Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 194 of 313
Found at i:59526296 original size:123 final size:123
Alignment explanation
Indices: 59526071--59526306 Score: 350
Period size: 123 Copynumber: 1.9 Consensus size: 123
59526061 TTTGGGGTAC
* ** * * *
59526071 TTAGCGGCGTTTTTGAAAAATTGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGAAAAAGCGC
1 TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCTTAGGCCTTTAGAGGCGTTTTTGAAAAAGCGC
* * * *
59526136 CGCTAATGCTCTGGCCTTTAGCGGCGTTTTTCAAAAAGTGCTGCTAATGCTCGGGGCT
66 CACTAATGCTCTGGCCTTTAGCGGCGATTTTCAAAAAGCGCCGCTAATGCTCGGGGCT
59526194 TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCTCTA-GCCTTTAGAGGCGTTTTTGAAAAAGCG
1 TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCT-TAGGCCTTTAGAGGCGTTTTTGAAAAAGCG
59526258 CCACTAATGCTCTGGCCTTTAGCGGCGATTTT-AGAAAAGCGCCGCTAAT
65 CCACTAATGCTCTGGCCTTTAGCGGCGATTTTCA-AAAAGCGCCGCTAAT
59526307 TATAAAATCT
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
122 1 0.01
123 98 0.97
124 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (123 bp):
TTAGCGGCATTTTTGAAAAAGCGCCACTAATGCTTAGGCCTTTAGAGGCGTTTTTGAAAAAGCGC
CACTAATGCTCTGGCCTTTAGCGGCGATTTTCAAAAAGCGCCGCTAATGCTCGGGGCT
Found at i:59531748 original size:17 final size:17
Alignment explanation
Indices: 59531680--59531738 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
59531670 TAATCACATT
*
59531680 AATATTAAA-TTAATAA
1 AATATTAAATTTAATTA
*
59531696 AATATT--ATCTAGA-TA
1 AATATTAAATTTA-ATTA
*
59531711 AATATTAAATTTAATTT
1 AATATTAAATTTAATTA
59531728 AATATTAAATT
1 AATATTAAATT
59531739 CATTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
14 1 0.03
15 9 0.26
16 8 0.24
17 16 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AATATTAAATTTAATTA
Found at i:59534505 original size:49 final size:49
Alignment explanation
Indices: 59534452--59534571 Score: 177
Period size: 49 Copynumber: 2.4 Consensus size: 49
59534442 TAACGATGAC
* * * *
59534452 TTTCACTATTTACATATTCTACCATCTCAGGTGGCTCGACATTGATGGT
1 TTTCACTATTTACATATTCTACCATCCCAGGTGGCCCGACAATGATGCT
*
59534501 TTTCACTATTTGCATATTCTACCATCCCAGGTGGCCCGACAATGATGCT
1 TTTCACTATTTACATATTCTACCATCCCAGGTGGCCCGACAATGATGCT
* *
59534550 TTTTACTATTTTCATATTCTAC
1 TTTCACTATTTACATATTCTAC
59534572 TTTGGCTGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (49 bp):
TTTCACTATTTACATATTCTACCATCCCAGGTGGCCCGACAATGATGCT
Found at i:59542001 original size:9 final size:9
Alignment explanation
Indices: 59541987--59542020 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
59541977 GTTACTCAAA
59541987 GAAATTTTT
1 GAAATTTTT
59541996 GAAATTTTT
1 GAAATTTTT
*
59542005 AAAAATTTTT
1 -GAAATTTTT
59542015 GAAATT
1 GAAATT
59542021 CTTATTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (9 bp):
GAAATTTTT
Found at i:59542570 original size:108 final size:109
Alignment explanation
Indices: 59542367--59542579 Score: 268
Period size: 108 Copynumber: 2.0 Consensus size: 109
59542357 ATATTATTAT
* * * * *
59542367 TATAATATTAATAACCCTTTAAAATAAGATATTTTAGTAATTTTATAATTGAGTTGGTGTTGAGT
1 TATAATATTAATAACCCTTTAAAATAAGATA-TTTAGTAATTTCACAACTGAGTTGGTGTCGAAT
* * * * *
59542432 TGGCTCGTGACACCAACTCACTCAGCCATTT-TATTTATAAAATA
65 TGACTCATGACACCAACTCAATCAACCATTTATATATATAAAATA
* * *
59542476 TATAATATTTATTACCCTTTAAAATAAGAGTA-TTAGTAATTTCACAACTGGGTTGGTGTCGAAT
1 TATAATATTAATAACCCTTTAAAATAAGA-TATTTAGTAATTTCACAACTGAGTTGGTGTCGAAT
*
59542540 TGACTCATGACACCAACTCAATCAATCATTTATATATATA
65 TGACTCATGACACCAACTCAATCAACCATTTATATATATA
59542580 GTATAGATTA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
108 52 0.59
109 34 0.39
110 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (109 bp):
TATAATATTAATAACCCTTTAAAATAAGATATTTAGTAATTTCACAACTGAGTTGGTGTCGAATT
GACTCATGACACCAACTCAATCAACCATTTATATATATAAAATA
Found at i:59543261 original size:21 final size:22
Alignment explanation
Indices: 59543222--59543278 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
59543212 TATTTCTGCA
59543222 TTTCAACACTTACAA-TTTTAAC
1 TTTCAACACTTA-AATTTTTAAC
59543244 TTTCAACACTTAAATTTTTAAC
1 TTTCAACACTTAAATTTTTAAC
*
59543266 TTTCCACA-TTAAA
1 TTTCAACACTTAAA
59543279 ATTTCAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 7 0.21
22 26 0.79
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTCAACACTTAAATTTTTAAC
Found at i:59543280 original size:22 final size:21
Alignment explanation
Indices: 59543237--59543297 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
59543227 ACACTTACAA
*
59543237 TTTTAACTTTCAACACTTAAAT
1 TTTTAACTTTCCACA-TTAAAT
59543259 TTTTAACTTTCCACATTAAAAT
1 TTTTAACTTTCCACATT-AAAT
** *
59543281 TTCAAAATTTCCACATT
1 TTTTAACTTTCCACATT
59543298 TTCAACACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 32 0.94
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTAACTTTCCACATTAAAT
Found at i:59543497 original size:37 final size:37
Alignment explanation
Indices: 59543463--59543815 Score: 323
Period size: 37 Copynumber: 9.5 Consensus size: 37
59543453 CTATCATATA
59543463 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
1 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
* * * * * *
59543500 TTGAAGCATGACGATAAGTCCAGCGGACTGCCATAAC
1 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
** * * *
59543537 TTGAAATGTGAGAACAAGTCCAACGAAATGTCATAAC
1 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
* * * *
59543574 TTGAAACGTGAGGAAAAGTCTAGCGGATTGTCATAAC
1 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
* * * * * *
59543611 TTGAAGCATGACGATAAGTCCAGCGGATAGCCATAAC
1 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
* * *
59543648 TTGAAACGTGAGGACAAGTCCAACGAAATGTCATAAC
1 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
* * * *
59543685 TTGAAACGTGAGGAAAATTCTAGCGGAA-TGTCATAAC
1 TTGAAACATGAGGACAAGTCCAGC-GAATTGTCATAAC
* * **
59543722 TTGATACGAT-AGGACAAGTTCAGCGGGTTGTCATAAC
1 TTGAAAC-ATGAGGACAAGTCCAGCGAATTGTCATAAC
* * * * *
59543759 TTGAAACATGAGTAAAAGTCCAGCAAACTGTCATTAC
1 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
* *
59543796 TTGAAACATAACGACAAGTC
1 TTGAAACATGAGGACAAGTC
59543816 TAGCAGACTA
Statistics
Matches: 248, Mismatches: 64, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
36 3 0.01
37 241 0.97
38 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (37 bp):
TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAAC
Found at i:59543609 original size:111 final size:110
Alignment explanation
Indices: 59543463--59543802 Score: 445
Period size: 111 Copynumber: 3.1 Consensus size: 110
59543453 CTATCATATA
* * * *
59543463 TTGAAACATGAGGACAAGTCCAGCGAATTGTCATAACTTGAAGCATGACGATAAGTCCAGCGGAC
1 TTGAAACGTGAGGAAAAGTCTAGCGGATTGTCATAACTTGAAGCATGACGATAAGTCCAGCGGA-
*
59543528 TGCCATAACTTGAAATGTGAGAACAAGTCCAACGAAATGTCATAAC
65 TGCCATAACTTGAAACGTGAGAACAAGTCCAACGAAATGTCATAAC
59543574 TTGAAACGTGAGGAAAAGTCTAGCGGATTGTCATAACTTGAAGCATGACGATAAGTCCAGCGGAT
1 TTGAAACGTGAGGAAAAGTCTAGCGGATTGTCATAACTTGAAGCATGACGATAAGTCCAGCGGAT
*
59543639 AGCCATAACTTGAAACGTGAGGACAAGTCCAACGAAATGTCATAAC
66 -GCCATAACTTGAAACGTGAGAACAAGTCCAACGAAATGTCATAAC
* * * * *
59543685 TTGAAACGTGAGGAAAATTCTAGCGGAATGTCATAACTTGATA-CGAT-AGGACAAGTTCAGCGG
1 TTGAAACGTGAGGAAAAGTCTAGCGGATTGTCATAACTTGA-AGC-ATGACGATAAGTCCAGC-G
* * * * *
59543748 GTTGTCATAACTTGAAACATGAGTAA-AAGTCCAGC-AAACTGTCATTAC
63 GATGCCATAACTTGAAACGTGAG-AACAAGTCCAACGAAA-TGTCATAAC
59543796 TTGAAAC
1 TTGAAAC
59543803 ATAACGACAA
Statistics
Matches: 206, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
110 4 0.02
111 195 0.95
112 7 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (110 bp):
TTGAAACGTGAGGAAAAGTCTAGCGGATTGTCATAACTTGAAGCATGACGATAAGTCCAGCGGAT
GCCATAACTTGAAACGTGAGAACAAGTCCAACGAAATGTCATAAC
Found at i:59546521 original size:25 final size:25
Alignment explanation
Indices: 59546487--59546535 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
59546477 ACTCTACTTT
*
59546487 TCCGAAAAGATGAGAAATTTGTATA
1 TCCGAAAAGATGAAAAATTTGTATA
59546512 TCCGAAAAGATGAAAAATTTGTAT
1 TCCGAAAAGATGAAAAATTTGTAT
59546536 GGTTTAAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (25 bp):
TCCGAAAAGATGAAAAATTTGTATA
Found at i:59560077 original size:20 final size:20
Alignment explanation
Indices: 59560024--59560169 Score: 90
Period size: 20 Copynumber: 7.4 Consensus size: 20
59560014 TAATATTTTA
* *
59560024 AGTACTTTTTTAAGAAATTT
1 AGTAATTTTGTAAGAAATTT
*
59560044 -GATAATAGTT-TAAGAAATTT
1 AG-TAAT-TTTGTAAGAAATTT
*
59560064 AGTACTTTTGTAAGAAA-TT
1 AGTAATTTTGTAAGAAATTT
* *
59560083 ACGTAATGTT-TAAGAGATTGT
1 A-GTAATTTTGTAAGAAATT-T
* * *
59560104 -GTAATTGTCTAAGAGATTT
1 AGTAATTTTGTAAGAAATTT
** *
59560123 AGTAGGTTTGTAAGAAATTA
1 AGTAATTTTGTAAGAAATTT
59560143 AG-AACTTTTGTAAGAAATTT
1 AGTAA-TTTTGTAAGAAATTT
59560163 AG-AATTT
1 AGTAATTT
59560170 ATAAGAGATT
Statistics
Matches: 98, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
19 23 0.23
20 71 0.72
21 4 0.04
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (20 bp):
AGTAATTTTGTAAGAAATTT
Found at i:59561909 original size:21 final size:20
Alignment explanation
Indices: 59561815--59561909 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 20
59561805 CGACAAAGTC
*
59561815 TAAGAAATTCAGTAATT-TT
1 TAAGAGATTCAGTAATTGTT
*
59561834 TAAGAGATTCAGTAATCT-TG
1 TAAGAGATTCAGTAAT-TGTT
59561854 TAAG-GAATTCAGTAATTGTT
1 TAAGAG-ATTCAGTAATTGTT
*
59561874 TAAGAGATAT-TGTAATTTGTT
1 TAAGAGAT-TCAGTAA-TTGTT
*
59561895 TAAGAGATTTAGTAA
1 TAAGAGATTCAGTAA
59561910 CTCTATTAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
19 17 0.27
20 28 0.44
21 19 0.30
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (20 bp):
TAAGAGATTCAGTAATTGTT
Found at i:59573343 original size:28 final size:28
Alignment explanation
Indices: 59573311--59573367 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
59573301 TATGACAATA
*
59573311 TCATTCGATGAGCACTGAGTAGTTGCTT
1 TCATTCGACGAGCACTGAGTAGTTGCTT
*
59573339 TCATTGGACGAGCACTGAGTAGTTGCTT
1 TCATTCGACGAGCACTGAGTAGTTGCTT
59573367 T
1 T
59573368 TGTAATGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (28 bp):
TCATTCGACGAGCACTGAGTAGTTGCTT
Found at i:59573894 original size:28 final size:28
Alignment explanation
Indices: 59573837--59573894 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
59573827 ATATTTTCTT
*
59573837 AAAATTTTACCAAGGGTAAAATCGTTAA
1 AAAATTTTACCAAGGGTAAAATCGTCAA
* *
59573865 AAAATTTTACCATGGGTAAAATTGTCAA
1 AAAATTTTACCAAGGGTAAAATCGTCAA
59573893 AA
1 AA
59573895 TGTTACTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (28 bp):
AAAATTTTACCAAGGGTAAAATCGTCAA
Found at i:59574939 original size:18 final size:16
Alignment explanation
Indices: 59574916--59574949 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
59574906 AAAAAAGTAT
59574916 TTTAAAAATATTTTAAAA
1 TTTAAAAA-A-TTTAAAA
59574934 TTTAAAAAATTTAAAA
1 TTTAAAAAATTTAAAA
59574950 AATAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAAAAATTTAAAA
Found at i:59574951 original size:18 final size:18
Alignment explanation
Indices: 59574916--59574963 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
59574906 AAAAAAGTAT
*
59574916 TTTAAAAATATTTTAAAA
1 TTTAAAAATATTTAAAAA
59574934 TTTAAAAA-ATTTAAAAA
1 TTTAAAAATATTTAAAAA
* *
59574951 -ATAAATATATTTA
1 TTTAAAAATATTTA
59574964 TTATATCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAAAAATATTTAAAAA
Found at i:59582520 original size:24 final size:23
Alignment explanation
Indices: 59582491--59582547 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
59582481 TTATTTATCC
* **
59582491 TATTTATTTTTAATAAAATTAATT
1 TATTTATTTTAAATAAAA-TAAAG
*
59582515 TATTTACTTTAAATAAAATAAAG
1 TATTTATTTTAAATAAAATAAAG
59582538 TATTTATTTT
1 TATTTATTTT
59582548 GTTATCTAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTTATTTTAAATAAAATAAAG
Found at i:59583724 original size:62 final size:62
Alignment explanation
Indices: 59583604--59583726 Score: 165
Period size: 62 Copynumber: 2.0 Consensus size: 62
59583594 TATTATTTTT
* * * **
59583604 CTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCACTAAATTATGCTTTTTTTTCC
1 CTTTTCTGGTCACCCAACTATGAAAAGTTACAAAATGGCCACTAAACTATGCGATTTTTTCC
* * * *
59583666 CTTTTCTGGTCTCCCAACTATGAAAAGTTATAAAATGGCCACTCAACTATTCGATTTTTTC
1 CTTTTCTGGTCACCCAACTATGAAAAGTTACAAAATGGCCACTAAACTATGCGATTTTTTC
59583727 TTTTTTTGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (62 bp):
CTTTTCTGGTCACCCAACTATGAAAAGTTACAAAATGGCCACTAAACTATGCGATTTTTTCC
Found at i:59583854 original size:60 final size:60
Alignment explanation
Indices: 59583776--59583927 Score: 188
Period size: 61 Copynumber: 2.5 Consensus size: 60
59583766 TACGTTAGTC
* ** *
59583776 AGTTGGTGACCAAGAAAGACAAAA-TTAA-ATAGTTGGTTGACCATATTT-TAACTTTTCAT
1 AGTTGGTGACCAAAAAAGA-AAAAGAAAACATAGTTGGGTGACCAT-TTTGTAACTTTTCAT
59583835 AGTTGAGTGACCAAAAAAGAAAAAGAAAACATAGTTGGGTGACCATTTTGTAACTTTTCAT
1 AGTTG-GTGACCAAAAAAGAAAAAGAAAACATAGTTGGGTGACCATTTTGTAACTTTTCAT
*
59583896 AATTGGATGACCAAAAAAG-AAAA-AAAACATAG
1 AGTTGG-TGACCAAAAAAGAAAAAGAAAACATAG
59583928 GTGACTACTA
Statistics
Matches: 83, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
59 18 0.22
60 23 0.28
61 42 0.51
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (60 bp):
AGTTGGTGACCAAAAAAGAAAAAGAAAACATAGTTGGGTGACCATTTTGTAACTTTTCAT
Found at i:59586869 original size:13 final size:13
Alignment explanation
Indices: 59586851--59586876 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59586841 TGAAATCTTA
59586851 ATTATAATAATTT
1 ATTATAATAATTT
59586864 ATTATAATAATTT
1 ATTATAATAATTT
59586877 CGGTAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:59590107 original size:19 final size:20
Alignment explanation
Indices: 59590083--59590121 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
59590073 TACTAATTGG
59590083 TCCTA-TACCAATTCACTTC
1 TCCTATTACCAATTCACTTC
*
59590102 TCCTATTTACGAATTCACTT
1 TCCTA-TTACCAATTCACTT
59590122 ATTTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.26, C:0.31, G:0.03, T:0.41
Consensus pattern (20 bp):
TCCTATTACCAATTCACTTC
Found at i:59593781 original size:18 final size:17
Alignment explanation
Indices: 59593752--59593787 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
59593742 TCACATTCTT
59593752 TCAATCTCAATTTATCA
1 TCAATCTCAATTTATCA
59593769 TCAATCATCAATTTATCA
1 TCAATC-TCAATTTATCA
59593787 T
1 T
59593788 ATAACACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (17 bp):
TCAATCTCAATTTATCA
Found at i:59595082 original size:63 final size:63
Alignment explanation
Indices: 59594999--59595119 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
59594989 TCACACGGCA
* * * * *
59594999 TGGACACACGCTCATGTCTCTTGCCCGTGTGTCTCTAATTCCAAAACAGTGACTTACACAGTT
1 TGGACACACGCCCATGTCTCTAGCCCGTGGGCCTCTAATGCCAAAACAGTGACTTACACAGTT
* * * *
59595062 TGGACACATGCCCGTGTCTCTAGCCCGTGGGCCTCTAATGCTAAAACAGTGAGTTACA
1 TGGACACACGCCCATGTCTCTAGCCCGTGGGCCTCTAATGCCAAAACAGTGACTTACA
59595120 TGGCTTGCCA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (63 bp):
TGGACACACGCCCATGTCTCTAGCCCGTGGGCCTCTAATGCCAAAACAGTGACTTACACAGTT
Found at i:59596874 original size:20 final size:20
Alignment explanation
Indices: 59596821--59596874 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
59596811 GAAATTATTT
* *
59596821 TCTT-AATTAATTTAATTAA
1 TCTTAAATTAATTAAATAAA
* * *
59596840 CCTTAATTTAGTTAAATAAA
1 TCTTAAATTAATTAAATAAA
59596860 TCTTAAATTAATTAA
1 TCTTAAATTAATTAA
59596875 GTTAATTGAC
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (20 bp):
TCTTAAATTAATTAAATAAA
Found at i:59599735 original size:13 final size:13
Alignment explanation
Indices: 59599717--59599746 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59599707 GTATCCATTA
59599717 TATGATTACGTAC
1 TATGATTACGTAC
*
59599730 TATGATTACGTGC
1 TATGATTACGTAC
59599743 TATG
1 TATG
59599747 TTATTAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (13 bp):
TATGATTACGTAC
Found at i:59600713 original size:64 final size:64
Alignment explanation
Indices: 59600590--59600714 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 64
59600580 GGATGCATTG
* * *
59600590 TTTAAATGCGTGACATTTATAAGTATTAGATTTATTTATTGAGTTTTATGGATGCTTATTTTTC
1 TTTAAATGCATGACATTTATAAGTATTAGATTTATTTATTGAGTTTCACGGATGCTTATTTTTC
* * * *
59600654 TTTAAATGCATGACATTTATAAGTCTTGGATTTATTTATTGAGTTTCACGTATGTTTATTT
1 TTTAAATGCATGACATTTATAAGTATTAGATTTATTTATTGAGTTTCACGGATGCTTATTT
59600715 GACATATCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.51
Consensus pattern (64 bp):
TTTAAATGCATGACATTTATAAGTATTAGATTTATTTATTGAGTTTCACGGATGCTTATTTTTC
Found at i:59602942 original size:28 final size:28
Alignment explanation
Indices: 59602888--59602942 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
59602878 CACAACTTAA
* * * *
59602888 TCTTTTTCTTCTTCTTCTTCTTTTTATG
1 TCTTTTTATTCTTATTCTTATTCTTATG
*
59602916 TCTTTTTATTTTTATTCTTATTCTTAT
1 TCTTTTTATTCTTATTCTTATTCTTAT
59602943 TCACATTGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (28 bp):
TCTTTTTATTCTTATTCTTATTCTTATG
Found at i:59606503 original size:62 final size:64
Alignment explanation
Indices: 59606428--59606553 Score: 159
Period size: 63 Copynumber: 2.0 Consensus size: 64
59606418 CAATTTGTAG
** * *
59606428 TAGATATCGCAATTATTTAAGTTTATCTT-TAATCAAATTAATATTTAAATACTACTTT-TATT
1 TAGATATCGCAATTATTTAACATTATCTTCTAACCAAATTAATATATAAATACTACTTTATATT
* * *
59606490 TAGATA-CGACAATTATTTAACATTATTTTCTTACCAAATTAATATATAGATACTACTTTATATT
1 TAGATATCG-CAATTATTTAACATTATCTTCTAACCAAATTAATATATAAATACTACTTTATATT
59606554 AGTTTACCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
61 2 0.04
62 23 0.43
63 25 0.46
64 4 0.07
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (64 bp):
TAGATATCGCAATTATTTAACATTATCTTCTAACCAAATTAATATATAAATACTACTTTATATT
Found at i:59607504 original size:21 final size:21
Alignment explanation
Indices: 59607480--59607526 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
59607470 ATATATTTAG
59607480 TATTTATATATATTT-AATATA
1 TATTTATAT-TATTTGAATATA
* *
59607501 TATTTTTATTTTTTGAATATA
1 TATTTATATTATTTGAATATA
59607522 TATTT
1 TATTT
59607527 GTAAGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTATATTATTTGAATATA
Found at i:59607960 original size:41 final size:41
Alignment explanation
Indices: 59607915--59608015 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 41
59607905 CCTTGAAATC
* *
59607915 TAAGTAAATATCC-ATATCATGTTTGCCTTGAAGACAAAGCT
1 TAAGTAAATA-CCTATATCATGCTCGCCTTGAAGACAAAGCT
*
59607956 TAAGTAAATACCTGTATCATGCTCGCCTTGAAGACAAAGCT
1 TAAGTAAATACCTATATCATGCTCGCCTTGAAGACAAAGCT
*
59607997 TAAGTAAATACCTGTATCA
1 TAAGTAAATACCTATATCA
59608016 AACAATAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 2 0.04
41 54 0.96
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (41 bp):
TAAGTAAATACCTATATCATGCTCGCCTTGAAGACAAAGCT
Found at i:59611908 original size:11 final size:12
Alignment explanation
Indices: 59611881--59611905 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59611871 AAAAGGGGAC
59611881 AACAAACAAAAA
1 AACAAACAAAAA
59611893 AACAAACAAAAA
1 AACAAACAAAAA
59611905 A
1 A
59611906 CAAGAAGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AACAAACAAAAA
Found at i:59611916 original size:19 final size:19
Alignment explanation
Indices: 59611879--59611923 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
59611869 CAAAAAGGGG
*
59611879 ACAACAAACAAAAAAACAA
1 ACAAAAAACAAAAAAACAA
* *
59611898 ACAAAAAACAAGAAGACAA
1 ACAAAAAACAAAAAAACAA
59611917 A-AAAAAA
1 ACAAAAAA
59611924 AGAATCTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.80, C:0.16, G:0.04, T:0.00
Consensus pattern (19 bp):
ACAAAAAACAAAAAAACAA
Found at i:59618594 original size:44 final size:44
Alignment explanation
Indices: 59618538--59618838 Score: 250
Period size: 44 Copynumber: 6.7 Consensus size: 44
59618528 CATATTAAAC
* * *
59618538 CTTATCTCCCTGAAGTTTCAGTGGAGCAGGTTGAAGTTA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA-T
* *
59618582 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CCAAT
* * * *
59618627 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--CCA-AT
* * * * * * *
59618678 ATTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATAT-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* * *
59618719 CTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* * * * *
59618763 CTTATCTCCCTAAAATTGCAGTGGAGCATATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* * *
59618807 CCTATCTCTCTGACGTTGCAGTGGAGCAGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
59618839 AAAATAATGA
Statistics
Matches: 199, Mismatches: 47, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
41 25 0.13
42 2 0.01
43 3 0.02
44 100 0.50
45 33 0.17
46 2 0.01
47 4 0.02
49 2 0.01
50 2 0.01
51 26 0.13
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
Found at i:59620373 original size:4 final size:4
Alignment explanation
Indices: 59620364--59620401 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
59620354 TGTTAGCCTA
59620364 TTAT TTAT TTAT TTAT TTAT TTAT TT-T ATTA- TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTA
59620402 AAACTGTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 4 0.13
4 27 0.87
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:59624721 original size:39 final size:39
Alignment explanation
Indices: 59624643--59624719 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
59624633 AATAAAAACC
59624643 AAAAATTATTTTAAAAATAAAAAATAAAAAAAGTATTTT
1 AAAAATTATTTTAAAAATAAAAAATAAAAAAAGTATTTT
*
59624682 AAAAA-TATTTTAAAATTAAAAAAATAAAAAAA-TATTTT
1 AAAAATTATTTTAAAAAT-AAAAAATAAAAAAAGTATTTT
59624720 TACTAAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 17 0.47
39 19 0.53
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (39 bp):
AAAAATTATTTTAAAAATAAAAAATAAAAAAAGTATTTT
Found at i:59624964 original size:18 final size:18
Alignment explanation
Indices: 59624926--59624965 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
59624916 GGAAGGTAAA
* *
59624926 ATTTTAATATTTTTATTT
1 ATTTTAATATTTTAATAT
59624944 ATTTTAATATTTTAATAT
1 ATTTTAATATTTTAATAT
59624962 ATTT
1 ATTT
59624966 ATTTCTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTAATATTTTAATAT
Found at i:59629148 original size:4 final size:4
Alignment explanation
Indices: 59629139--59629175 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
59629129 CACACACTCG
59629139 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
59629176 TTTCCTTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:59638886 original size:20 final size:20
Alignment explanation
Indices: 59638844--59638937 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
59638834 GGCACCAAAC
* * *
59638844 TGCAATCAGGAGCACGGGTG
1 TGCAATCAGGGGCACGAGAG
*
59638864 TGCAATCAGGGGCACTAGAG
1 TGCAATCAGGGGCACGAGAG
* *
59638884 TGCATTCAAGGGCACGA-ATG
1 TGCAATCAGGGGCACGAGA-G
** * *
59638904 TGCTGTCAGGGGGACTAGAG
1 TGCAATCAGGGGCACGAGAG
* *
59638924 TGCATTTAGGGGCA
1 TGCAATCAGGGGCA
59638938 TAAATGTGCA
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
19 1 0.02
20 54 0.96
21 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.37, T:0.19
Consensus pattern (20 bp):
TGCAATCAGGGGCACGAGAG
Found at i:59638937 original size:40 final size:40
Alignment explanation
Indices: 59638869--59638946 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
59638859 GGGTGTGCAA
*
59638869 TCAGGGGCACTAGAGTGCATTCAAGGGCACGAATGTGCTG
1 TCAGGGGCACTAGAGTGCATTCAAGGGCACAAATGTGCTG
* * * *
59638909 TCAGGGGGACTAGAGTGCATTTAGGGGCATAAATGTGC
1 TCAGGGGCACTAGAGTGCATTCAAGGGCACAAATGTGC
59638947 AATTAGGGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.22
Consensus pattern (40 bp):
TCAGGGGCACTAGAGTGCATTCAAGGGCACAAATGTGCTG
Found at i:59638975 original size:40 final size:40
Alignment explanation
Indices: 59638931--59639018 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
59638921 GAGTGCATTT
* *
59638931 AGGGGCATAAATGTGCAATTAGGGACACCGAAGTGTTTAC
1 AGGGGCATAAATGTGCAAATAGGGACACCGAACTGTTTAC
* **
59638971 AGGGGCACAGTTGTGCAAATAGGGACACCGAACTGTTTAC
1 AGGGGCATAAATGTGCAAATAGGGACACCGAACTGTTTAC
59639011 AGGGGCAT
1 AGGGGCAT
59639019 TAAGGTACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.32, T:0.20
Consensus pattern (40 bp):
AGGGGCATAAATGTGCAAATAGGGACACCGAACTGTTTAC
Found at i:59641453 original size:68 final size:68
Alignment explanation
Indices: 59641344--59641479 Score: 220
Period size: 68 Copynumber: 2.0 Consensus size: 68
59641334 TCTATTTGTT
* *
59641344 TGGGTCGACATCGATAATCGTCGCTTCCTTATAAATTTGGATTACCTCATAAAGAGAAATGTGCT
1 TGGGTCGACATCAATAATCGTCACTTCCTTATAAATTTGGATTACCTCATAAAGAGAAATGTGCT
59641409 TGA
66 TGA
* *
59641412 TGGGTCGATATCAATAA-CTGTCACTTCCTTATAAATTTGGATTATCTCATAAAGAGAAATGTGC
1 TGGGTCGACATCAATAATC-GTCACTTCCTTATAAATTTGGATTACCTCATAAAGAGAAATGTGC
59641476 TTGA
65 TTGA
59641480 CGTGAAAACA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 1 0.02
68 62 0.98
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (68 bp):
TGGGTCGACATCAATAATCGTCACTTCCTTATAAATTTGGATTACCTCATAAAGAGAAATGTGCT
TGA
Found at i:59645267 original size:27 final size:27
Alignment explanation
Indices: 59645229--59645284 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
59645219 ATAATTGAAG
59645229 TTCAAAACTTGTGCAGTATATGTGCAA
1 TTCAAAACTTGTGCAGTATATGTGCAA
59645256 TTCAAAACTTGTGCAGTATATGTGCAA
1 TTCAAAACTTGTGCAGTATATGTGCAA
59645283 TT
1 TT
59645285 ATATTAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (27 bp):
TTCAAAACTTGTGCAGTATATGTGCAA
Found at i:59650483 original size:16 final size:17
Alignment explanation
Indices: 59650464--59650503 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
59650454 AAGAAATACG
59650464 AATAATCAATAATA-GT-
1 AATAAT-AATAATACGTA
59650480 AATAATAA-AATACGTA
1 AATAATAATAATACGTA
59650496 AATAATAA
1 AATAATAA
59650504 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 14 0.64
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (17 bp):
AATAATAATAATACGTA
Found at i:59650513 original size:6 final size:6
Alignment explanation
Indices: 59650495--59650547 Score: 52
Period size: 6 Copynumber: 8.0 Consensus size: 6
59650485 TAAAATACGT
*
59650495 AAATAA TAAATAA AAATAA TACTAATAA AAATAA AAATACA AACTAA AAATAA
1 AAATAA -AAATAA AAATAA -A--AATAA AAATAA AAATA-A AAATAA AAATAA
59650548 TGAGTAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 22 0.55
7 12 0.30
8 1 0.03
9 5 0.12
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:59650520 original size:19 final size:20
Alignment explanation
Indices: 59650498--59650547 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
59650488 AATACGTAAA
*
59650498 TAATAAATAAAAATA-ATAC
1 TAATAAATAAAAATACAAAC
59650517 TAATAAAAATAAAAATACAAAC
1 TAAT--AAATAAAAATACAAAC
59650539 TAA-AAATAA
1 TAATAAATAA
59650548 TGAGTAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 10 0.37
21 11 0.41
22 6 0.22
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (20 bp):
TAATAAATAAAAATACAAAC
Found at i:59650521 original size:15 final size:13
Alignment explanation
Indices: 59650495--59650547 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
59650485 TAAAATACGT
59650495 AAATAATAAATAA
1 AAATAATAAATAA
59650508 AAATAATACTAATAA
1 AAATAATA--AATAA
59650523 AAATAA-AAATACA
1 AAATAATAAATA-A
*
59650536 AACTAA-AAATAA
1 AAATAATAAATAA
59650548 TGAGTAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 5 0.14
13 19 0.53
14 1 0.03
15 11 0.31
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAATAAATAA
Found at i:59650540 original size:22 final size:22
Alignment explanation
Indices: 59650496--59650547 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
59650486 AAAATACGTA
*
59650496 AATAATAAATAAAAATAATACT
1 AATAATAAATAAAAATAAAACT
59650518 AATAA-AAATAAAAATACAAACT
1 AATAATAAATAAAAATA-AAACT
*
59650540 AAAAATAA
1 AATAATAA
59650548 TGAGTAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 11 0.42
22 13 0.50
23 2 0.08
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (22 bp):
AATAATAAATAAAAATAAAACT
Found at i:59650591 original size:12 final size:12
Alignment explanation
Indices: 59650574--59650598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59650564 CGCAAACAGA
59650574 TTTCACTATGAC
1 TTTCACTATGAC
59650586 TTTCACTATGAC
1 TTTCACTATGAC
59650598 T
1 T
59650599 AAGTGAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTCACTATGAC
Found at i:59650807 original size:42 final size:42
Alignment explanation
Indices: 59650731--59650812 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
59650721 ACTAAATGGA
* * *
59650731 ATAAATAAATGAAATAAAACTAAAAAGAAGTAGAAGAATAAC
1 ATAAATAAATGAAAAAAAAATAAAAAGAAGTAGAAAAATAAC
*
59650773 ATAAATAAATTAAAAAATAAATAGAAAA-AA-TAGAAAAATA
1 ATAAATAAATGAAAAAA-AAATA-AAAAGAAGTAGAAAAATA
59650813 GTAAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 24 0.71
43 6 0.18
44 4 0.12
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (42 bp):
ATAAATAAATGAAAAAAAAATAAAAAGAAGTAGAAAAATAAC
Found at i:59650809 original size:7 final size:7
Alignment explanation
Indices: 59650773--59650844 Score: 56
Period size: 7 Copynumber: 9.7 Consensus size: 7
59650763 GAAGAATAAC
59650773 ATAAATAA
1 ATAAA-AA
59650781 ATTAAAAA
1 A-TAAAAA
*
59650789 AT-AAAT
1 ATAAAAA
*
59650795 AGAAAAA
1 ATAAAAA
59650802 ATAGAAAA
1 ATA-AAAA
*
59650810 ATAGTAAAT
1 ATA--AAAA
59650819 ATAAAAA
1 ATAAAAA
*
59650826 ATAAAAT
1 ATAAAAA
59650833 ATAAAAA
1 ATAAAAA
59650840 ATAAA
1 ATAAA
59650845 CTAAACGGGG
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
6 4 0.08
7 26 0.51
8 11 0.22
9 10 0.20
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (7 bp):
ATAAAAA
Found at i:59655440 original size:37 final size:37
Alignment explanation
Indices: 59655390--59655468 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59655380 TTATTACGAA
* * *
59655390 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
59655427 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
59655464 GTCTT
1 GTCTT
59655469 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:59655665 original size:47 final size:47
Alignment explanation
Indices: 59655587--59655997 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
59655577 CCCTTCGGGA
* * * * * *
59655587 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59655634 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59655681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59655728 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59655775 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59655822 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59655869 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59655916 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59655963 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
59655998 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:59663431 original size:132 final size:132
Alignment explanation
Indices: 59663193--59665532 Score: 3116
Period size: 132 Copynumber: 17.7 Consensus size: 132
59663183 NNNNNNNTGC
* * * *
59663193 AGCAGATCAAAAATGGTGAATCTTACCTTCCCAATACAGTGGAGAAGCAGATTTAAGGCATTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * * * * *
59663258 CCTATCACCGTAAGTAGTAGTGGAGTCGGTTGAAGAGTGCAGATTCTGTCACCCTAAGCAGAAAT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
59663323 -G
131 GG
* * *
59663324 ATGCAGATCGAAGATGGTGAATCTTATCTTCCCAACAAAGTAGAGAAGCAGATTTAAGCCATTAG
1 A-GCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
* * * * *
59663389 CCCAATCTCCCCAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
65 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
59663454 TGG
130 TGG
** * * * * * *
59663457 AGTGGATCGAAGGTGGTGAATCTTATTTTCTCAAGATAGTGGAGAAGAAGATTTAAGCCATTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * * * * *
59663522 CCAATCTCCCTAAGCAGTAGTGGAGTCGGTTGAAGATTACAGATTCTGTCACCCTAAACAATAGT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
59663587 GG
131 GG
* * * * * * * *
59663589 AGCAGATCAAATATGATGAATCTTACCTTCCCAATATAGCGGAGCAGCAGATTTAAGCCACTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * * *
59663654 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAAATTCTTTCACCCTAAGAAGTAGT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
59663719 GG
131 GG
* * * * * *
59663721 AGCGGATCGATGATGGTGAATCTTATCTTCTCAAGATAGTGGAGAAGCCGATTTAAGCCATTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * * * * * * * * ***
59663786 GCAATCTCCCTAAGTATTTGTGGAGTATGTTGAGGATTACAGATTCTGTCACCCTAAATTGTAGT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
59663851 GG
131 GG
* * * * *
59663853 AGCAAATCGAATATGATGAATCTTACCTTCTCAATACAGTGGAGAAGCAGATTTAAGCCATTAG-
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
59663917 CCATATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
66 CC-TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
*
59663982 TGAA
130 TG-G
* *
59663986 AG-AGATCGAAGATGGTGAATCTTATCTTCCCAATGCAGTGG-GAAAGGAGATTTAAGCCATTAG
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAG-AAGCAGATTTAAGCCATTAG
59664049 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
65 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
*
59664114 TTG
130 TGG
* * * *
59664117 AGCAGATCGAAGATGGTGAATCTTATCTTCCTAATAGAGTGGATAAGAAGATTTAAGCCATTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * *
59664182 CCAATCACCCTATGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTTTGTCA-CCTGAAGCAGTAG
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCT-AAGCAGTAG
59664246 TGG
130 TGG
** * * * * * *
59664249 AGTGGATCAAAAATGGTGAATCGTATCTTCCCTATACAGTGGAGAAGGAGATTAAAGCCATTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * *
59664314 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATTCTGTCACCCTAAACAGTAGT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
*
59664379 GC
131 GG
** * * **
59664381 AGCAGATAAAAAATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGGTTTAAGGTATTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * * * * *
59664446 CGTATCACCGTAAGCAGTAGTGGAGTCGGTTGAAGAGTGCAGATTCTGTCACCCTAAGCAGAAAT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
59664511 -G
131 GG
* * * * *
59664512 ATGCCGATCGAAGATGGTGAATCTTGTCTTCCCAATGCAATGGAGAAGCAAATTTAAGCCATTAG
1 A-GCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
* * *
59664577 TCCTATCACCCTAAGCAGTAGTAGAGTAGGTTG-AGAATTGCAGATTATGTCCCCCTAAGCAGTA
65 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAG-ATTGCAGATTCTGTCACCCTAAGCAGTA
59664641 GTGG
129 GTGG
* * * * * *
59664645 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGTAGCAAATTTTAGTCGTAAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * * ** *
59664710 CCTATCACCCTAACCAGTAATGGAGTAGCTTGAAGATTATAGATTCTGTCACCCTAAGCGGTAGT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
59664775 GG
131 GG
* * * *
59664777 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAACACAGTAGAGAAACAGATTTAAGCCATTAGC
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
* * * * * *
59664842 CCAATCTCCTTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATTCTGCCACTCTAAGCAGTAGT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
59664907 GG
131 GG
** ** * *
59664909 AGTGGATCGAAGATGGTGAATCTTATCTTGTCAATGCAGCGGAGAAGCAGATTTAAGCCATTTA-
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA-TTAG
* * * * *
59664973 TCCTATCTCTCTAAGCAGTACTGGAGTAGGTTGAAGATTACAGATTCTGTCACCCTAAACAGTAG
65 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
*
59665038 TGA
130 TGG
* * * * * *
59665041 AGGAGATCGAATATGATGAATCTGACCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
*
59665106 CCTATCACCCTAAGCAGTAGTGGAGTCGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
59665171 -G
131 GG
59665172 ATGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
1 A-GCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
59665237 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
65 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
59665302 TGG
130 TGG
* * * *
59665305 A-TAGAATCGAAGATGGTGATTCTTATCTTCCCAACATAGTGGAGAAGCAGATTTAAGCCATTAG
1 AGCAG-ATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAG
59665369 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
65 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
59665434 TGG
130 TGG
*
59665437 AGCGGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
1 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
59665502 CCTATCACCCTAAGCAGTAGTGGAGTAGGTT
66 CCTATCACCCTAAGCAGTAGTGGAGTAGGTT
59665533 NNNNNNNNNN
Statistics
Matches: 1916, Mismatches: 273, Indels: 39
0.86 0.12 0.02
Matches are distributed among these distances:
131 17 0.01
132 1880 0.98
133 19 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
GG
Found at i:59663972 original size:44 final size:44
Alignment explanation
Indices: 59663920--59664379 Score: 159
Period size: 44 Copynumber: 10.5 Consensus size: 44
59663910 CCATTAGCCA
*
59663920 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATTC
* * * ** *
59663964 TGTCACCCTAAGCAGTAGTGAAAG-AGATCGAAGA-TGGTGAATC
1 TATCACCCTAAGCAGTAGTG-GAGTAGATTGAAGATTGCAGATTC
* * * *
59664007 TTATCTTCCC-AATGCAGT-G-GGAAAGGAGATTTAAGCCATT--AG-TCC
1 -TATC-ACCCTAA-GCAGTAGTGG--AGTAGATTGAAG--ATTGCAGATTC
*
59664052 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATTC
* * * * ** *
59664096 TGTCACCCTAAGCAGTAGTTGAGCAGATCGAAGA-TGGTGAATC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATTC
** * * * *
59664139 TTATCTTCCTAA-TAG-AGTGGATAAGAAGATTTAAGCCATT--AG-TCC
1 -TATCACCCTAAGCAGTAGTGG---AGTAGATTGAAG--ATTGCAGATTC
* * * *
59664184 AATCACCCTATGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTT
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATTC
* * * * * ** *
59664228 TGTCA-CCTGAAGCAGTAGTGGAGTGGA-TCAAAAATGGTGAATC
1 TATCACCCT-AAGCAGTAGTGGAGTAGATTGAAGATTGCAGATTC
* * * * * * *
59664271 GTATCTTCCCTATA-CAGTGGAGAAGGAGATTAAAGCCATT--AG-TCC
1 -TATC-ACCCTA-AGCAGTAGTGGAGTAGATTGAAG--ATTGCAGATTC
* * *
59664316 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATTC
1 TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATTC
* *
59664360 TGTCACCCTAAACAGTAGTG
1 TATCACCCTAAGCAGTAGTG
59664380 CAGCAGATAA
Statistics
Matches: 292, Mismatches: 84, Indels: 80
0.64 0.18 0.18
Matches are distributed among these distances:
41 9 0.03
42 5 0.02
43 80 0.27
44 133 0.46
45 44 0.15
46 15 0.05
47 2 0.01
48 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATTC
Found at i:59665449 original size:44 final size:44
Alignment explanation
Indices: 59665107--59665450 Score: 171
Period size: 44 Copynumber: 7.8 Consensus size: 44
59665097 GCCATTAGTC
59665107 CTATCACCCTAAGCAGTAGTGGAGTCGG-TTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAG-CGGATTGAAGATTGCAGATT
* * * ** *
59665151 CTGTCACCCTAAGCAGTAGT-GATGCAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGA-GCGGATTGAAGATTGCAGATT
* * * * * * * *
59665194 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCGGATTGAAG--ATTGCAGATT
*
59665239 CTATCACCCTAAGCAGTAGTGGAGTAGG-TTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAG-CGGATTGAAGATTGCAGATT
* ** * * **
59665283 CTGTCACCCTAAGCAGTAGTGGATAGAATCGAAGA-TGGTGATT
1 CTATCACCCTAAGCAGTAGTGGAGCGGATTGAAGATTGCAGATT
* * * *
59665326 CTTATCTTCCC-AA-CA-TAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAAGCAGTAGT-G-G-AGCGGATTGAAG--ATTGCAGATT
*
59665371 CTATCACCCTAAGCAGTAGTGGAGTAGG-TTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAG-CGGATTGAAGATTGCAGATT
* *
59665415 CTGTCACCCTAAGCAGTAGTGGAGCGGATCGAAGAT
1 CTATCACCCTAAGCAGTAGTGGAGCGGATTGAAGAT
59665451 GGTGAATCTT
Statistics
Matches: 219, Mismatches: 50, Indels: 62
0.66 0.15 0.19
Matches are distributed among these distances:
41 6 0.03
42 4 0.02
43 54 0.25
44 112 0.51
45 32 0.15
46 7 0.03
47 2 0.01
48 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGCGGATTGAAGATTGCAGATT
Found at i:59677450 original size:14 final size:14
Alignment explanation
Indices: 59677431--59677471 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
59677421 AACTTCAATT
59677431 ATCATATTTTTAAA
1 ATCATATTTTTAAA
59677445 ATCATATTTTT-AA
1 ATCATATTTTTAAA
59677458 A--ATATTTTTAAA
1 ATCATATTTTTAAA
59677470 AT
1 AT
59677472 ATGATGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.32
12 3 0.12
13 3 0.12
14 11 0.44
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (14 bp):
ATCATATTTTTAAA
Found at i:59677464 original size:11 final size:11
Alignment explanation
Indices: 59677434--59677473 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
59677424 TTCAATTATC
59677434 ATATTTTTAAAA
1 ATATTTTT-AAA
59677446 TCATATTTTTAAA
1 --ATATTTTTAAA
59677459 ATATTTTTAAA
1 ATATTTTTAAA
59677470 ATAT
1 ATAT
59677474 GATGATTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 15 0.58
13 3 0.12
14 8 0.31
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:59679523 original size:47 final size:47
Alignment explanation
Indices: 59679459--59679685 Score: 267
Period size: 47 Copynumber: 4.8 Consensus size: 47
59679449 GGATGTGACA
* *
59679459 CACCTGCTTGACCAGTGGTTTATCCACAACATATCTTAGTCGACAGT
1 CACCTGCTCGACCAGTGGTTTATCCACAACATATTTTAGTCGACAGT
** * * * * * *
59679506 CATATGTTCTACCAGTGGTTTATCCACTACGTATTTTAGTTGGCAGT
1 CACCTGCTCGACCAGTGGTTTATCCACAACATATTTTAGTCGACAGT
* *
59679553 CACCTGCTCGAGCAGTGGTTTATCCACAACATATTTTAATCGACAGT
1 CACCTGCTCGACCAGTGGTTTATCCACAACATATTTTAGTCGACAGT
*
59679600 CACCTGCTCGACCAGTGGTTTATCCACAACGTATTTTAGTCCG-CAGT
1 CACCTGCTCGACCAGTGGTTTATCCACAACATATTTTAGT-CGACAGT
* * * * **
59679647 CACCTTCTCAACTAGTGGTATATCCACAATGTATTTTAG
1 CACCTGCTCGACCAGTGGTTTATCCACAACATATTTTAG
59679686 CAACTTTTAT
Statistics
Matches: 151, Mismatches: 28, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
47 149 0.99
48 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (47 bp):
CACCTGCTCGACCAGTGGTTTATCCACAACATATTTTAGTCGACAGT
Found at i:59681620 original size:13 final size:13
Alignment explanation
Indices: 59681602--59681626 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59681592 ATCCTTCATC
59681602 TTCTTTTATTTTT
1 TTCTTTTATTTTT
59681615 TTCTTTTATTTT
1 TTCTTTTATTTT
59681627 CAAAAAAATT
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTATTTTT
Found at i:59682837 original size:13 final size:13
Alignment explanation
Indices: 59682819--59682843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59682809 ATCCTTCATC
59682819 TTCTTTTATTTTT
1 TTCTTTTATTTTT
59682832 TTCTTTTATTTT
1 TTCTTTTATTTT
59682844 CAAAAAAATT
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTATTTTT
Found at i:59685839 original size:33 final size:35
Alignment explanation
Indices: 59685802--59685867 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
59685792 GTCTCCTGCT
*
59685802 GGTTAGGGTTTTG-GGTTTTT-GTTTTAGGGTTAG
1 GGTTAGGGTTTTGTGGTTTTTAGGTTTAGGGTTAG
*
59685835 GGTTAGGGTTTTGTTGTTTTTAGGTTTAGGGTT
1 GGTTAGGGTTTTGTGGTTTTTAGGTTTAGGGTT
59685868 TTAAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 13 0.45
34 6 0.21
35 10 0.34
ACGTcount: A:0.09, C:0.00, G:0.38, T:0.53
Consensus pattern (35 bp):
GGTTAGGGTTTTGTGGTTTTTAGGTTTAGGGTTAG
Found at i:59686286 original size:126 final size:125
Alignment explanation
Indices: 59686074--59686360 Score: 484
Period size: 126 Copynumber: 2.3 Consensus size: 125
59686064 TTAAAAAAGC
* * * *
59686074 TCCCACGTGGACGCTCTTTTGCTACAATAGCTCCTGAAAAATAATTTTGAGAAGACGTTTCTGAG
1 TCCCACGTGGACGCACTTCTGCTACAGTAGCTCCTGAAAAATAATTTCGAGAAGACGTTTCTGAG
* *
59686139 CCAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAGA
66 CAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAGA
* *
59686199 TCCCACGTGGACGCACTTCTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGGCGTTTCTGA
1 TCCCACGTGGACGCACTTCTGCTACAGTAGCTCCTG-AAAAATAATTTCGAGAAGACGTTTCTGA
*
59686264 GCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAGA
65 GCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAGA
59686325 TCCCACGTGGACGCACTTCTGCTACAGTAGCTCCTG
1 TCCCACGTGGACGCACTTCTGCTACAGTAGCTCCTG
59686361 TTTGGCCTGA
Statistics
Matches: 152, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
125 33 0.22
126 119 0.78
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (125 bp):
TCCCACGTGGACGCACTTCTGCTACAGTAGCTCCTGAAAAATAATTTCGAGAAGACGTTTCTGAG
CAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAGA
Found at i:59688442 original size:29 final size:32
Alignment explanation
Indices: 59688378--59688442 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
59688368 TGTAAAAGTA
* *
59688378 AATTTCTATTTTATTACGTGAAATAATATAGAAT
1 AATTTCTATTTTATTACATCAAATAATAT--AAT
59688412 AATTTCTATTTTATTACATCAAATAATATAA
1 AATTTCTATTTTATTACATCAAATAATATAA
59688443 AAATATTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
34 27 0.93
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (32 bp):
AATTTCTATTTTATTACATCAAATAATATAAT
Found at i:59689541 original size:7 final size:7
Alignment explanation
Indices: 59689531--59689558 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
59689521 CATAATACAT
59689531 AATACTA
1 AATACTA
59689538 AATACTA
1 AATACTA
59689545 AATACTA
1 AATACTA
59689552 AATACTA
1 AATACTA
59689559 GATATCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
AATACTA
Found at i:59690569 original size:21 final size:20
Alignment explanation
Indices: 59690505--59690570 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 20
59690495 GAAATAATAA
59690505 AATAAAAATTATTTAAAAATT
1 AATAAAAATTATTT-AAAATT
*
59690526 -ATAAGAAATT-TCTAATAA--
1 AATAA-AAATTATTTAA-AATT
59690544 AATAAAAATTATTTAAAATT
1 AATAAAAATTATTTAAAATT
59690564 ACATAAA
1 A-ATAAA
59690571 TCAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
18 7 0.19
19 10 0.28
20 9 0.25
21 10 0.28
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (20 bp):
AATAAAAATTATTTAAAATT
Found at i:59690788 original size:11 final size:11
Alignment explanation
Indices: 59690772--59690841 Score: 81
Period size: 11 Copynumber: 6.4 Consensus size: 11
59690762 AGCTTTTTTA
59690772 AGAGGAATTTG
1 AGAGGAATTTG
* *
59690783 ATAGGAAATTG
1 AGAGGAATTTG
59690794 AGAGGAATTTG
1 AGAGGAATTTG
59690805 AGAGGAATTTG
1 AGAGGAATTTG
59690816 AGA-GAATATTG
1 AGAGGAAT-TTG
*
59690827 -GAGAGAAATTG
1 AGAG-GAATTTG
59690838 AGAG
1 AGAG
59690842 AAAGGATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
10 6 0.12
11 38 0.76
12 6 0.12
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.24
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:59690797 original size:22 final size:22
Alignment explanation
Indices: 59690772--59690841 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
59690762 AGCTTTTTTA
*
59690772 AGAGGAATTTGATAGGAAATTG
1 AGAGGAATTTGAGAGGAAATTG
*
59690794 AGAGGAATTTGAGAGGAATTTG
1 AGAGGAATTTGAGAGGAAATTG
59690816 AGA-GAATATTG-GAGAGAAATTG
1 AGAGGAAT-TTGAGAG-GAAATTG
59690838 AGAG
1 AGAG
59690842 AAAGGATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 7 0.17
22 35 0.83
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.24
Consensus pattern (22 bp):
AGAGGAATTTGAGAGGAAATTG
Found at i:59690809 original size:33 final size:33
Alignment explanation
Indices: 59690772--59690841 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
59690762 AGCTTTTTTA
* *
59690772 AGAGGAATTTGATAGGAA-ATT-GAGAGGAATTTG
1 AGAGGAATTTGAGA-GAATATTGGAGA-GAAATTG
59690805 AGAGGAATTTGAGAGAATATTGGAGAGAAATTG
1 AGAGGAATTTGAGAGAATATTGGAGAGAAATTG
59690838 AGAG
1 AGAG
59690842 AAAGGATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 3 0.09
33 26 0.79
34 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.24
Consensus pattern (33 bp):
AGAGGAATTTGAGAGAATATTGGAGAGAAATTG
Found at i:59694308 original size:43 final size:42
Alignment explanation
Indices: 59694219--59694308 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 42
59694209 AAAAACGCCG
* **
59694219 CTAAAGGTCATGTTCTTTAGCGGCGTTTGAGGGAAAAGCATCA
1 CTAAAGGTCATGTTCTATAGCGGCGTTTGAGAAAAAAGCA-CA
* *
59694262 CTAAATGTCATGTTCTATAGCGGCGTTTGTCGAAAAAATGCA-A
1 CTAAAGGTCATGTTCTATAGCGGCGTTTG-AGAAAAAA-GCACA
59694305 CTAA
1 CTAA
59694309 CTTTAGCAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 32 0.80
44 5 0.12
45 3 0.08
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
CTAAAGGTCATGTTCTATAGCGGCGTTTGAGAAAAAAGCACA
Found at i:59698311 original size:16 final size:18
Alignment explanation
Indices: 59698290--59698329 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
59698280 TTTTTCTATG
59698290 TTTTTACTT-TCA-AATT
1 TTTTTACTTGTCATAATT
59698306 TTTTTACTTGTCATTAATT
1 TTTTTACTTGTCA-TAATT
59698325 TTTTT
1 TTTTT
59698330 CAAGACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
17 3 0.14
19 9 0.43
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTACTTGTCATAATT
Found at i:59716864 original size:19 final size:21
Alignment explanation
Indices: 59716836--59716884 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
59716826 GTTTTTTTAC
*
59716836 TAAAATAATA-CAAAAGAA-A
1 TAAAAAAATACCAAAAGAATA
*
59716855 TAAAAAAATACCAAAATAATA
1 TAAAAAAATACCAAAAGAATA
59716876 TACAAAAAA
1 TA-AAAAAA
59716885 ATTATTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 7 0.28
21 3 0.12
22 6 0.24
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.16
Consensus pattern (21 bp):
TAAAAAAATACCAAAAGAATA
Found at i:59716965 original size:27 final size:27
Alignment explanation
Indices: 59716935--59716997 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
59716925 GGTAATGGAA
* *
59716935 TGGCGGCACCGGTGGTGCCTTTCTCAT
1 TGGCGGCACCGGTGGTGCCATTCCCAT
59716962 TGGCGGCACCGGTGGTGCCATTCCCAT
1 TGGCGGCACCGGTGGTGCCATTCCCAT
59716989 TGGCGGCAC
1 TGGCGGCAC
59716998 AGGACTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.10, C:0.32, G:0.35, T:0.24
Consensus pattern (27 bp):
TGGCGGCACCGGTGGTGCCATTCCCAT
Found at i:59717923 original size:27 final size:27
Alignment explanation
Indices: 59717885--59717947 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
59717875 TTTTAGTCCT
59717885 GTGCCGCCAATG-GAAATGGCACCACCG
1 GTGCCGCCAATGAGAAAT-GCACCACCG
59717912 GTGCCGCCAATGAGAAATGCACCACCG
1 GTGCCGCCAATGAGAAATGCACCACCG
*
59717939 GTGTCGCCA
1 GTGCCGCCA
59717948 TTCCATTACC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.25, C:0.33, G:0.29, T:0.13
Consensus pattern (27 bp):
GTGCCGCCAATGAGAAATGCACCACCG
Found at i:59719252 original size:15 final size:15
Alignment explanation
Indices: 59719232--59719269 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
59719222 GTAACATTTC
59719232 AAACGTAAATAACTA
1 AAACGTAAATAACTA
59719247 AAACGTAAATAACTA
1 AAACGTAAATAACTA
*
59719262 AAATGTAA
1 AAACGTAA
59719270 CCTAAGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.21
Consensus pattern (15 bp):
AAACGTAAATAACTA
Found at i:59735385 original size:43 final size:43
Alignment explanation
Indices: 59735337--59735440 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
59735327 GTGTGATTTA
* *
59735337 GTGTAAGACCATGTCTGAG-ACATTGAG-ATCGATATGAGATTAC
1 GTGTAAGACCATGTCTG-GTACAATG-GCATCGATATGAGATAAC
* *
59735380 GTGTAAGACCCTGTCTGGTACAATGGCATCGATATGTGATAAC
1 GTGTAAGACCATGTCTGGTACAATGGCATCGATATGAGATAAC
* *
59735423 ATGTAAGACCATATCTGG
1 GTGTAAGACCATGTCTGG
59735441 GATATGGCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.04
43 50 0.96
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGTACAATGGCATCGATATGAGATAAC
Found at i:59738953 original size:33 final size:33
Alignment explanation
Indices: 59738916--59738981 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
59738906 TTAAATTTAG
59738916 TATGGCTTACCATCCTTAGACAAATGGTTAGTT
1 TATGGCTTACCATCCTTAGACAAATGGTTAGTT
59738949 TATGGCTTACCATCCTTAGACAAATGGTTAGTT
1 TATGGCTTACCATCCTTAGACAAATGGTTAGTT
59738982 GGAAACAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (33 bp):
TATGGCTTACCATCCTTAGACAAATGGTTAGTT
Found at i:59741092 original size:17 final size:17
Alignment explanation
Indices: 59741072--59741113 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
59741062 CTATACTATG
59741072 ATGCGAACCCATGTTAT
1 ATGCGAACCCATGTTAT
* *
59741089 ATGCAAACCTATGTTAT
1 ATGCGAACCCATGTTAT
59741106 ATGCGAAC
1 ATGCGAAC
59741114 TTATATTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (17 bp):
ATGCGAACCCATGTTAT
Found at i:59741122 original size:17 final size:17
Alignment explanation
Indices: 59741062--59741134 Score: 58
Period size: 17 Copynumber: 4.3 Consensus size: 17
59741052 TATGTGTGAA
* *
59741062 CTATACTATGATGCGAAC
1 CTATATTAT-ATGCAAAC
* *
59741080 CCATGTTATATGCAAAC
1 CTATATTATATGCAAAC
* *
59741097 CTATGTTATATGCGAAC
1 CTATATTATATGCAAAC
* *
59741114 TTATATTATGTGCAAA-
1 CTATATTATATGCAAAC
59741130 CTATA
1 CTATA
59741135 CTGTGATCCG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 4 0.09
17 34 0.77
18 6 0.14
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (17 bp):
CTATATTATATGCAAAC
Found at i:59741132 original size:68 final size:68
Alignment explanation
Indices: 59741018--59741156 Score: 170
Period size: 68 Copynumber: 2.0 Consensus size: 68
59741008 CTTACTATGC
* * ** *
59741018 TATATGCGAATCTATGTGATATGAAAACCTATACTATGTGTGAACTATACTATGATGCGAACCCA
1 TATATGCAAACCTATGTGATATGAAAACCTATACTATGTGCAAACTATACTATGATCCGAACCCA
59741083 TGT
66 TGT
* ** * * * *
59741086 TATATGCAAACCTATGTTATATGCGAACTTATATTATGTGCAAACTATACTGTGATCCGAACCTA
1 TATATGCAAACCTATGTGATATGAAAACCTATACTATGTGCAAACTATACTATGATCCGAACCCA
59741151 TGT
66 TGT
59741154 TAT
1 TAT
59741157 GTGTTAATTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (68 bp):
TATATGCAAACCTATGTGATATGAAAACCTATACTATGTGCAAACTATACTATGATCCGAACCCA
TGT
Found at i:59741307 original size:14 final size:14
Alignment explanation
Indices: 59741269--59741311 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
59741259 AGCTCTGCTA
59741269 AATTGAGAAC-AGTG
1 AATTGAGAACTA-TG
59741283 ATATTGAGAACTATG
1 A-ATTGAGAACTATG
*
59741298 AATTGCGAACTATG
1 AATTGAGAACTATG
59741312 CTATATTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 13 0.50
15 12 0.46
16 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (14 bp):
AATTGAGAACTATG
Found at i:59750312 original size:46 final size:46
Alignment explanation
Indices: 59750245--59750337 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
59750235 CTGCCATGAT
59750245 TGTCTAATAATGTTGGGTACGTATATATTCGTATTGATGTGTATCC
1 TGTCTAATAATGTTGGGTACGTATATATTCGTATTGATGTGTATCC
59750291 TGTCTAATAATGTTGGGTACGTATATATTCGTATTGATGTGTATCC
1 TGTCTAATAATGTTGGGTACGTATATATTCGTATTGATGTGTATCC
59750337 T
1 T
59750338 AAGAAATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.44
Consensus pattern (46 bp):
TGTCTAATAATGTTGGGTACGTATATATTCGTATTGATGTGTATCC
Found at i:59761153 original size:8 final size:8
Alignment explanation
Indices: 59761132--59761170 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
59761122 GTTTATATGC
59761132 ATAAAAAA
1 ATAAAAAA
**
59761140 GGAAAAAA
1 ATAAAAAA
59761148 ATAAAAAA
1 ATAAAAAA
59761156 ATAAAAAA
1 ATAAAAAA
59761164 ATAAAAA
1 ATAAAAA
59761171 TAAATCTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (8 bp):
ATAAAAAA
Found at i:59761621 original size:15 final size:15
Alignment explanation
Indices: 59761598--59761633 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
59761588 CTGGGTAGCA
*
59761598 GTTTAGGTTTTGGGT
1 GTTTGGGTTTTGGGT
59761613 GTTTGGGTTTTGGGT
1 GTTTGGGTTTTGGGT
59761628 -TTTGGG
1 GTTTGGG
59761634 ACCCGGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.03, C:0.00, G:0.44, T:0.53
Consensus pattern (15 bp):
GTTTGGGTTTTGGGT
Found at i:59761626 original size:7 final size:7
Alignment explanation
Indices: 59761603--59761633 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
59761593 TAGCAGTTTA
59761603 GGTTTTG
1 GGTTTTG
59761610 GGTGTTTG
1 GGT-TTTG
59761618 GGTTTTG
1 GGTTTTG
59761625 GGTTTTG
1 GGTTTTG
59761632 GG
1 GG
59761634 ACCCGGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (7 bp):
GGTTTTG
Found at i:59762099 original size:57 final size:57
Alignment explanation
Indices: 59762031--59762148 Score: 227
Period size: 57 Copynumber: 2.1 Consensus size: 57
59762021 GGCCAATTAA
59762031 GTAATGCCAGTGAGATTGTTTAAGGACAAGATAAGTGTTATAAATATGTTTGTACTT
1 GTAATGCCAGTGAGATTGTTTAAGGACAAGATAAGTGTTATAAATATGTTTGTACTT
*
59762088 GTAATGCCAGTGAGATTGTTTAAGGGCAAGATAAGTGTTATAAATATGTTTGTACTT
1 GTAATGCCAGTGAGATTGTTTAAGGACAAGATAAGTGTTATAAATATGTTTGTACTT
59762145 GTAA
1 GTAA
59762149 ACTCTTATTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (57 bp):
GTAATGCCAGTGAGATTGTTTAAGGACAAGATAAGTGTTATAAATATGTTTGTACTT
Found at i:59767412 original size:12 final size:13
Alignment explanation
Indices: 59767388--59767416 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59767378 GAACTATAAC
59767388 TATTGCATTTATT
1 TATTGCATTTATT
59767401 TATTGC-TTTATT
1 TATTGCATTTATT
59767413 TATT
1 TATT
59767417 CATGTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:59776079 original size:15 final size:16
Alignment explanation
Indices: 59776047--59776084 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
59776037 GACTAAAATT
*
59776047 TTAAAATTTATAGAAA
1 TTAAAATTGATAGAAA
59776063 TTAAAATTGAT-GAAA
1 TTAAAATTGATAGAAA
59776078 TTAAAAT
1 TTAAAAT
59776085 ACAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (16 bp):
TTAAAATTGATAGAAA
Found at i:59779078 original size:59 final size:59
Alignment explanation
Indices: 59778986--59779163 Score: 356
Period size: 59 Copynumber: 3.0 Consensus size: 59
59778976 AGTGCGTTGA
59778986 AATTTTTACCTTGATTTTCAATCTCACTACACCACAGTGACTTGCTTGGTTGTTTGGAT
1 AATTTTTACCTTGATTTTCAATCTCACTACACCACAGTGACTTGCTTGGTTGTTTGGAT
59779045 AATTTTTACCTTGATTTTCAATCTCACTACACCACAGTGACTTGCTTGGTTGTTTGGAT
1 AATTTTTACCTTGATTTTCAATCTCACTACACCACAGTGACTTGCTTGGTTGTTTGGAT
59779104 AATTTTTACCTTGATTTTCAATCTCACTACACCACAGTGACTTGCTTGGTTGTTTGGAT
1 AATTTTTACCTTGATTTTCAATCTCACTACACCACAGTGACTTGCTTGGTTGTTTGGAT
59779163 A
1 A
59779164 TCTTGGTTTC
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 119 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.42
Consensus pattern (59 bp):
AATTTTTACCTTGATTTTCAATCTCACTACACCACAGTGACTTGCTTGGTTGTTTGGAT
Found at i:59779442 original size:22 final size:21
Alignment explanation
Indices: 59779380--59779430 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
59779370 TAAAACAATA
59779380 GTTTCTCCCTTGTTCTTGCTG
1 GTTTCTCCCTTGTTCTTGCTG
59779401 GTTTCTCCCTTGTTCTTGCTG
1 GTTTCTCCCTTGTTCTTGCTG
59779422 GTTTCTCCC
1 GTTTCTCCC
59779431 CTCTTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.00, C:0.31, G:0.18, T:0.51
Consensus pattern (21 bp):
GTTTCTCCCTTGTTCTTGCTG
Found at i:59781296 original size:62 final size:62
Alignment explanation
Indices: 59781213--59781443 Score: 381
Period size: 62 Copynumber: 3.7 Consensus size: 62
59781203 TGGAGGTGGA
59781213 TTGGGACTTTGATCAGTGGAAGAGGGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGGGT
1 TTGGGACTTTGATCAGTGGAAGAGGGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGGGT
* *
59781275 TTGGAACTTTGATCAGTGGAAGAGGAGAAATGGGAATGGGAAATGGGAGGAGGGCACGGGGT
1 TTGGGACTTTGATCAGTGGAAGAGGGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGGGT
** * *
59781337 TTGGGACTTTGATTGGTGGAAGAGGGGAAATGGGAATGTGAAATGGGAGGAGGGCAGGGGGT
1 TTGGGACTTTGATCAGTGGAAGAGGGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGGGT
* *
59781399 TTGGGACTTCGATTAGTGGAAGAGGGGAAATGGGAATGGGGAAAT
1 TTGGGACTTTGATCAGTGGAAGAGGGGAAATGGGAAT-GGGAAAT
59781444 TGCACTGTAT
Statistics
Matches: 157, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
62 151 0.96
63 6 0.04
ACGTcount: A:0.29, C:0.05, G:0.47, T:0.19
Consensus pattern (62 bp):
TTGGGACTTTGATCAGTGGAAGAGGGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGGGT
Found at i:59781872 original size:39 final size:39
Alignment explanation
Indices: 59781829--59781909 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
59781819 ACTAAAGTGA
* * *
59781829 AAAGAAAACAATAGTTCAAGTAAAGCTTTAAAGATGAAC
1 AAAGAAAACAATAGTTCAAATAAAACTTTAAAGAAGAAC
59781868 AAAGAAAACAATAGTTCAAATAAAACTTTAAAGAAGAAC
1 AAAGAAAACAATAGTTCAAATAAAACTTTAAAGAAGAAC
59781907 AAA
1 AAA
59781910 TCGATTGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.19
Consensus pattern (39 bp):
AAAGAAAACAATAGTTCAAATAAAACTTTAAAGAAGAAC
Found at i:59784872 original size:23 final size:23
Alignment explanation
Indices: 59784842--59784891 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
59784832 ATGTTTGGTG
* *
59784842 GCATTGTAGCCATTGGAGAGAAT
1 GCATTGTAGCCACTGGAGAGAAC
59784865 GCATTGTAGCCACTGGAGAGAAC
1 GCATTGTAGCCACTGGAGAGAAC
59784888 GCAT
1 GCAT
59784892 GGGCACCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (23 bp):
GCATTGTAGCCACTGGAGAGAAC
Found at i:59789774 original size:15 final size:15
Alignment explanation
Indices: 59789754--59789785 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
59789744 TTTGAATTTA
59789754 GATTAATTATTTTTT
1 GATTAATTATTTTTT
59789769 GATTAATTATTTTTT
1 GATTAATTATTTTTT
59789784 GA
1 GA
59789786 GATTATCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (15 bp):
GATTAATTATTTTTT
Found at i:59790506 original size:78 final size:78
Alignment explanation
Indices: 59790368--59790556 Score: 306
Period size: 78 Copynumber: 2.4 Consensus size: 78
59790358 ATATACATTG
* *
59790368 CATACGTGTTATTATTAGTTTCGAATCTTACATTTCATTATTTTAGTGTTTTGATAAATTACTTA
1 CATATGTGTTATTATTAGTTTCGAATCTTACATTTCATTATTTAAGTGTTTTGATAAATTACTTA
* *
59790433 AGTAAATTGTATT
66 AATAAATTGTACT
* * * *
59790446 CATATGTGCTATTATTAGTTTCAAATCTTACATTTTATTATTTAAGTGTTTTGATAAATTATTTA
1 CATATGTGTTATTATTAGTTTCGAATCTTACATTTCATTATTTAAGTGTTTTGATAAATTACTTA
59790511 AATAAATTGTACT
66 AATAAATTGTACT
59790524 CATATGTGTTATTATTAGTTTCGAATCTTACAT
1 CATATGTGTTATTATTAGTTTCGAATCTTACAT
59790557 ACTTAAAACA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 101 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.50
Consensus pattern (78 bp):
CATATGTGTTATTATTAGTTTCGAATCTTACATTTCATTATTTAAGTGTTTTGATAAATTACTTA
AATAAATTGTACT
Found at i:59791695 original size:19 final size:19
Alignment explanation
Indices: 59791671--59791712 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
59791661 AGCAATTATA
59791671 TTTATGAATGGTAGGAATT
1 TTTATGAATGGTAGGAATT
*
59791690 TTTATGAATTGTAGGAATT
1 TTTATGAATGGTAGGAATT
59791709 TTTA
1 TTTA
59791713 GTGTTTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (19 bp):
TTTATGAATGGTAGGAATT
Found at i:59795322 original size:61 final size:61
Alignment explanation
Indices: 59795204--59795327 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 61
59795194 AACAATTAAC
* * **
59795204 TTATTGAATTTTTTAGAATTAAAACTAAATTGACAAATTTTATAAATTTTGAAGGCTAAAT
1 TTATTGAATTTTTTAGAATTAAAACTAAAATGAAAAATTTTATAAACATTGAAGGCTAAAT
* * **
59795265 TTATTGAATTTTTTAGAATTCAAACTAAAATGAAAAATTTTGTAAACATTGGGGGCTAAAT
1 TTATTGAATTTTTTAGAATTAAAACTAAAATGAAAAATTTTATAAACATTGAAGGCTAAAT
59795326 TT
1 TT
59795328 GTTATTATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (61 bp):
TTATTGAATTTTTTAGAATTAAAACTAAAATGAAAAATTTTATAAACATTGAAGGCTAAAT
Found at i:59795544 original size:22 final size:20
Alignment explanation
Indices: 59795500--59795544 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
59795490 AAAATTACTC
*
59795500 ATAATGTGAGATTATCAAAA
1 ATAATGTGAGATAATCAAAA
*
59795520 ATAATGTGAGACTAAATTAAAA
1 ATAATGTGAGA-T-AATCAAAA
59795542 ATA
1 ATA
59795545 TTAATTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 1 0.05
22 9 0.43
ACGTcount: A:0.53, C:0.04, G:0.13, T:0.29
Consensus pattern (20 bp):
ATAATGTGAGATAATCAAAA
Found at i:59797446 original size:18 final size:18
Alignment explanation
Indices: 59797425--59797460 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59797415 CAATTTCGTA
59797425 ATTTATTATTATTTTTTT
1 ATTTATTATTATTTTTTT
* *
59797443 ATTTATTTTTCTTTTTTT
1 ATTTATTATTATTTTTTT
59797461 CCTTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (18 bp):
ATTTATTATTATTTTTTT
Found at i:59797834 original size:23 final size:23
Alignment explanation
Indices: 59797791--59797835 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
59797781 CATGACATTG
*
59797791 TTTATTTTTTTTATGAATATTAGT
1 TTTATTTTTTGTATG-ATATTAGT
59797815 TTTATTTATTTGTATG-TATTA
1 TTTATTT-TTTGTATGATATTA
59797836 TTTCTATGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 7 0.37
25 7 0.37
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (23 bp):
TTTATTTTTTGTATGATATTAGT
Found at i:59799009 original size:19 final size:19
Alignment explanation
Indices: 59798985--59799025 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
59798975 TAAATTAAAT
59798985 ATAGAAAA-AAATAAACTAA
1 ATAGAAAATAAATAAA-TAA
*
59799004 ATAGAAAATATATAAATAA
1 ATAGAAAATAAATAAATAA
59799023 ATA
1 ATA
59799026 ATGGTGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (19 bp):
ATAGAAAATAAATAAATAA
Found at i:59799340 original size:6 final size:7
Alignment explanation
Indices: 59799318--59799347 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
59799308 TTTATTTGTT
*
59799318 AAATGAA
1 AAATTAA
59799325 AAATTAA
1 AAATTAA
59799332 AAATTAA
1 AAATTAA
59799339 AAATTAA
1 AAATTAA
59799346 AA
1 AA
59799348 GTTTTACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (7 bp):
AAATTAA
Found at i:59800312 original size:34 final size:34
Alignment explanation
Indices: 59800269--59800336 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
59800259 ACATAACCAT
59800269 TTCCATATGAATGTGTACCTATATAAAGTGGTAA
1 TTCCATATGAATGTGTACCTATATAAAGTGGTAA
59800303 TTCCATATGAATGTGTACCTATATAAAGTGGTAA
1 TTCCATATGAATGTGTACCTATATAAAGTGGTAA
59800337 ATTAATTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (34 bp):
TTCCATATGAATGTGTACCTATATAAAGTGGTAA
Found at i:59801925 original size:39 final size:37
Alignment explanation
Indices: 59801858--59801950 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
59801848 ACCAGAATGG
* *
59801858 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
59801897 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
59801934 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
59801951 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:59802309 original size:3 final size:3
Alignment explanation
Indices: 59802301--59802332 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
59802291 TAATTCCCAC
59802301 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
59802333 CTTACCTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:59803270 original size:14 final size:17
Alignment explanation
Indices: 59803251--59803288 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
59803241 ATTTATTTCT
59803251 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
59803265 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
59803282 TAATATA
1 TAATATA
59803289 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:59803296 original size:12 final size:11
Alignment explanation
Indices: 59803268--59803311 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
59803258 ATATTTATAA
59803268 TATAATTAATT
1 TATAATTAATT
*
59803279 TAATAATATACTT
1 T-ATAAT-TAATT
59803292 TATAATTAATT
1 TATAATTAATT
59803303 TATATATTA
1 TATA-ATTA
59803312 TATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:59803315 original size:20 final size:23
Alignment explanation
Indices: 59803263--59803325 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
59803253 ATATAATATT
59803263 TATA-ATATAATTAATTTAATAA
1 TATATATATAATTAATTTAATAA
* *
59803285 TATACTTTATAATTAATTTATATAT
1 TATA-TATATAATTAATTTA-ATAA
* *
59803310 TATATAAATAAATAAT
1 TATATATATAATTAAT
59803326 ATAAATATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATAATTAATTTAATAA
Found at i:59803327 original size:20 final size:20
Alignment explanation
Indices: 59803280--59803328 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
59803270 TAATTAATTT
*
59803280 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* *
59803300 ATTTATATA-TTATATAAATA
1 AATAATATACTT-TATAAATA
59803320 AATAATATA
1 AATAATATA
59803329 AATATCTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:59806577 original size:50 final size:50
Alignment explanation
Indices: 59806515--59806756 Score: 189
Period size: 50 Copynumber: 4.8 Consensus size: 50
59806505 CAGGGAAACC
*
59806515 AGATCTACCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* * ** ** * * * * ***
59806565 AGATCTGTCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCGGGGAAACC
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* * *
59806615 AGATCCGCCGTTGTGACTTCAATTTGCTCCACTACACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* ** ** * * * ** **
59806665 AGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTTAGGGAAACCA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGG-AAGTA
* *
59806716 A-ATATGCCGTTGTGACTTCAATTTGCTCCACTGCACCGCCA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCA
59806757 TATTTTTAAT
Statistics
Matches: 134, Mismatches: 57, Indels: 2
0.69 0.30 0.01
Matches are distributed among these distances:
50 130 0.97
51 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
Found at i:59806643 original size:100 final size:100
Alignment explanation
Indices: 59806463--59806756 Score: 473
Period size: 100 Copynumber: 3.0 Consensus size: 100
59806453 TGCTAAGGAG
* * *
59806463 GTAAGATCCGCCGTTGTGGCTTCAATC-TTTTAATTGCATTGTCAGGGAAACCAGATCTACCGTT
1 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCAGGGAAACCAGATCTGCCGTT
*
59806527 GTGACTTCAATCTGCTCCACTGCACCGCCAGGGAA
66 GTGACTTCAATTTGCTCCACTGCACCGCCAGGGAA
* * *
59806562 GTAAGATCTGTCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCGGGGAAACCAGATCCGCCGTT
1 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCAGGGAAACCAGATCTGCCGTT
*
59806627 GTGACTTCAATTTGCTCCACTACACCGCCAGGGAA
66 GTGACTTCAATTTGCTCCACTGCACCGCCAGGGAA
* * * *
59806662 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTTAGGGAAACCAAATATGCCGTT
1 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCAGGGAAACCAGATCTGCCGTT
59806727 GTGACTTCAATTTGCTCCACTGCACCGCCA
66 GTGACTTCAATTTGCTCCACTGCACCGCCA
59806757 TATTTTTAAT
Statistics
Matches: 178, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 25 0.14
100 153 0.86
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.30
Consensus pattern (100 bp):
GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCAGGGAAACCAGATCTGCCGTT
GTGACTTCAATTTGCTCCACTGCACCGCCAGGGAA
Found at i:59806907 original size:170 final size:170
Alignment explanation
Indices: 59806589--59806926 Score: 445
Period size: 170 Copynumber: 2.0 Consensus size: 170
59806579 GGCTTCAATC
* * * * *
59806589 TTTTTAATTGCACTGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATTTGCTCCACTACACCG
1 TTTTTAATTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTACTCCACTACACCG
** *
59806654 CCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTTAGGGAAACCAAAT
66 CCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGCGAAACCAAAT
59806719 ATGCCGTTGTGACTTCAATTTGCTCCACTGCACCGCCATA
131 ATGCCGTTGTGACTTCAATTTGCTCCACTGCACCGCCATA
* * * **
59806759 TTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGT-AGCTTCAATCTATTCCACTATATT
1 TTTTTAATTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGA-CTTCAATCTACTCCACTACACC
*
59806823 GCCAGGGAAGTAAGA-CTTGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTTAGCGAAA-CAA
65 GCCAGGGAAGTAAGATC-TGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGCGAAACCAA
*
59806886 GAT-T-CACTGTTGT-AGCTTCAATTTGTTCCACTGCACCGCCA
129 -ATATGC-C-GTTGTGA-CTTCAATTTGCTCCACTGCACCGCCA
59806927 GGGAAGTAAG
Statistics
Matches: 147, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
168 1 0.01
169 8 0.05
170 138 0.94
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (170 bp):
TTTTTAATTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGACTTCAATCTACTCCACTACACCG
CCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGCGAAACCAAAT
ATGCCGTTGTGACTTCAATTTGCTCCACTGCACCGCCATA
Found at i:59806932 original size:100 final size:99
Alignment explanation
Indices: 59806759--59807073 Score: 432
Period size: 100 Copynumber: 3.2 Consensus size: 99
59806749 CACCGCCATA
* * **
59806759 TTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTATATTG
1 TTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTATACCG
59806824 CCAGGGAAGTAAGACTTGCCGTTGTGGCTTCAATC
66 CCAGGGAAGTAAGA-TTGCCGTTGTGGCTTCAATC
* * * * * **
59806859 TTTTTAATTGTAATGTTAGCGAAACAAGATTCACTGTTGTAGCTTCAATTTGTTCCACTGCACCG
1 TTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTATACCG
* *
59806924 CCAGGGAAGTAAGATTCACCTTTGTGGCTTCAATC
66 CCAGGGAAGTAAGATT-GCCGTTGTGGCTTCAATC
* * * *
59806959 TTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTTCACTATACCG
1 TTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTATACCG
* *
59807024 CCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATC
66 CCAGGGAAGTAAGAT-TGCCGTTGTGGCTTCAATC
59807059 TTTTTAATTGCAATG
1 TTTTTAATTGCAATG
59807074 CCAAAGAGAT
Statistics
Matches: 184, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
99 2 0.01
100 182 0.99
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (99 bp):
TTTTTAATTGCAATGTCAGGGAAACAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTATACCG
CCAGGGAAGTAAGATTGCCGTTGTGGCTTCAATC
Found at i:59806998 original size:270 final size:270
Alignment explanation
Indices: 59806490--59807007 Score: 638
Period size: 270 Copynumber: 1.9 Consensus size: 270
59806480 GGCTTCAATC
* * * *
59806490 TTTTAATTGCATTGTCAGGGAAACCAGATCTACCGTTGTGACTTCAATCTGCTCCACTGCACCGC
1 TTTTAATTGCAATGTCAGGGAAACAAGATCTACCGTTGTGACTTCAATCTACTCCACTACACCGC
* * * * *
59806555 CAGGGAAGTAAGATCTGTCGTTGTGGCTTCAATCTTTTTAATTGCACTGTCGGGGAAACCAGATC
66 CAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGCGAAACAAGATC
* *
59806620 CGCCGTTGTGACTTCAATTTGCTCCACTACACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTC
131 CACCGTTGTGACTTCAATTTGCTCCACTACACCGCCAGGGAAGTAAGATCTACCGTTGTGGCTTC
* ** *
59806685 AATCTTTTTAATTGCGCTGTTAGGGAAACCAAATATGCCGTTGT-GACTTCAATTTGCTCCACTG
196 AATCTTTTTAATTACAATGTTAGGGAAACCAAATATACCGTTGTAG-CTTCAATTTGCTCCACTG
59806749 CACCGCCATAT
260 CACCGCCATAT
* * * **
59806760 TTTTAATTGCAATGTCAGGGAAACAAGAT-TCGCCGTTGT-AGCTTCAATCTATTCCACTATATT
1 TTTTAATTGCAATGTCAGGGAAACAAGATCT-ACCGTTGTGA-CTTCAATCTACTCCACTACACC
* *
59806823 GCCAGGGAAGTAAGA-CTTGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTTAGCGAAACAAG
64 GCCAGGGAAGTAAGATC-TGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGCGAAACAAG
* * * * *
59806887 ATTCACTGTTGT-AGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGTAAGAT-TCACCTTTGTG
128 ATCCACCGTTGTGA-CTTCAATTTGCTCCACTACACCGCCAGGGAAGTAAGATCT-ACCGTTGTG
* * *
59806950 GCTTCAATCTTTTTAATTACAATG-TCGGGGAAGCAAGAT-TCACCGTTGTAGCTTCAAT
191 GCTTCAATCTTTTTAATTACAATGTTAGGGAAACCAA-ATAT-ACCGTTGTAGCTTCAAT
59807008 CTGTTTCACT
Statistics
Matches: 210, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
269 15 0.07
270 194 0.92
271 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (270 bp):
TTTTAATTGCAATGTCAGGGAAACAAGATCTACCGTTGTGACTTCAATCTACTCCACTACACCGC
CAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGCGAAACAAGATC
CACCGTTGTGACTTCAATTTGCTCCACTACACCGCCAGGGAAGTAAGATCTACCGTTGTGGCTTC
AATCTTTTTAATTACAATGTTAGGGAAACCAAATATACCGTTGTAGCTTCAATTTGCTCCACTGC
ACCGCCATAT
Found at i:59807077 original size:50 final size:50
Alignment explanation
Indices: 59806759--59807076 Score: 226
Period size: 50 Copynumber: 6.4 Consensus size: 50
59806749 CACCGCCATA
* * *
59806759 TTTTTAATTGCAATGTCAGGGAAACAAGATTCGCCGTTGTAGCTTCAATC
1 TTTTTAATTGCAATGCCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATC
* ** * ** * * * *
59806809 TATTCCACTATATTGCCAGGGAAGTAAGACTT-GCCGTTGTGGCTTCAATC
1 TTTTTAATTGCAATGCCAGGGAAGCAAGA-TTCACCGTTGTAGCTTCAATC
* ** * * *
59806859 TTTTTAATTGTAATGTTAGCGAAACAAGATTCACTGTTGTAGCTTCAAT-
1 TTTTTAATTGCAATGCCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATC
** * ** * * *
59806908 TTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCTTTGTGGCTTCAATC
1 TT-TTTAATTGCAATGCCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATC
* * *
59806959 TTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATC
1 TTTTTAATTGCAATGCCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATC
* * * ** ** * * * * *
59807009 TGTTTCACTATACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATC
1 TTTTTAATTGCAATGCCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATC
59807059 TTTTTAATTGCAATGCCA
1 TTTTTAATTGCAATGCCA
59807077 AAGAGATTGG
Statistics
Matches: 194, Mismatches: 70, Indels: 8
0.71 0.26 0.03
Matches are distributed among these distances:
49 4 0.02
50 186 0.96
51 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (50 bp):
TTTTTAATTGCAATGCCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATC
Found at i:59808443 original size:13 final size:13
Alignment explanation
Indices: 59808425--59808449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59808415 CTTTTTCCAT
59808425 TTTTCATTTTTTA
1 TTTTCATTTTTTA
59808438 TTTTCATTTTTT
1 TTTTCATTTTTT
59808450 CACATCTTTT
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCATTTTTTA
Found at i:59813923 original size:999 final size:999
Alignment explanation
Indices: 59811987--59813984 Score: 3951
Period size: 999 Copynumber: 2.0 Consensus size: 999
59811977 ATGTTGAAAG
59811987 CTCTTAGACAATCATCTTGAATCCTCGGGCCCCGAAGTAAAGTCACGAATTCTTCTATCGCCCTT
1 CTCTTAGACAATCATCTTGAATCCTCGGGCCCCGAAGTAAAGTCACGAATTCTTCTATCGCCCTT
*
59812052 CTTGTGTTTCTCGAAATATATTCAGGCAGCCGTACTATTTTCCATTTTATCAAGAAACTCATTTT
66 CTTGTGTTTCTCGAAATATATTCAGGCAGCCGTACTATTTTCCATTTTATCAAGAAACCCATTTT
**
59812117 CTTATGATAGGCTTTCTAAGTTAGTAATCAAACTTGAATCAACATCTCTTTTCTAAAATGCAAAT
131 CTTATGATAGGCTTTCTAAACTAGTAATCAAACTTGAATCAACATCTCTTTTCTAAAATGCAAAT
59812182 GCAATGCAATCATAACCAAAACAAAACAAAACGGGTTAGTATCAGGTATAAACATTAAATCCAAT
196 GCAATGCAATCATAACCAAAACAAAACAAAACGGGTTAGTATCAGGTATAAACATTAAATCCAAT
59812247 ACAATCAAGAAATAATAAAAACTCATAATTAGGTATGTACTAAGGTTTAGAGTAATTTTACCTAG
261 ACAATCAAGAAATAATAAAAACTCATAATTAGGTATGTACTAAGGTTTAGAGTAATTTTACCTAG
59812312 GGTAAGTTCCTAAGGTTCACTATATATAGTTCGGCTTCTAGGGAAAGGGTACCCGAACCAGCAGA
326 GGTAAGTTCCTAAGGTTCACTATATATAGTTCGGCTTCTAGGGAAAGGGTACCCGAACCAGCAGA
59812377 TTCCTCGATCCTCACCCATTATAGGCTCATACAGACCGAGTTCATTTCAGGGGGATACATTTCCC
391 TTCCTCGATCCTCACCCATTATAGGCTCATACAGACCGAGTTCATTTCAGGGGGATACATTTCCC
59812442 TATGGCTATGCGGAGATGAAAATCTCACGAAGACATAAGTACGGATGTATCCCGAAAGCGATCCA
456 TATGGCTATGCGGAGATGAAAATCTCACGAAGACATAAGTACGGATGTATCCCGAAAGCGATCCA
59812507 CTACCTTGCACGGAGGTGAAAACCTCACGAAGGACTAGCTTCTCACTCCCACTTAGAGGGGTAAT
521 CTACCTTGCACGGAGGTGAAAACCTCACGAAGGACTAGCTTCTCACTCCCACTTAGAGGGGTAAT
59812572 AAACCAACGGACTTGAACCAACCAAACAAGTATATGACAATTAAAACTAATGAATGCAAAGAGAA
586 AAACCAACGGACTTGAACCAACCAAACAAGTATATGACAATTAAAACTAATGAATGCAAAGAGAA
59812637 AATCAGGTTTTAAAACAACTTTAATTTTCGACAAAAAAAGACAAAAGATAATCAATTCATGGCTT
651 AATCAGGTTTTAAAACAACTTTAATTTTCGACAAAAAAAGACAAAAGATAATCAATTCATGGCTT
59812702 GACTCTCTAATATTCTCCAGCGGAGTCGCCAAGCTGTCGAAACCATTTTTTTGAAAACAAAATTT
716 GACTCTCTAATATTCTCCAGCGGAGTCGCCAAGCTGTCGAAACCATTTTTTTGAAAACAAAATTT
59812767 TAGTTGTCGACTTTAAAAACAAAAACTGGAGTCGCCACCGATCTGTGATTTAGGTGTAATCGGCT
781 TAGTTGTCGACTTTAAAAACAAAAACTGGAGTCGCCACCGATCTGTGATTTAGGTGTAATCGGCT
59812832 CACCTTAAAAACAAATTTGGTCTACGAAATTTGAGAAAACAGGTTCGAGAGTCAGTTACGCACGA
846 CACCTTAAAAACAAATTTGGTCTACGAAATTTGAGAAAACAGGTTCGAGAGTCAGTTACGCACGA
59812897 GGAAGGATTAGCACCCTCGTAACGCCCAAAAAATCGGTACCAAATTTAATTATTTAATGTCTTGG
911 GGAAGGATTAGCACCCTCGTAACGCCCAAAAAATCGGTACCAAATTTAATTATTTAATGTCTTGG
59812962 TGTCAAAAATTTAAAAGATTTTGT
976 TGTCAAAAATTTAAAAGATTTTGT
59812986 CTCTTAGACAATCATCTTGAATCCTCGGGCCCCGAAGTAAAGTCACGAATTCTTCTATCGCCCTT
1 CTCTTAGACAATCATCTTGAATCCTCGGGCCCCGAAGTAAAGTCACGAATTCTTCTATCGCCCTT
*
59813051 CTTGTGTTTCTCGAAATATATTCAGGCAGCCGTACTATTTTCCATTTTATCAAGAAACCCGTTTT
66 CTTGTGTTTCTCGAAATATATTCAGGCAGCCGTACTATTTTCCATTTTATCAAGAAACCCATTTT
*
59813116 CTTATGATAGGCTTTCTAAACTAGTAATCAAACTTGAATCAACATCTCTTTTCTACAATGCAAAT
131 CTTATGATAGGCTTTCTAAACTAGTAATCAAACTTGAATCAACATCTCTTTTCTAAAATGCAAAT
59813181 GCAATGCAATCATAACCAAAACAAAACAAAACGGGTTAGTATCAGGTATAAACATTAAATCCAAT
196 GCAATGCAATCATAACCAAAACAAAACAAAACGGGTTAGTATCAGGTATAAACATTAAATCCAAT
59813246 ACAATCAAGAAATAATAAAAACTCATAATTAGGTATGTACTAAGGTTTAGAGTAATTTTACCTAG
261 ACAATCAAGAAATAATAAAAACTCATAATTAGGTATGTACTAAGGTTTAGAGTAATTTTACCTAG
59813311 GGTAAGTTCCTAAGGTTCACTATATATAGTTCGGCTTCTAGGGAAAGGGTACCCGAACCAGCAGA
326 GGTAAGTTCCTAAGGTTCACTATATATAGTTCGGCTTCTAGGGAAAGGGTACCCGAACCAGCAGA
59813376 TTCCTCGATCCTCACCCATTATAGGCTCATACAGACCGAGTTCATTTCAGGGGGATACATTTCCC
391 TTCCTCGATCCTCACCCATTATAGGCTCATACAGACCGAGTTCATTTCAGGGGGATACATTTCCC
59813441 TATGGCTATGCGGAGATGAAAATCTCACGAAGACATAAGTACGGATGTATCCCGAAAGCGATCCA
456 TATGGCTATGCGGAGATGAAAATCTCACGAAGACATAAGTACGGATGTATCCCGAAAGCGATCCA
59813506 CTACCTTGCACGGAGGTGAAAACCTCACGAAGGACTAGCTTCTCACTCCCACTTAGAGGGGTAAT
521 CTACCTTGCACGGAGGTGAAAACCTCACGAAGGACTAGCTTCTCACTCCCACTTAGAGGGGTAAT
59813571 AAACCAACGGACTTGAACCAACCAAACAAGTATATGACAATTAAAACTAATGAATGCAAAGAGAA
586 AAACCAACGGACTTGAACCAACCAAACAAGTATATGACAATTAAAACTAATGAATGCAAAGAGAA
59813636 AATCAGGTTTTAAAACAACTTTAATTTTCGACAAAAAAAGACAAAAGATAATCAATTCATGGCTT
651 AATCAGGTTTTAAAACAACTTTAATTTTCGACAAAAAAAGACAAAAGATAATCAATTCATGGCTT
59813701 GACTCTCTAATATTCTCCAGCGGAGTCGCCAAGCTGTCGAAACCATTTTTTTGAAAACAAAATTT
716 GACTCTCTAATATTCTCCAGCGGAGTCGCCAAGCTGTCGAAACCATTTTTTTGAAAACAAAATTT
59813766 TAGTTGTCGACTTTAAAAACAAAAACTGGAGTCGCCACCGATCTGTGATTTAGGTGTAATCGGCT
781 TAGTTGTCGACTTTAAAAACAAAAACTGGAGTCGCCACCGATCTGTGATTTAGGTGTAATCGGCT
59813831 CACCTTAAAAACAAATTTGGTCTACGAAATTTGAGAAAACAGGTTCGAGAGTCAGTTACGCACGA
846 CACCTTAAAAACAAATTTGGTCTACGAAATTTGAGAAAACAGGTTCGAGAGTCAGTTACGCACGA
59813896 GGAAGGATTAGCACCCTCGTAACGCCCAAAAAATCGGTACCAAATTTAATTATTTAATGTCTTGG
911 GGAAGGATTAGCACCCTCGTAACGCCCAAAAAATCGGTACCAAATTTAATTATTTAATGTCTTGG
59813961 TGTCAAAAATTTAAAAGATTTTGT
976 TGTCAAAAATTTAAAAGATTTTGT
59813985 AAACTCAAAT
Statistics
Matches: 994, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
999 994 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (999 bp):
CTCTTAGACAATCATCTTGAATCCTCGGGCCCCGAAGTAAAGTCACGAATTCTTCTATCGCCCTT
CTTGTGTTTCTCGAAATATATTCAGGCAGCCGTACTATTTTCCATTTTATCAAGAAACCCATTTT
CTTATGATAGGCTTTCTAAACTAGTAATCAAACTTGAATCAACATCTCTTTTCTAAAATGCAAAT
GCAATGCAATCATAACCAAAACAAAACAAAACGGGTTAGTATCAGGTATAAACATTAAATCCAAT
ACAATCAAGAAATAATAAAAACTCATAATTAGGTATGTACTAAGGTTTAGAGTAATTTTACCTAG
GGTAAGTTCCTAAGGTTCACTATATATAGTTCGGCTTCTAGGGAAAGGGTACCCGAACCAGCAGA
TTCCTCGATCCTCACCCATTATAGGCTCATACAGACCGAGTTCATTTCAGGGGGATACATTTCCC
TATGGCTATGCGGAGATGAAAATCTCACGAAGACATAAGTACGGATGTATCCCGAAAGCGATCCA
CTACCTTGCACGGAGGTGAAAACCTCACGAAGGACTAGCTTCTCACTCCCACTTAGAGGGGTAAT
AAACCAACGGACTTGAACCAACCAAACAAGTATATGACAATTAAAACTAATGAATGCAAAGAGAA
AATCAGGTTTTAAAACAACTTTAATTTTCGACAAAAAAAGACAAAAGATAATCAATTCATGGCTT
GACTCTCTAATATTCTCCAGCGGAGTCGCCAAGCTGTCGAAACCATTTTTTTGAAAACAAAATTT
TAGTTGTCGACTTTAAAAACAAAAACTGGAGTCGCCACCGATCTGTGATTTAGGTGTAATCGGCT
CACCTTAAAAACAAATTTGGTCTACGAAATTTGAGAAAACAGGTTCGAGAGTCAGTTACGCACGA
GGAAGGATTAGCACCCTCGTAACGCCCAAAAAATCGGTACCAAATTTAATTATTTAATGTCTTGG
TGTCAAAAATTTAAAAGATTTTGT
Found at i:59819149 original size:15 final size:16
Alignment explanation
Indices: 59819129--59819164 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
59819119 TTGTTTTAAG
59819129 AAACAAAAGAAAA-AA
1 AAACAAAAGAAAATAA
*
59819144 AAACAAAATAAAATAA
1 AAACAAAAGAAAATAA
59819160 AAACA
1 AAACA
59819165 GTAAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (16 bp):
AAACAAAAGAAAATAA
Found at i:59821802 original size:28 final size:28
Alignment explanation
Indices: 59821776--59821848 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
59821766 ATTTATAATT
* *
59821776 TTTTTACAATATTTTGAATTTTCTAATAA
1 TTTTTACAAT-TTTTAAATATTCTAATAA
* *
59821805 TTTTTATAATTTTTAAATATTCTAA-CA
1 TTTTTACAATTTTTAAATATTCTAATAA
59821832 TATTTTA-AATTTTTAAA
1 T-TTTTACAATTTTTAAA
59821849 AAATTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 12 0.31
28 18 0.46
29 9 0.23
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.56
Consensus pattern (28 bp):
TTTTTACAATTTTTAAATATTCTAATAA
Found at i:59821815 original size:20 final size:20
Alignment explanation
Indices: 59821757--59821817 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
59821747 AAAATTACAA
59821757 TTTCTAATAA--TTTATAAT
1 TTTCTAATAATTTTTATAAT
* * * *
59821775 TTTTTTACAATATTTT-GAAT
1 TTTCTAATAAT-TTTTATAAT
59821795 TTTCTAATAATTTTTATAAT
1 TTTCTAATAATTTTTATAAT
59821815 TTT
1 TTT
59821818 TAAATATTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
18 7 0.23
19 4 0.13
20 17 0.55
21 3 0.10
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTCTAATAATTTTTATAAT
Found at i:59832492 original size:4 final size:4
Alignment explanation
Indices: 59832483--59832742 Score: 349
Period size: 4 Copynumber: 65.0 Consensus size: 4
59832473 CTTTAGTAAA
* *
59832483 TATG TATG TATG TATG TATG TATG TATG TATG CATG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
59832531 CATG TATG CATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
59832579 TATG TATG CATG TATG CATG TTTG TATG CATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
59832627 TATG TATG TATG TATG CATG TATA CATG TTTG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
59832675 TATG TATG TATG TATG CATG CATG CATG TATG TATT TATG TATG TAGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
59832723 TATG TATG TATG TAGG TATG
1 TATG TATG TATG TATG TATG
59832743 AAAATGTTAG
Statistics
Matches: 222, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 222 1.00
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (4 bp):
TATG
Done.