Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 108 of 425
Found at i:31656803 original size:17 final size:17
Alignment explanation
Indices: 31656781--31656847 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
31656771 TTGAAAGTTA
31656781 TGTGATTATATGAGTAT
1 TGTGATTATATGAGTAT
*
31656798 TGTGATATATGCTTGAATGT-T
1 TGTGAT-TAT--ATG-A-GTAT
31656819 ATGTGATTATATGAGTAT
1 -TGTGATTATATGAGTAT
31656837 TGTGA-TATATG
1 TGTGATTATATG
31656848 CTTGGATGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
16 6 0.15
17 13 0.32
18 5 0.12
19 2 0.05
20 2 0.05
21 5 0.12
22 8 0.20
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.46
Consensus pattern (17 bp):
TGTGATTATATGAGTAT
Found at i:31656905 original size:39 final size:39
Alignment explanation
Indices: 31656752--31656894 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
31656742 AACATGTTTT
* *
31656752 TGAGTACTGTTATATATGCTTGAAAGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAAAGTTATGTGATTATA
*
31656791 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAAAGTTATGTGATTATA
* *
31656830 TGAGTATTGTGATATATGCTTGGATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAAAGTTATGTGATTATA
* *
31656869 TGAATATT-TGATATATGCTTAAAAGT
1 TGAGTATTGTGATATATGCTTGAAAGT
31656895 GAATATGATT
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 15 0.16
39 81 0.84
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAAAGTTATGTGATTATA
Found at i:31659992 original size:43 final size:43
Alignment explanation
Indices: 31659928--31660022 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
31659918 TATATGTAAT
**
31659928 CACATATCGATGCCAGTGTCCCAGACAG-GGTCTTACACGAGAA
1 CACATATCGATGCCAACGTCCCAGAC-GTGGTCTTACACGAGAA
* *
31659971 CACATATCGATGCCAACGTCCCTGACGTGGTCTTACATGAGAA
1 CACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAGAA
31660014 CACATATCG
1 CACATATCG
31660023 GAAATCCTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (43 bp):
CACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAGAA
Found at i:31661128 original size:39 final size:39
Alignment explanation
Indices: 31661074--31661149 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
31661064 TAAATAGTTG
31661074 GCAACTTTTATAACTTACACGATTAAGCCTTTTTATTTA
1 GCAACTTTTATAACTTACACGATTAAGCCTTTTTATTTA
31661113 GCAACTTTTATAACTTACACGATTAAGCCTTTTTATT
1 GCAACTTTTATAACTTACACGATTAAGCCTTTTTATT
31661150 AAATCGAGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.43
Consensus pattern (39 bp):
GCAACTTTTATAACTTACACGATTAAGCCTTTTTATTTA
Found at i:31661206 original size:14 final size:15
Alignment explanation
Indices: 31661189--31661217 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31661179 ACATGAAAAT
31661189 TTCACACA-TATAAA
1 TTCACACATTATAAA
31661203 TTCACACATTATAAA
1 TTCACACATTATAAA
31661218 AACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:31663866 original size:81 final size:81
Alignment explanation
Indices: 31663726--31663903 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 81
31663716 TTAGTTTACC
* * * * * * **
31663726 AAATTACTGAAATGCCCTTAATTTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATT
1 AAATTACTGAAATACCATTAATTTACAAAATTACCAAAATACCCTAGATTTATAAAATTACCAAA
*
31663791 TTAC-CCTCGATTTGCA
66 ATACTCCT-GATTTGCA
** *
31663807 AAATTACTGAAATACCATTGGTTTACAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAA
1 AAATTACTGAAATACCATTAATTTACAAAATTACCAAAATA-CCCTAGATTTATAAAATTACCAA
*
31663871 AATACTCCTGATTTGTA
65 AATACTCCTGATTTGCA
*
31663888 AAATTACCGAAATACC
1 AAATTACTGAAATACC
31663904 CCTGTAGGGT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 73 0.90
82 8 0.10
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTACTGAAATACCATTAATTTACAAAATTACCAAAATACCCTAGATTTATAAAATTACCAAA
ATACTCCTGATTTGCA
Found at i:31663907 original size:27 final size:27
Alignment explanation
Indices: 31663726--31663931 Score: 118
Period size: 27 Copynumber: 7.6 Consensus size: 27
31663716 TTAGTTTACC
* * * * *
31663726 AAATTACTGAAATGCCCTTAATTTATA
1 AAATTACCGAAATACCCCTGATTTGTA
*
31663753 AAATTACC-AAAGTA-CCCTCGATTTATA
1 AAATTACCGAAA-TACCCCT-GATTTGTA
* ** *
31663780 GAATTACC-ATTTTA-CCCTCGATTTGCA
1 AAATTACCGA-AATACCCCT-GATTTGTA
* ** * **
31663807 AAATTACTGAAATACCATTGGTTTACA
1 AAATTACCGAAATACCCCTGATTTGTA
*
31663834 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCGAAATACCCCTGA-TTTGTA
* *
31663861 AAATTACCAAAATACTCCTGATTTGTA
1 AAATTACCGAAATACCCCTGATTTGTA
**
31663888 AAATTACCGAAATACCCCTG-TAGGGTA
1 AAATTACCGAAATACCCCTGAT-TTGTA
*
31663915 GAATTACCGAAATACCC
1 AAATTACCGAAATACCC
31663932 TTATAGGGTA
Statistics
Matches: 141, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
26 7 0.05
27 130 0.92
28 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTGATTTGTA
Found at i:31663938 original size:27 final size:27
Alignment explanation
Indices: 31663889--31664352 Score: 493
Period size: 27 Copynumber: 17.3 Consensus size: 27
31663879 TGATTTGTAA
*
31663889 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
31663916 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
31663943 AAATACTG-AATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
31663969 AATTACCGAAATACCCTTGTA-GGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
31663995 AAATACCGAAATACCTTTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
31664022 AAATACCGAAATA-CCTATGTAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAG
** * *
31664049 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
31664076 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
31664103 AAATACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * **
31664130 AAATACTGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * ** *
31664157 AATTACTGAAATACCCCTATAGCATAA
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
31664184 AAATACCGAAATACCCTTGTAGTGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
31664211 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
31664238 AATTATTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
31664265 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
31664292 AAATACTGAAATACCCCTGTAGGGTTG
1 AATTACCGAAATACCCTTGTAGGGTAG
* ** *
31664319 AATTACCGAGATACCCTTGGGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
31664346 AATTACC
1 AATTACC
31664353 ATTTTGCCCC
Statistics
Matches: 366, Mismatches: 67, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 47 0.13
27 317 0.87
28 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:31664352 original size:81 final size:81
Alignment explanation
Indices: 31663896--31664336 Score: 582
Period size: 81 Copynumber: 5.5 Consensus size: 81
31663886 TAAAATTACC
* *
31663896 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACTG-AATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCGAAATACCCTT
* *
31663960 GTAGGGTAGAATTACC
66 GTAGGGTAGAAATACT
* * * *
31663976 GAAATACCCTTGTA-GGTAGAAATACCGAAATACCTTTATAAGGTAGAAATACCGAAATA-CCTA
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCGAAATACCCT-
*
31664039 TGTAGGGTAGAATTACT
65 TGTAGGGTAGAAATACT
* * * * *
31664056 AAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCGAAATACCCTT
31664121 GTAGGGTAGAAATACT
66 GTAGGGTAGAAATACT
* * * ** *
31664137 GAAATACCCCCGTAGGGTAGAATTACTGAAATACCCCTATAGCATAAAAATACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCGAAATACCCTT
*
31664202 GTAGTGTAGAAATACT
66 GTAGGGTAGAAATACT
* ** * * * *
31664218 GAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCGAAATACCCTT
31664283 GTAGGGTAGAAATACT
66 GTAGGGTAGAAATACT
* *
31664299 GAAATACCCCTGTAGGGTTGAATTACCGAGATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTT
31664337 GGGGGGTAAA
Statistics
Matches: 314, Mismatches: 43, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
79 38 0.12
80 44 0.14
81 229 0.73
82 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCGAAATACCCTT
GTAGGGTAGAAATACT
Found at i:31664782 original size:31 final size:31
Alignment explanation
Indices: 31664747--31664826 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
31664737 TTGCATTCAC
* * *
31664747 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
* *
31664778 ATTCTGGTTCTGATTCTATCACCTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATACTG
31664809 ATTCTGATTCTGATTCTA
1 ATTCTGATTCTGATTCTA
31664827 GTTTTGATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATCACCTGATACTG
Found at i:31664788 original size:6 final size:6
Alignment explanation
Indices: 31664747--31664825 Score: 72
Period size: 6 Copynumber: 12.8 Consensus size: 6
31664737 TTGCATTCAC
* * *
31664747 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG GTTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
31664795 ATCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
31664826 AGTTTTGATG
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 4 0.07
6 47 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:31664834 original size:18 final size:18
Alignment explanation
Indices: 31664747--31664825 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
31664737 TTGCATTCAC
*
31664747 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
*
31664765 -TTACCTGATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
* *
31664784 GTTCTGATTCT-ATCACCTG
1 ATTCTGATTCTGAT--TCTG
31664803 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
31664821 ATTCT
1 ATTCT
31664826 AGTTTTGATG
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
17 4 0.08
18 15 0.31
19 26 0.53
20 4 0.08
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:31677760 original size:29 final size:29
Alignment explanation
Indices: 31677726--31677828 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
31677716 TACTCGATCA
* * *
31677726 CGCACACTTAGTGCCATGT-GATTTAAGCC
1 CGCACACTTAGTGCCATATAG-TTCAAACC
* *
31677755 CGCACACATAGTGCCATATAGTTCAAACT
1 CGCACACTTAGTGCCATATAGTTCAAACC
* * * *
31677784 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCATATAGTTCAAACC
* *
31677813 TGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
31677829 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAGTTCAAACC
Found at i:31677862 original size:43 final size:43
Alignment explanation
Indices: 31677814--31677913 Score: 191
Period size: 43 Copynumber: 2.3 Consensus size: 43
31677804 TTTCAAGCTT
*
31677814 GCACACTCAGTGCCAATCTCGTCACCGTACACATTTACTTCTC
1 GCACACTTAGTGCCAATCTCGTCACCGTACACATTTACTTCTC
31677857 GCACACTTAGTGCCAATCTCGTCACCGTACACATTTACTTCTC
1 GCACACTTAGTGCCAATCTCGTCACCGTACACATTTACTTCTC
31677900 GCACACTTAGTGCC
1 GCACACTTAGTGCC
31677914 GAAAGCAAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.23, C:0.36, G:0.13, T:0.28
Consensus pattern (43 bp):
GCACACTTAGTGCCAATCTCGTCACCGTACACATTTACTTCTC
Found at i:31685893 original size:29 final size:27
Alignment explanation
Indices: 31685859--31685961 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
31685849 TACTCGATCA
*
31685859 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* * *
31685888 CGCACACATAGTGCCATATAGTTCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
31685917 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
31685946 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
31685962 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.95
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:31685995 original size:43 final size:43
Alignment explanation
Indices: 31685944--31686046 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
31685934 ACATTTCAAG
* *
31685944 CTCGCACACTCAGTGCCAATCTCGTCACCGTGCACATTTACTT
1 CTCGCACACTTAGTGCCAATCTCGTCACCGTACACATTTACTT
31685987 CTCGCACACTTAGTGCCAATCTCGTCACCGTACACATTTACTT
1 CTCGCACACTTAGTGCCAATCTCGTCACCGTACACATTTACTT
31686030 CTCGCACACTTAGTGCC
1 CTCGCACACTTAGTGCC
31686047 GAAAGCAAAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.21, C:0.37, G:0.14, T:0.28
Consensus pattern (43 bp):
CTCGCACACTTAGTGCCAATCTCGTCACCGTACACATTTACTT
Found at i:31688340 original size:36 final size:34
Alignment explanation
Indices: 31688260--31688340 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
31688250 TAGTGAGATG
* * *
31688260 GGCTAAGGCCCAGACTGCCTCTGTTACTGAAATA
1 GGCTAAGGCCCAGACTGCATCTGTTACTAAAAGA
*
31688294 GGCTCAGGCCCAGACTG-ATACTGTTACTAAAAAAGA
1 GGCTAAGGCCCAGACTGCAT-CTGTTACT--AAAAGA
31688330 GGCTAAGGCCC
1 GGCTAAGGCCC
31688341 TAACCGGAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
33 1 0.03
34 24 0.62
36 14 0.36
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.20
Consensus pattern (34 bp):
GGCTAAGGCCCAGACTGCATCTGTTACTAAAAGA
Found at i:31691939 original size:16 final size:16
Alignment explanation
Indices: 31691920--31691951 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31691910 AATTATTTTA
31691920 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
31691936 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
31691952 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:31692096 original size:50 final size:50
Alignment explanation
Indices: 31692031--31692463 Score: 329
Period size: 50 Copynumber: 8.6 Consensus size: 50
31692021 CTGGTAAGCA
* *
31692031 TAGTAGCCTAG-ACTTAGTACTATACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCT-GCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * *
31692081 TAGTAGCCTGCACTTAGTA-TACATACGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * ** * * * *
31692130 TAGTAGCATACACCTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACG
* * * *
31692181 TAGTAGCCTGCACGTAGTACTAAACATGCGACCTATCGAT-TCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCT-GGTACACG
* * * * *
31692231 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATGTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* ** * * * *** *
31692281 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTTTGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAATCTGGTACACG
* * * * *
31692332 TAGTAGCCTGTACTTAGTACTACACATGGGACCTAACAATCTAGTACAAG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * *
31692382 TAGTAGCCTGCACTTAGTACTACACACGTGACCTA--AAACTGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTG--GT--ACACG
*
31692434 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
31692464 TTCTCACAAA
Statistics
Matches: 297, Mismatches: 74, Indels: 22
0.76 0.19 0.06
Matches are distributed among these distances:
48 4 0.01
49 42 0.14
50 148 0.50
51 70 0.24
52 33 0.11
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
Found at i:31692336 original size:101 final size:101
Alignment explanation
Indices: 31692231--31692412 Score: 303
Period size: 101 Copynumber: 1.8 Consensus size: 101
31692221 TCGGTACACG
* * * *
31692231 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATGT-GATACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGGGACCTAACAATCTAG-TACAAGTAGTAGCCTGCACT
31692295 TAGTACTACACACGTGATCGAAACTATCGGGTTTGCA
65 TAGTACTACACACGTGATCGAAACTATCGGGTTTGCA
*
31692332 TAGTAGCCTGTACTTAGTACTACACATGGGACCTAACAATCTAGTACAAGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGGGACCTAACAATCTAGTACAAGTAGTAGCCTGCACTT
31692397 AGTACTACACACGTGA
66 AGTACTACACACGTGA
31692413 CCTAAAACTG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
101 74 0.99
102 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGGGACCTAACAATCTAGTACAAGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAACTATCGGGTTTGCA
Found at i:31692339 original size:151 final size:150
Alignment explanation
Indices: 31692023--31692417 Score: 533
Period size: 151 Copynumber: 2.6 Consensus size: 150
31692013 GAAGCTCTCT
* *
31692023 GGTAAGCATAGTAGCCTAGACTTAGTACTATACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCT-GACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
31692088 CTGCACTTAGTA-TACATACGTGACTTATCCATCTGATACACGTAGTAGCATACACCTAGTACTA
65 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCATACACCTAGTACTA
**
31692152 CACACGTGATCGAAGTTAACG
130 CACACGTGATCGAAACTAACG
* *
31692173 GGTACGCATAGTAGCCTGCACGTAGTACTAAACATGCGACCTATCGAT-TCGGTACACGTAGTAG
1 GGTACGCATAGTAGCCTG-ACTTAGTACTAAACATGCGACCTATCAATCT-GGTACACGTAGTAG
* * * * * *
31692237 CCTGCACTTAGTACTACACATGTGACCTAACCATGTGATACATGTAGTAGCCTGCACTTAGTACT
64 CCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCATACACCTAGTACT
*
31692302 ACACACGTGATCGAAACTATCG
129 ACACACGTGATCGAAACTAACG
** * * * * *
31692324 GGTTTGCATAGTAGCCTGTACTTAGTACTACACATGGGACCTAACAATCTAGTACAAGTAGTAGC
1 GGTACGCATAGTAGCCTG-ACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAGTAGC
31692389 CTGCACTTAGTACTACACACGTGACCTAA
65 CTGCACTTAGTACTACACACGTGACCTAA
31692418 AACTGTCTTA
Statistics
Matches: 214, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
149 2 0.01
150 69 0.32
151 142 0.66
152 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCATACACCTAGTACTAC
ACACGTGATCGAAACTAACG
Found at i:31692842 original size:19 final size:19
Alignment explanation
Indices: 31692820--31692856 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31692810 CACATTATAT
31692820 CATCAAAATAATCACATAA
1 CATCAAAATAATCACATAA
* *
31692839 CATCAAATTATTCACATA
1 CATCAAAATAATCACATA
31692857 TATATACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (19 bp):
CATCAAAATAATCACATAA
Found at i:31695449 original size:15 final size:15
Alignment explanation
Indices: 31695431--31695474 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
31695421 ACCAGGATTA
*
31695431 AGAAGTCCAAGATAG
1 AGAAATCCAAGATAG
31695446 AGAAATCCAAGAT-G
1 AGAAATCCAAGATAG
31695460 AGGAAATCCAAGATA
1 A-GAAATCCAAGATA
31695475 CAATATCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 2 0.08
15 24 0.92
ACGTcount: A:0.50, C:0.14, G:0.23, T:0.14
Consensus pattern (15 bp):
AGAAATCCAAGATAG
Found at i:31695450 original size:30 final size:30
Alignment explanation
Indices: 31695416--31695474 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
31695406 ATAGATAACA
* * *
31695416 AGAAAACCAGGATTAAGAAGTCCAAGATAG
1 AGAAAACCAAGATGAAGAAATCCAAGATAG
* *
31695446 AGAAATCCAAGATGAGGAAATCCAAGATA
1 AGAAAACCAAGATGAAGAAATCCAAGATA
31695475 CAATATCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATGAAGAAATCCAAGATAG
Found at i:31698581 original size:180 final size:180
Alignment explanation
Indices: 31698285--31698613 Score: 446
Period size: 180 Copynumber: 1.8 Consensus size: 180
31698275 AATTTTCTCT
* * * * *
31698285 GAAACTAGACTCATATATCTTCTTAACCTAAAATTTTTAAAATTTTTGGTTTAGCCAATCAGTAC
1 GAAACTAGACTCATATATATTCTTAACATAAAACTTTCAAAATTTTTAGTTTAGCCAATCAGTAC
* * * *
31698350 AGTTTATTCATTAAATATACTCCTAATTCACTGTCCAATAGTTCTGACCTCTCTTCACTAAAAAT
66 AGTTTATTCATTAAAGATACTCCTAATTCACTATCCAACAGTTCCGACCTCTCTTCACTAAAAAT
*
31698415 TATTTATTTCATGGTACAGGACTCCAAATTGAGAACCACTAATTTTTACA
131 TATTTATCTCATGGTACAGGACTCCAAATTGAGAACCACTAATTTTTACA
* * * * *
31698465 GAAACTAGACTCATATATATTCTTATCATAAAGCTTTCCAAATTTTTAGTTCT-TCCAATTAGTA
1 GAAACTAGACTCATATATATTCTTAACATAAAACTTTCAAAATTTTTAGTT-TAGCCAATCAGTA
** ***
31698529 CAGTTTATTCATTAAAGATAC-CCTTGTTTCACTATTTGACAGTTCCGACCTCTCTTCACTAAAA
65 CAGTTTATTCATTAAAGATACTCC-TAATTCACTATCCAACAGTTCCGACCTCTCTTCACTAAAA
31698593 ATTATTTATCTCATGGTACAG
129 ATTATTTATCTCATGGTACAG
31698614 CTCTCGGATG
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
179 2 0.02
180 124 0.98
181 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.39
Consensus pattern (180 bp):
GAAACTAGACTCATATATATTCTTAACATAAAACTTTCAAAATTTTTAGTTTAGCCAATCAGTAC
AGTTTATTCATTAAAGATACTCCTAATTCACTATCCAACAGTTCCGACCTCTCTTCACTAAAAAT
TATTTATCTCATGGTACAGGACTCCAAATTGAGAACCACTAATTTTTACA
Found at i:31698957 original size:16 final size:16
Alignment explanation
Indices: 31698938--31698969 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31698928 AATTGTTTTA
31698938 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
31698954 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
31698970 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:31699233 original size:50 final size:50
Alignment explanation
Indices: 31699172--31699554 Score: 299
Period size: 50 Copynumber: 7.6 Consensus size: 50
31699162 AAGCTCTCTA
* * * * *
31699172 GTACGCATAGTAGCCTGCACTTAGTATTATACATGCAAGCTATCAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
* * * * * *
31699222 GTACACGTAGTAGCCTACACTTAGTACTACACACGTGACTTATCCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
* * * * * * ** *
31699272 ATACACGTTGTAGCCTGTAGTTAGTACTACACACATGATTGAAGT-T-AAT-GG
1 GTACACATAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAATCTG
* *
31699323 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
* * * * ** * * *
31699373 GTACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAACTATCAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTATCAATCTG
* * *
31699424 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
* * *
31699474 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTA--AAACTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
* *
31699522 TCTTAAACACATAGTAGCCTGCACATAGTACTA
1 --GT--ACACATAGTAGCCTGCACTTAGTACTA
31699555 AAGATGTGTT
Statistics
Matches: 261, Mismatches: 60, Indels: 22
0.76 0.17 0.06
Matches are distributed among these distances:
47 3 0.01
48 5 0.02
49 9 0.03
50 142 0.54
51 63 0.24
52 34 0.13
53 1 0.00
54 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
Found at i:31699508 original size:101 final size:101
Alignment explanation
Indices: 31699229--31699511 Score: 379
Period size: 101 Copynumber: 2.8 Consensus size: 101
31699219 CTGGTACACG
* * * * * * * * *
31699229 TAGTAGCCTACACTTAGTACTACACACGTGACTTATCCATCTGATACACGTTGTAGCCTGTAGTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
* * ** *
31699294 AGTACTACACACATGATTGAAGTTAATGGGTACGCA
66 AGTACTACACACGTGATCGAAACTAATAGGTACGCA
* *
31699330 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
31699395 AGTACTACACACGTGATCGAAACT-ATCAGGTACGCA
66 AGTACTACACACGTGATCGAAACTAAT-AGGTACGCA
* * *
31699431 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
31699496 AGTACTACACACGTGA
66 AGTACTACACACGTGA
31699512 CCTAAAACTG
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
100 2 0.01
101 158 0.99
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAACTAATAGGTACGCA
Found at i:31699514 original size:151 final size:150
Alignment explanation
Indices: 31699172--31699515 Score: 413
Period size: 151 Copynumber: 2.3 Consensus size: 150
31699162 AAGCTCTCTA
* * * *
31699172 GTACGCATAGTAGCCTGCACTTAGTATTATACATGCAAGCTATCAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
** * * * * * *
31699237 TACACTTAGTACTACACACGTGACTTATCCATCTGATACACGTTGTAGCCTGTAGTTAGTACTAC
66 TACACTTAGTACTACACACGTGACGAAACCATCAGATACACATAGTAGCCTGCACTTAGTACTAC
* * *
31699302 ACACATGATTGAAGTTAATGG
131 ACACACGACTGAAG-CAATGG
*
31699323 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
* * *
31699388 TACACTTAGTACTACACACGTGATCGAAACTATCAGGTACGCATAGTAGCCTGCACTTAGTACTA
66 TACACTTAGTACTACACACGTGA-CGAAACCATCAGATACACATAGTAGCCTGCACTTAGTACTA
** *
31699453 CACATGCGACCT-AA-CAATTTG
130 CACACACGA-CTGAAGCAA-TGG
* * *
31699474 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTA
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTA
31699516 AAACTGTCTT
Statistics
Matches: 164, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
150 2 0.01
151 123 0.75
152 38 0.23
153 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (150 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
TACACTTAGTACTACACACGTGACGAAACCATCAGATACACATAGTAGCCTGCACTTAGTACTAC
ACACACGACTGAAGCAATGG
Found at i:31699942 original size:19 final size:20
Alignment explanation
Indices: 31699914--31699960 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
31699904 AAGAACATGT
31699914 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
31699935 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
31699954 TATATAT
1 TATATAT
31699961 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:31710391 original size:40 final size:40
Alignment explanation
Indices: 31710264--31710393 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
31710254 ATGCTGGAAA
* * *
31710264 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
31710304 CTACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
31710344 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
31710384 TTATATCCGG
1 TTATATCCGG
31710394 TTATATTTCG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:31713159 original size:40 final size:39
Alignment explanation
Indices: 31713114--31713243 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
31713104 CGGAATACAA
31713114 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* **
31713154 CCGGATAGAATGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
31713194 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
31713234 CCGGATATAA
1 CCGGATATAA
31713244 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:31717495 original size:30 final size:30
Alignment explanation
Indices: 31717451--31717539 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
31717441 CAAAGATAAC
31717451 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
31717480 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
31717510 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
31717540 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:31717499 original size:15 final size:15
Alignment explanation
Indices: 31717451--31717530 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
31717441 CAAAGATAAC
*
31717451 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31717465 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
31717480 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
31717495 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31717510 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
31717525 AAGAAA
1 AAGAAA
31717531 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31717539 original size:15 final size:15
Alignment explanation
Indices: 31717462--31717539 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
31717452 AGAAAACCGA
31717462 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
31717477 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
31717491 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
31717506 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31717522 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31717537 ATA
1 ATA
31717540 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31726418 original size:40 final size:39
Alignment explanation
Indices: 31726373--31726502 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
31726363 CGGAATACAA
31726373 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* **
31726413 CCGGATAGAATGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
31726453 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
31726493 CCGGATATAA
1 CCGGATATAA
31726503 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:31729889 original size:40 final size:40
Alignment explanation
Indices: 31729845--31729950 Score: 185
Period size: 40 Copynumber: 2.6 Consensus size: 40
31729835 TCTAGCACGA
31729845 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATAT
* * *
31729885 AGCCTGCGGGCCTTTAAGCCCAGATAACATTCTAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATAT
31729925 AGCCTGCGGGTCTTTAAGCCCGGATA
1 AGCCTGCGGGTCTTTAAGCCCGGATA
31729951 CAATTCCTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATAT
Found at i:31740783 original size:13 final size:13
Alignment explanation
Indices: 31740765--31740790 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31740755 AGGTCATGTG
31740765 AGGGACACGGGCC
1 AGGGACACGGGCC
31740778 AGGGACACGGGCC
1 AGGGACACGGGCC
31740791 TGTGTTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.46, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:31745905 original size:39 final size:39
Alignment explanation
Indices: 31745824--31745986 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
31745814 TATGGTAACC
** *
31745824 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
31745864 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
31745903 CGCACAATTGCCTTTGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
31745942 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
31745981 CGCACA
1 CGCACA
31745987 TTCATTCACA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 97 0.86
40 16 0.14
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:31759342 original size:28 final size:28
Alignment explanation
Indices: 31759310--31759373 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
31759300 ATTTACTAGA
*
31759310 ATACCCCTATGTATG-TAAAATTACCATT
1 ATACCCCTATGTATGCT-AAATGACCATT
*
31759338 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCTAAATGACCATT
31759366 ATACCCCT
1 ATACCCCT
31759374 GGGGTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (28 bp):
ATACCCCTATGTATGCTAAATGACCATT
Found at i:31759581 original size:29 final size:28
Alignment explanation
Indices: 31759480--31759570 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
31759470 AGGAAGCGTC
31759480 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
31759508 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
31759536 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
31759565 CTGGTG
1 CTGGTG
31759571 ACTCTATCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:31767157 original size:27 final size:27
Alignment explanation
Indices: 31767121--31767178 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
31767111 ACTAGAATAC
*
31767121 CCCTATGTATG-TAAAATTACCATTATA
1 CCCTATGTATGCT-AAATGACCATTATA
*
31767148 CCCTATGTATGCTAAATGACCTTTATA
1 CCCTATGTATGCTAAATGACCATTATA
31767175 CCCT
1 CCCT
31767179 GGGGTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (27 bp):
CCCTATGTATGCTAAATGACCATTATA
Found at i:31767326 original size:28 final size:28
Alignment explanation
Indices: 31767282--31767375 Score: 136
Period size: 28 Copynumber: 3.3 Consensus size: 28
31767272 TGGAGGAAGC
*
31767282 GTTCTGGTGGCTA-TGCCACAGATTATCT
1 GTTCTGGTGGC-ACTGCCACAAATTATCT
*
31767310 GTTCTGGTGGCCCTGCCACAAATTATCT
1 GTTCTGGTGGCACTGCCACAAATTATCT
*
31767338 GTTCTGGTGGCACTGCCACAAAATATCT
1 GTTCTGGTGGCACTGCCACAAATTATCT
31767366 GTATCTGGTG
1 GT-TCTGGTG
31767376 ACTCTGTCAC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
28 53 0.88
29 7 0.12
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (28 bp):
GTTCTGGTGGCACTGCCACAAATTATCT
Found at i:31767400 original size:56 final size:55
Alignment explanation
Indices: 31767283--31767400 Score: 123
Period size: 56 Copynumber: 2.1 Consensus size: 55
31767273 GGAGGAAGCG
* * * *
31767283 TTCTGGTGGCTATGCCACAGATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTG
1 TTCTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTA
* * *
31767339 TTCTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTA
1 TTCTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTA
31767394 TATCTGG
1 T-TCTGG
31767401 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
55 8 0.15
56 30 0.58
57 14 0.27
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
TTCTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTA
Found at i:31771549 original size:40 final size:40
Alignment explanation
Indices: 31771490--31771697 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
31771480 CAATTGAATG
* * *
31771490 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
31771530 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
31771570 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
31771610 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
31771650 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
31771690 ATATCCGG
1 ATATCCGG
31771698 TTGTAATCCG
Statistics
Matches: 145, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:31771628 original size:80 final size:80
Alignment explanation
Indices: 31771492--31771697 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
31771482 ATTGAATGAT
* * * * * *
31771492 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
31771557 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
31771572 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
31771637 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
31771652 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
31771698 TTGTAATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:31773362 original size:80 final size:80
Alignment explanation
Indices: 31773186--31773406 Score: 342
Period size: 80 Copynumber: 2.8 Consensus size: 80
31773176 TATTCGGATG
* *
31773186 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
31773249 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
*
31773265 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
31773330 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * *
31773345 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
31773407 TACTTGGTTT
Statistics
Matches: 133, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
79 66 0.50
80 67 0.50
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:31773387 original size:40 final size:40
Alignment explanation
Indices: 31773186--31773373 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
31773176 TATTCGGATG
* *
31773186 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31773226 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
31773265 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31773305 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
31773345 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
31773374 AGCAAGTAGC
Statistics
Matches: 139, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
39 35 0.25
40 104 0.75
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31781399 original size:80 final size:79
Alignment explanation
Indices: 31781226--31781445 Score: 311
Period size: 80 Copynumber: 2.8 Consensus size: 79
31781216 TATTCAGATG
* *
31781226 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCC-GGCTAAGTCCCGAAGGC
*
31781289 ATTTGTGTGAGTTACT
64 ATTTGTGCGAGTTACT
*
31781305 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC-GGCTAAGTCCCGAAGGCA
31781370 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * * *
31781385 ATAACCGGGCTAAGTCCCGAACGCATTTGAGCAAG-TAGCTATATCCGGCTAAATTCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGCTAAGTCCCGAAG
31781446 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 64 0.50
80 65 0.50
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:31781427 original size:40 final size:40
Alignment explanation
Indices: 31781226--31781413 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
31781216 TATTCAGATG
* *
31781226 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31781266 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
31781305 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31781345 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31781385 ATAACCGGGCTAAGTCCCGAACGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
31781414 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 34 0.25
40 100 0.75
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31788069 original size:29 final size:29
Alignment explanation
Indices: 31788035--31788112 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
31788025 GTGACGAGAT
* *
31788035 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
31788064 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
31788093 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
31788113 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:31795921 original size:29 final size:29
Alignment explanation
Indices: 31795887--31795964 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
31795877 GTGACGAGAT
* *
31795887 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
31795916 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
31795945 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
31795965 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:31800632 original size:38 final size:40
Alignment explanation
Indices: 31800521--31800700 Score: 153
Period size: 40 Copynumber: 4.6 Consensus size: 40
31800511 GACTCGCTCA
** * **
31800521 AATGCCTTCGGGACGAAGCCCGG-TTATAGCGACTTGCACG
1 AATGCCTTCGGGACTTAGCCCGGAGT-TAGTAACTTGCACG
*
31800561 AATGCCTTCGGGACTTAACCCGG-GTTTAGTAACTTGCAC-
1 AATGCCTTCGGGACTTAGCCCGGAG-TTAGTAACTTGCACG
* *
31800600 AATGCCTTCGGG-CTTAGCCCGGAGTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGAGTTAGTAACTTGCACG
* * *
31800639 AATGCCTTC-GGATCCTAGTCCGGA-TATAGTCACTTAGCA--
1 AATGCCTTCGGGA-CTTAGCCCGGAGT-TAGTAACTT-GCACG
31800678 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
31800701 CATCATTCGA
Statistics
Matches: 116, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
38 38 0.33
39 28 0.24
40 46 0.40
41 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAGTTAGTAACTTGCACG
Found at i:31808084 original size:28 final size:28
Alignment explanation
Indices: 31808015--31808089 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
31808005 AATGAGATTG
*
31808015 GCACTAAGTGTGCAAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTGTATA
* *
31808043 GCACTAAGTGTGCGAGTTTGATTAT-TAA
1 GCACTAAGTGTGCGAGTTTAATTGTAT-A
31808071 GCACTAAGTGTGCGGAGTT
1 GCACTAAGTGTGC-GAGTT
31808090 ACTATATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.02
28 36 0.86
29 5 0.12
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTATA
Found at i:31811462 original size:30 final size:30
Alignment explanation
Indices: 31811428--31811484 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
31811418 TTCCTGGGCC
31811428 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
31811458 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAGTGTAAATATGCAAAA
31811485 TTTTGAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:31820737 original size:40 final size:40
Alignment explanation
Indices: 31820678--31820882 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 40
31820668 CAATTGAATG
* * * *
31820678 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
31820718 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGA-C
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
31820756 ACAT-CGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
31820795 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
31820835 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
31820875 ATATCCGG
1 ATATCCGG
31820883 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
37 19 0.14
38 11 0.08
39 13 0.09
40 95 0.69
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:31820813 original size:77 final size:80
Alignment explanation
Indices: 31820680--31820882 Score: 234
Period size: 77 Copynumber: 2.6 Consensus size: 80
31820670 ATTGAATGAT
* * ** * * *
31820680 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCA-T
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
*
31820744 TGTGCTAGT-G-ACAC
66 TGTGCAAGTCGTAC-C
* * *
31820758 AT-CGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
* *
31820822 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGTACC
* *
31820837 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
31820883 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
77 50 0.48
78 11 0.10
79 3 0.03
80 41 0.39
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGTACC
Found at i:31826342 original size:22 final size:22
Alignment explanation
Indices: 31826314--31826355 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
31826304 ACGTGTGACC
31826314 CCTGTTTTTATAAAAAAAAATT
1 CCTGTTTTTATAAAAAAAAATT
31826336 CCTGTTTTTATAAAAAAAAA
1 CCTGTTTTTATAAAAAAAAA
31826356 ATTCTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (22 bp):
CCTGTTTTTATAAAAAAAAATT
Found at i:31829041 original size:40 final size:40
Alignment explanation
Indices: 31828982--31829189 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
31828972 CAATTGAATG
* * * *
31828982 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
31829022 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
31829062 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
31829102 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
31829142 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
31829182 ATATCCGG
1 ATATCCGG
31829190 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:31829120 original size:80 final size:80
Alignment explanation
Indices: 31828984--31829189 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
31828974 ATTGAATGAT
* * ** * * *
31828984 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
31829048 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
31829064 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
31829129 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
31829144 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
31829190 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:31837885 original size:40 final size:39
Alignment explanation
Indices: 31837839--31838046 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 39
31837829 CGGAATACAA
* *
31837839 CCGGATATAACCACATGCACGAATGTCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
31837879 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
31837919 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *** *
31837959 CCAGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
31837999 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
31838039 CCGGATAT
1 CCGGATAT
31838047 CATTCAATTG
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
39 4 0.03
40 131 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:31837979 original size:80 final size:80
Alignment explanation
Indices: 31837839--31838045 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
31837829 CGGAATACAA
* * * *
31837839 CCGGATATAACCACATGCACGAATGTCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGTCTTCGGGTCTTAGCCCAGATAGAACGACTAGCAC-AATG
*
31837903 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * **
31837919 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCAGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGTCTTCGGGTCTTAGCCCAGAT-AGAACGACTAGCACAATG
*
31837983 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
31837999 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGTCTTCGGGTCTTAGCCCAGATA
31838046 TCATTCAATT
Statistics
Matches: 104, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
79 3 0.03
80 99 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGTCTTCGGGTCTTAGCCCAGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:31840313 original size:40 final size:40
Alignment explanation
Indices: 31840205--31840314 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
31840195 ATTGAATGAT
* * * * *
31840205 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
31840245 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
31840285 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
31840315 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:31840329 original size:40 final size:39
Alignment explanation
Indices: 31840205--31840354 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
31840195 ATTGAATGAT
* * * * * * *
31840205 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
31840245 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
31840285 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
31840325 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
31840355 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:31846301 original size:49 final size:50
Alignment explanation
Indices: 31846187--31846311 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
31846177 TGAGTATACG
* *
31846187 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTGAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTGAGGTCACA
* * * * * *
31846237 TGTGTAGTTCAAAGTGCAGGCTACTACATGTA-CCGTATTGT-TGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAG-ATGGTGAGGTCACA
*
31846286 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
31846312 TGCGTACCAG
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 31 0.49
50 32 0.51
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTGAGGTCACA
Found at i:31849291 original size:46 final size:46
Alignment explanation
Indices: 31849106--31849311 Score: 156
Period size: 46 Copynumber: 4.4 Consensus size: 46
31849096 TGGGCTAGTA
* * * * *
31849106 AAGACATGTCTGGGACATGTATCGGCCAC-ATTAT-AAGAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCTACGA-AATGAAG-TCTAGTGT
* * * *
31849152 AAGACTATGTCAGGGACATGGCATCAG-TATCGAGACG-AGTGCTAGTGT
1 AAGAC-ATGTCTGGGACAT-GCATCGGCTA-CGAAATGAAGT-CTAGTGT
* * *
31849200 AAGACATGTCTAGGACATGCATCGGCCTCAAGACAT-AAG-CTAGTGT
1 AAGACATGTCTGGGACATGCATCGG-CT-ACGAAATGAAGTCTAGTGT
31849246 AAGACATGTCTGGGACATGCATCGGCTACGAAATGATAGTC-AGTGT
1 AAGACATGTCTGGGACATGCATCGGCTACGAAATGA-AGTCTAGTGT
*
31849292 AAGACCATGCCTGGGACATG
1 AAGA-CATGTCTGGGACATG
31849312 GCATTGACTT
Statistics
Matches: 128, Mismatches: 18, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
44 5 0.04
45 3 0.02
46 53 0.41
47 39 0.30
48 26 0.20
49 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCTACGAAATGAAGTCTAGTGT
Found at i:31858482 original size:42 final size:42
Alignment explanation
Indices: 31858419--31858532 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
31858409 TCGAGACTAT
* * *
31858419 GTGTAAGACCATATCTAGGATATGGTATCATTAT-GATATTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATATAG-GATTTC
* *
31858461 GTGTAAGACCATATTTGGGATATGGCATCAATATAGGATTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATATAGGATTTC
* *
31858503 GTGTAAGACCATAACTAGGCTATTGGCATC
1 GTGTAAGACCATATCTAGGATA-TGGCATC
31858533 GATACGAGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 53 0.87
43 8 0.13
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCAATATAGGATTTC
Found at i:31859794 original size:27 final size:27
Alignment explanation
Indices: 31859757--31859810 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
31859747 TCACACGGGC
31859757 GTGTGGCTCTTAAAACATGAAAAATTT
1 GTGTGGCTCTTAAAACATGAAAAATTT
31859784 GTGTGGCTCTTAAAACATGAAAAATTT
1 GTGTGGCTCTTAAAACATGAAAAATTT
31859811 TCTAAAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (27 bp):
GTGTGGCTCTTAAAACATGAAAAATTT
Found at i:31862881 original size:37 final size:37
Alignment explanation
Indices: 31862828--31862930 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
31862818 CGAATAGTCC
*
31862828 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
31862865 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
31862902 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
31862931 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:31863162 original size:48 final size:48
Alignment explanation
Indices: 31863071--31863405 Score: 586
Period size: 48 Copynumber: 7.0 Consensus size: 48
31863061 ATATACACAC
* * *
31863071 ATCTCCTACATATTTCACA-TTGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31863118 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31863166 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
31863214 ATCTCAT--ATATATCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31863260 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31863308 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
31863356 ATCTCATACATATTTCACACTAGCCATTCGTCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
31863404 AT
1 AT
31863406 ATATTTATCT
Statistics
Matches: 277, Mismatches: 8, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
46 45 0.16
47 18 0.06
48 214 0.77
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:31863244 original size:142 final size:143
Alignment explanation
Indices: 31863092--31863394 Score: 563
Period size: 142 Copynumber: 2.1 Consensus size: 143
31863082 ATTTCACATT
31863092 GCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
1 GCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
31863157 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-
66 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
31863221 ATATATCACACTA
131 ATATATCACACTA
*
31863234 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
1 GCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
31863299 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
66 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
31863364 CATATTTCACACTA
131 -ATATATCACACTA
*
31863378 GCCATTCGTCTTTACCA
1 GCCATTCGGCTTTACCA
31863395 CACATATATA
Statistics
Matches: 156, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
142 128 0.82
144 28 0.18
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (143 bp):
GCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
ATATATCACACTA
Found at i:31866707 original size:27 final size:27
Alignment explanation
Indices: 31866676--31866731 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
31866666 ACTAAGCTAA
31866676 GTTAGCTTACTTTGTGTGTATATATTT
1 GTTAGCTTACTTTGTGTGTATATATTT
31866703 GTTAGCTTACTTTGTGTGTATATATTT
1 GTTAGCTTACTTTGTGTGTATATATTT
31866730 GT
1 GT
31866732 CTTTGTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.07, G:0.20, T:0.55
Consensus pattern (27 bp):
GTTAGCTTACTTTGTGTGTATATATTT
Found at i:31868969 original size:27 final size:27
Alignment explanation
Indices: 31868928--31868980 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
31868918 TGTCATGTGA
* *
31868928 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
31868955 AATTGAATGTTAAATTACTATTACAT
1 AATTGAATGGCAAATTACTATTACAT
31868981 AGGTTGTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:31869310 original size:49 final size:50
Alignment explanation
Indices: 31869230--31869462 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
31869220 ATCTATTGTG
*
31869230 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
31869280 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
31869330 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
31869380 AAGTAACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
31869430 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
31869463 TGCGTACCAG
Statistics
Matches: 153, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 70 0.46
50 45 0.29
51 38 0.25
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:31872217 original size:30 final size:30
Alignment explanation
Indices: 31872181--31872240 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
31872171 TTCCCGAGCC
31872181 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
31872211 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
31872241 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:31872720 original size:46 final size:46
Alignment explanation
Indices: 31872662--31872837 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
31872652 TGGTTGAACA
*
31872662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAA-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * *
31872709 TCCGAAACGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
* * *
31872755 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCG-AGCG
1 TCCGAA-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* *
31872801 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGA-ATCGTTGAGTTGAGTCCGAGTTCACTTATGG
31872838 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 61 0.58
47 27 0.26
48 2 0.02
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:31872819 original size:93 final size:93
Alignment explanation
Indices: 31872660--31872829 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
31872650 GATGGTTGAA
* * * *
31872660 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGTCCGAAACGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAAACGCCCGAAACGTTGAGTT
31872725 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* **
31872753 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCG-AGCGCCCGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAAACGCCCGA-AACGTTGAGT
31872817 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
31872830 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 6 0.09
93 63 0.91
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAAACGCCCGAAACGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:31877516 original size:28 final size:28
Alignment explanation
Indices: 31877434--31877547 Score: 101
Period size: 27 Copynumber: 4.2 Consensus size: 28
31877424 AGCATGGCTG
** *
31877434 CCAG-AACAGATA-TTGTGATAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * *
31877460 CCAGATATAGATA-TTGTGGCAGAGACA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* *
31877487 CCAGAAACAGATATTTCTGGCAAAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * *
31877515 CCAG-ATCAAATATTTGTGGTAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
31877542 CCAGAA
1 CCAGAA
31877548 CGCTTCCTCC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.06
27 50 0.71
28 16 0.23
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:31880618 original size:29 final size:28
Alignment explanation
Indices: 31880584--31880686 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
31880574 TAATCGATCA
*
31880584 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
31880613 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
31880642 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
31880671 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
31880687 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 61 0.91
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:31886290 original size:29 final size:29
Alignment explanation
Indices: 31886257--31886358 Score: 136
Period size: 29 Copynumber: 3.5 Consensus size: 29
31886247 TGACGAGATC
31886257 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
31886286 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
31886315 GGCACTGTGTGTGCGGGCT-TAAAT-TACGT
1 GGCACTAAGTGTGCGTGCTGGAAATATA--T
31886344 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
31886359 AAATCGAGTA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 59 0.91
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:31894093 original size:29 final size:29
Alignment explanation
Indices: 31894060--31894161 Score: 136
Period size: 29 Copynumber: 3.5 Consensus size: 29
31894050 TGACGAGATC
31894060 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
31894089 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
31894118 GGCACTGTGTGTGCGGGCT-TAAAT-TACGT
1 GGCACTAAGTGTGCGTGCTGGAAATATA--T
31894147 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
31894162 AAATCGAGTA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 59 0.91
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:31899734 original size:29 final size:28
Alignment explanation
Indices: 31899700--31899802 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
31899690 TAATCGATCA
*
31899700 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
31899729 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
31899758 CGCACACTTAATGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
31899787 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
31899803 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 59 0.91
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:31914491 original size:29 final size:29
Alignment explanation
Indices: 31914452--31914530 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
31914442 CTTAATAATC
*
31914452 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
31914482 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
31914511 AGCCCACACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31914531 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:31920942 original size:39 final size:39
Alignment explanation
Indices: 31920824--31921006 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
31920814 TCGTTCAAAC
* * ** * **
31920824 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
31920864 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
31920904 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
31920943 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
31920982 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
31921007 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:31928771 original size:46 final size:46
Alignment explanation
Indices: 31928704--31928876 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
31928694 TGTAACCCGC
*
31928704 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
31928750 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
31928800 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
31928841 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
31928877 ATGCCAAATC
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:31928869 original size:91 final size:92
Alignment explanation
Indices: 31928712--31928881 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
31928702 GCCCATAAGT
*
31928712 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
31928777 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31928805 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31928869 GAGTTCGGATGCC
66 GAGTTCGGATGCC
31928882 AAATCCTAGT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31931288 original size:30 final size:30
Alignment explanation
Indices: 31931244--31931332 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
31931234 CAAAGATAAC
31931244 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
31931273 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
31931303 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
31931333 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:31931292 original size:15 final size:15
Alignment explanation
Indices: 31931244--31931323 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
31931234 CAAAGATAAC
*
31931244 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31931258 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
31931273 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
31931288 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31931303 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
31931318 AAGAAA
1 AAGAAA
31931324 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31931332 original size:15 final size:15
Alignment explanation
Indices: 31931255--31931332 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
31931245 AGAAAACCGA
31931255 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
31931270 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
31931284 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
31931299 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31931315 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31931330 ATA
1 ATA
31931333 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31934333 original size:46 final size:46
Alignment explanation
Indices: 31934266--31934438 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
31934256 TGTAACCCGC
*
31934266 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
31934312 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
31934362 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
31934403 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
31934439 ATGCCAAATC
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:31934431 original size:91 final size:92
Alignment explanation
Indices: 31934274--31934443 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
31934264 GCCCATAAGT
*
31934274 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
31934339 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31934367 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31934431 GAGTTCGGATGCC
66 GAGTTCGGATGCC
31934444 AAATCCTAGT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31936847 original size:30 final size:30
Alignment explanation
Indices: 31936803--31936891 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
31936793 CAAAGATAAC
31936803 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
31936832 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
31936862 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
31936892 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:31936851 original size:15 final size:15
Alignment explanation
Indices: 31936803--31936882 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
31936793 CAAAGATAAC
*
31936803 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31936817 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
31936832 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
31936847 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31936862 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
31936877 AAGAAA
1 AAGAAA
31936883 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31936891 original size:15 final size:15
Alignment explanation
Indices: 31936814--31936891 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
31936804 AGAAAACCGA
31936814 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
31936829 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
31936843 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
31936858 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31936874 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31936889 ATA
1 ATA
31936892 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31939895 original size:46 final size:46
Alignment explanation
Indices: 31939828--31940000 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
31939818 TGTAACCCGC
*
31939828 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
31939874 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
31939924 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
31939965 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
31940001 ATGCCAACCA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:31939993 original size:91 final size:92
Alignment explanation
Indices: 31939836--31940005 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
31939826 GCCCATAAGT
*
31939836 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
31939901 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31939929 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31939993 GAGTTCGGATGCC
66 GAGTTCGGATGCC
31940006 AACCATCCTA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31942919 original size:39 final size:39
Alignment explanation
Indices: 31942843--31942983 Score: 210
Period size: 39 Copynumber: 3.6 Consensus size: 39
31942833 CGCACAAAGG
* * * * *
31942843 CTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGC
1 CTTCGGG-CTTAGCCCAGATATCATAACTCGCACAATTGC
* *
31942883 CTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATTGC
1 CTTCGGGCTTAGCCCAGATATCATAACTCGCACAATTGC
31942922 CTTCGGGCTTAGCCCAGATATCATAACTCGCACAATTGC
1 CTTCGGGCTTAGCCCAGATATCATAACTCGCACAATTGC
31942961 CTTCGGGCTTAGCCCAGATATCA
1 CTTCGGGCTTAGCCCAGATATCA
31942984 CTCGAACATT
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.93
40 7 0.07
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (39 bp):
CTTCGGGCTTAGCCCAGATATCATAACTCGCACAATTGC
Found at i:31945193 original size:43 final size:44
Alignment explanation
Indices: 31945128--31945230 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 44
31945118 TTCAACGAAT
*
31945128 TCGCATACTTAGTGCC-GATTAATTAGCTGAAACTATAATTGTA
1 TCGCATACTTAGTGCCAGATTAATTAGCCGAAACTATAATTGTA
**
31945171 TCGCATACTTAGTGCCAG-TTAATTAGCCGAGGCTATAATTGTA
1 TCGCATACTTAGTGCCAGATTAATTAGCCGAAACTATAATTGTA
*
31945214 TCGCACACTTAGTGCCA
1 TCGCATACTTAGTGCCA
31945231 ATACATTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 54 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
TCGCATACTTAGTGCCAGATTAATTAGCCGAAACTATAATTGTA
Found at i:31952363 original size:20 final size:20
Alignment explanation
Indices: 31952317--31952367 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
31952307 CAACTGGCAT
*
31952317 AAATACTATTTATATGGATG
1 AAATACTGTTTATATGGATG
31952337 AAATACTGTTTATATGGATG
1 AAATACTGTTTATATGGATG
**
31952357 AGCTACTGTTT
1 AAATACTGTTT
31952368 GCAAATGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (20 bp):
AAATACTGTTTATATGGATG
Found at i:31954445 original size:23 final size:23
Alignment explanation
Indices: 31954419--31954636 Score: 253
Period size: 23 Copynumber: 9.5 Consensus size: 23
31954409 GCTACATCTC
31954419 AGTGGTAGCTTCGGCTACAATAT
1 AGTGGTAGCTTCGGCTACAATAT
* * *
31954442 AGTGATAGTTTCGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
31954464 CAGTGGTAGCTTCGGCTACAATAT
1 -AGTGGTAGCTTCGGCTACAATAT
* * *
31954488 AGTGATAGCTTTGGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
*
31954510 CAGTGGTAGCTTCGGCTACAATAC
1 -AGTGGTAGCTTCGGCTACAATAT
** *
31954534 AGTGGTAGCTTTTGCTAC-ATCT
1 AGTGGTAGCTTCGGCTACAATAT
*
31954556 CAGTGGTAGCTTCGGCTACAATAC
1 -AGTGGTAGCTTCGGCTACAATAT
*
31954580 AGTGGTAGCTTCGGCTACAATAC
1 AGTGGTAGCTTCGGCTACAATAT
**
31954603 AGTGGTAGCTTCGGCTACGTTAT
1 AGTGGTAGCTTCGGCTACAATAT
*
31954626 AGTGATAGCTT
1 AGTGGTAGCTT
31954637 TGGTTATATT
Statistics
Matches: 164, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
22 8 0.05
23 149 0.91
24 7 0.04
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACAATAT
Found at i:31954651 original size:46 final size:46
Alignment explanation
Indices: 31954408--31954639 Score: 351
Period size: 46 Copynumber: 5.0 Consensus size: 46
31954398 GGAATCTATA
31954408 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGATAG-TTT
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGATAGCTTT
31954453 CGGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGATAGCTTT
1 -GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGATAGCTTT
* *
31954500 GGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTT
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGATAGCTTT
* * * *
31954546 TGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGATAGCTTT
* **
31954592 GGCTACAAT-ACAGTGGTAGCTTCGGCTACGTTATAGTGATAGCTTT
1 GGCTAC-ATCTCAGTGGTAGCTTCGGCTACAATATAGTGATAGCTTT
31954638 GG
1 GG
31954640 TTATATTACA
Statistics
Matches: 173, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 168 0.97
47 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
GGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGATAGCTTT
Found at i:31957505 original size:35 final size:35
Alignment explanation
Indices: 31957466--31957535 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
31957456 CAATATGGTG
31957466 GTTTACCTACTACCTCAGGAAATTCATTTTCCCTA
1 GTTTACCTACTACCTCAGGAAATTCATTTTCCCTA
31957501 GTTTACCTACTACCTCAGGAAATTCATTTTCCCTA
1 GTTTACCTACTACCTCAGGAAATTCATTTTCCCTA
31957536 CCTTTTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.37
Consensus pattern (35 bp):
GTTTACCTACTACCTCAGGAAATTCATTTTCCCTA
Found at i:31961790 original size:38 final size:38
Alignment explanation
Indices: 31961699--31961887 Score: 252
Period size: 38 Copynumber: 4.9 Consensus size: 38
31961689 GAATCCAGTC
* * * *
31961699 ACCAGCACAAAGCCTGCGGAACTTTAAGCCCAGATATAGT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* * *
31961739 ACCAGCACTAAGCCTACAGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
31961777 ACCAGTACGAAGCCTGCGGGATTTAACCCGGATATACT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
* *
31961815 ACCAGCACGAAGCCTGCGGGACTTAACCTGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
*
31961853 ACCAGCACGAAGCCTGCGGGACTTAACCCGGATAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
31961888 GTTTCGAGTG
Statistics
Matches: 133, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 111 0.83
39 5 0.04
40 17 0.13
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:31969489 original size:38 final size:38
Alignment explanation
Indices: 31969408--31969558 Score: 212
Period size: 38 Copynumber: 3.9 Consensus size: 38
31969398 GAATCCAGTC
* * *
31969408 ACCAGCACAAAGCCTGCAGAACTTTAAGCCCGGATATAGT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* *
31969448 ACCAGCACTAAGCCTGTGGGATTTAACCCGGATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATT
31969486 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATT
* * *
31969524 TCCAGCACAAAGCCTGCAGGACTTAACCCGGATAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATAT
31969559 GTATCGAGTG
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 79 0.78
39 5 0.05
40 17 0.17
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:31971194 original size:40 final size:40
Alignment explanation
Indices: 31971113--31971294 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
31971103 AAACCAAGTA
** * * *
31971113 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAATTG
31971152 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
31971192 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
* *
31971232 CCTTCGGGACTT-GACCCGATTATAGTCACTCGCACAATTG
1 CCTTCGGGACTTAG-CCCGGTTATAGTAACTCGCACAATTG
*
31971272 CCTTCGGGACTTAGCCCAGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
31971295 CAATCCGAAT
Statistics
Matches: 130, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 14 0.11
40 115 0.88
41 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
Found at i:31982472 original size:40 final size:40
Alignment explanation
Indices: 31982373--31982550 Score: 251
Period size: 39 Copynumber: 4.6 Consensus size: 40
31982363 AAACCAAGTA
** * *
31982373 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
31982412 CCTTC-GGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
31982451 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
31982490 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
31982530 CCTTC-GG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
31982551 CAATCCGAAT
Statistics
Matches: 127, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
38 20 0.16
39 69 0.54
40 38 0.30
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:31982510 original size:79 final size:78
Alignment explanation
Indices: 31982373--31982550 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 78
31982363 AAACCAAGTA
* * *
31982373 CCTTCGGGGTTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGACTTAGCCCGGTTATAGT
1 CCTTC-GGGCTTAGCCCGGTTATAGCTACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGT
*
31982437 AACTCGCACAATTG
65 AACTCGCACAAATG
*
31982451 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCAC-AATGCCTTCGGGACTTGGCCCGGTTATA
1 CCTTCGGG-CTTAGCCCGGTTATAGCT-ACTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATA
31982514 GTAACTCGCACAAATG
63 GTAACTCGCACAAATG
31982530 CCTTC-GGCTTAGCCCGGTTAT
1 CCTTCGGGCTTAGCCCGGTTAT
31982551 CAATCCGAAT
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
77 17 0.19
78 21 0.23
79 53 0.58
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (78 bp):
CCTTCGGGCTTAGCCCGGTTATAGCTACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTA
ACTCGCACAAATG
Found at i:31984722 original size:40 final size:40
Alignment explanation
Indices: 31984663--31984870 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
31984653 CAATTGAATG
* * * *
31984663 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
31984703 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
31984743 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
31984783 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
31984823 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
31984863 ATATCCGG
1 ATATCCGG
31984871 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:31984801 original size:80 final size:80
Alignment explanation
Indices: 31984665--31984870 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
31984655 ATTGAATGAT
* * ** * * *
31984665 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
31984729 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
31984745 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
31984810 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
31984825 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
31984871 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:31992768 original size:40 final size:40
Alignment explanation
Indices: 31992709--31992916 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
31992699 CAATTGAATG
* * * *
31992709 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
31992749 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
31992789 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
31992829 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
31992869 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
31992909 ATATCCGG
1 ATATCCGG
31992917 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:31992847 original size:80 final size:80
Alignment explanation
Indices: 31992711--31992916 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
31992701 ATTGAATGAT
* * ** * * *
31992711 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
31992775 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
31992791 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
31992856 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
31992871 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
31992917 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:32002521 original size:40 final size:40
Alignment explanation
Indices: 32002465--32002632 Score: 161
Period size: 40 Copynumber: 4.2 Consensus size: 40
32002455 CAATTGAATG
*
32002465 ATATCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTGACTT
32002506 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG--TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AG-TGACTT
* * * *
32002545 AAATCCGGGCTAATACCCGAAGGCATTTGTGCA-AGACGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGAC-TT
* *
32002585 ATATCCGGGCTAAGACCCAAAGGC-ATTCGTGCATGTG-GTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCA-GTGACTT
32002625 ATATCCGG
1 ATATCCGG
32002633 TTGTATTCCA
Statistics
Matches: 105, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
37 1 0.01
39 8 0.08
40 91 0.87
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGACTT
Found at i:32002600 original size:80 final size:80
Alignment explanation
Indices: 32002467--32002632 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 80
32002457 ATTGAATGAT
* *
32002467 ATCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGATAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCAAAGGCATT
*
32002532 CGTGCAAGTTGTTAA
66 CGTGCAAGTGGTTAA
* * *
32002547 ATCCGGGCTAATACCCGAAGGCATTTGTGC-A-AGACGTTATATCCGGGCTAAGACCCAAAGGCA
1 ATCCGGGATAAGACCCGAAGGCAATTGTGCTAGAGAC-TT-TATCCGGGCTAAGACCCAAAGGCA
* *
32002610 TTCGTGCATGTGGTTAT
64 TTCGTGCAAGTGGTTAA
32002627 ATCCGG
1 ATCCGG
32002633 TTGTATTCCA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 3 0.04
79 3 0.04
80 70 0.92
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATCCGGGATAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCAAAGGCATT
CGTGCAAGTGGTTAA
Found at i:32008771 original size:24 final size:24
Alignment explanation
Indices: 32008744--32008790 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
32008734 TTGAAAACAA
32008744 ATATCATATCAATGTCAAACTAAG
1 ATATCATATCAATGTCAAACTAAG
32008768 ATATCATATCAATGTCAAACTAA
1 ATATCATATCAATGTCAAACTAA
32008791 CACTTACTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (24 bp):
ATATCATATCAATGTCAAACTAAG
Found at i:32013878 original size:11 final size:11
Alignment explanation
Indices: 32013862--32013892 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32013852 TTTTGCTGCT
*
32013862 ATCAACATGTC
1 ATCAACATATC
32013873 ATCAACATATC
1 ATCAACATATC
32013884 ATCAACATA
1 ATCAACATA
32013893 AAGAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (11 bp):
ATCAACATATC
Found at i:32015502 original size:24 final size:24
Alignment explanation
Indices: 32015470--32015644 Score: 165
Period size: 24 Copynumber: 7.0 Consensus size: 24
32015460 GGCATTGTGT
*
32015470 TAAGTGAAATAA-TACTATGGCATC
1 TAAGTGAAATAAGT-CCATGGCATC
* *
32015494 TAAGTGAAATAAGACCATGACATC
1 TAAGTGAAATAAGTCCATGGCATC
* * *
32015518 TAAGTGAAGTAAGT-TATTGTCAATGTGC
1 TAAGTGAAATAAGTCCA-TGGC-A--T-C
**
32015546 TAAGTGAAATAAAACCATGGCATC
1 TAAGTGAAATAAGTCCATGGCATC
32015570 TAAGTGAAATAAGTCCATGGCAATGTGC
1 TAAGTGAAATAAGTCCATGGC-A--T-C
32015598 TAAGTGAAATAAGTCCATGGCATC
1 TAAGTGAAATAAGTCCATGGCATC
*
32015622 TAAGTGAAATAAGTCCATAGCAT
1 TAAGTGAAATAAGTCCATGGCAT
32015645 GGTGCTAAGG
Statistics
Matches: 125, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
23 1 0.01
24 78 0.62
25 4 0.03
27 4 0.03
28 37 0.30
29 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (24 bp):
TAAGTGAAATAAGTCCATGGCATC
Found at i:32015552 original size:52 final size:52
Alignment explanation
Indices: 32015493--32015653 Score: 227
Period size: 52 Copynumber: 3.1 Consensus size: 52
32015483 ACTATGGCAT
* * * *
32015493 CTAAGTGAAATAAGACCATGACATCTAAGTGAAGTAAGT-TATTGTCAATGTG
1 CTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCA-TGGCAATGTG
*
32015545 CTAAGTGAAATAAAACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTG
1 CTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTG
* *
32015597 CTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATAGC-ATGGTG
1 CTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAAT-GTG
32015649 CTAAG
1 CTAAG
32015654 GGAGAAATTT
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 96 0.97
53 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (52 bp):
CTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTG
Found at i:32015625 original size:76 final size:75
Alignment explanation
Indices: 32015470--32015633 Score: 183
Period size: 76 Copynumber: 2.2 Consensus size: 75
32015460 GGCATTGTGT
* * * *
32015470 TAAGTGAAATAATACTATGGCATCTAAGTGAAATAAGACCATGACATCTAAGTGAAGTAAGTTAT
1 TAAGTGAAATAAAACCATGGCATCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCAT
*
32015535 TGTCAATGTGC
66 TGGCAA-GTGC
* *
32015546 TAAGTGAAATAAAACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAG
1 TAAGTGAAATAAAACCATGGCATCTAAGTGAAATAAGACCATGAC-A--T-CTAAGTGAAATAAG
32015611 TCCA-TGGC-A-T-C
62 T-CATTGGCAAGTGC
32015622 TAAGTGAAATAA
1 TAAGTGAAATAA
32015634 GTCCATAGCA
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
76 54 0.71
77 2 0.03
79 2 0.03
80 17 0.22
81 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (75 bp):
TAAGTGAAATAAAACCATGGCATCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCAT
TGGCAAGTGC
Found at i:32015735 original size:51 final size:51
Alignment explanation
Indices: 32015680--32015879 Score: 289
Period size: 51 Copynumber: 3.9 Consensus size: 51
32015670 TGAACCTTAG
*
32015680 GAATAAAATAGCTTTGGACACAAGTGTGGTATTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
32015731 GAATATAATAGCTTTAGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
32015782 GAATATAATAGCTTTGGACATAAGT-TGGGCACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGT-GGTACTATGTGAAGGCCACTTTGT
*
32015833 GAATAAAATAGCTTTGG-CTACAAG-GCTGGTACTATGTGAAGGTCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTG-TGGTACTATGTGAAGGCCACT
32015880 GTGTATCCGT
Statistics
Matches: 135, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
50 2 0.01
51 132 0.98
52 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:32018874 original size:32 final size:32
Alignment explanation
Indices: 32018833--32018899 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
32018823 TCGTACGAGG
32018833 TAAGTCAAATTACAATTAAATGTTAAATTGAC
1 TAAGTCAAATTACAATTAAATGTTAAATTGAC
*
32018865 TAAGTCAAATTACAATTACATGTTAAATTGAC
1 TAAGTCAAATTACAATTAAATGTTAAATTGAC
32018897 TAA
1 TAA
32018900 ATTCTGCGCA
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:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (32 bp):
TAAGTCAAATTACAATTAAATGTTAAATTGAC
Done.