Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 23 of 199
Found at i:9462810 original size:21 final size:21
Alignment explanation
Indices: 9462786--9462844 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9462776 TTTCTTATTG
*
9462786 TTTATGTTTTAGGGTTTAGTA
1 TTTATGTTTTAGGGTTTAGGA
* * *
9462807 TTTATATTTTAGGTTTTAGGG
1 TTTATGTTTTAGGGTTTAGGA
* *
9462828 TTTATGATTTATGGTTT
1 TTTATGTTTTAGGGTTT
9462845 TGTGTTTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (21 bp):
TTTATGTTTTAGGGTTTAGGA
Found at i:9462811 original size:28 final size:28
Alignment explanation
Indices: 9462780--9462863 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
9462770 ATTTTATTTC
*
9462780 TTATTGTTTATGTTTTAGGGTTTA-GTAT
1 TTATTGTTTAGGTTTTAGGGTTTATG-AT
9462808 TTATAT-TTTAGGTTTTAGGGTTTATGAT
1 TTAT-TGTTTAGGTTTTAGGGTTTATGAT
* * *
9462836 TTATGGTTTTGTGTTTTTAGCGTTTATG
1 TTATTGTTTAG-G-TTTTAGGGTTTATG
9462864 GTTAATGGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
28 31 0.66
29 3 0.06
30 13 0.28
ACGTcount: A:0.17, C:0.01, G:0.23, T:0.60
Consensus pattern (28 bp):
TTATTGTTTAGGTTTTAGGGTTTATGAT
Found at i:9462851 original size:21 final size:21
Alignment explanation
Indices: 9462784--9462851 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
9462774 TATTTCTTAT
* * *
9462784 TGTTTATGTTTTAGGGTTTAG
1 TGTTTATGATTTATGGTTTTG
*
9462805 TATTTAT-ATTT-TAGGTTTTAG
1 TGTTTATGATTTAT-GGTTTT-G
*
9462826 GGTTTATGATTTATGGTTTTG
1 TGTTTATGATTTATGGTTTTG
9462847 TGTTT
1 TGTTT
9462852 TTAGCGTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
20 8 0.22
21 17 0.47
22 10 0.28
23 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (21 bp):
TGTTTATGATTTATGGTTTTG
Found at i:9462861 original size:30 final size:30
Alignment explanation
Indices: 9462813--9462893 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
9462803 AGTATTTATA
* * *
9462813 TTTTAGGTTTTAGGGTTTATGATTTATGGT
1 TTTTAGTTTTTAGCGTTTATGATTAATGGT
*
9462843 TTTGT-GTTTTTAGCGTTTATGGTTAATGGT
1 TTT-TAGTTTTTAGCGTTTATGATTAATGGT
9462873 TTTTAGTTTTTA-CAGTTTATG
1 TTTTAGTTTTTAGC-GTTTATG
9462894 TTTCGGGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 2 0.05
30 41 0.93
31 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.23, T:0.58
Consensus pattern (30 bp):
TTTTAGTTTTTAGCGTTTATGATTAATGGT
Found at i:9462884 original size:23 final size:23
Alignment explanation
Indices: 9462835--9462878 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9462825 GGGTTTATGA
*
9462835 TTTATGGTTTTGTGTTTTTAGCG
1 TTTATGGTTATGTGTTTTTAGCG
9462858 TTTATGGTTAATG-GTTTTTAG
1 TTTATGGTT-ATGTGTTTTTAG
9462879 TTTTTACAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.14, C:0.02, G:0.25, T:0.59
Consensus pattern (23 bp):
TTTATGGTTATGTGTTTTTAGCG
Found at i:9463014 original size:21 final size:21
Alignment explanation
Indices: 9462990--9463040 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
9462980 GGGTTGTCTT
*
9462990 TTTAAGGTTTATATTTTAGGG
1 TTTATGGTTTATATTTTAGGG
*
9463011 TTTATGGGTTATATTTTAGGG
1 TTTATGGTTTATATTTTAGGG
9463032 TTTATGGTT
1 TTTATGGTT
9463041 AGGTTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (21 bp):
TTTATGGTTTATATTTTAGGG
Found at i:9463064 original size:16 final size:16
Alignment explanation
Indices: 9463039--9463070 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9463029 GGGTTTATGG
*
9463039 TTAGGTTTTATTGTTT
1 TTAGGGTTTATTGTTT
9463055 TTAGGGTTTATTGTTT
1 TTAGGGTTTATTGTTT
9463071 GTGTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.22, T:0.66
Consensus pattern (16 bp):
TTAGGGTTTATTGTTT
Found at i:9467905 original size:25 final size:24
Alignment explanation
Indices: 9467877--9467925 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
9467867 AATTTAAATT
9467877 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
*
9467902 TTATATTAATCTTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
9467926 AATTCCCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:9474601 original size:222 final size:222
Alignment explanation
Indices: 9474215--9474635 Score: 788
Period size: 222 Copynumber: 1.9 Consensus size: 222
9474205 CTTCACACGA
*
9474215 AGAATGTACCATGAAGTTTTTGGGCAGAAGCAATGAAGACGGCTGCATTTGTAATCAATAGGCTT
1 AGAATGTACCAGGAAGTTTTTGGGCAGAAGCAATGAAGACGGCTGCATTTGTAATCAATAGGCTT
9474280 CCTCAACAAAGGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
66 CCTCAACAAAGGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
*
9474345 TTATTTCAGAGTTTTCGGATATGTTTACTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
131 TTATTTCAAAGTTTTCGGATATGTTTACTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
9474410 ACAAAAATTATGCAACATGAAACCTTC
196 ACAAAAATTATGCAACATGAAACCTTC
* *
9474437 AGAATGTACCAGGACGTTTTTGGGCAGAAGCAATGAGGACGGCTGCATTTGTAATCAATAGGCTT
1 AGAATGTACCAGGAAGTTTTTGGGCAGAAGCAATGAAGACGGCTGCATTTGTAATCAATAGGCTT
*
9474502 CCTCAACAAATGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
66 CCTCAACAAAGGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
*
9474567 TTATTTCAAAGTTTTCGGATATGTTTTCTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
131 TTATTTCAAAGTTTTCGGATATGTTTACTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
9474632 ACAA
196 ACAA
9474636 GAAGGCTGTT
Statistics
Matches: 193, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
222 193 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (222 bp):
AGAATGTACCAGGAAGTTTTTGGGCAGAAGCAATGAAGACGGCTGCATTTGTAATCAATAGGCTT
CCTCAACAAAGGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
TTATTTCAAAGTTTTCGGATATGTTTACTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
ACAAAAATTATGCAACATGAAACCTTC
Found at i:9480125 original size:27 final size:28
Alignment explanation
Indices: 9480094--9480146 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
9480084 AACTAAACAT
*
9480094 ATGATGTTTTATACTAT-CTAATTTTAC
1 ATGATGTTTTATACCATACTAATTTTAC
9480121 ATGATGTTTTATACCATACTAATTTT
1 ATGATGTTTTATACCATACTAATTTT
9480147 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (28 bp):
ATGATGTTTTATACCATACTAATTTTAC
Found at i:9489094 original size:20 final size:20
Alignment explanation
Indices: 9489069--9489106 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9489059 ATATGTTTAA
*
9489069 TTGTTGAGGATTTAGTGGCG
1 TTGTTGAGGATGTAGTGGCG
*
9489089 TTGTTGAGTATGTAGTGG
1 TTGTTGAGGATGTAGTGG
9489107 AGATATTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.39, T:0.42
Consensus pattern (20 bp):
TTGTTGAGGATGTAGTGGCG
Found at i:9494394 original size:23 final size:24
Alignment explanation
Indices: 9494364--9494408 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
9494354 AGAGACTACT
9494364 GTTATCTA-TTCTAAGTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
9494387 GTTATCTATTTCTAAGTTGTTT
1 GTTATCTATTTCTAAGTTGTTT
9494409 GAATCATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (24 bp):
GTTATCTATTTCTAAGTTGTTTAA
Found at i:9495031 original size:190 final size:190
Alignment explanation
Indices: 9494702--9495075 Score: 658
Period size: 190 Copynumber: 2.0 Consensus size: 190
9494692 ACAAGATCTC
* *
9494702 TAAAGAAATATCTGAAATAAAAATTAGATAGGATATTTCTTTAATTTCATTTATGTGAAGGGCTT
1 TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTT
*
9494767 CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTTAGGTTATATAAGGGCATTGATA
66 CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATA
* *
9494832 CTGTCTGGTTTCTTTTGTCATAAGAGGGGGATCTAAGCTTATTGTACAGGGATTTTGAAA
131 CTATCTGGTTTCTTTTGTCATAAGAGCGGGATCTAAGCTTATTGTACAGGGATTTTGAAA
* **
9494892 TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAGTTTCATTTATGTGAAGGTTTT
1 TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTT
* *
9494957 TTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATACGGGCATTGATA
66 CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATA
9495022 CTATCTGGTTTCTTTTGTCATAAGAGCGGGATCTAAGCTTATTGTACAGGGATT
131 CTATCTGGTTTCTTTTGTCATAAGAGCGGGATCTAAGCTTATTGTACAGGGATT
9495076 CTGAGATGAC
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
190 174 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (190 bp):
TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTT
CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATA
CTATCTGGTTTCTTTTGTCATAAGAGCGGGATCTAAGCTTATTGTACAGGGATTTTGAAA
Found at i:9496218 original size:105 final size:103
Alignment explanation
Indices: 9496033--9496238 Score: 317
Period size: 105 Copynumber: 2.0 Consensus size: 103
9496023 ACTTTGTAAG
* *
9496033 AGTCATATGCATTTCTTTTAAAATCTCGAGGTTGACCAAGCAATATAACTCTGGTTATACACGAA
1 AGTCATATGCATTTCTTTTAAAATCTCAAAGTTGACCAAGCAATATAACTCTGGTTATACACGAA
*
9496098 GAAAAAGAGACAAAAAGGAAAAAAAAAAAAGAATCTTAAT
66 GAAAAAGAGA-AAAAAAG-AAAAAAAAAAAGAATCTTAAT
*
9496138 AGTCATATGCATTTCTTTTAAAATGTCAAAGTTGA-CAGAGCAATATAACTCTGGTTATACAC-A
1 AGTCATATGCATTTCTTTTAAAATCTCAAAGTTGACCA-AGCAATATAACTCTGGTTATACACGA
*
9496201 GAGAAAAAGAGAAAAAAAGAAAAAGAAAAAGAATCTTA
65 -AGAAAAAGAGAAAAAAAGAAAAAAAAAAAGAATCTTA
9496239 TGCCAAGCTG
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
103 18 0.19
104 9 0.10
105 67 0.71
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.24
Consensus pattern (103 bp):
AGTCATATGCATTTCTTTTAAAATCTCAAAGTTGACCAAGCAATATAACTCTGGTTATACACGAA
GAAAAAGAGAAAAAAAGAAAAAAAAAAAGAATCTTAAT
Found at i:9497555 original size:190 final size:190
Alignment explanation
Indices: 9497226--9497614 Score: 742
Period size: 190 Copynumber: 2.0 Consensus size: 190
9497216 GCACTTGGCC
9497226 CTTGTAATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTAC
1 CTTGT-ATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTAC
*
9497291 TACATGAATGTCATCATATTTACTACTTGCAACCTAATGCTCCTGTTTCTGTTCCACTTTTAGCA
65 TACATGAATGTCATCATATTTACTACTTACAACCTAATGCTCCTGTTTCTGTTCCACTTTTAGCA
9497356 TGCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
130 TGCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
9497417 CTTGTATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTACT
1 CTTGTATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTACT
*
9497482 ACATGAATGTCATCATATTTACTACTTACAACCTACTGCTCCTGTTTCTGTTCCACTTTTAGCAT
66 ACATGAATGTCATCATATTTACTACTTACAACCTAATGCTCCTGTTTCTGTTCCACTTTTAGCAT
*
9497547 GCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTTGTTATCATACATCTTTCA
131 GCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
9497607 CTTGTATG
1 CTTGTATG
9497615 AGGTTGACAT
Statistics
Matches: 195, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
190 190 0.97
191 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (190 bp):
CTTGTATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTACT
ACATGAATGTCATCATATTTACTACTTACAACCTAATGCTCCTGTTTCTGTTCCACTTTTAGCAT
GCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
Found at i:9506636 original size:63 final size:63
Alignment explanation
Indices: 9506533--9506665 Score: 212
Period size: 63 Copynumber: 2.1 Consensus size: 63
9506523 GTTATCTCCG
* *
9506533 GTTTCTGCGCACCCCTAATCTGGTCTGTCTCAAGTTCAATGGTAAGTGCCCACATTCTAGACA
1 GTTTCTGCGCACCCCTAATCTGGTCTGTCTCAAGTACAATGGTAAGCGCCCACATTCTAGACA
* * * *
9506596 GTTTCTGCTCACCCCTGATCTGGTCTGTCTCAAGTACAATGGTAAGCGGCCACATTCTGGACA
1 GTTTCTGCGCACCCCTAATCTGGTCTGTCTCAAGTACAATGGTAAGCGCCCACATTCTAGACA
9506659 GTTTCTG
1 GTTTCTG
9506666 TGAAGAGGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (63 bp):
GTTTCTGCGCACCCCTAATCTGGTCTGTCTCAAGTACAATGGTAAGCGCCCACATTCTAGACA
Found at i:9533304 original size:12 final size:12
Alignment explanation
Indices: 9533287--9533312 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9533277 ACATAAATTC
9533287 AAAAAAAAAAAG
1 AAAAAAAAAAAG
9533299 AAAAAAAAAAAG
1 AAAAAAAAAAAG
9533311 AA
1 AA
9533313 GAAGAGAAAA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:9535519 original size:29 final size:30
Alignment explanation
Indices: 9535476--9535534 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
9535466 AAATTGAATC
*
9535476 AAATTAATATTTTATGTATAAAATTACACA
1 AAATTAATAATTTATGTATAAAATTACACA
*
9535506 AAATTAA-AATTTATGTATAATATTACACA
1 AAATTAATAATTTATGTATAAAATTACACA
9535535 TTGAACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (30 bp):
AAATTAATAATTTATGTATAAAATTACACA
Found at i:9535615 original size:50 final size:50
Alignment explanation
Indices: 9535557--9535655 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
9535547 TTATGAGTAG
9535557 TTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATTTAA
1 TTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATTTAA
9535607 TTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATTTA
1 TTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATTTA
9535656 TGATTTAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.42
Consensus pattern (50 bp):
TTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATTTAA
Found at i:9540650 original size:18 final size:17
Alignment explanation
Indices: 9540623--9540656 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9540613 ATCCTTTTTA
9540623 TATTTTTTAAAATTATT
1 TATTTTTTAAAATTATT
9540640 TATTGTTTTAAAATTAT
1 TATT-TTTTAAAATTAT
9540657 GTGTTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTTTTTAAAATTATT
Found at i:9544106 original size:14 final size:14
Alignment explanation
Indices: 9544087--9544115 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9544077 GACCCTTGAA
9544087 TGGGTGACATATCT
1 TGGGTGACATATCT
9544101 TGGGTGACATATCT
1 TGGGTGACATATCT
9544115 T
1 T
9544116 TTACTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.38
Consensus pattern (14 bp):
TGGGTGACATATCT
Found at i:9552209 original size:6 final size:6
Alignment explanation
Indices: 9552187--9552226 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
9552177 GGAAATGTGC
* *
9552187 TTTGTT TTGGGT TTTGTT TTTGTT TTTGTT TTTGTAT TTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGT-T TTT
9552227 CCCTGTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.78
Consensus pattern (6 bp):
TTTGTT
Found at i:9570070 original size:19 final size:18
Alignment explanation
Indices: 9570029--9570070 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
9570019 TATTAAGATG
* *
9570029 ATTATATAAAAAATTTCA
1 ATTAAATAAAAAATTTAA
9570047 A-TAAATAAAAAATATTAA
1 ATTAAATAAAAAAT-TTAA
9570065 ATTAAA
1 ATTAAA
9570071 ATAATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAAATAAAAAATTTAA
Found at i:9571231 original size:12 final size:11
Alignment explanation
Indices: 9571207--9571240 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
9571197 TTTTTTTTGC
9571207 AAAA-AAAAAA
1 AAAACAAAAAA
9571217 AAAACAAAAACA
1 AAAACAAAAA-A
9571229 AAAACAAAAAA
1 AAAACAAAAAA
9571240 A
1 A
9571241 GGGTTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.18
11 7 0.32
12 11 0.50
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAA
Found at i:9583694 original size:26 final size:26
Alignment explanation
Indices: 9583657--9583706 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9583647 ATTTTTTTCA
* * *
9583657 TCAATTTGGGTACTCGAATTAAAGGG
1 TCAATTTAGGTAATCAAATTAAAGGG
9583683 TCAATTTAGGTAATCAAATTAAAG
1 TCAATTTAGGTAATCAAATTAAAG
9583707 TTTAGGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (26 bp):
TCAATTTAGGTAATCAAATTAAAGGG
Found at i:9590743 original size:4 final size:4
Alignment explanation
Indices: 9590734--9590761 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
9590724 ACCAAGTGTT
9590734 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
9590762 CATGCATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:9591773 original size:63 final size:63
Alignment explanation
Indices: 9591674--9591801 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
9591664 GACATGAAAA
9591674 TTCCTATAAATAGGAATGAGATTTCATTTGGAAAACACACCAACAAATTCTAATATTCTTTCT
1 TTCCTATAAATAGGAATGAGATTTCATTTGGAAAACACACCAACAAATTCTAATATTCTTTCT
9591737 TTCCTATAAATAGGAATGAGATTTCATTTGGAAAACACACCAACAAATTCTAATATTCTTTCT
1 TTCCTATAAATAGGAATGAGATTTCATTTGGAAAACACACCAACAAATTCTAATATTCTTTCT
9591800 TT
1 TT
9591802 TCTTCTTTCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (63 bp):
TTCCTATAAATAGGAATGAGATTTCATTTGGAAAACACACCAACAAATTCTAATATTCTTTCT
Found at i:9612464 original size:12 final size:11
Alignment explanation
Indices: 9612424--9612471 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
9612414 ACAGTAGTGA
9612424 GTTTTTTTTTT
1 GTTTTTTTTTT
*
9612435 CTTTTTCTTTTT
1 GTTTTT-TTTTT
*
9612447 CTTTTTCTTTTTT
1 -GTTTT-TTTTTT
9612460 GTTTTTTTTTT
1 GTTTTTTTTTT
9612471 G
1 G
9612472 GGGGTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 12 0.39
12 9 0.29
13 9 0.29
14 1 0.03
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.85
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:9612470 original size:6 final size:6
Alignment explanation
Indices: 9612425--9612458 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
9612415 CAGTAGTGAG
9612425 TTTTT- TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
9612459 TGTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:9617448 original size:18 final size:18
Alignment explanation
Indices: 9617419--9617468 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
9617409 AACCCAGATG
*
9617419 TTATTAAATTTTATATTA
1 TTATTAATTTTTATATTA
*
9617437 TTTTTAATTTTTA-A-T-
1 TTATTAATTTTTATATTA
9617452 TTATTAATTTTT-TATTA
1 TTATTAATTTTTATATTA
9617469 AGATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 1 0.04
18 11 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTAATTTTTATATTA
Found at i:9617503 original size:16 final size:15
Alignment explanation
Indices: 9617461--9617503 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
9617451 TTTATTAATT
9617461 TTTTATTAAGATTTAA
1 TTTTATTAA-ATTTAA
*
9617477 TTTTATT-AATTTTA
1 TTTTATTAAATTTAA
9617491 TTTTATATAAATT
1 TTTTAT-TAAATT
9617504 ACATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTTATTAAATTTAA
Found at i:9626717 original size:4 final size:4
Alignment explanation
Indices: 9626708--9626732 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9626698 TCAGGACCTA
9626708 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
9626733 AAAATAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:9627831 original size:18 final size:18
Alignment explanation
Indices: 9627802--9627851 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
9627792 AACCCAGATG
*
9627802 TTATTAAATTTTATATTA
1 TTATTAATTTTTATATTA
*
9627820 TTTTTAATTTTTA-A-T-
1 TTATTAATTTTTATATTA
9627835 TTATTAATTTTT-TATTA
1 TTATTAATTTTTATATTA
9627852 AGATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 1 0.04
18 11 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTAATTTTTATATTA
Found at i:9627886 original size:16 final size:15
Alignment explanation
Indices: 9627844--9627886 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
9627834 TTTATTAATT
9627844 TTTTATTAAGATTTAA
1 TTTTATTAA-ATTTAA
*
9627860 TTTTATT-AATTTTA
1 TTTTATTAAATTTAA
9627874 TTTTATATAAATT
1 TTTTAT-TAAATT
9627887 ACATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTTATTAAATTTAA
Found at i:9637094 original size:4 final size:4
Alignment explanation
Indices: 9637085--9637109 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9637075 TCAGGACCTA
9637085 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
9637110 AAAATAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:9638206 original size:18 final size:18
Alignment explanation
Indices: 9638177--9638226 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
9638167 AACCCAGATG
*
9638177 TTATTAAATTTTATATTA
1 TTATTAATTTTTATATTA
*
9638195 TTTTTAATTTTTA-A-T-
1 TTATTAATTTTTATATTA
9638210 TTATTAATTTTT-TATTA
1 TTATTAATTTTTATATTA
9638227 AGATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 1 0.04
18 11 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTAATTTTTATATTA
Found at i:9638261 original size:16 final size:15
Alignment explanation
Indices: 9638219--9638261 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
9638209 TTTATTAATT
9638219 TTTTATTAAGATTTAA
1 TTTTATTAA-ATTTAA
*
9638235 TTTTATT-AATTTTA
1 TTTTATTAAATTTAA
9638249 TTTTATATAAATT
1 TTTTAT-TAAATT
9638262 ACATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTTATTAAATTTAA
Found at i:9651558 original size:8 final size:8
Alignment explanation
Indices: 9651545--9651569 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9651535 TTTTAAAATC
9651545 ATATATAA
1 ATATATAA
9651553 ATATATAA
1 ATATATAA
9651561 ATATATAA
1 ATATATAA
9651569 A
1 A
9651570 AGTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATATAA
Found at i:9656599 original size:164 final size:164
Alignment explanation
Indices: 9656328--9656656 Score: 640
Period size: 164 Copynumber: 2.0 Consensus size: 164
9656318 TTTAACTTGG
9656328 TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
1 TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
9656393 TAGTAAAAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
66 TAGTAAAAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
9656458 GTAATGATAAGAGAGTTAAGTTTTCAAATAGAAT
131 GTAATGATAAGAGAGTTAAGTTTTCAAATAGAAT
9656492 TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
1 TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
*
9656557 TAGTAACAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
66 TAGTAAAAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
*
9656622 GTAATGATAAGAGAGTTCAGTTTTCAAATAGAAT
131 GTAATGATAAGAGAGTTAAGTTTTCAAATAGAAT
9656656 T
1 T
9656657 GAGATAATTT
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 163 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (164 bp):
TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
TAGTAAAAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
GTAATGATAAGAGAGTTAAGTTTTCAAATAGAAT
Found at i:9662855 original size:33 final size:33
Alignment explanation
Indices: 9662813--9662878 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
9662803 AACATAATAC
9662813 GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
1 GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
9662846 GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
1 GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
9662879 AAAAAATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (33 bp):
GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
Found at i:9666954 original size:33 final size:33
Alignment explanation
Indices: 9666917--9667020 Score: 97
Period size: 33 Copynumber: 3.1 Consensus size: 33
9666907 TATTTAATGG
9666917 TTATATTTAAATATTTAAAATATAATTTATATA
1 TTATATTTAAATATTTAAAATATAATTTATATA
* * *
9666950 TTATAATTAAAT-TTTATAA-ATAATTAATAT-
1 TTATATTTAAATATTTAAAATATAATTTATATA
* *
9666980 TTATTACTTAAAAATATTTAAAATTTATATTTCATATA
1 TTA-TA-TT-TAAATATTTAAAATATA-ATTT-ATATA
9667018 TTA
1 TTA
9667021 AAATATTAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
30 3 0.05
31 12 0.22
32 7 0.13
33 15 0.27
34 6 0.11
35 2 0.04
36 3 0.05
37 4 0.07
38 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (33 bp):
TTATATTTAAATATTTAAAATATAATTTATATA
Found at i:9667010 original size:30 final size:30
Alignment explanation
Indices: 9666971--9667027 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9666961 TTTTATAAAT
9666971 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
9667001 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
9667028 AACAATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:9681784 original size:16 final size:17
Alignment explanation
Indices: 9681750--9681785 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9681740 TAAATTTTAG
*
9681750 AAAAAATATTTAGTTTT
1 AAAAAATATTTAGTCTT
9681767 AAAAAATATTTA-TCTT
1 AAAAAATATTTAGTCTT
9681783 AAA
1 AAA
9681786 TTAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAAAATATTTAGTCTT
Found at i:9682521 original size:14 final size:13
Alignment explanation
Indices: 9682484--9682518 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
9682474 AAAGTTATTT
9682484 ATTTTTTTTATAA
1 ATTTTTTTTATAA
9682497 ATTTTTTTTATAA
1 ATTTTTTTTATAA
9682510 ATTTTTTTT
1 ATTTTTTTT
9682519 TATTGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTTTTATAA
Found at i:9683848 original size:45 final size:44
Alignment explanation
Indices: 9683782--9683872 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
9683772 GGATTAGAGG
*
9683782 TGTAATGAAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGAAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
9683827 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGAAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
9683871 TG
1 TG
9683873 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGAAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:9684165 original size:26 final size:25
Alignment explanation
Indices: 9684116--9684165 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
9684106 AAATCATAAT
*
9684116 AAATGATACTATAAAAGATAATTTG
1 AAATGATAATATAAAAGATAATTTG
* *
9684141 AAATGATTAATATTAAATATAATTT
1 AAATGA-TAATATAAAAGATAATTT
9684166 AATAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (25 bp):
AAATGATAATATAAAAGATAATTTG
Found at i:9687552 original size:41 final size:41
Alignment explanation
Indices: 9687501--9687683 Score: 140
Period size: 41 Copynumber: 4.5 Consensus size: 41
9687491 TTTAAATAGA
**
9687501 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAG
1 TTCACTGGCACTT-AGCCTGATAGGCTTATAGCCTAATTCAG
* * * *
9687542 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACTGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
* * * * *
9687583 TTCACTGGCACTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACTGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
* * * * * *
9687624 TTCACCGGCATTTAGCCTGCTA-GATGTATAGTCC-GATTCAA
1 TTCACTGGCACTTAGCCTGATAGGCT-TATAG-CCTAATTCAG
*
9687665 TTCACCGGCACTTAGCCTG
1 TTCACTGGCACTTAGCCTG
9687684 CTAGACGTAT
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 119 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (41 bp):
TTCACTGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
Found at i:9687639 original size:82 final size:82
Alignment explanation
Indices: 9687500--9687697 Score: 240
Period size: 82 Copynumber: 2.4 Consensus size: 82
9687490 ATTTAAATAG
* * * ** *
9687500 ATTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAGTTCACCGGCACTTAGCCTGCTA
1 ATTCACTGGCACTT-AGCCTGCTAGACGTATAGTCCAATTCAATTCACCGGCACTTAGCCTGCTA
* *
9687564 GGCT-TGTAG-CCTGATTCA
65 -GATGTATAGTCC-GATTCA
* * *
9687582 GTTCACTGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAATTCACCGGCATTTAGCCTGCTAG
1 ATTCACTGGCACTTAGCCTGCTAGACGTATAGTCCAATTCAATTCACCGGCACTTAGCCTGCTAG
9687647 ATGTATAGTCCGATTCA
66 ATGTATAGTCCGATTCA
*
9687664 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCACTGGCACTTAGCCTGCTAGACGTATAGTC
9687698 TGAATAATTT
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
81 3 0.03
82 95 0.95
83 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (82 bp):
ATTCACTGGCACTTAGCCTGCTAGACGTATAGTCCAATTCAATTCACCGGCACTTAGCCTGCTAG
ATGTATAGTCCGATTCA
Found at i:9687710 original size:41 final size:41
Alignment explanation
Indices: 9687536--9687697 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
9687526 TTATAGTTTA
* * * *
9687536 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
* *
9687577 ATTCAGTTCACTGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
* *
9687618 ATTCAATTCACCGGCATTTAGCCTGCTAGATGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
9687659 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
9687698 TGAATAATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 108 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:9687710 original size:82 final size:82
Alignment explanation
Indices: 9687542--9687715 Score: 228
Period size: 82 Copynumber: 2.1 Consensus size: 82
9687532 TTTAATTCAG
* * * *
9687542 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACTGGCACTTAGCCTGCTAGA
1 TTCACCGGCACTTAGCCTGCTAGGATTATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGA
*
9687607 CGTATAGTCCGATTCAA
66 CGTATAGTCCGAATCAA
*
9687624 TTCACCGGCATTTAGCCTGCTA-GATGTATAGTCC-GATTCAATTCACCGGCACTTAGCCTGCTA
1 TTCACCGGCACTTAGCCTGCTAGGAT-TATAG-CCTGATTCAATTCACCGGCACTTAGCCTGCTA
*
9687687 GACGTATAGTCTGAAT-AA
64 GACGTATAGTCCGAATCAA
*
9687705 TTTCACTGGCA
1 -TTCACCGGCA
9687716 ATAAATCCGA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
81 4 0.05
82 75 0.93
83 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGGATTATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGA
CGTATAGTCCGAATCAA
Found at i:9689365 original size:13 final size:13
Alignment explanation
Indices: 9689347--9689371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9689337 CAATTAAATG
9689347 CACACAAAATAAA
1 CACACAAAATAAA
9689360 CACACAAAATAA
1 CACACAAAATAA
9689372 TATTAATAAT
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:9690066 original size:19 final size:19
Alignment explanation
Indices: 9690042--9690080 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9690032 GTAGAAGGAA
9690042 GGAACAAAAGAGGCAAAGG
1 GGAACAAAAGAGGCAAAGG
* *
9690061 GGAACAGAAGAGGCAGAGG
1 GGAACAAAAGAGGCAAAGG
9690080 G
1 G
9690081 TAAAACAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.44, T:0.00
Consensus pattern (19 bp):
GGAACAAAAGAGGCAAAGG
Found at i:9703794 original size:16 final size:17
Alignment explanation
Indices: 9703768--9703802 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9703758 TCTATATTTT
*
9703768 ATTTGTTTTCAGATAAA
1 ATTTGTTTTCAAATAAA
9703785 ATTT-TTTTCAAATAAA
1 ATTTGTTTTCAAATAAA
9703801 AT
1 AT
9703803 ATTAATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTGTTTTCAAATAAA
Found at i:9711244 original size:34 final size:34
Alignment explanation
Indices: 9711194--9711276 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
9711184 CAAACATTTC
* * *
9711194 AACAATTGATTCAAAAGAAATAATATTTTAATAT
1 AACAATCGATTTAAAAGAAATAATATTCTAATAT
* *
9711228 AACAATCGATTTAAAAGGAGTAATATTCTAATAT
1 AACAATCGATTTAAAAGAAATAATATTCTAATAT
*
9711262 GACAATCGATTTAAA
1 AACAATCGATTTAAA
9711277 CATAAAAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (34 bp):
AACAATCGATTTAAAAGAAATAATATTCTAATAT
Found at i:9732721 original size:29 final size:27
Alignment explanation
Indices: 9732682--9732782 Score: 95
Period size: 29 Copynumber: 3.9 Consensus size: 27
9732672 TATGTTGTAA
*
9732682 ATTTTTATATATTTTTCATAATATTAT
1 ATTTTTATATATTTTTAATAATATTAT
** *
9732709 AGTCTTTTATATATTTTTAATTGTA-TGT
1 A-T-TTTTATATATTTTTAATAATATTAT
* *
9732737 ATTTTTATATATTTTTTATAAAATTAT
1 ATTTTTATATATTTTTAATAATATTAT
9732764 A---TTATATATTTTTAA-AATA
1 ATTTTTATATATTTTTAATAATA
9732783 ATAATAACAA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.05
24 13 0.22
26 17 0.28
27 5 0.08
28 4 0.07
29 18 0.30
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (27 bp):
ATTTTTATATATTTTTAATAATATTAT
Found at i:9734367 original size:22 final size:26
Alignment explanation
Indices: 9734308--9734429 Score: 152
Period size: 22 Copynumber: 4.9 Consensus size: 26
9734298 ATATCCCGAC
9734308 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TATAAT
9734335 ATTACAATATTCATAC-AAA-A-AA-
1 ATTACAATATTCATACAAAATATAAT
*
9734357 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TATAAT
9734384 ATTACAATATTCATAC-AAA-A-AA-
1 ATTACAATATTCATACAAAATATAAT
*
9734406 ATTACAATATTCATACTAAATATA
1 ATTACAATATTCATACAAAATATA
9734430 GATAATCTAT
Statistics
Matches: 85, Mismatches: 2, Indels: 18
0.81 0.02 0.17
Matches are distributed among these distances:
22 31 0.36
23 10 0.12
24 3 0.04
25 2 0.02
26 8 0.09
27 31 0.36
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATATAAT
Found at i:9734375 original size:49 final size:49
Alignment explanation
Indices: 9734255--9734426 Score: 226
Period size: 49 Copynumber: 3.6 Consensus size: 49
9734245 AATTAATTAT
* *
9734255 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTATAATATTACAATATTCATAC
*** *
9734303 -CCGACATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
9734351 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
9734400 AAAAAAATTACAATATTCATACTAAAT
1 AAAAAAATTACAATATTCATACAAAAT
9734427 ATAGATAATC
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
45 19 0.18
46 1 0.01
47 18 0.17
48 1 0.01
49 68 0.64
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
Found at i:9734500 original size:27 final size:27
Alignment explanation
Indices: 9734462--9734518 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
9734452 ATAACAAAAA
9734462 AATATTGCAATTTTATATGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
* * *
9734489 AATATTGTAATTTTGTGTGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
9734516 AAT
1 AAT
9734519 GTCGGGATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (27 bp):
AATATTGCAATTTTATATGAATATTGT
Found at i:9734733 original size:8 final size:8
Alignment explanation
Indices: 9734720--9734783 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
9734710 AATTTGTATG
9734720 AATATTGT
1 AATATTGT
9734728 AATATTGT
1 AATATTGT
*
9734736 AATTTTGTAT
1 AATATTG--T
9734746 GAATATTGT
1 -AATATTGT
* *
9734755 AATATCGGG
1 AATAT-TGT
9734764 ACATATTGT
1 A-ATATTGT
9734773 AATATTGT
1 AATATTGT
9734781 AAT
1 AAT
9734784 TTTTTGTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
8 29 0.64
9 5 0.11
10 5 0.11
11 6 0.13
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (8 bp):
AATATTGT
Found at i:9734947 original size:19 final size:19
Alignment explanation
Indices: 9734923--9734963 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9734913 ACAAACACAA
* *
9734923 AAATTTATAATATAATCCT
1 AAATTTATAACATAACCCT
9734942 AAATTTATAACATAACCCT
1 AAATTTATAACATAACCCT
9734961 AAA
1 AAA
9734964 CTCGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTTATAACATAACCCT
Found at i:9735113 original size:20 final size:20
Alignment explanation
Indices: 9735076--9735113 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9735066 GGGAAAGTAT
*
9735076 AAAATTATATTTTATTTAAA
1 AAAATTATATTATATTTAAA
9735096 AAAATTATTATTAT-TTTA
1 AAAATTA-TATTATATTTA
9735114 TTCATTTGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAATTATATTATATTTAAA
Found at i:9751473 original size:15 final size:16
Alignment explanation
Indices: 9751453--9751483 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9751443 TTTAAGTTTA
9751453 TATAATA-TTTTATAT
1 TATAATATTTTTATAT
9751468 TATAATATTTTTATAT
1 TATAATATTTTTATAT
9751484 ATTATGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATAATATTTTTATAT
Found at i:9751845 original size:14 final size:13
Alignment explanation
Indices: 9751814--9751843 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9751804 AGGATATTAG
9751814 AAAATTACTTTAA
1 AAAATTACTTTAA
*
9751827 AAAATTCCTTTAA
1 AAAATTACTTTAA
9751840 AAAA
1 AAAA
9751844 ATGGATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTACTTTAA
Found at i:9753787 original size:2 final size:2
Alignment explanation
Indices: 9753782--9753816 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9753772 GGATATAAAT
9753782 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9753817 AGGTCCCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9759117 original size:22 final size:22
Alignment explanation
Indices: 9759073--9759117 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9759063 CATATGATTA
*
9759073 TTTAAAATTAAAAAAATACAAT
1 TTTAAAATTAAAAAAATAAAAT
* * *
9759095 TTTAAATTTCAAAAACTAAAAT
1 TTTAAAATTAAAAAAATAAAAT
9759117 T
1 T
9759118 AACATAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATTAAAAAAATAAAAT
Found at i:9759633 original size:17 final size:19
Alignment explanation
Indices: 9759613--9759650 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
9759603 TTAAAACTTT
*
9759613 TAAAAGA-AATTAT-TTTA
1 TAAAAGATAAATATATTTA
9759630 TAAAAGATAAATATATTTA
1 TAAAAGATAAATATATTTA
9759649 TA
1 TA
9759651 TATTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 5 0.28
19 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAAAGATAAATATATTTA
Found at i:9766473 original size:17 final size:16
Alignment explanation
Indices: 9766445--9766497 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
9766435 TTTGGTTCGC
9766445 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9766461 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
9766478 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9766494 TGTA
1 TGTA
9766498 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9766562 original size:44 final size:45
Alignment explanation
Indices: 9766478--9766568 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
9766468 GGATTAGAGG
* * *
9766478 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
9766523 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
9766567 TG
1 TG
9766569 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:9766750 original size:16 final size:16
Alignment explanation
Indices: 9766713--9766767 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9766703 TTAATCATAT
*
9766713 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
9766729 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
9766744 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
9766762 -TAAAAT
1 TTAAAAT
9766768 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:9766760 original size:18 final size:18
Alignment explanation
Indices: 9766719--9766767 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
9766709 ATATTTAAAC
9766719 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
9766737 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
9766753 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
9766768 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:9766998 original size:14 final size:15
Alignment explanation
Indices: 9766949--9767000 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9766939 ATAAAATATA
9766949 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9766964 TATTAAATATATTAT
1 AATTAAATATATTAT
9766979 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9766992 AATTTAATA
1 AATTAAATA
9767001 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9767109 original size:16 final size:17
Alignment explanation
Indices: 9767084--9767124 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
9767074 AAATAATTAA
9767084 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
9767099 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
9767117 AA-TAAAAT
1 AATTAAAAT
9767125 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:9767136 original size:120 final size:120
Alignment explanation
Indices: 9766716--9767125 Score: 702
Period size: 120 Copynumber: 3.4 Consensus size: 120
9766706 ATCATATTTA
*
9766716 AACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
9766781 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
9766836 AACATAA-T-T-ATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
9766898 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
9766953 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * *
9767018 TATTCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA-ATT
* * *
9767074 AA-ATAATTAAAATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
9767126 TAAAATAATT
Statistics
Matches: 277, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
117 114 0.41
118 2 0.01
119 2 0.01
120 155 0.56
121 4 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:9772824 original size:5 final size:5
Alignment explanation
Indices: 9772816--9772843 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9772806 AATATATAAT
9772816 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
9772844 ATAGATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTA
Found at i:9784569 original size:21 final size:21
Alignment explanation
Indices: 9784528--9784571 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9784518 ATTACATCTA
*
9784528 TATAAATATAAGTTTTAAATT
1 TATAAATATAAGTTTAAAATT
*
9784549 TATAAAT-TAGGTTTAATAATT
1 TATAAATATAAGTTTAA-AATT
9784570 TA
1 TA
9784572 ATTTAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (21 bp):
TATAAATATAAGTTTAAAATT
Found at i:9791618 original size:6 final size:6
Alignment explanation
Indices: 9791607--9791631 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9791597 ATATATTTTG
9791607 CAAAAC CAAAAC CAAAAC CAAAAC C
1 CAAAAC CAAAAC CAAAAC CAAAAC C
9791632 GTCTTTGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAC
Found at i:9791666 original size:15 final size:16
Alignment explanation
Indices: 9791634--9791668 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9791624 CCAAAACCGT
9791634 CTTTGCCTTTGCCTTC
1 CTTTGCCTTTGCCTTC
*
9791650 CTTTGCC-TTGTCTTC
1 CTTTGCCTTTGCCTTC
9791665 CTTT
1 CTTT
9791669 ACTTTAACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.00, C:0.34, G:0.11, T:0.54
Consensus pattern (16 bp):
CTTTGCCTTTGCCTTC
Found at i:9797409 original size:3 final size:3
Alignment explanation
Indices: 9797401--9797428 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9797391 GTGAATGTGT
9797401 CTC CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC C
9797429 CATCTTGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:9814458 original size:18 final size:18
Alignment explanation
Indices: 9814435--9814472 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9814425 CTCACCTGCA
9814435 TATTCACAAGCCATATAG
1 TATTCACAAGCCATATAG
*
9814453 TATTCACAAGCCATGTAG
1 TATTCACAAGCCATATAG
9814471 TA
1 TA
9814473 CTCTGTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (18 bp):
TATTCACAAGCCATATAG
Found at i:9824420 original size:23 final size:23
Alignment explanation
Indices: 9824394--9824439 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9824384 AATCCTAATA
9824394 CTAAACCATTAATAAACTAAAAG
1 CTAAACCATTAATAAACTAAAAG
9824417 CTAAACCATTAATAAACTAAAAG
1 CTAAACCATTAATAAACTAAAAG
9824440 ATTTAGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.22
Consensus pattern (23 bp):
CTAAACCATTAATAAACTAAAAG
Found at i:9828463 original size:23 final size:22
Alignment explanation
Indices: 9828436--9828484 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
9828426 ACTTTAGTCC
9828436 TTAGT-TTTGAATTGATTGTAAAT
1 TTAGTCTTTGAA-TG-TTGTAAAT
*
9828459 TTAGTCCTTTGAATGTTGTAATT
1 TTAGT-CTTTGAATGTTGTAAAT
9828482 TTA
1 TTA
9828485 ATGCGATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 2 0.09
25 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (22 bp):
TTAGTCTTTGAATGTTGTAAAT
Found at i:9828871 original size:14 final size:16
Alignment explanation
Indices: 9828832--9828871 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9828822 TCATATATAC
9828832 ATTCTTTAATATTTTT
1 ATTCTTTAATATTTTT
*
9828848 ATTCTATAATA-TTTT
1 ATTCTTTAATATTTTT
9828863 -TTCTTTAAT
1 ATTCTTTAAT
9828872 TTCACTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTCTTTAATATTTTT
Found at i:9834770 original size:121 final size:121
Alignment explanation
Indices: 9834556--9834798 Score: 468
Period size: 121 Copynumber: 2.0 Consensus size: 121
9834546 TCGAGTATCA
*
9834556 CATTTAAGTCTGATCACATTCAACCTTAATACACACACCTAGGTACATGCCATTTACTGAAACAA
1 CATTTAAGTCTGATCACATTCAACCTTAATACACACACCTAGATACATGCCATTTACTGAAACAA
9834621 CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
66 CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
*
9834677 CATTTAAGTCTGATCACATTTAACCTTAATACACACACCTAGATACATGCCATTTACTGAAACAA
1 CATTTAAGTCTGATCACATTCAACCTTAATACACACACCTAGATACATGCCATTTACTGAAACAA
9834742 CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
66 CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
9834798 C
1 C
9834799 TTCAATCTTC
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (121 bp):
CATTTAAGTCTGATCACATTCAACCTTAATACACACACCTAGATACATGCCATTTACTGAAACAA
CAGAAATTAATACTTTACCCCTTTCTCGGATCCACTGATGTGATGAGATGAGGTGC
Found at i:9836372 original size:13 final size:13
Alignment explanation
Indices: 9836354--9836378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9836344 TAAAAATATA
9836354 TTTTTATTTTTAT
1 TTTTTATTTTTAT
9836367 TTTTTATTTTTA
1 TTTTTATTTTTA
9836379 AAATACTTTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:9836399 original size:29 final size:30
Alignment explanation
Indices: 9836346--9836420 Score: 100
Period size: 30 Copynumber: 2.4 Consensus size: 30
9836336 GAATTTAATA
9836346 AAAATATATTTTTATTTT-TATTTTTTATTTTT
1 AAAAT-TATTTTT-TTTTAT-TTTTTTATTTTT
9836378 AAAA-TACTTTTTTTTTATTTTTTTATTTTT
1 AAAATTA-TTTTTTTTTATTTTTTTATTTTT
9836408 AAAATTATTTTTT
1 AAAATTATTTTTT
9836421 GGTGTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
30 28 0.70
31 8 0.20
32 4 0.10
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (30 bp):
AAAATTATTTTTTTTTATTTTTTTATTTTT
Found at i:9836748 original size:31 final size:31
Alignment explanation
Indices: 9836710--9836772 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
9836700 AACACAATTT
9836710 ATAATTATTACCAATCACATACCATACATAC
1 ATAATTATTACCAATCACATACCATACATAC
*
9836741 ATAATTATTGCCAATCACATACCATACATAC
1 ATAATTATTACCAATCACATACCATACATAC
9836772 A
1 A
9836773 ATCAAAATTT
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:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (31 bp):
ATAATTATTACCAATCACATACCATACATAC
Found at i:9839166 original size:17 final size:17
Alignment explanation
Indices: 9839128--9839169 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9839118 CTACTTTCTC
9839128 TATT-TTATTATTTATG
1 TATTATTATTATTTATG
*
9839144 TTTTATTATTATTTAT-
1 TATTATTATTATTTATG
9839160 TAATTATTAT
1 T-ATTATTAT
9839170 AATTATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTATTATTATTTATG
Found at i:9842549 original size:16 final size:17
Alignment explanation
Indices: 9842528--9842559 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9842518 AAATATGCAA
9842528 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
9842544 TCACATAACTTCATAT
1 TCACATAACTTCATAT
9842560 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:9842786 original size:43 final size:43
Alignment explanation
Indices: 9842720--9842874 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
9842710 GACTCGTACA
* * *
9842720 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCACATATCA
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCACATATCG
* * *
9842763 ATGCCACTGTCCCAGGCAGGGTCTTACATG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
* * *
9842804 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATA-TCG
9842847 ATGCCAATGTCCCAGAC-GTGGTCTTACA
1 ATGCCAATGTCCCAGACAG-GGTCTTACA
9842875 CGATAACACA
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
41 28 0.30
42 13 0.14
43 52 0.55
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
Found at i:9842861 original size:84 final size:84
Alignment explanation
Indices: 9842720--9842874 Score: 206
Period size: 84 Copynumber: 1.8 Consensus size: 84
9842710 GACTCGTACA
* * * * * *
9842720 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAGGCAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCAATGTCCCAGAC-GTGG
9842784 TCTTACATGAATCAAATACG
65 TCTTACATGAATCAAATACG
* *
9842804 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAATGTCCCAGACGTGG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCCAATGTCCCAGACGTGG
9842868 TCTTACA
65 TCTTACA
9842875 CGATAACACA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 2 0.03
84 59 0.97
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCAATGTCCCAGACGTGGT
CTTACATGAATCAAATACG
Found at i:9846978 original size:18 final size:18
Alignment explanation
Indices: 9846936--9846972 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9846926 GAGTTAAGAT
9846936 ATAATTT-TATCATTTTA
1 ATAATTTATATCATTTTA
*
9846953 ATAATTTATATCCTTTTA
1 ATAATTTATATCATTTTA
9846971 AT
1 AT
9846973 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTATATCATTTTA
Found at i:9847837 original size:128 final size:128
Alignment explanation
Indices: 9847666--9847957 Score: 460
Period size: 128 Copynumber: 2.3 Consensus size: 128
9847656 TTCAACATTT
*
9847666 CCTATATATTTAGTGCCCCATGTG-CCTTAACCTACACCCACAAGTTGTATTGATCTTAAGCCTT
1 CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACACCCACAAGTTGTATTGATCTTAAGCCTT
* *
9847730 TTTTCGACCAAAACCACCTCTTATTCTCACACCTATCCACCTACGTAAACTTTTTCTACACTG
66 TTCTCGACCAAAACCACCTCCTATTCTCACACCTATCCACCTACGTAAACTTTTTCTACACTG
* *
9847793 CCTATATATTTGGTGCCCTATGTGTCCTTAACCTACACCCACAAGTTGTATTTATCTTAAGCCTT
1 CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACACCCACAAGTTGTATTGATCTTAAGCCTT
* * * * * * *
9847858 TTCTCGATCAAAACCACTTCCTATTCTCACATCTATTCACCTACGTAAATTTTTTCTACATTT
66 TTCTCGACCAAAACCACCTCCTATTCTCACACCTATCCACCTACGTAAACTTTTTCTACACTG
*
9847921 CTTATATATTTAGTGCCCTATGTGTCCTTAACCTACA
1 CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACA
9847958 ATACACCTAG
Statistics
Matches: 150, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
127 22 0.15
128 128 0.85
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.37
Consensus pattern (128 bp):
CCTATATATTTAGTGCCCTATGTGTCCTTAACCTACACCCACAAGTTGTATTGATCTTAAGCCTT
TTCTCGACCAAAACCACCTCCTATTCTCACACCTATCCACCTACGTAAACTTTTTCTACACTG
Found at i:9849840 original size:18 final size:19
Alignment explanation
Indices: 9849806--9849864 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
9849796 AATTAAGTTT
9849806 ATTTAAAATACAAATATTAA
1 ATTTAAAATA-AAATATTAA
9849826 ATTTAAAAT-AAATA-TAA
1 ATTTAAAATAAAATATTAA
**
9849843 AAATAAAATAAAATATTTAA
1 ATTTAAAATAAAATA-TTAA
9849863 AT
1 AT
9849865 ATTTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 10 0.30
18 10 0.30
20 13 0.39
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTTAAAATAAAATATTAA
Found at i:9849865 original size:18 final size:18
Alignment explanation
Indices: 9849809--9849865 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
9849799 TAAGTTTATT
9849809 TAAAATACAAATA-TTAAA
1 TAAAATA-AAATATTTAAA
**
9849827 TTTAAAAT-AAATATAAAAA
1 --TAAAATAAAATATTTAAA
9849846 TAAAATAAAATATTTAAA
1 TAAAATAAAATATTTAAA
9849864 TA
1 TA
9849866 TTTAAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 6 0.19
18 16 0.52
19 3 0.10
20 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATAAAATATTTAAA
Found at i:9850146 original size:22 final size:22
Alignment explanation
Indices: 9850118--9850180 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
9850108 TTAGAATTAT
9850118 ATATTTTATAATTT-TATTAAAA
1 ATATTTTATAATTTCT-TTAAAA
*
9850140 ATATTTT-TAAATATTCTTTACAA
1 ATATTTTAT-AAT-TTCTTTAAAA
*
9850163 A-ATTTTATAATTTATTTA
1 ATATTTTATAATTTCTTTA
9850181 TATGTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 7 0.20
22 18 0.51
23 9 0.26
24 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTTTATAATTTCTTTAAAA
Found at i:9852682 original size:17 final size:18
Alignment explanation
Indices: 9852652--9852697 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
9852642 ATTTAAATTG
9852652 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
9852670 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
9852686 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
9852698 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:9855617 original size:39 final size:37
Alignment explanation
Indices: 9855570--9855732 Score: 93
Period size: 39 Copynumber: 4.3 Consensus size: 37
9855560 TTATTGTTAC
9855570 TTAG-TATTATTGTTAGTAAAAAATTAATATTATTATGG
1 TTAGTTATTATTGTTAGTAAAAAATTAATATTATT-T-G
* **
9855608 TTAGTTATTA-GGATTAGTAAAAACCCTAATTATTATTTTAG
1 TTAGTTATTATTG-TTAGTAAAAA-ATTAA-TATTA-TTT-G
* *** *
9855649 TTAG-TATGATTGTTAGTTTTTACATT-ATATTA-TTG
1 TTAGTTATTATTGTTAG-TAAAAAATTAATATTATTTG
* ** *
9855684 TTAGTTATTATTTTTAGTAAAACCCTTATTATTATTGTG
1 TTAGTTATTATTGTTAGTAAAA-AATTAATATTATT-TG
9855723 TTAGTTATTA
1 TTAGTTATTA
9855733 GGATTAGTGG
Statistics
Matches: 94, Mismatches: 19, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
35 7 0.07
36 15 0.16
37 5 0.05
38 11 0.12
39 28 0.30
40 12 0.13
41 14 0.15
42 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (37 bp):
TTAGTTATTATTGTTAGTAAAAAATTAATATTATTTG
Found at i:9855740 original size:39 final size:38
Alignment explanation
Indices: 9855597--9855740 Score: 102
Period size: 39 Copynumber: 3.8 Consensus size: 38
9855587 AAAAAATTAA
9855597 TATTATTATG-GTTAGTTATTAGGATTAGTAAAAACCCT
1 TATTATTATGTGTTAGTTATTAGGATTAGT-AAAACCCT
* * * *** *
9855635 AATTATTAT-T-TTAGTTAGTATGATTGTTAGTTTTTA-CAT
1 TATTATTATGTGTTAGTTATTAGGA---TTAG-TAAAACCCT
***
9855674 TA-TATTAT-TGTTAGTTATTATTTTTAGTAAAACCCT
1 TATTATTATGTGTTAGTTATTAGGATTAGTAAAACCCT
9855710 TATTATTATTGTGTTAGTTATTAGGATTAGT
1 TATTATTA-TGTGTTAGTTATTAGGATTAGT
9855741 GGTTAAACGT
Statistics
Matches: 78, Mismatches: 18, Indels: 19
0.68 0.16 0.17
Matches are distributed among these distances:
35 2 0.03
36 8 0.10
37 16 0.21
38 16 0.21
39 30 0.38
40 5 0.06
41 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (38 bp):
TATTATTATGTGTTAGTTATTAGGATTAGTAAAACCCT
Found at i:9860143 original size:8 final size:8
Alignment explanation
Indices: 9860130--9860165 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
9860120 AATAAAAATA
9860130 TATTATTT
1 TATTATTT
9860138 TATTATTT
1 TATTATTT
9860146 TATTATTT
1 TATTATTT
9860154 TACATTATTT
1 T--ATTATTT
9860164 TA
1 TA
9860166 GTAAATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 18 0.69
10 8 0.31
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTATTT
Found at i:9860640 original size:314 final size:306
Alignment explanation
Indices: 9859900--9860817 Score: 1144
Period size: 314 Copynumber: 3.0 Consensus size: 306
9859890 TGCAACTTCA
* * * *
9859900 AAATAAA-TTTAGTAAAAAACCATTATTTCGGCCCTTTGTTCATATTTTTTTCCCGGATTTTATT
1 AAATAAATTTTA-AAAAAAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCGGATTTTATT
* * * *
9859964 AC-TT-TAAAAAATATACTATTTTTAAATTTTATTATTTTACATTGTTTTAGTACATTATATTTG
65 ACTTTATAAAAAATATATTA-TTTTATATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
* *
9860027 AAATGTATTAATTTA--GT-TTTTTTAAATAAATTTTAAAAAAACCCTTATTTCGGTCCTTTGTT
129 AAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCCTTATTTC-GACCTTTGTT
* * * *
9860089 CGTATTTTTTTTCTCGGATTTTATTACTTTCAATAAAAATATATTATTTTATTATTTTATTATTT
193 CGTATTTTTTTCCT-GAATTTTATTACTTTTAA-AAAAATATATTATTTT-CTATTTTATTATTT
* *
9860154 TACATTATTTTAGTAAATTATGTTTGAAATGTATTAATTTA-TTGTTTTTTT
255 TACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTTGTGTTTTT
*
9860205 AAATAAATTTTAAAAAAAACCCTTATTTC-GTCCCTTTGTTCGTATTTTTTTTGCCGGATTTTAT
1 AAATAAATTTTAAAAAAAACCCTTATTTCGGT-CCTTTGTTCGTA-TTTTTTTCCCGGATTTTAT
*
9860269 TACTTTA-AAAATATATATTCTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGT
64 TACTTTATAAAAAATATA-T-TATTTTAT-ATTTTATTATTTTACATTATTTTAGTACATTATGT
9860333 TTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAAAAAATAACCCTTATTTCGACCAT
126 TTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTT-AAAAAA-AACCCTTATTTCGACC-T
* * * *
9860398 TTATTCATATTTTTTTCCTGAATTTTATTACTTTTTAAAAAATATACTATTTTCTAATTTTATTA
188 TTGTTCGTATTTTTTTCCTGAATTTTATTACTTTTAAAAAAATATATTATTTTCT-ATTTTATTA
* * *
9860463 TTTTATATTATTTTAATACTTTATGTTTGAAATGTATTAATTTAGTGTGTGTTTTT
252 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT-TGTGTTTTT
* **
9860519 AAATAAATTTTAAAAAATAACCCTTATTTCGGTCCTTTGTTCGTA-TTTTTCCCCAAATTTTATT
1 AAATAAATTTTAAAAAA-AACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCGGATTTTATT
* * *
9860583 ACTTTCAATAAAAAAGATATTATTTTCGTATTTTATTATTTTAGATTATTTTAGTACATTATGTT
65 ACTTT--ATAAAAAATATATTATTTT-ATATTTTATTATTTTACATTATTTTAGTACATTATGTT
* * *
9860648 TGAAATGTATTAATTTAGTGTGTGTTTTAAATAAATTTAGTAAAAAACCCTTATTTCGGCC-TTG
127 TGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTA-AAAAAAACCCTTATTTCGACCTTTG
* * ** * * *
9860712 TTCGTATTTTTTACC-AAAGCCTCATT--GTTTCAAAAAATATATTATTTTCGTATTTTATTATT
191 TTCGTATTTTTTTCCTGAA-TTTTATTACTTTTAAAAAAATATATTATTTTC-TATTTTATTATT
* *
9860774 TTACGTTATTTTAGTACATTATGTTTGAAATGCATTAATTTAGT
254 TTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT
9860818 AAAAAACTCT
Statistics
Matches: 536, Mismatches: 51, Indels: 48
0.84 0.08 0.08
Matches are distributed among these distances:
304 1 0.00
305 33 0.06
306 25 0.05
307 11 0.02
308 5 0.01
309 123 0.23
310 3 0.01
311 22 0.04
312 80 0.15
313 60 0.11
314 136 0.25
315 27 0.05
316 10 0.02
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.51
Consensus pattern (306 bp):
AAATAAATTTTAAAAAAAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCGGATTTTATTA
CTTTATAAAAAATATATTATTTTATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
ATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAACCCTTATTTCGACCTTTGTTCGT
ATTTTTTTCCTGAATTTTATTACTTTTAAAAAAATATATTATTTTCTATTTTATTATTTTACATT
ATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTTGTGTTTTT
Found at i:9860645 original size:158 final size:155
Alignment explanation
Indices: 9859900--9860817 Score: 1115
Period size: 156 Copynumber: 5.9 Consensus size: 155
9859890 TGCAACTTCA
* * * * *
9859900 AAATAAA-TTTAGTAAAAAACCATTATTTCGGCCCTTTGTTCATATTTTTTTCCCGGATTTTATT
1 AAATAAATTTTA-AAAAAAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCGAATTTTATT
* * * * *
9859964 AC-TT-TAAAAAATATACTATTTTTAAATTTTATTATTTTACATTGTTTTAGTACATTATATTTG
65 ACTTTATAAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
9860027 AAATGTATTAATTTA--GT-TTTTTT
130 AAATGTATTAATTTAGTGTGTTTTTT
* *
9860050 AAATAAATTTT-AAAAAAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTTCTCGGATTTTATT
1 AAATAAATTTTAAAAAAAACCCTTATTTCGGTCCTTTGTTCGTA-TTTTTTTCCCGAATTTTATT
*
9860114 ACTTTCA-ATAAAAATATATTATTTT-ATTATTTTATTATTTTACATTATTTTAGTAAATTATGT
65 ACTTT-ATA-AAAAATATATTATTTTCA-TATTTTATTATTTTACATTATTTTAGTACATTATGT
*
9860177 TTGAAATGTATTAATTTATTGT-TTTTTT
127 TTGAAATGTATTAATTTAGTGTGTTTTTT
* *
9860205 AAATAAATTTTAAAAAAAACCCTTATTTC-GTCCCTTTGTTCGTATTTTTTTTGCCGGATTTTAT
1 AAATAAATTTTAAAAAAAACCCTTATTTCGGT-CCTTTGTTCGTA-TTTTTTTCCCGAATTTTAT
*
9860269 TACTTTA-AAAATATATATTCTATTTT-ATAATTTTATTATTTTACATTATTTTAGTACATTATG
64 TACTTTATAAAAAATATA-T-TATTTTCAT-ATTTTATTATTTTACATTATTTTAGTACATTATG
9860332 TTTGAAATGTATTAATTTAGTGTGTTTTTT
126 TTTGAAATGTATTAATTTAGTGTGTTTTTT
* * * * *
9860362 AAATAAATTTCAAAAAATAACCCTTATTTC-GACCATTTATTCATATTTTTTTCCTGAATTTTAT
1 AAATAAATTTTAAAAAA-AACCCTTATTTCGGTCC-TTTGTTCGTATTTTTTTCCCGAATTTTAT
* * * * *
9860426 TACTTTTTAAAAAATATACTATTTTC-TAATTTTATTATTTTATATTATTTTAATACTTTATGTT
64 TACTTTATAAAAAATATATTATTTTCAT-ATTTTATTATTTTACATTATTTTAGTACATTATGTT
9860490 TGAAATGTATTAATTTAGTGTGTGTTTTT
128 TGAAATGTATTAATTTAGTGTGT-TTTTT
* *
9860519 AAATAAATTTTAAAAAATAACCCTTATTTCGGTCCTTTGTTCGTA-TTTTTCCCCAAATTTTATT
1 AAATAAATTTTAAAAAA-AACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCGAATTTTATT
* * *
9860583 ACTTTCAATAAAAAAGATATTATTTTCGTATTTTATTATTTTAGATTATTTTAGTACATTATGTT
65 ACTTT--ATAAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTT
*
9860648 TGAAATGTATTAATTTAGTGTGTGTTTT
128 TGAAATGTATTAATTTAGTGTGTTTTTT
* * * ** *
9860676 AAATAAA-TTTAGTAAAAAACCCTTATTTCGG-CC-TTGTTCGTA-TTTTTTACCAAAGCCTCAT
1 AAATAAATTTTA-AAAAAAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCGAA-TTTTAT
* * * *
9860737 T-GTTT-CAAAAAATATATTATTTTCGTATTTTATTATTTTACGTTATTTTAGTACATTATGTTT
64 TACTTTATAAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTT
*
9860800 GAAATGCATTAATTTAGT
129 GAAATGTATTAATTTAGT
9860818 AAAAAACTCT
Statistics
Matches: 688, Mismatches: 54, Indels: 51
0.87 0.07 0.06
Matches are distributed among these distances:
149 28 0.04
150 28 0.04
151 76 0.11
152 2 0.00
153 65 0.09
154 30 0.04
155 31 0.05
156 218 0.32
157 103 0.15
158 106 0.15
159 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.51
Consensus pattern (155 bp):
AAATAAATTTTAAAAAAAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCGAATTTTATTA
CTTTATAAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
AATGTATTAATTTAGTGTGTTTTTT
Found at i:9860772 original size:16 final size:18
Alignment explanation
Indices: 9860751--9860786 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
9860741 TCAAAAAATA
9860751 TATTATTTT-CG-TATTT
1 TATTATTTTACGTTATTT
9860767 TATTATTTTACGTTATTT
1 TATTATTTTACGTTATTT
9860785 TA
1 TA
9860787 GTACATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (18 bp):
TATTATTTTACGTTATTT
Found at i:9861114 original size:26 final size:27
Alignment explanation
Indices: 9861060--9861114 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
9861050 GGGTTTTTTC
* * * *
9861060 ATGCTAAATAAATTTCATAAAATATAT
1 ATGCTAAATAAATATAATAAAACACAT
9861087 ATGCTAAATAAA-ATAATAAAACACAT
1 ATGCTAAATAAATATAATAAAACACAT
9861113 AT
1 AT
9861115 AATGTACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (27 bp):
ATGCTAAATAAATATAATAAAACACAT
Found at i:9861241 original size:5 final size:5
Alignment explanation
Indices: 9861231--9861282 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
9861221 CTTCTTCTTC
* * * *
9861231 TCCTT TCCTT TTCTT TCTTT TTCTT T-CTT CTCCTT TCCTT TCCTT TTCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT
9861281 TC
1 TC
9861283 TTTTTCTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
4 3 0.08
5 32 0.84
6 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:9861252 original size:10 final size:10
Alignment explanation
Indices: 9861233--9861290 Score: 53
Period size: 10 Copynumber: 5.3 Consensus size: 10
9861223 TCTTCTTCTC
*
9861233 CTTTCCTTTT
1 CTTTCTTTTT
9861243 CTTTCTTTTT
1 CTTTCTTTTT
9861253 CTTTCTTCTCCTTT
1 CTTTC-T-T--TTT
*
9861267 CCTTTCCTTTT
1 -CTTTCTTTTT
9861278 CTTTCTTTTT
1 CTTTCTTTTT
9861288 CTT
1 CTT
9861291 ACTTCTCCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 26 0.65
11 4 0.10
12 1 0.03
13 1 0.03
14 3 0.08
15 5 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:9861270 original size:35 final size:36
Alignment explanation
Indices: 9861220--9861302 Score: 141
Period size: 35 Copynumber: 2.3 Consensus size: 36
9861210 CTTCCCTCCC
*
9861220 TCTTCTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTT
1 TCTTCTCCTTCTCCTTTCCTTTTCTTTCTTTTTCTT
9861256 TCTTCTCCTT-TCCTTTCCTTTTCTTTCTTTTTCTT
1 TCTTCTCCTTCTCCTTTCCTTTTCTTTCTTTTTCTT
*
9861291 ACTTCTCCTTCT
1 TCTTCTCCTTCT
9861303 TTCTTCCCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
35 34 0.77
36 10 0.23
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (36 bp):
TCTTCTCCTTCTCCTTTCCTTTTCTTTCTTTTTCTT
Found at i:9861271 original size:25 final size:25
Alignment explanation
Indices: 9861236--9861284 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9861226 TCTTCTCCTT
* *
9861236 TCCTTTTCTTTCTTTTTCTTTCTTC
1 TCCTTTCCTTTCCTTTTCTTTCTTC
9861261 TCCTTTCCTTTCCTTTTCTTTCTT
1 TCCTTTCCTTTCCTTTTCTTTCTT
9861285 TTTCTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (25 bp):
TCCTTTCCTTTCCTTTTCTTTCTTC
Found at i:9861299 original size:25 final size:25
Alignment explanation
Indices: 9861236--9861308 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
9861226 TCTTCTCCTT
* *
9861236 TCCTTTTCTTTCTTTTTCTTTCTTC
1 TCCTTTACTTTCCTTTTCTTTCTTC
* *
9861261 TCCTTTCCTTTCCTTTTCTTTCTTT
1 TCCTTTACTTTCCTTTTCTTTCTTC
*
9861286 TTC-TTACTTCTCC--TTCTTTCTTC
1 TCCTTTACTT-TCCTTTTCTTTCTTC
9861309 CCCTCCAGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 9 0.22
24 5 0.12
25 27 0.66
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (25 bp):
TCCTTTACTTTCCTTTTCTTTCTTC
Found at i:9865438 original size:11 final size:10
Alignment explanation
Indices: 9865408--9865449 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
9865398 AATTTTTTTG
9865408 TATATTATTT
1 TATATTATTT
* *
9865418 TGGTATTTTTT
1 T-ATATTATTT
9865429 TAT-TTATTT
1 TATATTATTT
9865438 TATATTATTT
1 TATATTATTT
9865448 TA
1 TA
9865450 GTAAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.31
10 10 0.38
11 8 0.31
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (10 bp):
TATATTATTT
Found at i:9865443 original size:19 final size:21
Alignment explanation
Indices: 9865401--9865449 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
9865391 GGTAAATAAT
*
9865401 TTTTTTGTATATTATTTTGGTA
1 TTTTTT-TATATTATTTTGATA
9865423 TTTTTTTAT-TTATTTT-ATA
1 TTTTTTTATATTATTTTGATA
*
9865442 TTATTTTA
1 TTTTTTTA
9865450 GTAAAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 7 0.28
21 3 0.12
22 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (21 bp):
TTTTTTTATATTATTTTGATA
Found at i:9871016 original size:26 final size:26
Alignment explanation
Indices: 9870986--9871039 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
9870976 ATCCAACTTA
9870986 TTAGTAA-TTATTTTATAAAAAAAAAT
1 TTAGTAAGTT-TTTTATAAAAAAAAAT
*
9871012 TTAGTAAGTTTTTTATAAAAAAATAT
1 TTAGTAAGTTTTTTATAAAAAAAAAT
9871038 TT
1 TT
9871040 CAAAGAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (26 bp):
TTAGTAAGTTTTTTATAAAAAAAAAT
Found at i:9874562 original size:14 final size:14
Alignment explanation
Indices: 9874543--9874579 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
9874533 TCAAGCTACC
9874543 TCCACCTCCACCGA
1 TCCACCTCCACCGA
*
9874557 TCCACCTCCACCGG
1 TCCACCTCCACCGA
9874571 TCCACCTCC
1 TCCACCTCC
9874580 GGTCCTGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.16, C:0.59, G:0.08, T:0.16
Consensus pattern (14 bp):
TCCACCTCCACCGA
Found at i:9875902 original size:8 final size:8
Alignment explanation
Indices: 9875889--9875919 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9875879 TAAAATATTT
9875889 AAGTTAAA
1 AAGTTAAA
9875897 AAGTTAAA
1 AAGTTAAA
*
9875905 AATTTAAA
1 AAGTTAAA
9875913 AAGTTAA
1 AAGTTAA
9875920 GAGTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (8 bp):
AAGTTAAA
Found at i:9876029 original size:25 final size:25
Alignment explanation
Indices: 9875995--9876046 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
9875985 TTTTTTTAAG
*
9875995 AATTGATTGTTTGTAATTAAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
9876020 AATTAATTGTTTGTAATTAAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
9876045 AA
1 AA
9876047 CAAGTAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
AATTAATTGTTTGTAATTAAATTCA
Found at i:9877270 original size:66 final size:66
Alignment explanation
Indices: 9877164--9877303 Score: 244
Period size: 66 Copynumber: 2.1 Consensus size: 66
9877154 ACACTTTACC
* * *
9877164 AATATCCAATTATGAAAATCAGGTGTAAAACCAAAACTATCCCATAATGGGTTATTGAAAATTAT
1 AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTAT
9877229 G
66 G
*
9877230 AATATCTAAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTAT
1 AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTAT
9877295 G
66 G
9877296 AATATCCA
1 AATATCCA
9877304 TGTATTTCGG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.29
Consensus pattern (66 bp):
AATATCCAAATATGAAAATCAGCTGTAAAACCAAAACTATCCAATAATGGGTTATTGAAAATTAT
G
Found at i:9878595 original size:105 final size:99
Alignment explanation
Indices: 9878404--9878633 Score: 221
Period size: 105 Copynumber: 2.3 Consensus size: 99
9878394 AATGTTTAAA
* * * * * **
9878404 TGTAAGATCATAGCTGGGCTATGACATTTTAATGAAAAGACCATAACTGAGTTATGGCACCTTGA
1 TGTAAGACCATAGTTGGGATATGGCATTCTAATGAAAAGACCATAACTGAGTTATGGCACCTCAA
***
9878469 ACGTAAGACCACGGTTGGACCATGACAGTATAGATACATG
66 ACGTAAGACCACGGCAAGACCATGACA--AT-G---CATG
* * * *
9878509 TGTAAGACCATAGTTGGGATATGGCATTCTGATGATAAGACCTTAACTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGTTGGGATATGGCATTCTAATGAAAAGACCATAACTGAGTTATGGCACCT-CA
* * *
9878573 AATGTAAGACCATGGCAAGACCATGGCAATGCATG
65 AACGTAAGACCACGGCAAGACCATGACAATGCATG
9878608 TGTAAGACCATAGTT-GGACTATGGCA
1 TGTAAGACCATAGTTGGGA-TATGGCA
9878634 CAAAAAGAAC
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
98 3 0.03
99 26 0.25
102 1 0.01
103 2 0.02
104 2 0.02
105 72 0.68
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (99 bp):
TGTAAGACCATAGTTGGGATATGGCATTCTAATGAAAAGACCATAACTGAGTTATGGCACCTCAA
ACGTAAGACCACGGCAAGACCATGACAATGCATG
Found at i:9889654 original size:75 final size:75
Alignment explanation
Indices: 9889565--9889714 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
9889555 CACGCGGGTA
9889565 TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
1 TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
9889630 CTTGAATTTG
66 CTTGAATTTG
9889640 TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
1 TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
9889705 CTTGAATTTG
66 CTTGAATTTG
9889715 ATCATTTTCA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (75 bp):
TGATCCCATAGCAAGCAACATCATCAATCTTCAAGCATGTGGAAATGAAAGAATAATATATATTC
CTTGAATTTG
Found at i:9940734 original size:41 final size:37
Alignment explanation
Indices: 9940664--9940816 Score: 157
Period size: 43 Copynumber: 3.9 Consensus size: 37
9940654 TATGATCACT
*
9940664 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
9940699 TATCATCTAAGTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCA-CT---TTGTCTCTTGATCAGATAAGTGTAGCCACC
*
9940740 TATCACTTTGTCTCTTGATCAGATAAGTAGCTAAGCTATCACT
1 TATCACTTTGTCTCTTGATCAGATAAGT-G-T-AGC---CACC
*
9940783 TATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
9940817 GAAGCTATCA
Statistics
Matches: 101, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
35 5 0.05
36 1 0.01
37 21 0.21
38 1 0.01
39 1 0.01
40 12 0.12
41 28 0.28
43 32 0.32
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:9940784 original size:43 final size:44
Alignment explanation
Indices: 9940736--9941029 Score: 262
Period size: 43 Copynumber: 6.3 Consensus size: 44
9940726 TAAGTGTAGC
*
9940736 CACTTATCACTTTGTCTCTTGATCAGATAAGTAG-CTAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTAGCCGAAGCTAT
9940779 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAG--TAGCCGAAGCTAT
9940825 CACTTATCACTTT-TCACTTTCACTTGATCAGA-AAGTGTAGCCGAAGCTTAT
1 CACTTATCACTTTGT--C--T--CTTGATCAGATAA--GTAGCCGAAGC-TAT
* *
9940876 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAG-TGAAGCTAT
1 CACTTATCAC--T----TTGTCTCTTGATCAGATAA--GTAGCCGAAGCTAT
*
9940927 CACTTATCACTTTGTCACTTGATTCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGA-TCAGATAAG--TAGCCGAAGCTAT
9940974 CACTTGATCAC-TT-T-T-TTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTT-ATCACTTTGTCTCTTGATCAGATAAG--TAGCCGAAGCTAT
*
9941017 TACTTATCACTTT
1 CACTTATCACTTT
9941030 CCACTTGTCA
Statistics
Matches: 219, Mismatches: 6, Indels: 52
0.79 0.02 0.19
Matches are distributed among these distances:
42 5 0.02
43 61 0.28
44 5 0.02
45 15 0.07
46 33 0.15
47 16 0.07
48 5 0.02
49 2 0.01
50 12 0.05
51 36 0.16
52 16 0.07
53 9 0.04
56 1 0.00
57 2 0.01
58 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (44 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTAGCCGAAGCTAT
Found at i:9940923 original size:52 final size:51
Alignment explanation
Indices: 9940776--9941087 Score: 343
Period size: 52 Copynumber: 6.3 Consensus size: 51
9940766 GTAGCTAAGC
*
9940776 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTT-TCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9940829 TATCACTTTTCACTT-TCACTTGATCAGA-AAGTGTAGCCGAAGCTTATCACT
1 TATCAC-TTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGC-TATCACT
* *
9940880 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAG-TGAAGCTATCACT
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
9940931 TATCAC--T---TTGTCACTTGATTCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTCACTTGTCACTTGA-TCAGATAAGTATAGCCGAAGCTATCACT
*
9940978 TGATCAC--T---TT-T---TTGATCAGATAAGTATAGCCGAAGCTATTACT
1 T-ATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* ** *
9941021 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9941073 TATCACTTACACTTG
1 TATCACTTTCACTTG
9941088 ATCAGAAGTA
Statistics
Matches: 229, Mismatches: 12, Indels: 38
0.82 0.04 0.14
Matches are distributed among these distances:
42 5 0.02
43 28 0.12
44 5 0.02
45 11 0.05
46 13 0.06
47 14 0.06
48 10 0.04
49 2 0.01
50 17 0.07
51 49 0.21
52 55 0.24
53 18 0.08
54 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (51 bp):
TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Done.