Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 224 of 325
Found at i:69749872 original size:40 final size:40
Alignment explanation
Indices: 69749827--69749994 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
69749817 CGGAATATAA
69749827 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
69749867 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
69749907 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
69749947 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
69749987 CCGGATAT
1 CCGGATAT
69749995 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69755283 original size:50 final size:51
Alignment explanation
Indices: 69755214--69755356 Score: 189
Period size: 50 Copynumber: 2.8 Consensus size: 51
69755204 TAAAATGGTT
* *
69755214 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGA
* * *
69755264 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGA
* * * * *
69755315 TTTGATCACATGTGTGGTACTAAGTGCCGGCCACTATGTGTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
69755357 AAAGATAGCA
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 45 0.56
51 35 0.44
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (51 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGA
Found at i:69755364 original size:51 final size:50
Alignment explanation
Indices: 69755230--69755387 Score: 174
Period size: 51 Copynumber: 3.1 Consensus size: 50
69755220 CACGTGTGCA
* *
69755230 GTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTAGGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTATGTGTACCAGATAGATTA-GTCACATGTGTG
* * *
69755280 GTACTAAGTGCAGGCTACTATGCGTACCCGATAGATTTGATCACATGTGTG
1 GTACTAAGTGCAGGCTACTATGTGTACCAGATAGATTAG-TCACATGTGTG
* * ** * * *
69755331 GTACTAAGTGCCGGCCACTATGTGTAAAAGATAGCATTCGTCATAAGTGTG
1 GTACTAAGTGCAGGCTACTATGTGTACCAGATAG-ATTAGTCACATGTGTG
69755382 GTACTA
1 GTACTA
69755388 TGTGAAGGTC
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
50 33 0.36
51 54 0.59
52 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
GTACTAAGTGCAGGCTACTATGTGTACCAGATAGATTAGTCACATGTGTG
Found at i:69759794 original size:44 final size:42
Alignment explanation
Indices: 69759727--69759829 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
69759717 TTTCGATATG
* * * * *
69759727 TGATTTCATGTAAGACAAAGTCTGGGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCAAGTCTGGGACATCGACATCGTATT
*
69759768 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGACATCGTATT
1 T--GATTT-CGTGTAAGACCAAGTCTGGGACATCGACATCGTATT
69759813 TGATTTCGTGTAAGACC
1 TGATTTCGTGTAAGACC
69759830 TTGTGTAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 11 0.21
43 10 0.19
44 26 0.50
45 4 0.08
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCAAGTCTGGGACATCGACATCGTATT
Found at i:69772299 original size:27 final size:27
Alignment explanation
Indices: 69771687--69772297 Score: 443
Period size: 27 Copynumber: 22.9 Consensus size: 27
69771677 TGCACCAGAA
*
69771687 GGGTATTTCGATAATTTTACAAAT-TAG
1 GGGTATTTCGGTAATTTTACAAATCT-G
*
69771714 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTCGGTAATTTTACAAATCTG
** * *
69771740 GGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTCGGTAATTTTACAAATCTG
* * *
69771767 GGGTATTTCAGTAATTTTAC-AGTCCG
1 GGGTATTTCGGTAATTTTACAAATCTG
* * * *
69771793 GGGCTATTTTGATAATTTT-TAAATTTG
1 GGG-TATTTCGGTAATTTTACAAATCTG
* * *
69771820 AGGGTATTTTGGTAATTTTTTCAAAT-AG
1 -GGGTATTTCGGTAA-TTTTACAAATCTG
** * **
69771848 GGGTATTTCAATAATTTTACAATTAGG
1 GGGTATTTCGGTAATTTTACAAATCTG
* * * **
69771875 GGGTATTTTGATAATTTTAC-ATTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CTG
* * *
69771902 GCGTATTTCAGTAATTTTACAAAT-AG
1 GGGTATTTCGGTAATTTTACAAATCTG
*
69771928 GGGTATTTTGGTAATTTTACAAATC-G
1 GGGTATTTCGGTAATTTTACAAATCTG
** *
69771954 AGGGTATTTCAATAATTTTACAAATCGG
1 -GGGTATTTCGGTAATTTTACAAATCTG
* *
69771982 GGGTATTTCAGTAATTTTAC-AATCGG
1 GGGTATTTCGGTAATTTTACAAATCTG
*
69772008 GGGTATTTTGGTAATTTTA-AATATC-G
1 GGGTATTTCGGTAATTTTACAA-ATCTG
* *
69772034 AGGTATTTCAGTAATTTTACAAAT-TGG
1 GGGTATTTCGGTAATTTTACAAATCT-G
**
69772061 GGGTATTTCAATAATTTTACAAATC-G
1 GGGTATTTCGGTAATTTTACAAATCTG
* *
69772087 GGGTATTT-TGTAATTTTAC-AATTTAG
1 GGGTATTTCGGTAATTTTACAAATCT-G
*
69772113 GGGTATTTTGGTAATTTTACAAAT-TAG
1 GGGTATTTCGGTAATTTTACAAATCT-G
* *
69772140 GGATATTTCGATAATTTTACAAA-CTAG
1 GGGTATTTCGGTAATTTTACAAATCT-G
**
69772167 GGGTATTTTTGTAATTTTACAAA-CTAG
1 GGGTATTTCGGTAATTTTACAAATCT-G
* ** *
69772194 GGATATTTCAATAATTTTAC-AATTTG
1 GGGTATTTCGGTAATTTTACAAATCTG
* * *
69772220 AAGGTATTTCAGTAATTTTGCAAATC-G
1 -GGGTATTTCGGTAATTTTACAAATCTG
* * *
69772247 GGAGTATTTCGATAATTTTAAAAACCTG
1 GG-GTATTTCGGTAATTTTACAAATCTG
69772275 GGGTATTTCGGTAATTTTACAAA
1 GGGTATTTCGGTAATTTTACAAA
69772298 CCGGGGCCTT
Statistics
Matches: 476, Mismatches: 80, Indels: 56
0.78 0.13 0.09
Matches are distributed among these distances:
24 3 0.01
25 9 0.02
26 128 0.27
27 312 0.66
28 20 0.04
29 4 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCTG
Found at i:69774571 original size:40 final size:40
Alignment explanation
Indices: 69774505--69774671 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
69774495 AAATTGAATG
* * *
69774505 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
69774544 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
69774584 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
69774624 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
69774664 ATATCCGG
1 ATATCCGG
69774672 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:69782534 original size:38 final size:39
Alignment explanation
Indices: 69782443--69782591 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
69782433 TAATGAATGA
* * * * **
69782443 TATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGATGGC
* *
69782483 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATGGC
**
69782521 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACTTTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGA-TGGC
*
69782561 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
69782592 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
37 4 0.04
38 29 0.32
40 56 0.62
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATGGC
Found at i:69782605 original size:40 final size:40
Alignment explanation
Indices: 69782442--69782607 Score: 137
Period size: 40 Copynumber: 4.2 Consensus size: 40
69782432 TTAATGAATG
* * * ** *
69782442 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCACGAGATT
* * *
69782482 ATATCCGGGTTAAGACCCGAAGGCAATTGTG--CTAG-TGG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCACGAGAT-T
*
69782520 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTG--CGAGACTTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCACGAGA--TT
* * *
69782560 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCACGAGATT
69782600 ATATCCGG
1 ATATCCGG
69782608 TTATATTCCG
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
37 4 0.04
38 29 0.28
40 63 0.61
41 3 0.03
42 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCACGAGATT
Found at i:69790519 original size:39 final size:39
Alignment explanation
Indices: 69790438--69790603 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 39
69790428 AAATTGAATG
* *
69790438 ATATCCGGGCTAAG-CCCGAAGACAATTATGC--TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGG---TT
* *
69790477 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
**
69790516 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTGGTT
* * *
69790556 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGGTT
69790596 ATATCCGG
1 ATATCCGG
69790604 TTATATTCCG
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.40
40 56 0.53
41 2 0.02
42 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
Found at i:69793781 original size:31 final size:31
Alignment explanation
Indices: 69793746--69793808 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
69793736 GCCTACTAAC
*
69793746 ATGTAACCTATCATTCACCATTATATCCTTA
1 ATGTAACCTAACATTCACCATTATATCCTTA
69793777 ATGTAACCTAACATTCACCATTATATCCTTA
1 ATGTAACCTAACATTCACCATTATATCCTTA
69793808 A
1 A
69793809 ATGAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (31 bp):
ATGTAACCTAACATTCACCATTATATCCTTA
Found at i:69796275 original size:39 final size:39
Alignment explanation
Indices: 69796194--69796359 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 39
69796184 AAATTGAATG
* *
69796194 ATATCCGGGCTAAG-CCCGAAGACAATTATGC--TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGG---TT
* *
69796233 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
**
69796272 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTGGTT
* * *
69796312 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGGTT
69796352 ATATCCGG
1 ATATCCGG
69796360 TTATATTCCG
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.40
40 56 0.53
41 2 0.02
42 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
Found at i:69799515 original size:30 final size:31
Alignment explanation
Indices: 69799461--69799522 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
69799451 GCCTACTAAC
*
69799461 ATGTAACCTATCATTCACCATTATATCCTTA
1 ATGTAACCTAACATTCACCATTATATCCTTA
69799492 ATGTAACCTAACATTCA-CATTATATCCTTA
1 ATGTAACCTAACATTCACCATTATATCCTTA
69799522 A
1 A
69799523 ATGAAAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.37
Consensus pattern (31 bp):
ATGTAACCTAACATTCACCATTATATCCTTA
Found at i:69801960 original size:40 final size:39
Alignment explanation
Indices: 69801894--69802044 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
69801884 AAATTGAATG
* * *
69801894 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
69801933 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
69801973 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
69802013 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
69802045 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:69802058 original size:40 final size:39
Alignment explanation
Indices: 69801931--69802060 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
69801921 ATGCTGGAAA
* *
69801931 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
69801971 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
69802011 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
69802051 TTATATCCGG
1 TTATATCCGG
69802061 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:69804851 original size:13 final size:13
Alignment explanation
Indices: 69804820--69804864 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
69804810 AAAATACACC
69804820 AAAAATAAAATAAT
1 AAAAAT-AAATAAT
* *
69804834 CAAAATATATAAT
1 AAAAATAAATAAT
69804847 AAAAATAAATAAAT
1 AAAAATAAAT-AAT
69804861 AAAA
1 AAAA
69804865 TTTAAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATAAATAAT
Found at i:69806881 original size:15 final size:16
Alignment explanation
Indices: 69806863--69806900 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
69806853 AATTGGAAAG
69806863 ATGAAAATTT-ATTAA
1 ATGAAAATTTAATTAA
*
69806878 ATGACAATTTAATTAA
1 ATGAAAATTTAATTAA
69806894 ATGAAAA
1 ATGAAAA
69806901 AGAAAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:69814199 original size:39 final size:40
Alignment explanation
Indices: 69814099--69814283 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
69814089 TCGAATGATG
* * *
69814099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
69814138 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
69814179 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
69814218 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
69814257 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
69814284 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:69814305 original size:79 final size:79
Alignment explanation
Indices: 69814152--69814316 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
69814142 GGACTAAGAT
* **
69814152 CCGAAGGCATTTGTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
69814217 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
69814231 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
69814294 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
69814310 CCGAAGG
1 CCGAAGG
69814317 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:69821910 original size:27 final size:28
Alignment explanation
Indices: 69821854--69821923 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
69821844 AAACTTGTAC
69821854 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
69821882 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
69821909 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
69821924 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:69821934 original size:27 final size:27
Alignment explanation
Indices: 69821854--69821935 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
69821844 AAACTTGTAC
* *
69821854 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
69821882 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
69821909 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
69821936 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:69833159 original size:18 final size:17
Alignment explanation
Indices: 69833126--69833159 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
69833116 ATTTGGGTCG
*
69833126 TGTGGGCCACATAGGCT
1 TGTGGGCCACACAGGCT
69833143 TGTGGGCCCACACAGGC
1 TGTGGG-CCACACAGGC
69833160 AGGCCACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (17 bp):
TGTGGGCCACACAGGCT
Found at i:69833657 original size:34 final size:34
Alignment explanation
Indices: 69833614--69833710 Score: 167
Period size: 34 Copynumber: 2.9 Consensus size: 34
69833604 GCATGACTAC
* * *
69833614 TACTGATACTATGATGGGCTAAGGTCGTAATGCA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
69833648 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
69833682 TACTGATACTGTGATGGGCTAAGGCCCTA
1 TACTGATACTGTGATGGGCTAAGGCCCTA
69833711 CTGTATATTT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (34 bp):
TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
Found at i:69840820 original size:34 final size:34
Alignment explanation
Indices: 69840782--69840881 Score: 155
Period size: 34 Copynumber: 2.9 Consensus size: 34
69840772 ACTGATACTA
69840782 TGATGGGCTAAGGCCCTAATGCATATTGATATTG
1 TGATGGGCTAAGGCCCTAATGCATATTGATATTG
** *
69840816 TGATGGGCTAAGGCTATAATGCATACTGATATTG
1 TGATGGGCTAAGGCCCTAATGCATATTGATATTG
*
69840850 TGATGGGCTAAGGCCCTACTGCATATTTGATA
1 TGATGGGCTAAGGCCCTAATGCATA-TTGATA
69840882 CTATACTGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
34 53 0.91
35 5 0.09
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (34 bp):
TGATGGGCTAAGGCCCTAATGCATATTGATATTG
Found at i:69851034 original size:24 final size:24
Alignment explanation
Indices: 69851007--69851055 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
69850997 AAAATAAGAG
69851007 TAAAGAGTATGAGAAATGTTCATT
1 TAAAGAGTATGAGAAATGTTCATT
69851031 TAAAGAGTATGAGAAATGTTCATT
1 TAAAGAGTATGAGAAATGTTCATT
69851055 T
1 T
69851056 GATTGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (24 bp):
TAAAGAGTATGAGAAATGTTCATT
Found at i:69852455 original size:24 final size:23
Alignment explanation
Indices: 69852363--69852477 Score: 117
Period size: 23 Copynumber: 4.9 Consensus size: 23
69852353 ACAGCTCGTA
* *
69852363 AGAGCTTACCGTTTTAGCTCATT
1 AGAGCTTACTGTTTTAGCTCAAT
* * *
69852386 CGAGCTTACTGGTTTAGCTTGAA-
1 AGAGCTTACTGTTTTAGC-TCAAT
* *
69852409 AGAGCTTACTG-TCTAGCTTAAT
1 AGAGCTTACTGTTTTAGCTCAAT
69852431 AGAGCTTACTGTTTTCAGCTCAAT
1 AGAGCTTACTGTTTT-AGCTCAAT
69852455 AGAGCTTACTGTTTATCAGCTCA
1 AGAGCTTACTGTTT-T-AGCTCA
69852478 GGAGGAGCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.04
22 16 0.21
23 27 0.35
24 23 0.30
25 8 0.10
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTGTTTTAGCTCAAT
Found at i:69854480 original size:37 final size:36
Alignment explanation
Indices: 69854429--69854515 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 36
69854419 TACGAAGTCT
69854429 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
* *
69854465 GTACCCGGACGTAATCTCCATACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
69854502 TCACCCGGAACATA
1 T-ACCCGG-ACATA
69854516 TTTCTAAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.89
38 4 0.09
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:69854650 original size:49 final size:49
Alignment explanation
Indices: 69854584--69855029 Score: 728
Period size: 49 Copynumber: 9.2 Consensus size: 49
69854574 TTTACCACAT
69854584 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
69854633 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
69854682 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
69854731 ATATATATACACTTTCACATTCATCAAGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
69854780 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT---
1 ATATATAT-ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
69854826 -TATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
69854874 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
69854923 ATATATATACACTTTCACATTCATCATGTTGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
69854972 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
69855021 ATATATATA
1 ATATATATA
69855030 TCTCATACAT
Statistics
Matches: 370, Mismatches: 15, Indels: 24
0.90 0.04 0.06
Matches are distributed among these distances:
45 42 0.11
46 1 0.00
48 4 0.01
49 320 0.86
50 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:69854740 original size:98 final size:98
Alignment explanation
Indices: 69854564--69855029 Score: 805
Period size: 98 Copynumber: 4.8 Consensus size: 98
69854554 ATTCACATTA
* * * * *
69854564 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATAT-T-CACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
69854629 TCACATATGTATACACTTTCACATTCATCACGTCG
64 TCACATATATATACACTTTCACATTCATCACGTCG
69854664 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
*
69854729 ACATATATATACACTTTCACATTCATCAAGTCG
66 ACATATATATACACTTTCACATTCATCACGTCG
69854762 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-
1 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
69854826 ---TATATATACACTTTCACATTCATCACGTCG
66 ACATATATATACACTTTCACATTCATCACGTCG
69854856 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
* *
69854921 ACATATATATACACTTTCACATTCATCATGTTG
66 ACATATATATACACTTTCACATTCATCACGTCG
69854954 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
69855019 ACATATATATA
66 ACATATATATA
69855030 TCTCATACAT
Statistics
Matches: 352, Mismatches: 10, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
94 93 0.26
98 237 0.67
99 1 0.00
100 21 0.06
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATATACACTTTCACATTCATCACGTCG
Found at i:69854923 original size:192 final size:193
Alignment explanation
Indices: 69854564--69855027 Score: 786
Period size: 192 Copynumber: 2.4 Consensus size: 193
69854554 ATTCACATTA
* * * * *
69854564 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATAT-T-CACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
69854629 TCACATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATTCACAC
64 T---ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATTCACAC
69854694 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAAG
126 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAAG
69854759 TCG
191 TCG
69854762 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-
1 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATA
69854826 TATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATTCACACTTTCA
66 TATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATTCACACTTTCA
* *
69854891 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCATGTTG
131 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAAGTCG
69854954 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-
*
69855019 ACATATATA
65 ATATATATA
69855028 TATCTCATAC
Statistics
Matches: 255, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
192 189 0.74
194 7 0.03
196 37 0.15
197 1 0.00
198 21 0.08
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (193 bp):
GCCATTAGGCCTTATCACATATATTCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATA
TATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATTCACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAAGTCG
Found at i:69857350 original size:13 final size:13
Alignment explanation
Indices: 69857332--69857356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69857322 TGAAATGGTT
69857332 ATGAAATGTTTGA
1 ATGAAATGTTTGA
69857345 ATGAAATGTTTG
1 ATGAAATGTTTG
69857357 CTAATTGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (13 bp):
ATGAAATGTTTGA
Found at i:69859638 original size:39 final size:40
Alignment explanation
Indices: 69859524--69859708 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
69859514 GCTACTCGTT
*
69859524 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
69859564 CAAATGCCTTCGGGTCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
69859604 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
69859643 CAAATGTCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
69859684 CAAA-GCCTTCGGGATTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69859709 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:69859692 original size:79 final size:81
Alignment explanation
Indices: 69859524--69859708 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
69859514 GCTACTCGTT
* * *
69859524 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGTCTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
69859588 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * **
69859605 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGTCTTCGGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
69859668 ATATGGTCACTTAGCA-
66 ATATAGTAAC-TAGCAC
*
69859684 CAAAGCCTTCGGGATTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
69859709 CATCATTCGA
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
79 61 0.69
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTAGCAC
Found at i:69861478 original size:25 final size:26
Alignment explanation
Indices: 69861450--69861502 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
69861440 CAACAAAAAT
* * *
69861450 AAAATATAATCTAAAAA-GAAAAGAG
1 AAAACATAATATAAAAATGAAAACAG
*
69861475 AAAACCTAATATAAAAATGAAAACAG
1 AAAACATAATATAAAAATGAAAACAG
69861501 AA
1 AA
69861503 GAAAACCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.68, C:0.08, G:0.09, T:0.15
Consensus pattern (26 bp):
AAAACATAATATAAAAATGAAAACAG
Found at i:69863364 original size:13 final size:14
Alignment explanation
Indices: 69863339--69863368 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
69863329 TATGTTAAAA
69863339 AATATGTGTTTTAT
1 AATATGTGTTTTAT
69863353 AATATG-GTTTTAT
1 AATATGTGTTTTAT
69863366 AAT
1 AAT
69863369 TAAACATAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
AATATGTGTTTTAT
Found at i:69863863 original size:22 final size:22
Alignment explanation
Indices: 69863835--69863879 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
69863825 AAAAATATGT
69863835 AAGTTTCGATTATAAAGACTAA
1 AAGTTTCGATTATAAAGACTAA
69863857 AAGTTTCGATTATAAAGACTAA
1 AAGTTTCGATTATAAAGACTAA
69863879 A
1 A
69863880 TTGAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (22 bp):
AAGTTTCGATTATAAAGACTAA
Found at i:69866466 original size:42 final size:42
Alignment explanation
Indices: 69866419--69866522 Score: 163
Period size: 42 Copynumber: 2.5 Consensus size: 42
69866409 ATAGCCCAGC
*
69866419 TATGGTCTTACACAAAGTCTCATATCGATGCCATATCTCAAA
1 TATGGTCTTACACATAGTCTCATATCGATGCCATATCTCAAA
* * **
69866461 TATGGTCTTACACGTAGTCTCATATTGATGCCATATCTCGGA
1 TATGGTCTTACACATAGTCTCATATCGATGCCATATCTCAAA
69866503 TATGGTCTTACACATAGTCT
1 TATGGTCTTACACATAGTCT
69866523 TGGTAACCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (42 bp):
TATGGTCTTACACATAGTCTCATATCGATGCCATATCTCAAA
Found at i:69869485 original size:21 final size:21
Alignment explanation
Indices: 69869447--69869513 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
69869437 AGAGCTGAAC
* * *
69869447 GGAAACCCATTAGGGTTAAAT
1 GGAAACTCATAAGAGTTAAAT
* *
69869468 GGAAACTCATATGAGTTAACT
1 GGAAACTCATAAGAGTTAAAT
* *
69869489 -GAAGCTCATAAGAGCTAAAT
1 GGAAACTCATAAGAGTTAAAT
69869509 GGAAA
1 GGAAA
69869514 GTAAACACAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (21 bp):
GGAAACTCATAAGAGTTAAAT
Found at i:69874586 original size:29 final size:29
Alignment explanation
Indices: 69874456--69874571 Score: 232
Period size: 29 Copynumber: 4.0 Consensus size: 29
69874446 GTGACGAGAT
69874456 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69874485 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69874514 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69874543 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69874572 CGACACTGGG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:69874603 original size:58 final size:58
Alignment explanation
Indices: 69874459--69874615 Score: 199
Period size: 58 Copynumber: 2.7 Consensus size: 58
69874449 ACGAGATTGG
* * * *
69874459 CACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATACGA
* *
69874517 CACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATACGA
1 CACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATACGA
** * * *
69874575 CACTGGGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGTGC
1 CACTAAGTGTGC-ATGCTCGAAAGATATGGCACTAAGTGTGC
69874616 GGGCTTAAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
58 88 0.99
59 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (58 bp):
CACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAATATACGA
Found at i:69874603 original size:87 final size:87
Alignment explanation
Indices: 69874456--69874644 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
69874446 GTGACGAGAT
* * * *
69874456 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATACGACACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
69874521 AAGTGTGCATGCTGGAAAT-ATA
66 AAGTGTGCAGGCT-GAAATCACA
** * *
69874543 TGGCACTAAGTGTGCATGCTGGAAATATACGACACTGGGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATACGACACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
* * *
69874607 TATGTGTGCGGGCTTAAATCACA
65 TAAGTGTGCAGGCTGAAATCACA
69874630 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
69874645 GAAATCGAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 4 0.05
87 82 0.94
88 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATACGACACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGAAATCACA
Found at i:69878975 original size:24 final size:24
Alignment explanation
Indices: 69878904--69878975 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
69878894 AGAAGAAAGG
*
69878904 AAAAT-AAAATAAAATAAAATCTA
1 AAAATGAAAAGAAAATAAAATCTA
***
69878927 AAAA-GAAAGAGAAAACCTAATCTA
1 AAAATGAAA-AGAAAATAAAATCTA
*
69878951 AAAATGAAAAGAAAATAAAACCTA
1 AAAATGAAAAGAAAATAAAATCTA
69878975 A
1 A
69878976 CCCTAAAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
23 7 0.18
24 27 0.71
25 4 0.11
ACGTcount: A:0.69, C:0.08, G:0.07, T:0.15
Consensus pattern (24 bp):
AAAATGAAAAGAAAATAAAATCTA
Found at i:69878983 original size:29 final size:30
Alignment explanation
Indices: 69878927--69878983 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
69878917 ATAAAATCTA
*
69878927 AAAAGAAAGAGAAAACCTAATCTAAAAATG
1 AAAAGAAAGAGAAAACCTAACCTAAAAATG
*
69878957 AAAAGAAA-ATAAAACCTAACCCTAAAA
1 AAAAGAAAGAGAAAACCTAA-CCTAAAA
69878984 CTATGGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.65, C:0.14, G:0.09, T:0.12
Consensus pattern (30 bp):
AAAAGAAAGAGAAAACCTAACCTAAAAATG
Found at i:69879017 original size:27 final size:27
Alignment explanation
Indices: 69878986--69879040 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
69878976 CCCTAAAACT
69878986 ATGGAAAACTAAAAGAAACTATCAACC
1 ATGGAAAACTAAAAGAAACTATCAACC
69879013 ATGGAAAACTAAAAGAAACTATCAACC
1 ATGGAAAACTAAAAGAAACTATCAACC
69879040 A
1 A
69879041 AAAAAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.56, C:0.18, G:0.11, T:0.15
Consensus pattern (27 bp):
ATGGAAAACTAAAAGAAACTATCAACC
Found at i:69881926 original size:48 final size:49
Alignment explanation
Indices: 69881790--69881931 Score: 173
Period size: 48 Copynumber: 2.9 Consensus size: 49
69881780 AAACATAGGG
*
69881790 TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACA
1 TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCACA
** * *
69881839 TATTTGTGCCAATGCCATGTCCCAGACATGGTCTTACACTGACAC-CTC-
1 TA-TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCACA
* *
69881887 TATACATGCCGATGCTATGTCCCAGACACGGTCTTACACTGACAC
1 TATA-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACAC
69881932 ATCTCATAGC
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
47 1 0.01
48 38 0.47
49 4 0.05
50 36 0.45
51 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (49 bp):
TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCACA
Found at i:69900517 original size:40 final size:40
Alignment explanation
Indices: 69900439--69900599 Score: 169
Period size: 40 Copynumber: 4.0 Consensus size: 40
69900429 TATTTGATTT
* * ** * *
69900439 AGGGTTACCAAAGTATAAACAAAGGCATGTATGCGCATTT
1 AGGGGTACCAAAGTACAAACAGGGGCATGTATGTGCATTC
* **
69900479 AGGGGTACCAAAGTACAAACAGGGGAACCTATGTGCATTC
1 AGGGGTACCAAAGTACAAACAGGGGCATGTATGTGCATTC
* * *
69900519 AAGGGTACCGAAGTACAAACATGGGCATGTATGTGCATTC
1 AGGGGTACCAAAGTACAAACAGGGGCATGTATGTGCATTC
* * * * *
69900559 AGGGGTACCGAAGTACAAATAGGGGCACGTATATGAATTC
1 AGGGGTACCAAAGTACAAACAGGGGCATGTATGTGCATTC
69900599 A
1 A
69900600 AAAAATAATT
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (40 bp):
AGGGGTACCAAAGTACAAACAGGGGCATGTATGTGCATTC
Found at i:69900599 original size:80 final size:81
Alignment explanation
Indices: 69900439--69900600 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 81
69900429 TATTTGATTT
* *
69900439 AGGGTTACCAAAGTATAAACAAAGGCATGTATGCGCATTTAGGGGTACCAAAGTACAAACAGGGG
1 AGGGTTACCAAAGTACAAACAAAGGCATGTATGCGCATTCAGGGGTACCAAAGTACAAACAGGGG
* *
69900504 AACCTATGTGCATTCA
66 AACCTATATGAATTCA
* ** * * *
69900520 AGGG-TACCGAAGTACAAACATGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGG
1 AGGGTTACCAAAGTACAAACAAAGGCATGTATGCGCATTCAGGGGTACCAAAGTACAAACAGGGG
* *
69900584 CACGTATATGAATTCA
66 AACCTATATGAATTCA
69900600 A
1 A
69900601 AAAATAATTA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 65 0.94
81 4 0.06
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (81 bp):
AGGGTTACCAAAGTACAAACAAAGGCATGTATGCGCATTCAGGGGTACCAAAGTACAAACAGGGG
AACCTATATGAATTCA
Found at i:69913084 original size:68 final size:70
Alignment explanation
Indices: 69913012--69913209 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
69913002 ACACCCTGTA
* * * *
69913012 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
69913074 ATAAAT
65 ATAAAT
*
69913080 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
69913145 ATAAAT
65 ATAAAT
*
69913151 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
69913210 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:69913123 original size:41 final size:41
Alignment explanation
Indices: 69913078--69913195 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
69913068 TGAAAGATAA
69913078 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
69913119 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
69913149 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
69913190 ATGTAG
1 ATGTAG
69913196 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:69913135 original size:71 final size:71
Alignment explanation
Indices: 69913046--69913209 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
69913036 GAGATGTATC
69913046 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
69913111 AGGACA
66 AGGACA
69913117 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
69913182 AGGACA
66 AGGACA
69913188 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
69913210 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:69916892 original size:68 final size:70
Alignment explanation
Indices: 69916820--69917017 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
69916810 ACACCCTGTA
* * * *
69916820 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
69916882 ATAAAT
65 ATAAAT
*
69916888 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
69916953 ATAAAT
65 ATAAAT
*
69916959 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
69917018 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:69916931 original size:41 final size:41
Alignment explanation
Indices: 69916886--69917003 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
69916876 TGAAAGATAA
69916886 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
69916927 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
69916957 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
69916998 ATGTAG
1 ATGTAG
69917004 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:69916943 original size:71 final size:71
Alignment explanation
Indices: 69916854--69917017 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
69916844 GAGATGTATC
69916854 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
69916919 AGGACA
66 AGGACA
69916925 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
69916990 AGGACA
66 AGGACA
69916996 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
69917018 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:69918818 original size:66 final size:68
Alignment explanation
Indices: 69918742--69918928 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
69918732 TAGTACCACT
*
69918742 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
69918804 CACG
65 CACG
69918808 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
69918873 ATCACG
63 ATCACG
69918879 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
69918929 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:69918853 original size:71 final size:71
Alignment explanation
Indices: 69918765--69918928 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
69918755 CGATTTGTCT
69918765 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
69918830 CTTTCA
66 CTTTCA
69918836 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
69918901 CTTTCA
66 CTTTCA
69918907 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
69918929 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:69918966 original size:71 final size:70
Alignment explanation
Indices: 69918765--69918962 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
69918755 CGATTTGTCT
* * *
69918765 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
69918830 CTTTCA
65 CTTTCA
* * *
69918836 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
69918901 CTTTCA
65 CTTTCA
* *
69918907 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
69918963 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:69923356 original size:36 final size:36
Alignment explanation
Indices: 69923309--69923380 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
69923299 AACAACGGAG
69923309 TTAGGTAACTGCCACACATGATACCTCGTACAATGT
1 TTAGGTAACTGCCACACATGATACCTCGTACAATGT
69923345 TTAGGTAACTGCCACACATGATACCTCGTACAATGT
1 TTAGGTAACTGCCACACATGATACCTCGTACAATGT
69923381 CACTTTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (36 bp):
TTAGGTAACTGCCACACATGATACCTCGTACAATGT
Found at i:69928520 original size:40 final size:39
Alignment explanation
Indices: 69928476--69928680 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
69928466 ATGATACCCA
*
69928476 GGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCG
1 GGCTAAGACCCGAAGGCATTTATGCTAGTG-ATATATCCG
*
69928516 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCG
1 GGCTAAGACCCGAAGGCATTTATGCTAGTGA-TATATCCG
** *
69928556 GGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATATCCG
1 GGCTAAGACCCGAAGGCATTTATGCTAG-TGAT-ATATCCG
* * * *
69928596 GGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAATCCG
1 GGCTAAGACCCGAAGGCATTTATGCTAG-TGA-TATATCCG
* * * * *
69928636 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-
1 GGCTAAGACCCGAAGGCATTTATGCTAGT-GATATATCCG
69928675 GGCTAA
1 GGCTAA
69928681 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
39 8 0.06
40 131 0.93
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
GGCTAAGACCCGAAGGCATTTATGCTAGTGATATATCCG
Found at i:69928673 original size:80 final size:80
Alignment explanation
Indices: 69928476--69928680 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
69928466 ATGATACCCA
* * * ** *
69928476 GGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGC
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTTATGC
* ** *
69928541 TAGTGATTATATCCG
66 AAGTGACCAAATCCG
* * * *
69928556 GGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTCATATCCGGGCTAAGACCCGAAGGCATTTGTG
1 GGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTTATG
69928620 CAAGAT-ACCAAATCCG
65 CAAG-TGACCAAATCCG
* *
69928636 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAA
69928681 ATTCCGAAGA
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 8 0.08
80 91 0.88
81 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
GGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTTATGC
AAGTGACCAAATCCG
Found at i:69930956 original size:57 final size:57
Alignment explanation
Indices: 69930884--69930994 Score: 213
Period size: 57 Copynumber: 1.9 Consensus size: 57
69930874 TCGGATAGTC
*
69930884 TGATGACGTCCCCATCGAGTTCCAATCTGAGCAGATCTCTAAAAATCTATAAACGTG
1 TGATGACGTACCCATCGAGTTCCAATCTGAGCAGATCTCTAAAAATCTATAAACGTG
69930941 TGATGACGTACCCATCGAGTTCCAATCTGAGCAGATCTCTAAAAATCTATAAAC
1 TGATGACGTACCCATCGAGTTCCAATCTGAGCAGATCTCTAAAAATCTATAAAC
69930995 ATAGGAAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (57 bp):
TGATGACGTACCCATCGAGTTCCAATCTGAGCAGATCTCTAAAAATCTATAAACGTG
Found at i:69931866 original size:43 final size:42
Alignment explanation
Indices: 69931811--69931958 Score: 124
Period size: 42 Copynumber: 3.5 Consensus size: 42
69931801 TGCCAACATT
*
69931811 CCAGAC-GTGGTCTTACATGTAATCAAACATCGATGCCACTGTC
1 CCAGACAG-GGTCTTACACGTAATCAAA-ATCGATGCCACTGTC
* ** * *
69931854 CCAGAGAGGGTCTTACACAAAATC-AAATACGATGCCAATGTG
1 CCAGACAGGGTCTTACACGTAATCAAAAT-CGATGCCACTGTC
**
69931896 CCAGACCTGGTCTTACACGTAAATCACAAATCGATGCCAAC-GTC
1 CCAGACAGGGTCTTACACGT-AATCA-AAATCGATGCC-ACTGTC
*
69931940 CCAGTC-GTGGTCTTACACG
1 CCAGACAG-GGTCTTACACG
69931959 ATAACACATA
Statistics
Matches: 83, Mismatches: 15, Indels: 13
0.75 0.14 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.34
43 22 0.27
44 26 0.31
45 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (42 bp):
CCAGACAGGGTCTTACACGTAATCAAAATCGATGCCACTGTC
Found at i:69931900 original size:42 final size:43
Alignment explanation
Indices: 69931831--69931959 Score: 129
Period size: 42 Copynumber: 3.0 Consensus size: 43
69931821 TCTTACATGT
* *
69931831 AATCAAACATCGATGCCACTGTCCCAGAGAGGGTCTTACAC-AA
1 AATCAAA-ATCGATGCCAATGTCCCAGACAGGGTCTTACACGAA
* ** *
69931874 AATC-AAATACGATGCCAATGTGCCAGACCTGGTCTTACACGTA
1 AATCAAAAT-CGATGCCAATGTCCCAGACAGGGTCTTACACGAA
* *
69931917 AATCACAAATCGATGCCAACGTCCCAGTC-GTGGTCTTACACGA
1 AATCA-AAATCGATGCCAATGTCCCAGACAG-GGTCTTACACGA
69931960 TAACACATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.03
42 28 0.40
43 9 0.13
44 27 0.39
45 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (43 bp):
AATCAAAATCGATGCCAATGTCCCAGACAGGGTCTTACACGAA
Found at i:69934999 original size:25 final size:25
Alignment explanation
Indices: 69934953--69935003 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
69934943 CCCTTATAAT
** *
69934953 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATGATACCCCTAG
69934978 GTGAAAATGACCATGATACCCCTAG
1 GTGAAAATGACCATGATACCCCTAG
69935003 G
1 G
69935004 GATATGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
GTGAAAATGACCATGATACCCCTAG
Found at i:69939573 original size:6 final size:6
Alignment explanation
Indices: 69939543--69939661 Score: 57
Period size: 6 Copynumber: 19.3 Consensus size: 6
69939533 AAGAAACATT
* * * * *
69939543 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGG ATCAG- GTGACTGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
69939592 ATCAGA ATCAGA ATCAG- GTGACAGA ATTAGA ATTAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
69939643 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
69939662 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
5 5 0.06
6 68 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:69939597 original size:25 final size:25
Alignment explanation
Indices: 69939564--69939633 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
69939554 AATCAAAATG
*
69939564 AGAATCAGAATCAGGATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
69939589 TGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
69939614 AGAATTAGAATTAGAATCAG
1 AGAATCAGAATCAGAATCAG
69939634 TATCAGGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:69939630 original size:31 final size:31
Alignment explanation
Indices: 69939590--69939661 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
69939580 TCAGGTGACT
*
69939590 GAATCAGAATCAGAATCAGGTGACAGAATTA
1 GAATCAGAATCAGAATCAGGTAACAGAATTA
* * *
69939621 GAATTAGAATCAGTATCAGGTAACAGAATCA
1 GAATCAGAATCAGAATCAGGTAACAGAATTA
*
69939652 AAATCAGAAT
1 GAATCAGAAT
69939662 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
GAATCAGAATCAGAATCAGGTAACAGAATTA
Found at i:69940239 original size:45 final size:46
Alignment explanation
Indices: 69940175--69940315 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 46
69940165 TTTAACACCC
**
69940175 TAAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAAC-GTAAAT
1 TAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAGTAAAT
*
69940220 TAAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
1 TAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAGTAA----AT
* * *
69940270 AAATCGAGGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGT
1 ---T-AAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAGT
69940316 TATTTTGTAA
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
45 36 0.44
46 4 0.05
50 2 0.02
53 1 0.01
54 39 0.48
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (46 bp):
TAAGGGTAAAATAATAATTTTATAAATCGAGGGTAAAACAGTAAAT
Found at i:69940244 original size:27 final size:27
Alignment explanation
Indices: 69940222--69940685 Score: 608
Period size: 27 Copynumber: 17.2 Consensus size: 27
69940212 ACGTAAATTA
* *
69940222 AGGGTAAAATAATAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
69940249 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
69940276 AGGGTAAAACAATAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
69940303 AGGGTAAAACAGTTATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
** * *
69940330 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
69940357 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
69940384 AGGGTAAAAC-GATAATTCTATAAATCG
1 AGGGTAAAACAG-TAATTTTGTAAATCG
*
69940411 AGGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* ** * * *
69940438 AGGGTAAGAGGGTAATTCTATAAATTG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
69940465 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
69940492 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
69940519 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
69940546 AGGGTAAAACAGTAATTCTGCAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
69940573 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
69940600 AGGGTAAAAC-GATAATTTTATAAATCG
1 AGGGTAAAACAG-TAATTTTGTAAATCG
* * *
69940627 AGAGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
69940654 AGGGTAAAACAATAATTTTGTAATTCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
69940681 AGGGT
1 AGGGT
69940686 TCTTTGATAA
Statistics
Matches: 382, Mismatches: 51, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 378 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTTTGTAAATCG
Found at i:69940724 original size:54 final size:53
Alignment explanation
Indices: 69940638--69940837 Score: 152
Period size: 54 Copynumber: 3.7 Consensus size: 53
69940628 GAGTAAAACA
* * *** *
69940638 GTAATTCTATAAATCGAGGGTAAAACAATAATTTTGTAATTCGAGGGTTCTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAA-TCGAGGGTTCTTTG
* ** * * * *
69940692 ATAATTTTACATGTCAAGGGTATTTCAGTAATTTTGCAAACTGAGGGTAT-TTCG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAATC-GAGGGT-TCTTTG
* ** * * *
69940746 GTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGT-AATCGAGGGTTCTTTG
* * *
69940800 GTAATTTTACAACT-GGGGGTATTTCAGTAATTTGGTAA
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAA
69940838 ACTAAAGTAT
Statistics
Matches: 109, Mismatches: 33, Indels: 10
0.72 0.22 0.07
Matches are distributed among these distances:
52 2 0.02
53 17 0.16
54 86 0.79
55 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (53 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGTAATCGAGGGTTCTTTG
Found at i:69940829 original size:26 final size:27
Alignment explanation
Indices: 69940693--69940832 Score: 133
Period size: 27 Copynumber: 5.2 Consensus size: 27
69940683 GGTTCTTTGA
** * *
69940693 TAATTTTACATGTCAAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
*
69940720 TAATTTTGCAAA-CTGAGGGTATTTCGG
1 TAATTTTACAAATC-GAGGGTATTTCGG
* *
69940747 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
69940774 TAATTTTATAAATCGGGGGTACTTT-GG
1 TAATTTTACAAATCGAGGGTA-TTTCGG
* * *
69940801 TAATTTTACAACT-GGGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
69940827 TAATTT
1 TAATTT
69940833 GGTAAACTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
25 3 0.03
26 15 0.16
27 73 0.77
28 4 0.04
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCGG
Found at i:69945115 original size:14 final size:16
Alignment explanation
Indices: 69945072--69945118 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 16
69945062 AACGTAGTCG
*
69945072 TTTCCATTTATTCTTTC
1 TTTCCCTTT-TTCTTTC
69945089 TTTCCCTTTTTCTTT-
1 TTTCCCTTTTTCTTTC
69945104 TTTCCC-TTTTCTTTC
1 TTTCCCTTTTTCTTTC
69945119 CTTTTCATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 6 0.21
17 8 0.29
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTCCCTTTTTCTTTC
Found at i:69946362 original size:15 final size:16
Alignment explanation
Indices: 69946342--69946371 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
69946332 TTCTTCAAAA
69946342 CTATTCATC-ATACTG
1 CTATTCATCAATACTG
69946357 CTATTCATCAATACT
1 CTATTCATCAATACT
69946372 TTTGCCGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (16 bp):
CTATTCATCAATACTG
Found at i:69947394 original size:28 final size:28
Alignment explanation
Indices: 69947362--69947430 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
69947352 GCGTAGATCA
69947362 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
69947390 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
69947418 CGATA-TACCCCTA
1 CGAAATTACCCCTA
69947431 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:69951699 original size:28 final size:28
Alignment explanation
Indices: 69951667--69951735 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
69951657 GCGTAGATCA
69951667 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
69951695 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
69951723 CGATA-TACCCCTA
1 CGAAATTACCCCTA
69951736 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:69955174 original size:19 final size:19
Alignment explanation
Indices: 69955130--69955265 Score: 206
Period size: 19 Copynumber: 7.2 Consensus size: 19
69955120 AATCTTTAAG
*
69955130 GATATGCAATCTTAGATAAG
1 GATATGCAATCTTAGAT-AT
69955150 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
69955169 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
69955188 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
69955205 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
69955224 GATATGCAAT-TTAGATAT
1 GATATGCAATCTTAGATAT
69955242 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
69955263 GAT
1 GAT
69955266 CTTGTAATCT
Statistics
Matches: 109, Mismatches: 2, Indels: 9
0.91 0.02 0.08
Matches are distributed among these distances:
17 17 0.16
18 18 0.17
19 48 0.44
20 17 0.16
21 9 0.08
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:69955203 original size:36 final size:37
Alignment explanation
Indices: 69955130--69955265 Score: 195
Period size: 36 Copynumber: 3.6 Consensus size: 37
69955120 AATCTTTAAG
*
69955130 GATATGCAATCTTAGATAAGGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGAT-ATGATA-GCAATCTTAGATAT
69955169 GATATGCAATCTTAGATATGATA-CAATCTTAGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAGATAT
*
69955205 GATATGCAATTTTAGATATGATATGCAAT-TTAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTTAGATAT
69955242 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
69955266 CTTGTAATCT
Statistics
Matches: 90, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
36 35 0.39
37 20 0.22
38 9 0.10
39 26 0.29
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (37 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAGATAT
Found at i:69955223 original size:55 final size:55
Alignment explanation
Indices: 69955130--69955265 Score: 193
Period size: 55 Copynumber: 2.4 Consensus size: 55
69955120 AATCTTTAAG
*
69955130 GATATGCAATCTTAGATAAGGATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGAT-ATGATATGCAATCTTAGATATGATATGCAAT-TTAGATAT
*
69955188 GATA-CAATCTTAGATATGATATGCAATTTTAGATATGATATGCAATTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATTTAGATAT
69955242 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
69955266 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
54 12 0.17
55 29 0.40
56 18 0.25
58 13 0.18
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (55 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATTTAGATAT
Found at i:69960891 original size:1 final size:1
Alignment explanation
Indices: 69960885--69960943 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
69960875 CTTCTATTTC
** * * * * *
69960885 AAAAAAAAGGAAAAAAAGAAAAGAAAAAAAAAAAAAATAAAAAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
69960944 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (1 bp):
A
Found at i:69960900 original size:8 final size:8
Alignment explanation
Indices: 69960886--69960942 Score: 62
Period size: 9 Copynumber: 6.9 Consensus size: 8
69960876 TTCTATTTCA
69960886 AAAAAAAGG
1 AAAAAAA-G
69960895 AAAAAAAG
1 AAAAAAAG
*
69960903 AAAAGAAAA
1 AAAA-AAAG
*
69960912 AAAAAAAA
1 AAAAAAAG
69960920 AATAAAAAG
1 AA-AAAAAG
69960929 -AAAAAAG
1 AAAAAAAG
69960936 AAAAAAA
1 AAAAAAA
69960943 ATGGAGAGGC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
7 6 0.14
8 18 0.42
9 19 0.44
ACGTcount: A:0.88, C:0.00, G:0.11, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:69960911 original size:21 final size:22
Alignment explanation
Indices: 69960887--69960944 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
69960877 TCTATTTCAA
* *
69960887 AAAAAAGGAAAAAAA-GAAAAG
1 AAAAAAGAAAAAAAATAAAAAG
69960908 AAAAAA-AAAAAAAATAAAAAG
1 AAAAAAGAAAAAAAATAAAAAG
69960929 AAAAAAGAAAAAAAAT
1 AAAAAAGAAAAAAAAT
69960945 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 7 0.21
21 17 0.52
22 9 0.27
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.03
Consensus pattern (22 bp):
AAAAAAGAAAAAAAATAAAAAG
Found at i:69960920 original size:28 final size:28
Alignment explanation
Indices: 69960885--69960943 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
69960875 CTTCTATTTC
*
69960885 AAAAAAAAGGAAAAA-AAGAAAAGAAAAA
1 AAAAAAAAAGAAAAAGAA-AAAAGAAAAA
*
69960913 AAAAAAAAATAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAGAAAAAGAAAAAAGAAAAA
69960941 AAA
1 AAA
69960944 TGGAGAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (28 bp):
AAAAAAAAAGAAAAAGAAAAAAGAAAAA
Found at i:69961956 original size:43 final size:43
Alignment explanation
Indices: 69961899--69962040 Score: 116
Period size: 43 Copynumber: 3.3 Consensus size: 43
69961889 AGTGCCTTAA
69961899 TCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCC-TAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
* * * * * *
69961943 TCCCTAAGTAGTAGTGG-AGCAGATCGAAGA-CT-C-GCT-TTAATC
1 TCCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
* *
69961985 -CCTTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
*
69962027 TCTCTAAGCAGTAG
1 TCCCTAAGCAGTAG
69962041 TGGAGCAGAT
Statistics
Matches: 71, Mismatches: 17, Indels: 21
0.65 0.16 0.19
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 18 0.25
42 10 0.14
43 27 0.38
44 9 0.13
45 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
Found at i:69962040 original size:84 final size:84
Alignment explanation
Indices: 69961892--69962423 Score: 701
Period size: 84 Copynumber: 6.4 Consensus size: 84
69961882 AAAATTCAGT
* *
69961892 GCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
69961957 TGGAGCAGATCGAAGACTC
66 TGGAGCAGATCGAAGACTC
* * * *
69961976 GCTTTAATCCCTTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCTCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
69962041 TGGAGCAGATCGAAGACTC
66 TGGAGCAGATCGAAGACTC
*
69962060 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
69962120 TAGAGCAGATCGAAGACCC
66 TGGAGCAGATCGAAGACTC
** *
69962139 GCCTTAATCCCCTAAGTGGTAGGGTAATAGGTT-AATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
*
69962203 TGGAGTAGATCGAAGACTC
66 TGGAGCAGATCGAAGACTC
* * * * * *
69962222 GCCTTAATCTCTTAAGCAGTAGAGTAACAGG-----GTCGCAGATCTTATCTCCCTAAGTAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
* *
69962282 CGGAGCAGATAGATGACGACTC
66 TGGAGCAGATCGA--A-GACTC
* * *
69962304 GCCTTAATCCCCTAAGCAATTGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
*
69962369 TGGAGTAGATCGAAGA-TGC
66 TGGAGCAGATCGAAGACT-C
* *
69962388 ACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
69962424 GTATAGCAGA
Statistics
Matches: 388, Mismatches: 47, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
79 108 0.28
81 1 0.00
82 30 0.08
83 68 0.18
84 144 0.37
85 1 0.00
87 36 0.09
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (84 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACTC
Found at i:69962710 original size:87 final size:89
Alignment explanation
Indices: 69962542--69962746 Score: 281
Period size: 87 Copynumber: 2.3 Consensus size: 89
69962532 ATTCGACGGA
* *
69962542 GAGCAGATCGAAGACATAGCAGATCTGACCTTCGAATATTTTCACATTAAAGCAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCGAATAGTTTCACACTAAAGCAGATCCAAGATG
*
69962607 ATTTAGCATCCTTGTGTTTACAAG
66 ATTTAGCATCCCTGTGTTTACAAG
* * * *
69962631 GAGCAAATCGAAGACATAACAGATCTGACCTTC-AAGT-GTTT-ACGCTGAAGCAGATCCAAGAT
1 GAGCAGATCGAAGACATAGCAGATCTGACCTTCGAA-TAGTTTCACACTAAAGCAGATCCAAGAT
* *
69962693 GATTTGGCATCCCTGTGTTTACAGG
65 GATTTAGCATCCCTGTGTTTACAAG
* *
69962718 GAACAGATTGAAGACATAGCAGATCTGAC
1 GAGCAGATCGAAGACATAGCAGATCTGAC
69962747 ATTCCTGTGC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
87 65 0.64
88 5 0.05
89 32 0.31
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (89 bp):
GAGCAGATCGAAGACATAGCAGATCTGACCTTCGAATAGTTTCACACTAAAGCAGATCCAAGATG
ATTTAGCATCCCTGTGTTTACAAG
Found at i:69963354 original size:19 final size:19
Alignment explanation
Indices: 69963332--69963422 Score: 150
Period size: 19 Copynumber: 4.8 Consensus size: 19
69963322 AAGGATATAT
69963332 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
69963351 AATCTTAGATATGATA--C
1 AATCTTAGATATGATATGC
69963368 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
69963387 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
69963406 AATCTTGAAGATATGAT
1 AATCTT--AGATATGAT
69963423 CTTGTAATCT
Statistics
Matches: 68, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.25
19 42 0.62
21 9 0.13
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
AATCTTAGATATGATATGC
Found at i:69963355 original size:36 final size:36
Alignment explanation
Indices: 69963315--69963402 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 36
69963305 ATGGAAATAT
69963315 AATCTTTAAGGATAT-AT-AATCTTAGATATGATATGC
1 AATCTTT-A-GATATGATAAATCTTAGATATGATATGC
69963351 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATGATA-AATCTTAGATATGATATGC
69963387 AATC-TTAGATATGATA
1 AATCTTTAGATATGATA
69963403 TGCAATCTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
33 5 0.10
34 3 0.06
35 2 0.04
36 39 0.80
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (36 bp):
AATCTTTAGATATGATAAATCTTAGATATGATATGC
Found at i:69963361 original size:14 final size:15
Alignment explanation
Indices: 69963344--69963400 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
69963334 TCTTAGATAT
69963344 GATATG-CAATCTTA
1 GATATGACAATCTTA
69963358 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
69963375 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
69963394 GATATGA
1 GATATGA
69963401 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:69963634 original size:41 final size:41
Alignment explanation
Indices: 69963589--69963670 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
69963579 AAGAGCATTC
*
69963589 ACTCAAATTTCTCTCCCTCTTGCGTTCTTACTCTCTGTGGT
1 ACTCAAATTTCTCTCCCTCTTGCATTCTTACTCTCTGTGGT
69963630 ACTCAAATTTCTCTCCCTCTTGCATTCTTACTCTCTGTGGT
1 ACTCAAATTTCTCTCCCTCTTGCATTCTTACTCTCTGTGGT
69963671 TTGTTCTTAT
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:0.13, C:0.32, G:0.11, T:0.44
Consensus pattern (41 bp):
ACTCAAATTTCTCTCCCTCTTGCATTCTTACTCTCTGTGGT
Found at i:69966414 original size:6 final size:6
Alignment explanation
Indices: 69966403--69966508 Score: 74
Period size: 6 Copynumber: 17.2 Consensus size: 6
69966393 TATCAAAACT
* * *
69966403 AGAATC AGAATC AAAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
69966452 AGAATC AGTATC AGGTAAT- TGAATC AAAATC AGAATC AGTATC AAGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC -AG-AATC
69966502 AGAATC A
1 AGAATC A
69966509 AAAATTAGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
5 6 0.08
6 61 0.79
7 6 0.08
8 4 0.05
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:69966424 original size:18 final size:18
Alignment explanation
Indices: 69966394--69966465 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
69966384 AAGAAACATT
69966394 ATCAAAA-CTAGAATCAGA
1 ATCAAAATC-AGAATCAGA
*
69966412 ATCAAAATCAGAATTAG-
1 ATCAAAATCAGAATCAGA
* *
69966429 GTGACAGAATCAGAATCAGA
1 AT--CAAAATCAGAATCAGA
* *
69966449 ATCAGAATCAGTATCAG
1 ATCAAAATCAGAATCAG
69966466 GTAATTGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
17 1 0.02
18 28 0.64
19 14 0.32
20 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
ATCAAAATCAGAATCAGA
Found at i:69966458 original size:37 final size:37
Alignment explanation
Indices: 69966403--69966495 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
69966393 TATCAAAACT
* * *
69966403 AGAATCAGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* **
69966440 AGAATCAGAATCAGAATCAGTATCAGGTAATTGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* *
69966477 AAAATCAGAATCAGTATCA
1 AGAATCAGAATCAGAATCA
69966496 AGTAACAGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:69966476 original size:31 final size:31
Alignment explanation
Indices: 69966441--69966511 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
69966431 GACAGAATCA
* *
69966441 GAATCAGAATCAGAATCAGTATCAGGTAATT
1 GAATCAAAATCAGAATCAGTATCAAGTAATT
**
69966472 GAATCAAAATCAGAATCAGTATCAAGTAACA
1 GAATCAAAATCAGAATCAGTATCAAGTAATT
69966503 GAATCAAAA
1 GAATCAAAA
69966512 ATTAGAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.21
Consensus pattern (31 bp):
GAATCAAAATCAGAATCAGTATCAAGTAATT
Found at i:69966698 original size:27 final size:26
Alignment explanation
Indices: 69966656--69966757 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
69966646 GCTCAGTTAT
* *
69966656 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
69966683 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
69966709 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
69966737 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
69966758 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:69966783 original size:54 final size:54
Alignment explanation
Indices: 69966674--69966775 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
69966664 GTGACAGAGT
* * * **
69966674 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCATAGC
**
69966728 CACCAGAAACAGATAATGTGGCAAAGCCA-CTTAACAGA-ATACGTGGCA
1 CACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCA
69966776 CTAAGCCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 8 0.20
53 7 0.17
54 26 0.63
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCATAGC
Found at i:69966944 original size:22 final size:22
Alignment explanation
Indices: 69966916--69966980 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
69966906 GCAAATACGT
*
69966916 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
** *
69966938 TTGGCACAGTGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
69966960 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
69966981 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:69967735 original size:27 final size:27
Alignment explanation
Indices: 69967407--69967727 Score: 371
Period size: 27 Copynumber: 12.0 Consensus size: 27
69967397 GGGGCAAAAT
* * * *
69967407 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
69967433 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
69967460 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
69967487 GATAATTCTACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
69967514 AATAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
69967540 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
69967567 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
69967594 GATAATTCTACCTTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
69967621 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
69967648 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* ** *
69967675 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
*
69967702 GGTAATTCTATCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
69967728 TAGTAATTTC
Statistics
Matches: 260, Mismatches: 31, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
26 40 0.15
27 217 0.83
28 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:69967748 original size:27 final size:27
Alignment explanation
Indices: 69967637--69967748 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
69967627 TCTACCCTAC
* *
69967637 AGGGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACA
*
69967664 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACA
* **
69967691 AGGGGTATTTTGGTAATTCTATCCTAC-
1 AGGGGTATTTTGGTAATTTTA-CAAACA
* * *
69967718 AGGGGTATTTTAGTAATTTCACAATCA
1 AGGGGTATTTTGGTAATTTTACAAACA
69967745 AGGG
1 AGGG
69967749 TAAAACGGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.03
27 68 0.93
28 3 0.04
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACA
Found at i:69967779 original size:27 final size:27
Alignment explanation
Indices: 69967740--69967922 Score: 208
Period size: 27 Copynumber: 6.8 Consensus size: 27
69967730 GTAATTTCAC
* *
69967740 AATCAAGGGTAAAACGGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
69967767 AA-CTGGGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
69967794 AATCGAGGGTAAAACGATAGTTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
69967821 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
69967848 AATCGAGGGTAAAACGGTAATTTT-TA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
69967874 AATCGAAGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
69967901 AATCAAGGGTAAAATGGTAATT
1 AATCGAGGGTAAAACGGTAATT
69967923 CTACAAATCG
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 24 0.18
27 106 0.81
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:69967898 original size:53 final size:53
Alignment explanation
Indices: 69967740--69967922 Score: 233
Period size: 54 Copynumber: 3.4 Consensus size: 53
69967730 GTAATTTCAC
* * *
69967740 AATCAAGGGTAAAACGGTAATTTTTTAAA-CTGGGGGTAAAATGGTAATTTTGTA
1 AATCAAGGGTAAAACGGTAA-TTTTTAAATC-GAGGGTAAAATGGTAATTCTATA
* * *
69967794 AATCGAGGGTAAAACGATAGTTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCAAGGGTAAAACGGTAATTTT-TAAATCGAGGGTAAAATGGTAATTCTATA
* * * *
69967848 AATCGAGGGTAAAACGGTAATTTTTAAATCGAAGGTGAAACGGTAATTCTATA
1 AATCAAGGGTAAAACGGTAATTTTTAAATCGAGGGTAAAATGGTAATTCTATA
*
69967901 AATCAAGGGTAAAATGGTAATT
1 AATCAAGGGTAAAACGGTAATT
69967923 CTACAAATCG
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
53 50 0.44
54 63 0.55
55 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.30
Consensus pattern (53 bp):
AATCAAGGGTAAAACGGTAATTTTTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:69967948 original size:80 final size:81
Alignment explanation
Indices: 69967783--69967956 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 81
69967773 GGGTAAAATG
* * * * * *
69967783 GTAATTTTGTAAATCGAGGGTAAAACGATAGTTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAAGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
* *
69967848 AATCGAGGGTAAAACG
66 AATCGAGGGCAAAACA
* *
69967864 GTAATTTT-TAAATCGAAGGTGAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAAGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
* ***
69967928 AATCGATGGCATTTCA
66 AATCGAGGGCAAAACA
69967944 GTAATTTTGTAAA
1 GTAATTTTGTAAA
69967957 CCAGTGGTAT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 66 0.85
81 12 0.15
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAAGGTAAAACGATAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:69967968 original size:27 final size:26
Alignment explanation
Indices: 69967938--69968195 Score: 189
Period size: 27 Copynumber: 9.5 Consensus size: 26
69967928 AATCGATGGC
* **
69967938 ATTTCAGTAATTTTGTAAACCAGTGGT
1 ATTTTAGTAATTTTACAAACCAG-GGT
* *
69967965 ATTTCTA-TAATTTTTAGAAAGTCAAGGGT
1 ATTT-TAGTAA-TTTTACAAA--CCAGGGT
* * ** *
69967994 ATTTTTGTAATTATGTAAATCAGGAGT
1 ATTTTAGTAATTTTACAAACCAGG-GT
**
69968021 ATTTTAGTAATTTTACAAATTGAGGGT
1 ATTTTAGTAATTTTACAAA-CCAGGGT
** *
69968048 ATTTCGGTAATTTCACAAACCAGTGGT
1 ATTTTAGTAATTTTACAAACCAG-GGT
*
69968075 ATTTT-GATAATTTTACAAACTAGGGGT
1 ATTTTAG-TAATTTTACAAACCA-GGGT
69968102 ATTTCT-GTAATTTTACAAACCAGGGGT
1 ATTT-TAGTAATTTTACAAACCA-GGGT
* * *
69968129 ATTTTGGTAATTTTATAAACAAAGGGT
1 ATTTTAGTAATTTTACAAAC-CAGGGT
69968156 ATTTTAGTAATTTTACAAACCAGGGGT
1 ATTTTAGTAATTTTACAAACCA-GGGT
*
69968183 ATTTTGGTAATTT
1 ATTTTAGTAATTT
69968196 GGTAAACTAA
Statistics
Matches: 187, Mismatches: 30, Indels: 28
0.76 0.12 0.11
Matches are distributed among these distances:
26 8 0.04
27 143 0.76
28 23 0.12
29 10 0.05
30 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (26 bp):
ATTTTAGTAATTTTACAAACCAGGGT
Found at i:69968188 original size:54 final size:53
Alignment explanation
Indices: 69967944--69968195 Score: 245
Period size: 54 Copynumber: 4.6 Consensus size: 53
69967934 TGGCATTTCA
** * * * *
69967944 GTAATTTTGTAAACCAGTGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTT
1 GTAATTTTACAAACCAGGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTA-TTTT
* ** * * * * * *
69968000 GTAATTATGTAAATCAGGAGTATTTTAGTAATTTTACAAATTGAGGGTATTTCG
1 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT-T
* * * *
69968054 GTAATTTCACAAACCAGTGGTATTTTGATAATTTTACAAACTAGGGGTATTTCT
1 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT-T
* *
69968108 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTT
1 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT
69968161 AGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 -GTAATTTTACAAACCAGGGGTATTTTGGTAATTT
69968196 GGTAAACTAA
Statistics
Matches: 165, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.02
54 127 0.77
55 10 0.06
56 24 0.15
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (53 bp):
GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT
Found at i:69968202 original size:27 final size:27
Alignment explanation
Indices: 69967990--69968195 Score: 218
Period size: 27 Copynumber: 7.6 Consensus size: 27
69967980 AGAAAGTCAA
* * ** *
69967990 GGGTATTTTTGTAATTATGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * **
69968017 GAGTATTTTAGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
69968043 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * *
69968071 TGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
69968098 GGGTATTTCT-GTAATTTTACAAACCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
* * *
69968125 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
69968152 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
69968179 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
69968196 GGTAAACTAA
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.01
27 142 0.97
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:69969597 original size:58 final size:58
Alignment explanation
Indices: 69969452--69969597 Score: 161
Period size: 57 Copynumber: 2.5 Consensus size: 58
69969442 CCTCATAACA
* ** * *
69969452 TATAACAGGATTAACAGTCCAGGCTAAATCCTTTTTATAATATATGCTCAGAAGAGCT
1 TATATCAGGATTAACAGTCCAGGCTAAATCCTAATTATAACATATGCTCAGAAGAGAT
* * * *
69969510 TA-ATTAGGATTATCAGTCCATGCTAAATCCTAATTATAACATATGCTC-GAGAGGGAT
1 TATATCAGGATTAACAGTCCAGGCTAAATCCTAATTATAACATATGCTCAGA-AGAGAT
* * *
69969567 TATATCAGGATTACCAATCTAGGCTAAATCC
1 TATATCAGGATTAACAGTCCAGGCTAAATCC
69969598 CATTAGCAAC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
56 2 0.03
57 45 0.62
58 25 0.35
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (58 bp):
TATATCAGGATTAACAGTCCAGGCTAAATCCTAATTATAACATATGCTCAGAAGAGAT
Found at i:69972927 original size:39 final size:39
Alignment explanation
Indices: 69972849--69972953 Score: 147
Period size: 39 Copynumber: 2.7 Consensus size: 39
69972839 CCGCTCAAAG
* * * *
69972849 GCCTTCGGGACTTAACCCGAATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
* *
69972889 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
69972928 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
69972954 TCGAACATTC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 49 0.84
40 9 0.16
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:69979048 original size:37 final size:37
Alignment explanation
Indices: 69979007--69979087 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
69978997 AGTTATAGGA
* * *
69979007 TCTTACTCGGACAAAATCTCCACACATAGTCATTGGG
1 TCTTACCCGGACAAAATCTCCACACATAGTCATCGAG
* *
69979044 TCTTACCCGGACATAATCTCCACACGTAGTCATCGAG
1 TCTTACCCGGACAAAATCTCCACACATAGTCATCGAG
69979081 TCTTACC
1 TCTTACC
69979088 TGGAATATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACATAGTCATCGAG
Found at i:69979311 original size:46 final size:46
Alignment explanation
Indices: 69979243--69979333 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
69979233 TATATATACA
* ** *
69979243 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATATC
* * *
69979289 CATCTCATACACGTTTCGCATTAGCCATTCAGCCTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATAT
69979334 ATTCATGTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.32, G:0.08, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCAGCCTTACCACATATC
Found at i:69979371 original size:47 final size:47
Alignment explanation
Indices: 69979307--69979578 Score: 319
Period size: 47 Copynumber: 5.6 Consensus size: 47
69979297 ACACGTTTCG
* * *
69979307 CATTAGCCATTCAGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* *
69979354 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
69979401 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
69979448 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * * * *
69979495 CATTGGCCATTTGGCCTTATCACGCATATATATATACAGGTTTACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-C--ACATATATGCATGTTCACATTCATCA
*
69979548 CATTGGCCATTCGACCTTATCACACATATAT
1 CATTGGCCATTCGGCCTTA-C-CACATATAT
69979579 ATACGGGTTC
Statistics
Matches: 198, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
47 148 0.75
48 1 0.01
49 8 0.04
50 2 0.01
51 4 0.02
52 1 0.01
53 34 0.17
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
Found at i:69979419 original size:94 final size:94
Alignment explanation
Indices: 69979307--69979575 Score: 358
Period size: 94 Copynumber: 2.8 Consensus size: 94
69979297 ACACGTTTCG
* *
69979307 CATTAGCCATTCAGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
69979372 ATCTCATATATGCATGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
* * **
69979401 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
69979466 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
* * * *
69979495 CATTGGCCATTTGGCCTTATCACGCATATATATATACAGGTTTACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCC-T-T-AC-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTC
*
69979560 GACCTTATCACACATA
60 GGCCTTATCACACATA
69979576 TATATACGGG
Statistics
Matches: 151, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
94 100 0.66
95 1 0.01
96 1 0.01
97 1 0.01
98 6 0.04
100 42 0.28
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCA
Found at i:69979466 original size:141 final size:144
Alignment explanation
Indices: 69979307--69979575 Score: 382
Period size: 141 Copynumber: 1.9 Consensus size: 144
69979297 ACACGTTTCG
* **
69979307 CATTAGCCATTCAGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCAGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
69979372 AT-C-T-CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
66 ATCCATACATATATACAGGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATACGCAT
69979434 GTTCACATTCATCA
131 GTTCACATTCATCA
* * * *
69979448 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTTGGCCTT
1 CATTAGCCATTCAGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
69979513 ATCACGCATATATATATACAGGTTTACATTCATCACATTGGCCATTCGACCTTATCACACATA
66 AT--C-CATACATATATACAGGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATA
69979576 TATATACGGG
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
141 60 0.55
145 1 0.01
146 1 0.01
147 48 0.44
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (144 bp):
CATTAGCCATTCAGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCCATACATATATACAGGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATACGCAT
GTTCACATTCATCA
Found at i:69983607 original size:40 final size:40
Alignment explanation
Indices: 69983563--69983714 Score: 261
Period size: 40 Copynumber: 3.8 Consensus size: 40
69983553 CCAGTATGAT
* * *
69983563 TGCTCTTCGGGACCTAGCCCGGATATAACACCT-GCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCA-CTAGCACGAA
69983603 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
69983643 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
69983683 TGCTCCTCGGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
69983715 CTCAATTCTC
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
39 2 0.02
40 106 0.98
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:69985044 original size:37 final size:36
Alignment explanation
Indices: 69984985--69985089 Score: 138
Period size: 37 Copynumber: 2.9 Consensus size: 36
69984975 AGCTCAGACG
* * * *
69984985 AAATCTCCACATAAAGTTATCGGATCTTACTCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTAC-CGGACA
69985022 AAATCTCCACACATAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACC-GGACA
* *
69985059 TAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACATAGTCATCGGGTCTTACC
69985090 CGGAATATAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 1 0.02
37 60 0.98
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (36 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCGGACA
Found at i:69985311 original size:46 final size:46
Alignment explanation
Indices: 69985243--69985471 Score: 138
Period size: 47 Copynumber: 4.9 Consensus size: 46
69985233 TATATATACA
* *
69985243 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACATATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
69985289 CATCTCATACATGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACATATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
69985334 -AT-TCATGTTCACAT-TCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCA---T-ACATATC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* *
69985384 CATGT--TCACAT-TCATCACATTGGCCATTCGGCCTTATCACACATA-C
1 CATCTCAT-ACATATC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * *
69985430 GCATGT--TCACAT-TCATCACATTGGCCATTCGGCCTTATCACA
1 -CATCTCAT-ACATATC-TCACATTAGCCATTCGGCCTTACCACA
69985472 CATACGCATG
Statistics
Matches: 159, Mismatches: 13, Indels: 23
0.82 0.07 0.12
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
45 4 0.03
46 42 0.26
47 98 0.62
48 1 0.01
49 6 0.04
51 2 0.01
52 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (46 bp):
CATCTCATACATATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:69985369 original size:47 final size:47
Alignment explanation
Indices: 69985307--69985601 Score: 356
Period size: 47 Copynumber: 6.1 Consensus size: 47
69985297 ACATGTTTCG
* *
69985307 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* *
69985354 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
69985401 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * *
69985448 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
* * * *
69985495 CATTGGCCTTTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-C--ACATATATGCATGTTCACATTCATCA
* *
69985548 CATTGGCCATTCGGCCTTATCACACATATATACACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CACATATATGCA--TGTTCACATTCATCA
69985599 CAT
1 CAT
69985602 AAAATGCTAA
Statistics
Matches: 222, Mismatches: 17, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
47 149 0.67
48 1 0.00
49 11 0.05
50 2 0.01
51 22 0.10
52 1 0.00
53 36 0.16
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCA
Found at i:69985457 original size:141 final size:144
Alignment explanation
Indices: 69985307--69985575 Score: 409
Period size: 141 Copynumber: 1.9 Consensus size: 144
69985297 ACATGTTTCG
* **
69985307 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
69985372 AT-C-T-CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
66 ATCCATACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
69985434 GTTCACATTCATCA
131 GTTCACATTCATCA
* * *
69985448 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCTTTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
69985513 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
66 AT--C-CATACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
69985576 TATACACGGG
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
141 61 0.54
145 1 0.01
146 1 0.01
147 50 0.44
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (144 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCCATACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
GTTCACATTCATCA
Found at i:69991639 original size:46 final size:46
Alignment explanation
Indices: 69991582--69991846 Score: 206
Period size: 46 Copynumber: 5.7 Consensus size: 46
69991572 TGGGCATCCT
*
69991582 AACTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
** * * *
69991628 AACTCAATGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGTGTCC-
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-----GTCCG
*
69991674 AAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* * * *
69991721 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCG
* * ** *
69991768 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATATGAACGTACG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
* *
69991814 AACTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69991847 GCGGGTTACA
Statistics
Matches: 172, Mismatches: 27, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
42 6 0.03
43 8 0.05
45 4 0.02
46 84 0.49
47 52 0.30
48 5 0.03
50 7 0.04
51 6 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
Found at i:69991743 original size:93 final size:93
Alignment explanation
Indices: 69991574--69991839 Score: 399
Period size: 93 Copynumber: 2.9 Consensus size: 93
69991564 CGGATATTTG
* **
69991574 GGCATCCTAA-CTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAACGTCCGAACTCAATGA
1 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGA
69991638 GTTGAGTCCGAGTTCGTGAGATGTAACTA
65 GTTGAGTCCGAGTTCGTGAGATGTAACTA
** *
69991667 GGTGTCCAAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
69991732 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
** * ** *
69991760 GGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATATGAACGTACGAACTCGTTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
69991825 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
69991840 CTTATGGGCG
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
92 2 0.01
93 154 0.99
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:69991776 original size:47 final size:45
Alignment explanation
Indices: 69991635--69991792 Score: 151
Period size: 47 Copynumber: 3.4 Consensus size: 45
69991625 CCGAACTCAA
*
69991635 TGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGTGTCCAAGCTCGT
1 TGAGTTGAGTCCGAGTTCGTGAGATGTAACTA-G-GTCCGAGCTCGT
* * * * *
69991682 TGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC---GTCCGAACTCGT
1 TGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGTCCGAGCTCGT
*
69991728 TGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCTGAGCTCGT
1 TGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGG--TCCGAGCTCGT
*
69991775 TGAGTTGAGTCTGAGTTC
1 TGAGTTGAGTCCGAGTTC
69991793 ACTTATGGAT
Statistics
Matches: 89, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.30
47 43 0.48
48 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (45 bp):
TGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGTCCGAGCTCGT
Found at i:70006769 original size:29 final size:29
Alignment explanation
Indices: 70006737--70006821 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
70006727 AAACAATTTC
* *
70006737 ACATACCTGTATCTGGCCCATTAAGCCCA
1 ACATACCTGTATATGGCCCATTAGGCCCA
70006766 ACATA--T-TCATATGGCCCATTAGGCCCA
1 ACATACCTGT-ATATGGCCCATTAGGCCCA
70006793 A-ATCACCTGTATATGGCCCATTAGGCCCA
1 ACAT-ACCTGTATATGGCCCATTAGGCCCA
70006822 GTCACATTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
26 3 0.06
27 20 0.41
29 25 0.51
30 1 0.02
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATACCTGTATATGGCCCATTAGGCCCA
Found at i:70010610 original size:20 final size:20
Alignment explanation
Indices: 70010585--70010633 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
70010575 TAGGGCACAC
* *
70010585 GCCCGTGTGACTTGGGACAT
1 GCCCGTGTGACCTGGAACAT
*
70010605 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGACCTGGAACAT
70010625 GCCCGTGTG
1 GCCCGTGTG
70010634 CTGTAGCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.12, C:0.29, G:0.37, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGACCTGGAACAT
Found at i:70012469 original size:17 final size:17
Alignment explanation
Indices: 70012447--70012480 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
70012437 CCTAAATTTT
70012447 CCTTTTCTT-TTTCTTTC
1 CCTTTT-TTCTTTCTTTC
70012464 CCTTTTTTCTTTCTTTC
1 CCTTTTTTCTTTCTTTC
70012481 TTTCCCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
CCTTTTTTCTTTCTTTC
Done.