Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 72 of 120
Found at i:8741433 original size:12 final size:12
Alignment explanation
Indices: 8741418--8741443 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8741408 ACTTGCACAT
8741418 GTTTCAAATCTA
1 GTTTCAAATCTA
8741430 GTTTCAAATCTA
1 GTTTCAAATCTA
8741442 GT
1 GT
8741444 AAATGCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (12 bp):
GTTTCAAATCTA
Found at i:8745312 original size:2 final size:2
Alignment explanation
Indices: 8745305--8745333 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8745295 GTTTGTTAAG
8745305 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8745334 GGGTGGCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8748832 original size:18 final size:19
Alignment explanation
Indices: 8748799--8748846 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
8748789 ACGACTGATT
8748799 AATCGAATTAAATCAATTC
1 AATCGAATTAAATCAATTC
* *
8748818 AATCG-ATTAATTCAATTAA
1 AATCGAATTAAATCAATT-C
8748837 AATCGAATTA
1 AATCGAATTA
8748847 TGAACACCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.44
19 10 0.40
20 4 0.16
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (19 bp):
AATCGAATTAAATCAATTC
Found at i:8750423 original size:22 final size:24
Alignment explanation
Indices: 8750378--8750424 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
8750368 TATCACCTTA
8750378 TTTCTCTATTCCTATTCTCTTCAC
1 TTTCTCTATTCCTATTCTCTTCAC
*
8750402 TTTCTC-ATTCCTTTTC-CTTCAC
1 TTTCTCTATTCCTATTCTCTTCAC
8750424 T
1 T
8750425 ACTCCACCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.11, C:0.34, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTCTCTATTCCTATTCTCTTCAC
Found at i:8750803 original size:32 final size:32
Alignment explanation
Indices: 8750759--8750846 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
8750749 ATGGATTTTG
* * *
8750759 TGGATTTTAAGTTGTGAAATTGTTGAAATTTA
1 TGGATTTGAAGTTGTGAATTTGTTGAAAGTTA
* * *
8750791 TGGATTTGAAGTTATGAATTTGGTGGAAGTTA
1 TGGATTTGAAGTTGTGAATTTGTTGAAAGTTA
**
8750823 TTAATTTGAAAGTTGTGAATTTGT
1 TGGATTTG-AAGTTGTGAATTTGT
8750847 AATTGTTGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
32 32 0.71
33 13 0.29
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (32 bp):
TGGATTTGAAGTTGTGAATTTGTTGAAAGTTA
Found at i:8758190 original size:16 final size:16
Alignment explanation
Indices: 8758151--8758182 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8758141 AATCTTTAAA
8758151 ATCATCATAAATCATC
1 ATCATCATAAATCATC
8758167 ATCATCATAAATCATC
1 ATCATCATAAATCATC
8758183 GTTATCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:8760866 original size:21 final size:21
Alignment explanation
Indices: 8760842--8760899 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
8760832 AAATTCATAA
*
8760842 TTCATAATT-AAAAGTTAAAAG
1 TTCACAATTGAAAA-TTAAAAG
8760863 TTCACAATTGAAAATTAAACA-
1 TTCACAATTGAAAATTAAA-AG
* *
8760884 TTTACAATTTAAAATT
1 TTCACAATTGAAAATT
8760900 CAATAATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (21 bp):
TTCACAATTGAAAATTAAAAG
Found at i:8761152 original size:47 final size:46
Alignment explanation
Indices: 8761095--8761205 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 46
8761085 TAAAAATTCA
* * *
8761095 CAAAAGATTCAA-ATTTTACAACGATTCACAAAAGATT-TAAAGGTTCG
1 CAAAAAATTCAAGATTTTA-AAAG-TTCAAAAAAGATTAT-AAGGTTCG
*
8761142 CAAAAAATTCAAGATTCGTAAAAGTTCAAAAAAGATTATAAGGTTCG
1 CAAAAAATTCAAGATT-TTAAAAGTTCAAAAAAGATTATAAGGTTCG
*
8761189 CAAAATATTCAAGATTT
1 CAAAAAATTCAAGATTT
8761206 GCAAATGACT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
47 46 0.84
48 7 0.13
49 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (46 bp):
CAAAAAATTCAAGATTTTAAAAGTTCAAAAAAGATTATAAGGTTCG
Found at i:8761404 original size:44 final size:44
Alignment explanation
Indices: 8761339--8761477 Score: 161
Period size: 44 Copynumber: 3.1 Consensus size: 44
8761329 CATCCAAATT
* * *
8761339 TTCAAAAATTCACATTAAAAAAATCTTAAATATTCAAATCTAAGA
1 TTCAAAAGTTCACATT-AAAAAATCTTAAAGATTCAAATATAAGA
* * * * *
8761384 TTGAAATGTTCACGTTAAAAAATCTTAGAGATTCATATATAAGA
1 TTCAAAAGTTCACATTAAAAAATCTTAAAGATTCAAATATAAGA
** * *
8761428 TTCAAAAGTTCACATTTGAAAATCTTAAAGATTCACATATAATA
1 TTCAAAAGTTCACATTAAAAAATCTTAAAGATTCAAATATAAGA
8761472 TTCAAA
1 TTCAAA
8761478 CCTTCGCATT
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
44 66 0.85
45 12 0.15
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (44 bp):
TTCAAAAGTTCACATTAAAAAATCTTAAAGATTCAAATATAAGA
Found at i:8761488 original size:44 final size:44
Alignment explanation
Indices: 8761339--8761493 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 44
8761329 CATCCAAATT
* ** * * *
8761339 TTCAAAAATTCACATTAAAAAAATCTTAAATATTCAAATCTAAGA
1 TTCAAAACTTCACATT-TGAAAATCTTAAAGATTCACATATAAGA
* ** * ** * *
8761384 TTGAAATGTTCACGTTAAAAAATCTTAGAGATTCATATATAAGA
1 TTCAAAACTTCACATTTGAAAATCTTAAAGATTCACATATAAGA
* *
8761428 TTCAAAAGTTCACATTTGAAAATCTTAAAGATTCACATATAATA
1 TTCAAAACTTCACATTTGAAAATCTTAAAGATTCACATATAAGA
* *
8761472 TTCAAACCTTCGCATTTGAAAA
1 TTCAAAACTTCACATTTGAAAA
8761494 GTTTTATAAA
Statistics
Matches: 91, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
44 79 0.87
45 12 0.13
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.33
Consensus pattern (44 bp):
TTCAAAACTTCACATTTGAAAATCTTAAAGATTCACATATAAGA
Found at i:8761672 original size:46 final size:45
Alignment explanation
Indices: 8761561--8761878 Score: 185
Period size: 46 Copynumber: 7.1 Consensus size: 45
8761551 TTTAATTCGA
* * * *
8761561 AAAATTTTT-TAGATTCATATCCAACATTTCTAAGATT-TCATTTG
1 AAAATTTTTAAAGATTCACATCCAA-AATTCAAAGATTCTCATTTG
* * *
8761605 AAAATCTTTAGAGATCCACATCCAAAATTTCAAAGATTCTCATTTG
1 AAAATTTTTAAAGATTCACATCCAAAA-TTCAAAGATTCTCATTTG
* * * * *
8761651 AAAATTTTTAAATATTTACATCAAAAAATTCAAATATTCTCATTTA
1 AAAATTTTTAAAGATTCACATC-CAAAATTCAAAGATTCTCATTTG
* * * * ** * * ** *
8761697 AAAAATCTTAAAGGTTTACATATAAAATTCAAATACTAACATTAG
1 AAAATTTTTAAAGATTCACATCCAAAATTCAAAGATTCTCATTTG
* * ** *
8761742 AAAA-TTTTAGAGATTCACGTATAAAATTCAAAGATTCTCAATTG
1 AAAATTTTTAAAGATTCACATCCAAAATTCAAAGATTCTCATTTG
* * * * * **
8761786 AAAATTTCTTAGAGGTTCACATCTACAATTCAAATATTCAAATTT-
1 AAAATTT-TTAAAGATTCACATCCAAAATTCAAAGATTCTCATTTG
* * * * ** * *
8761831 AAAAATTTTAGAGATTTACATCTAATGTTTAAAGATTCACATTTG
1 AAAATTTTTAAAGATTCACATCCAAAATTCAAAGATTCTCATTTG
8761876 AAA
1 AAA
8761879 CTCAAATATT
Statistics
Matches: 214, Mismatches: 53, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
44 71 0.33
45 53 0.25
46 86 0.40
47 4 0.02
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (45 bp):
AAAATTTTTAAAGATTCACATCCAAAATTCAAAGATTCTCATTTG
Found at i:8761685 original size:22 final size:21
Alignment explanation
Indices: 8761660--8761731 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
8761650 GAAAATTTTT
8761660 AAATATTTACATCAAAAAATTC
1 AAATATTTACAT-AAAAAATTC
*
8761682 AAATATTCT-CATTTAAAAAATCTT
1 AAATATT-TACA--TAAAAAAT-TC
** *
8761706 AAAGGTTTACATATAAAATTC
1 AAATATTTACATAAAAAATTC
8761727 AAATA
1 AAATA
8761732 CTAACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
21 4 0.11
22 16 0.42
23 9 0.24
24 9 0.24
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (21 bp):
AAATATTTACATAAAAAATTC
Found at i:8761767 original size:44 final size:43
Alignment explanation
Indices: 8761714--8761851 Score: 127
Period size: 44 Copynumber: 3.1 Consensus size: 43
8761704 TTAAAGGTTT
8761714 ACATATAAAATTCAAATACTAACATTAGAAAATTTTAGAGATTC
1 ACATATAAAATTCAAATACTAA-ATTAGAAAATTTTAGAGATTC
* * * *
8761758 ACGTATAAAATTCAAAGATTCTCAATT-GAAAATTTCTTAGAGGTTC
1 ACATATAAAATTC-AA-ATACTAAATTAGAAAA-TT-TTAGAGATTC
* * * *
8761804 ACATCTACAATTCAAATATTCAAATTTA-AAAATTTTAGAGATTT
1 ACATATAAAATTCAAATACT-AAA-TTAGAAAATTTTAGAGATTC
8761848 ACAT
1 ACAT
8761852 CTAATGTTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
44 32 0.43
45 13 0.17
46 30 0.40
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (43 bp):
ACATATAAAATTCAAATACTAAATTAGAAAATTTTAGAGATTC
Found at i:8761816 original size:90 final size:89
Alignment explanation
Indices: 8761675--8761846 Score: 222
Period size: 90 Copynumber: 1.9 Consensus size: 89
8761665 TTTACATCAA
* * *
8761675 AAAATTCAAATATTCTCATTTAAAAAATCTTAAAGGTTTACATATAAAATTCAAATACT-AACA-
1 AAAATTCAAAGATTCTCATTGAAAAAATCTTAAAGGTTCACATATAAAATTCAAATACTCAA-AT
8761738 TTAGAAAATTTTAGAGATTCACGTAT
65 TTA-AAAATTTTAGAGATTCACGTAT
** * * * *
8761764 AAAATTCAAAGATTCTCAATTGAAAATTTCTTAGAGGTTCACATCTACAATTCAAATATTCAAAT
1 AAAATTCAAAGATTCTC-ATTGAAAAAATCTTAAAGGTTCACATATAAAATTCAAATACTCAAAT
8761829 TTAAAAATTTTAGAGATT
65 TTAAAAATTTTAGAGATT
8761847 TACATCTAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
89 16 0.23
90 50 0.70
91 5 0.07
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (89 bp):
AAAATTCAAAGATTCTCATTGAAAAAATCTTAAAGGTTCACATATAAAATTCAAATACTCAAATT
TAAAAATTTTAGAGATTCACGTAT
Found at i:8761865 original size:90 final size:90
Alignment explanation
Indices: 8761675--8761878 Score: 207
Period size: 90 Copynumber: 2.3 Consensus size: 90
8761665 TTTACATCAA
* * * ** *
8761675 AAAATTCAAATATTCTC-ATTTAAAAAATCTTAAAGGTTTACATATAAAATTCAAATACTAACAT
1 AAAATTCAAAGATTCACAATTGAAAATTTCTTAAAGGTTCACATATAAAATTCAAATACTAACAT
*
8761739 TAGAAAATTTTAGAGATTCACGTAT
66 TAGAAAATTTTAGAGATTCACATAT
* * * * *
8761764 AAAATTCAAAGATTCTCAATTGAAAATTTCTTAGAGGTTCACATCTACAATTCAAATATTCAA-A
1 AAAATTCAAAGATTCACAATTGAAAATTTCTTAAAGGTTCACATATAAAATTCAAATACT-AACA
* *
8761828 TTTA-AAAATTTTAGAGATTTACATCT
65 -TTAGAAAATTTTAGAGATTCACATAT
** * *
8761854 AATGTTTAAAGATTCACATTTGAAA
1 AAAATTCAAAGATTCACAATTGAAA
8761879 CTCAAATATT
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
89 16 0.17
90 74 0.78
91 5 0.05
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.36
Consensus pattern (90 bp):
AAAATTCAAAGATTCACAATTGAAAATTTCTTAAAGGTTCACATATAAAATTCAAATACTAACAT
TAGAAAATTTTAGAGATTCACATAT
Found at i:8761889 original size:21 final size:21
Alignment explanation
Indices: 8761865--8761944 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
8761855 ATGTTTAAAG
*
8761865 ATTCACATTTGAAACTCAAAT
1 ATTCACATTTAAAACTCAAAT
** * * *
8761886 ATTCTTATTTAAAAATTTTAAAA
1 ATTCACATTT-AAAA-CTCAAAT
* *
8761909 ATTCATATCTAAAACTCAAAT
1 ATTCACATTTAAAACTCAAAT
8761930 ATTCACATTTGAAAA
1 ATTCACATTT-AAAA
8761945 AAATTTTGAA
Statistics
Matches: 43, Mismatches: 13, Indels: 5
0.70 0.21 0.08
Matches are distributed among these distances:
21 20 0.47
22 11 0.26
23 12 0.28
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.38
Consensus pattern (21 bp):
ATTCACATTTAAAACTCAAAT
Found at i:8761906 original size:44 final size:44
Alignment explanation
Indices: 8761858--8762185 Score: 173
Period size: 46 Copynumber: 7.4 Consensus size: 44
8761848 ACATCTAATG
* *
8761858 TTTAAAGATTCACATTTGAAACTCAAATATTCTTATTTAAAAAT
1 TTTAAAGATTCACATCTGAAACTCAAATATTCTCATTTAAAAAT
* * * *
8761902 TTTAAAAATTCATATCTAAAACTCAAATATTCACATTTGAAAAAAAT
1 TTTAAAGATTCACATCTGAAACTCAAATATTCTCATTT---AAAAAT
* * * * *
8761949 TTTGAA-ATTCACATTTGAAATTCAAAGATTCTCATTTGAAAAT
1 TTTAAAGATTCACATCTGAAACTCAAATATTCTCATTTAAAAAT
** * * * *
8761992 TTTGGAGATTCTCATCT-ATA-TCTAATATTCTCATTTGAAAAT
1 TTTAAAGATTCACATCTGAAACTCAAATATTCTCATTTAAAAAT
* * * * * * *
8762034 TCTTAGAGATTCACATC-CAAGATTCAAAAATTCTTATTCAAAAAAA
1 T-TTAAAGATTCACATCTGAA-ACTCAAATATTCTCATT-TAAAAAT
** * * * * * *
8762080 AGTAGAGATTCACATATAAAATTCAAAAGATTCTCTTTTGAAAAAT
1 TTTAAAGATTCACATCTGAAACTC-AAATATTCTCATTT-AAAAAT
* * * * * *
8762126 TTTAGAGATTCCCATCTAAAATTTAAATATTCAT-ATTCTAAAAGT
1 TTTAAAGATTCACATCTGAAACTCAAATATTC-TCATT-TAAAAAT
*
8762171 CTT-AAGATTCACATC
1 TTTAAAGATTCACATC
8762186 CAAGATTTAA
Statistics
Matches: 221, Mismatches: 49, Indels: 28
0.74 0.16 0.09
Matches are distributed among these distances:
42 21 0.10
43 26 0.12
44 51 0.23
45 45 0.20
46 67 0.30
47 11 0.05
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (44 bp):
TTTAAAGATTCACATCTGAAACTCAAATATTCTCATTTAAAAAT
Found at i:8761919 original size:65 final size:65
Alignment explanation
Indices: 8761815--8761943 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 65
8761805 CATCTACAAT
* * * *** *
8761815 TCAAATATTCAAATTTAAAAATTTTAGAGATTTACATCTAATGTTTAAAGATTCACATTTGAAAC
1 TCAAATATTCAAATTTAAAAATTTTAAAAATTCACATCTAAAACTCAAAGATTCACATTTGAAAC
** * *
8761880 TCAAATATTCTTATTTAAAAATTTTAAAAATTCATATCTAAAACTCAAATATTCACATTTGAAA
1 TCAAATATTCAAATTTAAAAATTTTAAAAATTCACATCTAAAACTCAAAGATTCACATTTGAAA
8761944 AAAATTTTGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.39
Consensus pattern (65 bp):
TCAAATATTCAAATTTAAAAATTTTAAAAATTCACATCTAAAACTCAAAGATTCACATTTGAAAC
Found at i:8761974 original size:46 final size:47
Alignment explanation
Indices: 8761858--8761990 Score: 157
Period size: 44 Copynumber: 2.9 Consensus size: 47
8761848 ACATCTAATG
* *
8761858 TTTAAAGATTCACATTTGAAACTCAAATATTCTTATTT---AAAAAT
1 TTTAAAAATTCACATTTGAAACTCAAATATTCTCATTTGAAAAAAAT
* * * *
8761902 TTTAAAAATTCATATCTAAAACTCAAATATTCACATTTGAAAAAAAT
1 TTTAAAAATTCACATTTGAAACTCAAATATTCTCATTTGAAAAAAAT
* * *
8761949 TTT-GAAATTCACATTTGAAATTCAAAGATTCTCATTTGAAAA
1 TTTAAAAATTCACATTTGAAACTCAAATATTCTCATTTGAAAA
8761991 TTTTGGAGAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 32 0.44
46 32 0.44
47 9 0.12
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (47 bp):
TTTAAAAATTCACATTTGAAACTCAAATATTCTCATTTGAAAAAAAT
Found at i:8762086 original size:45 final size:45
Alignment explanation
Indices: 8762029--8762256 Score: 183
Period size: 44 Copynumber: 5.1 Consensus size: 45
8762019 TTCTCATTTG
*
8762029 AAAATTCTTAGAGATTCACATCCAAGATTCAAAAATTCTTATTCAA
1 AAAATT-TTAGAGATTCACATCCAAAATTCAAAAATTCTTATTCAA
*** ** **
8762075 AAAAAAGTAGAGATTCACATATAAAATTCAAAAGATTCTCT-TTTGA
1 AAAATTTTAGAGATTCACATCCAAAATTCAAAA-ATTCT-TATTCAA
* * * * * *
8762121 AAAATTTTAGAGATTCCCATCTAAAATTTAAATATTCATATTCTA
1 AAAATTTTAGAGATTCACATCCAAAATTCAAAAATTCTTATTCAA
* * * * **
8762166 AAAGTCTTA-AGATTCACATCCAAGATTTAAAAATTCTTATTTGA
1 AAAATTTTAGAGATTCACATCCAAAATTCAAAAATTCTTATTCAA
** * * *
8762210 AAAATTTTTTAAATTCTCATCC-AAATTCAAAAATTCATATTCAA
1 AAAATTTTAGAGATTCACATCCAAAATTCAAAAATTCTTATTCAA
8762254 AAA
1 AAA
8762257 GTTCATATCT
Statistics
Matches: 141, Mismatches: 37, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
44 55 0.39
45 47 0.33
46 38 0.27
47 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (45 bp):
AAAATTTTAGAGATTCACATCCAAAATTCAAAAATTCTTATTCAA
Found at i:8762132 original size:91 final size:88
Alignment explanation
Indices: 8762018--8762256 Score: 239
Period size: 91 Copynumber: 2.7 Consensus size: 88
8762008 TATATCTAAT
* *
8762018 ATTCTCATTTG-AAAATTCTTAGAGATTCACATCCAAGATTCAAAAATTCTTATTCAAAAAAAAG
1 ATTCTCTTTTGAAAAATT-TTAGAGATTCACATCCAA-ATTCAAAAATTCATATTCAAAAAAAAG
*
8762082 TAGAGATTCACATATAAAATTCAAAA
64 TA-AGATTCACATACAAAATTCAAAA
* * * * * ****
8762108 GATTCTCTTTTGAAAAATTTTAGAGATTCCCATCTAAAATTTAAATATTCATATTCTAAAAGTCT
1 -ATTCTCTTTTGAAAAATTTTAGAGATTCACATC-CAAATTCAAAAATTCATATTCAAAAAAAAG
* * *
8762173 TAAGATTCACATCCAAGATTTAAAA
64 TAAGATTCACATACAAAATTCAAAA
** * *
8762198 ATTCT-TATTTGAAAAATTTTTTAAATTCTCATCCAAATTCAAAAATTCATATTCAAAAA
1 ATTCTCT-TTTGAAAAATTTTAGAGATTCACATCCAAATTCAAAAATTCATATTCAAAAA
8762257 GTTCATATCT
Statistics
Matches: 122, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
88 23 0.19
89 27 0.22
90 19 0.16
91 45 0.37
92 8 0.07
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (88 bp):
ATTCTCTTTTGAAAAATTTTAGAGATTCACATCCAAATTCAAAAATTCATATTCAAAAAAAAGTA
AGATTCACATACAAAATTCAAAA
Found at i:8762198 original size:135 final size:132
Alignment explanation
Indices: 8761955--8762206 Score: 348
Period size: 135 Copynumber: 1.9 Consensus size: 132
8761945 AAATTTTGAA
* * * * *
8761955 ATTCACATTTGAAATTCAAAGATTCTCATTTGAAAATTTTGGAGATTCTCATCTATATCTAATAT
1 ATTCACATATAAAATTCAAAGATTCTCATTTGAAAATTTTAGAGATTCCCATCTAAATCTAATAT
*
8762020 TCTCATTTGAAAATTCTTAGAGATTCACATCCAAGATTCAAAAATTCTTATTCAAAAAAAAGTAG
66 TCTCATTTGAAAAGTCTTAGAGATTCACATCCAAGATTCAAAAATTCTTATTCAAAAAAAAGTAG
8762085 AG
131 AG
* *
8762087 ATTCACATATAAAATTCAAAAGATTCTCTTTTGAAAAATTTTAGAGATTCCCATCTAAAATTTAA
1 ATTCACATATAAAATTC-AAAGATTCTCATTTG-AAAATTTTAGAGATTCCCATCT-AAATCT-A
*
8762152 ATATTCAT-ATTCT-AAAAGTCTTA-AGATTCACATCCAAGATTTAAAAATTCTTATT
62 ATATTC-TCATT-TGAAAAGTCTTAGAGATTCACATCCAAGATTCAAAAATTCTTATT
8762207 TGAAAAATTT
Statistics
Matches: 105, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
132 15 0.14
133 14 0.13
134 20 0.19
135 35 0.33
136 19 0.18
137 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (132 bp):
ATTCACATATAAAATTCAAAGATTCTCATTTGAAAATTTTAGAGATTCCCATCTAAATCTAATAT
TCTCATTTGAAAAGTCTTAGAGATTCACATCCAAGATTCAAAAATTCTTATTCAAAAAAAAGTAG
AG
Found at i:8762274 original size:13 final size:14
Alignment explanation
Indices: 8762234--8762274 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
8762224 TCTCATCCAA
8762234 ATTCAAAAATTCAT
1 ATTCAAAAATTCAT
8762248 ATTCAAAAAGTTCAT
1 ATTCAAAAA-TTCAT
*
8762263 A-TCTAAAATTCA
1 ATTCAAAAATTCA
8762275 ATGTCTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 4 0.16
14 15 0.60
15 6 0.24
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (14 bp):
ATTCAAAAATTCAT
Found at i:8766708 original size:21 final size:18
Alignment explanation
Indices: 8766671--8766705 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8766661 AAAGCCCTAA
8766671 ATTGTTTCTCACATCATT
1 ATTGTTTCTCACATCATT
8766689 ATTGTTTCTCACATCAT
1 ATTGTTTCTCACATCAT
8766706 CATCCATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTGTTTCTCACATCATT
Found at i:8769405 original size:28 final size:28
Alignment explanation
Indices: 8769345--8769405 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
8769335 ATCAAGAAGT
* *
8769345 CTTAAGCTCAATTTAGCTAGTATTCAAA
1 CTTAAGCTCAATTTAGCTAGCATGCAAA
* *
8769373 TTTAAGC-CTAATTTAGCTAGCATGCAAG
1 CTTAAGCTC-AATTTAGCTAGCATGCAAA
8769401 CTTAA
1 CTTAA
8769406 ATTAGTTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (28 bp):
CTTAAGCTCAATTTAGCTAGCATGCAAA
Found at i:8769604 original size:11 final size:11
Alignment explanation
Indices: 8769588--8769612 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8769578 TTGTCTTAAG
8769588 AAAAAAACAAA
1 AAAAAAACAAA
8769599 AAAAAAACAAA
1 AAAAAAACAAA
8769610 AAA
1 AAA
8769613 TTGACCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:8769992 original size:15 final size:15
Alignment explanation
Indices: 8769972--8770015 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8769962 ATATAAATCA
8769972 AATAAAATATAAAAT
1 AATAAAATATAAAAT
*
8769987 AATAAAA-ACAATAAT
1 AATAAAATATAA-AAT
*
8770002 AAAAAAATATAAAA
1 AATAAAATATAAAA
8770016 AAGTAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (15 bp):
AATAAAATATAAAAT
Found at i:8770010 original size:11 final size:11
Alignment explanation
Indices: 8769982--8770028 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
8769972 AATAAAATAT
8769982 AAAATAATAAA
1 AAAATAATAAA
8769993 AACAATAATAAA
1 AA-AATAATAAA
8770005 AAAAT-ATAAA
1 AAAATAATAAA
*
8770015 AAAGTAATAAA
1 AAAATAATAAA
8770026 AAA
1 AAA
8770029 GAAAATTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
10 9 0.27
11 13 0.39
12 11 0.33
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:8770028 original size:21 final size:23
Alignment explanation
Indices: 8769982--8770028 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
8769972 AATAAAATAT
8769982 AAAATAATAAAAACAATAATAAA
1 AAAATAATAAAAACAATAATAAA
*
8770005 AAAAT-ATAAAAA-AGTAATAAA
1 AAAATAATAAAAACAATAATAAA
8770026 AAA
1 AAA
8770029 GAAAATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
22 7 0.30
23 5 0.22
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAATAATAAAAACAATAATAAA
Found at i:8770995 original size:15 final size:17
Alignment explanation
Indices: 8770965--8770996 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
8770955 AGAAGCAGGT
8770965 GAAAAACACAAGGAAAG
1 GAAAAACACAAGGAAAG
8770982 GAAAAAC-C-AGGAAAG
1 GAAAAACACAAGGAAAG
8770997 CACACACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.25, T:0.00
Consensus pattern (17 bp):
GAAAAACACAAGGAAAG
Found at i:8772135 original size:3 final size:3
Alignment explanation
Indices: 8772129--8772154 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8772119 AAGATTAATA
8772129 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
8772155 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:8772159 original size:3 final size:3
Alignment explanation
Indices: 8772153--8772178 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8772143 CAACAACAAC
8772153 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
8772179 AATTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8772438 original size:19 final size:19
Alignment explanation
Indices: 8772406--8772452 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
8772396 TGAAATCCGA
8772406 AAATCTTATATGAAACCTT
1 AAATCTTATATGAAACCTT
8772425 AAATCCTTAT-TGAAACCTT
1 AAAT-CTTATATGAAACCTT
8772444 AAAATCTTA
1 -AAATCTTA
8772453 ATTCTCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (19 bp):
AAATCTTATATGAAACCTT
Found at i:8773789 original size:49 final size:50
Alignment explanation
Indices: 8773704--8773811 Score: 137
Period size: 49 Copynumber: 2.2 Consensus size: 50
8773694 ACTAGGTTAT
* * * *
8773704 AAAATTCTCTAATAATTTGGTATAATTCATAAAAAAAATTAAATTAATGA
1 AAAATCCTCTAATAATTTAGTAGAATTCATAAAAAAAATTAAATCAATGA
* * * *
8773754 AAAATCCTCTAATAGTTTAGTAGAATTTAT-AAAAAACTTAAATCCATGA
1 AAAATCCTCTAATAATTTAGTAGAATTCATAAAAAAAATTAAATCAATGA
8773803 AAAATCCTC
1 AAAATCCTC
8773812 CATTTGGTAG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
49 25 0.50
50 25 0.50
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (50 bp):
AAAATCCTCTAATAATTTAGTAGAATTCATAAAAAAAATTAAATCAATGA
Found at i:8774006 original size:55 final size:57
Alignment explanation
Indices: 8773900--8774016 Score: 220
Period size: 55 Copynumber: 2.1 Consensus size: 57
8773890 TATCATGCCA
8773900 ATAATATTGTGCGATATAAATATCATGGAAATAATAATAAGTATCATGTAATTAAAT
1 ATAATATTGTGCGATATAAATATCATGGAAATAATAATAAGTATCATGTAATTAAAT
8773957 ATAATATTGTGCGATAT-AATATCATGGAAAT-ATAATAAGTATCATGTAATTAAAT
1 ATAATATTGTGCGATATAAATATCATGGAAATAATAATAAGTATCATGTAATTAAAT
8774012 ATAAT
1 ATAAT
8774017 CATGCAATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 29 0.48
56 14 0.23
57 17 0.28
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (57 bp):
ATAATATTGTGCGATATAAATATCATGGAAATAATAATAAGTATCATGTAATTAAAT
Found at i:8774593 original size:21 final size:22
Alignment explanation
Indices: 8774569--8774623 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
8774559 TCAACTTAAA
*
8774569 CTAAGAAAAACCTAG-AAATTC
1 CTAAAAAAAACCTAGAAAATTC
*
8774590 CTAAAAAAAAAACTAGAAAATTC
1 CT-AAAAAAAACCTAGAAAATTC
*
8774613 ATAAAAAAAAC
1 CTAAAAAAAAC
8774624 AGTAAATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.07
22 19 0.68
23 7 0.25
ACGTcount: A:0.64, C:0.15, G:0.05, T:0.16
Consensus pattern (22 bp):
CTAAAAAAAACCTAGAAAATTC
Found at i:8774599 original size:22 final size:23
Alignment explanation
Indices: 8774574--8774622 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
8774564 TTAAACTAAG
* *
8774574 AAAAACCTAG-AAATTCCTAAAA
1 AAAAAACTAGAAAATTCATAAAA
8774596 AAAAAACTAGAAAATTCATAAAA
1 AAAAAACTAGAAAATTCATAAAA
8774619 AAAA
1 AAAA
8774623 CAGTAAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAAAACTAGAAAATTCATAAAA
Found at i:8774630 original size:20 final size:21
Alignment explanation
Indices: 8774594--8774633 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8774584 AAATTCCTAA
8774594 AAAAAAAACTAGAAAATTCAT
1 AAAAAAAACTAGAAAATTCAT
*
8774615 AAAAAAAAC-AGTAAATTCA
1 AAAAAAAACTAGAAAATTCA
8774634 ACCTTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAAAAACTAGAAAATTCAT
Found at i:8775276 original size:6 final size:6
Alignment explanation
Indices: 8775260--8775317 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
8775250 TGACCTATAC
* * * **
8775260 TAAAAA TAAAAT CAAAAT TAAAAT TAAAAT TAAAAT CAATTT TAAAATT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA-T
8775309 TAAAAT TAA
1 TAAAAT TAA
8775318 CTAAGATCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:8775293 original size:24 final size:25
Alignment explanation
Indices: 8775260--8775317 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
8775250 TGACCTATAC
*
8775260 TAAAAATAAAATCAAAATTAAAA-T
1 TAAAATTAAAATCAAAATTAAAATT
**
8775284 TAAAATTAAAATCAATTTTAAAATT
1 TAAAATTAAAATCAAAATTAAAATT
8775309 TAAAATTAA
1 TAAAATTAA
8775318 CTAAGATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAATTAAAATCAAAATTAAAATT
Found at i:8775719 original size:34 final size:34
Alignment explanation
Indices: 8775670--8775747 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
8775660 AGACACAAAA
* *
8775670 ATTTGCAAAACTTTCAAA-CTTGCAAAAATGGAAT
1 ATTTGCAAGACTTTCAAATC-CGCAAAAATGGAAT
* *
8775704 ATTTGCAAGATTTTCAAATCCGCAAGAATGGAAT
1 ATTTGCAAGACTTTCAAATCCGCAAAAATGGAAT
8775738 ATTTGCAAGA
1 ATTTGCAAGA
8775748 ACTCAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (34 bp):
ATTTGCAAGACTTTCAAATCCGCAAAAATGGAAT
Found at i:8775745 original size:17 final size:17
Alignment explanation
Indices: 8775689--8775748 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
8775679 ACTTTCAAAC
*
8775689 TTGCAAAAATGGAATAT
1 TTGCAAGAATGGAATAT
* **
8775706 TTGCAAGATTTTCAA-AT
1 TTGCAAGA-ATGGAATAT
**
8775723 CCGCAAGAATGGAATAT
1 TTGCAAGAATGGAATAT
8775740 TTGCAAGAA
1 TTGCAAGAA
8775749 CTCAAATTTG
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
16 3 0.10
17 24 0.80
18 3 0.10
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (17 bp):
TTGCAAGAATGGAATAT
Found at i:8775863 original size:16 final size:16
Alignment explanation
Indices: 8775844--8775900 Score: 78
Period size: 16 Copynumber: 3.4 Consensus size: 16
8775834 TCAAATTCTC
8775844 AAGAATTGAGATTCGT
1 AAGAATTGAGATTCGT
* *
8775860 AAGAATTTTTAGATTCGC
1 AAGAA--TTGAGATTCGT
8775878 AAGAATTGAGATTCGT
1 AAGAATTGAGATTCGT
8775894 AAGAATT
1 AAGAATT
8775901 TTTAGATTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
16 21 0.60
18 14 0.40
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (16 bp):
AAGAATTGAGATTCGT
Found at i:8775875 original size:18 final size:18
Alignment explanation
Indices: 8775852--8775919 Score: 95
Period size: 18 Copynumber: 3.9 Consensus size: 18
8775842 TCAAGAATTG
*
8775852 AGATTCGTAAGAATTTTT
1 AGATTCGCAAGAATTTTT
*
8775870 AGATTCGCAAGAA--TTG
1 AGATTCGCAAGAATTTTT
*
8775886 AGATTCGTAAGAATTTTT
1 AGATTCGCAAGAATTTTT
8775904 AGATTCGCAAGAATTT
1 AGATTCGCAAGAATTT
8775920 CAAGTTCGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
16 14 0.33
18 29 0.67
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (18 bp):
AGATTCGCAAGAATTTTT
Found at i:8775886 original size:34 final size:34
Alignment explanation
Indices: 8775819--8775918 Score: 157
Period size: 34 Copynumber: 3.0 Consensus size: 34
8775809 AAAAATTTAA
* * * *
8775819 AGATTCATAAGAA-TTTCAAATTCTCAAGAATTG
1 AGATTCGTAAGAATTTTTAGATTCGCAAGAATTG
8775852 AGATTCGTAAGAATTTTTAGATTCGCAAGAATTG
1 AGATTCGTAAGAATTTTTAGATTCGCAAGAATTG
8775886 AGATTCGTAAGAATTTTTAGATTCGCAAGAATT
1 AGATTCGTAAGAATTTTTAGATTCGCAAGAATT
8775919 TCAAGTTCGT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
33 12 0.19
34 50 0.81
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (34 bp):
AGATTCGTAAGAATTTTTAGATTCGCAAGAATTG
Found at i:8776251 original size:46 final size:45
Alignment explanation
Indices: 8776187--8776362 Score: 153
Period size: 46 Copynumber: 3.9 Consensus size: 45
8776177 CTTAATGATT
* *
8776187 ACATCC-AAATTTTCAAAGATTCACATTAAAAAAACTTTAGCGCTTC
1 ACATCCAAAATTTT-AAAGATTCTCATTAAAAAAACTTTAG-GTTTC
* * *
8776233 ACATCCAAAATTTTAAAGATT-T--TAAAAAATAACGTTATGATTTC
1 ACATCCAAAATTTTAAAGATTCTCATTAAAAA-AACTTTA-GGTTTC
* * * * *
8776277 ACATCCAAAATTTCAAATATTCTCATTCAAAAAATTTTAAAGTTTC
1 ACATCCAAAATTTTAAAGATTCTCATTAAAAAAACTTT-AGGTTTC
** * *
8776323 GTATTCAAAATTTTAAAGATTCTCATTGAAAAAACTTTAG
1 ACATCCAAAATTTTAAAGATTCTCATTAAAAAAACTTTAG
8776363 TCATTATGCC
Statistics
Matches: 102, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
43 6 0.06
44 28 0.27
45 3 0.03
46 52 0.51
47 13 0.13
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (45 bp):
ACATCCAAAATTTTAAAGATTCTCATTAAAAAAACTTTAGGTTTC
Found at i:8776308 original size:22 final size:22
Alignment explanation
Indices: 8776282--8776354 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
8776272 ATTTCACATC
*
8776282 CAAAATTTCAAATATTCTCATT
1 CAAAATTTTAAATATTCTCATT
8776304 CAAAAAATTTTAAAGT-TTCGT-ATT
1 C--AAAATTTTAAA-TATTC-TCATT
*
8776328 CAAAATTTTAAAGATTCTCATT
1 CAAAATTTTAAATATTCTCATT
*
8776350 GAAAA
1 CAAAA
8776355 AACTTTAGTC
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
21 1 0.02
22 22 0.52
24 17 0.40
25 2 0.05
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.38
Consensus pattern (22 bp):
CAAAATTTTAAATATTCTCATT
Found at i:8776311 original size:24 final size:24
Alignment explanation
Indices: 8776283--8776361 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
8776273 TTTCACATCC
*
8776283 AAAATTTCAAATATTCTCATTCAA
1 AAAATTTTAAATATTCTCATTCAA
8776307 AAAATTTTAAAGT-TTCGT-ATTC--
1 AAAATTTTAAA-TATTC-TCATTCAA
* *
8776329 AAAATTTTAAAGATTCTCATTGAA
1 AAAATTTTAAATATTCTCATTCAA
*
8776353 AAAACTTTA
1 AAAATTTTA
8776362 GTCATTATGC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
21 1 0.02
22 17 0.38
24 25 0.56
25 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.39
Consensus pattern (24 bp):
AAAATTTTAAATATTCTCATTCAA
Found at i:8776452 original size:22 final size:22
Alignment explanation
Indices: 8776425--8776469 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
8776415 TTAAACAAAA
8776425 GCTCTATAACTTTAAAAGTTTG
1 GCTCTATAACTTTAAAAGTTTG
8776447 GCTCTATAACTTTAAAAGTTTG
1 GCTCTATAACTTTAAAAGTTTG
8776469 G
1 G
8776470 AATGTCTTTT
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:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (22 bp):
GCTCTATAACTTTAAAAGTTTG
Found at i:8777482 original size:13 final size:13
Alignment explanation
Indices: 8777466--8777503 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
8777456 AGATTTTAAG
8777466 TTTTTTTTTT-CT
1 TTTTTTTTTTGCT
8777478 TTTTTTTTTTGC-
1 TTTTTTTTTTGCT
*
8777490 TTTATTTTTTGCT
1 TTTTTTTTTTGCT
8777503 T
1 T
8777504 GCACATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 21 0.91
13 2 0.09
ACGTcount: A:0.03, C:0.08, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTGCT
Found at i:8777808 original size:6 final size:6
Alignment explanation
Indices: 8777797--8777869 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
8777787 GCCTTATCCA
* *
8777797 TTTCTT TTTCTT TTTCCT TTT-TT TTCCTT TTTCTTT TTTCATT TTT-TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTC-TT TTTCTT
* *
8777845 TGT-TT TTTGTT TTT-TT TTTGCTT TT
1 TTTCTT TTTCTT TTTCTT TTT-CTT TT
8777870 GCACTTTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
5 16 0.29
6 24 0.44
7 15 0.27
ACGTcount: A:0.01, C:0.12, G:0.04, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:8777822 original size:16 final size:16
Alignment explanation
Indices: 8777801--8777835 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8777791 TATCCATTTC
8777801 TTTTT-CTTTTTCCTTT
1 TTTTTCCTTTTT-CTTT
8777817 TTTTTCCTTTTTCTTT
1 TTTTTCCTTTTTCTTT
8777833 TTT
1 TTT
8777836 CATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCCTTTTTCTTT
Found at i:8777852 original size:24 final size:24
Alignment explanation
Indices: 8777800--8777859 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
8777790 TTATCCATTT
*
8777800 CTTTTTC-TTTTTCCTTTTTTTTC
1 CTTTTTCTTTTTTCATTTTTTTTC
*
8777823 CTTTTTCTTTTTTCATTTTTTTTG
1 CTTTTTCTTTTTTCATTTTTTTTC
* *
8777847 TTTTTTGTTTTTT
1 CTTTTTCTTTTTT
8777860 TTTTGCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.02, C:0.13, G:0.03, T:0.82
Consensus pattern (24 bp):
CTTTTTCTTTTTTCATTTTTTTTC
Found at i:8777862 original size:17 final size:17
Alignment explanation
Indices: 8777824--8777861 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8777814 TTTTTTTTCC
8777824 TTTTTCTTTTTTCATTT
1 TTTTTCTTTTTTCATTT
* *
8777841 TTTTTGTTTTTT-GTTT
1 TTTTTCTTTTTTCATTT
8777857 TTTTT
1 TTTTT
8777862 TTGCTTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.87
Consensus pattern (17 bp):
TTTTTCTTTTTTCATTT
Found at i:8780058 original size:41 final size:43
Alignment explanation
Indices: 8779994--8780076 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 43
8779984 ATCTTAGTCA
*
8779994 AGTGCTTGAACCTATTTAGGATGACTGTG-TTGAACC-ATTTG
1 AGTGCTTGAACCTATTTAAGATGACTGTGCTTGAACCTATTTG
* *
8780035 AGTGTTTGAACCTATTTAAGATGATTGTGCTTGAACCTATTT
1 AGTGCTTGAACCTATTTAAGATGACTGTGCTTGAACCTATTT
8780077 AGGATGATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 26 0.70
42 7 0.19
43 4 0.11
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (43 bp):
AGTGCTTGAACCTATTTAAGATGACTGTGCTTGAACCTATTTG
Found at i:8780074 original size:25 final size:24
Alignment explanation
Indices: 8780040--8780099 Score: 102
Period size: 25 Copynumber: 2.5 Consensus size: 24
8780030 ATTTGAGTGT
8780040 TTGAACCTATTTAAGATGATTGTG
1 TTGAACCTATTTAAGATGATTGTG
*
8780064 CTTGAACCTATTTAGGATGATTGTG
1 -TTGAACCTATTTAAGATGATTGTG
8780089 TTGAACCTATT
1 TTGAACCTATT
8780100 CGAGTGCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 11 0.32
25 23 0.68
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (24 bp):
TTGAACCTATTTAAGATGATTGTG
Found at i:8780439 original size:21 final size:21
Alignment explanation
Indices: 8780413--8780453 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8780403 TACACTTAAA
8780413 ATATACAAAGAACAACATAAT
1 ATATACAAAGAACAACATAAT
*
8780434 ATATACAAAGAACAATATAA
1 ATATACAAAGAACAACATAA
8780454 AGGGCTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.20
Consensus pattern (21 bp):
ATATACAAAGAACAACATAAT
Found at i:8782147 original size:19 final size:19
Alignment explanation
Indices: 8782123--8782160 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8782113 TTCAAAATTT
8782123 TCAAAAATCAAAA-CCCAAA
1 TCAAAAAT-AAAATCCCAAA
8782142 TCAAAAATAAAATCCCAAA
1 TCAAAAATAAAATCCCAAA
8782161 ACCAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.63, C:0.24, G:0.00, T:0.13
Consensus pattern (19 bp):
TCAAAAATAAAATCCCAAA
Found at i:8782167 original size:19 final size:19
Alignment explanation
Indices: 8782124--8782169 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
8782114 TCAAAATTTT
*
8782124 CAAAAATCAAAACCCAAAT
1 CAAAAATCAAAACCCAAAA
8782143 CAAAAAT-AAAATCCCAAAA
1 CAAAAATCAAAA-CCCAAAA
8782162 CCAAAAAT
1 -CAAAAAT
8782170 TTTAACCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.65, C:0.24, G:0.00, T:0.11
Consensus pattern (19 bp):
CAAAAATCAAAACCCAAAA
Found at i:8782586 original size:6 final size:6
Alignment explanation
Indices: 8782571--8782618 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
8782561 GACCTATAAA
* * *
8782571 AAAAAT AAAATC AAAATT AAAATT AAAATT AAAACTA AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAATT AAAAT
8782619 CAAGGTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (6 bp):
AAAATT
Found at i:8782597 original size:18 final size:19
Alignment explanation
Indices: 8782570--8782621 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
8782560 TGACCTATAA
*
8782570 AAAAAATAAAATCAAAA-T
1 AAAAATTAAAATCAAAACT
* *
8782588 TAAAATTAAAATTAAAACT
1 AAAAATTAAAATCAAAACT
8782607 AAAAATTAAAATCAA
1 AAAAATTAAAATCAA
8782622 GGTTAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAATCAAAACT
Found at i:8782627 original size:25 final size:24
Alignment explanation
Indices: 8782571--8782633 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
8782561 GACCTATAAA
* * *
8782571 AAAAATAAAATCAAAATTAAAATT
1 AAAATTAAAATAAAAATTAAAATC
8782595 AAAATTAAAACTAAAAATTAAAATC
1 AAAATTAAAA-TAAAAATTAAAATC
**
8782620 AAGGTTAAAATAAA
1 AAAATTAAAATAAA
8782634 CTAATATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (24 bp):
AAAATTAAAATAAAAATTAAAATC
Found at i:8795306 original size:63 final size:63
Alignment explanation
Indices: 8795103--8795295 Score: 289
Period size: 63 Copynumber: 3.0 Consensus size: 63
8795093 AACATTATTT
* * * *
8795103 TTGTTAAACAAATTATTTTTATGATTTGTCAAACATTGCATTTATTATGGCCAAAACATCATAC
1 TTGTTAAATAAAAT-TTTTTATGATTTGTCAAACATTGCATTTATAATGGCCAAAACATCATGC
* *
8795167 TTGTTAAATAAAATTTTTTATGATTTGTCAAACATTGCATTTATAATGGCCAAAACGTCGTGC
1 TTGTTAAATAAAATTTTTTATGATTTGTCAAACATTGCATTTATAATGGCCAAAACATCATGC
*
8795230 TTGTTAAATAAAATTTTTCTATGATTGGTCAAACATTGCATTTATAAT-GCTCAAAACATCATGC
1 TTGTTAAATAAAATTTTT-TATGATTTGTCAAACATTGCATTTATAATGGC-CAAAACATCATGC
8795294 TT
1 TT
8795296 ATTTATAAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
63 65 0.55
64 53 0.45
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (63 bp):
TTGTTAAATAAAATTTTTTATGATTTGTCAAACATTGCATTTATAATGGCCAAAACATCATGC
Found at i:8796365 original size:15 final size:16
Alignment explanation
Indices: 8796345--8796374 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8796335 TATTTAGAAA
8796345 TCTTTTTTT-ATTTCT
1 TCTTTTTTTAATTTCT
8796360 TCTTTTTTTAATTTC
1 TCTTTTTTTAATTTC
8796375 CAAATTTTTC
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:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTTTTTTAATTTCT
Found at i:8796389 original size:62 final size:63
Alignment explanation
Indices: 8796296--8796415 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 63
8796286 TAGAAATATT
* *
8796296 TTCTTATTTTAAATTTCTAAATTCTCTACCATTTGGGCCT-ATTTAGAAATCTTTTTTTATTTC
1 TTCTTATTTTAAATTTCCAAATTCTCTACCATTTGGG-ATAATTTAGAAATCTTTTTTTATTTC
* * *
8796359 TTCTT-TTTTTAATTTCCAAATT-TTTCACCATTTGGGATAATTTAGAAATTTTTTTTT
1 TTCTTATTTTAAATTTCCAAATTCTCT-ACCATTTGGGATAATTTAGAAATCTTTTTTT
8796416 CATAATTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
61 3 0.06
62 42 0.84
63 5 0.10
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (63 bp):
TTCTTATTTTAAATTTCCAAATTCTCTACCATTTGGGATAATTTAGAAATCTTTTTTTATTTC
Found at i:8796841 original size:19 final size:19
Alignment explanation
Indices: 8796803--8796841 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8796793 AATTCTAAAA
*
8796803 TTTTTATATTTTTTTATGT
1 TTTTTATATTATTTTATGT
8796822 TTTTTATTATTATTTT-TGT
1 TTTTTA-TATTATTTTATGT
8796841 T
1 T
8796842 CGAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTTATATTATTTTATGT
Found at i:8799280 original size:168 final size:170
Alignment explanation
Indices: 8798968--8799366 Score: 495
Period size: 168 Copynumber: 2.4 Consensus size: 170
8798958 AGGCTGAACG
* * *
8798968 ACTTTGAAAAATAAAATGCTCCTTTCAACAGAGG-TACCACAACTTTTTGAAAAAATAAATTGCT
1 ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCAACCACAAC-TTTTG-AAAAATAAATTGCT
* * * *
8799032 CCTCCAAATAGAGGCACCATAACTTTTGAAAAATTAAATTGTTCCTCCAAACAAAGGCACCACAA
64 CATCCAAACAGAGGCACCACAACTTTTGAAAAATTAAATTGCTCCTCCAAACAAAGGCACCACAA
* * * *
8799097 CTTTTGGAAAAATAAATTGCTCTTCTAAATAGCGGCACCACA
129 CTTTTGAAAAAATAAAATGCTCTTCTAAACAGAGGCACCACA
* * *
8799139 ACTTTGAAAAATAAAATGATCCTCTAAATAGAGGCAACCACAAC-TTTGAAAAATAAATTGCTTA
1 ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCAACCACAACTTTTGAAAAATAAATTGCTCA
* **
8799203 TCTAAACA-AGGCACCACAACTTTTGGAAAAA-TAAATTGCTCCTTTTAAACAAAGGCAACCACA
66 TCCAAACAGAGGCACCACAACTTTT-GAAAAATTAAATTGCTCC-TCCAAACAAAGGC-ACCACA
*
8799266 AC-TTT-AAAAAATAAAATGCTCTTCTAAACAGAGGCACCATA
128 ACTTTTGAAAAAATAAAATGCTCTTCTAAACAGAGGCACCACA
* * ** * *
8799307 ACTTTGAAAAATATATTGCTTATCTAAACAGAGGCAACCATAACTTTTAAAAAATAAATT
1 ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCAACCACAACTTTTGAAAAATAAATT
8799367 ACTCCTCTAA
Statistics
Matches: 197, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
168 93 0.47
169 54 0.27
170 12 0.06
171 30 0.15
172 8 0.04
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (170 bp):
ACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCAACCACAACTTTTGAAAAATAAATTGCTCA
TCCAAACAGAGGCACCACAACTTTTGAAAAATTAAATTGCTCCTCCAAACAAAGGCACCACAACT
TTTGAAAAAATAAAATGCTCTTCTAAACAGAGGCACCACA
Found at i:8799389 original size:43 final size:42
Alignment explanation
Indices: 8798970--8799382 Score: 431
Period size: 43 Copynumber: 9.7 Consensus size: 42
8798960 GCTGAACGAC
* * * *
8798970 TTTGAAAAATAAAATGCTCCTTTCAACAGAGGTACCACAACTT
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC-T
* * *
8799013 TTTGAAAAAATAAATTGCTCCTCCAAATAGAGGCACCATAACT
1 TTTG-AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACT
* * *
8799056 TTTGAAAAATTAAATTGTTCCTCCAAACAAAGGCACCACAACT
1 TTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACAACT
* * *
8799099 TTTGGAAAAATAAATTGCTCTTCTAAATAGCGGCACCACAAC-
1 TTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACT
* * *
8799141 TTTGAAAAATAAAATGATCCTCTAAATAGAGGCAACCACAAC-
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGC-ACCACAACT
**
8799183 TTTGAAAAATAAATTGCTTATCTAAACA-AGGCACCACAACT
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACT
* *
8799224 TTTGGAAAAATAAATTGCTCCTTTTAAACAAAGGCAACCACAAC-
1 TTT-GAAAAATAAATTGCTCC-TCTAAACAGAGGC-ACCACAACT
* * * *
8799268 TTTAAAAAATAAAATGCTCTTCTAAACAGAGGCACCATAAC-
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACT
* ** *
8799309 TTTGAAAAATATATTGCTTATCTAAACAGAGGCAACCATAACT
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAGGC-ACCACAACT
* * *
8799352 TTTAAAAAATAAATTACTCCTCTAAATAGAG
1 TTTGAAAAATAAATTGCTCCTCTAAACAGAG
8799383 ATAACCACAT
Statistics
Matches: 313, Mismatches: 46, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
40 8 0.03
41 68 0.22
42 73 0.23
43 113 0.36
44 43 0.14
45 8 0.03
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (42 bp):
TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACT
Found at i:8799414 original size:126 final size:124
Alignment explanation
Indices: 8798973--8799412 Score: 481
Period size: 127 Copynumber: 3.5 Consensus size: 124
8798963 GAACGACTTT
* * * * ** * *
8798973 GAAAAATAAAATGCTCCTTTCAACAGAGGTACCACAACTTTTTGAAAAAATAAATTGCTCCTCCA
1 GAAAAATAAATTGCTCCTCTAAATAGAGCAACCACAAC--TTTG-AAAAATAAAATGCTCCTCTA
* *
8799038 AATAGAGGCACCATAACTTTTGAAAAATTAAATTG-TTCCTCCAAACAAAGGCACCACAACTTTT
63 AATAGAGGCACCATAAC-TTTGAAAAA-TAAATTGCTT-ATCTAAAC-AAGGCACCACAACTTTT
8799102 G
124 G
* * *
8799103 GAAAAATAAATTGCTCTTCTAAATAGCGGC-ACCACAACTTTGAAAAATAAAATGATCCTCTAAA
1 GAAAAATAAATTGCTCCTCTAAATAG-AGCAACCACAACTTTGAAAAATAAAATGCTCCTCTAAA
*
8799167 TAGAGGCAACCACAACTTTGAAAAATAAATTGCTTATCTAAACAAGGCACCACAACTTTTG
65 TAGAGGC-ACCATAACTTTGAAAAATAAATTGCTTATCTAAACAAGGCACCACAACTTTTG
* * * * *
8799228 GAAAAATAAATTGCTCCTTTTAAACAAAGGCAACCACAACTTTAAAAAATAAAATGCTCTTCTAA
1 GAAAAATAAATTGCTCC-TCTAAATAGA-GCAACCACAACTTTGAAAAATAAAATGCTCCTCTAA
* * *
8799293 ACAGAGGCACCATAACTTTGAAAAATATATTGCTTATCTAAACAGAGGCAACCATAACTTTT-
64 ATAGAGGCACCATAACTTTGAAAAATAAATTGCTTATCTAAACA-AGGC-ACCACAACTTTTG
* * * * * *
8799355 AAAAAATAAATTACTCCTCTAAATAGAGATAACCACATCTTGGGAAAATAAAATGCTC
1 GAAAAATAAATTGCTCCTCTAAATAGAG-CAACCACAACTTTGAAAAATAAAATGCTC
8799413 TTTGACAATC
Statistics
Matches: 266, Mismatches: 35, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
125 35 0.13
126 86 0.32
127 93 0.35
128 22 0.08
130 29 0.11
131 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (124 bp):
GAAAAATAAATTGCTCCTCTAAATAGAGCAACCACAACTTTGAAAAATAAAATGCTCCTCTAAAT
AGAGGCACCATAACTTTGAAAAATAAATTGCTTATCTAAACAAGGCACCACAACTTTTG
Found at i:8799868 original size:20 final size:21
Alignment explanation
Indices: 8799823--8799878 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
8799813 GTTTCACACC
* *
8799823 TCAAAGATTTTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
8799844 TCAAAGATTCTCATTTG-AGT
1 TCAAAGATTCTCATTTGAAAT
* *
8799864 TCAAAAATTCACATT
1 TCAAAGATTCTCATT
8799879 CGATAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:8799927 original size:21 final size:21
Alignment explanation
Indices: 8799902--8800065 Score: 186
Period size: 21 Copynumber: 7.9 Consensus size: 21
8799892 GTTTCACACC
* *
8799902 TCAAAGATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTGAAAT
* * *
8799923 TCAAATATTCTTATTTG-AGT
1 TCAAAGATTCTCATTTGAAAT
* * **
8799943 TCGAAGATTCACATTCAAAAT
1 TCAAAGATTCTCATTTGAAAT
*
8799964 TCAAAGATTTTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
8799985 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
8800006 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* * *
8800027 TTAAATATTATCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
8800048 TCAAAGATTTTTATTTGA
1 TCAAAGATTCTCATTTGA
8800066 GAACTCTAAA
Statistics
Matches: 117, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
20 12 0.10
21 105 0.90
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:8799927 original size:79 final size:79
Alignment explanation
Indices: 8799813--8799958 Score: 220
Period size: 79 Copynumber: 1.8 Consensus size: 79
8799803 GGACTCTAGA
* * * *
8799813 GTTTCACACCTCAAAGATTTTTATTTGAAATTCAAAGATTCTCATTTGAGTTCAAAAATTCACAT
1 GTTTCACACCTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAGTTCAAAAATTCACAT
8799878 TCGATAAATTTTGG
66 TCGATAAATTTTGG
* * * *
8799892 GTTTCACACCTCAAAGATTCTCATTTAAAACTCAAATATTCTTATTTGAGTTCGAAGATTCACAT
1 GTTTCACACCTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAGTTCAAAAATTCACAT
8799957 TC
66 TC
8799959 AAAATTCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 59 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (79 bp):
GTTTCACACCTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAGTTCAAAAATTCACAT
TCGATAAATTTTGG
Found at i:8799976 original size:79 final size:79
Alignment explanation
Indices: 8799810--8800023 Score: 207
Period size: 79 Copynumber: 2.7 Consensus size: 79
8799800 GACGGACTCT
* * * *
8799810 AGAGTTTCACACCTCAAAGATTTTTATTTGAAATTCAAAGATTCTCATTTGAGTTCAAAAATTCA
1 AGAGTTTCACACCTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAGTTCAAAAATTCA
*
8799875 CATTCGATAAATTT
66 CATTCGATAAATTA
* * * * * *
8799889 TGGGTTTCACACCTCAAAGATTCTCATTTAAAACTCAAATATTCTTATTTGAGTTCGAAGATTCA
1 AGAGTTTCACACCTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAGTTCAAAAATTCA
8799954 CATTC-A-AAATTCAA
66 CATTCGATAAATT--A
* * ** * *
8799968 AGATTTTCATTTGAAATTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGA
1 AGAGTTTCA----CACCTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGA
8800024 AATTTAAATA
Statistics
Matches: 108, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
77 5 0.05
78 1 0.01
79 66 0.61
83 36 0.33
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (79 bp):
AGAGTTTCACACCTCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTGAGTTCAAAAATTCA
CATTCGATAAATTA
Found at i:8800443 original size:23 final size:23
Alignment explanation
Indices: 8800400--8800443 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
8800390 TTGGAACAAG
* *
8800400 TTTCATCAACTGATTATCATTAT
1 TTTCATCAACTGATCACCATTAT
8800423 TTTCATC-ACTTGATCACCATT
1 TTTCATCAAC-TGATCACCATT
8800444 CGGAGGCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (23 bp):
TTTCATCAACTGATCACCATTAT
Found at i:8801268 original size:8 final size:8
Alignment explanation
Indices: 8801250--8801327 Score: 58
Period size: 8 Copynumber: 9.9 Consensus size: 8
8801240 TTTTTCTCTC
8801250 TTTTTCA-
1 TTTTTCAT
8801257 TTTTTCAT
1 TTTTTCAT
*
8801265 TTTTTTAT
1 TTTTTCAT
8801273 TTTTTCATT
1 TTTTTCA-T
*
8801282 CTTTTTCCT
1 -TTTTTCAT
8801291 TGTTTTC--
1 T-TTTTCAT
8801298 TTTTTC-T
1 TTTTTCAT
*
8801305 TTTTT-TT
1 TTTTTCAT
8801312 TTCTTTCAT
1 TT-TTTCAT
8801321 TTTTTCA
1 TTTTTCA
8801328 CCCATTATTG
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
6 5 0.08
7 16 0.27
8 22 0.37
9 10 0.17
10 6 0.10
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:8801269 original size:16 final size:18
Alignment explanation
Indices: 8801239--8801327 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 18
8801229 TTTAAGTCTT
8801239 TTTTTTC-TCTCTTTTTCA
1 TTTTTTCAT-TCTTTTTCA
8801257 -TTTTTCATT-TTTTT-A
1 TTTTTTCATTCTTTTTCA
8801272 TTTTTTCATTCTTTTTC-
1 TTTTTTCATTCTTTTTCA
* *
8801289 CTTGTT--TTCTTTTTC-
1 TTTTTTCATTCTTTTTCA
8801304 TTTTTT--TT-TTCTTTCA
1 TTTTTTCATTCTT-TTTCA
8801320 TTTTTTCA
1 TTTTTTCA
8801328 CCCATTATTG
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
14 2 0.03
15 20 0.34
16 20 0.34
17 16 0.27
18 1 0.02
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.76
Consensus pattern (18 bp):
TTTTTTCATTCTTTTTCA
Found at i:8805452 original size:52 final size:51
Alignment explanation
Indices: 8805282--8805484 Score: 235
Period size: 53 Copynumber: 3.8 Consensus size: 51
8805272 AAATATATCT
* * *
8805282 AATTATTCCATCATTTGGGCCAAATTAAAAATATTTTCTTGTTTTGAATTTCTA
1 AATT-TTCCACCATTTGGGCCAATTTAGAAATATTTT-TT-TTTTGAATTTCTA
* * * **
8805336 AATTCTCCACCATTTGGGCCTATTTAGAAATCCTTTTTATTTTTTTATTTCTA
1 AATTTTCCACCATTTGGGCCAATTTAGAAAT-ATTTTT-TTTTTGAATTTCTA
*
8805389 AATTTTCCACCATTTGGGACAATTTAGAAATATTTTTTTTTTGAAATTTCTA
1 AATTTTCCACCATTTGGGCCAATTTAGAAATATTTTTTTTTTG-AATTTCTA
* * *
8805441 AATTTTTCACCATTTGGGCCTATTTAGAAATTCTTTTTTTTTTG
1 AATTTTCCACCATTTGGGCCAATTTAGAAA-TATTTTTTTTTTG
8805485 GAAAGAAAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
51 5 0.04
52 39 0.31
53 74 0.58
54 9 0.07
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (51 bp):
AATTTTCCACCATTTGGGCCAATTTAGAAATATTTTTTTTTTGAATTTCTA
Found at i:8805462 original size:105 final size:106
Alignment explanation
Indices: 8805282--8805483 Score: 302
Period size: 105 Copynumber: 1.9 Consensus size: 106
8805272 AAATATATCT
* *
8805282 AATTATTCCATCATTTGGGCCAAATTAAAAATATTTTCTTGTTTTGAATTTCTAAATTCTCCACC
1 AATTATTCCACCATTTGGGACAAATTAAAAATATTTTCTTGTTTTGAATTTCTAAATTCTCCACC
8805347 ATTTGGGCCTATTTAGAAATCCTTTTTATTTTTTTATTTCTA
66 ATTTGGGCCTATTTAGAAATCCTTTTT-TTTTTTTATTTCTA
* * * *
8805389 AATT-TTCCACCATTTGGGACAATTTAGAAATATTTT-TT-TTTTGAAATTTCTAAATTTTTCAC
1 AATTATTCCACCATTTGGGACAAATTAAAAATATTTTCTTGTTTTG-AATTTCTAAATTCTCCAC
*
8805451 CATTTGGGCCTATTTAGAAATTCTTTTTTTTTT
65 CATTTGGGCCTATTTAGAAATCCTTTTTTTTTT
8805484 GGAAAGAAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 10 0.11
105 45 0.52
106 28 0.32
107 4 0.05
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (106 bp):
AATTATTCCACCATTTGGGACAAATTAAAAATATTTTCTTGTTTTGAATTTCTAAATTCTCCACC
ATTTGGGCCTATTTAGAAATCCTTTTTTTTTTTTATTTCTA
Found at i:8805833 original size:8 final size:8
Alignment explanation
Indices: 8805820--8805854 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
8805810 AATTCCAAAA
8805820 ATTTTTAT
1 ATTTTTAT
8805828 ATTTTTAT
1 ATTTTTAT
*
8805836 GTTTTTAT
1 ATTTTTAT
*
8805844 ATTTTTTT
1 ATTTTTAT
8805852 ATT
1 ATT
8805855 ATTTTTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (8 bp):
ATTTTTAT
Found at i:8805859 original size:18 final size:18
Alignment explanation
Indices: 8805820--8805860 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8805810 AATTCCAAAA
8805820 ATTTTTATATTTTTATGT
1 ATTTTTATATTTTTATGT
*
8805838 -TTTTATATTTTTTTAT-T
1 ATTTT-TATATTTTTATGT
8805855 ATTTTT
1 ATTTTT
8805861 TTGTTTGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (18 bp):
ATTTTTATATTTTTATGT
Found at i:8808151 original size:17 final size:17
Alignment explanation
Indices: 8808129--8808170 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
8808119 ATGAATTCTA
*
8808129 GATTTCGATATGAAAGT
1 GATTTCGATAAGAAAGT
8808146 GATTTCGATAAGAAAGT
1 GATTTCGATAAGAAAGT
*
8808163 TATTTCGA
1 GATTTCGA
8808171 AAAAAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (17 bp):
GATTTCGATAAGAAAGT
Found at i:8809862 original size:149 final size:149
Alignment explanation
Indices: 8809661--8809939 Score: 387
Period size: 149 Copynumber: 1.9 Consensus size: 149
8809651 TACATAAGCT
* * * *
8809661 TTGAAAGATAAAGATTGTAAAAATTATACCTGAGCCTAGAAAAAATAGCTTGTATGGATTTAAAG
1 TTGAAAGATAAAGATTGTAAAAATTATACCTAAGCCTAGAAAAAATAACTTGTAAGGACTTAAAG
* * * ** *
8809726 ATAATAATAGACTAAACTTCTTAGTAAGAGGAAGTTGAGGAAAATAATGTAAATAGTTTGAGAAA
66 ATAATAACAGACTAAACTTATTAGTAAGAGAAAACTAAGGAAAATAATGTAAATAGTTTGAGAAA
8809791 TAACCGAACCATTATAACC
131 TAACCGAACCATTATAACC
* * * *
8809810 TTGAAAGATAAAGATTGTAAAGATTATACTTAAGCCTAGAAAAAGTAACTTGTAAGGACTTAATG
1 TTGAAAGATAAAGATTGTAAAAATTATACCTAAGCCTAGAAAAAATAACTTGTAAGGACTTAAAG
* * * **
8809875 ATAATAACGGACTGAACTTATTAGTAAGAGAAAACTAAGGAAAATGATGTAGGTAGTTTGAGAAA
66 ATAATAACAGACTAAACTTATTAGTAAGAGAAAACTAAGGAAAATAATGTAAATAGTTTGAGAAA
8809940 GAATAGAAAC
Statistics
Matches: 111, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
149 111 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (149 bp):
TTGAAAGATAAAGATTGTAAAAATTATACCTAAGCCTAGAAAAAATAACTTGTAAGGACTTAAAG
ATAATAACAGACTAAACTTATTAGTAAGAGAAAACTAAGGAAAATAATGTAAATAGTTTGAGAAA
TAACCGAACCATTATAACC
Found at i:8811871 original size:2 final size:2
Alignment explanation
Indices: 8811858--8811898 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
8811848 CTTTCAAGGT
* *
8811858 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8811899 TTTATACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.44, G:0.02, T:0.54
Consensus pattern (2 bp):
TC
Found at i:8817326 original size:78 final size:78
Alignment explanation
Indices: 8817197--8817355 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
8817187 ACGGGTCGAC
8817197 CAGTCCTTCTTCTTTTCCTTTATTTCCTTTCTCTGCCAAGCCTTCTTTGTCTCTTCCAGAATCTT
1 CAGTCCTTCTTCTTTTCCTTTATTTCCTTTCTCTGCCAAGCCTTCTTTGTCTCTTCCAGAATCTT
8817262 TTCTGCACTAAAT
66 TTCTGCACTAAAT
8817275 CAGTCCTTCTTCTTTTCCTTTATTTCCTTTCTCTGCCAAGCCTTCTTTGTCTCTTCCAGAATCTT
1 CAGTCCTTCTTCTTTTCCTTTATTTCCTTTCTCTGCCAAGCCTTCTTTGTCTCTTCCAGAATCTT
*
8817340 TTCTGCACTAACT
66 TTCTGCACTAAAT
8817353 CAG
1 CAG
8817356 ATTTTTAACC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.14, C:0.31, G:0.08, T:0.47
Consensus pattern (78 bp):
CAGTCCTTCTTCTTTTCCTTTATTTCCTTTCTCTGCCAAGCCTTCTTTGTCTCTTCCAGAATCTT
TTCTGCACTAAAT
Found at i:8819226 original size:109 final size:109
Alignment explanation
Indices: 8819096--8819308 Score: 336
Period size: 109 Copynumber: 2.0 Consensus size: 109
8819086 TCATTCGAGC
*
8819096 TCAAAGATTCACATTCAATAAATCTTAGAGTTTAATATCTAAATTCAAAGGTTTACATGCGAAAA
1 TCAAAGATTCACATTCAATAAATCTTAGAGTTTAACATCTAAATTCAAAGGTTTACATGCGAAAA
*
8819161 ATTCATGGCTTCACATCCACAATTTCAAAGCTTCTCATTCAAAT
66 ATTCATGGCTTCACATCCACAATTTCAAAGCCTCTCATTCAAAT
* * * * * **
8819205 TCAAAGATTTATATTCGATAAATTTTAGAGTTTCACATCTAAATTCAAAGGTTTACATTTGAAAA
1 TCAAAGATTCACATTCAATAAATCTTAGAGTTTAACATCTAAATTCAAAGGTTTACATGCGAAAA
*
8819270 ATTCATGGGTTCACATCCACAATTTCAAAGCCTCTCATT
66 ATTCATGGCTTCACATCCACAATTTCAAAGCCTCTCATT
8819309 TAAAAACTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
109 94 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (109 bp):
TCAAAGATTCACATTCAATAAATCTTAGAGTTTAACATCTAAATTCAAAGGTTTACATGCGAAAA
ATTCATGGCTTCACATCCACAATTTCAAAGCCTCTCATTCAAAT
Found at i:8820849 original size:23 final size:23
Alignment explanation
Indices: 8820823--8820866 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8820813 ATGAAATCTT
8820823 ATTACATAAAAAAAAATCCTAAC
1 ATTACATAAAAAAAAATCCTAAC
* *
8820846 ATTACTTTAAAAAAAATCCTA
1 ATTACATAAAAAAAAATCCTA
8820867 GAATGACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (23 bp):
ATTACATAAAAAAAAATCCTAAC
Found at i:8827817 original size:1 final size:1
Alignment explanation
Indices: 8827811--8827847 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
8827801 ACAGTGGCGT
* *
8827811 GGGGGGGGGGGGGGGGGGGGGGGGGTGGGGGGTGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
8827848 ATGGGTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.95, T:0.05
Consensus pattern (1 bp):
G
Found at i:8829028 original size:17 final size:18
Alignment explanation
Indices: 8829000--8829033 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
8828990 TTCAAAAATT
8829000 TTTAAGAATTTTTAAAAA
1 TTTAAGAATTTTTAAAAA
8829018 TTTAA-AATTTTTAAAA
1 TTTAAGAATTTTTAAAA
8829034 TAAATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTAAGAATTTTTAAAAA
Found at i:8829030 original size:9 final size:9
Alignment explanation
Indices: 8828994--8829034 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
8828984 TGGATCTTCA
8828994 AAAATTTTT
1 AAAATTTTT
8829003 AAGAATTTTT
1 AA-AATTTTT
*
8829013 AAAA-ATTT
1 AAAATTTTT
8829021 AAAATTTTT
1 AAAATTTTT
8829030 AAAAT
1 AAAAT
8829035 AAATATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.25
9 12 0.43
10 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (9 bp):
AAAATTTTT
Found at i:8829042 original size:22 final size:24
Alignment explanation
Indices: 8829012--8829058 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8829002 TAAGAATTTT
8829012 TAAAAATTT-AAAA-TTTTTAAAA
1 TAAAAATTTAAAAATTTTTTAAAA
*
8829034 TAAATATTTAAAAATTTTTTAAAA
1 TAAAAATTTAAAAATTTTTTAAAA
8829058 T
1 T
8829059 GAATTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
24 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAAAAATTTAAAAATTTTTTAAAA
Found at i:8829817 original size:19 final size:19
Alignment explanation
Indices: 8829793--8829852 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
8829783 TTTTTTTGAT
8829793 TTTTAATATTAAAAAATAA
1 TTTTAATATTAAAAAATAA
* * *
8829812 TTTTAAGATAAAAATAAAAA
1 TTTTAATATTAAAA-AATAA
*
8829832 TTTTAAATATTTACAAAATAA
1 TTTT-AATA-TTAAAAAATAA
8829853 AATATAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 12 0.39
20 8 0.26
21 7 0.23
22 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
TTTTAATATTAAAAAATAA
Found at i:8829878 original size:29 final size:28
Alignment explanation
Indices: 8829830--8829888 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
8829820 TAAAAATAAA
*
8829830 AATTTTAAATATTTACAAAAT-AAAATAT
1 AATTTTAAATATCTACAAAATGAAAA-AT
8829858 AATTTTAAAATATCCTA-AAAATGAAAAAT
1 AATTTT-AAATAT-CTACAAAATGAAAAAT
8829887 AA
1 AA
8829889 GAGAGAAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 6 0.22
29 15 0.56
30 6 0.22
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (28 bp):
AATTTTAAATATCTACAAAATGAAAAAT
Found at i:8830178 original size:15 final size:15
Alignment explanation
Indices: 8830160--8830194 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8830150 TTATTTTTAA
8830160 TATAATATTATAAAT
1 TATAATATTATAAAT
* *
8830175 TATAATATTTTTAAT
1 TATAATATTATAAAT
8830190 TATAA
1 TATAA
8830195 CATAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATAATATTATAAAT
Found at i:8835169 original size:23 final size:23
Alignment explanation
Indices: 8835132--8835193 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
8835122 CAGTTGCAGG
* *
8835132 TATTTTTATTCATTTTTAT-TTTA
1 TATTTTT-TTTATTTTCATATTTA
8835155 TATTTTTGTTTA-TTTCATATTTA
1 TATTTTT-TTTATTTTCATATTTA
8835178 TCATTTTTTTTATTTT
1 T-ATTTTTTTTATTTT
8835194 ATGATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 5 0.15
23 19 0.58
24 9 0.27
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (23 bp):
TATTTTTTTTATTTTCATATTTA
Found at i:8835175 original size:24 final size:24
Alignment explanation
Indices: 8835148--8835201 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
8835138 TATTCATTTT
8835148 TATTTTAT-ATTTTTGTTTATTTCA
1 TATTTTATCATTTTT-TTTATTTCA
*
8835172 TA-TTTATCATTTTTTTTATTTTA
1 TATTTTATCATTTTTTTTATTTCA
8835195 TGATTTT
1 T-ATTTT
8835202 TTTTTCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 14 0.54
24 9 0.35
25 3 0.12
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (24 bp):
TATTTTATCATTTTTTTTATTTCA
Found at i:8837493 original size:59 final size:58
Alignment explanation
Indices: 8837341--8837817 Score: 519
Period size: 60 Copynumber: 8.0 Consensus size: 58
8837331 TAATTTCAAA
*
8837341 AAAAAAAAATATTTTGAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTC
1 AAAAAAAAATATTTT-TGGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAAATAAATTTC
*
8837400 --CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAATAAATTTC
1 AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAATAAATTTC
8837457 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTC
1 AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC-T---AG-AAAATAAATTTC
*
8837521 AAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT-
1 AAAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT--AAATTTC
** * *
8837581 TTAAAAAAATATTTTTGTGGAAAAGTTGAAAGCATCAATTTTCCTTGAAAATCAAAATTTC
1 AAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT--AAATTTC
*
8837642 -AAAAAAAATATTTTTCGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAGAAATTT-
1 AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAAATAAATTTC
* * *
8837699 AAAAAAAAAAAGGGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTTC
1 AAAAAAAAATA---TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT--AAA-TTTC
*
8837764 ---AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCCTACAAAA-AAATT
1 AAAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTT-CCTAGAAAATAAATT
8837818 CATTCTTTCC
Statistics
Matches: 369, Mismatches: 21, Indels: 59
0.82 0.05 0.13
Matches are distributed among these distances:
56 3 0.01
57 55 0.15
58 15 0.04
59 74 0.20
60 109 0.30
61 43 0.12
62 9 0.02
63 6 0.02
64 55 0.15
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.33
Consensus pattern (58 bp):
AAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATAAATTTC
Found at i:8841630 original size:8 final size:8
Alignment explanation
Indices: 8841609--8841701 Score: 53
Period size: 8 Copynumber: 12.2 Consensus size: 8
8841599 AACAATGGAT
8841609 GAAAAATGA
1 GAAAAA-GA
8841618 G-AAAAGA
1 GAAAAAGA
8841625 GAAAAA-A
1 GAAAAAGA
8841632 GAAAAAGA
1 GAAAAAGA
8841640 -AAAAA-A
1 GAAAAAGA
8841646 G--AAAGA
1 GAAAAAGA
*
8841652 -AAAAAGGG
1 GAAAAA-GA
8841660 GAAAAATGA
1 GAAAAA-GA
*
8841669 GAAAATGA
1 GAAAAAGA
8841677 -AAAAATGA
1 GAAAAA-GA
8841685 -AAAAATGA
1 GAAAAA-GA
8841693 -AAAAAGA
1 GAAAAAGA
8841700 GA
1 GA
8841702 TCCAAATTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
5 3 0.04
6 2 0.03
7 24 0.35
8 28 0.41
9 12 0.17
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (8 bp):
GAAAAAGA
Found at i:8841643 original size:7 final size:7
Alignment explanation
Indices: 8841617--8841699 Score: 55
Period size: 8 Copynumber: 11.4 Consensus size: 7
8841607 ATGAAAAATG
*
8841617 AGAAAAG
1 AGAAAAA
8841624 AGAAAAA
1 AGAAAAA
8841631 AG-AAAA
1 AGAAAAA
8841637 AG-AAAA
1 AGAAAAA
*
8841643 A-AAGAA
1 AGAAAAA
8841649 AGAAAAA
1 AGAAAAA
8841656 AGGGGAAAAA
1 A---GAAAAA
*
8841666 TGAGAAAA
1 AGA-AAAA
*
8841674 TGAAAAA
1 AGAAAAA
8841681 ATGAAAAA
1 A-GAAAAA
8841689 ATGAAAAA
1 A-GAAAAA
8841697 AGA
1 AGA
8841700 GATCCAAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
6 15 0.23
7 21 0.33
8 22 0.34
10 6 0.09
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (7 bp):
AGAAAAA
Found at i:8841650 original size:12 final size:13
Alignment explanation
Indices: 8841617--8841657 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
8841607 ATGAAAAATG
8841617 AGAAAAGAGAAAAA
1 AGAAAA-AGAAAAA
8841631 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
*
8841644 A-AGAAAGAAAAA
1 AGAAAAAGAAAAA
8841656 AG
1 AG
8841658 GGGAAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
13 8 0.32
14 6 0.24
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:8842986 original size:40 final size:40
Alignment explanation
Indices: 8842942--8843430 Score: 718
Period size: 41 Copynumber: 12.0 Consensus size: 40
8842932 GTCTAGGAGT
* * *
8842942 ATTTATTTTTCAAAGTTCATTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
8842982 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
8843022 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8843062 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAAAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8843102 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
8843143 ATTTACTTTTCAAAGTTTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
8843183 ATTTACTTTCCAAAGTT-GTGGTGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
8843224 ATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCA
8843265 ATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
8843306 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
8843348 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
8843389 ATTTATGTTTCTCAAAG-TCGTTGAGCCTCTGTTTAGAGGAGC
1 ATTTA-CTTT-TCAAAGTTCGTT--GCCTCTGTTTAGAGGAGC
8843431 TTTGGTAAAA
Statistics
Matches: 420, Mismatches: 15, Indels: 25
0.91 0.03 0.05
Matches are distributed among these distances:
39 6 0.01
40 170 0.40
41 173 0.41
42 42 0.10
43 29 0.07
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:8843173 original size:81 final size:81
Alignment explanation
Indices: 8842964--8843430 Score: 739
Period size: 81 Copynumber: 5.7 Consensus size: 81
8842954 AAGTTCATTA
8842964 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
*
8843029 TTTCAAAGTTCGT--TG
66 TTCCAAAG-TCGTGGTG
*
8843044 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAAAGGAGCAATTTACT
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
8843109 TTCCAAAGTCGTGGTG
66 TTCCAAAGTCGTGGTG
*
8843125 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTGTTGCCTCTGTTTAGAGGAGCAATTTACT
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
*
8843190 TTCCAAAGTTGTGGTG
66 TTCCAAAGTCGTGGTG
*
8843206 CCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCAATTTAC
8843271 TTTTCCAAAGTTCGT--TG
65 -TTTCCAAAG-TCGTGGTG
8843288 CCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTT
1 CCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTT
8843352 ACTTTCCAAAGTCGTGGTG
63 ACTTTCCAAAGTCGTGGTG
*
8843371 CCTCTGTTTAGAGGAGCAATTTATGTTTCTCAAAG-TCGTTGAGCCTCTGTTTAGAGGAGC
1 CCTCTGTTTAGAGGAGCAATTTA-CTTT-TCAAAGTTCGTT--GCCTCTGTTTAGAGGAGC
8843431 TTTGGTAAAA
Statistics
Matches: 363, Mismatches: 10, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
79 4 0.01
80 71 0.20
81 121 0.33
82 68 0.19
83 65 0.18
84 33 0.09
85 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (81 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
TTCCAAAGTCGTGGTG
Found at i:8843443 original size:1 final size:1
Alignment explanation
Indices: 8843437--8843490 Score: 81
Period size: 1 Copynumber: 54.0 Consensus size: 1
8843427 GAGCTTTGGT
* * *
8843437 AAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8843491 GTTACCTCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8843520 original size:126 final size:123
Alignment explanation
Indices: 8843390--8843704 Score: 391
Period size: 121 Copynumber: 2.6 Consensus size: 123
8843380 AGAGGAGCAA
* * *
8843390 TTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGGTAAAAAAAAAAAAAAAAAA
1 TTTATGTTTCTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTGGTAAAAATAAAAAAAAAAAA
8843455 AAAAAAAAAAACAAAAACAAAAAAACAAAAAAAAAAGTTACCTCTATTTAGAGGAGCTTTG
66 AAAAAAAAAAAC-AAAA-AAAAAAAC-AAAAAAAAAGTTACCTCTATTTAGAGGAGCTTTG
* **
8843516 TTTATGTTTCTCAAAGTCATTGAGCCTCTAATTAGAGGAGCTTT-G-ATCAATAAAAAAAAAAAA
1 TTTATGTTTCTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTGGTAAAAATAAAAAAAAAAAA
** * *** *
8843579 AGCAAAAAAAGCAAAAAAATGGACAAAAAAAAAGTTGCCTCTATTTAGAGGAGCTTTG
66 AAAAAAAAAAACAAAAAAAAAAACAAAAAAAAAGTTACCTCTATTTAGAGGAGCTTTG
* * * * * * * **
8843637 TTTATGTTTCTCAAAATTATTTAGCCTTTGCTTAGAGGAGCTTTGATCAAAATTTAAAAAAAAAA
1 TTTATGTTTCTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTGGTAAAAATAAAAAAAAAAAA
8843702 AAA
66 AAA
8843705 GAAGCAAGAA
Statistics
Matches: 160, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
121 71 0.44
122 5 0.03
123 18 0.11
124 24 0.15
125 1 0.01
126 41 0.26
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (123 bp):
TTTATGTTTCTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTGGTAAAAATAAAAAAAAAAAA
AAAAAAAAAAACAAAAAAAAAAACAAAAAAAAAGTTACCTCTATTTAGAGGAGCTTTG
Found at i:8843585 original size:9 final size:9
Alignment explanation
Indices: 8843573--8843597 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8843563 CAATAAAAAA
8843573 AAAAAAAGC
1 AAAAAAAGC
8843582 AAAAAAAGC
1 AAAAAAAGC
8843591 AAAAAAA
1 AAAAAAA
8843598 TGGACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:8843911 original size:23 final size:24
Alignment explanation
Indices: 8843875--8843952 Score: 69
Period size: 23 Copynumber: 3.4 Consensus size: 24
8843865 AGTTGCAGGG
* *
8843875 ATTTTTATTCATTTTTAT-TTTAT-
1 ATTTTT-TTTATTTTCATATTTATC
8843898 ATTTTTGTTTA-TTTCATATTTATC
1 ATTTTT-TTTATTTTCATATTTATC
8843922 ATTTTTTTTATTTT-ATGATTTAT-
1 ATTTTTTTTATTTTCAT-ATTTATC
8843945 -TTTTTTTT
1 ATTTTTTTT
8843953 CTTTCTTTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 13 0.27
23 20 0.42
24 15 0.31
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (24 bp):
ATTTTTTTTATTTTCATATTTATC
Found at i:8843942 original size:24 final size:22
Alignment explanation
Indices: 8843893--8843957 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
8843883 TCATTTTTAT
8843893 TTTATATTTTTGTTTATTTCATA
1 TTTATATTTTT-TTTATTTCATA
*
8843916 TTTATCATTTTTTTTATTTTATGA
1 TTTAT-ATTTTTTTTATTTCAT-A
*
8843940 TTTAT-TTTTTTTTCTTTC
1 TTTATATTTTTTTTATTTC
8843958 TTTTGATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.30
23 14 0.38
24 12 0.32
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (22 bp):
TTTATATTTTTTTTATTTCATA
Found at i:8846345 original size:60 final size:59
Alignment explanation
Indices: 8846070--8846557 Score: 576
Period size: 60 Copynumber: 7.9 Consensus size: 59
8846060 GTTAATAATA
* *
8846070 AAAATAATAATTTCAAAAGAAAAAAATATTTTGAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAATAA-AATTTC-AAA-AAAAATAT-TTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTT--
8846135 AAG
59 --G
* *
8846138 AAAAATAAATTTTCAAAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCC-TC
1 -AAAATAAAATTTC-AAAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCTTG
8846198 AGAAAT-AAATTTCAAAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 A-AAATAAAATTTC-AAAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCTT----
8846261 G
59 G
8846262 AAAA-ATAAATTTCAAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATA-AAATTTC-AAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
*
8846322 AAAATCAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAT-AAAATTTCAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
*
8846382 AAAATTAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-
1 AAAA-TAAAATTTCAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
* * ** *
8846441 AGAAAGAAATTTTCAAAAAAAAGGGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 A-AAATAAAATTTCAAAAAAAA-TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
8846502 AAAATCGAAATTTC-CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAT-AAAATTTCAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
8846558 CTACAAAAAA
Statistics
Matches: 383, Mismatches: 19, Indels: 44
0.86 0.04 0.10
Matches are distributed among these distances:
59 99 0.26
60 157 0.41
61 15 0.04
62 1 0.00
63 5 0.01
64 52 0.14
65 25 0.07
66 5 0.01
67 8 0.02
68 9 0.02
69 7 0.02
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.32
Consensus pattern (59 bp):
AAAATAAAATTTCAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:8862220 original size:26 final size:27
Alignment explanation
Indices: 8862170--8862222 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
8862160 AACTATTCAA
*
8862170 ATATTAAAAATTATTTATTAATAAAAT
1 ATATTAAAAATTAGTTATTAATAAAAT
* *
8862197 ATATT-AAAATTAGTTGTTATTAAAAT
1 ATATTAAAAATTAGTTATTAATAAAAT
8862223 TATCAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
ATATTAAAAATTAGTTATTAATAAAAT
Found at i:8862428 original size:20 final size:20
Alignment explanation
Indices: 8862392--8862437 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
8862382 AAAAATTATT
8862392 TATTATATTAATATTTAAAA
1 TATTATATTAATATTTAAAA
*
8862412 TATTACTATT-ATTTTTAAAA
1 TATTA-TATTAATATTTAAAA
8862432 TATTAT
1 TATTAT
8862438 TTTTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.79
21 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATATTAATATTTAAAA
Found at i:8862446 original size:17 final size:20
Alignment explanation
Indices: 8862392--8862501 Score: 59
Period size: 17 Copynumber: 6.1 Consensus size: 20
8862382 AAAAATTATT
*
8862392 TATTA-TATTAATATTTAAAA
1 TATTACTATTATTA-TTAAAA
*
8862412 TATTACTATTATTTTTAAAA
1 TATTACTATTATTATTAAAA
*
8862432 TATTA-T-TT-TTATTAATA
1 TATTACTATTATTATTAAAA
*
8862449 TATAAC-ATTA--A--AATAA
1 TATTACTATTATTATTAA-AA
8862465 TATTA-T-TTATTATTAAAA
1 TATTACTATTATTATTAAAA
*
8862483 TA-T-CTA-TACTATTAAAA
1 TATTACTATTATTATTAAAA
8862500 TA
1 TA
8862502 ATTATATATT
Statistics
Matches: 70, Mismatches: 8, Indels: 27
0.67 0.08 0.26
Matches are distributed among these distances:
15 5 0.07
16 5 0.07
17 27 0.39
18 8 0.11
19 3 0.04
20 16 0.23
21 6 0.09
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTACTATTATTATTAAAA
Found at i:8862499 original size:38 final size:33
Alignment explanation
Indices: 8862430--8862503 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 33
8862420 TTATTTTTAA
8862430 AATATTATTTTTATTAATATATAACATTAAAAT
1 AATATTATTTTTATTAATATATAACATTAAAAT
*
8862463 AATATTATTTATTATTAAAATATCTATACTATTAAAAT
1 AATATTATTT-TTATT--AATATATA-AC-ATTAAAAT
8862501 AAT
1 AAT
8862504 TATATATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
33 10 0.29
34 5 0.14
36 7 0.20
37 2 0.06
38 11 0.31
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (33 bp):
AATATTATTTTTATTAATATATAACATTAAAAT
Found at i:8862507 original size:17 final size:16
Alignment explanation
Indices: 8862475--8862514 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
8862465 TATTATTTAT
8862475 TATTAAAATATCTATA
1 TATTAAAATATCTATA
8862491 CTATTAAAATAAT-TATA
1 -TATTAAAAT-ATCTATA
8862508 TATTAAA
1 TATTAAA
8862515 TTAAAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 13 0.59
18 2 0.09
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAAAATATCTATA
Found at i:8862650 original size:27 final size:27
Alignment explanation
Indices: 8862600--8862674 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
8862590 GTTAATAAAA
** * *
8862600 TATAAATATTTTAATATTATTTTATTGT
1 TATAAATATTAAAATATT-TTTTAATAT
8862628 TA-AAATATTAAAATATTTGTTTAATAT
1 TATAAATATTAAAATATTT-TTTAATAT
*
8862655 TATACAATATAAAAATATTT
1 TATA-AATATTAAAATATTT
8862675 AAAATTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 21 0.54
28 3 0.08
29 14 0.36
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (27 bp):
TATAAATATTAAAATATTTTTTAATAT
Found at i:8862676 original size:25 final size:25
Alignment explanation
Indices: 8862647--8862707 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
8862637 AAAATATTTG
8862647 TTTAATATTATACAATAT-AAAA-A-T
1 TTTAATATTA-A-AATATCAAAAGACT
*
8862671 ATTTAAAATTAAAATATCAAAAGACT
1 -TTTAATATTAAAATATCAAAAGACT
8862697 TTTAATATTAA
1 TTTAATATTAA
8862708 TATTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 5 0.16
24 5 0.16
25 20 0.65
26 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (25 bp):
TTTAATATTAAAATATCAAAAGACT
Found at i:8862739 original size:15 final size:16
Alignment explanation
Indices: 8862701--8862742 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
8862691 AAGACTTTTA
*
8862701 ATATTAATATTTTAAT
1 ATATTAAAATTTTAAT
*
8862717 ATATTAAAATTTTTAT
1 ATATTAAAATTTTAAT
8862733 A-ATTAAAATT
1 ATATTAAAATT
8862743 ACATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTAAAATTTTAAT
Found at i:8862927 original size:19 final size:18
Alignment explanation
Indices: 8862895--8862930 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8862885 CTTAAATAAA
8862895 ATTAAATAAAAATATTTT
1 ATTAAATAAAAATATTTT
*
8862913 ATTAATATAATAATATTT
1 ATTAA-ATAAAAATATTT
8862931 CGACTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAATAAAAATATTTT
Found at i:8863547 original size:18 final size:17
Alignment explanation
Indices: 8863520--8863554 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
8863510 GATTCAATAC
8863520 TATTTTGGAAAAATATA
1 TATTTTGGAAAAATATA
8863537 TATTATTGGAAAAATATA
1 TATT-TTGGAAAAATATA
8863555 GTTAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
TATTTTGGAAAAATATA
Found at i:8865471 original size:32 final size:32
Alignment explanation
Indices: 8865430--8865496 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
8865420 TATCACTAAA
*
8865430 GTAGACATTGCTATTAGTAGGGTTTGTTAGAG
1 GTAGACATTGCTATTAGTAGGGTTCGTTAGAG
8865462 GTAGACATTGCTATTAGTAGGGTTCGTTAGAG
1 GTAGACATTGCTATTAGTAGGGTTCGTTAGAG
8865494 GTA
1 GTA
8865497 TTTGATTCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.25, C:0.07, G:0.31, T:0.36
Consensus pattern (32 bp):
GTAGACATTGCTATTAGTAGGGTTCGTTAGAG
Found at i:8873759 original size:19 final size:19
Alignment explanation
Indices: 8873737--8873783 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
8873727 AAAAAACTTG
* *
8873737 AAAAGAGGAGAAAAAAGAA
1 AAAAGAGAAAAAAAAAGAA
* *
8873756 AAAAAAGAAAAAAAAAGGA
1 AAAAGAGAAAAAAAAAGAA
8873775 AAAAG-GAAA
1 AAAAGAGAAA
8873784 CAGGTTTTAG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAAAAAAAGAA
Found at i:8877129 original size:3 final size:3
Alignment explanation
Indices: 8877123--8877161 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
8877113 ATTAGTTGTT
* * *
8877123 GTA GTA GTA GCA GCA GTA ATA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
8877162 ATAATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.36, C:0.05, G:0.31, T:0.28
Consensus pattern (3 bp):
GTA
Done.