Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 51
Found at i:6795121 original size:20 final size:20
Alignment explanation
Indices: 6795098--6795160 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
6795088 ACTCATCTGA
6795098 AGAAGAAGAAGTTCATAAT-
1 AGAAGAAGAAGTTCATAATG
* *
6795117 -G-AGAAGAA-CTCAT-CTG
1 AGAAGAAGAAGTTCATAATG
6795133 AAGAAGAAGAAGTTCATAATG
1 -AGAAGAAGAAGTTCATAATG
6795154 AGAAGAA
1 AGAAGAA
6795161 CTCATCTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
15 1 0.03
16 4 0.12
17 7 0.21
18 2 0.06
19 7 0.21
20 11 0.32
21 2 0.06
ACGTcount: A:0.51, C:0.08, G:0.24, T:0.17
Consensus pattern (20 bp):
AGAAGAAGAAGTTCATAATG
Found at i:6795372 original size:124 final size:122
Alignment explanation
Indices: 6795142--6795424 Score: 355
Period size: 124 Copynumber: 2.3 Consensus size: 122
6795132 GAAGAAGAAG
*
6795142 AAGTTCATAATGAGAAGAACTCATCT---GAAG-AAGAAGAAGTTCACAATGAAAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAAAAGAGCTTATT
* * * * *
6795203 CAACCTTTTGTATAATTCTATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAG-AGA
66 CAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC---CCAGCAGA
* *
6795262 AAGTTCATAATGAGAAGAATTCATCTGAAGAAGAAAGAAGAAGTTCATAAT-AAGAAGAGCTTAT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAA-AAGAGCTTAT
* * * * *
6795326 TCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCCCCAGCGGA
65 TCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACCCCAGCAGA
*
6795384 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
6795425 TTTATTCAAC
Statistics
Matches: 142, Mismatches: 15, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
120 25 0.18
121 12 0.08
122 33 0.23
123 6 0.04
124 66 0.46
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (122 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAAAAGAGCTTATT
CAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACCCCAGCAGA
Found at i:6795566 original size:3 final size:3
Alignment explanation
Indices: 6795560--6795608 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
6795550 TTAATTTAAA
*
6795560 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT ATAT TATT TAT TAA TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT
6795607 TA
1 TA
6795609 CAAACAGGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 1 0.03
3 32 0.80
4 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6799222 original size:57 final size:56
Alignment explanation
Indices: 6799144--6799262 Score: 143
Period size: 56 Copynumber: 2.1 Consensus size: 56
6799134 AAATTGATTA
* * *
6799144 AAAAAT-ATTGTAGATACTTAAATGAAAAAGA-ATATAATTTAAGTACCTATTTTAAT
1 AAAAATAATTGTAAATACTTAAAT-AAAAAGATAAATAATTTAAATA-CTATTTTAAT
* * * *
6799200 AAAAATAATTTTAAATATTTAAATAAAAAGATAAATATTTTAAATATTATTTTAAT
1 AAAAATAATTGTAAATACTTAAATAAAAAGATAAATAATTTAAATACTATTTTAAT
6799256 AAAAATA
1 AAAAATA
6799263 CTTTCAGTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 29 0.54
57 25 0.46
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (56 bp):
AAAAATAATTGTAAATACTTAAATAAAAAGATAAATAATTTAAATACTATTTTAAT
Found at i:6799836 original size:16 final size:16
Alignment explanation
Indices: 6799815--6799845 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6799805 TAATACAAAG
*
6799815 ATATTTTTTATAAGAA
1 ATATTTTTTAAAAGAA
6799831 ATATTTTTTAAAAGA
1 ATATTTTTTAAAAGA
6799846 CGTTTTTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
ATATTTTTTAAAAGAA
Found at i:6800169 original size:23 final size:22
Alignment explanation
Indices: 6800139--6800182 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
6800129 AATCACACAT
* *
6800139 TGTTTAAATATAATATATTTAAG
1 TGTTTAAAAATAAAAT-TTTAAG
6800162 TGTTTAAAAATAAAATTTTAA
1 TGTTTAAAAATAAAATTTTAA
6800183 ATATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TGTTTAAAAATAAAATTTTAAG
Found at i:6811993 original size:59 final size:59
Alignment explanation
Indices: 6811901--6812020 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
6811891 ATGGATGGAC
*
6811901 AAGTGTCCTATCAAACCCTCCTAGTCGCAATGAAAAGACAAACTCGATAATATAGCTCT
1 AAGTGTCCTATCAAACCCTCCTAGTCACAATGAAAAGACAAACTCGATAATATAGCTCT
* * *
6811960 AAGTGTCCTATCGAACCCTCCTAGTCACAATGAAAAGGCAAACTCGATAATATGGCTCT
1 AAGTGTCCTATCAAACCCTCCTAGTCACAATGAAAAGACAAACTCGATAATATAGCTCT
6812019 AA
1 AA
6812021 CCAACCCTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (59 bp):
AAGTGTCCTATCAAACCCTCCTAGTCACAATGAAAAGACAAACTCGATAATATAGCTCT
Found at i:6813779 original size:20 final size:20
Alignment explanation
Indices: 6813735--6813781 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
6813725 TGTAAATATT
*
6813735 AAATTTAAAAAATATATTCA
1 AAATTTTAAAAATATATTCA
*
6813755 AAATTTTAAAAA-ATATTGA
1 AAATTTTAAAAATATATTCA
6813774 ATAATTTT
1 A-AATTTT
6813782 CTTAAGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
AAATTTTAAAAATATATTCA
Found at i:6822969 original size:46 final size:46
Alignment explanation
Indices: 6822883--6822970 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
6822873 CACGTGTTTT
** *
6822883 AACCAATTACAAATTATGGATCAAATTGAAATAATCAAGAAACTTA
1 AACCAATTACAAATTACAGATCAAAATGAAATAATCAAGAAACTTA
* * *
6822929 AACCAATTTCAAATTACAGA-CTAAAATGAATTAATTAAGAAA
1 AACCAATTACAAATTACAGATC-AAAATGAAATAATCAAGAAA
6822971 TGAAACTCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.03
46 34 0.97
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.26
Consensus pattern (46 bp):
AACCAATTACAAATTACAGATCAAAATGAAATAATCAAGAAACTTA
Found at i:6823869 original size:2 final size:2
Alignment explanation
Indices: 6823862--6823901 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6823852 ATAATCTAAC
6823862 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
6823902 TACTATTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6824017 original size:18 final size:18
Alignment explanation
Indices: 6823988--6824025 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
6823978 TAAAAAGCAA
6823988 AAATTTATTGAAT-TAAT
1 AAATTTATTGAATATAAT
6824005 AAATTTAATTGAATATAAT
1 AAATTT-ATTGAATATAAT
6824024 AA
1 AA
6824026 TTATGTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
AAATTTATTGAATATAAT
Found at i:6824865 original size:17 final size:17
Alignment explanation
Indices: 6824822--6824873 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
6824812 TATACAATAG
*
6824822 AAACTCTTTAAATTAAT
1 AAACTCTCTAAATTAAT
**
6824839 --ACTCGGTAAATTAAT
1 AAACTCTCTAAATTAAT
*
6824854 AAACTCTCTAAAATAAT
1 AAACTCTCTAAATTAAT
6824871 AAA
1 AAA
6824874 TTTGTCCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
AAACTCTCTAAATTAAT
Found at i:6825260 original size:17 final size:18
Alignment explanation
Indices: 6825240--6825273 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6825230 AAAATATTTT
6825240 AAAATT-ATTTAAAAATA
1 AAAATTAATTTAAAAATA
*
6825257 AAAATTAATTTCAAAAT
1 AAAATTAATTTAAAAAT
6825274 CGAACCTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTAATTTAAAAATA
Found at i:6827698 original size:43 final size:43
Alignment explanation
Indices: 6827584--6827877 Score: 172
Period size: 43 Copynumber: 6.8 Consensus size: 43
6827574 TCAAAAGGTA
* ** * *
6827584 TTGATATTTAGCGGCGTTTTGTAGAAAAACGCCGCAATAGGTG
1 TTGATATTTAGCGGCGTTTTCTTCACAAACGCCGCAATAGATG
* ** * ** * **
6827627 TTGATATTTAACGGTATTTGGC-AGACAAACGCCGTAATAGGCG
1 TTGATATTTAGCGGCGTTT-TCTTCACAAACGCCGCAATAGATG
* *
6827670 TTGATGTTTAGCGGCGTTTTCTTCACAAACGCCGCAGTAGATG
1 TTGATATTTAGCGGCGTTTTCTTCACAAACGCCGCAATAGATG
* * * *
6827713 TTTATTTTTACCGGCGTTTT-TCCTACAAACGCCGCAGA-AGATG
1 TTGATATTTAGCGGCGTTTTCTTC-ACAAACGCCGCA-ATAGATG
* * *
6827756 TTGATATTTAGCGACGTTTTCCT-ACAAACGCCGCAGAATATG-TC
1 TTGATATTTAGCGGCGTTTTCTTCACAAACGCCGC--AATA-GATG
* * * * *
6827800 TTGAGATTTAGCAGCATTTTCGTCGA-AAACGCCGCAATATG-TC
1 TTGATATTTAGCGGCGTTTTCTTC-ACAAACGCCGCAATA-GATG
* * *
6827843 TTGAGATTTCGCGGCGTTTT-TATCACAAACACCGC
1 TTGATATTTAGCGGCGTTTTCT-TCACAAACGCCGC
6827878 TAAATGTATG
Statistics
Matches: 197, Mismatches: 41, Indels: 26
0.75 0.16 0.10
Matches are distributed among these distances:
42 15 0.08
43 150 0.76
44 21 0.11
45 10 0.05
46 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (43 bp):
TTGATATTTAGCGGCGTTTTCTTCACAAACGCCGCAATAGATG
Found at i:6828279 original size:21 final size:21
Alignment explanation
Indices: 6828216--6828324 Score: 103
Period size: 21 Copynumber: 5.2 Consensus size: 21
6828206 TGATATATTA
* * *
6828216 CTTCTCTCTGTTCTGCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* * * *
6828237 CCTCTCTCTGTGCTGCCACTG
1 CTTCTCTCTCTGCTTCCGCTG
6828258 CTTCTCTCTCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* **
6828279 CTGCTCTAGCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
*
6828300 CTGCTCTCTCTGCTTCC-CTTG
1 CTTCTCTCTCTGCTTCCGC-TG
6828321 CTTC
1 CTTC
6828325 ATTTTCCGCT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 1 0.01
21 73 0.99
ACGTcount: A:0.02, C:0.41, G:0.17, T:0.39
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Found at i:6837202 original size:41 final size:41
Alignment explanation
Indices: 6837034--6837290 Score: 208
Period size: 41 Copynumber: 6.3 Consensus size: 41
6837024 GTTAAAATCA
* * * *
6837034 ATTGCGGCGTTTACAGAAAAACGCCACT-AATGTACGAC-CC
1 ATTGCGGCGTTTATATAAAAACGCCACTAAAT-TACAACTCT
* *
6837074 ATTTGCGGCGTTTCT-TGTAAAACGCCACTATAA--ACAACTCT
1 A-TTGCGGCGTTTATAT-AAAAACGCCACTA-AATTACAACTCT
* *
6837115 ATTGCGGCGTTTATATAAAAACGCCACT-AATGTACGAC-CC
1 ATTGCGGCGTTTATATAAAAACGCCACTAAAT-TACAACTCT
** * *
6837155 ATTTGCGGCGTTTATATAAAAACATCGCTAAATTACTACTCT
1 A-TTGCGGCGTTTATATAAAAACGCCACTAAATTACAACTCT
* * *
6837197 ATTGCGGTGTTTTTTTAGAAAACGCCACTATAA--ACAACTCT
1 ATTGCGGCGTTTATATA-AAAACGCCACTA-AATTACAACTCT
* * * *
6837238 ATTGCAGCGTTTATATAAAAACGCCGCTAAATTACCACCCT
1 ATTGCGGCGTTTATATAAAAACGCCACTAAATTACAACTCT
6837279 ATTGCGGCGTTT
1 ATTGCGGCGTTT
6837291 GTTGAAAAAA
Statistics
Matches: 171, Mismatches: 30, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 41 0.24
41 108 0.63
42 14 0.08
43 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (41 bp):
ATTGCGGCGTTTATATAAAAACGCCACTAAATTACAACTCT
Found at i:6839565 original size:12 final size:12
Alignment explanation
Indices: 6839548--6839576 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6839538 AAACGTTATC
6839548 ATATTATATAAT
1 ATATTATATAAT
6839560 ATATTATATAAT
1 ATATTATATAAT
6839572 ATATT
1 ATATT
6839577 CATACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATTATATAAT
Found at i:6840118 original size:13 final size:13
Alignment explanation
Indices: 6840100--6840124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6840090 AGGTATTTGT
6840100 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
6840113 TTTTTTTCTTTT
1 TTTTTTTCTTTT
6840125 ACCTTCGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:6840827 original size:22 final size:20
Alignment explanation
Indices: 6840801--6840840 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6840791 TTTTTATTTA
6840801 TTTATGCTATAGTATATTATAT
1 TTTATG-TATAG-ATATTATAT
6840823 TTTATGTATAGATATTAT
1 TTTATGTATAGATATTAT
6840841 TTATATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTATGTATAGATATTATAT
Found at i:6844370 original size:244 final size:244
Alignment explanation
Indices: 6843941--6844428 Score: 940
Period size: 244 Copynumber: 2.0 Consensus size: 244
6843931 TATTTCATGT
6843941 CTGTTTATTTTATATTTTCCATGTTTTTACATTCGTATTAACTAACAGAACATGTCTCAGACACC
1 CTGTTTATTTTATATTTTCCATGTTTTTACATTCGTATTAACTAACAGAACATGTCTCAGACACC
6844006 AAGCTTACCACCGCAAGCAATAGATACGCATCACCCTCACAACACTCGTGCAAAGAAAAAACAAA
66 AAGCTTACCACCGCAAGCAATAGATACGCATCACCCTCACAACACTCGTGCAAAGAAAAAACAAA
*
6844071 TGGATGTCAGAATGGAAAAACTCGAGGAGAACATGGCAAGACTTCAAAAGGAATTGGAGGACAAG
131 TGGATGTCAGAATGGAAAAACTCAAGGAGAACATGGCAAGACTTCAAAAGGAATTGGAGGACAAG
*
6844136 ATGGCTCAGAACAATCAACGTACCATGGAGTCCATAAAGAAAAGCACGG
196 ATGGCTCAGAACAATCAACGTACCATGGAGTCCATAAAAAAAAGCACGG
6844185 CTGTTTATTTTATATTTTCCATGTTTTTACATTCGTATTAACTAACAGAACATGTCTCAGACACC
1 CTGTTTATTTTATATTTTCCATGTTTTTACATTCGTATTAACTAACAGAACATGTCTCAGACACC
*
6844250 AAGCTTACCACCGCAAGCAATAGATACGCATCACCCTCACAACACTCGTGCAAAGAAAAAATAAA
66 AAGCTTACCACCGCAAGCAATAGATACGCATCACCCTCACAACACTCGTGCAAAGAAAAAACAAA
6844315 TGGATGTCAGAATGGAAAAACTCAAGGAGAACATGGCAAGACTTCAAAAGGAATTGGAGGACAAG
131 TGGATGTCAGAATGGAAAAACTCAAGGAGAACATGGCAAGACTTCAAAAGGAATTGGAGGACAAG
*
6844380 ATGGCTCAGAACAGTCAACGTACCATGGAGTCCATAAAAAAAAGCACGG
196 ATGGCTCAGAACAATCAACGTACCATGGAGTCCATAAAAAAAAGCACGG
6844429 AGTCCCTAGT
Statistics
Matches: 240, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
244 240 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (244 bp):
CTGTTTATTTTATATTTTCCATGTTTTTACATTCGTATTAACTAACAGAACATGTCTCAGACACC
AAGCTTACCACCGCAAGCAATAGATACGCATCACCCTCACAACACTCGTGCAAAGAAAAAACAAA
TGGATGTCAGAATGGAAAAACTCAAGGAGAACATGGCAAGACTTCAAAAGGAATTGGAGGACAAG
ATGGCTCAGAACAATCAACGTACCATGGAGTCCATAAAAAAAAGCACGG
Found at i:6844617 original size:47 final size:47
Alignment explanation
Indices: 6844548--6844641 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
6844538 GGTTACCTCA
6844548 TCCGGGACCTTACCCGGACTGCAAGGTGACTCATCTGCCGCTAGAGG
1 TCCGGGACCTTACCCGGACTGCAAGGTGACTCATCTGCCGCTAGAGG
6844595 TCCGGGACCTTACCCGGACTGCAAGGTGACTCATCTGCCGCTAGAGG
1 TCCGGGACCTTACCCGGACTGCAAGGTGACTCATCTGCCGCTAGAGG
6844642 GAAAGCTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (47 bp):
TCCGGGACCTTACCCGGACTGCAAGGTGACTCATCTGCCGCTAGAGG
Found at i:6852430 original size:105 final size:105
Alignment explanation
Indices: 6852180--6852729 Score: 988
Period size: 105 Copynumber: 5.3 Consensus size: 105
6852170 CCCAGAGTCG
*
6852180 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
6852245 ACCGCTGGTTGTCAA-TAA-A-----CAATTTCAGGGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
*
6852278 ATTTCAACTCCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
6852343 ACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
6852383 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
6852448 ACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
6852488 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
6852553 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
6852593 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
6852658 ACCGCTGGTTGTCAACAAATATTTCTCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
6852698 ATTTCAACTTCACAACGAAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
6852730 GGAACAATAC
Statistics
Matches: 437, Mismatches: 8, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
98 78 0.18
99 2 0.00
100 1 0.00
105 356 0.81
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCA
Found at i:6853211 original size:12 final size:12
Alignment explanation
Indices: 6853194--6853222 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6853184 AAACGTTATC
6853194 ATATTATATAAT
1 ATATTATATAAT
6853206 ATATTATATAAT
1 ATATTATATAAT
6853218 ATATT
1 ATATT
6853223 CATACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATTATATAAT
Found at i:6853764 original size:13 final size:13
Alignment explanation
Indices: 6853746--6853770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6853736 AGGTATTTGT
6853746 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
6853759 TTTTTTTCTTTT
1 TTTTTTTCTTTT
6853771 ACCTTCTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:6860057 original size:28 final size:28
Alignment explanation
Indices: 6860018--6860082 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
6860008 TATAAAAATT
*
6860018 AAATATAAAAAATATATCATTCGAA-TATA
1 AAATA-AAAAAATATAACATTC-AATTATA
6860047 AAATAAAAAAATATAACATTCAATTATA
1 AAATAAAAAAATATAACATTCAATTATA
*
6860075 ACATAAAA
1 AAATAAAA
6860083 GTTTAATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.06
28 26 0.79
29 5 0.15
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.28
Consensus pattern (28 bp):
AAATAAAAAAATATAACATTCAATTATA
Found at i:6872098 original size:31 final size:29
Alignment explanation
Indices: 6872041--6872102 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
6872031 TATAAAATTA
6872041 TTATTAAAATTGCATGATTAAAATTATTGT
1 TTATTAAAATTGCATGATTAAAATTA-TGT
* * **
6872071 TTATTAAATTTGAGATGATTATTATTATGT
1 TTATTAAAATTG-CATGATTAAAATTATGT
6872101 TT
1 TT
6872103 TACTTAGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (29 bp):
TTATTAAAATTGCATGATTAAAATTATGT
Found at i:6877617 original size:216 final size:217
Alignment explanation
Indices: 6877233--6877665 Score: 859
Period size: 216 Copynumber: 2.0 Consensus size: 217
6877223 TAGATTTCTA
6877233 GATTTTAGGGATAAAGAGAAATGAGAACGAGGAGAGGGATTTGTTACCCTAGAGACGATGCTTGT
1 GATTTTAGGGATAAAGAGAAATGAGAACGAGGAGAGGGATTTGTTACCCTAGAGACGATGCTTGT
6877298 ATTGATGAGTCTGTAGCTAAACGAAGAGACTTTGATCGGTGTAACATGGGTTGCCGTAAACGGCA
66 ATTGATGAGTCTGTAGCTAAACGAAGAGACTTTGATCGGTGTAACATGGGTTGCCGTAAACGGCA
6877363 GAGATTCTCGCCGGTGGTTGCCGGGAAGAGTGATATGTTTGATGTTTTACCCGATGATCTTGTCA
131 GAGATTCTCGCCGGTGGTTGCCGGGAAGAGTGATATGTTTGATGTTTTACCCGATGATCTTGTCA
6877428 TTTCTATACTCTCCAAGCTCAG
196 TTTCTATACTCTCCAAGCTCAG
6877450 GATTTTAGGGATAAAGAGAAATGAGAACGAGGAGAGGGATTTGTTACCCTAGAGACGATGCTTGT
1 GATTTTAGGGATAAAGAGAAATGAGAACGAGGAGAGGGATTTGTTACCCTAGAGACGATGCTTGT
6877515 ATTGATGAGTCTGTAGCT-AACGAAGAGACTTTGATCGGTGTAACATGGGTTGCCGTAAACGGCA
66 ATTGATGAGTCTGTAGCTAAACGAAGAGACTTTGATCGGTGTAACATGGGTTGCCGTAAACGGCA
6877579 GAGATTCTCGCCGGTGGTTGCCGGGAAGAGTGATATGTTTGATGTTTTACCCGATGATCTTGTCA
131 GAGATTCTCGCCGGTGGTTGCCGGGAAGAGTGATATGTTTGATGTTTTACCCGATGATCTTGTCA
6877644 TTTCTATACTCTCCAAGCTCAG
196 TTTCTATACTCTCCAAGCTCAG
6877666 CTCTTCCGCT
Statistics
Matches: 216, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
216 133 0.62
217 83 0.38
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (217 bp):
GATTTTAGGGATAAAGAGAAATGAGAACGAGGAGAGGGATTTGTTACCCTAGAGACGATGCTTGT
ATTGATGAGTCTGTAGCTAAACGAAGAGACTTTGATCGGTGTAACATGGGTTGCCGTAAACGGCA
GAGATTCTCGCCGGTGGTTGCCGGGAAGAGTGATATGTTTGATGTTTTACCCGATGATCTTGTCA
TTTCTATACTCTCCAAGCTCAG
Found at i:6889935 original size:368 final size:368
Alignment explanation
Indices: 6889258--6889944 Score: 1216
Period size: 368 Copynumber: 1.9 Consensus size: 368
6889248 ATATAGTTTC
6889258 TTGATTTCTCTTAGGTCTGAAACTCTGTTTGATTTTAGGGAGAGTTCATTCATGTTGAAATAATT
1 TTGATTTCTCTTAGGTCTGAAACTCTGTTTGATTTTAGGGAGAGTTCATTCATGTTGAAATAATT
* * *
6889323 GCACTTCATCTCGCCTGACAGTTATTTTAATAGTTGGTGGTTCCAGAAAGTGTTAGAACTTGATC
66 GCACTTCATCTAGCCTGACAATTATTTTAATAGTTGGTGGTTCCAGAAAGAGTTAGAACTTGATC
*
6889388 ATTGTTTCCTAAGGTATTTTTCTTCTAAATTTCAATGCTTTCCCTGGGGTTTGAACGGTTCATCT
131 ATTGTTTCCTAAGGCATTTTTCTTCTAAATTTCAATGCTTTCCCTGGGGTTTGAACGGTTCATCT
6889453 TCATCTTAGAATTTCTAATTATTACCCTAATTTTCCCTTTGGAACATATTTATGCTCACTGTCTG
196 TCATCTTAGAATTTCTAATTATTACCCTAATTTTCCCTTTGGAACATATTTATGCTCACTGTCTG
* *
6889518 TGTTGCTCGGACTTGGGTGTAACTGTACGATATGTGTATATGATATTGGTATTTTCAACTTCCTA
261 TGTTACTCGGACTTCGGTGTAACTGTACGATATGTGTATATGATATTGGTATTTTCAACTTCCTA
6889583 AGAATTCGAATCGGACTTTAACATGAATTTGAAGGCAAACTAT
326 AGAATTCGAATCGGACTTTAACATGAATTTGAAGGCAAACTAT
6889626 TTGATTTCTCTTAAGGTCTGAAACTCTGTTTGATTTTA-GG-GAGTTCATTCATGTTGAAATAAT
1 TTGATTTCTCTT-AGGTCTGAAACTCTGTTTGATTTTAGGGAGAGTTCATTCATGTTGAAATAAT
* * *
6889689 TGCACTTCATCTATCCTGACAATTATTTTAGTATTTGGTGGTTCCATGAAAGAGTTAGAACTTGA
65 TGCACTTCATCTAGCCTGACAATTATTTTAATAGTTGGTGGTTCCA-GAAAGAGTTAGAACTTGA
* * * *
6889754 TCATTGTTTTCTAAGGCGTTTTTCTTCTAAATTTCAATGCTTTTCCTGGGGTTTGAATGGTTCAT
129 TCATTGTTTCCTAAGGCATTTTTCTTCTAAATTTCAATGCTTTCCCTGGGGTTTGAACGGTTCAT
*
6889819 CTTCATCTTAGAATTTCTAATTATTACCCTAATTTTCCCTTTGGAACATATTTATGCTCAGTGTC
194 CTTCATCTTAGAATTTCTAATTATTACCCTAATTTTCCCTTTGGAACATATTTATGCTCACTGTC
6889884 TGTGTTACTCGGACTTCGGTGTAACTGTACGATATGTGTATATGATATTGGTATTTTCAAC
259 TGTGTTACTCGGACTTCGGTGTAACTGTACGATATGTGTATATGATATTGGTATTTTCAAC
6889945 ATTTTCTTTG
Statistics
Matches: 303, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
367 64 0.21
368 214 0.71
369 25 0.08
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (368 bp):
TTGATTTCTCTTAGGTCTGAAACTCTGTTTGATTTTAGGGAGAGTTCATTCATGTTGAAATAATT
GCACTTCATCTAGCCTGACAATTATTTTAATAGTTGGTGGTTCCAGAAAGAGTTAGAACTTGATC
ATTGTTTCCTAAGGCATTTTTCTTCTAAATTTCAATGCTTTCCCTGGGGTTTGAACGGTTCATCT
TCATCTTAGAATTTCTAATTATTACCCTAATTTTCCCTTTGGAACATATTTATGCTCACTGTCTG
TGTTACTCGGACTTCGGTGTAACTGTACGATATGTGTATATGATATTGGTATTTTCAACTTCCTA
AGAATTCGAATCGGACTTTAACATGAATTTGAAGGCAAACTAT
Found at i:6894476 original size:32 final size:32
Alignment explanation
Indices: 6894435--6894500 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
6894425 AATATTTCAT
6894435 TACCTTCTGTCAAAACCTGTATTTGTTCGAAA
1 TACCTTCTGTCAAAACCTGTATTTGTTCGAAA
6894467 TACCTTCTGTCAAAACCTGTATTTGTTCGAAA
1 TACCTTCTGTCAAAACCTGTATTTGTTCGAAA
6894499 TA
1 TA
6894501 GTAAGATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (32 bp):
TACCTTCTGTCAAAACCTGTATTTGTTCGAAA
Found at i:6898323 original size:2 final size:2
Alignment explanation
Indices: 6898316--6898352 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6898306 TAGATAGAAT
6898316 TA TA TA TA TA TA TA TA 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 T
6898353 GTAGTTTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6919864 original size:35 final size:35
Alignment explanation
Indices: 6919818--6919893 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
6919808 AAAACAGTCC
* *
6919818 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
6919853 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
6919888 TCAATT
1 TCAATT
6919894 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:6920436 original size:130 final size:130
Alignment explanation
Indices: 6920290--6920537 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
6920280 TATTTATATA
* **
6920290 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
6920355 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
6920420 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
6920485 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
6920538 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:6920568 original size:130 final size:129
Alignment explanation
Indices: 6920304--6920568 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
6920294 ATTTGGTCCT
* ** *
6920304 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
6920369 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
6920434 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
6920499 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
6920563 -A
128 CA
6920564 AAATT
1 AAATT
6920569 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:6920896 original size:28 final size:27
Alignment explanation
Indices: 6920865--6920927 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
6920855 AGTTGATACA
*
6920865 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
6920893 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
6920921 ATATTTT
1 ATATTTT
6920928 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:6921027 original size:15 final size:16
Alignment explanation
Indices: 6921003--6921039 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6920993 TTTAATTTCT
6921003 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
6921017 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
6921033 TGATTCA
1 T-ATTCA
6921040 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:6921530 original size:2 final size:2
Alignment explanation
Indices: 6921519--6921557 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
6921509 TATAATTATC
*
6921519 AT AT -T AT AT AT AT AT GT 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
6921558 TAAAGTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6922671 original size:20 final size:19
Alignment explanation
Indices: 6922624--6922724 Score: 67
Period size: 20 Copynumber: 5.1 Consensus size: 19
6922614 AATTGATCAA
* * *
6922624 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACTC-AATTT
*
6922644 CAATTTCGCAACTCAATTT
1 CAAATTCGCAACTCAATTT
* *
6922663 CTAAATTCGCAACGCGATTT
1 C-AAATTCGCAACTCAATTT
* *
6922683 CCAAATTCGTAATACTGAATTT
1 -CAAATTCG-CA-ACTCAATTT
* *
6922705 CAAATTTGCAACTCGATTT
1 CAAATTCGCAACTCAATTT
6922724 C
1 C
6922725 CGAGTTGCGA
Statistics
Matches: 62, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
19 12 0.19
20 35 0.56
21 9 0.15
22 6 0.10
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (19 bp):
CAAATTCGCAACTCAATTT
Found at i:6922686 original size:40 final size:41
Alignment explanation
Indices: 6922624--6922725 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 41
6922614 AATTGATCAA
** * *
6922624 CAAATTCGCAACGCGAACTCCAATTTCG-CA-ACTCAATTT
1 CAAATTCGCAACGCGATTTCCAAATTCGTAATACTCAATTT
*
6922663 CTAAATTCGCAACGCGATTTCCAAATTCGTAATACTGAATTT
1 C-AAATTCGCAACGCGATTTCCAAATTCGTAATACTCAATTT
* *
6922705 CAAATTTGCAACTCGATTTCC
1 CAAATTCGCAACGCGATTTCC
6922726 GAGTTGCGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.02
40 24 0.45
41 19 0.36
42 9 0.17
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.30
Consensus pattern (41 bp):
CAAATTCGCAACGCGATTTCCAAATTCGTAATACTCAATTT
Found at i:6922969 original size:14 final size:16
Alignment explanation
Indices: 6922950--6922987 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
6922940 TCCCTATCTC
6922950 TAATTTT-TTT-TATA
1 TAATTTTATTTCTATA
6922964 TAATTTTATTTCTATA
1 TAATTTTATTTCTATA
6922980 TAAATTTT
1 T-AATTTT
6922988 CAATGATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 3 0.14
16 5 0.24
17 6 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TAATTTTATTTCTATA
Found at i:6926380 original size:21 final size:21
Alignment explanation
Indices: 6926354--6926399 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6926344 CGATTGTTGC
* *
6926354 AAAAGTCAAATTTGAAACGCG
1 AAAAGTAAAATTCGAAACGCG
*
6926375 AAAAGTAAAATTCGCAACGCG
1 AAAAGTAAAATTCGAAACGCG
6926396 AAAA
1 AAAA
6926400 TCACAAAGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.15
Consensus pattern (21 bp):
AAAAGTAAAATTCGAAACGCG
Found at i:6926461 original size:20 final size:20
Alignment explanation
Indices: 6926436--6926480 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6926426 CCATCGTAAC
*
6926436 GCGAATTTGACTTTCACATT
1 GCGAATTTAACTTTCACATT
*
6926456 GCGAATTTAACTTTCGCATT
1 GCGAATTTAACTTTCACATT
6926476 GCGAA
1 GCGAA
6926481 AATGTACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (20 bp):
GCGAATTTAACTTTCACATT
Found at i:6928013 original size:21 final size:20
Alignment explanation
Indices: 6927989--6928043 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
6927979 TAGGAGGGGT
*
6927989 CTCTTGAACGATGATAGTGGC
1 CTCTTGAACGATGAGAG-GGC
*
6928010 CTCTTGAAC-AGTGGGAGGGC
1 CTCTTGAACGA-TGAGAGGGC
6928030 CTCTTGAACGATGA
1 CTCTTGAACGATGA
6928044 CAGGAGAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (20 bp):
CTCTTGAACGATGAGAGGGC
Found at i:6928401 original size:21 final size:21
Alignment explanation
Indices: 6928328--6928401 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
6928318 ACAACAATCT
* *
6928328 CACGTAAAGC-GATTACCTTAT
1 CACGTAAAGCAGA-TACCTCAC
*
6928349 CACGTAAAGTAGATACCTCAC
1 CACGTAAAGCAGATACCTCAC
*
6928370 CAAGTAAAGCAGATACCTCAC
1 CACGTAAAGCAGATACCTCAC
6928391 CACGTAAAGCA
1 CACGTAAAGCA
6928402 CCATTGTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 44 0.96
22 2 0.04
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (21 bp):
CACGTAAAGCAGATACCTCAC
Found at i:6928429 original size:63 final size:63
Alignment explanation
Indices: 6928362--6928482 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 63
6928352 GTAAAGTAGA
* *
6928362 TACCTCACCA-AGTAAAG-CAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACCTC
1 TACCTCACCACA-TAAAGACAG-TACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACCTC
* * * * *
6928425 TACCTCACCACATAAAGACTGTACCTCATCACGCCATGCACCATTGTCGTCACGTAAA
1 TACCTCACCACATAAAGACAGTACCTCACCACGCAAAGCACCATTGTCATCACGTAAA
6928483 GTACCGACCT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
63 46 0.94
64 3 0.06
ACGTcount: A:0.33, C:0.34, G:0.12, T:0.21
Consensus pattern (63 bp):
TACCTCACCACATAAAGACAGTACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACCTC
Found at i:6928498 original size:21 final size:21
Alignment explanation
Indices: 6928474--6928519 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6928464 ACCATTGTCG
* * *
6928474 TCACGTAAAGTACCGACCTCC
1 TCACGCAAAGCACCGACCTCA
*
6928495 TCACGCAAAGCACTGACCTCA
1 TCACGCAAAGCACCGACCTCA
6928516 TCAC
1 TCAC
6928520 ATAACTCCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.39, G:0.13, T:0.17
Consensus pattern (21 bp):
TCACGCAAAGCACCGACCTCA
Found at i:6930270 original size:19 final size:19
Alignment explanation
Indices: 6930220--6930272 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
6930210 GTAGTTTCTA
6930220 AAACTTAAAATCGCAACGCG
1 AAAC-TAAAATCGCAACGCG
* *
6930240 AAAATGAAAATCGCAACTCG
1 AAACT-AAAATCGCAACGCG
6930260 AAACTAAAATCGC
1 AAACTAAAATCGC
6930273 GTTGCGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.15
Consensus pattern (19 bp):
AAACTAAAATCGCAACGCG
Found at i:6931761 original size:24 final size:24
Alignment explanation
Indices: 6931696--6931753 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
6931686 TATCTCTCAT
* *
6931696 TATAAACAGATATATTTACAAATA
1 TATAAATAAATATATTTACAAATA
*
6931720 TATAAATAAATATATTTACGAATA
1 TATAAATAAATATATTTACAAATA
6931744 T-TAAATAAAT
1 TATAAATAAAT
6931754 TGAGTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.36
Consensus pattern (24 bp):
TATAAATAAATATATTTACAAATA
Found at i:6936202 original size:157 final size:157
Alignment explanation
Indices: 6935916--6936230 Score: 630
Period size: 157 Copynumber: 2.0 Consensus size: 157
6935906 ATTTAGGGAC
6935916 ATACGTTGCAATTAACTCATAACATTTTCACCAAACATAACATAAGCCTGTTGGATGATAATTAA
1 ATACGTTGCAATTAACTCATAACATTTTCACCAAACATAACATAAGCCTGTTGGATGATAATTAA
6935981 TTAAAACAGGTATATTTTTTTTTGATAAATCTAAATAAATATAAGGTAATATTTGTCTAAAGATT
66 TTAAAACAGGTATATTTTTTTTTGATAAATCTAAATAAATATAAGGTAATATTTGTCTAAAGATT
6936046 CTCAACTCTTTAACAATAAACACTCAT
131 CTCAACTCTTTAACAATAAACACTCAT
6936073 ATACGTTGCAATTAACTCATAACATTTTCACCAAACATAACATAAGCCTGTTGGATGATAATTAA
1 ATACGTTGCAATTAACTCATAACATTTTCACCAAACATAACATAAGCCTGTTGGATGATAATTAA
6936138 TTAAAACAGGTATATTTTTTTTTGATAAATCTAAATAAATATAAGGTAATATTTGTCTAAAGATT
66 TTAAAACAGGTATATTTTTTTTTGATAAATCTAAATAAATATAAGGTAATATTTGTCTAAAGATT
6936203 CTCAACTCTTTAACAATAAACACTCAT
131 CTCAACTCTTTAACAATAAACACTCAT
6936230 A
1 A
6936231 CTTCCCGATA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 158 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.36
Consensus pattern (157 bp):
ATACGTTGCAATTAACTCATAACATTTTCACCAAACATAACATAAGCCTGTTGGATGATAATTAA
TTAAAACAGGTATATTTTTTTTTGATAAATCTAAATAAATATAAGGTAATATTTGTCTAAAGATT
CTCAACTCTTTAACAATAAACACTCAT
Found at i:6938254 original size:250 final size:254
Alignment explanation
Indices: 6937401--6938676 Score: 1496
Period size: 255 Copynumber: 5.0 Consensus size: 254
6937391 ATAGATTTGT
*
6937401 TTTTGGCTGAG-TATTTGGATTCTTAAACCTGATG-AAAAAAGCA-GGTCTTTGTTGCCTTTTTG
1 TTTTGGCTGAGAT-TTTGGATTCCTAAACCTGATGTAAAAAAGCAGGGTC-TTGTTGCC-TTTTG
* * * * *
6937463 TGAACTCGGCTCTTGTAAACTTCAGGAAAATTACTTGTGCATTTTTCTTGGGTAAAGCTCTGGAT
63 TGAACTAGGTTCTTGTAAACTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGAT
* * *
6937528 TTTACTGGTGCCTGATGGTTCAGTAAATGATGCTACATTTTGCAATCCTCCTTT-AGGAATTTAG
128 TTTATTGGTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTAATCCT-CTTTAAGGAATTTAG
* * * * * *
6937592 TTGCTGGATTGATACATATGAGTTCAATTGTTTATTGAGGTGTTTTGATGATGTTTGGTCCTAC
192 TT-TTGGATTGATATATATGAGTTCAATTGTTTCTTGAGGCGTTTTGATGTTGTTTGGTCCTAG
* * * * *
6937656 TTTTGGTTGAGATTTTGTATTCTTAAACCTGATGTAATAAAGCAGGGCCTTGTTGCCTTTTGTGA
1 TTTTGGCTGAGATTTTGGATTCCTAAACCTGATGTAAAAAAGCAGGGTCTTGTTGCCTTTTGTGA
* * * *
6937721 ACTAGCTTCTCGTAAACTTCAGGGAAATTACTTGTGCATTATTCTTGGGTGAACCTCTGGATTTT
66 ACTAGGTTCTTGTAAACTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGATTTT
* * * * * *
6937786 ATCGGTCCCTGAAGGTTCAGTAAATGATGCTAAATTTTGTAATCTTCCTTAAGGAATTTAATTTC
131 ATTGGTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTAATCCTCTTTAAGGAATTTAGTTT-
* * * * * ** * *
6937851 TGGATTGATACATTTGAGTTCAATTG-TTCATTGAGGTGTTTCGATGTTCTTTACTCCGAT
195 TGGATTGATATATATGAGTTCAATTGTTTC-TTGAGGCGTTTTGATGTTGTTTGGTCCTAG
* * * *
6937911 TTTTGGCTGAGATTTT-AATTCTTAAACCTGATGTAAAAAAGCAGGGCCTTGCTGCCTTTTGTGA
1 TTTTGGCTGAGATTTTGGATTCCTAAACCTGATGTAAAAAAGCAGGGTCTTGTTGCCTTTTGTGA
*
6937975 ACTAGGTTCTTGTAAACTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTTTGGA-TTT
66 ACTAGGTTCTTGTAAACTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGATTTT
* * *
6938039 ATTGGTGCCTGAAGGTTCAGTAAATAATGCTACTTTTTGTAATCCTCTTTAAGGAATTGAGTTTT
131 ATTGGTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTAATCCTCTTTAAGGAATTTAGTTTT
* * * *
6938104 GGGATTG-T-TGTATGAGTTCAGTTGTTT-TTGAGGGGTTTTGATGGTGTTTGGTCCT-G
196 -GGATTGATATATATGAGTTCAATTGTTTCTTGAGGCGTTTTGATGTTGTTTGGTCCTAG
* * * * * * *
6938160 TTTTGGCTGTGATTTTGGATCCCCAAACCTGATGTACAAAAGCAAGGTCTTGTTACCTTTTCTGA
1 TTTTGGCTGAGATTTTGGATTCCTAAACCTGATGTAAAAAAGCAGGGTCTTGTTGCCTTTTGTGA
** * **
6938225 ACTAGGTTCTTGTAAACTTCACTAAAATTACTTGTGCATTGTCCTTCAGTGAACCTCTGGA-TTT
66 ACTAGGTTCTTGTAAACTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGATTTT
* ** *
6938289 ATTGGTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTATTCCTCTACAAGGAATTGAGTTTT
131 ATTGGTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTAATCCTCTTTAAGGAATTTAGTTTT
*
6938354 CGGAATGATATATATATATATATATATGAGTTCAATTGTTTCTTGAGGCGTTTTGATGTTGTTTG
196 --G---G------AT-T-GATATATATGAGTTCAATTGTTTCTTGAGGCGTTTTGATGTTGTTTG
*
6938419 GTCCTAT
248 GTCCTAG
* * *
6938426 TTTTGTCTAAGATTTTGGATTCCTAAACCTGATGTAAAAAAGCAGGGTCTTGTTGCCTTTTGTAA
1 TTTTGGCTGAGATTTTGGATTCCTAAACCTGATGTAAAAAAGCAGGGTCTTGTTGCCTTTTGTGA
* ** * *
6938491 ACTAGATTCTTGTAAACTTCAGGAAAATTACCAGTGCATTGTGCTTGGGTGAATCTCTGGATTTT
66 ACTAGGTTCTTGTAAACTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGATTTT
* * * * *
6938556 ATTGGTGTCGGAAGGTTCAGTAAATGATGCTACATTTTGTAACCCTATGTAAGGAATTTAGTTTT
131 ATTGGTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTAATCCTCTTTAAGGAATTTAG-TTT
* * *
6938621 TGGATTGATATGATATGATTTCAATTGTTTCTTGAGGCATTTTAATGTTGTTTGGT
195 TGGATTGATAT-ATATGAGTTCAATTGTTTCTTGAGGCGTTTTGATGTTGTTTGGT
6938677 TCGATTTTAT
Statistics
Matches: 873, Mismatches: 120, Indels: 55
0.83 0.11 0.05
Matches are distributed among these distances:
249 15 0.02
250 177 0.20
251 14 0.02
252 4 0.00
253 64 0.07
254 107 0.12
255 212 0.24
256 59 0.07
257 5 0.01
260 2 0.00
261 1 0.00
263 2 0.00
264 17 0.02
265 26 0.03
266 108 0.12
267 56 0.06
268 4 0.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (254 bp):
TTTTGGCTGAGATTTTGGATTCCTAAACCTGATGTAAAAAAGCAGGGTCTTGTTGCCTTTTGTGA
ACTAGGTTCTTGTAAACTTCAGGAAAATTACTTGTGCATTGTTCTTGGGTGAACCTCTGGATTTT
ATTGGTGCCTGAAGGTTCAGTAAATGATGCTACATTTTGTAATCCTCTTTAAGGAATTTAGTTTT
GGATTGATATATATGAGTTCAATTGTTTCTTGAGGCGTTTTGATGTTGTTTGGTCCTAG
Found at i:6944668 original size:31 final size:31
Alignment explanation
Indices: 6944614--6944674 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
6944604 TGCAATACAG
6944614 TCCCCCAACATTTAGTCCATTTGCAATATGA
1 TCCCCCAACATTTAGTCCATTTGCAATATGA
***
6944645 TCCCCCAACATTTAGTTTGTTTGCAATATG
1 TCCCCCAACATTTAGTCCATTTGCAATATG
6944675 GTTCCTGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCATTTGCAATATGA
Found at i:6945813 original size:15 final size:15
Alignment explanation
Indices: 6945790--6945822 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6945780 CGTAGGACTC
6945790 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
6945805 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
6945820 CTA
1 CTA
6945823 TTATAGGTGT
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:0.30, C:0.33, G:0.21, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:6952720 original size:15 final size:15
Alignment explanation
Indices: 6952701--6952735 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6952691 CGAGGGTATA
6952701 ATAGTCCTTCGGGAC
1 ATAGTCCTTCGGGAC
*
6952716 GTAGTCCTTCGGGAC
1 ATAGTCCTTCGGGAC
6952731 ATAGT
1 ATAGT
6952736 TGTAACACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (15 bp):
ATAGTCCTTCGGGAC
Found at i:6953397 original size:15 final size:15
Alignment explanation
Indices: 6953374--6953406 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6953364 CGTAGGACTC
6953374 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
6953389 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
6953404 CTA
1 CTA
6953407 TTATACCCCC
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:0.30, C:0.33, G:0.21, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:6959891 original size:15 final size:15
Alignment explanation
Indices: 6959868--6959900 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6959858 CGTAGGACTC
6959868 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
6959883 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
6959898 CTA
1 CTA
6959901 TTATACCCTC
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:0.30, C:0.33, G:0.21, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:6961825 original size:31 final size:31
Alignment explanation
Indices: 6961770--6961847 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
6961760 TCAAACAGTC
* *
6961770 GGGGACCATATTGCAAATAAACTAAATGTTG
1 GGGGACCATATTGCAAACAAACTAAATATTG
* **
6961801 GGGGACCATTTTGCAAACGGACTAAATATTG
1 GGGGACCATATTGCAAACAAACTAAATATTG
* **
6961832 AGGGACTGTATTGCAA
1 GGGGACCATATTGCAA
6961848 GTTTAAAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAAACTAAATATTG
Found at i:6972572 original size:14 final size:15
Alignment explanation
Indices: 6972550--6972582 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
6972540 AGATAAAATG
*
6972550 TATAGTATTT-TAAA
1 TATAATATTTATAAA
6972564 TATAATATTTATAAA
1 TATAATATTTATAAA
6972579 TATA
1 TATA
6972583 CTTAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATAATATTTATAAA
Found at i:6973177 original size:3 final size:3
Alignment explanation
Indices: 6973169--6973195 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6973159 ATTGAATTCA
6973169 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
6973196 GGGTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6974136 original size:19 final size:19
Alignment explanation
Indices: 6974112--6974159 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
6974102 AAAATATAAA
6974112 AAGAAAATTATATTCGACC
1 AAGAAAATTATATTCGACC
6974131 AAGAAAATTATATTCGACC
1 AAGAAAATTATATTCGACC
6974150 AAGAAAATTA
1 AAGAAAATTA
6974160 ATTAATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.25
Consensus pattern (19 bp):
AAGAAAATTATATTCGACC
Found at i:6975885 original size:5 final size:5
Alignment explanation
Indices: 6975875--6975916 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
6975865 AATTATATGG
* *
6975875 TTTAA TTTAA TTT-A TTTAA TTTTA TTTAA TCTTAA ATTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA T-TTAA TTTAA TT
6975917 CTTATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
6 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:6977878 original size:95 final size:96
Alignment explanation
Indices: 6977720--6977892 Score: 312
Period size: 95 Copynumber: 1.8 Consensus size: 96
6977710 TAAATAAAAT
* *
6977720 AAATCAATTCCTCTAAAAAAAATTTACTACCGCATCAATACTTGCAATGACTACAATAACATTCA
1 AAATCAACTCCTCTAAAAAAAATTCACTACCGCATCAATACTTGCAATGACTACAATAACATTCA
6977785 TTATGTTCGTAATTAATATAAAAACAATAAA
66 TTATGTTCGTAATTAATATAAAAACAATAAA
*
6977816 AAATCAACTCCTCT-AAAAAAATTCACTACCGCATCAATACTTGTAATGACTACAATAACATTCA
1 AAATCAACTCCTCTAAAAAAAATTCACTACCGCATCAATACTTGCAATGACTACAATAACATTCA
6977880 TTATGTTCGTAAT
66 TTATGTTCGTAAT
6977893 CACGATAAAC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 61 0.82
96 13 0.18
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.31
Consensus pattern (96 bp):
AAATCAACTCCTCTAAAAAAAATTCACTACCGCATCAATACTTGCAATGACTACAATAACATTCA
TTATGTTCGTAATTAATATAAAAACAATAAA
Found at i:6979979 original size:18 final size:18
Alignment explanation
Indices: 6979953--6979992 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6979943 ATAATTCTTT
*
6979953 ATTTTATTGCAATCCAAA
1 ATTTGATTGCAATCCAAA
**
6979971 ATTTGATTGCGGTCCAAA
1 ATTTGATTGCAATCCAAA
6979989 ATTT
1 ATTT
6979993 ATGAGAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (18 bp):
ATTTGATTGCAATCCAAA
Found at i:6981943 original size:23 final size:23
Alignment explanation
Indices: 6981915--6981963 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
6981905 GCAGACTTAT
6981915 TTATCTTTTAAAATGATGCTTTC
1 TTATCTTTTAAAATGATGCTTTC
*
6981938 TTATCTTTTAAAATGATGTTTTC
1 TTATCTTTTAAAATGATGCTTTC
6981961 TTA
1 TTA
6981964 AAAATACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (23 bp):
TTATCTTTTAAAATGATGCTTTC
Found at i:6982796 original size:5 final size:5
Alignment explanation
Indices: 6982788--6982813 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6982778 CAAATTAGAT
6982788 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
6982814 TATTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:6984005 original size:38 final size:37
Alignment explanation
Indices: 6983889--6984216 Score: 187
Period size: 37 Copynumber: 8.7 Consensus size: 37
6983879 ATATATACAT
* *
6983889 ATTTTGAAACTACGTATATAATATATAGTTTTT--AAT-
1 ATTTTGAAAATA--TATATAATATATAATTTTTAAAATC
* * * * *
6983925 AGTTTTTAAAA-CTATATAATATATAGTTTTAAAAAAGAC
1 A-TTTTGAAAATATATATAATATATAATTTT-TAAAA-TC
6983964 ATTTTAGAAAATATATATAATATATAATTTTTAAAATC
1 ATTTT-GAAAATATATATAATATATAATTTTTAAAATC
6984002 ATTTTGAAAACTTATATATATATATATATAGTTTTTGAAAA-C
1 ATTTTGAAAA--TATATATA-ATATATA-A-TTTTT-AAAATC
* * *
6984044 ATTTTTGAAAACATATAT-AT-TAT-AGTTTTAAAAAC
1 A-TTTTGAAAATATATATAATATATAATTTTTAAAATC
* * * *
6984079 ATTTTTTTGAAAACATATATATTATATAGTTTTTGAAGAT-
1 A---TTTTGAAAATATATATAATATATAATTTTT-AAAATC
** * * * *
6984119 ATTTTTGAAACCATATATATTATATAGTTTTTTAAACC
1 A-TTTTGAAAATATATATAATATATAATTTTTAAAATC
*
6984157 ATTTTGAAAACT-TATATAATA-A-ATTGTTTTAAAATC
1 ATTTTGAAAA-TATATATAATATATAAT-TTTTAAAATC
*
6984193 ATTTTG-AAATTTATATAATATATA
1 ATTTTGAAAATATATATAATATATA
6984217 GTTGAAATTT
Statistics
Matches: 237, Mismatches: 27, Indels: 55
0.74 0.08 0.17
Matches are distributed among these distances:
34 23 0.10
35 20 0.08
36 18 0.08
37 50 0.21
38 45 0.19
39 22 0.09
40 29 0.12
41 10 0.04
42 7 0.03
43 13 0.05
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.45
Consensus pattern (37 bp):
ATTTTGAAAATATATATAATATATAATTTTTAAAATC
Found at i:6984030 original size:42 final size:43
Alignment explanation
Indices: 6983974--6984067 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
6983964 ATTTTAGAAA
*
6983974 ATATATATA-ATATATAATTTTT-AAAATCA-TTTTGAAAACTT
1 ATATATATATATATATAATTTTTGAAAA-CATTTTTGAAAACAT
*
6984015 ATATATATATATATATAGTTTTTGAAAACATTTTTGAAAACAT
1 ATATATATATATATATAATTTTTGAAAACATTTTTGAAAACAT
6984058 ATATAT-TATA
1 ATATATATATA
6984068 GTTTTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
41 9 0.19
42 18 0.38
43 21 0.44
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (43 bp):
ATATATATATATATATAATTTTTGAAAACATTTTTGAAAACAT
Found at i:6984048 original size:12 final size:12
Alignment explanation
Indices: 6984033--6984057 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6984023 ATATATATAG
6984033 TTTTTGAAAACA
1 TTTTTGAAAACA
6984045 TTTTTGAAAACA
1 TTTTTGAAAACA
6984057 T
1 T
6984058 ATATATTATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:6984086 original size:37 final size:36
Alignment explanation
Indices: 6984019--6984262 Score: 161
Period size: 37 Copynumber: 6.8 Consensus size: 36
6984009 AAACTTATAT
6984019 ATATATATATATAGTTTTTGAAAACA-TTTTTGAAAAC
1 ATATATATATATAG-TTTT-AAAACATTTTTTGAAAAC
6984056 ATATATAT-TATAGTTTTAAAAACATTTTTTTGAAAAC
1 ATATATATATATAGTTTT-AAAACA-TTTTTTGAAAAC
** * *
6984093 ATATATATTATATAGTTTTTGAAGATATTTTTGAAACC
1 ATATATA-TATATAGTTTTAAAACAT-TTTTTGAAAAC
*
6984131 ATATATATTATATAGTTTTTTAAACCA--TTTTGAAAAC
1 ATATATA-TATATAG--TTTTAAAACATTTTTTGAAAAC
* * * *
6984168 TTATATAATAAATTGTTTTAAAATCA--TTTTG-AAAT
1 ATATAT-ATATATAGTTTTAAAA-CATTTTTTGAAAAC
* * ***
6984203 TTATATAATATATAG-TTGAAATTTTTTTTTG-AAAC
1 ATATAT-ATATATAGTTTTAAAACATTTTTTGAAAAC
*
6984238 --ATATA-ATATAGTTTTAAAACGTTTT
1 ATATATATATATAGTTTTAAAACATTTT
6984263 AAATTTATAT
Statistics
Matches: 169, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
31 6 0.04
32 10 0.06
33 4 0.02
34 5 0.03
35 41 0.24
36 12 0.07
37 46 0.27
38 30 0.18
39 9 0.05
40 6 0.04
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (36 bp):
ATATATATATATAGTTTTAAAACATTTTTTGAAAAC
Found at i:6984162 original size:75 final size:75
Alignment explanation
Indices: 6983885--6984219 Score: 237
Period size: 75 Copynumber: 4.4 Consensus size: 75
6983875 TTATATATAT
* * * *
6983885 ACATATTTTGAAACTACGTATATAATATATAGTTTTT-AATA-GTTTTTAAAACTATATA-ATAT
1 ACAT-TTTTGAAA--ACATATAT-ATATATAGTTTTTAAAAACATTTTGAAAAC-ATATATATAT
**
6983947 A--TAGTTTTAAAAAA
61 ATATAGTTTT-TGAAA
* * * *
6983961 GACATTTTAGAAAATATATATAATATATAATTTTTAAAATCATTTTGAAAACTTATATATATATA
1 -ACATTTTTGAAAACATATAT-ATATATAGTTTTTAAAAACATTTTGAAAAC----ATATATATA
6984026 TATATAGTTTTTGAAA
60 TATATAGTTTTTGAAA
6984042 ACATTTTTGAAAACATATATAT-TATAG-TTTTAAAAACATTTTTTTGAAAACATATATAT-TAT
1 ACATTTTTGAAAACATATATATATATAGTTTTTAAAAACA---TTTTGAAAACATATATATATAT
*
6984104 ATAGTTTTTGAAG
63 ATAGTTTTTGAAA
* * * * * *
6984117 ATATTTTTGAAACCATATATATTATATAGTTTTTTAAACCATTTTGAAAACTTATATA-ATAAAT
1 ACATTTTTGAAAACATATATA-TATATAGTTTTTAAAAACATTTTGAAAACATATATATATATAT
*
6984181 TG-TTTT-AAA
65 AGTTTTTGAAA
**
6984190 ATCA-TTTTG-AAATTTATATAATATATAGTT
1 A-CATTTTTGAAAACATATAT-ATATATAGTT
6984220 GAAATTTTTT
Statistics
Matches: 214, Mismatches: 27, Indels: 39
0.76 0.10 0.14
Matches are distributed among these distances:
72 16 0.07
73 9 0.04
74 24 0.11
75 57 0.27
76 25 0.12
77 19 0.09
78 13 0.06
79 8 0.04
80 33 0.15
81 3 0.01
82 7 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (75 bp):
ACATTTTTGAAAACATATATATATATAGTTTTTAAAAACATTTTGAAAACATATATATATATATA
GTTTTTGAAA
Found at i:6984327 original size:64 final size:65
Alignment explanation
Indices: 6984170--6984327 Score: 169
Period size: 64 Copynumber: 2.4 Consensus size: 65
6984160 TTGAAAACTT
* * * *
6984170 ATATAATAAATTGTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAAATTTTTTTTTGA
1 ATATAATAAA--GTTTTAAAA-CATTTTTAAATTTATATAATATATAGTTGAAATATATCTTTGA
6984235 AAC
63 AAC
* * * * *
6984238 ATATAATATAGTTTTAAAAC-GTTTTAAATTTATATAATATAT-TTTGAAA-ATATCTTTGAGAT
1 ATATAATAAAGTTTTAAAACATTTTTAAATTTATATAATATATAGTTGAAATATATCTTTGAAAC
*
6984300 ATATTTATAAAGTTTTAAAACATTTTTA
1 ATA-TAATAAAGTTTTAAAACATTTTTA
6984328 TCATATAGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
62 11 0.14
63 21 0.28
64 25 0.33
65 1 0.01
66 9 0.12
68 9 0.12
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (65 bp):
ATATAATAAAGTTTTAAAACATTTTTAAATTTATATAATATATAGTTGAAATATATCTTTGAAAC
Found at i:6984911 original size:36 final size:36
Alignment explanation
Indices: 6984837--6984911 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
6984827 ATTTTTTATT
*
6984837 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* * *
6984873 TTTAATTTTTTAAAGAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTAT-CAA
6984909 TTT
1 TTT
6984912 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:6985063 original size:16 final size:17
Alignment explanation
Indices: 6985042--6985082 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
6985032 AACATTCCCA
6985042 GTAATC-CTATTCCCTG
1 GTAATCTCTATTCCCTG
*
6985058 GTAATCTTTTATTCCCTG
1 GTAATC-TCTATTCCCTG
6985076 GTAATCT
1 GTAATCT
6985083 TACATTCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 1 0.05
18 15 0.68
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (17 bp):
GTAATCTCTATTCCCTG
Found at i:6985072 original size:18 final size:18
Alignment explanation
Indices: 6985049--6985083 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6985039 CCAGTAATCC
6985049 TATTCCCTGGTAATCTTT
1 TATTCCCTGGTAATCTTT
6985067 TATTCCCTGGTAATCTT
1 TATTCCCTGGTAATCTT
6985084 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (18 bp):
TATTCCCTGGTAATCTTT
Found at i:6985089 original size:18 final size:18
Alignment explanation
Indices: 6985050--6985090 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6985040 CAGTAATCCT
**
6985050 ATTCCCTGGTAATCTTTT
1 ATTCCCTGGTAATCTTAC
6985068 ATTCCCTGGTAATCTTAC
1 ATTCCCTGGTAATCTTAC
6985086 ATTCC
1 ATTCC
6985091 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.44
Consensus pattern (18 bp):
ATTCCCTGGTAATCTTAC
Found at i:6985194 original size:17 final size:17
Alignment explanation
Indices: 6985152--6985197 Score: 76
Period size: 16 Copynumber: 2.7 Consensus size: 17
6985142 GTATGGGAAA
6985152 CCAACACGGCCAGTCATG
1 CCAA-ACGGCCAGTCATG
6985170 CC-AACGGCCAGTCATG
1 CCAAACGGCCAGTCATG
6985186 CCAAACGGCCAG
1 CCAAACGGCCAG
6985198 AAGTCCGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.56
17 10 0.37
18 2 0.07
ACGTcount: A:0.28, C:0.39, G:0.24, T:0.09
Consensus pattern (17 bp):
CCAAACGGCCAGTCATG
Found at i:6986188 original size:25 final size:26
Alignment explanation
Indices: 6986138--6986198 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
6986128 TACCTCTTAC
*
6986138 TATTTCTTTATTTCATTTTTATTTAA
1 TATTTCTTTATATCATTTTTATTTAA
*
6986164 TATTT-TTTATATCTATTTTTATTAAA
1 TATTTCTTTATATC-ATTTTTATTTAA
*
6986190 AATTTCTTT
1 TATTTCTTT
6986199 CATTTGTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.23
26 20 0.67
27 3 0.10
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (26 bp):
TATTTCTTTATATCATTTTTATTTAA
Found at i:6987924 original size:26 final size:25
Alignment explanation
Indices: 6987893--6987949 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
6987883 CAGACATATG
*
6987893 TGCATTTTG-TTACTTTTCTTTACAT
1 TGCATTATGATTACTTTT-TTTACAT
* *
6987918 TCGCATTATGATTCCTTTTTTTTCAT
1 T-GCATTATGATTACTTTTTTTACAT
6987944 TGCATT
1 TGCATT
6987950 CACCTGTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.22
26 14 0.52
27 7 0.26
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.58
Consensus pattern (25 bp):
TGCATTATGATTACTTTTTTTACAT
Found at i:6990223 original size:105 final size:106
Alignment explanation
Indices: 6989888--6992009 Score: 3459
Period size: 105 Copynumber: 20.2 Consensus size: 106
6989878 AACCATGAGC
* *
6989888 ACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6989953 A-AAAC-ACTTCCCAATTTCAGAGCCAATTTCAAATTCCCA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * * *
6989992 GCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
6990057 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6990098 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6990163 ATAAAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6990203 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTTGTC
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG-TTGTC
*
6990268 AATAAAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
65 AATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
6990309 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6990374 ATAAA-TATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6990414 ACGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6990479 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * *
6990520 ACGAAGGATATTGGGCTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6990585 A-AAACAACTTCCCAATTTCAGAGCCAATTTCAAATTCCCA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * * *
6990625 GCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
6990690 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6990731 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6990796 ATAAAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6990836 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6990901 AT-AAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
6990940 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6991005 ATAAA-TATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6991045 ACGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6991110 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * *
6991151 ACGAAGGATATTGGGCTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6991216 A-AAACAACTTCCCAATTTCAGAGCCAATTTCAAATTCCCA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * * *
6991256 GCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
6991321 ACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * *
6991361 ACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCCCTGGTTGTCC
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6991426 ATAAAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
6991466 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6991531 ATAAA-TA-TTGCCCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTT-CCCAATTTCAGAGCCAATTTCAACTTCACA
*
6991571 ACGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6991636 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACG
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * *
6991677 GCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCACG-CGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6991741 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6991782 ACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
6991847 ACAAACAACTTCTC-ATTTTAGAGCCAATTTCAACTTCACA
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6991887 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCG
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * ** * *
6991952 ACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACG
66 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* *
6991993 GCGGAGGATATTGGACT
1 ACGAAGGATATTGGACT
6992010 TGGAACAATA
Statistics
Matches: 1899, Mismatches: 103, Indels: 30
0.93 0.05 0.01
Matches are distributed among these distances:
104 165 0.09
105 1090 0.57
106 642 0.34
107 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (106 bp):
ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
Found at i:6990258 original size:211 final size:211
Alignment explanation
Indices: 6989888--6992009 Score: 3465
Period size: 211 Copynumber: 10.1 Consensus size: 211
6989878 AACCATGAGC
* *
6989888 ACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * * * *
6989953 A-AAACACTTCCCAATTTCAGAGCCAATTTCAAATTCCCAGCGAATGATATTGGACTCAAGACAA
66 ATAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
* *
6990017 CGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
131 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
6990082 CAATTTCAACTTCACA
196 CAATTTCAACTTCACA
*
6990098 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6990163 ATAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
66 ATAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
* * *
6990228 CGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTTGTCAATAAAC-ATTTCCCAATTTCAGAG
131 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGG-TTGTCAACAAACAACTTCCCAATTTCAGAG
6990292 CCAATTTCAACTTCACA
195 CCAATTTCAACTTCACA
6990309 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
6990374 ATAAATATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCTGACAA
66 ATAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
*
6990439 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
131 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
6990504 CAATTTCAACTTCACA
196 CAATTTCAACTTCACA
* * *
6990520 ACGAAGGATATTGGGCTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * * * *
6990585 A-AAACAACTTCCCAATTTCAGAGCCAATTTCAAATTCCCAGCGAATGATATTGGACTCAAGACA
66 ATAAAC-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
* *
6990649 ACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
130 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAG
6990714 CCAATTTCAACTTCACA
195 CCAATTTCAACTTCACA
*
6990731 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6990796 ATAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
66 ATAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
* * *
6990861 CGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGTCAA-TAAC-ATTTCCCAATTTCAGAGC
131 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
6990924 CAATTTCAACTTCACA
196 CAATTTCAACTTCACA
6990940 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
6991005 ATAAATATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCTGACAA
66 ATAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
*
6991070 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
131 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
6991135 CAATTTCAACTTCACA
196 CAATTTCAACTTCACA
* * *
6991151 ACGAAGGATATTGGGCTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * * * *
6991216 A-AAACAACTTCCCAATTTCAGAGCCAATTTCAAATTCCCAGCGAATGATATTGGACTCAAGACA
66 ATAAAC-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
* * *
6991280 ACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAG
130 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAG
6991344 CCAATTTCAACTTCACA
195 CCAATTTCAACTTCACA
* * *
6991361 ACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCCCTGGTTGTCC
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
*
6991426 ATAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
66 ATAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
* *
6991491 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-TA-TTGCCCAATTTCAGAG
131 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTT-CCCAATTTCAGAG
6991554 CCAATTTCAACTTCACA
195 CCAATTTCAACTTCACA
*
6991571 ACGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
** * *
6991636 ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACGGCGAATGATATTGGACTCAAGACA
66 ATAAAC-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
*
6991701 ACGCAAGTTCAACTTCACG-CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
130 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAG
6991765 CCAATTTCAACTTCACA
195 CCAATTTCAACTTCACA
*
6991782 ACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
6991847 ACAAACAACTTCTC-ATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
66 ATAAAC-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
* * ** *
6991911 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCGACAAACAATTTCCCGGTTCCAGAG
130 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAG
*
6991976 CCAATTTCAACTTCACG
195 CCAATTTCAACTTCACA
* *
6991993 GCGGAGGATATTGGACT
1 ACGAAGGATATTGGACT
6992010 TGGAACAATA
Statistics
Matches: 1785, Mismatches: 112, Indels: 29
0.93 0.06 0.02
Matches are distributed among these distances:
209 202 0.11
210 461 0.26
211 1104 0.62
212 18 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (211 bp):
ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
ATAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
CAATTTCAACTTCACA
Found at i:6990463 original size:316 final size:316
Alignment explanation
Indices: 6989888--6992009 Score: 3479
Period size: 316 Copynumber: 6.7 Consensus size: 316
6989878 AACCATGAGC
* *
6989888 ACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * * * *
6989953 AAAACACTTCCCAATTTCAGAGCCAATTTCAAATTCCCAGCGAATGATATTGGACTCAAGACAAC
66 AAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
* *
6990018 GCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCC
131 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
6990083 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
196 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
6990148 GACCGCTGGTTGTCAATAAAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
261 GACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6990203 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTTGTC
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG-TTGTC
*
6990268 AATAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
65 AA-AAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
*
6990333 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-TATTTCCCAATTTCAGAG
129 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAG
* *
6990397 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAA
194 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
6990462 GGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
259 GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * *
6990520 ACGAAGGATATTGGGCTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * * * *
6990585 AAAACAACTTCCCAATTTCAGAGCCAATTTCAAATTCCCAGCGAATGATATTGGACTCAAGACAA
66 AAAAC-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
* *
6990650 CGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
130 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
6990715 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
195 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
6990780 GGACCGCTGGTTGTCAATAAAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
260 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6990836 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6990901 ATAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
66 AAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
*
6990966 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAA-TATTTCCCAATTTCAGAGCC
131 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* *
6991030 AATTTCAACTTCACAACGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGG
196 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
6991095 GACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
261 GACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * *
6991151 ACGAAGGATATTGGGCTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGCTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * * * *
6991216 AAAACAACTTCCCAATTTCAGAGCCAATTTCAAATTCCCAGCGAATGATATTGGACTCAAGACAA
66 AAAAC-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAA
* * *
6991281 CGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGC
130 CGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* *
6991345 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAG
195 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
6991410 GGACCCCTGGTTGTCCATAAAC-ATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
260 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
6991466 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6991531 ATAAATA-TTGCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCTGACA
66 A-AAACACTT-CCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
*
6991595 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAG
129 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAG
* * *
6991660 CCAATTTCAACTTCACGGCGAATGATATTGGACTCAAGACAACGCAAGTTCAACTTCACG-CGAA
194 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
6991724 GGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACA
259 GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
6991782 ACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
1 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
6991847 ACAAACAACTTCTC-ATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
66 A-AAAC-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
* * ** *
6991911 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCGACAAACAATTTCCCGGTTCCAGAG
129 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAG
* *
6991976 CCAATTTCAACTTCACGGCGGAGGATATTGGACT
194 CCAATTTCAACTTCACAGCGAAGGATATTGGACT
6992010 TGGAACAATA
Statistics
Matches: 1680, Mismatches: 113, Indels: 27
0.92 0.06 0.01
Matches are distributed among these distances:
314 103 0.06
315 467 0.28
316 816 0.49
317 292 0.17
318 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (316 bp):
ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
AAAACACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
Found at i:6992984 original size:36 final size:36
Alignment explanation
Indices: 6992872--6993169 Score: 212
Period size: 35 Copynumber: 8.3 Consensus size: 36
6992862 CTACGTATTA
6992872 ATATATAGTTTTT--AAT-AGTTTT-AAAACTATATA-
1 ATATATAGTTTTTAAAATCA-TTTTGAAAACT-TATAT
* *
6992905 ATATATAGTTTTAAAAAAGACATTTTAGAAAA--TATAT
1 ATATATAGTTTT-TAAAA-TCATTTT-GAAAACTTATAT
*
6992942 ATATATAATTTTTAAAATCATTTTGAAAACTTATATATAT
1 ATATATAGTTTTTAAAATCATTTTGAAAAC---T-TATAT
*
6992982 ATATATAGTTTTTGAAAA-CATTTTGAAAACATAT-T
1 ATATATAGTTTTT-AAAATCATTTTGAAAACTTATAT
* ** *
6993017 AT-TATAGTTTTAAAACATTTTTTTGAAAACATATAT
1 ATATATAGTTTTTAAA-ATCATTTTGAAAACTTATAT
* * *
6993053 ATTATATAGTTTTTGAAGAT-ATTTTTGAAACCATATAT
1 A-TATATAGTTTTT-AAAATCA-TTTTGAAAACTTATAT
* *
6993091 -TATATAGTTTTTTAAACCATTTTGAAAACTTATA-
1 ATATATAGTTTTTAAAATCATTTTGAAAACTTATAT
* * *
6993125 ATAAATTG-TTTTAAAATCATTTTG-AAATTTATAT
1 ATATATAGTTTTTAAAATCATTTTGAAAACTTATAT
6993159 AATATATAGTT
1 -ATATATAGTT
6993170 GAAATTTTTT
Statistics
Matches: 212, Mismatches: 26, Indels: 51
0.73 0.09 0.18
Matches are distributed among these distances:
33 23 0.11
34 29 0.14
35 49 0.23
36 29 0.14
37 16 0.08
38 27 0.13
39 6 0.03
40 29 0.14
41 4 0.02
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATATAGTTTTTAAAATCATTTTGAAAACTTATAT
Found at i:6993159 original size:108 final size:105
Alignment explanation
Indices: 6992872--6993169 Score: 243
Period size: 108 Copynumber: 2.7 Consensus size: 105
6992862 CTACGTATTA
* * *
6992872 ATATATAGTTTTT-AATA-GTTTT-AAAACTATATAATATATAGTTTTAAAAAAGACATTTTAGA
1 ATATATAGTTTTTGAAAACATTTTGAAAAC-ATATAATA-ATAGTTTT---AAA-ACATTTTTGA
* * * *
6992934 AAATATAT-ATATATAATTTTT-AAAATCA-TTTTGAAAACTTATATATAT
60 AAACATATAATATATAGTTTTTGAAGAT-ATTTTTG-AAAC---CATATAT
* *
6992982 ATATATAGTTTTTGAAAACATTTTGAAAACATATTATTATAGTTTTAAAACATTTTTTTGAAAAC
1 ATATATAGTTTTTGAAAACATTTTGAAAACATATAATAATAGTTTTAAAACA--TTTTTGAAAAC
6993047 ATATATATTATATAGTTTTTGAAGATATTTTTGAAACCATATAT
64 ATATA-A-TATATAGTTTTTGAAGATATTTTTGAAACCATATAT
* * * * *
6993091 -TATATAGTTTTTTAAACCATTTTGAAAACTTATAATAAATTGTTTTAAAATCA-TTTTGAAATT
1 ATATATAGTTTTTGAAAACATTTTGAAAACATATAAT-AATAGTTTTAAAA-CATTTTTGAAA-A
*
6993154 TATATAATATATAGTT
63 CATATAATATATAGTT
6993170 GAAATTTTTT
Statistics
Matches: 158, Mismatches: 17, Indels: 30
0.77 0.08 0.15
Matches are distributed among these distances:
106 9 0.06
107 12 0.08
108 40 0.25
109 30 0.19
110 15 0.09
111 12 0.08
112 26 0.16
113 14 0.09
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (105 bp):
ATATATAGTTTTTGAAAACATTTTGAAAACATATAATAATAGTTTTAAAACATTTTTGAAAACAT
ATAATATATAGTTTTTGAAGATATTTTTGAAACCATATAT
Found at i:6993255 original size:64 final size:64
Alignment explanation
Indices: 6993132--6993281 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 64
6993122 ATAATAAATT
* * *
6993132 GTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAAATTTTTTTTGAAACATATAATATA
1 GTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAAAATATCTTTG-AACATATAATATA
* * * *
6993197 GTTTTAAAA-CGTTTTTAAATTTATATAATATATGATTTTGAAAATATCTTTGAGATATATATTA
1 GTTTTAAAATCATTTTGAAATTTATATAATATAT-A-GTTGAAAATATCTTTGA-ACATATA--A
6993261 TATAAA
61 TAT--A
6993267 GTTTTAAAA-CATTTT
1 GTTTTAAAATCATTTT
6993282 TTATCATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
64 22 0.31
65 11 0.16
66 18 0.26
68 4 0.06
70 15 0.21
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (64 bp):
GTTTTAAAATCATTTTGAAATTTATATAATATATAGTTGAAAATATCTTTGAACATATAATATA
Found at i:6993315 original size:14 final size:14
Alignment explanation
Indices: 6993296--6993329 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6993286 CATATAGTAT
6993296 TTTATTCTTTTTTA
1 TTTATTCTTTTTTA
* *
6993310 TTTATTTTTTTTTG
1 TTTATTCTTTTTTA
6993324 TTTATT
1 TTTATT
6993330 ATTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTATTCTTTTTTA
Found at i:6993492 original size:17 final size:17
Alignment explanation
Indices: 6993472--6993504 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6993462 AACCACCGGC
6993472 CATGCCAAACGGCCAGT
1 CATGCCAAACGGCCAGT
6993489 CATGCCAAACGGCCAG
1 CATGCCAAACGGCCAG
6993505 AAGAGTCCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.24, T:0.09
Consensus pattern (17 bp):
CATGCCAAACGGCCAGT
Found at i:6994484 original size:25 final size:26
Alignment explanation
Indices: 6994455--6994513 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
6994445 TACCTCTTAC
* *
6994455 TATTTCTTATTTC-ATTTTTATTTAA
1 TATTTCTTATATCTATTTTTATTAAA
*
6994480 TATTTTTTATATCTATTTTTATTAAA
1 TATTTCTTATATCTATTTTTATTAAA
*
6994506 AATTTCTT
1 TATTTCTT
6994514 TCATTTGTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (26 bp):
TATTTCTTATATCTATTTTTATTAAA
Found at i:6998813 original size:21 final size:21
Alignment explanation
Indices: 6998696--6998833 Score: 68
Period size: 21 Copynumber: 6.7 Consensus size: 21
6998686 ACGCGAAATA
**
6998696 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
6998716 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
6998736 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* ** *
6998757 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* ***
6998778 AAATTCGCGTTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
6998799 AGAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
6998819 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
6998834 ACACATAAAT
Statistics
Matches: 85, Mismatches: 29, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.45
21 44 0.52
22 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:6998862 original size:20 final size:20
Alignment explanation
Indices: 6998801--6999029 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
6998791 GATTTTCCAG
* ** *
6998801 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
6998821 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
6998841 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
6998861 AACCGAAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
6998881 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6998901 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6998921 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6998941 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
6998961 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
6998981 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
6999001 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
6999021 AATCACAAC
1 AATCGCAAC
6999030 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 171 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:7000199 original size:33 final size:34
Alignment explanation
Indices: 7000148--7000385 Score: 229
Period size: 33 Copynumber: 6.8 Consensus size: 34
7000138 CGGAAATTAC
*
7000148 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
7000181 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
* * *
7000215 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--CG--ATGAAAATCGCAATGCGA-AAT-GAA
*
7000254 AATGCGGAA--ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACGATGAAAATCGCAATGCGAAATGAA
*
7000287 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
7000320 AATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
7000354 AATCGCAATGCGAAATGAAAATCGCATTGCGA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGA
7000386 TTCTCTCGTT
Statistics
Matches: 172, Mismatches: 14, Indels: 33
0.79 0.06 0.15
Matches are distributed among these distances:
32 6 0.03
33 73 0.42
34 48 0.28
36 3 0.02
38 5 0.03
39 32 0.19
40 5 0.03
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:7000225 original size:53 final size:52
Alignment explanation
Indices: 7000162--7000385 Score: 285
Period size: 53 Copynumber: 4.2 Consensus size: 52
7000152 GCAACGAGAG
*
7000162 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
*
7000215 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGC-GAAATGAA
*
7000268 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAA
* * * *
7000320 AATCGCAACGAGAGAATCG-CAATGCGGAA--ATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGA-GAAAATCGCAATGCGAAATGAA
*
7000373 AATCGCATTGCGA
1 AATCGCAATGCGA
7000386 TTCTCTCGTT
Statistics
Matches: 156, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
52 20 0.13
53 130 0.83
54 6 0.04
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:7000305 original size:86 final size:90
Alignment explanation
Indices: 7000148--7000379 Score: 358
Period size: 86 Copynumber: 2.7 Consensus size: 90
7000138 CGGAAATTAC
*
7000148 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG
7000207 GAAATGAAAATCGCAATGCGAAATGAA
65 G-AATGAAAATCGCAATGCGAAATGAA
7000234 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGG
*
7000297 -A-GAGAATCGCAATGCGAAATGAA
66 AATGAAAATCGCAATGCGAAATGAA
7000320 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
7000380 TTGCGATTCT
Statistics
Matches: 138, Mismatches: 2, Indels: 12
0.91 0.01 0.08
Matches are distributed among these distances:
86 106 0.77
87 16 0.12
89 2 0.01
90 1 0.01
92 13 0.09
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (90 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGG
AATGAAAATCGCAATGCGAAATGAA
Found at i:7000306 original size:14 final size:14
Alignment explanation
Indices: 7000287--7000341 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
7000277 GCGAAATGAA
7000287 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7000301 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7000320 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7000334 AATCGCAA
1 AATCGCAA
7000342 TGCGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7000419 original size:53 final size:52
Alignment explanation
Indices: 7000356--7000471 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
7000346 GAAATGAAAA
*
7000356 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
7000408 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
7000461 TCGCATTGCGA
1 TCGCATTGCGA
7000472 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:7000488 original size:52 final size:53
Alignment explanation
Indices: 7000375--7000491 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
7000365 GAAATGAAAA
7000375 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
7000428 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
7000480 TCGCATTGCGAT
1 TCGCATTGCGAT
7000492 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:7000499 original size:19 final size:19
Alignment explanation
Indices: 7000394--7000491 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
7000384 GATTCTCTCG
7000394 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
7000414 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7000433 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
7000447 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7000466 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7000485 TTGCGAT
1 TTGCGAT
7000492 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:7000619 original size:14 final size:14
Alignment explanation
Indices: 7000600--7000634 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
7000590 TCAATTACAT
7000600 AAATCAACTTTTAC
1 AAATCAACTTTTAC
*
7000614 AAATCATCTTTTAC
1 AAATCAACTTTTAC
7000628 AAATCAA
1 AAATCAA
7000635 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATCAACTTTTAC
Found at i:7002657 original size:14 final size:14
Alignment explanation
Indices: 7002638--7002694 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
7002628 GCGAAATGAA
7002638 AATCGCAACGATAG
1 AATCGCAACGATAG
*
7002652 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--AT-AG
*
7002671 AATCGCAACGAGAG
1 AATCGCAACGATAG
7002685 AATCGCAACG
1 AATCGCAACG
7002695 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.26
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (14 bp):
AATCGCAACGATAG
Found at i:7002665 original size:33 final size:33
Alignment explanation
Indices: 7002619--7002707 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
7002609 GCGAAACCAA
*
7002619 AATCGCAACGCGAAATGAAAATCGCAACGATAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
7002652 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
7002685 AATCGCAACGCGAAATGAAAATC
1 AATCGCAACGCGAAATGAAAATC
7002708 ACAATGCGAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:7002716 original size:19 final size:19
Alignment explanation
Indices: 7002544--7002707 Score: 150
Period size: 19 Copynumber: 9.1 Consensus size: 19
7002534 TAGTTTACTT
* *
7002544 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
7002564 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
7002583 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
7002602 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
7002621 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
7002640 TCGCAA--CG--AT-AGAA
1 TCGCAACGCGAAATGAAAA
*
7002654 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
7002673 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
7002687 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
7002706 TC
1 TC
7002708 ACAATGCGAT
Statistics
Matches: 120, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 4 0.03
17 4 0.03
18 3 0.03
19 75 0.62
20 12 0.10
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:7002737 original size:20 final size:20
Alignment explanation
Indices: 7002712--7002757 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
7002702 AAAATCACAA
7002712 TGCGATTTTTGGTTTCGCAT
1 TGCGATTTTTGGTTTCGCAT
*
7002732 TGCGA-TTTTGGTTTCGCGT
1 TGCGATTTTTGGTTTCGCAT
7002751 TGCGATT
1 TGCGATT
7002758 CTGTCGTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.09, C:0.15, G:0.28, T:0.48
Consensus pattern (20 bp):
TGCGATTTTTGGTTTCGCAT
Found at i:7002773 original size:33 final size:33
Alignment explanation
Indices: 7002731--7002822 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
7002721 TGGTTTCGCA
* *
7002731 TTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTAGTTTCGCGTTGCGATTCTCTCG
7002764 TTGCGATTTTCA-TTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTT-AGTTTCGCGTTGCGATTCTCTCG
* *
7002797 TTACGATTTTAAGTTTCGTGTTGCGA
1 TTGCGATTTT-AGTTTCGCGTTGCGA
7002823 AAGTAAACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
33 40 0.77
34 12 0.23
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTAGTTTCGCGTTGCGATTCTCTCG
Found at i:7002786 original size:19 final size:18
Alignment explanation
Indices: 7002724--7002790 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
7002714 CGATTTTTGG
* *
7002724 TTTCGCATTGCGATTTTGG
1 TTTCGCGTTGCGATTTT-C
7002743 TTTCGCGTTGCGA--TTC
1 TTTCGCGTTGCGATTTTC
*
7002759 TGT--CGTTGCGATTTTC
1 TTTCGCGTTGCGATTTTC
7002775 ATTTCGCGTTGCGATT
1 -TTTCGCGTTGCGATT
7002791 CTCTCGTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 8 0.21
16 5 0.13
17 4 0.10
19 22 0.56
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.46
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTTC
Found at i:7003088 original size:93 final size:93
Alignment explanation
Indices: 7002920--7003233 Score: 551
Period size: 93 Copynumber: 3.4 Consensus size: 93
7002910 TCAGGGTATT
7002920 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
* *
7002985 TGCTACTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
7003013 AGTTTAGCAGAATTAGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
7003078 TACTATTTCACAGTGTTAAAGAATACAT
66 TACTATTTCACAGTGTTAAAGAATACAC
*
7003106 AGTTTAGCAGAATTGGTAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
7003171 TACTATTTCAAAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
7003199 AGTTTAGCAGAA-TGGCA-CAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
7003234 AAGCAATCTA
Statistics
Matches: 211, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
91 17 0.08
92 4 0.02
93 190 0.90
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:7004011 original size:20 final size:20
Alignment explanation
Indices: 7003980--7004076 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
7003970 TTTTGGTTGA
7003980 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
7004000 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
7004020 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
7004039 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
7004054 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
7004074 AAT
1 AAT
7004077 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:7004032 original size:21 final size:21
Alignment explanation
Indices: 7003978--7004042 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
7003968 TCTTTTGGTT
7003978 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
7003999 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
7004019 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
7004040 GAA
1 GAA
7004043 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:7004046 original size:14 final size:14
Alignment explanation
Indices: 7004027--7004083 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
7004017 GAGAAATGAA
7004027 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7004041 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7004060 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7004074 AATCGCAACG
1 AATCGCAACG
7004084 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7004059 original size:33 final size:33
Alignment explanation
Indices: 7003978--7004100 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
7003968 TCTTTTGGTT
*
7003978 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
7004019 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7004052 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7004085 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
7004101 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:7004170 original size:21 final size:21
Alignment explanation
Indices: 7004145--7004218 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
7004135 CGTGCGATTC
7004145 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
7004166 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
7004187 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
7004208 TCTCGTTGCGA
1 TCTCGTTGCGA
7004219 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:7004340 original size:33 final size:33
Alignment explanation
Indices: 7004298--7004367 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
7004288 AATACTAACT
*
7004298 TGAAAATCGCAACGAGATAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
7004331 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
7004364 TGAA
1 TGAA
7004368 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:7004767 original size:20 final size:20
Alignment explanation
Indices: 7004742--7004913 Score: 247
Period size: 20 Copynumber: 8.6 Consensus size: 20
7004732 CTTTAAAAAT
7004742 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7004762 CGCGTTGCGATATATGGATA
1 CGCGTTGCGATTTACGGATA
*
7004782 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
7004802 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
7004822 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
7004842 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7004862 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
7004882 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
7004902 CGCGTTGCGATT
1 CGCGTTGCGATT
7004914 CTGGAAAATC
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
20 137 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7005571 original size:29 final size:29
Alignment explanation
Indices: 7005528--7005608 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
7005518 TCCCCAACAC
*
7005528 AGGTCGCCATACACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* * ***
7005557 AGGTCGCCATGCACTCTCAGCGACTTTGT
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* *
7005586 AGGTCGCCATGCACACCCGGCGA
1 AGGTCGCCATGCACTCCCAGCGA
7005609 TCAACGTTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.22, C:0.37, G:0.23, T:0.17
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCTACA
Found at i:7006025 original size:39 final size:39
Alignment explanation
Indices: 7005982--7006090 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 39
7005972 TTATTATTTT
** *
7005982 AAATTATTAGTTTGTTAGTTTA-TGGTTTAAGGTAAAACA
1 AAATT-TTAGTTAATTAGTTTAGTAGTTTAAGGTAAAACA
7006021 AAATTTTAGTTAATTAG-TTAGTTAGTTTAAGGTAAAACA
1 AAATTTTAGTTAATTAGTTTAG-TAGTTTAAGGTAAAACA
7006060 AAATTTTAGTTAATTAGTTT-GTTAGTTTAAG
1 AAATTTTAGTTAATTAGTTTAG-TAGTTTAAG
7006091 TTTTATTATT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
37 3 0.05
38 10 0.16
39 49 0.77
40 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (39 bp):
AAATTTTAGTTAATTAGTTTAGTAGTTTAAGGTAAAACA
Found at i:7006212 original size:28 final size:27
Alignment explanation
Indices: 7006173--7006225 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7006163 ATATTAAAAA
7006173 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
7006201 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
7006226 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:7006231 original size:27 final size:29
Alignment explanation
Indices: 7006172--7006236 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
7006162 TATATTAAAA
7006172 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
7006201 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
7006227 AAATAGTTAA
1 AAATAATTAA
7006237 GTTATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:7006387 original size:18 final size:18
Alignment explanation
Indices: 7006364--7006418 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
7006354 AATAATTATT
7006364 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
7006382 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
7006394 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
7006411 TAAATTAG
1 TAAATTAG
7006419 GGTAAAACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:7006562 original size:11 final size:11
Alignment explanation
Indices: 7006548--7006595 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
7006538 GAACCGGAAG
7006548 AACCGGCTGAA
1 AACCGGCTGAA
7006559 AACCGG--GAA
1 AACCGGCTGAA
*
7006568 AACCGGGGTG--
1 AACC-GGCTGAA
7006578 AACCGGCTGAA
1 AACCGGCTGAA
7006589 AACCGGC
1 AACCGGC
7006596 AAAGCCGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
9 11 0.35
10 6 0.19
11 13 0.42
12 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.33, T:0.06
Consensus pattern (11 bp):
AACCGGCTGAA
Found at i:7007500 original size:21 final size:21
Alignment explanation
Indices: 7007474--7007513 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7007464 GATAATGAGT
7007474 TTGTTAGTTTAAATTATATTA
1 TTGTTAGTTTAAATTATATTA
*
7007495 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAATTATAT
7007514 CATATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAATTATATTA
Found at i:7007708 original size:30 final size:30
Alignment explanation
Indices: 7007670--7007751 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
7007660 TTTTTAGTAG
*
7007670 TAAA-TTATAATTAAA-AATCGTTTATTAAT
1 TAAAGTTAT-ATTAAAGAATAGTTTATTAAT
* *
7007699 TTAAGTTATATTAAAGAATAGTTTATTAGT
1 TAAAGTTATATTAAAGAATAGTTTATTAAT
7007729 TAAAGTTATATTAAAGAATAGTT
1 TAAAGTTATATTAAAGAATAGTT
7007752 AAAGTTATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 9 0.19
30 38 0.81
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (30 bp):
TAAAGTTATATTAAAGAATAGTTTATTAAT
Found at i:7007725 original size:15 final size:16
Alignment explanation
Indices: 7007702--7007752 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
7007692 TATTAATTTA
7007702 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
***
7007718 AGTT-TATTAGTTAA-
1 AGTTATATTAAAGAAT
7007732 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
7007748 AGTTA
1 AGTTA
7007753 AAGTTATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:7007744 original size:11 final size:11
Alignment explanation
Indices: 7007728--7007766 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7007718 AGTTTATTAG
7007728 TTAAAGTTATA
1 TTAAAGTTATA
*
7007739 TTAAAG-AATA
1 TTAAAGTTATA
7007749 GTTAAAGTTATA
1 -TTAAAGTTATA
7007761 TTAAAG
1 TTAAAG
7007767 AATAGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (11 bp):
TTAAAGTTATA
Found at i:7007752 original size:22 final size:22
Alignment explanation
Indices: 7007725--7007773 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
7007715 AATAGTTTAT
7007725 TAGTTAAAGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
7007747 TAGTTAAAGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
7007769 TAGTT
1 TAGTT
7007774 TATTAGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (22 bp):
TAGTTAAAGTTATATTAAAGAA
Done.