Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 75 of 279
Found at i:24711703 original size:4 final size:4
Alignment explanation
Indices: 24711694--24711718 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
24711684 GTGTAACGTG
24711694 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
24711719 TAGAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:24721158 original size:97 final size:97
Alignment explanation
Indices: 24720984--24721159 Score: 264
Period size: 97 Copynumber: 1.8 Consensus size: 97
24720974 AATTTCTAAG
* *
24720984 AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACATCAAAAGGT
1 AATGTGCTGGGCTGAGTAACCGAGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACATCAAAAGGT
* *
24721049 TCGATATGTTCCTAGGAATAATAAAAATTAAT
66 ACGATATATTCCTAGGAATAATAAAAATTAAT
* ** *
24721081 AATGTGCTGGGCTGAGTAACCGAGGTGGGGTGCTTGGGTTGTCATCTCTCTTTGCGTCAAAAGGT
1 AATGTGCTGGGCTGAGTAACCGAGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACATCAAAAGGT
24721146 AC-AGTATATTCCTA
66 ACGA-TATATTCCTA
24721160 AGTGAAAGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
96 1 0.01
97 69 0.99
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (97 bp):
AATGTGCTGGGCTGAGTAACCGAGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACATCAAAAGGT
ACGATATATTCCTAGGAATAATAAAAATTAAT
Found at i:24725728 original size:33 final size:33
Alignment explanation
Indices: 24725691--24725778 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
24725681 ACCAAGAGAG
* *
24725691 TAAACACAAAAGAGAGTAAGTCCATTGGGACAA
1 TAAACACAAAATAGAGTAAGTCCATCGGGACAA
* *
24725724 TAAACACATAATAGAGTAAGTCCATCGGGACAG
1 TAAACACAAAATAGAGTAAGTCCATCGGGACAA
*
24725757 TAAACACAAAATAAAGTAAGTC
1 TAAACACAAAATAGAGTAAGTC
24725779 TGCCAAGCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.17
Consensus pattern (33 bp):
TAAACACAAAATAGAGTAAGTCCATCGGGACAA
Found at i:24738525 original size:21 final size:21
Alignment explanation
Indices: 24738496--24738595 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
24738486 AATTGGAAAG
*
24738496 ATAAAAAAATAAAGATGATAA
1 ATAATAAAATAAAGATGATAA
** *
24738517 ATAATAAAATAAAGAAAATATC
1 ATAATAAAATAAAGATGATA-A
* *** * **
24738539 ATCATTTTATCATCATGA-AA
1 ATAATAAAATAAAGATGATAA
*
24738559 GATAAAAAAATAAAGATGATAA
1 -ATAATAAAATAAAGATGATAA
24738581 ATAATAAAATAAAGA
1 ATAATAAAATAAAGA
24738596 AAATATTATC
Statistics
Matches: 53, Mismatches: 23, Indels: 6
0.65 0.28 0.07
Matches are distributed among these distances:
21 42 0.79
22 11 0.21
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (21 bp):
ATAATAAAATAAAGATGATAA
Found at i:24738560 original size:64 final size:64
Alignment explanation
Indices: 24738491--24738618 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
24738481 GATAAAATTG
24738491 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
1 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
*
24738555 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATTATCATTTTATCATCAT
1 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
24738619 CTTTCCCAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (64 bp):
GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
Found at i:24740516 original size:20 final size:20
Alignment explanation
Indices: 24740493--24740536 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
24740483 AAATAGGTTA
*
24740493 GTACGAGACTATACAGGTAT
1 GTACGAGACGATACAGGTAT
*
24740513 GTACGAGACGATATAGGTAT
1 GTACGAGACGATACAGGTAT
24740533 GTAC
1 GTAC
24740537 AGAACCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (20 bp):
GTACGAGACGATACAGGTAT
Found at i:24746433 original size:33 final size:34
Alignment explanation
Indices: 24746385--24746449 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
24746375 TTCCCTATAG
*
24746385 AGTCAAATTTGGATTACCAGTCCAGGCTAAATCC
1 AGTCAAATTAGGATTACCAGTCCAGGCTAAATCC
24746419 AGTC-AATTAGGATTACCAGTCCAGGCTAAAT
1 AGTCAAATTAGGATTACCAGTCCAGGCTAAAT
24746450 TCTAATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (34 bp):
AGTCAAATTAGGATTACCAGTCCAGGCTAAATCC
Found at i:24760952 original size:43 final size:43
Alignment explanation
Indices: 24760905--24760986 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
24760895 CTTACATGTT
* *
24760905 ATCA-TAAATCAATGCCACTGTCCTAGACAGGGTTTTACACGAA
1 ATCATTAAAT-AATGCCAATGTCCTAGACAGGGTCTTACACGAA
* *
24760948 ATCATTTAATAATGCCAATGTCCTAGACATGGTCTTACA
1 ATCATTAAATAATGCCAATGTCCTAGACAGGGTCTTACA
24760987 TGTAAGCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 30 0.88
44 4 0.12
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (43 bp):
ATCATTAAATAATGCCAATGTCCTAGACAGGGTCTTACACGAA
Found at i:24766708 original size:14 final size:14
Alignment explanation
Indices: 24766689--24766718 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24766679 AAGCAAGTTT
24766689 GAGTTTCTTAGAAA
1 GAGTTTCTTAGAAA
24766703 GAGTTTCTTAGAAA
1 GAGTTTCTTAGAAA
24766717 GA
1 GA
24766719 AACTTGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
GAGTTTCTTAGAAA
Found at i:24770822 original size:48 final size:48
Alignment explanation
Indices: 24770754--24770947 Score: 325
Period size: 48 Copynumber: 4.0 Consensus size: 48
24770744 TACAAGATAA
* * *
24770754 ATATATATATGAGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24770802 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24770850 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
24770898 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
24770946 AT
1 AT
24770948 GTGTGTATAT
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 139 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:24771143 original size:37 final size:37
Alignment explanation
Indices: 24771088--24771190 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
24771078 GGAAATATAT
24771088 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
* *
24771125 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
* *
24771162 TCTGGGTAAGACCTGATAACTACGTGTGG
1 TCCGGGTAAGACCTGATGACTACGTGTGG
24771191 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
Found at i:24783248 original size:92 final size:93
Alignment explanation
Indices: 24783081--24783303 Score: 227
Period size: 94 Copynumber: 2.3 Consensus size: 93
24783071 TCACTAGTGT
* *
24783081 GAGCTGGTGTAAGACATGTCTGAGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTG-GACATGCATCGGCCACA-TATGAGAGCCAGTGTAAGACCATG
** * * *
24783146 TCTGGGACATGGCATCGGCACTGAGA-CGA
64 TCCAGGACATGACATCGGCACGGACAGCGA
* * * *
24783175 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACA-A-GATGTGTCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCGGCCACATATGA-GAGCCAGTGTAAGACCATG
* *
24783238 TCCAGGACATGACATTGGCACGGACATGTGA
64 TCCAGGACATGACATCGGCACGGACA-GCGA
*
24783269 GAGCTAGTATAAGACAATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGAC-ATGTCT-GGACAT-GCATC
24783304 AGCCTCGATG
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
91 2 0.02
92 38 0.36
94 49 0.46
95 13 0.12
96 5 0.05
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGACATGCATCGGCCACATATGAGAGCCAGTGTAAGACCATGTC
CAGGACATGACATCGGCACGGACAGCGA
Found at i:24783386 original size:31 final size:32
Alignment explanation
Indices: 24783335--24783400 Score: 116
Period size: 31 Copynumber: 2.1 Consensus size: 32
24783325 TGTAAGACCG
24783335 TGTCTGGGACATGGCATTGGCAACTTACCCCA
1 TGTCTGGGACATGGCATTGGCAACTTACCCCA
*
24783367 TGTCTGGGA-ATTGCATTGGCAACTTACCCCA
1 TGTCTGGGACATGGCATTGGCAACTTACCCCA
24783398 TGT
1 TGT
24783401 TTGAGGCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (32 bp):
TGTCTGGGACATGGCATTGGCAACTTACCCCA
Found at i:24786005 original size:36 final size:36
Alignment explanation
Indices: 24785963--24786035 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
24785953 AGTTAAAAAT
24785963 TAGTATTTTGTATTATATATATAAATAGATTAATTA
1 TAGTATTTTGTATTATATATATAAATAGATTAATTA
24785999 TAGTATTTTGTATTATATATATAAATAGATTAATTA
1 TAGTATTTTGTATTATATATATAAATAGATTAATTA
24786035 T
1 T
24786036 CACCTAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (36 bp):
TAGTATTTTGTATTATATATATAAATAGATTAATTA
Found at i:24786490 original size:25 final size:25
Alignment explanation
Indices: 24786462--24786513 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
24786452 ATTAGATAAT
*
24786462 ATATATT-TTTTTAAAAATTATAAAA
1 ATATATTATTTTGAAAAATT-TAAAA
*
24786487 ATATATTATTTTGATAAATTTAAAA
1 ATATATTATTTTGAAAAATTTAAAA
24786512 AT
1 AT
24786514 TCCAACACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATATTATTTTGAAAAATTTAAAA
Found at i:24794967 original size:24 final size:22
Alignment explanation
Indices: 24794940--24795029 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 22
24794930 ACAACCTATC
*
24794940 GGAACGCTCCGAAGAGCTATAACG
1 GGAA-GCT-CGAAGAGCTATAATG
* *
24794964 GGAAGCTCACAAGAACCTTATAATG
1 GGAAGCTC-GAAG-AGC-TATAATG
24794989 GGAAGCTCGAGAGAGCTAATAATG
1 GGAAGCTCGA-AGAGCT-ATAATG
*
24795013 GGACGCTCGTAAGAGCT
1 GGAAGCTCG-AAGAGCT
24795030 GTGGTGTGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.02
23 7 0.13
24 29 0.54
25 17 0.31
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (22 bp):
GGAAGCTCGAAGAGCTATAATG
Found at i:24798237 original size:28 final size:28
Alignment explanation
Indices: 24798174--24798327 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
24798164 ATATTAAGTC
* *
24798174 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
24798201 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
24798229 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
24798257 CACACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
24798285 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
24798313 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24798328 GTACAATTTA
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 22 0.18
28 98 0.82
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:24798819 original size:12 final size:12
Alignment explanation
Indices: 24798802--24798828 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24798792 TGGGCATACT
24798802 TATGTATATATA
1 TATGTATATATA
24798814 TATGTATATATA
1 TATGTATATATA
24798826 TAT
1 TAT
24798829 ATACTTCGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:24805380 original size:63 final size:63
Alignment explanation
Indices: 24805276--24805405 Score: 145
Period size: 63 Copynumber: 2.1 Consensus size: 63
24805266 GGGCAAGCCG
* * ** * *
24805276 TGTAACTCACTATTTGTGCTTAAGTGTCATACGGGTTAGGGACAC-GGACGTGTGTCCAGGCTA
1 TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAG-CATGTGTCCAGGCTA
* * * * *
24805339 TGTAACTCGCTGTTTGTGCTTAAGAGTTACATGGGCCAGGGACACAAGCATGTGTCCAGGCTG
1 TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAGCATGTGTCCAGGCTA
24805402 TGTA
1 TGTA
24805406 CAACATTAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 54 0.98
64 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (63 bp):
TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAGCATGTGTCCAGGCTA
Found at i:24806017 original size:22 final size:22
Alignment explanation
Indices: 24805983--24806056 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
24805973 GGGTAAGAAA
24805983 CTGCATCTGTATCTGATATGTT
1 CTGCATCTGTATCTGATATGTT
* * *
24806005 CTGTATCTATATCAGATATGTT
1 CTGCATCTGTATCTGATATGTT
* * *
24806027 TTACATCTGTATCTGATCTGTT
1 CTGCATCTGTATCTGATATGTT
24806049 CTGCATCT
1 CTGCATCT
24806057 TACCTGAACT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (22 bp):
CTGCATCTGTATCTGATATGTT
Found at i:24809865 original size:33 final size:33
Alignment explanation
Indices: 24809828--24809890 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
24809818 AAGGGGTAAG
24809828 AGAATTTATAATGCCTTAAAAATTATTTTTATT
1 AGAATTTATAATGCCTTAAAAATTATTTTTATT
24809861 AGAATTTATAATGCCTTAAAAATTATTTTT
1 AGAATTTATAATGCCTTAAAAATTATTTTT
24809891 GTTAAAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (33 bp):
AGAATTTATAATGCCTTAAAAATTATTTTTATT
Found at i:24810695 original size:22 final size:22
Alignment explanation
Indices: 24810665--24810734 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
24810655 AGTTCTAAAG
* *
24810665 TATGAGAACCTATATGTTGATA
1 TATGTGAACCTATATGTTAATA
24810687 TATGTGAACCTATATGTTAATA
1 TATGTGAACCTATATGTTAATA
* *
24810709 TATGTGAACCTAAATGTTTATA
1 TATGTGAACCTATATGTTAATA
24810731 TATG
1 TATG
24810735 CAAGTTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (22 bp):
TATGTGAACCTATATGTTAATA
Found at i:24810702 original size:12 final size:12
Alignment explanation
Indices: 24810665--24810725 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
24810655 AGTTCTAAAG
*
24810665 TATGAGAACCTA
1 TATGTGAACCTA
24810677 TATGTTG-A--TA
1 TATG-TGAACCTA
24810687 TATGTGAACCTA
1 TATGTGAACCTA
*
24810699 TATGTTAA--TA
1 TATGTGAACCTA
24810709 TATGTGAACCTA
1 TATGTGAACCTA
*
24810721 AATGT
1 TATGT
24810726 TTATATATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
9 2 0.05
10 16 0.41
12 20 0.51
13 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (12 bp):
TATGTGAACCTA
Found at i:24810851 original size:43 final size:43
Alignment explanation
Indices: 24810803--24810893 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
24810793 AACCCCCATG
* *
24810803 TTGTGCAAGCCCATGTTTGTGAACCTCTATGAGCGAGCCTCTA
1 TTGTGCAAGCCCATGTCTGTGAACCTCTATGAGCGAGCCCCTA
* * * * *
24810846 TTGTGCGAGGCCATGTCTGTGAACCTTTATGTGTGAGCCCCTA
1 TTGTGCAAGCCCATGTCTGTGAACCTCTATGAGCGAGCCCCTA
24810889 TTGTG
1 TTGTG
24810894 TGAGCCCTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (43 bp):
TTGTGCAAGCCCATGTCTGTGAACCTCTATGAGCGAGCCCCTA
Found at i:24811071 original size:15 final size:15
Alignment explanation
Indices: 24811051--24811098 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
24811041 TGTGCGAAAA
24811051 CTAGGTATGTGAACC
1 CTAGGTATGTGAACC
** *
24811066 CTAGGTGCGTGAAAC
1 CTAGGTATGTGAACC
**
24811081 CTATTTATGTGAACC
1 CTAGGTATGTGAACC
24811096 CTA
1 CTA
24811099 CATGTGCGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (15 bp):
CTAGGTATGTGAACC
Found at i:24811202 original size:14 final size:14
Alignment explanation
Indices: 24811123--24811207 Score: 91
Period size: 14 Copynumber: 6.1 Consensus size: 14
24811113 TCGATATGAG
* *
24811123 CCCCTACGTACGAA
1 CCCCTAGGTGCGAA
*
24811137 -CCCTAGGTGCAAA
1 CCCCTAGGTGCGAA
*
24811150 ACCCTAGGTGCGAA
1 CCCCTAGGTGCGAA
* *
24811164 CCCCTATGTGCAAA
1 CCCCTAGGTGCGAA
*
24811178 CCCCTAGGTGTGAA
1 CCCCTAGGTGCGAA
*
24811192 CCCCTAGGTGTGAA
1 CCCCTAGGTGCGAA
24811206 CC
1 CC
24811208 ATATATGTGA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
13 10 0.17
14 50 0.83
ACGTcount: A:0.26, C:0.34, G:0.22, T:0.18
Consensus pattern (14 bp):
CCCCTAGGTGCGAA
Found at i:24811207 original size:28 final size:28
Alignment explanation
Indices: 24811123--24811201 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
24811113 TCGATATGAG
* *
24811123 CCCCTACGTACGAA-CCCTAGGTGCAAA
1 CCCCTAGGTGCGAACCCCTAGGTGCAAA
* *
24811150 ACCCTAGGTGCGAACCCCTATGTGCAAA
1 CCCCTAGGTGCGAACCCCTAGGTGCAAA
*
24811178 CCCCTAGGTGTGAACCCCTAGGTG
1 CCCCTAGGTGCGAACCCCTAGGTG
24811202 TGAACCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 11 0.25
28 33 0.75
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.18
Consensus pattern (28 bp):
CCCCTAGGTGCGAACCCCTAGGTGCAAA
Found at i:24811917 original size:123 final size:126
Alignment explanation
Indices: 24811692--24811932 Score: 380
Period size: 123 Copynumber: 1.9 Consensus size: 126
24811682 TTATATTTGG
* *
24811692 CTATTTTATATCTAAACGATATATATGTGTGTATTTATTTATTGTTTGTTTGTTTGTTTGTTTAT
1 CTATTTTATATCTAAACGATATATATATGTGTATTTATTTA---TTTGTTTGTTTGTTTGATTAT
* *
24811757 TATTTATTAACATTATCCGTGAACATGTTCAATTATATGTTCATAAACATGTTTGTTTAATATT
63 TATTTATCAACATTATCCGTGAACATGTTCAATTATATATTCATAAACATGTTTGTTTAATATT
24811821 CTATTTTATATCTAAAC-A-ATATATATGTGTATTTATTTA-TTGTTTGTTTGTTTGATTATTAT
1 CTATTTTATATCTAAACGATATATATATGTGTATTTATTTATTTGTTTGTTTGTTTGATTATTAT
* *
24811883 TTATCAACATTGTCCGTGAACATGTTCAATTATATATTCATGAACATGTT
66 TTATCAACATTATCCGTGAACATGTTCAATTATATATTCATAAACATGTT
24811933 CGATCAAGTT
Statistics
Matches: 106, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
123 68 0.64
127 20 0.19
128 1 0.01
129 17 0.16
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (126 bp):
CTATTTTATATCTAAACGATATATATATGTGTATTTATTTATTTGTTTGTTTGTTTGATTATTAT
TTATCAACATTATCCGTGAACATGTTCAATTATATATTCATAAACATGTTTGTTTAATATT
Found at i:24820422 original size:20 final size:20
Alignment explanation
Indices: 24820399--24820436 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24820389 TGTAGATATA
* *
24820399 ATTTTTAAGATTATATTTTT
1 ATTTTAAAGATTAAATTTTT
24820419 ATTTTAAAGATTAAATTT
1 ATTTTAAAGATTAAATTT
24820437 GTGTTTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTAAAGATTAAATTTTT
Found at i:24831952 original size:22 final size:22
Alignment explanation
Indices: 24831924--24831966 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24831914 TGTTATTAGT
*
24831924 GGTAGTTTATCTGCAAATCAGG
1 GGTAGTTTAACTGCAAATCAGG
24831946 GGTAGTTTAACTGCAAATCAG
1 GGTAGTTTAACTGCAAATCAG
24831967 TGGTGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (22 bp):
GGTAGTTTAACTGCAAATCAGG
Found at i:24832788 original size:27 final size:27
Alignment explanation
Indices: 24832758--24832810 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24832748 AATGGGTTTA
24832758 GTGGATTTAGCGGGTTA-AACTGGAGGT
1 GTGGATTTAGCGGGTTACAA-TGGAGGT
* *
24832785 GTGGGTTTAGTGGGTTACAATGGAGG
1 GTGGATTTAGCGGGTTACAATGGAGG
24832811 CGTGATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.21, C:0.06, G:0.43, T:0.30
Consensus pattern (27 bp):
GTGGATTTAGCGGGTTACAATGGAGGT
Found at i:24836423 original size:20 final size:20
Alignment explanation
Indices: 24836400--24836475 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
24836390 AGGCACCGAA
*
24836400 GTGCATTCAGGGACACAAAT
1 GTGCATTCAGGGACACAGAT
*
24836420 GTGC-TATCAAGGGTA-TCAGA-
1 GTGCAT-TC-AGGG-ACACAGAT
*
24836440 GTGCATTCAGGGTCACAGAT
1 GTGCATTCAGGGACACAGAT
**
24836460 GTGCAAACAGGGACAC
1 GTGCATTCAGGGACAC
24836476 TGAAGTATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
19 9 0.21
20 25 0.58
21 8 0.19
22 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (20 bp):
GTGCATTCAGGGACACAGAT
Found at i:24836458 original size:19 final size:20
Alignment explanation
Indices: 24836400--24836464 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
24836390 AGGCACCGAA
* *
24836400 GTGCATTCAGGGACACAAAT
1 GTGCATTCAGGGTCACAGAT
24836420 GTGC-TATCAAGGGT-ATCAGA-
1 GTGCAT-TC-AGGGTCA-CAGAT
24836440 GTGCATTCAGGGTCACAGAT
1 GTGCATTCAGGGTCACAGAT
24836460 GTGCA
1 GTGCA
24836465 AACAGGGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
19 10 0.27
20 19 0.51
21 8 0.22
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (20 bp):
GTGCATTCAGGGTCACAGAT
Found at i:24838652 original size:44 final size:44
Alignment explanation
Indices: 24838588--24838700 Score: 154
Period size: 44 Copynumber: 2.6 Consensus size: 44
24838578 TATAGAACTT
* ** *
24838588 AGTGTGCAATATTGAGATAGCTTCGATTTAATGTGATGGCACTA
1 AGTGTGCAATATCGTTATAGCTTCGATTTAATGTGATGGCACGA
*
24838632 AGTTTGCAATATCGTTATAGCTTCGATTTAATGTGATGGCACGA
1 AGTGTGCAATATCGTTATAGCTTCGATTTAATGTGATGGCACGA
** *
24838676 AGTGTGTGATATTGTTATAGCTTCG
1 AGTGTGCAATATCGTTATAGCTTCG
24838701 GCTAATCATT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (44 bp):
AGTGTGCAATATCGTTATAGCTTCGATTTAATGTGATGGCACGA
Found at i:24842159 original size:39 final size:40
Alignment explanation
Indices: 24842042--24842265 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
24842032 GCTCCTCGTT
* *
24842042 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
24842082 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
24842122 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
24842161 CAAATGACTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
24842200 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
24842241 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24842266 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 77 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:24842225 original size:118 final size:120
Alignment explanation
Indices: 24842042--24842265 Score: 296
Period size: 118 Copynumber: 1.9 Consensus size: 120
24842032 GCTCCTCGTT
* *
24842042 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGACTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
24842107 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
24842161 CAAATGACTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGACTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
24842223 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
24842266 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 55 0.60
119 32 0.35
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGACTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:24847515 original size:24 final size:24
Alignment explanation
Indices: 24847488--24847534 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
24847478 ATTTTTGAGA
24847488 AAGAAATTTCCTAAGGGGGGGAGT
1 AAGAAATTTCCTAAGGGGGGGAGT
*
24847512 AAGAAATTTCCTAAGTGGGGGAG
1 AAGAAATTTCCTAAGGGGGGGAG
24847535 AGTTGTAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.36, T:0.21
Consensus pattern (24 bp):
AAGAAATTTCCTAAGGGGGGGAGT
Found at i:24850624 original size:26 final size:27
Alignment explanation
Indices: 24850589--24850645 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
24850579 TATCACAATG
24850589 TCATCAAGTATTTAGATACATCTT-AA
1 TCATCAAGTATTTAGATACATCTTAAA
24850615 TCATCAAGTATTTAGATACATCTTAAA
1 TCATCAAGTATTTAGATACATCTTAAA
24850642 TCAT
1 TCAT
24850646 GTCATTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (27 bp):
TCATCAAGTATTTAGATACATCTTAAA
Found at i:24850959 original size:43 final size:42
Alignment explanation
Indices: 24850876--24851034 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 42
24850866 TAAGATGCCA
* * * *
24850876 ATGCCATATCCCAGATATGGTCTCACATG-GGATCAT-ATATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGAAG-TC-TCATATCG
*
24850918 ATGCCAATAGCCCA-ACTATGGTCTTACACGATGTCTCATATCG
1 ATGCC-ATAGCCCAGA-TATGGTCTTACACGAAGTCTCATATCG
* * * *
24850961 ATGCCATATCCTAGATATGGTCTTATACGAAGTCTCATTTTCG
1 ATGCCATAGCCCAGATATGGTCTTACACGAAGTCTCA-TATCG
* * **
24851004 AAGCCAT-GTCCCATACGTGGTCTTACACGAA
1 ATGCCATAG-CCCAGATATGGTCTTACACGAA
24851035 ATCGCATGCC
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 33 0.35
43 60 0.64
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:24853764 original size:23 final size:23
Alignment explanation
Indices: 24853738--24853789 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
24853728 AGGTTAAGCC
24853738 CAAGTCATGGAACGACAAGAATT
1 CAAGTCATGGAACGACAAGAATT
* *
24853761 CAAGTCATGGCACGACGAGAATT
1 CAAGTCATGGAACGACAAGAATT
*
24853784 TAAGTC
1 CAAGTC
24853790 GTTGCGACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (23 bp):
CAAGTCATGGAACGACAAGAATT
Found at i:24878862 original size:27 final size:28
Alignment explanation
Indices: 24878832--24878889 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
24878822 TTGTTAAAAC
24878832 TCTTCTAAAA-GAAAACTCAATAGA-AAT
1 TCTTCTAAAATGAAAACTCAA-AGAGAAT
24878859 TC-T-TAAAATGAAAACTCAAAGAGAAT
1 TCTTCTAAAATGAAAACTCAAAGAGAAT
24878885 T-TTCT
1 TCTTCT
24878890 TTAACTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
25 8 0.30
26 16 0.59
27 3 0.11
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (28 bp):
TCTTCTAAAATGAAAACTCAAAGAGAAT
Found at i:24878873 original size:26 final size:25
Alignment explanation
Indices: 24878837--24878885 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
24878827 AAAACTCTTC
24878837 TAAAAGAAAACTCAATAGA-AATTCT
1 TAAAAGAAAACTCAA-AGAGAATTCT
24878862 TAAAATGAAAACTCAAAGAGAATT
1 TAAAA-GAAAACTCAAAGAGAATT
24878886 TTCTTTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.22
Consensus pattern (25 bp):
TAAAAGAAAACTCAAAGAGAATTCT
Found at i:24880300 original size:68 final size:67
Alignment explanation
Indices: 24880126--24880300 Score: 172
Period size: 68 Copynumber: 2.6 Consensus size: 67
24880116 CCTCAAAAGA
* * * * * * * * * *
24880126 GGTTACAGGTGTAAGACCACAACTCGACTATGGCGAC-TATAGAGTCTGCCAAGACATTAAACAT
1 GGTTACATGTGTAAGACCATATCTCGGCTATGACAACATGTGGAGTCCGCCAAGACACTAAACAT
24880190 AG
66 AG
* * *
24880192 GGTTACATGTGTAAGTCTATATCTCGGCTATGGCAACATGTGGAGTCCGCCAAGACACTAAACAT
1 GGTTACATGTGTAAGACCATATCTCGGCTATGACAACATGTGGAGTCCGCCAAGACACTAAACAT
*
24880257 GG
66 AG
* * * *
24880259 GGATTACATGTGTAAGACCATTTCTTGGCTATTACAGCATGT
1 GG-TTACATGTGTAAGACCATATCTCGGCTATGACAACATGT
24880301 AAGGTCCATA
Statistics
Matches: 88, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 30 0.34
67 26 0.30
68 32 0.36
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (67 bp):
GGTTACATGTGTAAGACCATATCTCGGCTATGACAACATGTGGAGTCCGCCAAGACACTAAACAT
AG
Found at i:24883408 original size:32 final size:32
Alignment explanation
Indices: 24883372--24883436 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24883362 TATTTATGAG
24883372 ATCATTAGTGTCGTATTAAAAATTGGTTAATA
1 ATCATTAGTGTCGTATTAAAAATTGGTTAATA
24883404 ATCATTAGTGTCGTATTAAAAATTGGTTAATA
1 ATCATTAGTGTCGTATTAAAAATTGGTTAATA
24883436 A
1 A
24883437 GTTGTAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (32 bp):
ATCATTAGTGTCGTATTAAAAATTGGTTAATA
Found at i:24885457 original size:43 final size:43
Alignment explanation
Indices: 24885410--24885545 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
24885400 TCCCAGATGT
* * *
24885410 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * * *
24885453 GGTCTTACACG-AAATCAGATA-CGATGTCGATGTCCCAGACAT
1 GGTCTTACACGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * * *
24885495 GGTCGTATACGTAAATCTCAAT-T-GAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
24885538 GGTCTTAC
1 GGTCTTAC
24885546 GCGATGTCTC
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
42 31 0.43
43 34 0.47
44 4 0.06
45 3 0.04
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:24886339 original size:6 final size:6
Alignment explanation
Indices: 24886328--24886361 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
24886318 TGGCTTTCTC
24886328 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
24886362 GATTTTCGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:24887975 original size:20 final size:20
Alignment explanation
Indices: 24887946--24887983 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24887936 CTAAACCGAC
*
24887946 AACTTGGAAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
*
24887966 AACTTAGAAAATTTTTAC
1 AACTTAGAAAAATTTTAC
24887984 CCTTAACAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (20 bp):
AACTTAGAAAAATTTTACAA
Found at i:24896573 original size:21 final size:20
Alignment explanation
Indices: 24896545--24896583 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
24896535 TTTGGGATTA
24896545 AAATATGAAAATGATAATCC
1 AAATATGAAAATGATAATCC
24896565 AAATGATGAAAATGATAAT
1 AAAT-ATGAAAATGATAAT
24896584 TATTTTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (20 bp):
AAATATGAAAATGATAATCC
Found at i:24906930 original size:6 final size:6
Alignment explanation
Indices: 24906921--24906950 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
24906911 ATATTTAAGA
24906921 TTAATT TTAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
24906951 AAATAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:24906935 original size:18 final size:18
Alignment explanation
Indices: 24906914--24906950 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24906904 TTTATTTATA
24906914 TTTAAGATTAATTTTAAT
1 TTTAAGATTAATTTTAAT
**
24906932 TTTAATTTTAATTTTAAT
1 TTTAAGATTAATTTTAAT
24906950 T
1 T
24906951 AAATAATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTAAGATTAATTTTAAT
Found at i:24912474 original size:3 final size:3
Alignment explanation
Indices: 24912466--24912547 Score: 92
Period size: 3 Copynumber: 27.0 Consensus size: 3
24912456 AAGGGCCCAA
* * * * * * *
24912466 ATT ATT ATT ATT ATT ATC ATC ATC ACT ACT ACT ATT ATT ATT AAAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
24912512 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24912548 TACAAATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
3 70 0.97
4 2 0.03
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:24912690 original size:10 final size:11
Alignment explanation
Indices: 24912670--24912694 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24912660 CGAATTCTAG
24912670 TTTCTTTTTTT
1 TTTCTTTTTTT
24912681 TTTCTTTTTTT
1 TTTCTTTTTTT
24912692 TTT
1 TTT
24912695 GNNNNNNNNN
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:24925127 original size:18 final size:18
Alignment explanation
Indices: 24925101--24925135 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24925091 ATATATTAAT
24925101 CCAAGTACCCAACCCAAC
1 CCAAGTACCCAACCCAAC
*
24925119 CCAATTACCCAACCCAA
1 CCAAGTACCCAACCCAA
24925136 TCATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.49, G:0.03, T:0.09
Consensus pattern (18 bp):
CCAAGTACCCAACCCAAC
Found at i:24925128 original size:13 final size:13
Alignment explanation
Indices: 24925112--24925136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24925102 CAAGTACCCA
24925112 ACCCAACCCAATT
1 ACCCAACCCAATT
24925125 ACCCAACCCAAT
1 ACCCAACCCAAT
24925137 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:24925202 original size:20 final size:20
Alignment explanation
Indices: 24925164--24925202 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24925154 ATTTAATAAA
* **
24925164 TAAAAATAGAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
24925184 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
24925203 TATATAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:24925235 original size:9 final size:9
Alignment explanation
Indices: 24925221--24925288 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
24925211 TTTATACAAA
*
24925221 TAATTCTGT
1 TAATTCGGT
*
24925230 TAATTCGGG
1 TAATTCGGT
*
24925239 TAATTCGGG
1 TAATTCGGT
*
24925248 TAATTTAGG-
1 TAA-TTCGGT
24925257 TAATTCGGT
1 TAATTCGGT
* **
24925266 TAACTCTAT
1 TAATTCGGT
24925275 TAATTCGGT
1 TAATTCGGT
24925284 TAATT
1 TAATT
24925289 TTATACTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
8 4 0.09
9 39 0.83
10 4 0.09
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:24925244 original size:18 final size:18
Alignment explanation
Indices: 24925221--24925288 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
24925211 TTTATACAAA
* *
24925221 TAATTCTGTTAATTCGGG
1 TAATTCGGTTAATTCAGG
* *
24925239 TAATTCGGGTAATTTAGG
1 TAATTCGGTTAATTCAGG
* *
24925257 TAATTCGGTTAACTCTA-T
1 TAATTCGGTTAATTC-AGG
24925275 TAATTCGGTTAATT
1 TAATTCGGTTAATT
24925289 TTATACTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 39 0.98
19 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.44
Consensus pattern (18 bp):
TAATTCGGTTAATTCAGG
Found at i:24928188 original size:18 final size:19
Alignment explanation
Indices: 24928151--24928192 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
24928141 ATATAAACTA
* *
24928151 TTATAATATTTTATTTTTT
1 TTATAATATTATAATTTTT
24928170 TTATAA-ATTATAATTTTT
1 TTATAATATTATAATTTTT
24928188 TTATA
1 TTATA
24928193 GATTTTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATAATATTATAATTTTT
Found at i:24934677 original size:21 final size:21
Alignment explanation
Indices: 24934653--24934697 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
24934643 TTCAACATAA
*
24934653 AAAATGTTCATACTAAGAATT
1 AAAATGTTCACACTAAGAATT
*
24934674 AAAATGTTCACACTAAGCATT
1 AAAATGTTCACACTAAGAATT
24934695 AAA
1 AAA
24934698 TCAAATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (21 bp):
AAAATGTTCACACTAAGAATT
Found at i:24938302 original size:45 final size:44
Alignment explanation
Indices: 24938233--24938394 Score: 175
Period size: 45 Copynumber: 3.6 Consensus size: 44
24938223 TTCCAAAGGA
* * * * *
24938233 TGCCATGGTATCTTCCAACCATGGTCTTATGCATTCCTGATGTAG
1 TGCCATAGTATCTTTCAACTATGGTCTTAT-CATTCTTGATTTAG
* *
24938278 TGCCATAGTATCTTTCAACTATGGTCTTACACATT-TTCAGTTTAG
1 TGCCATAGTATCTTTCAACTATGGTCTTA-TCATTCTTGA-TTTAG
* *
24938323 TGCCATGGTATCTTTCAACTATGGTCTTACTCATTCTTG-TTTAA
1 TGCCATAGTATCTTTCAACTATGGTCTTA-TCATTCTTGATTTAG
* *
24938367 TGCCATAATATCTTTCAACTATGTTCTT
1 TGCCATAGTATCTTTCAACTATGGTCTT
24938395 TCTCATTTGG
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
44 31 0.31
45 67 0.67
46 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (44 bp):
TGCCATAGTATCTTTCAACTATGGTCTTATCATTCTTGATTTAG
Found at i:24938416 original size:89 final size:90
Alignment explanation
Indices: 24938232--24938439 Score: 240
Period size: 89 Copynumber: 2.3 Consensus size: 90
24938222 GTTCCAAAGG
* * * *
24938232 ATGCCATGGTATCTTCCAACCATGGTCTTATGCATTCCTGATGTAGTGCCATAGTATCTTTCAAC
1 ATGCCATGGTATCTTTCAACTATGGTCTTATGCATTCCTGATGTAATGCCATAATATCTTTCAAC
* **
24938297 TATGGTCTTACACATTTTCAGTTTA
66 TATGGTCTTACACATTTGCAGTAAA
* * *
24938322 GTGCCATGGTATCTTTCAACTATGGTCTTACT-CATTCTTG-TTTAATGCCATAATATCTTTCAA
1 ATGCCATGGTATCTTTCAACTATGGTCTTA-TGCATTCCTGATGTAATGCCATAATATCTTTCAA
* * * **
24938385 CTATGTTCTTTCTCATTTGGGGTAAA
65 CTATGGTCTTACACATTTGCAGTAAA
* *
24938411 ATGCCATGATATCTTTCAATTATGGTCTT
1 ATGCCATGGTATCTTTCAACTATGGTCTT
24938440 TCTCTTTTCT
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
89 64 0.65
90 34 0.34
91 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (90 bp):
ATGCCATGGTATCTTTCAACTATGGTCTTATGCATTCCTGATGTAATGCCATAATATCTTTCAAC
TATGGTCTTACACATTTGCAGTAAA
Found at i:24938429 original size:45 final size:44
Alignment explanation
Indices: 24938278--24938443 Score: 147
Period size: 45 Copynumber: 3.7 Consensus size: 44
24938268 CCTGATGTAG
* * * * ** *
24938278 TGCCAT-AGTATCTTTCAACTATGGTCTTACACATTTTCAGTTTAG
1 TGCCATGA-TATCTTTCAACTATGGTCTTTCTCATTCT-GGTAAAA
* * * **
24938323 TGCCATGGTATCTTTCAACTATGGTCTTACTCATTCTTGTTTAA
1 TGCCATGATATCTTTCAACTATGGTCTTTCTCATTCTGGTAAAA
* *
24938367 TGCCATAATATCTTTCAACTATGTTCTTTCTCATT-TGGGGTAAAA
1 TGCCATGATATCTTTCAACTATGGTCTTTCTCATTCT--GGTAAAA
*
24938412 TGCCATGATATCTTTCAATTATGGTCTTTCTC
1 TGCCATGATATCTTTCAACTATGGTCTTTCTC
24938444 TTTTCTCAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.01
44 36 0.35
45 66 0.64
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (44 bp):
TGCCATGATATCTTTCAACTATGGTCTTTCTCATTCTGGTAAAA
Found at i:24938760 original size:109 final size:109
Alignment explanation
Indices: 24938630--24938848 Score: 393
Period size: 109 Copynumber: 2.0 Consensus size: 109
24938620 GTTTCTTGAT
* *
24938630 CTAGATAATACATTTCATTCAATTAAACCATTCAAATAACTTAAAATAATTAACTCAAACTTATA
1 CTAGATAATAAATTTCATTCAATTAAACCATTCAAATAACTTAAAATAACTAACTCAAACTTATA
**
24938695 ACCCTTATCAATATAAATTTACAAAATTGTCCCCACATTTTAAC
66 ACCCTTATCAATATAAATTTACAAAATTACCCCCACATTTTAAC
24938739 CTAGATAATAAATTTCATTCAATTAAACCATTCAAATAACTTAAAATAACTAACTCAAACTTATA
1 CTAGATAATAAATTTCATTCAATTAAACCATTCAAATAACTTAAAATAACTAACTCAAACTTATA
*
24938804 ACCCTTATCAATATGAATTTACAAAATTACCCCCACATTTTAAC
66 ACCCTTATCAATATAAATTTACAAAATTACCCCCACATTTTAAC
24938848 C
1 C
24938849 ATTATGCAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (109 bp):
CTAGATAATAAATTTCATTCAATTAAACCATTCAAATAACTTAAAATAACTAACTCAAACTTATA
ACCCTTATCAATATAAATTTACAAAATTACCCCCACATTTTAAC
Found at i:24940741 original size:69 final size:69
Alignment explanation
Indices: 24940635--24940791 Score: 269
Period size: 69 Copynumber: 2.3 Consensus size: 69
24940625 TATTTTTAAC
* * *
24940635 AATAATAAAATATATTATTAAAATTCAACTACTTAGAACATAAATGTTAATTTTAAGAAAATATA
1 AATAATATAACATA-TAATAAAATTCAACTACTTAGAACATAAATGTTAATTTTAAGAAAATATA
24940700 CAATA
65 CAATA
24940705 AATAATATAACATATAATAAAATTCAACTACTTAGAACATAAATGTTAATTTTAAGAAAATATAC
1 AATAATATAACATATAATAAAATTCAACTACTTAGAACATAAATGTTAATTTTAAGAAAATATAC
24940770 AATA
66 AATA
*
24940774 CATAATATAACATATAAT
1 AATAATATAACATATAAT
24940792 TAATAATAAC
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 71 0.86
70 12 0.14
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (69 bp):
AATAATATAACATATAATAAAATTCAACTACTTAGAACATAAATGTTAATTTTAAGAAAATATAC
AATA
Found at i:24940802 original size:17 final size:16
Alignment explanation
Indices: 24940776--24940807 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24940766 ATACAATACA
24940776 TAATATAACATATAAT
1 TAATATAACATATAAT
24940792 TAATAATAACATATAA
1 TAAT-ATAACATATAA
24940808 CATATGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATATAACATATAAT
Found at i:24941775 original size:25 final size:25
Alignment explanation
Indices: 24941746--24941797 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
24941736 CTCTTGGCAC
24941746 AAAATCTCAATAAACCTGAAACAAT
1 AAAATCTCAATAAACCTGAAACAAT
24941771 AAAATCTCAATAAACCTGAAACAAT
1 AAAATCTCAATAAACCTGAAACAAT
24941796 AA
1 AA
24941798 CTCATGTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.19, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAATCTCAATAAACCTGAAACAAT
Found at i:24944329 original size:30 final size:29
Alignment explanation
Indices: 24944286--24944346 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
24944276 AAAGTAGCCG
24944286 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
24944315 AAGCTAGTTTAAATCGCACACTTAGTTCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
24944345 AA
1 AA
24944347 ACTTTCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:24950501 original size:19 final size:19
Alignment explanation
Indices: 24950459--24950495 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24950449 GAACAAAACT
* *
24950459 GAACTTATTCAGAATTTCA
1 GAACTTAATCAAAATTTCA
24950478 GAACTTAATCAAAATTTC
1 GAACTTAATCAAAATTTC
24950496 CAAACTGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (19 bp):
GAACTTAATCAAAATTTCA
Found at i:24951588 original size:30 final size:29
Alignment explanation
Indices: 24951545--24951605 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
24951535 CAAGTAGCTG
24951545 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
24951574 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
24951604 AA
1 AA
24951606 ATTTTCGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:24957254 original size:18 final size:18
Alignment explanation
Indices: 24957231--24957273 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
24957221 GTTCAAGGTG
24957231 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTGTT
*
24957249 TAATTAATTAAATTTGTT
1 TAATTAATTAAAATTGTT
24957267 TAATTAA
1 TAATTAA
24957274 AAACCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTGTT
Found at i:24957921 original size:3 final size:3
Alignment explanation
Indices: 24957915--24958769 Score: 1710
Period size: 3 Copynumber: 285.0 Consensus size: 3
24957905 GTATTGTTTC
24957915 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24957963 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958011 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958059 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958107 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958155 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958203 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958251 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958299 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958347 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958395 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958443 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958491 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958539 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958587 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958635 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958683 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958731 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24958770 AGCTTCCGCA
Statistics
Matches: 852, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 852 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:24959434 original size:35 final size:36
Alignment explanation
Indices: 24959394--24959465 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
24959384 TTTCGTATCG
24959394 TTAAAATAT-A-CTACAAATTTTTATTTTTTAAAATT
1 TTAAAATATAATCTACAAATTTTTA-TTTTTAAAATT
* * *
24959429 TTAAAATTTAATCTATATATTTTTATTTTTAAAATT
1 TTAAAATATAATCTACAAATTTTTATTTTTAAAATT
24959465 T
1 T
24959466 AATTATATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 8 0.25
36 13 0.41
37 11 0.34
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (36 bp):
TTAAAATATAATCTACAAATTTTTATTTTTAAAATT
Found at i:24959493 original size:29 final size:30
Alignment explanation
Indices: 24959418--24959497 Score: 105
Period size: 28 Copynumber: 2.8 Consensus size: 30
24959408 AAATTTTTAT
24959418 TTTTTAAAATTTTAAAATTTAATCTATATA
1 TTTTTAAAATTTTAAAATTTAATCTATATA
* *
24959448 TTTTT--ATTTTTAAAATTTAAT-TATATTG
1 TTTTTAAAATTTTAAAATTTAATCTATA-TA
24959476 TTTTTAAAATTTT-AAATTTAAT
1 TTTTTAAAATTTTAAAATTTAAT
24959498 GTAATTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.09
28 21 0.48
29 9 0.20
30 10 0.23
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (30 bp):
TTTTTAAAATTTTAAAATTTAATCTATATA
Found at i:24959526 original size:21 final size:21
Alignment explanation
Indices: 24959502--24959541 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24959492 TTTAATGTAA
24959502 TTATT-AATATTATTAGTTTTT
1 TTATTGAAT-TTATTAGTTTTT
24959523 TTATTGAATTTATTAGTTT
1 TTATTGAATTTATTAGTTT
24959542 GATATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (21 bp):
TTATTGAATTTATTAGTTTTT
Found at i:24964805 original size:35 final size:35
Alignment explanation
Indices: 24964755--24964985 Score: 291
Period size: 35 Copynumber: 6.6 Consensus size: 35
24964745 TACCCCCTGT
* * *
24964755 TTGGCGTGTTTCGGTTGGATTATCTCTTAAGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* *
24964790 TTGACGTGTTACGGTTTGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* * *
24964825 TTGGCATGTTACAGTTAGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
*
24964860 TTGTCGTGTTACGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* * * *
24964895 TTAGCATGTTATGGTTAGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* * *
24964930 TTGGCGTGTTTCGGTTGGGTTAGCTCTTATGAGTA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* **
24964965 TCGGCGTGTTATAGTTGGATT
1 TTGGCGTGTTACGGTTGGATT
24964986 TACGATGTAC
Statistics
Matches: 166, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 166 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (35 bp):
TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
Found at i:24964899 original size:16 final size:16
Alignment explanation
Indices: 24964878--24964931 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
24964868 TTACGGTTGG
24964878 ATTAGCTCTTATGAGC
1 ATTAGCTCTTATGAGC
*
24964894 ATTAGCATGTTATGGTTAG-
1 ATTAGC-TCTTAT-G--AGC
24964913 ATTAGCTCTTATGAGC
1 ATTAGCTCTTATGAGC
24964929 ATT
1 ATT
24964932 GGCGTGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 2 0.06
16 9 0.29
17 6 0.19
18 6 0.19
19 6 0.19
20 2 0.06
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (16 bp):
ATTAGCTCTTATGAGC
Found at i:24967889 original size:22 final size:21
Alignment explanation
Indices: 24967864--24967904 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24967854 AGGGCTAAAT
*
24967864 AAAAAACATATAGAATTTTTTG
1 AAAAAACATA-AAAATTTTTTG
*
24967886 AAAAAAGATAAAAATTTTT
1 AAAAAACATAAAAATTTTT
24967905 AACTTGCAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAAAACATAAAAATTTTTTG
Found at i:24969994 original size:37 final size:37
Alignment explanation
Indices: 24969944--24970022 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
24969934 TTATTACGAA
* * *
24969944 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
24969981 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
24970018 GTCTT
1 GTCTT
24970023 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:24970219 original size:47 final size:47
Alignment explanation
Indices: 24970141--24970551 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
24970131 CCCTTCGGGA
* * * * * *
24970141 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24970188 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24970235 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24970282 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24970329 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24970376 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24970423 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24970470 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24970517 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
24970552 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24971713 original size:18 final size:18
Alignment explanation
Indices: 24971690--24971731 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
24971680 CATATGCATT
24971690 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
24971708 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
24971726 TTTAAT
1 TTTAAT
24971732 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:24980441 original size:37 final size:37
Alignment explanation
Indices: 24980391--24980469 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
24980381 TTATTACGAA
* * *
24980391 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
24980428 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
24980465 GTCTT
1 GTCTT
24980470 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:24980666 original size:47 final size:47
Alignment explanation
Indices: 24980588--24980989 Score: 655
Period size: 47 Copynumber: 8.5 Consensus size: 47
24980578 CCCTTCGGGA
* * * * * * *
24980588 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24980635 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24980682 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24980729 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24980776 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24980823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24980869 -TTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24980917 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24980964 CTTATCACATATATATACACTTTCAC
1 CTTATCAC--ATATATACACTTTCAC
24980990 GTATACACAC
Statistics
Matches: 334, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
45 4 0.01
47 311 0.93
49 19 0.06
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24986205 original size:30 final size:30
Alignment explanation
Indices: 24986169--24986246 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
24986159 GATGTTTGAC
* * * *
24986169 GTATCCCTTTTCTTTATTCGATAGCCGAGG
1 GTATCCCTTTTCATAATTCAATAGCCGAAG
24986199 GTATCCCTTTTCATAATTCAATAGCCGAAG
1 GTATCCCTTTTCATAATTCAATAGCCGAAG
*
24986229 CTATCCCTTTTCATAATT
1 GTATCCCTTTTCATAATT
24986247 TGATGGTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (30 bp):
GTATCCCTTTTCATAATTCAATAGCCGAAG
Found at i:24986265 original size:30 final size:30
Alignment explanation
Indices: 24986231--24986393 Score: 161
Period size: 30 Copynumber: 5.5 Consensus size: 30
24986221 AGCCGAAGCT
*
24986231 ATCCCTTTTCATAATTTGATGGTTGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** *
24986261 ATCCCTTTTCATAATTTGATAATCG-AAGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
**
24986291 ATCCCTTTTCATAATTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * * * * *
24986321 ATCCCATTCCGTAA-CTGATGGTTGCCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * *
24986350 ATCCCATTCCATAA-CTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
24986379 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
24986394 CGATAGCCAA
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
29 49 0.45
30 58 0.54
31 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:24986265 original size:60 final size:60
Alignment explanation
Indices: 24986201--24986417 Score: 192
Period size: 60 Copynumber: 3.7 Consensus size: 60
24986191 AGCCGAGGGT
* *
24986201 ATCCCTTTTCATAATTCAATAGCCGAAGCTATCCCTTTTCATAATTTGATGGTTGTCACC
1 ATCCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
** ** **
24986261 ATCCCTTTTCATAATTTGATAATCGAAGCCATCCCTTTTCATAATTCAATGGTCGTCACC
1 ATCCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
* * * * * * * * * *
24986321 ATCCCATTCCGTAACTGATGGTTGCC--A-CCATCCCATTCCATAA-CTGATGGTCGTCACC
1 ATCCCTTTTCATAATTCA--ATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
* * *
24986379 ATCCCTTTTCATAA-TCGATAGCCAAAGCTATCCCTTTTC
1 ATCCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTC
24986418 GTAGTCGATA
Statistics
Matches: 119, Mismatches: 33, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
55 4 0.03
57 2 0.02
58 32 0.27
59 14 0.12
60 65 0.55
62 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.35
Consensus pattern (60 bp):
ATCCCTTTTCATAATTCAATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:24986349 original size:29 final size:29
Alignment explanation
Indices: 24986309--24986392 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
24986299 TCATAATTCA
* *
24986309 ATGGTCGTCACCATCCCATTCCGTAACTG
1 ATGGTCGCCACCATCCCATTCCATAACTG
*
24986338 ATGGTTGCCACCATCCCATTCCATAACTG
1 ATGGTCGCCACCATCCCATTCCATAACTG
* * *
24986367 ATGGTCGTCACCATCCCTTTTCATAA
1 ATGGTCGCCACCATCCCATTCCATAA
24986393 TCGATAGCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (29 bp):
ATGGTCGCCACCATCCCATTCCATAACTG
Found at i:24986411 original size:29 final size:29
Alignment explanation
Indices: 24986379--24986447 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
24986369 GGTCGTCACC
24986379 ATCCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
* * * *
24986408 ATCCCTTTTCGTAGTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
*
24986437 ATCCCATTTCA
1 ATCCCTTTTCA
24986448 CCCGTCAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCAAAGCT
Found at i:24994939 original size:35 final size:35
Alignment explanation
Indices: 24994893--24994960 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
24994883 ACATATGTTG
24994893 CGGTTACTTGACAGCTTGTGTGAGCAGCACCGTAT
1 CGGTTACTTGACAGCTTGTGTGAGCAGCACCGTAT
24994928 CGGTTACTTGACAGCTTGTGTGAGCAGCACCGT
1 CGGTTACTTGACAGCTTGTGTGAGCAGCACCGT
24994961 GTAGCTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (35 bp):
CGGTTACTTGACAGCTTGTGTGAGCAGCACCGTAT
Found at i:25006468 original size:58 final size:57
Alignment explanation
Indices: 25006350--25006501 Score: 184
Period size: 58 Copynumber: 2.7 Consensus size: 57
25006340 AATAGTTATG
* *
25006350 ATTTT-TT-AATT-TATATAATAATAATTATATTAAGAATTTCATTAAATTATATATT
1 ATTTTATTAAATTATATTTAATAATAATTATATTAA-AATATCATTAAATTATATATT
* * ** *
25006405 ATTTTATTAAGTTATATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATT
1 ATTTTATTAAATTATATTTAATAATAATTATATTAAAATATCATTAAATTATATATT
* *
25006462 ATTTTTATTAAATTATTTTTAATAATAATTTTATTAAAAT
1 A-TTTTATTAAATTATATTTAATAATAATTATATTAAAAT
25006502 TTAATAACAA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
55 5 0.06
56 2 0.02
57 21 0.26
58 54 0.66
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (57 bp):
ATTTTATTAAATTATATTTAATAATAATTATATTAAAATATCATTAAATTATATATT
Found at i:25006478 original size:14 final size:14
Alignment explanation
Indices: 25006459--25006499 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
25006449 TAAATTATTT
25006459 ATTATTTTTATTAA
1 ATTATTTTTATTAA
*
25006473 ATTATTTTTAAT-A
1 ATTATTTTTATTAA
*
25006486 A-TAATTTTATTAA
1 ATTATTTTTATTAA
25006499 A
1 A
25006500 ATTTAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTTTATTAA
Found at i:25009894 original size:46 final size:46
Alignment explanation
Indices: 25009839--25010014 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
25009829 TATTTGGGCA
25009839 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
25009885 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
25009932 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
25009978 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25010015 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25009994 original size:93 final size:93
Alignment explanation
Indices: 25009835--25010006 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
25009825 ATGATATTTG
**
25009835 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
25009900 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
25009928 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
25009993 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
25010007 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:25017330 original size:7 final size:7
Alignment explanation
Indices: 25017315--25017346 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
25017305 CATCTGATAA
*
25017315 ATTTTAC
1 ATTTAAC
25017322 ATTTAAC
1 ATTTAAC
25017329 ATTTAAC
1 ATTTAAC
25017336 ATTTAAC
1 ATTTAAC
25017343 ATTT
1 ATTT
25017347 TTATTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (7 bp):
ATTTAAC
Found at i:25017487 original size:3 final size:3
Alignment explanation
Indices: 25017479--25018335 Score: 1714
Period size: 3 Copynumber: 285.7 Consensus size: 3
25017469 TTGGTATGGC
25017479 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017527 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017575 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017623 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017671 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017719 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017767 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017815 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017863 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017911 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25017959 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25018007 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25018055 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25018103 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25018151 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25018199 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25018247 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25018295 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
25018336 TTACATGTGA
Statistics
Matches: 854, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 854 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:25018463 original size:31 final size:30
Alignment explanation
Indices: 25018422--25018480 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
25018412 TATTTGACTC
*
25018422 TTTTTAAAAA-GATTGATGGTCAAATTTAATT
1 TTTTTAAAAAGGA-TGA-GGACAAATTTAATT
*
25018453 TTTTTTAAAAGGATGAGGACAAATTTAA
1 TTTTTAAAAAGGATGAGGACAAATTTAA
25018481 CTCAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 12 0.48
32 2 0.08
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (30 bp):
TTTTTAAAAAGGATGAGGACAAATTTAATT
Found at i:25018476 original size:30 final size:32
Alignment explanation
Indices: 25018422--25018480 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
25018412 TATTTGACTC
*
25018422 TTTTTAAAAAGATTGATGGTCAAATTTAATTT
1 TTTTTAAAAAGATTGATGGACAAATTTAATTT
*
25018454 TTTTTAAAAGGA-TGA-GGACAAATTTAA
1 TTTTTAAAAAGATTGATGGACAAATTTAA
25018481 CTCAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 3 0.12
32 11 0.44
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (32 bp):
TTTTTAAAAAGATTGATGGACAAATTTAATTT
Found at i:25027350 original size:35 final size:35
Alignment explanation
Indices: 25027303--25027369 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
25027293 CCATAATGAC
*
25027303 ATTTCCCGATTATAACTGATTTGATAGATATAGAA
1 ATTTCCCGATTATAACTAATTTGATAGATATAGAA
*
25027338 ATTTCCCTATTATAACTAATTTGATAGATATA
1 ATTTCCCGATTATAACTAATTTGATAGATATA
25027370 TTTCTATATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (35 bp):
ATTTCCCGATTATAACTAATTTGATAGATATAGAA
Found at i:25035357 original size:13 final size:13
Alignment explanation
Indices: 25035335--25035370 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
25035325 GCCTCAGGCA
*
25035335 CGGGCATGTGTCC
1 CGGGCGTGTGTCC
25035348 CGGGCGTGTGTCC
1 CGGGCGTGTGTCC
*
25035361 TGGGCGTGTG
1 CGGGCGTGTG
25035371 AAGCCTGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.03, C:0.25, G:0.47, T:0.25
Consensus pattern (13 bp):
CGGGCGTGTGTCC
Found at i:25036261 original size:15 final size:16
Alignment explanation
Indices: 25036241--25036271 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25036231 TTTTCATTTG
25036241 CATTTCA-TTACTTTC
1 CATTTCATTTACTTTC
25036256 CATTTCATTTACTTTC
1 CATTTCATTTACTTTC
25036272 TTTAGCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (16 bp):
CATTTCATTTACTTTC
Found at i:25040591 original size:46 final size:44
Alignment explanation
Indices: 25040540--25040652 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 44
25040530 CGAGAGCTAG
* *
25040540 TGTAAGACATGTTTGGGACGTGCATCGGCCT-CGAGATGTAAGGCAA
1 TGTAAGACATGTTTGGGACATGCATC-GACTACGAGATGT--GGCAA
* * *
25040586 TGTAAGACATGTCTGGGACATGCATCGACTACGAGATGTGTCAG
1 TGTAAGACATGTTTGGGACATGCATCGACTACGAGATGTGGCAA
25040630 TGTAAGACCATGTTTGGGACATG
1 TGTAAGA-CATGTTTGGGACATG
25040653 GAATCGGCAC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 10 0.17
45 17 0.29
46 32 0.54
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (44 bp):
TGTAAGACATGTTTGGGACATGCATCGACTACGAGATGTGGCAA
Found at i:25040686 original size:94 final size:94
Alignment explanation
Indices: 25040444--25040756 Score: 258
Period size: 94 Copynumber: 3.3 Consensus size: 94
25040434 TTTGTGTGCT
* *
25040444 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-TAT-TAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCACGTATATGTAGAG-CAGTGTAAGACCATGTCT
* *
25040507 GGGACATGGCATCAGCATTGA-GACGA-GAG-C
65 GGGACAT-GCATCAG-ACT-ACGACGATGTGTC
* * * *
25040537 TAGTGTAAGACATGTTTGGGACGTGCATCGGCCTCG-AGATGTA-AGGCAATGTAAGA-CATGTC
1 -AGTGTAAGACATGTTTGGGACATGCATCGGCCACGTATATGTAGA-GCAGTGTAAGACCATGTC
25040599 TGGGACATGCATC-GACTACGA-GATGTGTC
64 TGGGACATGCATCAGACTACGACGATGTGTC
*
25040628 AGTGTAAGACCATGTTTGGGACATGGAATCGG-CACGTATATGTGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACGTATATGT-AGAGC-AGTGTAAGACCATG
* ***
25040692 -CTTGGGACATG-ATGTCAGCCT-CGATTTTGATAGTC
62 TC-TGGGACATGCA--TCAGACTACGACGATG-T-GTC
25040727 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATC
25040757 AACTTGATGG
Statistics
Matches: 182, Mismatches: 17, Indels: 35
0.78 0.07 0.15
Matches are distributed among these distances:
89 3 0.02
90 15 0.08
91 18 0.10
92 16 0.09
93 17 0.09
94 54 0.30
95 16 0.09
96 5 0.03
97 5 0.03
98 1 0.01
99 32 0.18
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCACGTATATGTAGAGCAGTGTAAGACCATGTCTG
GGACATGCATCAGACTACGACGATGTGTC
Found at i:25040746 original size:49 final size:49
Alignment explanation
Indices: 25040625--25040751 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
25040615 TACGAGATGT
*
25040625 GTCAGTGTAAGACCATGTTTGGGACATGGAATCGGCACGTATATGTGAGA
1 GTCAGTGTAAGACCATGTTTGGGACAT-GAATCGCCACGTATATGTGAGA
* * * * *
25040675 G-CTAGTGTAAGACCATGCTTGGGACATGATGTCAGCCTCG-AT-TTTGATA
1 GTC-AGTGTAAGACCATGTTTGGGACATGA-ATC-GCCACGTATATGTGAGA
25040724 GTCAGTGTAAGACCATGTTTGGGACATG
1 GTCAGTGTAAGACCATGTTTGGGACATG
25040752 GCATCAACTT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
49 33 0.50
50 29 0.44
51 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTTTGGGACATGAATCGCCACGTATATGTGAGA
Found at i:25050497 original size:39 final size:39
Alignment explanation
Indices: 25050452--25050533 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
25050442 AAGCAAGACA
25050452 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* *
25050491 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
25050530 CTGG
1 CTGG
25050534 TAACATAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:25056395 original size:22 final size:24
Alignment explanation
Indices: 25056370--25056414 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
25056360 AATTTTGTTC
25056370 AACTTTAACTT-TTAT-TCAAAAA
1 AACTTTAACTTGTTATATCAAAAA
*
25056392 AACTTTAATTTGTTATATCAAAA
1 AACTTTAACTTGTTATATCAAAA
25056415 CATATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (24 bp):
AACTTTAACTTGTTATATCAAAAA
Found at i:25060719 original size:6 final size:6
Alignment explanation
Indices: 25060701--25060756 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
25060691 TCCAAATGAA
* * *
25060701 TCATTT CTCATTT TCATTT TCATTT TCATTT CCATTT CCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
*
25060750 CCATTT T
1 TCATTT T
25060757 TTGAGAAACC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 41 0.87
7 6 0.13
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:25060731 original size:18 final size:18
Alignment explanation
Indices: 25060701--25060756 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
25060691 TCCAAATGAA
*
25060701 TCATTTCTCATTTTCATTT
1 TCATTT-TCATTTCCATTT
25060720 TCATTTTCATTTCCATTT
1 TCATTTTCATTTCCATTT
* *
25060738 CCATTTCCATTTCCATTT
1 TCATTTTCATTTCCATTT
25060756 T
1 T
25060757 TTGAGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
18 27 0.82
19 6 0.18
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (18 bp):
TCATTTTCATTTCCATTT
Found at i:25061804 original size:27 final size:27
Alignment explanation
Indices: 25061774--25061829 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
25061764 GTGTTTTGTG
* *
25061774 ATCTTGACATCAACAATGGTAGCTTAA
1 ATCTTGACATAAAAAATGGTAGCTTAA
*
25061801 ATCTTGACATAAAAAATTGTAGCTTAA
1 ATCTTGACATAAAAAATGGTAGCTTAA
25061828 AT
1 AT
25061830 AATTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.32
Consensus pattern (27 bp):
ATCTTGACATAAAAAATGGTAGCTTAA
Found at i:25064459 original size:48 final size:47
Alignment explanation
Indices: 25064396--25064486 Score: 128
Period size: 48 Copynumber: 1.9 Consensus size: 47
25064386 AACACACCAT
* * *
25064396 TTGTAGACAAGCCACCACATAATTTCCTATAAACGGCAACATAACACA
1 TTGTAGACAAACCACCACATAATTACCAAT-AACGGCAACATAACACA
* *
25064444 TTGTGGACAAACCACCACATAATTACCAATAACGGCCACATAA
1 TTGTAGACAAACCACCACATAATTACCAATAACGGCAACATAA
25064487 TTGCAGATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 12 0.32
48 26 0.68
ACGTcount: A:0.42, C:0.27, G:0.11, T:0.20
Consensus pattern (47 bp):
TTGTAGACAAACCACCACATAATTACCAATAACGGCAACATAACACA
Found at i:25065886 original size:16 final size:16
Alignment explanation
Indices: 25065858--25065893 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
25065848 TTATTTGTCA
25065858 AAAAAGGAGAGAAAATG
1 AAAAAGGAGAGAAAA-G
25065875 AAAAAGGA-AGAAAAG
1 AAAAAGGAGAGAAAAG
25065890 AAAA
1 AAAA
25065894 GAAAAGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 6 0.32
17 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (16 bp):
AAAAAGGAGAGAAAAG
Found at i:25070506 original size:15 final size:15
Alignment explanation
Indices: 25070482--25070511 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25070472 CTAATGTATT
25070482 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
25070497 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
25070512 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:25086949 original size:17 final size:16
Alignment explanation
Indices: 25086927--25086960 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
25086917 TCATCCCCTC
*
25086927 ATGGAGTGTAGTGCTAG
1 ATGGAGTGGAGTG-TAG
25086944 ATGGAGTGGAGTGTAG
1 ATGGAGTGGAGTGTAG
25086960 A
1 A
25086961 GGATGGATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.03, G:0.44, T:0.26
Consensus pattern (16 bp):
ATGGAGTGGAGTGTAG
Found at i:25093026 original size:12 final size:12
Alignment explanation
Indices: 25093007--25093036 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25092997 GAATTGGTCA
25093007 GAGGAGAGATTT
1 GAGGAGAGATTT
*
25093019 GGGGAGAGATTT
1 GAGGAGAGATTT
25093031 GAGGAG
1 GAGGAG
25093037 TGGTAGTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (12 bp):
GAGGAGAGATTT
Found at i:25097563 original size:39 final size:42
Alignment explanation
Indices: 25097479--25097580 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 42
25097469 ATATATAGTG
* *
25097479 TATAACATAATTTATA-AATAAAATATATAATAATATAAACCA
1 TATAATATAATATATATAA-AAAATATATAATAATATAAACCA
*
25097521 TATAATA-AATA-ATATAAAAAATATAT-ATAATA-AAACGTA
1 TATAATATAATATATATAAAAAATATATAATAATATAAAC-CA
25097560 TATAATATAATATATATAAAA
1 TATAATATAATATATATAAAA
25097581 GAAAGAAAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
38 4 0.08
39 14 0.26
40 16 0.30
41 13 0.25
42 6 0.11
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (42 bp):
TATAATATAATATATATAAAAAATATATAATAATATAAACCA
Found at i:25097622 original size:17 final size:17
Alignment explanation
Indices: 25097602--25097637 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25097592 ATTATAATGA
25097602 ATAATATATAACAAAAT
1 ATAATATATAACAAAAT
* *
25097619 ATAATATGTAATAAAAT
1 ATAATATATAACAAAAT
25097636 AT
1 AT
25097638 GTAGATAAAA
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:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAATATATAACAAAAT
Found at i:25097687 original size:27 final size:27
Alignment explanation
Indices: 25097642--25097783 Score: 130
Period size: 26 Copynumber: 5.1 Consensus size: 27
25097632 AAATATGTAG
*
25097642 ATAAAAT-ATAAT-ATAATAAGGAATAT
1 ATAAAATAATAATAATAATAA-AAATAT
25097668 ATAAAATAATAATAAT-ATAAAAATAT
1 ATAAAATAATAATAATAATAAAAATAT
25097694 AGTAAAATAAATAATATATAATAAAAATAT
1 A-TAAAAT-AATAATA-ATAATAAAAATAT
* * *
25097724 ATAACAT-ATAATAAAAATATAAATAT
1 ATAAAATAATAATAATAATAAAAATAT
*
25097750 AAAAGAATAAATAATATATATAATAAAAATAT
1 ATAA-AAT-AAT-A-ATA-ATAATAAAAATAT
25097782 AT
1 AT
25097784 GATAAAATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
26 27 0.28
27 23 0.24
28 9 0.09
29 9 0.09
30 12 0.13
31 3 0.03
32 12 0.13
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAAAATAATAATAATAATAAAAATAT
Found at i:25097715 original size:38 final size:37
Alignment explanation
Indices: 25097673--25097790 Score: 111
Period size: 38 Copynumber: 3.2 Consensus size: 37
25097663 AATATATAAA
*
25097673 ATAATAATAATATAAAAATATAGTAAAATAAATAATAT
1 ATAATAAAAATATAAAAATATA-TAAAATAAATAATAT
* *
25097711 ATAATAAAAATATATAACATATAATAAAA-ATATAA-AT
1 ATAATAAAAATATA-AAAATAT-ATAAAATAAATAATAT
* * *
25097748 ATAA-AAGAATA-AATAATATATATAATAAA-AATAT
1 ATAATAAAAATATAAAAATATATAAAATAAATAATAT
*
25097782 ATGATAAAA
1 ATAATAAAA
25097791 TTTTTTAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
33 7 0.11
34 12 0.18
35 4 0.06
36 6 0.09
37 6 0.09
38 18 0.28
39 11 0.17
40 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.30
Consensus pattern (37 bp):
ATAATAAAAATATAAAAATATATAAAATAAATAATAT
Found at i:25097723 original size:56 final size:58
Alignment explanation
Indices: 25097646--25097783 Score: 169
Period size: 58 Copynumber: 2.4 Consensus size: 58
25097636 ATGTAGATAA
* *
25097646 AATATAATATAATAAGGAATATATAA-A-ATAATAATAATATAAAAATATAGTAA-AATAAAT
1 AATAT-ATATAATAA-AAATATATAACATATAATAA-AA-ATAAAAATATA-AAAGAATAAAT
*
25097706 -A-ATATATAATAAAAATATATAACATATAATAAAAATATAAATATAAAAGAATAAAT
1 AATATATATAATAAAAATATATAACATATAATAAAAATAAAAATATAAAAGAATAAAT
25097762 AATATATATAATAAAAATATAT
1 AATATATATAATAAAAATATAT
25097784 GATAAAATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
55 2 0.03
56 26 0.37
57 13 0.19
58 28 0.40
59 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (58 bp):
AATATATATAATAAAAATATATAACATATAATAAAAATAAAAATATAAAAGAATAAAT
Found at i:25099533 original size:44 final size:44
Alignment explanation
Indices: 25099468--25099551 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
25099458 GCCATGTTGA
*
25099468 TATCTTCGATCTGCTCTCTGACAAAACAGAGACCCCAAATTTGC
1 TATCTTCGATCTGCTCCCTGACAAAACAGAGACCCCAAATTTGC
* * * *
25099512 TATCTTTGATCTGCTCCCTGACAATATAGAGACTCCAAAT
1 TATCTTCGATCTGCTCCCTGACAAAACAGAGACCCCAAAT
25099552 CATCTTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (44 bp):
TATCTTCGATCTGCTCCCTGACAAAACAGAGACCCCAAATTTGC
Found at i:25099796 original size:44 final size:44
Alignment explanation
Indices: 25099746--25099860 Score: 178
Period size: 44 Copynumber: 2.6 Consensus size: 44
25099736 TTCGATTTGT
*
25099746 TCTCTGACAATACAGAAACACCAAATCTACTATCTTTGATCTGC
1 TCTCTGACAATACAGAAACGCCAAATCTACTATCTTTGATCTGC
*
25099790 TCTCTGACAATACA-AAGACGCCAAATCTGCTATCTTTGATCTGC
1 TCTCTGACAATACAGAA-ACGCCAAATCTACTATCTTTGATCTGC
* *
25099834 TCTCTGACAATATAGAGACGCCAAATC
1 TCTCTGACAATACAGAAACGCCAAATC
25099861 ATCTTAGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
43 2 0.03
44 62 0.95
45 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (44 bp):
TCTCTGACAATACAGAAACGCCAAATCTACTATCTTTGATCTGC
Found at i:25100033 original size:308 final size:306
Alignment explanation
Indices: 25099468--25100046 Score: 869
Period size: 308 Copynumber: 1.9 Consensus size: 306
25099458 GCCATGTTGA
* *
25099468 TATCTTCGATCTGCTCTCTGACAAAACAGAGACCCCAAATTTGCTATCTTTGATCTGCTCCCTGA
1 TATCTTCGATCTGCTCTCTGACAAAACAAAGACCCCAAATCTGCTATCTTTGATCTGCTCCCTGA
* * * *
25099533 CAATATAGAGACTCCAAATCATCTTATATCTGCTTCAGCGTAAACACGTGAAAGAAAAATCTGCT
66 CAATATAGAGACGCCAAATCATCTTAGATCTGCTTCAGCGCAAACACGTGAAAGAAAAATCTACT
25099598 ATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTAGATCTATTTCGATATGA
131 ATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTAGATCTATTT--ATATGA
* * *
25099663 AAACATCCGAAGGTTGGATCTGCTATGTCTTTGATCTATTCTCCGTCGAATATGGAGATGCCAAA
194 AAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAA
25099728 TC-AGTTTCTTCGATTTGTTCTCTGACAATACAGAAACACCAAATCTAC
259 TCTA-TTTCTTCGATTTGTTCTCTGACAATACAGAAACACCAAATCTAC
* * * *
25099776 TATCTTTGATCTGCTCTCTGACAATACAAAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGA
1 TATCTTCGATCTGCTCTCTGACAAAACAAAGACCCCAAATCTGCTATCTTTGATCTGCTCCCTGA
* **
25099841 CAATATAGAGACGCCAAATCATCTTAGAT-TCGCTTTAGCGCAAACACGTGAAAGCCAAATCTAC
66 CAATATAGAGACGCCAAATCATCTTAGATCT-GCTTCAGCGCAAACACGTGAAAGAAAAATCTAC
* * *
25099905 TATGTCTTCGATCTGCTCCTTGTAAATGCAAGGATGCCAAATCCTCTTAGATCTGCTTT-TATGC
130 TATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTAGATCT-ATTTATATG-
* *
25099969 AAAAACATTCGAAGGTTAGATCTGCTATGTCTTCGATC-AGCTCTTCGTCGAATATGGAGATGCC
193 -AAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTA-CTCTCCGTCGAATATGGAGATGCC
25100033 AAATCTATTTCTTC
256 AAATCTATTTCTTC
25100047 AACTGGTTCC
Statistics
Matches: 244, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
306 4 0.02
307 2 0.01
308 234 0.96
309 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (306 bp):
TATCTTCGATCTGCTCTCTGACAAAACAAAGACCCCAAATCTGCTATCTTTGATCTGCTCCCTGA
CAATATAGAGACGCCAAATCATCTTAGATCTGCTTCAGCGCAAACACGTGAAAGAAAAATCTACT
ATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTAGATCTATTTATATGAAA
ACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATC
TATTTCTTCGATTTGTTCTCTGACAATACAGAAACACCAAATCTAC
Done.