Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 273 of 410
Found at i:84442619 original size:21 final size:20
Alignment explanation
Indices: 84442595--84442634 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
84442585 GGACTAAATT
84442595 GAAATAAATTAAAAATTTTAG
1 GAAA-AAATTAAAAATTTTAG
* *
84442616 GAAAAAGTTGAAAATTTTA
1 GAAAAAATTAAAAATTTTA
84442635 AAAACAGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (20 bp):
GAAAAAATTAAAAATTTTAG
Found at i:84444658 original size:18 final size:17
Alignment explanation
Indices: 84444635--84444668 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
84444625 TAAAAATCAC
84444635 TTAACAAAACAAGTTTAT
1 TTAAC-AAACAAGTTTAT
*
84444653 TTAACAACCAAGTTTA
1 TTAACAAACAAGTTTA
84444669 ATAATCTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAACAAACAAGTTTAT
Found at i:84444964 original size:12 final size:12
Alignment explanation
Indices: 84444919--84444963 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
84444909 TTCCCTGTAA
84444919 AATAGTAAAAAT
1 AATAGTAAAAAT
84444931 AATAGTAAAAAT
1 AATAGTAAAAAT
*
84444943 AATAGTAAAGAT
1 AATAGTAAAAAT
84444955 AATAGTAAA
1 AATAGTAAA
84444964 GGGGAAGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:84445143 original size:17 final size:18
Alignment explanation
Indices: 84445123--84445156 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
84445113 AAGTGAATTG
84445123 AAATTG-AGAAATTAAAT
1 AAATTGCAGAAATTAAAT
84445140 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
84445157 ATGAGGAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:84445904 original size:20 final size:20
Alignment explanation
Indices: 84445866--84445913 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
84445856 TAAATTCTAA
* **
84445866 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
84445886 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
84445906 AAA-ATAAA
1 AAAGATAAA
84445914 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:84445938 original size:27 final size:26
Alignment explanation
Indices: 84445908--84445970 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
84445898 AGATAATTAA
84445908 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
84445935 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
84445962 AATATAAAT
1 AATA-AAAT
84445971 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:84445957 original size:15 final size:15
Alignment explanation
Indices: 84445937--84445966 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84445927 ATAATCCTAA
*
84445937 TAATTATCTTAATAT
1 TAATTATCCTAATAT
84445952 TAATTATCCTAATAT
1 TAATTATCCTAATAT
84445967 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:84446838 original size:21 final size:21
Alignment explanation
Indices: 84446792--84446838 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
84446782 CGTGTGACCC
*
84446792 TTGTTT-TTAATTTTTTTAAT
1 TTGTTTCTTAAATTTTTTAAT
*
84446812 TT-TTTCTTAAATTTTTTGAT
1 TTGTTTCTTAAATTTTTTAAT
84446832 TTGTTTC
1 TTGTTTC
84446839 AATCTAGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 4 0.17
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (21 bp):
TTGTTTCTTAAATTTTTTAAT
Found at i:84449590 original size:20 final size:20
Alignment explanation
Indices: 84449546--84449584 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
84449536 TAGAGTAGAA
*
84449546 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
84449566 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
84449585 AGTATCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:84453759 original size:21 final size:21
Alignment explanation
Indices: 84453735--84453774 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
84453725 TCCAAACAAT
* *
84453735 AACAACATAATAGTAAAAAAA
1 AACAACAAAATAGCAAAAAAA
*
84453756 AACAAGAAAATAGCAAAAA
1 AACAACAAAATAGCAAAAA
84453775 TAGTAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.10
Consensus pattern (21 bp):
AACAACAAAATAGCAAAAAAA
Found at i:84455631 original size:31 final size:31
Alignment explanation
Indices: 84455580--84455639 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
84455570 TTACAATGTT
* *
84455580 TATATTTTTTCTAATTTTTAATAAGTTTTAAA
1 TATATTTTTTCAAATATTTAATAA-TTTTAAA
84455612 TATATTTTTT-AAATATTTAATAATTTTA
1 TATATTTTTTCAAATATTTAATAATTTTA
84455640 TAACTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 5 0.19
31 11 0.42
32 10 0.38
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (31 bp):
TATATTTTTTCAAATATTTAATAATTTTAAA
Found at i:84455780 original size:4 final size:4
Alignment explanation
Indices: 84455771--84455858 Score: 54
Period size: 4 Copynumber: 22.5 Consensus size: 4
84455761 ATCAAAGGGG
* * * * *
84455771 GAGA GAGA GAGA GAGA GGGG GGGA GGGA GAGG GAGA GAGA GA-A G-GA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
84455817 GAGG GAGG GAGG GAGG GAGG GAGA GAGG GAGG GAGA GAGA GA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA
84455859 AGGGACTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
3 4 0.06
4 68 0.94
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (4 bp):
GAGA
Found at i:84455817 original size:12 final size:12
Alignment explanation
Indices: 84455771--84455863 Score: 91
Period size: 12 Copynumber: 7.8 Consensus size: 12
84455761 ATCAAAGGGG
*
84455771 GAGAGAGAGAGA
1 GAGAGAGGGAGA
* *
84455783 GAGAGGGGGGGA
1 GAGAGAGGGAGA
*
84455795 GGGAGAGGGAGA
1 GAGAGAGGGAGA
*
84455807 GAGAGAAGGAGA
1 GAGAGAGGGAGA
*
84455819 G-G-GAGGGAGG
1 GAGAGAGGGAGA
*
84455829 GAGGGAGGGAGA
1 GAGAGAGGGAGA
*
84455841 GAGGGAGGGAGA
1 GAGAGAGGGAGA
84455853 GAGAGAAGGGA
1 GAGAG-AGGGA
84455864 CTTAATTACA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
10 7 0.11
11 2 0.03
12 52 0.79
13 5 0.08
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (12 bp):
GAGAGAGGGAGA
Found at i:84459754 original size:79 final size:80
Alignment explanation
Indices: 84459652--84459821 Score: 238
Period size: 79 Copynumber: 2.1 Consensus size: 80
84459642 GGACTAAGAT
* *
84459652 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGCTA-T
*
84459716 AAT-CCCGGGCTAAG-C
64 AATAACCGGGCTAAGTC
** *
84459731 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTA
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTATAA
*
84459796 TAACCGGGCTATGTC
66 TAACCGGGCTAAGTC
84459811 CCGAAGGCATT
1 CCGAAGGCATT
84459822 TGAACGAGTA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 4 0.05
79 65 0.80
80 12 0.15
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTGGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTATAA
TAACCGGGCTAAGTC
Found at i:84459787 original size:40 final size:40
Alignment explanation
Indices: 84459599--84459823 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
84459589 TCGAATGATG
* * *
84459599 TCCGGGCTAAGTCCCGAAGGC-TTTGCGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
84459639 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84459679 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84459718 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
84459758 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
84459799 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84459824 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 9 0.05
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84459822 original size:119 final size:120
Alignment explanation
Indices: 84459600--84459823 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
84459590 CGAATGATGT
*
84459600 CCGGGCTAAGTCCCGAAGGCTTTGCGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTGGCGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
84459665 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
* * * **
84459720 CCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTGGCGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
* * *
84459782 TGTGCGAGCTATTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
84459824 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 2 0.02
119 71 0.79
120 17 0.19
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCTTGGCGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
Found at i:84459845 original size:79 final size:77
Alignment explanation
Indices: 84459652--84459856 Score: 234
Period size: 79 Copynumber: 2.6 Consensus size: 77
84459642 GGACTAAGAT
* *
84459652 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGCTACTA
*
84459717 ATCCCGGGCTAAGC
64 ATACCGGGCTAAGC
* *
84459731 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTA-TT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGCTACTA
*
84459795 ATAACCGGGCTATGTC
64 AT-ACCGGGCTAAG-C
** * *
84459811 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGTT-AAGTCCGAAGG
84459857 TACGTGATTC
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.04
79 76 0.70
80 29 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGTTAAGTCCGAAGGCATTTGTGCGAGCTACTAAT
ACCGGGCTAAGC
Found at i:84463699 original size:23 final size:21
Alignment explanation
Indices: 84463665--84463706 Score: 50
Period size: 21 Copynumber: 1.9 Consensus size: 21
84463655 TTGAGGGTTA
84463665 GGGGAGTAAAATTTGGGGGAAGG
1 GGGGAGTAAAA--TGGGGGAAGG
84463688 GGGGAAGT-AAATGGGGGAA
1 GGGG-AGTAAAATGGGGGAA
84463707 AATATATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.44
23 7 0.39
24 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.14
Consensus pattern (21 bp):
GGGGAGTAAAATGGGGGAAGG
Found at i:84463762 original size:41 final size:41
Alignment explanation
Indices: 84463705--84463786 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
84463695 TAAATGGGGG
*
84463705 AAAATATATTGGGGTGAAGTAAATGTAAAATATTCTAGTTT
1 AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
84463746 AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
1 AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
84463787 GATATTCAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.37
Consensus pattern (41 bp):
AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
Found at i:84464891 original size:134 final size:131
Alignment explanation
Indices: 84464645--84464890 Score: 388
Period size: 134 Copynumber: 1.9 Consensus size: 131
84464635 TGGTGAACTA
* *
84464645 CAATGGGTATGGTAACACCAGTGTGCACGGTAAAAAACAAATTGTTCTTGTTCAAAGATTCATTT
1 CAATGGGTACGGTAACACCAGTGTGCACGGTAAAAAACAAATCGTTCTTGTTCAAAGATTCATTT
84464710 TCATAATTAATCAATTTTTTAAGTTAGTTAAAAAAAAAGCATATTTTTATTATTAGGGTGGTGCC
66 TCATAATTAATCAATTTTTTAAGTTAGTT-AAAAAAAAGCATATTTTTATTATTAGGGTGGTGCC
84464775 TC
130 TC
* *
84464777 CAATGGGTACGGTAACACTAGTGTGCACGGTAAAAAAAACGAATCGTTCTT-TTACAAAGATTCA
1 CAATGGGTACGGTAACACCAGTGTGCACGGT--AAAAAACAAATCGTTCTTGTT-CAAAGATTCA
*
84464841 TTTTCATAATTAATCAATTTTTTTAAGTTAGTT-AAAAAAAGCATTTTTTT
63 TTTTCATAATTAATCAA-TTTTTTAAGTTAGTTAAAAAAAAGCATATTTTT
84464891 TTTTTTTTAC
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
132 29 0.28
133 18 0.17
134 43 0.41
135 15 0.14
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (131 bp):
CAATGGGTACGGTAACACCAGTGTGCACGGTAAAAAACAAATCGTTCTTGTTCAAAGATTCATTT
TCATAATTAATCAATTTTTTAAGTTAGTTAAAAAAAAGCATATTTTTATTATTAGGGTGGTGCCT
C
Found at i:84475260 original size:39 final size:37
Alignment explanation
Indices: 84475189--84475286 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
84475179 CAAGATTGCT
* * *
84475189 AATATTATTATAAAAATTGTAAACAAATTAATAATATAAA
1 AATATT-TTATAAAATTTATAAACAAAATAAT-AT-TAAA
84475229 AATATTTTATAAAATTTATAATA-AAAATAATATTAAA
1 AATATTTTATAAAATTTATAA-ACAAAATAATATTAAA
**
84475266 AATATTTTATATTATTTATAA
1 AATATTTTATAAAATTTATAA
84475287 GTTTTAGTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 23 0.44
38 2 0.04
39 20 0.38
40 7 0.13
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (37 bp):
AATATTTTATAAAATTTATAAACAAAATAATATTAAA
Found at i:84475330 original size:29 final size:29
Alignment explanation
Indices: 84475298--84475357 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
84475288 TTTTAGTAAA
*
84475298 TTTTAAAAA-AATTACACTATTTTCATAAT
1 TTTTAAAAACAATTA-AATATTTTCATAAT
* *
84475327 TTTTAAAAACTATTAAATATTTTTATAAT
1 TTTTAAAAACAATTAAATATTTTCATAAT
84475356 TT
1 TT
84475358 AATAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTAAAAACAATTAAATATTTTCATAAT
Found at i:84475397 original size:67 final size:67
Alignment explanation
Indices: 84475261--84475387 Score: 152
Period size: 68 Copynumber: 1.9 Consensus size: 67
84475251 AAAAATAATA
** * *
84475261 TTAAAAATATTTTATATTATTTATAAGTTTTAGTAAATTTTAAAAAAATTACACTATTTTCATAA
1 TTAAAAATATTAAATATTATTTATAAG-TTTAATAAATTTTAAAAAAATTACAATATTTTCATAA
84475326 TTT
65 TTT
*
84475329 TTAAAAACTATTAAATATT-TTTATAA-TTTAATAAAATTTTAAAATAATTTA-AATATTTT
1 TTAAAAA-TATTAAATATTATTTATAAGTTTAAT-AAATTTTAAAA-AAATTACAATATTTT
84475388 TATGTTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
66 5 0.10
67 18 0.35
68 19 0.37
69 9 0.18
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.50
Consensus pattern (67 bp):
TTAAAAATATTAAATATTATTTATAAGTTTAATAAATTTTAAAAAAATTACAATATTTTCATAAT
TT
Found at i:84476035 original size:12 final size:12
Alignment explanation
Indices: 84476018--84476042 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84476008 TATCTTAGTA
84476018 TACTCATGTGTG
1 TACTCATGTGTG
84476030 TACTCATGTGTG
1 TACTCATGTGTG
84476042 T
1 T
84476043 GAGAGTTTTA
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:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TACTCATGTGTG
Found at i:84477029 original size:17 final size:17
Alignment explanation
Indices: 84477007--84477039 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
84476997 ATAAATTTCT
84477007 AATAAA-ATTTTCAATTC
1 AATAAATATTTT-AATTC
84477024 AATAAATATTTTAATT
1 AATAAATATTTTAATT
84477040 TGTTAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAAATATTTTAATTC
Found at i:84481393 original size:22 final size:23
Alignment explanation
Indices: 84481365--84481407 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
84481355 GAAGAAGAAA
84481365 AAAAAGAAAGA-GAGGAAGAGAG
1 AAAAAGAAAGAGGAGGAAGAGAG
* *
84481387 AAAAAGAGAGAGGAGGGAGAG
1 AAAAAGAAAGAGGAGGAAGAG
84481408 GGGAAGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAGAGGAGGAAGAGAG
Found at i:84481553 original size:2 final size:2
Alignment explanation
Indices: 84481546--84481570 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84481536 CGAATGTATG
84481546 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
84481571 GTTAGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84482858 original size:14 final size:14
Alignment explanation
Indices: 84482825--84482858 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
84482815 GAGTTGATTT
84482825 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
84482839 TT-AAAAACAGAAA
1 TTGAAAAACAGAAA
84482852 TTGAAAA
1 TTGAAAA
84482859 TACCTTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:84482888 original size:88 final size:88
Alignment explanation
Indices: 84482703--84482938 Score: 334
Period size: 88 Copynumber: 2.7 Consensus size: 88
84482693 CAGAAATTAA
*
84482703 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATG-AATT-AAAACAGAAAT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACA-GAAATTAAAAACAGAAAT
* *
84482765 CGGAAATACCTCAGCATGTGAGCC
65 CGAAAATACCTCAGCATGCGAGCC
* *
84482789 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAACAGAAATT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAACAGAAATC
**
84482854 GAAAATACCTTGGCATGCGAGCC
66 GAAAATACCTCAGCATGCGAGCC
* ** *
84482877 AAGGCTCAACTCACTTCTTGCAATATGAGTTGAGTTTTTGAAAAGTAAAAATTAAAAACAGA
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAACAGA
84482939 GTTTGAAAGA
Statistics
Matches: 134, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
86 38 0.28
87 10 0.07
88 61 0.46
89 25 0.19
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (88 bp):
AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAACAGAAATC
GAAAATACCTCAGCATGCGAGCC
Found at i:84483035 original size:14 final size:14
Alignment explanation
Indices: 84483016--84483045 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84483006 GAGTTGATTT
*
84483016 TTGAAAAGCAGAAA
1 TTGAAAAGAAGAAA
84483030 TTGAAAAGAAGAAA
1 TTGAAAAGAAGAAA
84483044 TT
1 TT
84483046 AGGATTACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGAAGAAA
Found at i:84483180 original size:89 final size:86
Alignment explanation
Indices: 84482948--84483550 Score: 566
Period size: 89 Copynumber: 6.9 Consensus size: 86
84482938 AGTTTGAAAG
* * *
84482948 ACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
**
84483013 TTTTTGAAAAGCAGAAATTGAAAA
64 TTTTTGAAAAATAGAAATT-AAAA
* *
84483037 GA-AGAAATT-AGGATTACCTCAGCGTG-CCACGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 -ACAGAAATTGA-AAATACCTCAGCGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
84483099 ATTTTTGAAAAATATAGATTGAAAAAA
63 ATTTTTGAAAAATAGAAATT---AAAA
* *
84483126 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA---G---
1 ACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
84483185 -TTG-AAAACAGACATTAAAA
66 TTTGAAAAATAGAAATTAAAA
* * * * * *
84483204 ACGGAAATTGAAAGTAGCTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATACCTC-A-GCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
84483269 TTTTTTTTTTGAAAAGTAGAAATT-AAA
64 -----TTTTTGAAAAATAGAAATTAAAA
* * * *
84483296 ACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACATTTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
84483361 TTTTTGAAAAATATAAACTGAAAA
64 TTTTTGAAAAATAGAAA-TTAAAA
* * * * *
84483385 ACAAAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
**
84483450 TTTTTGAAAAGCAGAAATTAGAAA
64 TTTTTGAAAAATAGAAATTA-AAA
* * * *
84483474 GCAGAAATTGAAAATACCTCAGCAT-ACCCTGAGGCTCAACTCACTTCTCGCAATATGAATTGAT
1 ACAGAAATTGAAAATACCTCAGCGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
84483538 TTTTTGAAAAATA
64 TTTTTGAAAAATA
84483551 TAAACTGTCA
Statistics
Matches: 419, Mismatches: 64, Indels: 62
0.77 0.12 0.11
Matches are distributed among these distances:
78 21 0.05
79 1 0.00
80 32 0.08
81 9 0.02
82 3 0.01
83 1 0.00
86 3 0.01
87 101 0.24
88 19 0.05
89 157 0.37
90 5 0.01
92 58 0.14
93 9 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (86 bp):
ACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTGAAAAATAGAAATTAAAA
Found at i:84483359 original size:348 final size:353
Alignment explanation
Indices: 84482704--84483536 Score: 949
Period size: 348 Copynumber: 2.3 Consensus size: 353
84482694 AGAAATTAAA
*
84482704 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAT-GAATT-AAAACAGAAATC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAG-ATTAAAAACAGAAATT
* *
84482766 GGAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAA
65 GAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACTTCTCGCAATATGA---G----TTG-A
*** * *
84482830 AAACAGAAATTAAAAACAGAAATTGAAAATACCTTGGCATGCGAGCCAAGGCTCAACTCACTTCT
119 AAACAGAAATTAAAAACAGAAATTGAAAATACCTCAACACGCGAGCCAAGGCTCAACTCACCTCT
* *
84482895 TGCAATATGAGTTGAGTTTTTGAAAAGTAAAAATTAAAAACAGAGTTTGAAAGACAGAATTTGAA
184 CGCAATATGAGTTGAGTTTTT-AAAAGTAAAAAGT-AAAACAGAG-TTGAAAGACAGAATTTGAA
* * *
84482960 AATACCTCGGCATGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGC
246 AATACCTCGGCATGTGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAAC
* * * *
84483025 AGAAATTGAAAAGA-AGAAATT-AGGATTACCTCAGCGTG-CCACG
311 AGAAACTGAAAA-ACAAAAATTGA-AAATACCTCAGCGTGTCC-CG
*
84483068 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAGATTGAAAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAGATT---AAAAACAGAAA
* * *
84483133 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAAACAGACA
63 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAAAACAGAAA
* * * *
84483198 TTAAAAACGGAAATTGAAAGTAGCTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
128 TTAAAAACAGAAATTGAAAATACCTCAACACGCGAGCCAAGGCTCAACTCACCTCTCGCAATATG
**** * *
84483263 AGTTGA-TTTTT-TTTTTGAAAAGT-AGA-A-A-TT-AAA-ACAGAATTTGAAAATACCTCGGCA
193 AGTTGAGTTTTTAAAAGTAAAAAGTAAAACAGAGTTGAAAGACAGAATTTGAAAATACCTCGGCA
* * *
84483320 TGTGACCCGAGGCTCAACTCACATTTCGCAATATGAGTTGATTTTTGAAAAATATAAACTGAAAA
258 TGTGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACTGAAAA
* *
84483385 ACAAAAATTGAAAATACCTCAGTGTGTCCTG
323 ACAAAAATTGAAAATACCTCAGCGTGTCCCG
* * * * *
84483416 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTAGAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACATAGATTA-AAAACAGAAA
* * *
84483481 TTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACTTCTCGCAATATGAATTGA
63 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
84483537 TTTTTTGAAA
Statistics
Matches: 410, Mismatches: 46, Indels: 42
0.82 0.09 0.08
Matches are distributed among these distances:
347 2 0.00
348 192 0.47
349 6 0.01
350 17 0.04
352 1 0.00
353 1 0.00
354 2 0.00
356 6 0.01
358 5 0.01
359 70 0.17
360 3 0.01
364 39 0.10
365 9 0.02
366 3 0.01
367 30 0.07
369 24 0.06
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (353 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAGATTAAAAACAGAAATTG
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAAAACAGAAATTA
AAAACAGAAATTGAAAATACCTCAACACGCGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGAGTTTTTAAAAGTAAAAAGTAAAACAGAGTTGAAAGACAGAATTTGAAAATACCTCGGCATGT
GACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACTGAAAAACA
AAAATTGAAAATACCTCAGCGTGTCCCG
Found at i:84483476 original size:14 final size:13
Alignment explanation
Indices: 84483457--84483486 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
84483447 ATTTTTTTGA
84483457 AAAGCAGAAATTAG
1 AAAGCAGAAATT-G
84483471 AAAGCAGAAATTG
1 AAAGCAGAAATTG
84483484 AAA
1 AAA
84483487 ATACCTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.60, C:0.07, G:0.20, T:0.13
Consensus pattern (13 bp):
AAAGCAGAAATTG
Found at i:84495522 original size:2 final size:2
Alignment explanation
Indices: 84495517--84495546 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
84495507 ATACGTAACA
84495517 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84495547 TGAAAGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84495783 original size:16 final size:16
Alignment explanation
Indices: 84495747--84495780 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
84495737 ATGATGGTAT
84495747 AATATATATAAAAACA
1 AATATATATAAAAACA
*
84495763 AATATAATATAATAACA
1 AATAT-ATATAAAAACA
84495780 A
1 A
84495781 TATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AATATATATAAAAACA
Found at i:84497083 original size:22 final size:23
Alignment explanation
Indices: 84497055--84497097 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
84497045 GAAGAAGAAA
84497055 AAAAAGAAAGA-GAGGAAGAGAG
1 AAAAAGAAAGAGGAGGAAGAGAG
* *
84497077 AAAAAGAGAGAGGAGGGAGAG
1 AAAAAGAAAGAGGAGGAAGAG
84497098 GGGAAGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAGAGGAGGAAGAGAG
Found at i:84498320 original size:22 final size:20
Alignment explanation
Indices: 84498285--84498331 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
84498275 GGAAGAGAAT
84498285 GGAAAATAAAGAACAAAAAA
1 GGAAAATAAAGAACAAAAAA
*
84498305 GGAAAATTAAAAGAACATAAAA
1 GGAAAA-T-AAAGAACAAAAAA
84498327 -GAAAA
1 GGAAAA
84498332 AGATTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 12 0.50
ACGTcount: A:0.72, C:0.04, G:0.15, T:0.09
Consensus pattern (20 bp):
GGAAAATAAAGAACAAAAAA
Found at i:84503068 original size:29 final size:29
Alignment explanation
Indices: 84503026--84503086 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
84503016 CTCGACTGTG
* *
84503026 GTTATTTGCACTGTTTTGGTGTAGTTGAA
1 GTTATTTGCACTGTTTTGGTGCAGGTGAA
84503055 GTTATTTGCACTGTTTTGGTGCAGGTGAA
1 GTTATTTGCACTGTTTTGGTGCAGGTGAA
84503084 GTT
1 GTT
84503087 GGTCATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.16, C:0.08, G:0.30, T:0.46
Consensus pattern (29 bp):
GTTATTTGCACTGTTTTGGTGCAGGTGAA
Found at i:84504961 original size:93 final size:93
Alignment explanation
Indices: 84504849--84505020 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
84504839 CGCCCATAAG
* *
84504849 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
84504914 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
84504942 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
84505007 ACGATTTCGGATGC
66 ACGAGTTCGGATGC
84505021 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:84505017 original size:46 final size:46
Alignment explanation
Indices: 84504842--84505017 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
84504832 TGTCACCCGC
* * *
84504842 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
84504888 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
84504938 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
84504981 CCATAAGTGAACTCGGACTCAACTCAACGATTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
84505018 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:84512621 original size:40 final size:40
Alignment explanation
Indices: 84512514--84512622 Score: 159
Period size: 40 Copynumber: 2.7 Consensus size: 40
84512504 CACTAGCTCA
* *
84512514 AAGCCTGCGGAACTTTAAGCCCGG--ATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATATAGTACCAGCACG
*
84512554 AAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATATAGTACCAGCACG
84512594 AAGCCTGCGGGATTTAACCCGGATATATA
1 AAGCCTGCGGGATTTAACCCGGATATATA
84512623 ATATATCAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
38 5 0.08
39 5 0.08
40 54 0.84
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATATAGTACCAGCACG
Found at i:84513682 original size:17 final size:18
Alignment explanation
Indices: 84513660--84513693 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
84513650 AGTCGAATTG
84513660 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
84513677 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
84513694 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:84515541 original size:28 final size:28
Alignment explanation
Indices: 84515476--84515574 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
84515466 CATGAGATTG
* * *
84515476 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
84515505 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
84515533 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
84515561 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
84515575 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:84517506 original size:10 final size:10
Alignment explanation
Indices: 84517487--84517526 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
84517477 TTAAATTCTA
84517487 AAAGATAAAT
1 AAAGATAAAT
84517497 ACAA-ATAAAT
1 A-AAGATAAAT
84517507 AAAGATAAAT
1 AAAGATAAAT
*
84517517 GAAGATAAAT
1 AAAGATAAAT
84517527 GAAAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:84518325 original size:96 final size:97
Alignment explanation
Indices: 84518197--84518380 Score: 280
Period size: 96 Copynumber: 1.9 Consensus size: 97
84518187 TTTTAATTTA
* * **
84518197 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
1 TTTATTTTTACTTAAGAACATAACGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
84518262 ACCCGGTTACTCAGCCCAACACACTCCTAATT
66 ACCCGGTTACTCAGCCCAACACACTCCTAATT
* ** *
84518294 TTTATTTTT-CTTAAGAACATAACGAACCTTTTGACGCGAAGAGAGATGACAGCCAGGCACCTCA
1 TTTATTTTTACTTAAGAACATAACGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
*
84518358 CCCCGGTTACTCAGCCCAACACA
66 ACCCGGTTACTCAGCCCAACACA
84518381 TTCTTAAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 69 0.88
97 9 0.12
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATAACGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
ACCCGGTTACTCAGCCCAACACACTCCTAATT
Found at i:84519140 original size:5 final size:5
Alignment explanation
Indices: 84519130--84519224 Score: 131
Period size: 5 Copynumber: 18.8 Consensus size: 5
84519120 AACATCCAAA
*
84519130 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA- ATAAT AAATAGT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-A-T AAAAT AAAAT
*
84519181 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -TAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
84519225 AAATTGGGTT
Statistics
Matches: 81, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
4 6 0.07
5 66 0.81
6 5 0.06
7 4 0.05
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:84527699 original size:16 final size:17
Alignment explanation
Indices: 84527668--84527700 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
84527658 TTCATAAGTA
84527668 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
84527685 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
84527701 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:84528050 original size:46 final size:46
Alignment explanation
Indices: 84527997--84528254 Score: 367
Period size: 46 Copynumber: 5.6 Consensus size: 46
84527987 TGTCATAGTG
* *
84527997 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCGTGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTA
* * *
84528043 CCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* *
84528089 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* **
84528135 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
84528181 TCTTTCAACCATGGTCGTACACATTTCATAT-ATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
*
84528226 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
84528255 TTTAGAAAGC
Statistics
Matches: 193, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
45 46 0.24
46 147 0.76
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
Found at i:84530086 original size:11 final size:11
Alignment explanation
Indices: 84530070--84530117 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
84530060 CTTTATATAC
84530070 TAATAAAATAA
1 TAATAAAATAA
*
84530081 TAATAAAATATCT
1 TAATAAAATA--A
* *
84530094 TATTAAAATAT
1 TAATAAAATAA
84530105 TAATAAAATAA
1 TAATAAAATAA
84530116 TA
1 TA
84530118 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:84530884 original size:19 final size:19
Alignment explanation
Indices: 84530860--84530902 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
84530850 CTTATCTTTG
84530860 GAACTCACTAAGTACATTT
1 GAACTCACTAAGTACATTT
84530879 GAACTCACTAAGTACATTT
1 GAACTCACTAAGTACATTT
84530898 GAACT
1 GAACT
84530903 TACTCTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (19 bp):
GAACTCACTAAGTACATTT
Found at i:84538218 original size:10 final size:10
Alignment explanation
Indices: 84538205--84538238 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
84538195 AAAAATACAT
84538205 AAATATTTTA
1 AAATATTTTA
84538215 AAATATTTTA
1 AAATATTTTA
*
84538225 AATATATATTA
1 AA-ATATTTTA
84538236 AAA
1 AAA
84538239 GTTTTTACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATATTTTA
Found at i:84540024 original size:37 final size:37
Alignment explanation
Indices: 84539940--84540066 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
84539930 TTATTACGAA
84539940 GTCTTACCCGGACATAATCTCCACACGTAGTCAT-GG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
84539976 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
84540013 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
84540050 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
84540067 TTTCCAAGTT
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
36 34 0.39
37 49 0.56
38 5 0.06
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:84540158 original size:48 final size:48
Alignment explanation
Indices: 84540105--84540208 Score: 190
Period size: 48 Copynumber: 2.2 Consensus size: 48
84540095 ATGTTCAACA
84540105 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
* *
84540153 TTCACATTAGCCATTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
84540201 TTCACATT
1 TTCACATT
84540209 CATCACATCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
Found at i:84540262 original size:49 final size:49
Alignment explanation
Indices: 84540200--84540533 Score: 568
Period size: 49 Copynumber: 6.9 Consensus size: 49
84540190 CACACATATA
*
84540200 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
84540249 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
84540296 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
84540345 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
84540392 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
84540441 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
84540490 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
84540534 CATCTCATAC
Statistics
Matches: 269, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 89 0.33
49 180 0.67
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:84540300 original size:96 final size:96
Alignment explanation
Indices: 84540200--84540533 Score: 587
Period size: 96 Copynumber: 3.5 Consensus size: 96
84540190 CACACATATA
* *
84540200 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
84540265 TCGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
*
84540296 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
84540361 TTGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
*
84540392 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
84540457 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCAC--ATATATACTC
*
84540490 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
84540534 CATCTCATAC
Statistics
Matches: 229, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
96 178 0.78
98 51 0.22
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACTC
Found at i:84540316 original size:145 final size:146
Alignment explanation
Indices: 84540200--84540533 Score: 575
Period size: 145 Copynumber: 2.3 Consensus size: 146
84540190 CACACATATA
*
84540200 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
84540265 TCGGCCATTAGGCCTTATCACA-TATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTA
66 TCGGCCATTAGGCCTTATCACAGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
*
84540329 TCACATGTATATACAC
131 TCACATATATATACAC
* *
84540345 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
84540408 TTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
66 TCGGCCATTAGGCCTTATCACA-GTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
84540473 ATCACATATATATACAC
130 ATCACATATATATACAC
*
84540490 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
84540534 CATCTCATAC
Statistics
Matches: 178, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
143 45 0.25
145 128 0.72
147 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (146 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACAGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
TCACATATATATACAC
Found at i:84549087 original size:15 final size:16
Alignment explanation
Indices: 84549049--84549085 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
84549039 AAAAATTTAT
*
84549049 TAAAAAAT-AATAATG
1 TAAAAAATAAATAATA
84549064 TAAAAAATAAATAATA
1 TAAAAAATAAATAATA
84549080 TAAAAA
1 TAAAAA
84549086 TATATTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAATAAATAATA
Found at i:84559247 original size:68 final size:68
Alignment explanation
Indices: 84559169--84559304 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
84559159 ATGACAAGAT
84559169 AATAGAATACCAAAAAGAAAATGTAATATAATTACATTGATTAGCCTCTATATACTAATAGAACT
1 AATAGAATACCAAAAAGAAAATGTAATATAATTACATTGATTAGCCTCTATATACTAATAGAACT
84559234 GCA
66 GCA
84559237 AATAGAATACCAAAAAGAAAATGTAATATAATTACATTGATTAGCCTCTATATACTAATAGAACT
1 AATAGAATACCAAAAAGAAAATGTAATATAATTACATTGATTAGCCTCTATATACTAATAGAACT
84559302 GCA
66 GCA
84559305 TTGTTTTTCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (68 bp):
AATAGAATACCAAAAAGAAAATGTAATATAATTACATTGATTAGCCTCTATATACTAATAGAACT
GCA
Found at i:84566383 original size:27 final size:25
Alignment explanation
Indices: 84566340--84566392 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
84566330 TATGCTTCGT
*
84566340 ATTTTTTTGTTTTTTTCTCAATTAA
1 ATTTTTTTGTTTTTTTCACAATTAA
* *
84566365 ATTTTATTTTTTTTGTTTCACACTTAA
1 ATTTT-TTTGTTTT-TTTCACAATTAA
84566392 A
1 A
84566393 CTTTGATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 7 0.30
27 11 0.48
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (25 bp):
ATTTTTTTGTTTTTTTCACAATTAA
Found at i:84568453 original size:23 final size:24
Alignment explanation
Indices: 84568407--84568455 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
84568397 TTTTCCACCA
84568407 TATAAAAATAACACATTTGATAATC
1 TATAAAAATAACACATTT-ATAATC
* *
84568432 TATAAAAGTAACATATTT-TAATC
1 TATAAAAATAACACATTTATAATC
84568455 T
1 T
84568456 CATTCTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
25 16 0.73
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
TATAAAAATAACACATTTATAATC
Found at i:84568804 original size:23 final size:23
Alignment explanation
Indices: 84568753--84568804 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
84568743 ATACCAATTA
* *
84568753 GAAGAAGATCTAAGGGATCACTC
1 GAAGAAGATCTAAGAGAACACTC
84568776 -ATAGAAGAT-TGAAGAGAACACTC
1 GA-AGAAGATCT-AAGAGAACACTC
84568799 GAAGAA
1 GAAGAA
84568805 CGCCATCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
22 2 0.08
23 21 0.88
24 1 0.04
ACGTcount: A:0.46, C:0.13, G:0.25, T:0.15
Consensus pattern (23 bp):
GAAGAAGATCTAAGAGAACACTC
Found at i:84581078 original size:40 final size:40
Alignment explanation
Indices: 84581016--84581109 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
84581006 GACTCCGTCT
* * *
84581016 AACCCAACACACC-T-TTTGGGGATAAAATCGACCTACCC
1 AACCCTACACACCATATATGGGGATAAAATCGACCCACCC
* * *
84581054 ATCCCTACACACCATATATGGGGATAAAATCGACCCATCT
1 AACCCTACACACCATATATGGGGATAAAATCGACCCACCC
84581094 AACCCTACACACCATA
1 AACCCTACACACCATA
84581110 AGGTACTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 11 0.23
39 1 0.02
40 35 0.74
ACGTcount: A:0.36, C:0.34, G:0.11, T:0.19
Consensus pattern (40 bp):
AACCCTACACACCATATATGGGGATAAAATCGACCCACCC
Found at i:84584726 original size:14 final size:16
Alignment explanation
Indices: 84584698--84584729 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
84584688 TAGTTTTTCA
84584698 TTTTTCATTTCTCTTT
1 TTTTTCATTTCTCTTT
84584714 TTTTTCATTTCT-TTT
1 TTTTTCATTTCTCTTT
84584729 T
1 T
84584730 GTTGTAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCATTTCTCTTT
Found at i:84590454 original size:16 final size:16
Alignment explanation
Indices: 84590428--84590499 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
84590418 TTTGGTTCAG
*
84590428 TGTAATGGAATAGAGC
1 TGTAATAGAATAGAGC
* *
84590444 TATAATAGAATAGAAC
1 TGTAATAGAATAGAGC
* *
84590460 TGTAATGGAATAGAGT
1 TGTAATAGAATAGAGC
**
84590476 TGTAATAGAATAGAAT
1 TGTAATAGAATAGAGC
84590492 TGTAATAG
1 TGTAATAG
84590500 CAATTATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGAGC
Found at i:84590469 original size:32 final size:32
Alignment explanation
Indices: 84590428--84590497 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
84590418 TTTGGTTCAG
84590428 TGTAATGGAATAGAGCTATAATAGAATAGAAC
1 TGTAATGGAATAGAGCTATAATAGAATAGAAC
* * *
84590460 TGTAATGGAATAGAGTTGTAATAGAATAGAAT
1 TGTAATGGAATAGAGCTATAATAGAATAGAAC
84590492 TGTAAT
1 TGTAAT
84590498 AGCAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (32 bp):
TGTAATGGAATAGAGCTATAATAGAATAGAAC
Found at i:84590542 original size:46 final size:44
Alignment explanation
Indices: 84590483--84590571 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
84590473 AGTTGTAATA
*
84590483 GAATAGAATTGTAATAGCAATTATAAT-TGTTTGGTTGAATGGAATG
1 GAATAGAACTGTAATAG-AATTAT--TGTGTTTGGTTGAATGGAATG
* *
84590529 GAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGGAAT
1 GAATAGAACTGTAATAGAATTATTGTGTTTGGTTGAATGGAAT
84590572 AGAGTTGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.46
45 4 0.10
46 16 0.41
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (44 bp):
GAATAGAACTGTAATAGAATTATTGTGTTTGGTTGAATGGAATG
Found at i:84590772 original size:21 final size:21
Alignment explanation
Indices: 84590742--84590829 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
84590732 TTATTATTAA
*
84590742 ATATACTTTAACAATAATAAT
1 ATATAATTTAACAATAATAAT
*
84590763 ATATAATTT---AATAATATT
1 ATATAATTTAACAATAATAAT
* * *
84590781 CT-TAATATAACAATTAATAAA
1 ATATAATTTAACAA-TAATAAT
* *
84590802 ATATGAA-TTAATAAAAATAAT
1 ATAT-AATTTAACAATAATAAT
84590823 ATATAAT
1 ATATAAT
84590830 ATTACGAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
17 5 0.10
18 9 0.18
20 4 0.08
21 23 0.47
22 6 0.12
23 2 0.04
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.39
Consensus pattern (21 bp):
ATATAATTTAACAATAATAAT
Found at i:84599193 original size:64 final size:64
Alignment explanation
Indices: 84599125--84599336 Score: 144
Period size: 64 Copynumber: 3.2 Consensus size: 64
84599115 ACTGGGCCAG
*
84599125 AGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATA
1 AGCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATA
* * * *** * ** *
84599189 AGCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGG
1 AGCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---G
* *
84599251 TACTGGGCCA-G
54 TA-TGGCCCATA
*
84599262 AGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATA
1 AGCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATA
*
84599326 GGCCCATTTCA
1 AGCCCATTTCA
84599337 AAATACATAC
Statistics
Matches: 103, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 8 0.08
64 26 0.25
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 17 0.17
74 8 0.08
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (64 bp):
AGCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATA
Found at i:84599338 original size:137 final size:137
Alignment explanation
Indices: 84599092--84599378 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
84599082 CATTGGGCCT
*
84599092 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
84599157 AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATACAACATCAGTAAA
84599222 CATATGC
131 CATATGC
*
84599229 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
84599294 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATACAACATCAGTAAA
84599359 CATATGC
131 CATATGC
84599366 AAGCCCATTTAGG
1 AAGCCCATTTAGG
84599379 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATACAACATCAGTAAA
CATATGC
Found at i:84601206 original size:26 final size:26
Alignment explanation
Indices: 84601170--84601253 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
84601160 CATGAAATTC
84601170 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84601196 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84601222 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84601248 TTATCA
1 TTATCA
84601254 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84606457 original size:21 final size:20
Alignment explanation
Indices: 84606431--84606488 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
84606421 TCTAAACTTT
84606431 CTATTTTTTTTAAAAAAAATA
1 CTATTTTTTTTAAAAAAAA-A
* *
84606452 CTATTTTTCTTAAAAAATAA
1 CTATTTTTTTTAAAAAAAAA
84606472 CTA-TTTTTTTAAAAAAA
1 CTATTTTTTTTAAAAAAA
84606489 TCAAAGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.36
20 4 0.12
21 17 0.52
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
CTATTTTTTTTAAAAAAAAA
Found at i:84606466 original size:19 final size:19
Alignment explanation
Indices: 84606435--84606487 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
84606425 AACTTTCTAT
*
84606435 TTTTTTTAAAAAAAATACTA
1 TTTTTTTAAAAAATA-ACTA
84606455 TTTTTCTTAAAAAATAACTA
1 TTTTT-TTAAAAAATAACTA
84606475 TTTTTTTAAAAAA
1 TTTTTTTAAAAAA
84606488 ATCAAAGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 8 0.26
20 14 0.45
21 9 0.29
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTTTTAAAAAATAACTA
Found at i:84606504 original size:171 final size:172
Alignment explanation
Indices: 84606313--84606639 Score: 461
Period size: 172 Copynumber: 1.9 Consensus size: 172
84606303 TACTTTTCTT
*
84606313 AAAATTCAAAGCTTTATTTT-GAAATAGTTGAAAAA-ATCAAAACTTTATTTT-AAAATTTTAAA
1 AAAAATCAAAGCTTTATTTTGGAAATAGTTGAAAAATAT-AAAACTTTATTTTCAAAA-TTTAAA
*
84606375 CTTTTCCTTTAAAAT-AGCTAAAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTATTTTT
64 ATTTTCCTTTAAAATGA-CT--AAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTATTTTT
*
84606439 -TTTAAAAAAAAT-ACTATTTTTCTTAAAAAATAACTATTTTTTTAA
126 CTTTAAAAAAAATCACTATTTTTATTAAAAAATAACTATTTTTTTAA
* * *
84606484 AAAAATCAAAG-TTCTATTTTGGAAATAGTTGAAAAATATTAAATTTTTTTTTCAAAATTTAAAA
1 AAAAATCAAAGCTT-TATTTTGGAAATAGTTGAAAAATATAAAACTTTATTTTCAAAATTTAAAA
* * *
84606548 TTTTCCTTTAAAATGACTAAAAATATTTTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTCTTT
65 TTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTATTTTTCTTT
*
84606613 TAAAAAAATCACTATTTTTATTAAAAA
130 AAAAAAAATCACTATTTTTATTAAAAA
84606640 TCAAAGTTTT
Statistics
Matches: 139, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
170 42 0.30
171 27 0.19
172 63 0.45
173 7 0.05
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (172 bp):
AAAAATCAAAGCTTTATTTTGGAAATAGTTGAAAAATATAAAACTTTATTTTCAAAATTTAAAAT
TTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTATTTTTCTTTA
AAAAAAATCACTATTTTTATTAAAAAATAACTATTTTTTTAA
Found at i:84606715 original size:153 final size:147
Alignment explanation
Indices: 84606455--84606905 Score: 457
Period size: 153 Copynumber: 3.1 Consensus size: 147
84606445 AAAAATACTA
* * *
84606455 TTTTTCTTAAAAAATAACTATTTTT-TTAAAAAAATCAAAGT-TCTATTTTGGAAATAGTTGAAA
1 TTTTTTTTAAAAAATAACTATTTTTATT--AAAAATCAAA-TCTTTA-TTTCGAAATAGTTGAAA
* * * * * *
84606518 AATAT-TAAATTTTTTTTTCAAAATTTAAAATTTTCCTTTAAAATGACTAAAAATATTTTTTTAT
62 AAGATCAAAAATTTATTTTAAAAATTT-AAATTTTCCTTTAAAATGACTAAAAATATATTTTTAT
84606582 TTTTAAAAATCTAAACTTTCTCT
126 TTTTAAAAATCTAAACTTT-TCT
*
84606605 TTTTCTTTTAAAAAAATCACTATTTTTATTAAAAATCAAAGT-TTTATTTCG-AATAGTTGAAAA
1 TTTT-TTTT-AAAAAATAACTATTTTTATTAAAAATCAAA-TCTTTATTTCGAAATAGTTGAAAA
* * ** * *
84606668 AGATGAAAACTTT-TTTTAAATTTTTTTTTAAACTTTTCCTTTAAAATGACTAAAAATAGATCTT
63 AGATCAAAAATTTATTTTAAA----AATTTAAA-TTTTCCTTTAAAATGACTAAAAATATATTTT
*
84606732 CATTTTTAAAAATCTAAA-----C-
123 TATTTTTAAAAATCTAAACTTTTCT
* *
84606751 TTTTTTTT---AAATAACTATTTTTCTTAAAAATCAAATCTTTATTTTGAAATAGTTGAAAAAGA
1 TTTTTTTTAAAAAATAACTATTTTTATTAAAAATCAAATCTTTATTTCGAAATAGTTGAAAAAGA
* *
84606813 TCAAAAATTTATTTTAAAAATTTAAAATTTCCTTTAAAATAACTAAAAA-ATGATTTTTATTTTT
66 TCAAAAATTTATTTTAAAAATTTAAATTTTCCTTTAAAATGACTAAAAATAT-ATTTTTATTTTT
*
84606877 AAAAATCTAAACTTTTGT
130 AAAAATCTAAACTTTTCT
84606895 TTTTTTTTAAA
1 TTTTTTTTAAA
84606906 TCAAAACTTT
Statistics
Matches: 252, Mismatches: 27, Indels: 47
0.77 0.08 0.14
Matches are distributed among these distances:
137 1 0.00
138 42 0.17
139 6 0.02
140 1 0.00
141 33 0.13
142 23 0.09
143 7 0.03
144 8 0.03
145 4 0.02
146 4 0.02
147 1 0.00
149 21 0.08
150 14 0.06
151 18 0.07
152 19 0.08
153 50 0.20
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (147 bp):
TTTTTTTTAAAAAATAACTATTTTTATTAAAAATCAAATCTTTATTTCGAAATAGTTGAAAAAGA
TCAAAAATTTATTTTAAAAATTTAAATTTTCCTTTAAAATGACTAAAAATATATTTTTATTTTTA
AAAATCTAAACTTTTCT
Found at i:84607262 original size:3 final size:3
Alignment explanation
Indices: 84607256--84607284 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
84607246 AAGATAATAA
84607256 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
84607285 ATGATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:84611617 original size:16 final size:16
Alignment explanation
Indices: 84611584--84611634 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
84611574 ATGTATCGGC
* *
84611584 AAAAGCTGAAATGCTG
1 AAAAGCCGAAAAGCTG
*
84611600 AAAAGCCGAAAAGTTG
1 AAAAGCCGAAAAGCTG
*
84611616 AAATA-CCGAAAAGCAG
1 AAA-AGCCGAAAAGCTG
84611632 AAA
1 AAA
84611635 GTTTGGTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 28 0.97
17 1 0.03
ACGTcount: A:0.53, C:0.14, G:0.22, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:84611617 original size:24 final size:24
Alignment explanation
Indices: 84611584--84611634 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
84611574 ATGTATCGGC
* * *
84611584 AAAAGCTGAAATGCTGAAAAGCCG
1 AAAAGCTGAAATACCGAAAAGCAG
*
84611608 AAAAGTTGAAATACCGAAAAGCAG
1 AAAAGCTGAAATACCGAAAAGCAG
84611632 AAA
1 AAA
84611635 GTTTGGTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.14, G:0.22, T:0.12
Consensus pattern (24 bp):
AAAAGCTGAAATACCGAAAAGCAG
Found at i:84611941 original size:28 final size:29
Alignment explanation
Indices: 84611831--84611945 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
84611821 GTGAGCATGA
* * *
84611831 ATATGAATGTGA-CTGGACCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
84611859 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
84611888 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
84611917 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
84611945 A
1 A
84611946 GATACAGGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 28 0.37
29 47 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:84618729 original size:81 final size:80
Alignment explanation
Indices: 84618636--84618814 Score: 218
Period size: 80 Copynumber: 2.2 Consensus size: 80
84618626 CACGCCAGAA
* * * *
84618636 AAAAAGAAGCCTTTGTGGCGATCTATGAAAAA-GAAGCCTTTATGGTGATCTATGAA-AAAAAAG
1 AAAAAGAAGCCTTTGTGGCGACCTAT-AAAAATGAAGCCTCTATGG-CATCTAAGAATAAAAAA-
* *
84618699 CTTTTGTGGTAATTTATG
63 CCTTTGTGGTAATCTATG
* **
84618717 AAAAAGAAGCCTTTGTGGCGACCTATAAAAATGAAGCCTCTGTGGCATCTAAGAATAGGAAACCT
1 AAAAAGAAGCCTTTGTGGCGACCTATAAAAATGAAGCCTCTATGGCATCTAAGAATAAAAAACCT
84618782 TTGTGGTAATCTATG
66 TTGTGGTAATCTATG
* *
84618797 AAAATGAAGCCCTTGTGG
1 AAAAAGAAGCCTTTGTGG
84618815 TGACTTTTGA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 45 0.53
81 40 0.47
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (80 bp):
AAAAAGAAGCCTTTGTGGCGACCTATAAAAATGAAGCCTCTATGGCATCTAAGAATAAAAAACCT
TTGTGGTAATCTATG
Found at i:84618815 original size:27 final size:27
Alignment explanation
Indices: 84618636--84618817 Score: 188
Period size: 27 Copynumber: 6.8 Consensus size: 27
84618626 CACGCCAGAA
*
84618636 AAAAAGAAGCCTTTGTGGCGATCTATG
1 AAAAAGAAGCCTTTGTGGTGATCTATG
*
84618663 AAAAAGAAGCCTTTATGGTGATCTATG
1 AAAAAGAAGCCTTTGTGGTGATCTATG
* * * *
84618690 AAAAAAAAGCTTTTGTGGTAATTTATG
1 AAAAAGAAGCCTTTGTGGTGATCTATG
* *
84618717 AAAAAGAAGCCTTTGTGGCGACCTAT-
1 AAAAAGAAGCCTTTGTGGTGATCTATG
* * *
84618743 AAAAATGAAGCCTCTGTGG-CATCTAAG
1 AAAAA-GAAGCCTTTGTGGTGATCTATG
* * * *
84618770 AATAGGAAACCTTTGTGGTAATCTATG
1 AAAAAGAAGCCTTTGTGGTGATCTATG
* *
84618797 AAAATGAAGCCCTTGTGGTGA
1 AAAAAGAAGCCTTTGTGGTGA
84618818 CTTTTGAGGG
Statistics
Matches: 124, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
26 20 0.16
27 104 0.84
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (27 bp):
AAAAAGAAGCCTTTGTGGTGATCTATG
Found at i:84625474 original size:281 final size:281
Alignment explanation
Indices: 84624966--84625532 Score: 992
Period size: 281 Copynumber: 2.0 Consensus size: 281
84624956 ACAAGACGAT
*
84624966 AATGCTATAACATAACTTGATTTTCAAGGGAAATAAAATTAGAATTGGATACAGACATTGATTTG
1 AATGCTATAACATAACTTGATTTTCAAGGGAAACAAAATTAGAATTGGATACAGACATTGATTTG
*
84625031 GAAGTAAGTTTGACACACTTTTTACTAGAATTTGAACCACAACTTGATGGGTAAACTGGTCTACT
66 GAAGTAAGTTTGACACACTTTTTACTAGAATCTGAACCACAACTTGATGGGTAAACTGGTCTACT
* *
84625096 TGGAAGATTCTTTGCAGATATAGACCACCATGCATATTATCACTGCCAATCACCTTTCCCGAATC
131 TAGAAGATTCTTTGCAGATATAGACCACCATGCATATTATCACTGCCAATCACCTTCCCCGAATC
* *
84625161 CACTGCCTAAAAATAAAAGCAATTAGAATGAAATTTAGCAACACAATTTATGTATTGGGTAAGTT
196 CACTGCCTAAAAATAAAAACAATTAGAATGAAATTTAGCAACACAATTTATGTATCGGGTAAGTT
*
84625226 GGCTTATGGAAAGTAAATTGC
261 GACTTATGGAAAGTAAATTGC
*
84625247 AATGTTATAACATAACTTGATTTTCAAGGGAAACAAAATTAGAATTGGATACA-AGCATTGATTT
1 AATGCTATAACATAACTTGATTTTCAAGGGAAACAAAATTAGAATTGGATACAGA-CATTGATTT
* * *
84625311 GGAAGTAAGTTTGCCACACTTTTTACTAGAATCTGAACCACAACTTGATGGGTGAACTTGTCTAC
65 GGAAGTAAGTTTGACACACTTTTTACTAGAATCTGAACCACAACTTGATGGGTAAACTGGTCTAC
* *
84625376 TTAGAATATTCTTTGCAGATATAGACCATCATGCATATTATCACTGCCAATCACCTTCCCCGAAT
130 TTAGAAGATTCTTTGCAGATATAGACCACCATGCATATTATCACTGCCAATCACCTTCCCCGAAT
*
84625441 CCACTGCCTAAAAATAAAAACAATTAGAATGAAATTTAGCAACACAATTTATGTCTCGGGTAAGT
195 CCACTGCCTAAAAATAAAAACAATTAGAATGAAATTTAGCAACACAATTTATGTATCGGGTAAGT
84625506 TGACTTATGGAAAGTAAATTGC
260 TGACTTATGGAAAGTAAATTGC
84625528 AATGC
1 AATGC
84625533 AATTTAGGGA
Statistics
Matches: 270, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
280 1 0.00
281 269 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (281 bp):
AATGCTATAACATAACTTGATTTTCAAGGGAAACAAAATTAGAATTGGATACAGACATTGATTTG
GAAGTAAGTTTGACACACTTTTTACTAGAATCTGAACCACAACTTGATGGGTAAACTGGTCTACT
TAGAAGATTCTTTGCAGATATAGACCACCATGCATATTATCACTGCCAATCACCTTCCCCGAATC
CACTGCCTAAAAATAAAAACAATTAGAATGAAATTTAGCAACACAATTTATGTATCGGGTAAGTT
GACTTATGGAAAGTAAATTGC
Found at i:84627158 original size:28 final size:28
Alignment explanation
Indices: 84627070--84627158 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
84627060 GCGCTTATCG
* **
84627070 TATTATTTGGCACTTCGGTGCTTATCTTT
1 TATTATTTTGCACTTAAGTGCTTAT-TTT
* * ***
84627099 GTA-AAATTTGCACTTCAA-TGCTTATCGA
1 -TATTATTTTGCACTT-AAGTGCTTATTTT
84627127 TATTATTTTGCACTTAAGTGCTTATTTT
1 TATTATTTTGCACTTAAGTGCTTATTTT
84627155 TATT
1 TATT
84627159 TTTACTTTGT
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
27 4 0.09
28 21 0.49
29 16 0.37
30 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.49
Consensus pattern (28 bp):
TATTATTTTGCACTTAAGTGCTTATTTT
Found at i:84629103 original size:67 final size:67
Alignment explanation
Indices: 84629023--84629164 Score: 275
Period size: 67 Copynumber: 2.1 Consensus size: 67
84629013 AATTGATATA
*
84629023 AATATGTGATTATTACGGAATTTGAATATTTGTTATTGAAAAGTGAATTGAATTGTACTGAATTG
1 AATATATGATTATTACGGAATTTGAATATTTGTTATTGAAAAGTGAATTGAATTGTACTGAATTG
84629088 AG
66 AG
84629090 AATATATGATTATTACGGAATTTGAATATTTGTTATTGAAAAGTGAATTGAATTGTACTGAATTG
1 AATATATGATTATTACGGAATTTGAATATTTGTTATTGAAAAGTGAATTGAATTGTACTGAATTG
84629155 AG
66 AG
84629157 AATATATG
1 AATATATG
84629165 TGGTTAATTG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (67 bp):
AATATATGATTATTACGGAATTTGAATATTTGTTATTGAAAAGTGAATTGAATTGTACTGAATTG
AG
Found at i:84631662 original size:2 final size:2
Alignment explanation
Indices: 84631657--84631691 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
84631647 AACACACGCG
84631657 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
84631692 CATCCATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:84635316 original size:26 final size:26
Alignment explanation
Indices: 84635282--84635346 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
84635272 TGGCTATCTA
*
84635282 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAAGCTCTTCGT
* *
84635307 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAAGCTCTTCGT
* *
84635333 GAACTTCATGATTA
1 GAGCTTCCTGATTA
84635347 TAGATTTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAAGCTCTTCGT
Found at i:84642645 original size:30 final size:30
Alignment explanation
Indices: 84642611--84642668 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
84642601 CCGAGCCTAA
*
84642611 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGAAAAAGTTTAG
* * *
84642641 GGGCAAAATTGTAATTTTGAAAAAGTTT
1 GGGCAAAAGTGTAAATATGAAAAAGTTT
84642669 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGAAAAAGTTTAG
Found at i:84643232 original size:68 final size:68
Alignment explanation
Indices: 84643118--84643244 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 68
84643108 CAGATGGTAT
* *
84643118 GTAGCTAGGTCACATGTGTAATACGGGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
1 GTAGCTAGGTCACATGGGTAATACAGGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
84643183 GAG
66 GAG
* * *
84643186 GTAGCTAGGTCACATGGGTGATACTATG-TGTACGCCATGTAG-ACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGGGTAATAC-AGGATGTACACCATGT-GTACAAGAGAGCTACGAGA
84643245 TAAATGTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
68 50 0.96
69 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (68 bp):
GTAGCTAGGTCACATGGGTAATACAGGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
GAG
Found at i:84645096 original size:53 final size:53
Alignment explanation
Indices: 84645016--84645117 Score: 195
Period size: 53 Copynumber: 1.9 Consensus size: 53
84645006 ACATTGACAT
*
84645016 GATATTATGTGTCTAACTTATTTGACTAAGTGAATGTGATAAATAGATTACAC
1 GATATTATGTGCCTAACTTATTTGACTAAGTGAATGTGATAAATAGATTACAC
84645069 GATATTATGTGCCTAACTTATTTGACTAAGTGAATGTGATAAATAGATT
1 GATATTATGTGCCTAACTTATTTGACTAAGTGAATGTGATAAATAGATT
84645118 TACTCAAATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (53 bp):
GATATTATGTGCCTAACTTATTTGACTAAGTGAATGTGATAAATAGATTACAC
Found at i:84645118 original size:27 final size:27
Alignment explanation
Indices: 84645035--84645118 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
84645025 TGTCTAACTT
84645035 ATTTGACTAAGTGAATGTGATAAATAG
1 ATTTGACTAAGTGAATGTGATAAATAG
** * * * * *
84645062 ATTACACGATA-T-TATGTGCCTAACT-T
1 ATTTGACTA-AGTGAATGTG-ATAAATAG
84645088 ATTTGACTAAGTGAATGTGATAAATAG
1 ATTTGACTAAGTGAATGTGATAAATAG
84645115 ATTT
1 ATTT
84645119 ACTCAAATTC
Statistics
Matches: 38, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 1 0.03
26 16 0.42
27 20 0.53
28 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (27 bp):
ATTTGACTAAGTGAATGTGATAAATAG
Found at i:84645283 original size:37 final size:37
Alignment explanation
Indices: 84645242--84645316 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
84645232 TTGTAAAAGG
84645242 TAAGAGTATTAGTTCATGATGTTTATGTGATAATGAA
1 TAAGAGTATTAGTTCATGATGTTTATGTGATAATGAA
84645279 TAAGAGTATTAGTTCATGATGTTTATGTGATAATGAA
1 TAAGAGTATTAGTTCATGATGTTTATGTGATAATGAA
84645316 T
1 T
84645317 GAGTCGTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (37 bp):
TAAGAGTATTAGTTCATGATGTTTATGTGATAATGAA
Found at i:84647202 original size:30 final size:30
Alignment explanation
Indices: 84647168--84647225 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
84647158 CCCGAGCCTA
84647168 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * *
84647198 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
84647226 GAGTTAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:84650685 original size:16 final size:17
Alignment explanation
Indices: 84650666--84650699 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
84650656 TAGTAAAAAA
*
84650666 TTAA-TTTTCAATTGAT
1 TTAATTTTTCAATAGAT
84650682 TTAATTTTTCAATAGAT
1 TTAATTTTTCAATAGAT
84650699 T
1 T
84650700 ACCAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
TTAATTTTTCAATAGAT
Found at i:84651380 original size:10 final size:10
Alignment explanation
Indices: 84651353--84651445 Score: 61
Period size: 9 Copynumber: 9.3 Consensus size: 10
84651343 GAATCATTCT
*
84651353 AAAATTCTAA
1 AAAATTATAA
84651363 AAAA--ATAA
1 AAAATTATAA
84651371 AAAATTAT-A
1 AAAATTATAA
84651380 AAAATTATAA
1 AAAATTATAA
84651390 GAAAATTATTAAA
1 -AAAATTA-T-AA
84651403 AAAATT-TAGA
1 AAAATTATA-A
** *
84651413 ACTTATTATCA
1 A-AAATTATAA
*
84651424 AAATTTAT-A
1 AAAATTATAA
84651433 AAAATTATAA
1 AAAATTATAA
84651443 AAA
1 AAA
84651446 CCATTAAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
8 7 0.11
9 18 0.28
10 18 0.28
11 12 0.18
12 8 0.12
13 2 0.03
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATTATAA
Found at i:84654506 original size:18 final size:19
Alignment explanation
Indices: 84654468--84654507 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
84654458 TCCCAAAAAC
* *
84654468 CCTCAAAACTTTTTATTTT
1 CCTCAAAAATTTTTATCTT
84654487 CCTCAAAAATTTTTA-CTT
1 CCTCAAAAATTTTTATCTT
84654505 CCT
1 CCT
84654508 TCCCATCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (19 bp):
CCTCAAAAATTTTTATCTT
Found at i:84661734 original size:275 final size:275
Alignment explanation
Indices: 84661244--84661801 Score: 911
Period size: 275 Copynumber: 2.0 Consensus size: 275
84661234 ACAATGATTG
* *
84661244 ATTTAAAATAGAGGTGAAAATTATCTTTCAACTTAAGTAAAAAGTTACATAATCCTCTTATTTAT
1 ATTTAAAATAGAGGTGAAAAATATATTTCAACTTAAGTAAAAAGTTACATAATCCTCTTATTTAT
* * * *
84661309 CAAGATTATCAAATATCTTTTTATTTAAATCTCATGTGATAATTACTTAATAAATGAGCTATCAC
66 CAAGACTATCAAATATCCTTTTATTTAAAGCTCATGTGATAATTACGTAATAAATGAGCTATCAC
* * **
84661374 GTCAGTTTTAAGTAAGTTAAACGGGCCATTAGTACAATATACAAACGGAATTACAAATCCAATCA
131 GCCAGTTTCAAGTAAACTAAACGGGCCATTAGTACAATATACAAACGGAATTACAAATCCAATCA
* * *
84661439 ATAAATCTATATCATGACCAAAATCAAACTATTACAAGTAAAAATTCTTATCACAAGGTTATATG
196 ATAAATCTATATCATGACCAAAATAAAACTATTACAAGTAAAAATTCTTATCACAAGATTATACG
*
84661504 TG-TGAAAATCATAT
261 TGTTAAAAATCATAT
*
84661518 ATTTAAAATATAGGTGAAAAATATATTTCAACTTAAGTAAAAAAGTTACATAATCCTCTTATTTA
1 ATTTAAAATAGAGGTGAAAAATATATTTCAACTTAAGT-AAAAAGTTACATAATCCTCTTATTTA
84661583 TCAAGACTATCAAATATCCTTTTATTTAAAGCTCATGTGATAATTACGTAATAAATGAGCTATCA
65 TCAAGACTATCAAATATCCTTTTATTTAAAGCTCATGTGATAATTACGTAATAAATGAGCTATCA
* *
84661648 CGCCGGTTTCAAGTAAACTAAACGGGCCATTAGTACAATATACAAATGGAATTACAAATCCAATC
130 CGCCAGTTTCAAGTAAACTAAACGGGCCATTAGTACAATATACAAACGGAATTACAAATCCAATC
* * *
84661713 AATAAATCTATATCATGACCAAAATAAAACTATTACAAGTAAGAATTTTTATCACAAGATTATGC
195 AATAAATCTATATCATGACCAAAATAAAACTATTACAAGTAAAAATTCTTATCACAAGATTATAC
*
84661778 GTGTTAAAAATCATGT
260 GTGTTAAAAATCATAT
84661794 ATTTAAAA
1 ATTTAAAA
84661802 AACATGTGAA
Statistics
Matches: 261, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
274 35 0.13
275 208 0.80
276 18 0.07
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (275 bp):
ATTTAAAATAGAGGTGAAAAATATATTTCAACTTAAGTAAAAAGTTACATAATCCTCTTATTTAT
CAAGACTATCAAATATCCTTTTATTTAAAGCTCATGTGATAATTACGTAATAAATGAGCTATCAC
GCCAGTTTCAAGTAAACTAAACGGGCCATTAGTACAATATACAAACGGAATTACAAATCCAATCA
ATAAATCTATATCATGACCAAAATAAAACTATTACAAGTAAAAATTCTTATCACAAGATTATACG
TGTTAAAAATCATAT
Found at i:84662762 original size:12 final size:13
Alignment explanation
Indices: 84662726--84662763 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
84662716 AAATATTTGA
84662726 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
84662739 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
84662753 CTTG-TCTTAAT
1 CTTGTTCTTAAT
84662764 ATTCCAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:84663948 original size:21 final size:22
Alignment explanation
Indices: 84663914--84663954 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
84663904 ACAATTATTT
*
84663914 TTTATTTAATAATATCATTTAC
1 TTTATTTAATAATAACATTTAC
84663936 TTTATTT-ATAATAACATTT
1 TTTATTTAATAATAACATTT
84663955 TTGGTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTATTTAATAATAACATTTAC
Found at i:84679014 original size:27 final size:27
Alignment explanation
Indices: 84678976--84679029 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
84678966 GGAAATTTTG
84678976 ACGTTCGGGCACTCAATTTAGTCAAAA
1 ACGTTCGGGCACTCAATTTAGTCAAAA
84679003 ACGTTCGGGCACTCAATTTAGTCAAAA
1 ACGTTCGGGCACTCAATTTAGTCAAAA
84679030 GGATTAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (27 bp):
ACGTTCGGGCACTCAATTTAGTCAAAA
Found at i:84682414 original size:80 final size:80
Alignment explanation
Indices: 84682309--84682461 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 80
84682299 TATGCTAGTA
* * * *
84682309 GTTAAATCCGGGTTAAGACCTGAAGGCAATTATGCTAGTGACTAAATCCGGGCTAAGACCCGAAG
1 GTTAAATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTCACTAAATCCGGGCTAAGACCCGAAG
84682374 GCATTCGTTCAAGTT
66 GCATTCGTTCAAGTT
* * * * **
84682389 GTTAAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCATTCTATCCGGGCTAAGACCCGAAG
1 GTTAAATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTCACTAAATCCGGGCTAAGACCCGAAG
84682454 GCATTCGT
66 GCATTCGT
84682462 GCATGTGGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
GTTAAATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTCACTAAATCCGGGCTAAGACCCGAAG
GCATTCGTTCAAGTT
Found at i:84682457 original size:40 final size:39
Alignment explanation
Indices: 84682278--84682464 Score: 185
Period size: 40 Copynumber: 4.7 Consensus size: 39
84682268 AATGATATCT
* * * *
84682278 GGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCAAGTA-TTAAATCC
* * * * * *
84682318 GGGTTAAGACCTGAAGGCAATTATGCTAGTGACTAAATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCAAGT-ATTAAATCC
* * *
84682358 GGGCTAAGACCCGAAGGCATTCGTTCAAGTTGTTAAATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCAAG-TATTAAATCC
* **
84682398 GGGCTAATACCCGAAGGCATTTGTGCAAGTCATTCTATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCAAGT-ATTAAATCC
*
84682438 GGGCTAAGACCCGAAGGCATTCGTGCA
1 GGGCTAAGACCCGAAGGCATTTGTGCA
84682465 TGTGGTTATA
Statistics
Matches: 121, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
GGGCTAAGACCCGAAGGCATTTGTGCAAGTATTAAATCC
Found at i:84690314 original size:40 final size:39
Alignment explanation
Indices: 84690257--84690441 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
84690247 ATTAAATGAT
* * *
84690257 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
84690297 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
84690337 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
84690377 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
84690417 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
84690442 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:84690393 original size:80 final size:80
Alignment explanation
Indices: 84690256--84690462 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
84690246 AATTAAATGA
* * ** * *
84690256 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
84690321 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
84690334 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
84690399 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
84690416 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
84690463 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:84690447 original size:40 final size:39
Alignment explanation
Indices: 84690255--84690462 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
84690245 CAATTAAATG
* * ** *
84690255 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
84690295 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
84690335 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
84690375 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
84690415 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
84690455 ATATCCGG
1 ATATCCGG
84690463 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:84694620 original size:28 final size:28
Alignment explanation
Indices: 84694580--84694639 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
84694570 GGAAAAGGTG
84694580 TAAGCATAAAAGCTTAGTAAGTTGCATA
1 TAAGCATAAAAGCTTAGTAAGTTGCATA
84694608 TAAGCATAAAAGCTTAGTAAGTTGCATA
1 TAAGCATAAAAGCTTAGTAAGTTGCATA
84694636 TAAG
1 TAAG
84694640 TAATATACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.28
Consensus pattern (28 bp):
TAAGCATAAAAGCTTAGTAAGTTGCATA
Found at i:84695005 original size:46 final size:46
Alignment explanation
Indices: 84694897--84695070 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
84694887 GGGTAAGTTA
* *
84694897 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACGTCTCG-AG
* *
84694943 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCCCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACGTCTCGA-G
* * *
84694989 CCGATG-CATGTCCCAGACAT-GTCTTACATTAGC-ACCCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA--CGTCTCGA-G
* *
84695035 CCAATGCCATGTCCTAGACATGGTCTTACACTGGCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
84695071 CTCATAGTGT
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
44 13 0.12
45 15 0.14
46 54 0.51
47 13 0.12
48 11 0.10
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACGTCTCGAG
Found at i:84696306 original size:49 final size:49
Alignment explanation
Indices: 84696246--84696511 Score: 214
Period size: 49 Copynumber: 5.6 Consensus size: 49
84696236 ACATGAAAGT
* * * *
84696246 CGATGCCATGTCCCAGACAGGTCTTACATTGACTTTTATATATCAAGGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAAGGC
* * * *
84696295 CGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATC-GGTGT
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAAG-GC
* * *
84696344 CGATGCCATGTCCCAGACAGGTCTTACACTGA--CACACA-A-CAA-GC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAAGGC
* * * * * *
84696388 TGACGTCATGTCCCAAACAGGTCTTACACT-AGCT-TGTATATCTCGAGGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGA-CTCT-CATATATCAAGGC
* * * * *
84696437 CGATG-CACGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-ATGGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAAGGC
*
84696483 CGATG-CATGTCCCAAACATGTCTTACACT
1 CGATGCCATGTCCCAAACAGGTCTTACACT
84696512 AGCACACATA
Statistics
Matches: 170, Mismatches: 36, Indels: 25
0.74 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 27 0.16
45 1 0.01
46 33 0.19
47 4 0.02
48 29 0.17
49 75 0.44
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCAAGGC
Found at i:84696442 original size:93 final size:95
Alignment explanation
Indices: 84696246--84696514 Score: 253
Period size: 93 Copynumber: 2.8 Consensus size: 95
84696236 ACATGAAAGT
* * * * *
84696246 CGATGCCATGTCCCAGACAGGTCTTACATTGACTTTTATATATCAAGGCCGATGCCATGTCCCAA
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC---TACACAACAAGGCCGACGCCATGTCCCAA
* * *
84696311 ACAGGTCTTACACTGGCTCTCATCTATCGGTGT
63 ACAGGTCTTACACTAGCTCTCATATATCGGTGC
* *
84696344 CGATGCCATGTCCCAGACAGGTCTTACACTGAC-ACACAACAA-GCTGACGTCATGTCCCAAACA
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTACACAACAAGGCCGACGCCATGTCCCAAACA
* *
84696407 GGTCTTACACTAGCT-TGTATATCTCGAG-GC
66 GGTCTTACACTAGCTCT-CATATATCG-GTGC
* * * * * * * *
84696437 CGATG-CACGTCCCAGACATGTCTTACACTGGCTCTCATAATATGGCCGATG-CATGTCCCAAAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACT-ACACAACAAGGCCGACGCCATGTCCCAAAC
*
84696500 ATGTCTTACACTAGC
65 AGGTCTTACACTAGC
84696515 ACACATATCA
Statistics
Matches: 144, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
92 25 0.17
93 44 0.31
94 38 0.26
95 5 0.03
98 32 0.22
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTACACAACAAGGCCGACGCCATGTCCCAAACA
GGTCTTACACTAGCTCTCATATATCGGTGC
Found at i:84697845 original size:14 final size:14
Alignment explanation
Indices: 84697826--84697861 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
84697816 TTGTAGACAT
84697826 TAAAATAATAATAA
1 TAAAATAATAATAA
84697840 TAAAATAATAATAA
1 TAAAATAATAATAA
*
84697854 TACAATAA
1 TAAAATAA
84697862 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAAATAATAATAA
Found at i:84700972 original size:2 final size:2
Alignment explanation
Indices: 84700931--84700963 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
84700921 GTTGGGGAAG
84700931 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84700964 GAGTATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:84701596 original size:16 final size:16
Alignment explanation
Indices: 84701548--84701596 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
84701538 AATTTATCCA
*
84701548 ATTTTTAT-TAAAA-T
1 ATTTTTATAAAAAATT
*
84701562 ATTTTT-TAAAATATAT
1 ATTTTTATAAAAAAT-T
84701578 ATTTTTATAAAAAATT
1 ATTTTTATAAAAAATT
84701594 ATT
1 ATT
84701597 GTATTATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.04
14 9 0.32
16 11 0.39
17 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTTATAAAAAATT
Found at i:84702330 original size:16 final size:17
Alignment explanation
Indices: 84702309--84702342 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
84702299 AAATTTGGAA
84702309 TTTAATTTAT-ATTTTT
1 TTTAATTTATAATTTTT
*
84702325 TTTAATTTTTAATTTTT
1 TTTAATTTATAATTTTT
84702342 T
1 T
84702343 ATTTTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTAATTTATAATTTTT
Found at i:84702358 original size:23 final size:23
Alignment explanation
Indices: 84702307--84702369 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
84702297 CCAAATTTGG
84702307 AATTTAATTTATATTTTTTTTAA
1 AATTTAATTTATATTTTTTTTAA
**
84702330 TTTTTAATTT-T-TTATTTTTTCAA
1 AATTTAATTTATATT-TTTTTT-AA
84702353 AATTTAAAATTTATATT
1 AATTT--AATTTATATT
84702370 CAACACTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
21 2 0.07
22 7 0.23
23 13 0.43
25 5 0.17
26 1 0.03
27 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
AATTTAATTTATATTTTTTTTAA
Found at i:84702369 original size:24 final size:24
Alignment explanation
Indices: 84702312--84702369 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
84702302 TTTGGAATTT
** * *
84702312 AATTTATATTTTTTTTAATTTTTA
1 AATTTATATTTTTTCAAAATTTAA
* *
84702336 ATTTTTTATTTTTTCAAAATTTAA
1 AATTTATATTTTTTCAAAATTTAA
84702360 AATTTATATT
1 AATTTATATT
84702370 CAACACTTAC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
AATTTATATTTTTTCAAAATTTAA
Found at i:84702602 original size:2 final size:2
Alignment explanation
Indices: 84702595--84702628 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
84702585 TTTAAAAGTA
84702595 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84702629 TGTGACAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84704518 original size:14 final size:14
Alignment explanation
Indices: 84704499--84704526 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
84704489 TTTCAGTCAA
84704499 ATTTAAAAAATAAT
1 ATTTAAAAAATAAT
84704513 ATTTAAAAAATAAT
1 ATTTAAAAAATAAT
84704527 CTTTCAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTTAAAAAATAAT
Found at i:84710581 original size:20 final size:21
Alignment explanation
Indices: 84710544--84710599 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
84710534 AAAAAAATTA
*
84710544 ATCAAA-GCAAAA-AATTAAT
1 ATCAAATGAAAAATAATTAAT
84710563 ATCAAAT-AAAAATAATTAAT
1 ATCAAATGAAAAATAATTAAT
*
84710583 ATCAACTGAAAAATAAT
1 ATCAAATGAAAAATAAT
84710600 AATTTATTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 10 0.31
20 13 0.41
21 9 0.28
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (21 bp):
ATCAAATGAAAAATAATTAAT
Found at i:84715048 original size:8 final size:8
Alignment explanation
Indices: 84715035--84715062 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
84715025 AGGGTTAATT
84715035 TGTGAAAA
1 TGTGAAAA
84715043 TGTGAAAA
1 TGTGAAAA
84715051 TGTGAAAA
1 TGTGAAAA
84715059 TGTG
1 TGTG
84715063 GGGTTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (8 bp):
TGTGAAAA
Found at i:84716606 original size:3 final size:3
Alignment explanation
Indices: 84716600--84716800 Score: 206
Period size: 3 Copynumber: 66.3 Consensus size: 3
84716590 TTAACTAATA
* * *
84716600 TAT TAT TGT TAT TAC TAT TAT TAT TAT T-T TAC TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * *
84716645 TAT CAT TAT TAT TAC TAT GAT TAT TAT TAT TTT TAC TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * * * * * *
84716691 TAT TAC CAT TAT TAT TAC TGT TAA TAT TAT TTT TAT TAC TAT TAC TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
84716739 TCTT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
84716785 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
84716801 GTCATTTGTA
Statistics
Matches: 159, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.01
3 149 0.94
4 8 0.05
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:84716845 original size:4 final size:4
Alignment explanation
Indices: 84716822--84716880 Score: 75
Period size: 4 Copynumber: 15.0 Consensus size: 4
84716812 TTTGTTATAT
* * *
84716822 TTTA TTT- TTTA TTTA CTTA TTTA TTTG TTTA TTTC TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
84716869 TTTA TTTG TTTA
1 TTTA TTTA TTTA
84716881 AACTTTTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 3 0.07
4 43 0.93
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:84719093 original size:93 final size:93
Alignment explanation
Indices: 84718981--84719152 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
84718971 GCCCATAAGT
* *
84718981 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84719046 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
84719074 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84719139 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
84719153 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.