Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2182627
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:6779 original size:20 final size:20
Alignment explanation
Indices: 6754--6819 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
6744 AAAGAAGAAG
6754 AAAAATAAGTGAA-AAAATAA-
1 AAAAATAA-T-AATAAAATAAT
6774 AAAAATAATAATAAAATAAT
1 AAAAATAATAATAAAATAAT
*
6794 AAAAAAAATAA-AAAATGAAT
1 AAAAATAATAATAAAAT-AAT
6814 GAAAAA
1 -AAAAA
6820 AATGAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 2 0.05
19 13 0.32
20 21 0.51
21 5 0.12
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AAAAATAATAATAAAATAAT
Found at i:6783 original size:11 final size:11
Alignment explanation
Indices: 6765--6822 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
6755 AAAATAAGTG
6765 AAAA-AATAAA
1 AAAATAATAAA
*
6775 AAAATAATAAT
1 AAAATAATAAA
6786 AAAATAAT-AA
1 AAAATAATAAA
6796 AAAA-AAT-AA
1 AAAATAATAAA
6805 AAAATGAATGAAA
1 AAAAT-AAT-AAA
6818 AAAAT
1 AAAAT
6823 GAAAAAATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.22
10 9 0.22
11 16 0.39
13 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:6820 original size:20 final size:20
Alignment explanation
Indices: 6765--6832 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
6755 AAAATAAGTG
*
6765 AAAAAAT-AA-AAAAATAAT
1 AAAAAATGAATAAAAAAAAT
6783 AATAAAAT-AATAAAAAAAAT
1 AA-AAAATGAATAAAAAAAAT
*
6803 AAAAAATGAATGAAAAAAAT
1 AAAAAATGAATAAAAAAAAT
6823 GAAAAAATGA
1 -AAAAAATGA
6833 GGGTTCAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 2 0.05
19 12 0.27
20 21 0.48
21 9 0.20
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (20 bp):
AAAAAATGAATAAAAAAAAT
Found at i:7900 original size:55 final size:55
Alignment explanation
Indices: 7815--8561 Score: 1015
Period size: 55 Copynumber: 13.7 Consensus size: 55
7805 AGGTTCCCCA
* * * *
7815 CGATCGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGGAATAGGGGGCGGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
7870 CGATCGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGG-AGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * *
7924 CGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
7979 CGATCGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGAAATAAGGGGC-GAACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAG-ACG
* * *
8034 CGATCATTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * ** **
8089 CGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGTGGATA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * * *
8144 CGATTGCTGAAGATTGTTCGGGTC-T-TACTCTTTGAAGAAATAGAGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8197 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGACA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
** * *
8252 CGATTATTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
8307 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
8360 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGACGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * * * *
8415 CGATTGATGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATGGGGGGCATAAG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
8468 TGATCATTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8523 CGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
8562 GACTATGGAG
Statistics
Matches: 608, Mismatches: 75, Indels: 18
0.87 0.11 0.03
Matches are distributed among these distances:
53 134 0.22
54 57 0.09
55 416 0.68
56 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:8217 original size:108 final size:110
Alignment explanation
Indices: 7813--8561 Score: 994
Period size: 108 Copynumber: 6.9 Consensus size: 110
7803 ACAGGTTCCC
* * * * *
7813 CACGATCGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGGAATAGGGGGCGGACGCGATCGTT
1 CACGATCATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
7878 GAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGG-AGA
66 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGA
* * * *
7922 CGCGAT-AGTTGAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGCGGACACGATCGT
1 CACGATCA-TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
* * * *
7986 TGAAGATTGTTCAAGTCTCATACTCTCTGAAGAAATAAGGGGCGAA
65 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGA
* * * *
8032 CGCGATCATTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACGCGATAGTT
1 CACGATCATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
8097 GAAGATTGTTCGAGTCTTATACTCTCTGAGGAAATAGGGGGTGGA
66 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGA
* *** * * *
8142 TACGATTGCTGAAGATTGTTCGGGTC-T-TACTCTTTGAAGAAATAGAGGGCAGACGCGATCGTT
1 CACGATCATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
8205 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGA
66 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGA
* * * * *
8250 CACGATTATTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGACGCGATTGAT
1 CACGATCATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
8315 GAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
66 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGA
* * * * *
8358 CGCGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGACGAAATAGGGGGCAGACGCGATTGAT
1 CACGATCATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* **
8423 GAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATGGGGGGCATA
66 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGA
* * *
8466 -AGTGATCATTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
1 CA-CGATCATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
*
8530 TAAAGATTGTTCGAGTCTTATACTCTCTGAAG
65 TGAAGATTGTTCGAGTCTTATACTCTCTGAAG
8562 GACTATGGAG
Statistics
Matches: 570, Mismatches: 62, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
108 294 0.52
109 100 0.18
110 175 0.31
111 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (110 bp):
CACGATCATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGA
Found at i:8268 original size:163 final size:162
Alignment explanation
Indices: 7813--8561 Score: 1010
Period size: 163 Copynumber: 4.6 Consensus size: 162
7803 ACAGGTTCCC
* * *
7813 CACGATCGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGGAATAGGGGGCGGACGCGATCGTT
1 CACGATCGTTGAAGATTGTTCGAGTCT-ATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
7878 GAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGAGACGCGATAGTTGAAGATTGTTC
65 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGAGACGCGATAGTTGAAGATTGTTC
*
7943 GAGTCTTATACTCTCTGAGGAAATAGGGGGCGGA
130 GAGTCTTATACTCTCTGAAGAAATAGGGGG-GGA
* * *
7977 CACGATCGTTGAAGATTGTTCAAGTCTCATACTCTCTGAAGAAATAAGGGGC-GAACGCGATCAT
1 CACGATCGTTGAAGATTGTTCGAGTCT-ATACTCTCTGAAGAAATAGGGGGCAG-ACGCGATCGT
*
8041 TGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGGAGACGCGATAGTTGAAGATTGT
64 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGGGGAGACGCGATAGTTGAAGATTGT
*
8106 TCGAGTCTTATACTCTCTGAGGAAATAGGGGGTGGA
128 TCGAGTCTTATACTCTCTGAAGAAATAGGGGG-GGA
* * * * * *
8142 TACGATTGCTGAAGATTGTTCGGGTCT-TACTCTTTGAAGAAATAGAGGGCAGACGCGATCGTTG
1 CACGATCGTTGAAGATTGTTCGAGTCTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTG
* *
8206 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCGGACACGATTA-TTGAAGATTGTT
66 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGG-AGACGCGA-TAGTTGAAGATTGTT
* *
8270 CGGGTCTTATACTCTCTGAAGAAATAGGGGGAAGA
129 CGAGTCTTATACTCTCTGAAGAAATAGGGGG-GGA
* * * *
8305 CGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 CACGATCGTTGAAGATTGTTCGAGTC-TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * *
8368 GAAGATTGTTCGAGTCTTATACTCTCTGACGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T
65 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGG-AGACGCGATAGTTGAAGATTGTT
*
8432 -GAGTCTTATACTCTCTGAAGAAAT-GGGGGGCA
129 CGAGTCTTATACTCTCTGAAGAAATAGGGGGGGA
* * * * *
8464 TAAGTGATCATTGAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTG
1 -CA-CGATCGTTGAAGATTGTTCGAGTC-TATACTCTCTGAAGAAATAGGGGGCAGACGCGATCG
*
8529 TTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
63 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
8562 GACTATGGAG
Statistics
Matches: 529, Mismatches: 44, Indels: 25
0.88 0.07 0.04
Matches are distributed among these distances:
159 1 0.00
160 5 0.01
161 39 0.07
162 10 0.02
163 291 0.55
164 99 0.19
165 84 0.16
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (162 bp):
CACGATCGTTGAAGATTGTTCGAGTCTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTG
AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGAGACGCGATAGTTGAAGATTGTTCG
AGTCTTATACTCTCTGAAGAAATAGGGGGGGA
Found at i:18037 original size:4 final size:4
Alignment explanation
Indices: 18028--18052 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18018 TATTATGTTA
18028 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
18053 TACTTATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:26609 original size:16 final size:16
Alignment explanation
Indices: 26588--26632 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
26578 TGATCTCTTC
26588 ATTATTATTAGTATTA
1 ATTATTATTAGTATTA
*
26604 ATTATTA-TA--ATTT
1 ATTATTATTAGTATTA
*
26617 TTTATTATTAGTATTA
1 ATTATTATTAGTATTA
26633 GCCCATTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 2 0.09
16 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
ATTATTATTAGTATTA
Found at i:27444 original size:3 final size:3
Alignment explanation
Indices: 27436--27553 Score: 164
Period size: 3 Copynumber: 38.7 Consensus size: 3
27426 TTTTTATCCA
* * * *
27436 TAT TAT TAT TAA TAA TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
27484 TAT TAT TAT ATAT ATAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
27531 TAT TAT TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
27554 AATATATTAA
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
3 99 0.93
4 7 0.07
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:40357 original size:11 final size:11
Alignment explanation
Indices: 40341--40371 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
40331 ATGCTTGAAG
*
40341 AGAAAAGAAAA
1 AGAAAAAAAAA
40352 AGAAAAAAAAA
1 AGAAAAAAAAA
40363 AGAAAAAAA
1 AGAAAAAAA
40372 GAAAAAGGGG
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:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:40744 original size:19 final size:20
Alignment explanation
Indices: 40711--40752 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
40701 TTCAAGTTCA
*
40711 ATTTATTGGAGATTCAATTT
1 ATTTATTGGAAATTCAATTT
40731 ATTT-TTGGAAATTCAATTT
1 ATTTATTGGAAATTCAATTT
40750 ATT
1 ATT
40753 CTTTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTATTGGAAATTCAATTT
Found at i:41745 original size:84 final size:84
Alignment explanation
Indices: 41487--41809 Score: 545
Period size: 83 Copynumber: 3.9 Consensus size: 84
41477 ATATCTTAGT
41487 CCAATCATT-AA--TGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGT-TTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
41548 CTGATCTGATTTGGTAGAA
66 CTGATCTGATTTGGCAGAA
41567 CCAATCA-TGAATTTGGAAGATGAA-TTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAG-TAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
41629 CTGATCTGATTTGGCAGAA
66 CTGATCTGATTTGGCAGAA
41648 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
41713 CTGATCTGATTTGGCAGAA
66 CTGATCTGATTTGGCAGAA
* *
41732 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTTTGAAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* *
41796 CTAATCTGGTTTGG
66 CTGATCTGATTTGG
41810 TAAAAATTAC
Statistics
Matches: 231, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
79 1 0.00
80 9 0.04
81 53 0.23
82 37 0.16
83 79 0.34
84 52 0.23
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (84 bp):
CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGATTTGGCAGAA
Found at i:42870 original size:116 final size:116
Alignment explanation
Indices: 42528--42977 Score: 600
Period size: 116 Copynumber: 4.0 Consensus size: 116
42518 CAAAGATTCA
* * * * * *
42528 AATCTATCATTTGATAGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGA
* * *
42593 AGGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACCTG
*
42644 AATCCATCATTGGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCT--
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGA
* *
42704 -GAA-GAAGAAGAAGTTCAT-ATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACCTG
*
42752 AATCCATCATTTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGA
* *
42817 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAATC-TTTAGCTTG
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTA-CCTG
* * * *
42868 AATTCATCATTTGATGGATCA-ATATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AATCCATCATTTGATGGATCAGCT-TTTCCAGAG-AAAGTTCATAATGAGAAGAACTCGTCATCT
* *
42931 GAAGAAGAAAGAAGAAGTTCATAATAAGAAG-ACTTGTTCAACTTTTT
64 GAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTT
42978 GCATAATTCT
Statistics
Matches: 301, Mismatches: 21, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
108 81 0.27
109 15 0.05
110 3 0.01
111 6 0.02
113 6 0.02
114 4 0.01
115 30 0.10
116 156 0.52
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (116 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGA
AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACCTG
Found at i:42923 original size:224 final size:227
Alignment explanation
Indices: 42528--42944 Score: 603
Period size: 224 Copynumber: 1.8 Consensus size: 227
42518 CAAAGATTCA
* * * * *
42528 AATCTATCATTTGATAGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGA
1 AATCCATCATTTGATAGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCATCTGA
* * *
42593 AGGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTGGA
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTGGA
* *
42658 TGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA-C-TCATCTGAAGAAG-AAGAAGTTC
131 TGGATCAGATTTGCCAGAGAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGAAAGAAGTTC
42720 ATATGAGAAGAATTTGTTCAACCTTTTACCTG
196 ATATGAGAAGAATTTGTTCAACCTTTTACCTG
* *
42752 AATCCATCATTTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGA
1 AATCCATCATTTGATAGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCATCTGA
* * * *
42817 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAATC-TTTAGCTTGAATTCATCATTTG
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTA-CCTGAATCCATCATTGG
*
42881 ATGGATCA-ATATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAAGAA
130 ATGGATCAGAT-TTGCCAGAG-AAAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGAAAGAA
42944 G
192 G
42945 AAGTTCATAA
Statistics
Matches: 169, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
223 6 0.04
224 143 0.85
226 1 0.01
227 13 0.08
228 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (227 bp):
AATCCATCATTTGATAGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCATCTGA
AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACCTGAATCCATCATTGGA
TGGATCAGATTTGCCAGAGAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGAAAGAAGTTC
ATATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:43288 original size:3 final size:3
Alignment explanation
Indices: 43282--43379 Score: 121
Period size: 3 Copynumber: 32.7 Consensus size: 3
43272 TTTTTATCCA
* *
43282 TAT TAT TAT TAT AATT TAT TAT TAT TAT TAT TAT TATT TAT TAC TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
*
43329 TAT TA- TAT TAT T-T TAC TAT TAT TAT TA- TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
43372 TAT TAT TA
1 TAT TAT TA
43380 AATATATATT
Statistics
Matches: 83, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
2 6 0.07
3 69 0.83
4 8 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:43358 original size:22 final size:22
Alignment explanation
Indices: 43282--43397 Score: 123
Period size: 22 Copynumber: 5.3 Consensus size: 22
43272 TTTTTATCCA
43282 TATTATTATTATA--A-TTTAT
1 TATTATTATTATATTATTTTAT
43301 TATTATTATTATTATTA-TTTAT
1 TATTATTATTA-TATTATTTTAT
* *
43323 TACTATTATTATATTATTTTAC
1 TATTATTATTATATTATTTTAT
43345 TATTATTATTATATTATTATTTAT
1 TATTATTATTATATTA-T-TTTAT
* * *
43369 TATTATTATTAAATATATATTAA
1 TATTATTATTATAT-TATTTTAT
43392 TATTAT
1 TATTAT
43398 ATATAAATAA
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.13
20 2 0.02
21 5 0.06
22 35 0.42
23 10 0.12
24 18 0.22
25 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTATTATATTATTTTAT
Found at i:43395 original size:17 final size:17
Alignment explanation
Indices: 43369--43402 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43359 TATTATTTAT
*
43369 TATTATTATTAAATATA
1 TATTAATATTAAATATA
*
43386 TATTAATATTATATATA
1 TATTAATATTAAATATA
43403 AATAATTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTAATATTAAATATA
Found at i:43853 original size:19 final size:19
Alignment explanation
Indices: 43831--43867 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
43821 GAGAAGGGAC
43831 AGAGAGACAGAAAAAAAAG
1 AGAGAGACAGAAAAAAAAG
43850 AGAGAGACAGAAAAAAAA
1 AGAGAGACAGAAAAAAAA
43868 AACAGAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.05, G:0.24, T:0.00
Consensus pattern (19 bp):
AGAGAGACAGAAAAAAAAG
Found at i:43874 original size:19 final size:19
Alignment explanation
Indices: 43833--43875 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
43823 GAAGGGACAG
* *
43833 AGAGACAGAAAAAAAAGAG
1 AGAGACAGAAAAAAAAAAC
43852 AGAGACAGAAAAAAAAAAC
1 AGAGACAGAAAAAAAAAAC
43871 AGAGA
1 AGAGA
43876 AGATACAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (19 bp):
AGAGACAGAAAAAAAAAAC
Found at i:44602 original size:263 final size:265
Alignment explanation
Indices: 44134--44662 Score: 1003
Period size: 263 Copynumber: 2.0 Consensus size: 265
44124 GGTGACATTC
44134 ACGGCGGCACACGGTGGCCGACCGTGACGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCAA
1 ACGGCGGCACACGGTGGCCGACCGTGACGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCAA
44199 GAGTTTAAAACTCTCTCAGTTTAGAGAGGAGAGTGAAATGAAAAATGAAGGCTGGCCCTTCGGGC
66 GAGTTTAAAACTCTCTCAGTTTAGAGAGGAGAGTGAAATGAAAAATGAAGGCTGGCCCTTCGGGC
44264 CAGCCGGTTTGGACCATATATAGTCCTTCCCGAACGACGTCGTTTCGGGAAGGACTATGCGCGTA
131 CAGCCGGTTTGGACCATATATAGTCCTTCCCGAACGACGTCGTTTCGGGAAGGACTATGCGCGTA
44329 ATTATAAAATAGTTAAACCCGTCCGCAGTCCTCCGAACTTGTAAAC-TTACATTTTAGTCACTAA
196 ATTATAAAATAGTTAAACCCGTCCGCAGTCCTCCGAACTTGTAAACTTTACATTTTAGTCACTAA
44393 ATTGA
261 ATTGA
44398 ACGGCGGCACACGGTGG-CGACCGTGACCGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCA
1 ACGGCGGCACACGGTGGCCGACCGTGA-CGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGC-
*
44462 AAGAGTTTTAAACTCTCTCAGTTTAGAGA-GAGAGTGAAATG-AAAATGAAGGCTGGCCCTTCGG
64 AAGAGTTTAAAACTCTCTCAGTTTAGAGAGGAGAGTGAAATGAAAAATGAAGGCTGGCCCTTCGG
44525 GCCAGCCGGTTTGGACCATATATAGTCCTTCCCGAACGACGTCGTTTCGGGAAGGACTATGCGCG
129 GCCAGCCGGTTTGGACCATATATAGTCCTTCCCGAACGACGTCGTTTCGGGAAGGACTATGCGCG
44590 TAATTATAAAATAGTTAAACCCGTCCGCAGTCCTCCGAACTTGTAAACTTTACATTTTAGTCACT
194 TAATTATAAAATAGTTAAACCCGTCCGCAGTCCTCCGAACTTGTAAACTTTACATTTTAGTCACT
44655 AAATTGA
259 AAATTGA
44662 A
1 A
44663 TTTATAATAT
Statistics
Matches: 261, Mismatches: 1, Indels: 6
0.97 0.00 0.02
Matches are distributed among these distances:
263 144 0.55
264 89 0.34
265 28 0.11
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (265 bp):
ACGGCGGCACACGGTGGCCGACCGTGACGGCTTCCCTCCGATGAGGGAAGCTAGAGAGAAGGCAA
GAGTTTAAAACTCTCTCAGTTTAGAGAGGAGAGTGAAATGAAAAATGAAGGCTGGCCCTTCGGGC
CAGCCGGTTTGGACCATATATAGTCCTTCCCGAACGACGTCGTTTCGGGAAGGACTATGCGCGTA
ATTATAAAATAGTTAAACCCGTCCGCAGTCCTCCGAACTTGTAAACTTTACATTTTAGTCACTAA
ATTGA
Found at i:45041 original size:18 final size:19
Alignment explanation
Indices: 45005--45044 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
44995 ATTGTATTTT
**
45005 TATTTATTATATTGTTAAA
1 TATTTATTATATTCATAAA
45024 TATTT-TTATATTCATAAA
1 TATTTATTATATTCATAAA
45042 TAT
1 TAT
45045 ATAATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTTATTATATTCATAAA
Found at i:45727 original size:21 final size:21
Alignment explanation
Indices: 45656--45729 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 21
45646 AGTGTCCAAC
* *
45656 AATAACAAAACCGGTAGAAAA
1 AATAACAAAATCGGTAGAAAT
*
45677 AATAACAAAATCGGTAAAACGTCCAAT
1 AATAACAAAATCGGT---A-G--AAAT
45704 AATAACAAAATCGGTAGAAAT
1 AATAACAAAATCGGTAGAAAT
45725 AATAA
1 AATAA
45730 TATTTTCGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
21 22 0.51
23 1 0.02
24 2 0.05
25 1 0.02
27 17 0.40
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (21 bp):
AATAACAAAATCGGTAGAAAT
Found at i:45739 original size:48 final size:48
Alignment explanation
Indices: 45631--45741 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 48
45621 CAATGTTTTT
* * **
45631 TAATATTTCCAGTAAAGTGTCCAACAATAACAAAACCGGTAGAAAAAA
1 TAATATTTTCGGTAAAACGTCCAACAATAACAAAACCGGTAGAAAAAA
* *** * * *
45679 TAACAAAATCGGTAAAACGTCCAATAATAACAAAATCGGTAGAAATAA
1 TAATATTTTCGGTAAAACGTCCAACAATAACAAAACCGGTAGAAAAAA
45727 TAATATTTTCGGTAA
1 TAATATTTTCGGTAA
45742 TTTTTTTACT
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (48 bp):
TAATATTTTCGGTAAAACGTCCAACAATAACAAAACCGGTAGAAAAAA
Found at i:47714 original size:5 final size:5
Alignment explanation
Indices: 47706--47799 Score: 68
Period size: 5 Copynumber: 17.6 Consensus size: 5
47696 TATCATGTTG
*
47706 TTTAT TTTAT TACCTTAT TTTAC TTTAT TTTAT TTTAT TTAGTAT TATTAT
1 TTTAT TTTAT T---TTAT TTTAT TTTAT TTTAT TTTAT TT--TAT T-TTAT
*
47757 TTCAT TTTAT TTCGT-T TTTA- TTTA- TTTAT TTTAT CTTTAT TTT
1 TTTAT TTTAT TT--TAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTT
47800 TAAAAATGTA
Statistics
Matches: 74, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
4 9 0.12
5 42 0.57
6 12 0.16
7 5 0.07
8 6 0.08
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (5 bp):
TTTAT
Found at i:47756 original size:23 final size:24
Alignment explanation
Indices: 47730--47790 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
47720 TTATTTTACT
47730 TTATTTTATTTTATTTAG-TATTA
1 TTATTTTATTTTATTTAGTTATTA
* * *
47753 TTATTTCATTTTATTTCGTTTTTA
1 TTATTTTATTTTATTTAGTTATTA
47777 TT-TATTTATTTTAT
1 TTAT-TTTATTTTAT
47791 CTTTATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 17 0.53
24 15 0.47
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (24 bp):
TTATTTTATTTTATTTAGTTATTA
Found at i:52506 original size:24 final size:24
Alignment explanation
Indices: 52471--52620 Score: 176
Period size: 24 Copynumber: 6.3 Consensus size: 24
52461 GAGTTGAGGG
*
52471 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
* * *
52495 TTCTATGTGGTCCTCCGGGATAAA
1 TTCTATGCGGTCCTTCGGGACAAA
* * *
52519 TTTTATGCAGTCCTTTGGGACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
*
52543 TTCTGTGCGGTCCTTCGGGACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
*
52567 TTCTGTGCGGTCCTTCGGGACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
* * * *
52591 TTCTACGCGGTCATTTGGAACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
52615 -TCTATG
1 TTCTATG
52621 TGGCACTTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
23 5 0.05
24 101 0.95
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (24 bp):
TTCTATGCGGTCCTTCGGGACAAA
Found at i:52608 original size:72 final size:72
Alignment explanation
Indices: 52477--52615 Score: 197
Period size: 72 Copynumber: 1.9 Consensus size: 72
52467 AGGGTTCTAC
* * * * * *
52477 GCGGTCCTTCGGGACAAATTCTATGTGGTCCTCCGGGATAAATTTTATGCAGTCCTTTGGGACAA
1 GCGGTCCTTCGGGACAAATTCTATGCGGTCCTCCGGGACAAATTCTACGCAGTCATTTGGAACAA
52542 ATTCTGT
66 ATTCTGT
* * *
52549 GCGGTCCTTCGGGACAAATTCTGTGCGGTCCTTCGGGACAAATTCTACGCGGTCATTTGGAACAA
1 GCGGTCCTTCGGGACAAATTCTATGCGGTCCTCCGGGACAAATTCTACGCAGTCATTTGGAACAA
52614 AT
66 AT
52616 CTATGTGGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (72 bp):
GCGGTCCTTCGGGACAAATTCTATGCGGTCCTCCGGGACAAATTCTACGCAGTCATTTGGAACAA
ATTCTGT
Found at i:66078 original size:5 final size:5
Alignment explanation
Indices: 66070--66173 Score: 57
Period size: 5 Copynumber: 19.0 Consensus size: 5
66060 TATCATGTTT
*
66070 TTTTA TTTTA TTACCTTA TTTTA TTTTA CTTTA TTTTA TTTAGTA TTATTA
1 TTTTA TTTTA TT---TTA TTTTA TTTTA TTTTA TTTTA TTT--TA TT-TTA
* * * * *
66121 TTTCA TTTTG TTTCA TCCTT- TTTTA TTTAA TTATTTA TTTTA TCTTTA
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA -T-TTTA TTTTA T-TTTA
66169 TTTTA
1 TTTTA
66174 AAAAATGTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
4 2 0.03
5 49 0.64
6 12 0.16
7 7 0.09
8 6 0.08
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (5 bp):
TTTTA
Found at i:69411 original size:13 final size:13
Alignment explanation
Indices: 69393--69418 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69383 TTATAGTTTG
69393 GTAAAAATTCAAT
1 GTAAAAATTCAAT
69406 GTAAAAATTCAAT
1 GTAAAAATTCAAT
69419 TTGGTCATTA
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:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
GTAAAAATTCAAT
Found at i:69958 original size:16 final size:18
Alignment explanation
Indices: 69923--69959 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
69913 TCTTGTTTAT
69923 TTTAGTTATATAACTATG
1 TTTAGTTATATAACTATG
*
69941 TTTA-TTATTTAA-TATG
1 TTTAGTTATATAACTATG
69957 TTT
1 TTT
69960 TACACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 7 0.39
18 4 0.22
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTAGTTATATAACTATG
Found at i:69961 original size:17 final size:19
Alignment explanation
Indices: 69922--69961 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
69912 TTCTTGTTTA
69922 TTTTAGTTATATAACTATG
1 TTTTAGTTATATAACTATG
*
69941 -TTTA-TTATTTAA-TATG
1 TTTTAGTTATATAACTATG
69957 TTTTA
1 TTTTA
69962 CACTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 4 0.21
17 11 0.58
18 4 0.21
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTAGTTATATAACTATG
Found at i:71925 original size:23 final size:23
Alignment explanation
Indices: 71899--71946 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
71889 TCCTTATGGA
*
71899 CAATCTTATATGGCACTACGGTG
1 CAATCTTACATGGCACTACGGTG
* * *
71922 CAATTTTACGTGGCACTTCGGTG
1 CAATCTTACATGGCACTACGGTG
71945 CA
1 CA
71947 TTTCTACGCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (23 bp):
CAATCTTACATGGCACTACGGTG
Found at i:71954 original size:23 final size:24
Alignment explanation
Indices: 71909--72003 Score: 81
Period size: 23 Copynumber: 4.0 Consensus size: 24
71899 CAATCTTATA
*
71909 TGGCACTACGGTGCAATTT-TACG
1 TGGCACTTCGGTGCAATTTCTACG
71932 TGGCACTTCGGTGC-ATTTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
* * *
71955 CGGTC-CTTCGG-GACAAATTCTATG
1 TGG-CACTTCGGTG-CAATTTCTACG
* *
71979 TGGCACTGCGGTGCAAATTTATACG
1 TGGCACTTCGGTGC-AATTTCTACG
72004 AGCTGTGGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
22 5 0.09
23 27 0.48
24 16 0.29
25 8 0.14
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (24 bp):
TGGCACTTCGGTGCAATTTCTACG
Found at i:76786 original size:20 final size:20
Alignment explanation
Indices: 76761--76813 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
76751 AATTTGAAGA
76761 TGCATCGATGCATTAAGGGG
1 TGCATCGATGCATTAAGGGG
76781 TGCATCGATGCATTAAGGGG
1 TGCATCGATGCATTAAGGGG
*
76801 TGCATCAATGCAT
1 TGCATCGATGCAT
76814 GGATATTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCATTAAGGGG
Found at i:76901 original size:20 final size:20
Alignment explanation
Indices: 76876--76928 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
76866 AATTTGAAGA
76876 TGCATCGATGCATTAAGGGG
1 TGCATCGATGCATTAAGGGG
76896 TGCATCGATGCATTAAGGGG
1 TGCATCGATGCATTAAGGGG
*
76916 TGCATCAATGCAT
1 TGCATCGATGCAT
76929 GGATATTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCATTAAGGGG
Found at i:76934 original size:115 final size:115
Alignment explanation
Indices: 76732--76962 Score: 462
Period size: 115 Copynumber: 2.0 Consensus size: 115
76722 TATGAGTGTG
76732 TACCGATGCACTAAGATAAAATTTGAAGATGCATCGATGCATTAAGGGGTGCATCGATGCATTAA
1 TACCGATGCACTAAGATAAAATTTGAAGATGCATCGATGCATTAAGGGGTGCATCGATGCATTAA
76797 GGGGTGCATCAATGCATGGATATTTTGAAGCTATTTTGTGTACCGATGCA
66 GGGGTGCATCAATGCATGGATATTTTGAAGCTATTTTGTGTACCGATGCA
76847 TACCGATGCACTAAGATAAAATTTGAAGATGCATCGATGCATTAAGGGGTGCATCGATGCATTAA
1 TACCGATGCACTAAGATAAAATTTGAAGATGCATCGATGCATTAAGGGGTGCATCGATGCATTAA
76912 GGGGTGCATCAATGCATGGATATTTTGAAGCTATTTTGTGTACCGATGCA
66 GGGGTGCATCAATGCATGGATATTTTGAAGCTATTTTGTGTACCGATGCA
76962 T
1 T
76963 CCATAGTGCA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (115 bp):
TACCGATGCACTAAGATAAAATTTGAAGATGCATCGATGCATTAAGGGGTGCATCGATGCATTAA
GGGGTGCATCAATGCATGGATATTTTGAAGCTATTTTGTGTACCGATGCA
Found at i:77948 original size:23 final size:23
Alignment explanation
Indices: 77922--77967 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
77912 TCCTTATGGA
*
77922 CAATCTTATATGGCACTACGGTG
1 CAATCTTACATGGCACTACGGTG
* * *
77945 CAATTTTACGTGGCACTTCGGTG
1 CAATCTTACATGGCACTACGGTG
77968 TATTTCTACG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (23 bp):
CAATCTTACATGGCACTACGGTG
Found at i:81576 original size:30 final size:31
Alignment explanation
Indices: 81537--81617 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
81527 TCATTTTTTT
**
81537 TAATA-TTTCTGGTCATTTTTTAGCGTCTAA
1 TAATAGTTTCTGGTCATTTTTTAGCACCTAA
* *
81567 TAA-AGTTTCTTGTCATTTTTTAGCACCTTA
1 TAATAGTTTCTGGTCATTTTTTAGCACCTAA
*
81597 TAATATTTTC-GGTCATTTTTT
1 TAATAGTTTCTGGTCATTTTTT
81618 GAAAATCCGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.02
30 37 0.86
31 5 0.12
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.53
Consensus pattern (31 bp):
TAATAGTTTCTGGTCATTTTTTAGCACCTAA
Found at i:81713 original size:13 final size:12
Alignment explanation
Indices: 81686--81710 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81676 ATATTTTTGA
81686 TAATTTTTTTAT
1 TAATTTTTTTAT
81698 TAATTTTTTTAT
1 TAATTTTTTTAT
81710 T
1 T
81711 TAAAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TAATTTTTTTAT
Found at i:86253 original size:12 final size:12
Alignment explanation
Indices: 86230--86275 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
86220 TAAGTAATAA
*
86230 AAAAATTACAAT
1 AAAAAGTACAAT
*
86242 AAAAAGTCCAAT
1 AAAAAGTACAAT
*
86254 AAACAACTACAAT
1 AAA-AAGTACAAT
86267 AAAAAGTAC
1 AAAAAGTAC
86276 TAAATACAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.63, C:0.15, G:0.04, T:0.17
Consensus pattern (12 bp):
AAAAAGTACAAT
Found at i:88532 original size:9 final size:9
Alignment explanation
Indices: 88518--88551 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
88508 TAAGTAAAAT
88518 ATTAAATAA
1 ATTAAATAA
88527 ATTAAAT-A
1 ATTAAATAA
*
88535 CTTAAATAA
1 ATTAAATAA
88544 ATTAAATA
1 ATTAAATA
88552 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:88550 original size:17 final size:17
Alignment explanation
Indices: 88514--88552 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
88504 TAATTAAGTA
88514 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
88530 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
88547 AAATAC
1 AAATAC
88553 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:89564 original size:20 final size:19
Alignment explanation
Indices: 89541--89578 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
89531 CAAAACCAGA
89541 AAAATATAA-TAATAAAAATT
1 AAAATA-AAGTAA-AAAAATT
89561 AAAATAAAGTAAAAAAAT
1 AAAATAAAGTAAAAAAAT
89579 GAATAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAATAAAGTAAAAAAATT
Found at i:89619 original size:29 final size:29
Alignment explanation
Indices: 89587--89655 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
89577 ATGAATAAGA
* * *
89587 AAAAAAATAAACACAAA-TAAAACAAGAAT
1 AAAAAAATAAACAAAAACAAAAACAA-AAC
* *
89616 AAAAATAGAAACAAAAACAAAAACAAAAC
1 AAAAAAATAAACAAAAACAAAAACAAAAC
89645 AAAAATAATAA
1 AAAAA-AATAA
89656 TAATAATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.78, C:0.10, G:0.03, T:0.09
Consensus pattern (29 bp):
AAAAAAATAAACAAAAACAAAAACAAAAC
Found at i:89747 original size:3 final size:3
Alignment explanation
Indices: 89648--89727 Score: 92
Period size: 3 Copynumber: 26.3 Consensus size: 3
89638 ACAAAACAAA
*
89648 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT AA- AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* *
89693 AAT AAG AAT AAT AAA AAT AAT ACAT ACAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT A
89728 TAGTGTTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
2 4 0.06
3 55 0.81
4 9 0.13
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:89913 original size:2 final size:2
Alignment explanation
Indices: 89906--89959 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
89896 AATTTGATAG
*
89906 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89947 TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA
89960 ATAATAATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:89963 original size:3 final size:3
Alignment explanation
Indices: 89941--90062 Score: 73
Period size: 3 Copynumber: 41.3 Consensus size: 3
89931 ATATATATAT
89941 ATA A-A ATA ATA TATA TATA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
89986 GTTA A-A AAA ATA GAAA ATA AT- ATA AT- ATA ATA ATA ATA A-A TTA
1 -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
90029 A-A A-A ACTA AAA ATA ATA ATA A-A TATA TATA ATA A
1 ATA ATA A-TA ATA ATA ATA ATA ATA -ATA -ATA ATA A
90063 ATAAAAAATA
Statistics
Matches: 97, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
2 15 0.15
3 65 0.67
4 17 0.18
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:90065 original size:20 final size:20
Alignment explanation
Indices: 89909--90076 Score: 86
Period size: 20 Copynumber: 8.3 Consensus size: 20
89899 TTGATAGTAT
* *
89909 ATATATATATATATATATATAT
1 ATATATATA-ATAAATA-ATAA
*
89931 ATATATATATATAAAATAATAT
1 ATATATATA-AT-AAATAATAA
89953 ATATATAATAAT-AATAAT-A
1 ATATAT-ATAATAAATAATAA
89972 ATA-ATAATAATAAAGTTAA-AA
1 ATATAT-ATAATAAA--TAATAA
* * * *
89993 AAATAGAAAATAATATAATAT
1 ATATATATAATAA-ATAATAA
90014 A-ATA-ATAATAAATTAA-AA
1 ATATATATAATAAA-TAATAA
*
90032 A-ACTA-AAAAT-AATAATAA
1 ATA-TATATAATAAATAATAA
*
90050 ATATATATAATAAATAAAAA
1 ATATATATAATAAATAATAA
90070 ATATATA
1 ATATATA
90077 CATATATACG
Statistics
Matches: 120, Mismatches: 11, Indels: 32
0.74 0.07 0.20
Matches are distributed among these distances:
17 3 0.03
18 19 0.16
19 25 0.21
20 26 0.22
21 14 0.12
22 26 0.22
23 7 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (20 bp):
ATATATATAATAAATAATAA
Found at i:90068 original size:28 final size:28
Alignment explanation
Indices: 90002--90084 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
89992 AAAATAGAAA
*
90002 ATAATATAATATAATAATAATAAAT-TA-
1 ATAATA-AATAAAATAATAATAAATATAT
*
90029 A-AA-AACTAAAAATAATAATAAATATAT
1 ATAATAAAT-AAAATAATAATAAATATAT
*
90056 ATAATAAATAAAA-AATATATACATATAT
1 ATAATAAATAAAATAATA-ATAAATATAT
90084 A
1 A
90085 CGCATGAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.04
25 15 0.33
26 4 0.09
27 6 0.13
28 16 0.35
29 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.31
Consensus pattern (28 bp):
ATAATAAATAAAATAATAATAAATATAT
Found at i:90144 original size:19 final size:19
Alignment explanation
Indices: 90120--90173 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
90110 AAATAAAAGC
90120 AAATAA-AAAATAATAAGAA
1 AAATAAGAAAATAATAA-AA
* ** *
90139 AAATAATAAAAGGATTAAA
1 AAATAAGAAAATAATAAAA
90158 AAATAAGAAAATAATA
1 AAATAAGAAAATAATA
90174 TATATATATA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (19 bp):
AAATAAGAAAATAATAAAA
Found at i:90253 original size:34 final size:34
Alignment explanation
Indices: 90205--90271 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
90195 AAATAAAACA
* *
90205 AAATAATAAGAAATATAATAAGAATAAAATAAAT
1 AAATAATAAGAAATAAAAAAAGAATAAAATAAAT
* *
90239 AAATAAATAA-AAATAAAAAAAGATTAAATTAAA
1 AAAT-AATAAGAAATAAAAAAAGAATAAAATAAA
90272 AGGGAAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 23 0.82
35 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (34 bp):
AAATAATAAGAAATAAAAAAAGAATAAAATAAAT
Found at i:94936 original size:87 final size:87
Alignment explanation
Indices: 94790--94951 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
94780 ATGTTATATC
*
94790 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAAGTATCGCTTATATAATGTAATAGGTA
1 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATGTAATAGGTA
94855 GCGCTTATATAATAAAATAGAT
66 GCGCTTATATAATAAAATAGAT
*
94877 ATTTAACCGGAAATATTATCAAGTACAATAACATATT-AGATAGCTCTTATATAATGTAATAGGT
1 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAAG-TAGCGCTTATATAATGTAATAGGT
94941 AGCGCTTATAT
65 AGCGCTTATAT
94952 TGACCTATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
86 2 0.03
87 70 0.97
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (87 bp):
ATTTAACCGGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTATATAATGTAATAGGTA
GCGCTTATATAATAAAATAGAT
Found at i:95362 original size:198 final size:199
Alignment explanation
Indices: 94946--95643 Score: 743
Period size: 200 Copynumber: 3.5 Consensus size: 199
94936 TAGGTAGCGC
* ** * *
94946 TTATATTGACCTATTTTCGAAGT-AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTA
1 TTATGTTGACCTATTTTCTCA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* * * *
95010 TTACATTATTATTATCGGTTTCGATGTTTTTTAGATCGATGCAATTT-TAAATGTATCGACACTT
65 TTACATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACATTTTATAAATGTATCGACACTT
* * * *
95074 TATGCTTGCACCTCGTTGGACATTCATATTTCATTATGGAAAAAAGTATCGACACAAA-CTAACA
130 TATGGTTGCACCTC-TT-----TTCATA-TTCATTCTGGACAAAAGTATCGACACAAATTTAAC-
95138 AAGTGTCGATACA
187 AAGTGTCGATACA
* * * *
95151 TGAT-TTAGACCTATTCTCTCATAAAACCGTTATATTTATACCGGTTACATTGAAAATTTACCTA
1 TTATGTT-GACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* * * * *
95215 -T-CATTATACTTATGGGTTTCGATGTTTCTGAGATTGATACATTTTATAAATGTATCGAAACTT
65 TTACATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACATTTTATAAATGTATCGACACTT
*
95278 TATGGTTGCACCAT-TTTTTATATTCATTCTGGACCAAAAGTATCGACACAAATTTAACAAGTGT
130 TATGGTTGCACC-TCTTTTCATATTCATTCTGGA-CAAAAGTATCGACACAAATTTAACAAGTGT
*
95342 CGATACT
193 CGATACA
* * * * *
95349 TTATGCTGACCTATTTTATCATAAAATCGGTATATTTATATCTGTTACATTGTAAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* *
95414 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATATATCGACACTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACATTTT-ATAAATGTATCGACACTT
**** * **
95478 TAT-GTGTGCACCTCGTTTGGGCATTCA-TCTTGGACAATAAGTATTGACACAAATTCCACAAGT
130 TATGGT-TGCACCTC-TTTTCATATTCATTC-TGGACAA-AAGTATCGACACAAATTTAACAAGT
*
95541 CTCGATACA
191 GTCGATACA
* * * * * *
95550 TTATGTTGACCTGTTTTCTAAT-GAACAGGTATATTTATACCGGTTACATTGTTAATTTACCTGT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* *
95614 TACATTATAATTATTGGTTTTGATGTTTTT
66 TACATTATAATTATCGGTTTCGATGTTTTT
95644 TGGGTCGATA
Statistics
Matches: 418, Mismatches: 60, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
197 10 0.02
198 87 0.21
199 13 0.03
200 127 0.30
201 59 0.14
203 38 0.09
204 31 0.07
205 53 0.13
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (199 bp):
TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTGAGATCGATACATTTTATAAATGTATCGACACTTT
ATGGTTGCACCTCTTTTCATATTCATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGA
TACA
Found at i:98131 original size:17 final size:17
Alignment explanation
Indices: 98106--98139 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98096 TAACTTTTCT
* *
98106 CATCTCATACATAATTA
1 CATCACATACAAAATTA
98123 CATCACATACAAAATTA
1 CATCACATACAAAATTA
98140 TAAATCGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCACATACAAAATTA
Found at i:100075 original size:200 final size:199
Alignment explanation
Indices: 99731--100612 Score: 1149
Period size: 200 Copynumber: 4.4 Consensus size: 199
99721 CGCATTATTT
* *
99731 AAAAGTATCGACACAAAA-TAAAATAGTGTCGCTACATGTTGTAGACCTATTCTCTCATAAAAGC
1 AAAAGTATCGACACAAAATTAAAA-AGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * * *
99795 GGTATATTTATATCGGTTATATTAAAAAATTATCTATTACATTATAATTATGGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * * * *
99860 TTGGGATCAACACTTTTTAAAAATGTATCGAAACTTTGTGCGTTCACCCTTTTTGGCGTCCATTC
130 CTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTC
*
99925 TGGAT
195 TGGAC
* * * * *
99930 ATAAAGTATCAACACAATATTAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATGAAACC
1 A-AAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * *
99995 AGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
65 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* ** * * *
100060 TTCAGATCGACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCATTTTTGGCATCCATTC
130 CTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTC
100125 TGGAC
195 TGGAC
* * * * * *
100130 AAAAAGTATCAACACAATATTAAGAAGTGTCGATACATGTTGTAGACATATTTTCCCATAAAACC
1 -AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* ** * * *
100195 GATATATTTTATACTAGTTACATTGAAAAATTACCTATTACATTATACTTATAGGTTTTGATGTT
65 GGTATA-TTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * * *
100260 TCTGGGATCGATACTTTTTATAAATGGATCGATACTTTATG-GTTGCACCCTTTTTGGCATTCAT
129 TCTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTT-CACCCTTTTTGGCATCCAT
100324 TCTGGACC
193 TCTGGA-C
* *
100332 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTTAGAAAACCG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* *
100397 GTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* * * * * *
100462 TGGGATCGATACTTTTTATAAATAG-ATCGACACTTTATGGGTACACCCTGTTTGGCATTCATTC
131 TGGGATCGACACTTTTTAAAAAT-GTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTC
*
100526 TGGTCC
195 TGG-AC
* * **
100532 AAAAGTATCGACACAAAATTAAAACGTGTCGATACATGTTGTAGACCTATTCTATCATAAAATTG
1 AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
100597 GTATATTTATACCGGT
66 GTATATTTATACCGGT
100613 ATATTTATAT
Statistics
Matches: 602, Mismatches: 72, Indels: 17
0.87 0.10 0.02
Matches are distributed among these distances:
199 1 0.00
200 425 0.71
201 175 0.29
202 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (199 bp):
AAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
GTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
TGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCT
GGAC
Found at i:100563 original size:401 final size:399
Alignment explanation
Indices: 99731--100607 Score: 1154
Period size: 401 Copynumber: 2.2 Consensus size: 399
99721 CGCATTATTT
* * * *
99731 AAAAGTATCGACACAAAATAAAATAGTGTCGCTACATGTTGTAGACCTATTCTCTCATAAAAGCG
1 AAAAGTATCGACACAAAATTAAA-AGTGTCGATACATGTTGTAGACCTATTCTCCCATAAAACCG
* * * * * *
99796 GTATATTTATATCGGTTATATTAAAAAATTATCTATTACATTATAATTATGGGTTTCGATGTTTT
65 ATATATTTATATCAGTTACATTAAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTC
* * *
99861 TGGGATCAACACTTTTTAAAAATGTATCGAAACTTTGTGCGTTCACCCTTTTTGGCGTCCATTCT
130 TGGGATCAACACTTTTTAAAAATGGATCGAAACTTTATGCGTTCACCCTTTTTGGCATCCATTCT
* * *
99926 GGATATAAAGTATCAACACAATATTAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATGA
195 GGACATAAAGTATCAACACAAAATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATGA
* *
99991 AACCAGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGAT
260 AACCAGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGAT
* * * *
100056 GTTTTTCAGATCGACACTTTTTGAAAATGTATCGACACTTTGTGCGTTCACCATTTTTGGCATCC
325 GTTTCTCAGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTACACCATGTTTGGCATCC
100121 ATTCTGGACA
390 ATTCTGGACA
* * * *
100131 AAAAGTATCAACACAATATTAAGAAGTGTCGATACATGTTGTAGACATATTTTCCCATAAAACCG
1 AAAAGTATCGACACAAAATTAA-AAGTGTCGATACATGTTGTAGACCTATTCTCCCATAAAACCG
* * *
100196 ATATATTT-TATACTAGTTACATTGAAAAATTACCTATTACATTATACTTATAGGTTTTGATGTT
65 ATATATTTATAT-C-AGTTACATTAAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTT
* * * * *
100260 TCTGGGATCGATACTTTTTATAAATGGATCGATACTTTATG-GTTGCACCCTTTTTGGCATTCAT
128 TCTGGGATCAACACTTTTTAAAAATGGATCGAAACTTTATGCGTT-CACCCTTTTTGGCATCCAT
* * *
100324 TCTGGACCA-AAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTT
192 TCTGGA-CATAAAGTATCAACACAAAATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTC
* *
100388 A-GAAAACCGGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATACTTATGGGTT
256 ATG-AAACCAGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTT
** * * *
100452 TCGATGTTTCTGGGATCGATACTTTTT-ATAAATAG-ATCGACACTTTATGGGTACACCCTGTTT
320 TCGATGTTTCTCAGATCGACACTTTTTGA-AAAT-GTATCGACACTTTATGCGTACACCATGTTT
* * *
100515 GGCATTCATTCTGGTCC
383 GGCATCCATTCTGGACA
** **
100532 AAAAGTATCGACACAAAATTAAAACGTGTCGATACATGTTGTAGACCTATTCTATCATAAAATTG
1 AAAAGTATCGACACAAAATTAAAA-GTGTCGATACATGTTGTAGACCTATTCTCCCATAAAACCG
*
100597 GTATATTTATA
65 ATATATTTATA
100608 CCGGTATATT
Statistics
Matches: 411, Mismatches: 56, Indels: 18
0.85 0.12 0.04
Matches are distributed among these distances:
399 3 0.01
400 70 0.17
401 334 0.81
402 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (399 bp):
AAAAGTATCGACACAAAATTAAAAGTGTCGATACATGTTGTAGACCTATTCTCCCATAAAACCGA
TATATTTATATCAGTTACATTAAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTCT
GGGATCAACACTTTTTAAAAATGGATCGAAACTTTATGCGTTCACCCTTTTTGGCATCCATTCTG
GACATAAAGTATCAACACAAAATTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATGAA
ACCAGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGATG
TTTCTCAGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTACACCATGTTTGGCATCCA
TTCTGGACA
Found at i:104415 original size:4 final size:4
Alignment explanation
Indices: 101202--104408 Score: 6330
Period size: 4 Copynumber: 804.8 Consensus size: 4
101192 CTAGAGATCC
101202 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101250 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101298 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101344 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101392 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101440 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101488 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101536 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101582 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101630 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101678 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101726 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101774 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101822 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101870 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101918 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
101966 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102014 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102062 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102110 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102158 --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102204 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102252 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102300 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102346 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102394 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102442 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102490 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102538 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102586 ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102633 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102681 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102729 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102777 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102825 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102873 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102921 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
102969 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103017 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103065 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103113 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103161 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103209 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103257 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103305 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103353 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103401 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103449 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103497 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103545 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103593 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103641 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103689 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103737 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103785 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103833 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103881 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103929 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
103977 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104023 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104071 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104119 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104167 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104215 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104263 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104311 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104359 ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
104406 ACA
1 ACA
104409 CATACATTAC
Statistics
Matches: 3191, Mismatches: 0, Indels: 24
0.99 0.00 0.01
Matches are distributed among these distances:
2 10 0.00
3 6 0.00
4 3175 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:105621 original size:33 final size:33
Alignment explanation
Indices: 105584--105649 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
105574 CATCTTAAGA
* * *
105584 TCACCCTTTAACACCTCAACTTTTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
105617 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
105650 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.44, G:0.00, T:0.33
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:105708 original size:21 final size:21
Alignment explanation
Indices: 105684--105747 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
105674 CCCTTATGCA
**
105684 TCTCAAGCGTCTCTTCGACTC
1 TCTCAAGTTTCTCTTCGACTC
*
105705 TCTCAATTTTCTCTTCGACTC
1 TCTCAAGTTTCTCTTCGACTC
105726 TCTCAAGTTTCTCTTCGACTC
1 TCTCAAGTTTCTCTTCGACTC
105747 T
1 T
105748 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.14, C:0.34, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTCAAGTTTCTCTTCGACTC
Found at i:106221 original size:15 final size:15
Alignment explanation
Indices: 106201--106230 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
106191 TTCAACTCAT
106201 TTACCTCTAAGATTG
1 TTACCTCTAAGATTG
106216 TTACCTCTAAGATTG
1 TTACCTCTAAGATTG
106231 CTATGCACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
TTACCTCTAAGATTG
Found at i:108037 original size:20 final size:20
Alignment explanation
Indices: 107991--108037 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
107981 TCCGATAGAG
107991 CTTTACCGGTTTTATCATTT
1 CTTTACCGGTTTTATCATTT
**
108011 CGATACCGGTTTTATCATATT
1 CTTTACCGGTTTTATCAT-TT
108032 -TTTACC
1 CTTTACC
108038 TATTATATCG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTATCATTT
Found at i:109723 original size:15 final size:15
Alignment explanation
Indices: 109703--109731 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
109693 TAAAGAGTAG
109703 TCTTTGTTTATATAC
1 TCTTTGTTTATATAC
109718 TCTTTGTTTATATA
1 TCTTTGTTTATATA
109732 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TCTTTGTTTATATAC
Found at i:113274 original size:22 final size:23
Alignment explanation
Indices: 113237--113288 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
113227 AAAAAATTTC
*
113237 TCAAGCTTGATTTTGAGCTCGCT
1 TCAAGCTTGATTTTGAGCTCGAT
113260 TCAAGCTT-ATTTTGAGCTCGAT
1 TCAAGCTTGATTTTGAGCTCGAT
113282 TCAAGCT
1 TCAAGCT
113289 CGAATTGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (23 bp):
TCAAGCTTGATTTTGAGCTCGAT
Found at i:115291 original size:7 final size:7
Alignment explanation
Indices: 115279--115369 Score: 60
Period size: 7 Copynumber: 13.3 Consensus size: 7
115269 TGGATTAAGA
115279 GTTTAGG
1 GTTTAGG
115286 GTTTAGG
1 GTTTAGG
* *
115293 GCTTAAG
1 GTTTAGG
*
115300 G--TATG
1 GTTTAGG
*
115305 GTTTAGT
1 GTTTAGG
115312 GTTTAGG
1 GTTTAGG
*
115319 GTATAGG
1 GTTTAGG
* *
115326 ATTTAGT
1 GTTTAGG
*
115333 GTTTAGA
1 GTTTAGG
**
115340 GTTTATA
1 GTTTAGG
*
115347 ATTTAGG
1 GTTTAGG
*
115354 GTTTAAG
1 GTTTAGG
115361 GTTTAGG
1 GTTTAGG
115368 GT
1 GT
115370 GTAATATACC
Statistics
Matches: 63, Mismatches: 19, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
5 4 0.06
7 59 0.94
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:115321 original size:19 final size:20
Alignment explanation
Indices: 115285--115338 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
115275 AAGAGTTTAG
* * *
115285 GGTTTAGGGCTTAAGGTAT-
1 GGTTTAGTGTTTAGGGTATA
115304 GGTTTAGTGTTTAGGGTATA
1 GGTTTAGTGTTTAGGGTATA
115324 GGATTTAGTGTTTAG
1 GG-TTTAGTGTTTAG
115339 AGTTTATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 16 0.53
20 2 0.07
21 12 0.40
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (20 bp):
GGTTTAGTGTTTAGGGTATA
Found at i:115509 original size:11 final size:11
Alignment explanation
Indices: 115488--115550 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
115478 TAGTTGTATT
115488 ATATAATTTTTA
1 ATAT-ATTTTTA
115500 ATATATTTTTA
1 ATATATTTTTA
115511 A-A-ATTTTATA
1 ATATATTTT-TA
***
115521 AT-TATCAATA
1 ATATATTTTTA
115531 ATATATTTTTA
1 ATATATTTTTA
115542 ATA-ATTTTT
1 ATATATTTTT
115551 TTATAATGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
9 5 0.12
10 14 0.34
11 18 0.44
12 4 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:120426 original size:28 final size:28
Alignment explanation
Indices: 120391--120480 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
120381 TAAACCCGAC
120391 CCCGACCCGAATATCACACTTTAAAAAA
1 CCCGACCCGAATATCACACTTTAAAAAA
120419 CCCGACCCGAATATCACAC-TT-AAAAA
1 CCCGACCCGAATATCACACTTTAAAAAA
* * *
120445 CCCGACCTGAATATCAAACTTAAAAAAA
1 CCCGACCCGAATATCACACTTTAAAAAA
120473 CCCGACCC
1 CCCGACCC
120481 AACCCGAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 22 0.39
27 3 0.05
28 31 0.55
ACGTcount: A:0.42, C:0.34, G:0.08, T:0.16
Consensus pattern (28 bp):
CCCGACCCGAATATCACACTTTAAAAAA
Found at i:123173 original size:136 final size:136
Alignment explanation
Indices: 122929--123200 Score: 481
Period size: 136 Copynumber: 2.0 Consensus size: 136
122919 TTGGGTGTAG
* *
122929 TTTACCCTTAGTTTAACAAAATTTAATTTATTATAATTTTATTAGTGGAGTTTGAAAGTTTTAGC
1 TTTACCCTTAGTTTAACAAAATTTAATTTATTATAATTTTATTAGTGGAATTTGAAAGATTTAGC
* *
122994 AACAAACTAAATAGTTGAGAATCAAGTCTGTTGGAATATTTACTCAACTTTACTTTGATCCTGGG
66 AACAAACTAAATAGTTGAAAATCAAGTCTGTTGAAATATTTACTCAACTTTACTTTGATCCTGGG
123059 ACTAGA
131 ACTAGA
*
123065 TTTACCCTTAGTTTAACAAAATTTATTTTATTATAATTTTATTAGTGGAATTTGAAAGATTTAGC
1 TTTACCCTTAGTTTAACAAAATTTAATTTATTATAATTTTATTAGTGGAATTTGAAAGATTTAGC
* *
123130 AACAAACTAAATAGTTGAAAATCAAGTTTGTTGAAATATTTACTCAACTTTACTTTGATCTTGGG
66 AACAAACTAAATAGTTGAAAATCAAGTCTGTTGAAATATTTACTCAACTTTACTTTGATCCTGGG
123195 ACTAGA
131 ACTAGA
123201 GCCATCATTG
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
136 129 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (136 bp):
TTTACCCTTAGTTTAACAAAATTTAATTTATTATAATTTTATTAGTGGAATTTGAAAGATTTAGC
AACAAACTAAATAGTTGAAAATCAAGTCTGTTGAAATATTTACTCAACTTTACTTTGATCCTGGG
ACTAGA
Found at i:128197 original size:18 final size:19
Alignment explanation
Indices: 128162--128199 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
128152 TATTCAAGGG
128162 GTATCGATACCTAAAGGGTA
1 GTATCGATACCT-AAGGGTA
128182 GTATCGATACCT-AGGGTA
1 GTATCGATACCTAAGGGTA
128200 TCGATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
GTATCGATACCTAAGGGTA
Found at i:128819 original size:17 final size:17
Alignment explanation
Indices: 128797--128836 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
128787 ATGGTATGTG
128797 ATAAGATATATGTGATT
1 ATAAGATATATGTGATT
128814 ATAAGATATATGTGATT
1 ATAAGATATATGTGATT
128831 ATAAGA
1 ATAAGA
128837 GAAATGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (17 bp):
ATAAGATATATGTGATT
Found at i:128991 original size:21 final size:21
Alignment explanation
Indices: 128967--129067 Score: 121
Period size: 21 Copynumber: 4.8 Consensus size: 21
128957 ATTCGAGGGT
*
128967 TATACGAGGTCATTTGGGATA
1 TATACGAGGTCATTCGGGATA
*
128988 TATACGAGGTCTTTCGGGATA
1 TATACGAGGTCATTCGGGATA
* *
129009 TATACGAGGTCCTTCGGGACA
1 TATACGAGGTCATTCGGGATA
* *
129030 TACATGAGGTCATTCGGGATA
1 TATACGAGGTCATTCGGGATA
* * *
129051 TACATGAGGTCCTTCGG
1 TATACGAGGTCATTCGG
129068 AACAAATCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (21 bp):
TATACGAGGTCATTCGGGATA
Found at i:133656 original size:20 final size:20
Alignment explanation
Indices: 133611--133648 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
133601 TATAGTTTTC
133611 ATGAAAAACATCATAATTGA
1 ATGAAAAACATCATAATTGA
133631 AT-AAAAACATCAATAATT
1 ATGAAAAACATC-ATAATT
133649 TTTGAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (20 bp):
ATGAAAAACATCATAATTGA
Found at i:134127 original size:22 final size:22
Alignment explanation
Indices: 134060--134140 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 22
134050 CCAGAACTCG
*
134060 AGGGGGTATCGATT-CCCTG-A
1 AGGGGGAATCGATTCCCCTGTA
*
134080 AGGGGGAATC-AGTTCCCAT-TCAA
1 AGGGGGAATCGA-TTCCCCTGT--A
*
134103 AGGGGGAATCGGTTCCCCTGTA
1 AGGGGGAATCGATTCCCCTGTA
*
134125 AGGGGGTATCGATTCC
1 AGGGGGAATCGATTCC
134141 TCCTACACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.02
20 11 0.23
21 3 0.06
22 15 0.31
23 17 0.35
24 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.23
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTGTA
Found at i:138215 original size:117 final size:117
Alignment explanation
Indices: 137997--138216 Score: 275
Period size: 117 Copynumber: 1.9 Consensus size: 117
137987 TTTCAAATCG
* *
137997 AAATTTCTTTTTCAATAATTTCAAATTTCATTTTTGAAATCTCTAAATCCTTCTTCAAGATTTCA
1 AAATTTCTTTTTCAATAATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCA
* *
138062 TTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTGA
66 TTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGA
* * * * *
138114 AAATTTCTTTTTCAA-AGTTTTCAGATTTCGTTTTTGAAAGCTCTAACTCATT-TCTCAACATTT
1 AAATTTCTTTTTCAATA-ATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACATTT
** **
138177 CATTTTGATTTTGTAAATCTGTTTTAGCTTTC-AAAAGAAG
64 CATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
138217 ATCATTTTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
116 2 0.02
117 81 0.93
118 4 0.05
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (117 bp):
AAATTTCTTTTTCAATAATTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCA
TTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGA
Found at i:142952 original size:23 final size:22
Alignment explanation
Indices: 142925--142974 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
142915 CTTAGTGGCA
*
142925 TATGAGATTTGTCCCGAAGGACC
1 TATGAG-TATGTCCCGAAGGACC
**
142948 TATGAGTATGTTTCGAAGGACC
1 TATGAGTATGTCCCGAAGGACC
142970 TATGA
1 TATGA
142975 AACCCTCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (22 bp):
TATGAGTATGTCCCGAAGGACC
Found at i:146863 original size:111 final size:111
Alignment explanation
Indices: 146669--146894 Score: 452
Period size: 111 Copynumber: 2.0 Consensus size: 111
146659 TAATTTTTGA
146669 GAACACTGAAGCTTCTTTTAATTGATGAATAAATCATCGATTCGGGGAAGGGGATACTTATTCTT
1 GAACACTGAAGCTTCTTTTAATTGATGAATAAATCATCGATTCGGGGAAGGGGATACTTATTCTT
146734 GATGGTCACTTTGTTGAGCTATCTATAACCAATGCAGAGATGCATT
66 GATGGTCACTTTGTTGAGCTATCTATAACCAATGCAGAGATGCATT
146780 GAACACTGAAGCTTCTTTTAATTGATGAATAAATCATCGATTCGGGGAAGGGGATACTTATTCTT
1 GAACACTGAAGCTTCTTTTAATTGATGAATAAATCATCGATTCGGGGAAGGGGATACTTATTCTT
146845 GATGGTCACTTTGTTGAGCTATCTATAACCAATGCAGAGATGCATT
66 GATGGTCACTTTGTTGAGCTATCTATAACCAATGCAGAGATGCATT
146891 GAAC
1 GAAC
146895 CATCTTTCTT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 115 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (111 bp):
GAACACTGAAGCTTCTTTTAATTGATGAATAAATCATCGATTCGGGGAAGGGGATACTTATTCTT
GATGGTCACTTTGTTGAGCTATCTATAACCAATGCAGAGATGCATT
Found at i:149409 original size:22 final size:23
Alignment explanation
Indices: 149373--149422 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
149363 CTGAGTGGCA
*
149373 TATGAGATTTGTCCCGAAAGACC
1 TATGAGATATGTCCCGAAAGACC
*
149396 TATGAG-TATGTCCCGAAGGACC
1 TATGAGATATGTCCCGAAAGACC
149418 TATGA
1 TATGA
149423 ATCCCTCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (23 bp):
TATGAGATATGTCCCGAAAGACC
Found at i:152402 original size:64 final size:64
Alignment explanation
Indices: 152333--152556 Score: 231
Period size: 64 Copynumber: 3.5 Consensus size: 64
152323 TGTAAGAATG
* **
152333 TGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTC
152396 A
64 A
* * **
152397 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* ** ** * ** *
152461 TGCATCGATGCATAAGG-AGTGCATAGATGCATCCCAACAATAATACTACATCGAATACCTTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
*
152525 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
152557 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
63 1 0.01
64 127 0.95
65 6 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:152881 original size:12 final size:12
Alignment explanation
Indices: 152864--152899 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
152854 TATATATGTT
152864 TATGTGATATGA
1 TATGTGATATGA
152876 TATGTGATATGA
1 TATGTGATATGA
**
152888 CCTGTGATATGA
1 TATGTGATATGA
152900 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.39
Consensus pattern (12 bp):
TATGTGATATGA
Found at i:153062 original size:15 final size:15
Alignment explanation
Indices: 153044--153076 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
153034 GAGGGTATAA
153044 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
153059 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
153074 TAG
1 TAG
153077 GAGTCCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:159303 original size:64 final size:64
Alignment explanation
Indices: 159234--159457 Score: 222
Period size: 64 Copynumber: 3.5 Consensus size: 64
159224 TGTATGAATG
* **
159234 TGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTC
159297 A
64 A
* * **
159298 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
** ** * ** *
159362 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* * *
159426 TTCACCGATGCATCA-GTAGTGAATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
159458 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
63 1 0.01
64 127 0.95
65 6 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:159788 original size:19 final size:19
Alignment explanation
Indices: 159766--159806 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
159756 ATATATGTTC
*
159766 ATGTGATATGATATGTGAT
1 ATGTGATATGACATGTGAT
*
159785 ATGTGATATGACCTGTGAT
1 ATGTGATATGACATGTGAT
159804 ATG
1 ATG
159807 AGAACATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.39
Consensus pattern (19 bp):
ATGTGATATGACATGTGAT
Found at i:159970 original size:15 final size:15
Alignment explanation
Indices: 159952--159999 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
159942 GAGGGTATAA
159952 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
159967 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
* *
159982 TAGTCTTTCGGGATG
1 TAGTCCTTCGGGACG
159997 TAG
1 TAG
160000 GAGTCCTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:162485 original size:21 final size:21
Alignment explanation
Indices: 162461--162502 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
162451 AGTCGAGGGT
* *
162461 TACATGAGGTTCTTCGGGACA
1 TACATGAGCTCCTTCGGGACA
*
162482 TACATGATCTCCTTCGGGACA
1 TACATGAGCTCCTTCGGGACA
162503 AATCTTACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
TACATGAGCTCCTTCGGGACA
Found at i:163293 original size:2 final size:2
Alignment explanation
Indices: 163286--163339 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
163276 AGATTAATCA
163286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
163328 AT AT AT AT AT AT
1 AT AT AT AT AT AT
163340 CTAGAAGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:165161 original size:3 final size:3
Alignment explanation
Indices: 165153--165178 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
165143 TCCTACTCAA
165153 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
165179 AACAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:169798 original size:9 final size:8
Alignment explanation
Indices: 169781--169806 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
169771 TTAATGTGTT
169781 AAGAAAAA
1 AAGAAAAA
169789 AAGAAAAA
1 AAGAAAAA
169797 AAGAAAAA
1 AAGAAAAA
169805 AA
1 AA
169807 TTACAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:176219 original size:57 final size:57
Alignment explanation
Indices: 176157--176470 Score: 466
Period size: 57 Copynumber: 5.5 Consensus size: 57
176147 TAAAATAAAT
* *
176157 GAAATCATACTAAGTGTATGAATTTCAGATAGGGAGTTTTGTACGCTAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
*
176214 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATGCTAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
*
176271 GAAATCATACTAAGTGTATGAATTTCAGTTAGGGCGTTTCGTACGCTAAAATGTTAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
* * *
176328 GAAACCATACTAAGTGTATGAATTTCAGATAGGGCGTTTTGTACGCTAAAATGATAA
1 GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
* * ** * * * *
176385 GGAAATCATACTAAGTGTATGAATTTCCATATAGGACACTTCGAATGCTAATATGATAA
1 -GAAATCATACTAAGTGTATGAATTT-CAGATAGGGCGTTTCGTACGCTAAAATGTTAA
176444 GAAATTCATACTAAGTGTATGAATTTC
1 GAAA-TCATACTAAGTGTATGAATTTC
176471 TGTATTGGAC
Statistics
Matches: 236, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
57 162 0.69
58 29 0.12
59 45 0.19
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (57 bp):
GAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAA
Found at i:177254 original size:45 final size:45
Alignment explanation
Indices: 177190--177304 Score: 167
Period size: 45 Copynumber: 2.6 Consensus size: 45
177180 GCATAATTGT
* * *
177190 ATGAAAGGATGCCAGAAATGAAATGTATAATAGTGTATCAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGAC
*
177235 ATGAAAGGATGCCATAAATGAAAGGTATAATAGTGTATAAAAGAC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGAC
* * *
177280 ATGTAAGGATGACATAATTGAAATG
1 ATGAAAGGATGCCATAAATGAAATG
177305 CATATAGGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.46, C:0.07, G:0.23, T:0.23
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGAC
Found at i:185776 original size:44 final size:44
Alignment explanation
Indices: 185725--185825 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
185715 ATTTTATTTT
*
185725 GGTCGGGTCGGGTAGGATCTCGGGTGTAGGATCATTTGTTCTC-
1 GGTCGGGTCGGGTAGGATCTCGAGTGTAGGATCATTTGTTCTCA
* *
185768 GGATCGGGTCGAGTAGGATCTCGAGTGTAGGATCCTTTGTTCTCA
1 GG-TCGGGTCGGGTAGGATCTCGAGTGTAGGATCATTTGTTCTCA
*
185813 GGTTGGGTCGGGT
1 GGTCGGGTCGGGT
185826 GGACCAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
43 2 0.04
44 47 0.92
45 2 0.04
ACGTcount: A:0.13, C:0.16, G:0.40, T:0.32
Consensus pattern (44 bp):
GGTCGGGTCGGGTAGGATCTCGAGTGTAGGATCATTTGTTCTCA
Found at i:186444 original size:2 final size:2
Alignment explanation
Indices: 186437--186498 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
186427 TTACAAATGT
186437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
186479 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
186499 AATGATAAGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:192672 original size:23 final size:23
Alignment explanation
Indices: 192642--192696 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
192632 TTTCATGCAA
192642 AAAAAAAGAAATAGAAACCATAG
1 AAAAAAAGAAATAGAAACCATAG
192665 AAAAAAAGAAATAGAAACCATAG
1 AAAAAAAGAAATAGAAACCATAG
192688 AAAAAAAGA
1 AAAAAAAGA
192697 TGAACTCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.73, C:0.07, G:0.13, T:0.07
Consensus pattern (23 bp):
AAAAAAAGAAATAGAAACCATAG
Found at i:193433 original size:2 final size:2
Alignment explanation
Indices: 193426--193458 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
193416 TTTCTCTTTC
193426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
193459 ATGTCACCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:195471 original size:2 final size:2
Alignment explanation
Indices: 195464--195503 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
195454 TAGGTGGCAT
195464 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
195504 GAAAGAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:195486 original size:19 final size:19
Alignment explanation
Indices: 195462--195501 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
195452 ATTAGGTGGC
195462 ATTATATATATATATATAT
1 ATTATATATATATATATAT
195481 ATTATATATATATATATAT
1 ATTATATATATATATATAT
195500 AT
1 AT
195502 ATGAAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATATATATATATATAT
Found at i:215873 original size:19 final size:20
Alignment explanation
Indices: 215834--215878 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
215824 TTCATCACTG
*
215834 TTCACACAGTATCAATACTA
1 TTCATACAGTATCAATACTA
*
215854 TTCATACAGTA-CAGTACTA
1 TTCATACAGTATCAATACTA
215873 TTCATA
1 TTCATA
215879 AAAACATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (20 bp):
TTCATACAGTATCAATACTA
Found at i:216053 original size:31 final size:31
Alignment explanation
Indices: 216015--216077 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
216005 GTTTAACAAT
*
216015 AACTGTCCATATGTATCGAAAGACATAGGTA
1 AACTGTCCATATATATCGAAAGACATAGGTA
*
216046 AACTGTCCATATATCTCGAAAGACATAGGTA
1 AACTGTCCATATATATCGAAAGACATAGGTA
216077 A
1 A
216078 CCCTAAACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (31 bp):
AACTGTCCATATATATCGAAAGACATAGGTA
Found at i:216231 original size:15 final size:16
Alignment explanation
Indices: 216205--216248 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
216195 TATCTCATAT
216205 CATATAACATGT-ATCA
1 CATAT-ACATGTAATCA
*
216221 CTTATACATGTAATCA
1 CATATACATGTAATCA
216237 CATATATCATGT
1 CATATA-CATGT
216249 CTCATAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 13 0.54
17 5 0.21
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (16 bp):
CATATACATGTAATCA
Found at i:220321 original size:36 final size:36
Alignment explanation
Indices: 220226--220327 Score: 102
Period size: 36 Copynumber: 2.9 Consensus size: 36
220216 GGAATGGATA
* *
220226 AGCTGTTGAAGATAAGGTTGGAA-TTG-AATTTATT
1 AGCTGCTGAAGATAAAGTTGGAATTTGAAATTTATT
* ** **
220260 AGCTGCTAAAGATAAACCTAAAATTTGAAATTTATT
1 AGCTGCTGAAGATAAAGTTGGAATTTGAAATTTATT
* *
220296 AGCTGCTGAAGACAATGTTGGAATTT-AAATTT
1 AGCTGCTGAAGATAAAGTTGGAATTTGAAATTT
220328 TAAATAAAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
34 16 0.31
35 9 0.17
36 27 0.52
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (36 bp):
AGCTGCTGAAGATAAAGTTGGAATTTGAAATTTATT
Found at i:223347 original size:34 final size:36
Alignment explanation
Indices: 223309--223379 Score: 83
Period size: 34 Copynumber: 2.0 Consensus size: 36
223299 GAAATTGATA
*
223309 AACTGATGAAGAAAAGGCTAGAA-TTGAA-TTTATT
1 AACTGATAAAGAAAAGGCTAGAATTTGAATTTTATT
* * * *
223343 AACTGCTAAAGATAAGGTTGGAATTTGAATTTTATT
1 AACTGATAAAGAAAAGGCTAGAATTTGAATTTTATT
223379 A
1 A
223380 GCTACTGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 18 0.60
35 5 0.17
36 7 0.23
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.34
Consensus pattern (36 bp):
AACTGATAAAGAAAAGGCTAGAATTTGAATTTTATT
Found at i:223391 original size:36 final size:36
Alignment explanation
Indices: 223315--223412 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 36
223305 GATAAACTGA
* * * *
223315 TGAAGAAAAGGCTAGAA-TTGAA-TTTATTAACTGC
1 TGAAGATAAGGTTGGAATTTGAATTTTATTAACTAC
* *
223349 TAAAGATAAGGTTGGAATTTGAATTTTATTAGCTAC
1 TGAAGATAAGGTTGGAATTTGAATTTTATTAACTAC
*
223385 TGAAGATAAGGTTGGAATTTAAATTTTA
1 TGAAGATAAGGTTGGAATTTGAATTTTA
223413 AACAAAATGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
34 13 0.24
35 5 0.09
36 36 0.67
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (36 bp):
TGAAGATAAGGTTGGAATTTGAATTTTATTAACTAC
Found at i:228731 original size:43 final size:42
Alignment explanation
Indices: 228634--228738 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 42
228624 TATTCACCTT
* * *
228634 TTCAAATTAACATTATTTCTCTTAATGTTAACATTACATCTC
1 TTCAAATTAACATTATATCTCTTAATGTTAACATCACATATC
* ** * * * *
228676 TGCATCTAAACATCATATCTCTTTATTTTTAACATCACATATC
1 TTCAAATTAACATTATATCTC-TTAATGTTAACATCACATATC
228719 TTCAAATTAACATTATATCT
1 TTCAAATTAACATTATATCT
228739 TTCCATGACT
Statistics
Matches: 47, Mismatches: 15, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
42 15 0.32
43 32 0.68
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.44
Consensus pattern (42 bp):
TTCAAATTAACATTATATCTCTTAATGTTAACATCACATATC
Found at i:229879 original size:138 final size:138
Alignment explanation
Indices: 229627--229902 Score: 489
Period size: 138 Copynumber: 2.0 Consensus size: 138
229617 AATTAAAAAG
229627 CCAAATTCTAGCCTGCATGGTAAATCAATGTGACATACGAATGGAGATGGACAGGCAACAAATAT
1 CCAAATTCTAGCCTGCATGGTAAATCAATGTGACATACGAATGGAGATGGACAGGCAACAAATAT
* *
229692 TAATGAATCAAATCATGCAATTCTCATTTAGCCCTGTATTATCCAAAACATGGGCATCAACCAAC
66 TAATGAATCAAATCATGCAATTCTCATTGAACCCTGTATTATCCAAAACATGGGCATCAACCAAC
229757 TGCTTAAA
131 TGCTTAAA
* *
229765 CCAAATTCTATCCTGCATGGTAAATCAATGTGACATACGAATGGAGATGTACAGGCAACAAATAT
1 CCAAATTCTAGCCTGCATGGTAAATCAATGTGACATACGAATGGAGATGGACAGGCAACAAATAT
* * *
229830 TAATGAATCAAATCATGCAATTCTCATTGAACCCTGTATTATCCCAAACATGTGCATCAGCCAAC
66 TAATGAATCAAATCATGCAATTCTCATTGAACCCTGTATTATCCAAAACATGGGCATCAACCAAC
229895 TGCTTAAA
131 TGCTTAAA
229903 ACCTAATTTT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (138 bp):
CCAAATTCTAGCCTGCATGGTAAATCAATGTGACATACGAATGGAGATGGACAGGCAACAAATAT
TAATGAATCAAATCATGCAATTCTCATTGAACCCTGTATTATCCAAAACATGGGCATCAACCAAC
TGCTTAAA
Found at i:234443 original size:17 final size:18
Alignment explanation
Indices: 234411--234448 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
234401 AAATAATTAA
*
234411 ATAAAATACTAATAAAAT
1 ATAAAATACAAATAAAAT
234429 ATAAAATA-AAATAAAAT
1 ATAAAATACAAATAAAAT
234446 ATA
1 ATA
234449 CCTTAAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAATACAAATAAAAT
Found at i:235257 original size:32 final size:32
Alignment explanation
Indices: 235218--235281 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
235208 TATTTTGGAT
235218 AAAAAGTTAGTACCATGATAATTGAGTGACAA
1 AAAAAGTTAGTACCATGATAATTGAGTGACAA
235250 AAAAAGTTAGTACCATGATAATTGAGTGACAA
1 AAAAAGTTAGTACCATGATAATTGAGTGACAA
235282 TATAAGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (32 bp):
AAAAAGTTAGTACCATGATAATTGAGTGACAA
Found at i:235713 original size:41 final size:41
Alignment explanation
Indices: 235653--235732 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
235643 AGCCACCGAC
*
235653 TGCCATCTAGAATGTCATG-AAAAATTACAACAATTGTTGGT
1 TGCCATCTAGAATGCCATGAAAAAATT-CAACAATTGTTGGT
235694 TGCCATCTAGAATGCCATGAAAAAATTCAACAATTGTTG
1 TGCCATCTAGAATGCCATGAAAAAATTCAACAATTGTTG
235733 CCATGCAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
41 30 0.81
42 7 0.19
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (41 bp):
TGCCATCTAGAATGCCATGAAAAAATTCAACAATTGTTGGT
Found at i:240339 original size:265 final size:261
Alignment explanation
Indices: 239850--240376 Score: 961
Period size: 265 Copynumber: 2.0 Consensus size: 261
239840 AATATAAGCA
239850 TTTTTCAGATTTATTAAAAGTGCTAAAATTATTTTAAACACTAAGTGAAGATAGGTCAGTTAAAC
1 TTTTTCAGATTTATTAAAAGTGCTAAAATTATTTTAAACACTAAGTGAAGATAGGTCAGTTAAAC
239915 CTAATTCTCTAAGTGTCCAAAATCTTCCTTGTCTAAGGGTTTTGTAAAGATATCCTAATTGGTGC
66 CTAATTCTCTAAGTGTCCAAAATCTTCCTTGTCTAAGGGTTTTGTAAAGATATCCTAATTGGTGC
239980 AAAGTATCAACAAATTCTAGAACTACATCTTCCTTAGTGACATGGTCTCTAATGAAGTGATGTCT
131 AAAGTATCAACAAATTCTAGAACTACATCTTCCTTAGTGACATGGTCTCTAATGAAGTGATGTCT
240045 TATTTCAATGTGCTAGTTCTAGAGTGTTGGAT-GGATTTTTAGTGAGACAAATAGCA-TAGTATT
196 TATTTCAATGTGCTAGTTCTAGAGTGTTGGATGGGATTTTTAGTGAGACAAATAGCACTAGTATT
240108 G
261 G
240109 TTTTTCAAGATTTATTAAAAGTGCTAAAATTATTTTAAACACTAAGTGAAGATAGGTCAGTTAAA
1 TTTTTC-AGATTTATTAAAAGTGCTAAAATTATTTTAAACACTAAGTGAAGATAGGTCAGTTAAA
*
240174 CCTAATTCTCTCCTAAGTGTCCAAAATCTTTCTTGTCTAAGGGTTTTGTAAAGATATCCGCTAAT
65 CCTAA-T-TCT-CTAAGTGTCCAAAATCTTCCTTGTCTAAGGGTTTTGTAAAGATAT-C-CTAAT
240239 TGGTGCAAAGTATCAACAAATTCTAGAACTACATCTTCCTTAGTGAC-TGGTCTCTAATGAAGTG
125 TGGTGCAAAGTATCAACAAATTCTAGAACTACATCTTCCTTAGTGACATGGTCTCTAATGAAGTG
240303 ATGTCTTATTTCAATGTGCTTAGTTCTAGAGTGTTGGATGGGATTTTTAGTGAGACAAATAGCAC
190 ATGTCTTATTTCAATGTGC-TAGTTCTAGAGTGTTGGATGGGATTTTTAGTGAGACAAATAGCAC
240368 TAGTATTG
254 TAGTATTG
240376 T
1 T
240377 CACACTTGAT
Statistics
Matches: 258, Mismatches: 1, Indels: 10
0.96 0.00 0.04
Matches are distributed among these distances:
259 6 0.02
260 63 0.24
261 1 0.00
262 3 0.01
263 44 0.17
264 37 0.14
265 71 0.28
266 24 0.09
267 9 0.03
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (261 bp):
TTTTTCAGATTTATTAAAAGTGCTAAAATTATTTTAAACACTAAGTGAAGATAGGTCAGTTAAAC
CTAATTCTCTAAGTGTCCAAAATCTTCCTTGTCTAAGGGTTTTGTAAAGATATCCTAATTGGTGC
AAAGTATCAACAAATTCTAGAACTACATCTTCCTTAGTGACATGGTCTCTAATGAAGTGATGTCT
TATTTCAATGTGCTAGTTCTAGAGTGTTGGATGGGATTTTTAGTGAGACAAATAGCACTAGTATT
G
Found at i:258344 original size:20 final size:20
Alignment explanation
Indices: 258328--258416 Score: 117
Period size: 20 Copynumber: 4.4 Consensus size: 20
258318 GATTCGCAAC
258328 GCGATTTTGAC-TATCGCATT
1 GCGATTTTGACAT-TCGCATT
258348 GCGATTTTGACATTCGCATT
1 GCGATTTTGACATTCGCATT
258368 GCGATTTTGACATTCGCATT
1 GCGATTTTGACATTCGCATT
* * * *
258388 GCAATTTTCCAAATTCGCGTT
1 GCGATTTT-GACATTCGCATT
258409 GCGATTTT
1 GCGATTTT
258417 AGAAAATCGC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
20 45 0.73
21 17 0.27
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (20 bp):
GCGATTTTGACATTCGCATT
Found at i:258363 original size:40 final size:39
Alignment explanation
Indices: 258319--258467 Score: 111
Period size: 40 Copynumber: 3.7 Consensus size: 39
258309 CAGTTTCCAG
258319 ATTCGCAACGCGATTTTGACTATCGCATTGCGATTTTGA
1 ATTCGCAACGCGATTTTGACTATCGCATTGCGATTTTGA
** * *
258358 CATTCGCATTGCGATTTTGAC-ATTCGCATTGCAATTTTCCAA
1 -ATTCGCAACGCGATTTTGACTA-TCGCATTGCGATTTT--GA
*** ** * * *
258400 ATTCGCGTTGCGATTTTAGAAAATCGCAATGCGAATATGTA
1 ATTCGCAACGCGATTTT-GACTATCGCATTGCGATTTTG-A
* *
258441 AATCGCAACGCGATTCTGACTATCGCA
1 ATTCGCAACGCGATTTTGACTATCGCA
258468 ACGCGATAAT
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
39 1 0.01
40 40 0.47
41 29 0.34
42 14 0.16
43 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (39 bp):
ATTCGCAACGCGATTTTGACTATCGCATTGCGATTTTGA
Found at i:258426 original size:21 final size:20
Alignment explanation
Indices: 258328--258433 Score: 106
Period size: 20 Copynumber: 5.2 Consensus size: 20
258318 GATTCGCAAC
*
258328 GCGATTTTG-ACTATCGCATT
1 GCGATTTTGAAAT-TCGCATT
*
258348 GCGATTTTGACATTCGCATT
1 GCGATTTTGAAATTCGCATT
*
258368 GCGATTTTGACATTCGCATT
1 GCGATTTTGAAATTCGCATT
* * *
258388 GCAATTTTCCAAATTCGCGTT
1 GCGATTTT-GAAATTCGCATT
* *
258409 GCGATTTTAGAAAATCGCAAT
1 GCGATTTT-GAAATTCGCATT
258430 GCGA
1 GCGA
258434 ATATGTAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 43 0.60
21 29 0.40
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (20 bp):
GCGATTTTGAAATTCGCATT
Found at i:258642 original size:22 final size:23
Alignment explanation
Indices: 258617--258665 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
258607 AGTCTATCTC
258617 CATCTC-TCACTATCTACGACGA
1 CATCTCATCACTATCTACGACGA
* *
258639 CATC-CATCCCTATCTCCGACGA
1 CATCTCATCACTATCTACGACGA
*
258661 AATCT
1 CATCT
258666 GTCCCCATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.27, C:0.39, G:0.08, T:0.27
Consensus pattern (23 bp):
CATCTCATCACTATCTACGACGA
Found at i:258670 original size:22 final size:22
Alignment explanation
Indices: 258626--258690 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
258616 CCATCTCTCA
* * **
258626 CTATCTACGACGACATCCATCC
1 CTATCTCCGACGAAATCTGTCC
258648 CTATCTCCGACGAAATCTGTCC
1 CTATCTCCGACGAAATCTGTCC
* *
258670 CCATCTCCGGCGAAATCTGTC
1 CTATCTCCGACGAAATCTGTC
258691 TATCTCTATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.23, C:0.38, G:0.14, T:0.25
Consensus pattern (22 bp):
CTATCTCCGACGAAATCTGTCC
Found at i:259182 original size:20 final size:20
Alignment explanation
Indices: 259080--259199 Score: 85
Period size: 20 Copynumber: 6.4 Consensus size: 20
259070 AAAGCACAAC
*
259080 GCGATTTT-AGTTTCGTGTT
1 GCGATTTTCATTTTCGTGTT
259099 GCGATTTTC----TC--GTT
1 GCGATTTTCATTTTCGTGTT
*
259113 GCGATTTTCATTTT-GCGTT
1 GCGATTTTCATTTTCGTGTT
* ** ** *
259132 ACGATAGTCAAATTCGCGTT
1 GCGATTTTCATTTTCGTGTT
**
259152 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCATTTTCGTGTT
259172 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGTGTT
*
259192 GAGATTTT
1 GCGATTTT
259200 AAGTTTCAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
14 12 0.15
16 2 0.02
18 1 0.01
19 20 0.25
20 46 0.57
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.47
Consensus pattern (20 bp):
GCGATTTTCATTTTCGTGTT
Found at i:259206 original size:20 final size:20
Alignment explanation
Indices: 259163--259206 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
259153 CGATAGTCAT
* * *
259163 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGAGATTTTAAG
259183 TTTCGTGTTGAGATTTTAAG
1 TTTCGTGTTGAGATTTTAAG
259203 TTTC
1 TTTC
259207 AAAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGAGATTTTAAG
Found at i:262677 original size:20 final size:20
Alignment explanation
Indices: 262654--262702 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
262644 GAAACTTAAA
262654 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
262674 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
262694 ATCGCAACG
1 ATCGCAACG
262703 GGATAATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:262731 original size:33 final size:34
Alignment explanation
Indices: 262694--262769 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 34
262684 GAATTTGACT
*
262694 ATCGCAACGGGATAATCACAATGCG-AAATAAAA
1 ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
* ** *
262727 ATCGCAACGTGAAAATTGCAATGCGAAAATGAAA
1 ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
262761 ATCGCAACG
1 ATCGCAACG
262770 CGAATTTAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (34 bp):
ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
Found at i:262759 original size:20 final size:20
Alignment explanation
Indices: 262736--262773 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
262726 AATCGCAACG
* *
262736 TGAAAATTGCAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
262756 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
262774 TTTAGTTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:262791 original size:19 final size:19
Alignment explanation
Indices: 262769--262811 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
262759 AAATCGCAAC
*
262769 GCGA-ATTTAGTTTCGCGTT
1 GCGATATTTA-TTTCGCATT
*
262788 GCGATTTTTATTTCGCATT
1 GCGATATTTATTTCGCATT
262807 GCGAT
1 GCGAT
262812 TATCTTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (19 bp):
GCGATATTTATTTCGCATT
Found at i:262812 original size:19 final size:20
Alignment explanation
Indices: 262774--262812 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
262764 GCAACGCGAA
*
262774 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
262794 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
262813 ATCTTATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:262844 original size:20 final size:20
Alignment explanation
Indices: 262819--262885 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
262809 GATTATCTTA
262819 TTGCGATAGTCAAATTT-GCG
1 TTGCGATAGTC-AATTTCGCG
262839 TTGCGATAGTC-ATTTCCGCG
1 TTGCGATAGTCAATTT-CGCG
*
262859 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCG
262879 TTGCGAT
1 TTGCGAT
262886 TATAAGTTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
18 4 0.09
20 36 0.84
21 3 0.07
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCG
Done.