explanation
Indices: 25930732--25930811 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
25930722 GTTAAATCAA
*
25930732 TTATTGAATATGTTGTTTTTATTTGGAAAAAAATTTCTC
1 TTATTGAATATGTTGTTTTTATTTGAAAAAAAATTTCTC
25930771 TTATTGAATATGTTGTTTTTATTTGAAAAAAAATTTCTC
1 TTATTGAATATGTTGTTTTTATTTGAAAAAAAATTTCTC
25930810 TT
1 TT
25930812 TCTTTAGTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (39 bp):
TTATTGAATATGTTGTTTTTATTTGAAAAAAAATTTCTC
Found at i:25932404 original size:30 final size:31
Alignment explanation
Indices: 25932370--25932427 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
25932360 CAAAATGGCA
25932370 ACTGAACTATTCG-AAGTTTTCATTTAAGTT
1 ACTGAACTATTCGAAAGTTTTCATTTAAGTT
* *
25932400 ACTGAACTATTTGAAAGTTTTTATTTAA
1 ACTGAACTATTCGAAAGTTTTCATTTAA
25932428 ACCACTGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (31 bp):
ACTGAACTATTCGAAAGTTTTCATTTAAGTT
Found at i:25937054 original size:27 final size:30
Alignment explanation
Indices: 25937024--25937103 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 30
25937014 TGGAAATAAA
25937024 AAATATC-GTTAT-TTATATT-AACTATTT
1 AAATATCAGTTATATTATATTAAACTATTT
* *
25937051 AAATATCATTTATCATTATATTAAATTATTT
1 AAATATCAGTTAT-ATTATATTAAACTATTT
* * *
25937082 AAATCTTATTTATTATTATATT
1 AAATATCAGTTA-TATTATATT
25937104 TTATTTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.16
28 4 0.09
30 7 0.16
31 25 0.57
32 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (30 bp):
AAATATCAGTTATATTATATTAAACTATTT
Found at i:25937115 original size:31 final size:31
Alignment explanation
Indices: 25937036--25937103 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
25937026 ATATCGTTAT
*
25937036 TTATATT-AACTATTTAAATATCATTTATCA
1 TTATATTAAATTATTTAAATATCATTTATCA
* * *
25937066 TTATATTAAATTATTTAAATCTTATTTATTA
1 TTATATTAAATTATTTAAATATCATTTATCA
25937097 TTATATT
1 TTATATT
25937104 TTATTTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (31 bp):
TTATATTAAATTATTTAAATATCATTTATCA
Found at i:25942432 original size:17 final size:19
Alignment explanation
Indices: 25942410--25942445 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25942400 AGTATTGGTT
25942410 AAAATAA-T-ATTTATTAA
1 AAAATAATTAATTTATTAA
25942427 AAAATAATTAATTTATTAA
1 AAAATAATTAATTTATTAA
25942446 TGAATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATTAATTTATTAA
Found at i:25944445 original size:18 final size:17
Alignment explanation
Indices: 25944422--25944455 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25944412 ACATAATGAT
25944422 AAATATTAATTTTATTAA
1 AAATA-TAATTTTATTAA
*
25944440 AAATATATTTTTATTA
1 AAATATAATTTTATTA
25944456 TATAATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATAATTTTATTAA
Found at i:25950163 original size:3 final size:3
Alignment explanation
Indices: 25950157--25950187 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25950147 AATGAGGTTG
25950157 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
25950188 ACATTTCGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:25961897 original size:27 final size:27
Alignment explanation
Indices: 25961867--25961931 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
25961857 AAATAAAATT
25961867 ATTTTTTATAA-TTACGGAAAT-AGGTC
1 ATTTTTTATAAGTTACGGAAATGA-GTC
* *
25961893 GATTTTTTAAAAGTTACGGGAATGAGTC
1 -ATTTTTTATAAGTTACGGAAATGAGTC
25961921 ATTTTTTATAA
1 ATTTTTTATAA
25961932 AACACTTCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 20 0.61
28 12 0.36
29 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (27 bp):
ATTTTTTATAAGTTACGGAAATGAGTC
Found at i:25964542 original size:18 final size:18
Alignment explanation
Indices: 25964512--25964550 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25964502 TAATTTAATT
25964512 ATTTTTAAAATTTT-TAA
1 ATTTTTAAAATTTTATAA
*
25964529 ATTTGTTAACATTTTATAA
1 ATTT-TTAAAATTTTATAA
25964548 ATT
1 ATT
25964551 AAATCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 9 0.47
19 6 0.32
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTTTTAAAATTTTATAA
Found at i:25975932 original size:26 final size:26
Alignment explanation
Indices: 25975881--25975933 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
25975871 GTTTGATATC
* *
25975881 TTTTGTCTAATGTGGTACTCATCATT
1 TTTTGTCCAATGTGGTACCCATCATT
25975907 TTTTGATCCAATGTGGTACCCA-CATT
1 TTTTG-TCCAATGTGGTACCCATCATT
25975933 T
1 T
25975934 GAAAAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (26 bp):
TTTTGTCCAATGTGGTACCCATCATT
Found at i:25984855 original size:16 final size:15
Alignment explanation
Indices: 25984839--25984882 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
25984829 TTAAATTTTA
25984839 AAAAATACAAAGATT
1 AAAAATACAAAGATT
*
25984854 AAAAATGACTAA-A-T
1 AAAAAT-ACAAAGATT
25984868 AAAAATACAAAGATT
1 AAAAATACAAAGATT
25984883 TAATTTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.17
14 8 0.33
15 8 0.33
16 4 0.17
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAAATACAAAGATT
Found at i:26000149 original size:39 final size:39
Alignment explanation
Indices: 26000100--26000176 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
26000090 ACAGGTGTCA
*
26000100 TGTGACCAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
1 TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
*
26000139 TGTGAACAGGCTGGGTCAAGTTTGTCTGGTTCAAATTC
1 TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTC
26000177 ATCCAGCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (39 bp):
TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
Found at i:26005060 original size:32 final size:32
Alignment explanation
Indices: 26005024--26005131 Score: 103
Period size: 32 Copynumber: 3.2 Consensus size: 32
26005014 TAGCCATTCA
26005024 ATACTCAACTCATGAATACATCATTTCATACC
1 ATACTCAACTCATGAATACATCATTTCATACC
* * * * *
26005056 ATACTCAATTC-T-CATCACAATGGCATTAGCCATTCA
1 ATACTCAACTCATGAAT-AC-AT--CATT--TCATACC
26005092 ATACTCAACTCATGAATACATCATTTCATACC
1 ATACTCAACTCATGAATACATCATTTCATACC
26005124 ATACTCAA
1 ATACTCAA
26005132 TTCTCATCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
30 2 0.03
31 3 0.05
32 24 0.41
34 8 0.14
36 16 0.28
37 3 0.05
38 2 0.03
ACGTcount: A:0.37, C:0.28, G:0.05, T:0.31
Consensus pattern (32 bp):
ATACTCAACTCATGAATACATCATTTCATACC
Found at i:26005113 original size:68 final size:68
Alignment explanation
Indices: 26005004--26005141 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
26004994 ATTTGTTTGT
26005004 ACAATGGCATTAGCCATTCAATACTCAACTCATGAATACATCATTTCATACCATACTCAATTCTC
1 ACAATGGCATTAGCCATTCAATACTCAACTCATGAATACATCATTTCATACCATACTCAATTCTC
26005069 ATC
66 ATC
26005072 ACAATGGCATTAGCCATTCAATACTCAACTCATGAATACATCATTTCATACCATACTCAATTCTC
1 ACAATGGCATTAGCCATTCAATACTCAACTCATGAATACATCATTTCATACCATACTCAATTCTC
26005137 ATC
66 ATC
26005140 AC
1 AC
26005142 TTGCTATATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (68 bp):
ACAATGGCATTAGCCATTCAATACTCAACTCATGAATACATCATTTCATACCATACTCAATTCTC
ATC
Done.