Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 153 of 195
Found at i:25625283 original size:15 final size:16
Alignment explanation
Indices: 25625263--25625318 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 16
25625253 ATTGGTACTT
25625263 TTATTTTTATTTT-TA
1 TTATTTTTATTTTCTA
25625278 TTATTTATTATTTATTCTA
1 TTATTT-TTA-TT-TTCTA
25625297 TT-TTTTTATTTTCTA
1 TTATTTTTATTTTCTA
25625312 -TATTTTT
1 TTATTTTT
25625319 TTAGTATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.03
15 16 0.44
16 5 0.14
17 5 0.14
18 5 0.14
19 4 0.11
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTTTATTTTCTA
Found at i:25625284 original size:7 final size:6
Alignment explanation
Indices: 25625261--25625308 Score: 53
Period size: 6 Copynumber: 7.5 Consensus size: 6
25625251 AAATTGGTAC
25625261 TTTTAT TTTTAT TTTTAT TATTTAT TATTTAT TCTATT-T TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT T-TTTAT T-TTTAT T-T-TTAT TTTTAT TTT
25625309 CTATATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
5 2 0.05
6 18 0.47
7 16 0.42
8 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:25625298 original size:16 final size:13
Alignment explanation
Indices: 25625261--25625306 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
25625251 AAATTGGTAC
25625261 TTTTATT-TTTAT
1 TTTTATTATTTAT
25625273 TTTTATTATTTAT
1 TTTTATTATTTAT
*
25625286 TATTTATTCTATT-T
1 T-TTTATTAT-TTAT
25625300 TTTTATT
1 TTTTATT
25625307 TTCTATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.23
13 12 0.40
14 9 0.30
15 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:25625304 original size:20 final size:18
Alignment explanation
Indices: 25625261--25625308 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
25625251 AAATTGGTAC
25625261 TTTTATTTTTATTTTTAT
1 TTTTATTTTTATTTTTAT
25625279 TATTTATTATTTATTCTATT-T
1 T-TTTATT-TTTATT-T-TTAT
25625300 TTTTATTTT
1 TTTTATTTT
25625309 CTATATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 8 0.31
20 12 0.46
21 3 0.12
22 2 0.08
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTTTTATTTTTAT
Found at i:25625328 original size:19 final size:17
Alignment explanation
Indices: 25625266--25625334 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
25625256 GGTACTTTTA
25625266 TTTTTATTTT-TAT-TAT
1 TTTTTATTTTCTATAT-T
* *
25625282 TTATTATTTAT-TCTATT
1 TTTTTATTT-TCTATATT
25625299 TTTTTATTTTCTATATT
1 TTTTTATTTTCTATATT
25625316 TTTTTAGTATTTCTA-ATT
1 TTTTTA-T-TTTCTATATT
25625334 T
1 T
25625335 ATAATTTAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.20
17 23 0.52
18 6 0.14
19 6 0.14
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTCTATATT
Found at i:25625569 original size:119 final size:120
Alignment explanation
Indices: 25625445--25625907 Score: 591
Period size: 117 Copynumber: 3.9 Consensus size: 120
25625435 AATTGTGAAG
* * *
25625445 TCACAAGTGGTAATTTTATTAAAAATATTTATACAAAGAAATTTTTTAAAATATTCT-AAAAGAG
1 TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAAAAAGAG
*
25625509 TTAGAAAAATTTTA-AAATTTTCAAGATAAAAAAACATTATTAATAAAAAATAAAA
66 TTAGAAATATTTTAGAAATTTTCAAGATAAAAAAA-ATTATTAATAAAAAATAAAA
* * * * *
25625564 TCACAAGTGGTGATTTTATTTAAAATATTTACACAAAGAAATTTTTTTAAATATTCTAAAAATAT
1 TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAAAAAGAG
* * *
25625629 TTA-AAATATTATAGAATTTTTCAA-A-CAAAAAAATTATTAATAAAAAATAAAA
66 TTAGAAATATTTTAGAAATTTTCAAGATAAAAAAAATTATTAATAAAAAATAAAA
* * * *
25625681 TCACAAGTGGTGACTTTATTAAAAATACTTACACAAAGAAATTTTCTAAAATATTGT-AAAAGTG
1 TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAAAAAGAG
* * * * * *
25625745 TTAGAAATATTTTAAAAATTTTCAAG-T-ATAAATAGTATTTATAAGAAATAAAA
66 TTAGAAATATTTTAGAAATTTTCAAGATAAAAAAAATTATTAATAAAAAATAAAA
* * * * *
25625798 TCACATGTAGTGATTTTATTAAAAATATTTACACAAAAAAATTTTCTAAAGTATTCTAAAAAGTG
1 TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAAAAAGAG
* *
25625863 TTAGAAATATTTTAGAATTTTTCATAGACAAAAAAAATTATTAAT
66 TTAGAAATATTTTAGAAATTTTCA-AGATAAAAAAAATTATTAAT
25625908 GGGATAATGA
Statistics
Matches: 294, Mismatches: 41, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
116 7 0.02
117 160 0.54
118 35 0.12
119 64 0.22
120 17 0.06
121 11 0.04
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (120 bp):
TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAAAAAGAG
TTAGAAATATTTTAGAAATTTTCAAGATAAAAAAAATTATTAATAAAAAATAAAA
Found at i:25625706 original size:117 final size:118
Alignment explanation
Indices: 25625445--25625999 Score: 586
Period size: 117 Copynumber: 4.7 Consensus size: 118
25625435 AATTGTGAAG
* *
25625445 TCACAAGTGGTAATTTTATTAAAAATATTTATACAAAGAAATTTTTTAAAATATTCTAAAAGA-G
1 TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTTTAAAATATTCTAAAA-ATG
* *
25625509 TTAGAAAAATTTTA-AAATTTTCAAGATAAAAAAACATTATTAATAAAAAATAAAA
65 TTAGAAATATTTTAGAAATTTTCAAGA-CAAAAAA-ATTATTAATAAAAAATAAAA
* * *
25625564 TCACAAGTGGTGATTTTATTTAAAATATTTACACAAAGAAATTTTTTTAAATATTCTAAAAATAT
1 TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTTTAAAATATTCTAAAAAT-G
* *
25625629 TTA-AAATATTATAGAATTTTTCAA-ACAAAAAAATTATTAATAAAAAATAAAA
65 TTAGAAATATTTTAGAAATTTTCAAGACAAAAAAATTATTAATAAAAAATAAAA
* * * * *
25625681 TCACAAGTGGTGACTTTATTAAAAATACTTACACAAAGAAATTTTCTAAAATATTGTAAAAGTGT
1 TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTTTAAAATATTCTAAAAATGT
* * * * * * *
25625746 TAGAAATATTTTAAAAATTTTCAAG-TATAAATAGTATTTATAAGAAATAAAA
66 TAGAAATATTTTAGAAATTTTCAAGACAAAAAAATTATTAATAAAAAATAAAA
* * * * *
25625798 TCACATGTAGTGATTTTATTAAAAATATTTACACAAAAAAATTTTCTAAAGTATTCTAAAAAGTG
1 TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTTTAAAATATTCTAAAAA-TG
* ** *
25625863 TTAGAAATATTTTAGAATTTTTCATAGACAAAAAAAATTATTAATGGGATAATGATAAAG
65 TTAGAAATATTTTAGAAATTTTCA-AGAC-AAAAAAATTATTAAT---A-AAAAATAAAA
* ** * * *
25625923 TCACAAATGGTGATTTTA-TCGAAAT-TCTTAAAC-AAGAGATTTTTCTCAAAATAGTCTAAAAA
1 TCACAAGTGGTGATTTTATTAAAAATAT-TTACACAAAGAAATTTTT-T-AAAATATTCTAAAAA
* *
25625985 TATTGGAAATATTTT
63 TGTTAGAAATATTTT
25626000 GGGAATATAA
Statistics
Matches: 362, Mismatches: 58, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
116 3 0.01
117 169 0.47
118 31 0.09
119 68 0.19
120 12 0.03
121 11 0.03
123 9 0.02
124 25 0.07
125 34 0.09
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (118 bp):
TCACAAGTGGTGATTTTATTAAAAATATTTACACAAAGAAATTTTTTAAAATATTCTAAAAATGT
TAGAAATATTTTAGAAATTTTCAAGACAAAAAAATTATTAATAAAAAATAAAA
Found at i:25626952 original size:16 final size:16
Alignment explanation
Indices: 25626928--25626961 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25626918 TAATTTTTAT
*
25626928 TTATCATATATGAAAA
1 TTATAATATATGAAAA
*
25626944 TTATAATATCTGAAAA
1 TTATAATATATGAAAA
25626960 TT
1 TT
25626962 TTTAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
TTATAATATATGAAAA
Found at i:25627671 original size:27 final size:26
Alignment explanation
Indices: 25627622--25627678 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
25627612 TGTTTGATGT
* *
25627622 ATAAAATTATTATAAGATAAGATAAA
1 ATAAAATTATAATAAAATAAGATAAA
* *
25627648 ATAAAATTATAAATAAAATTAGATTAA
1 ATAAAATTAT-AATAAAATAAGATAAA
25627675 ATAA
1 ATAA
25627679 TATCATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (26 bp):
ATAAAATTATAATAAAATAAGATAAA
Found at i:25631467 original size:109 final size:109
Alignment explanation
Indices: 25631276--25631493 Score: 400
Period size: 109 Copynumber: 2.0 Consensus size: 109
25631266 TTTTACTATC
25631276 AAGAAATATCTCTCAATGGCTATAGCCTCACAAGAGTAGACGGTCTTCTTGATGAGTGAATCACC
1 AAGAAATATCTCTCAATGGCTATAGCCTCACAAGAGTAGACGGTCTTCTTGATGAGTGAATCACC
*
25631341 TTCATCCTATAATAAGATGGCATCAAATGCAAGAGGGAATCCCA
66 TTCATCCTATAATAAGATGGCATCAAATACAAGAGGGAATCCCA
* * *
25631385 AAGAAATATCTCTCAATGGCTATAGCCTCACAAGCGTAGACGGTCTTCTTGGTGAGTGAATCATC
1 AAGAAATATCTCTCAATGGCTATAGCCTCACAAGAGTAGACGGTCTTCTTGATGAGTGAATCACC
25631450 TTCATCCTATAATAAGATGGCATCAAATACAAGAGGGAATCCCA
66 TTCATCCTATAATAAGATGGCATCAAATACAAGAGGGAATCCCA
25631494 CTGTGAGGGA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (109 bp):
AAGAAATATCTCTCAATGGCTATAGCCTCACAAGAGTAGACGGTCTTCTTGATGAGTGAATCACC
TTCATCCTATAATAAGATGGCATCAAATACAAGAGGGAATCCCA
Found at i:25632503 original size:27 final size:29
Alignment explanation
Indices: 25632473--25632532 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
25632463 TAAAAAACTT
25632473 AAAATAGA-AAAATAAAAT-AAAAGT-TAA
1 AAAATA-ATAAAATAAAATCAAAAGTGTAA
*
25632500 AAAATAATAAAATAAAATCAAAATTGTAA
1 AAAATAATAAAATAAAATCAAAAGTGTAA
25632529 AAAA
1 AAAA
25632533 GTCAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 1 0.03
27 16 0.55
28 5 0.17
29 7 0.24
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (29 bp):
AAAATAATAAAATAAAATCAAAAGTGTAA
Found at i:25632726 original size:17 final size:17
Alignment explanation
Indices: 25632704--25632737 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25632694 AGAAATAATG
25632704 GGATTTGATTTCAAATA
1 GGATTTGATTTCAAATA
25632721 GGATTTGATTTCAAATA
1 GGATTTGATTTCAAATA
25632738 AGCTCTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
GGATTTGATTTCAAATA
Found at i:25633274 original size:14 final size:14
Alignment explanation
Indices: 25633255--25633288 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25633245 AACGAAAAGA
25633255 ACTTAAATCAAAAT
1 ACTTAAATCAAAAT
*
25633269 ACTTAAATTAAAAT
1 ACTTAAATCAAAAT
*
25633283 ATTTAA
1 ACTTAA
25633289 TAGAATGACA
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:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (14 bp):
ACTTAAATCAAAAT
Found at i:25634480 original size:159 final size:160
Alignment explanation
Indices: 25634223--25634611 Score: 401
Period size: 160 Copynumber: 2.4 Consensus size: 160
25634213 GTTTGTTTAG
* ** ** * * **
25634223 GACTTTTTATGTCGTCAAAAGGCAAAAATACAAATTTGCAATTATTGTTATATTTTAACAGCTTA
1 GACTTTTTATCTCGTCAAAAGATAAAAATGTAAATTTACAATTATTGTTCTATTTTAACAATTTA
* * * * * * * * *
25634288 AATAGCTTAAATATATTATATTAAATTTGTTTGAAT-ATTGAACTTGGTCTTCGT-GCTTGATAT
66 GATAGCTCAAATACATGATATTAAACTTATTTGAATGATTGAACTTGAT-TGC-TAACTTGATAT
* * * *
25634351 GCATAAATAAGTTGTAATTTATGTCTGTTTAA
129 GCATAAATAAGTTGCAATTTATATCAGTTGAA
* * ** *
25634383 GACTTTTTATCT-GT-TAAAGAATAAAAATGTAATTTTGTAGTTATAT-TTCTATTTTAACAATT
1 GACTTTTTATCTCGTCAAAAG-ATAAAAATGTAAATTTACAATTAT-TGTTCTATTTTAACAATT
* *
25634445 TAGATAGCTCCAATACATGATATTAAACTTATTTGAATGTTTGAACTTGATTGCTACACTTGATA
64 TAGATAGCTCAAATACATGATATTAAACTTATTTGAATGATTGAACTTGATTGCTA-ACTTGATA
* *
25634510 TGCATGAATAAGTTGCAATTTATATCAGTTGAG
128 TGCATAAATAAGTTGCAATTTATATCAGTTGAA
* *
25634543 GACTTTTTGTGTCGTCAAAAGATAAAAATGTAAATTTACAATTATTGTTCTATTTTAACAATTTA
1 GACTTTTTATCTCGTCAAAAGATAAAAATGTAAATTTACAATTATTGTTCTATTTTAACAATTTA
25634608 GATA
66 GATA
25634612 ACTTTAACAA
Statistics
Matches: 185, Mismatches: 36, Indels: 15
0.78 0.15 0.06
Matches are distributed among these distances:
158 5 0.03
159 65 0.35
160 67 0.36
161 44 0.24
162 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (160 bp):
GACTTTTTATCTCGTCAAAAGATAAAAATGTAAATTTACAATTATTGTTCTATTTTAACAATTTA
GATAGCTCAAATACATGATATTAAACTTATTTGAATGATTGAACTTGATTGCTAACTTGATATGC
ATAAATAAGTTGCAATTTATATCAGTTGAA
Found at i:25639648 original size:45 final size:46
Alignment explanation
Indices: 25639565--25639667 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 46
25639555 GTTGTGATAA
* * *
25639565 TGGTGAGCAGAAAAGAGAAATTAGGTGAAGAAATGGGTTTAAGAAG
1 TGGTGAGCAGAAAAGAAAAATTAAGAGAAGAAATGGGTTTAAGAAG
*
25639611 TGGTGAGCA-AAAGGAAAAATTAAGAGAA-AAAGTGGGTTTAAGAAG
1 TGGTGAGCAGAAAAGAAAAATTAAGAGAAGAAA-TGGGTTTAAGAAG
25639656 TGGTGAGCAGAA
1 TGGTGAGCAGAA
25639668 TGGAGAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 3 0.06
45 37 0.73
46 11 0.22
ACGTcount: A:0.45, C:0.03, G:0.34, T:0.18
Consensus pattern (46 bp):
TGGTGAGCAGAAAAGAAAAATTAAGAGAAGAAATGGGTTTAAGAAG
Found at i:25639689 original size:45 final size:45
Alignment explanation
Indices: 25639565--25639689 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
25639555 GTTGTGATAA
* * *
25639565 TGGTGAGCAGAAAAGAGAAATTAGGTGAAGAAATGGGTTTAAGAAG
1 TGGTGAGCAGAAAGGAGAAAATAGGT-AAGAAGTGGGTTTAAGAAG
*
25639611 TGGTGAGCA-AAAGGA-AAAATTAAGAG-AAAAAGTGGGTTTAAGAAG
1 TGGTGAGCAGAAAGGAGAAAA-T-AG-GTAAGAAGTGGGTTTAAGAAG
*
25639656 TGGTGAGCAGAATGGAGAAAAT-GGTAATGAAGTG
1 TGGTGAGCAGAAAGGAGAAAATAGGTAA-GAAGTG
25639690 TTTTTAGATG
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
43 1 0.02
44 6 0.09
45 37 0.56
46 17 0.26
47 5 0.08
ACGTcount: A:0.44, C:0.02, G:0.34, T:0.19
Consensus pattern (45 bp):
TGGTGAGCAGAAAGGAGAAAATAGGTAAGAAGTGGGTTTAAGAAG
Found at i:25639888 original size:3 final size:3
Alignment explanation
Indices: 25639880--25639952 Score: 53
Period size: 3 Copynumber: 24.3 Consensus size: 3
25639870 GATTTCCATA
* *
25639880 ATG ATG ATG CTG ATGG AT- ATG ATA ATG ATG ATG ATG AT- ATTG ATGG
1 ATG ATG ATG ATG AT-G ATG ATG ATG ATG ATG ATG ATG ATG A-TG AT-G
* * *
25639926 A-G ATG ATA ATA ATG ATG ATG GTG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
25639953 AAATGATGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
2 5 0.09
3 45 0.80
4 6 0.11
ACGTcount: A:0.36, C:0.01, G:0.30, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:25639916 original size:30 final size:30
Alignment explanation
Indices: 25639880--25639945 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
25639870 GATTTCCATA
* * *
25639880 ATGATGATGCTGATGGATATGATAATGATG
1 ATGATGATACTGATGGAGATGATAATAATG
*
25639910 ATGATGATATTGATGGAGATGATAATAATG
1 ATGATGATACTGATGGAGATGATAATAATG
25639940 ATGATG
1 ATGATG
25639946 GTGATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (30 bp):
ATGATGATACTGATGGAGATGATAATAATG
Found at i:25639945 original size:15 final size:15
Alignment explanation
Indices: 25639880--25639945 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
25639870 GATTTCCATA
**
25639880 ATGATGATGCTGATGG
1 ATGATGATAATGAT-G
25639896 AT-ATGATAATGATG
1 ATGATGATAATGATG
*
25639910 ATGATGATATTGATGG
1 ATGATGATAATGAT-G
*
25639926 A-GATGATAATAATG
1 ATGATGATAATGATG
25639940 ATGATG
1 ATGATG
25639946 GTGATGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
14 5 0.12
15 33 0.79
16 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (15 bp):
ATGATGATAATGATG
Found at i:25645986 original size:18 final size:18
Alignment explanation
Indices: 25645963--25645997 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25645953 ATTTGATTTG
*
25645963 AGAAAAAGAAAATAAATT
1 AGAAAAAGAAAAAAAATT
*
25645981 AGAAAAATAAAAAAAAT
1 AGAAAAAGAAAAAAAAT
25645998 CTTACTCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (18 bp):
AGAAAAAGAAAAAAAATT
Found at i:25654136 original size:3 final size:3
Alignment explanation
Indices: 25654128--25654160 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25654118 AAATTGCAAT
25654128 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25654161 CAGTTTAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25655539 original size:3 final size:3
Alignment explanation
Indices: 25655533--25655619 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
25655523 GCATCAACAA
* * * * *
25655533 CAG CAG CAG CAA CAG CAG CAG CAG CAG CAA CAG CAA CAA CAA CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * *
25655581 CAG CAG CAG CAA CAG CAA CAA CAA CAG CAG CAC CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
25655620 TTACTTCACA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.44, C:0.34, G:0.22, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:25655564 original size:30 final size:30
Alignment explanation
Indices: 25655530--25655619 Score: 153
Period size: 30 Copynumber: 3.0 Consensus size: 30
25655520 TTTGCATCAA
* *
25655530 CAACAGCAGCAGCAACAGCAGCAGCAGCAG
1 CAACAGCAACAACAACAGCAGCAGCAGCAG
25655560 CAACAGCAACAACAACAGCAGCAGCAGCAG
1 CAACAGCAACAACAACAGCAGCAGCAGCAG
*
25655590 CAACAGCAACAACAACAGCAGCACCAGCAG
1 CAACAGCAACAACAACAGCAGCAGCAGCAG
25655620 TTACTTCACA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.44, C:0.34, G:0.21, T:0.00
Consensus pattern (30 bp):
CAACAGCAACAACAACAGCAGCAGCAGCAG
Found at i:25655617 original size:6 final size:6
Alignment explanation
Indices: 25655530--25655609 Score: 97
Period size: 6 Copynumber: 13.3 Consensus size: 6
25655520 TTTGCATCAA
* * * *
25655530 CAACAG CAGCAG CAACAG CAGCAG CAGCAG CAACAG CAACAA CAACAG
1 CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG
* * *
25655578 CAGCAG CAGCAG CAACAG CAACAA CAACAG CA
1 CAACAG CAACAG CAACAG CAACAG CAACAG CA
25655610 GCACCAGCAG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.46, C:0.34, G:0.20, T:0.00
Consensus pattern (6 bp):
CAACAG
Found at i:25670366 original size:13 final size:13
Alignment explanation
Indices: 25670348--25670375 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25670338 ATAAATTCAT
25670348 AATAATCAAATAC
1 AATAATCAAATAC
25670361 AATAATCAAATAC
1 AATAATCAAATAC
25670374 AA
1 AA
25670376 ACTTTACTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAATCAAATAC
Found at i:25670762 original size:11 final size:12
Alignment explanation
Indices: 25670724--25670765 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 12
25670714 AATGAAAAAT
25670724 TAAAAAACAACA
1 TAAAAAACAACA
*
25670736 CAAAAAATCAACA
1 TAAAAAA-CAACA
25670749 TAAAAAACAA-A
1 TAAAAAACAACA
25670760 TAAAAA
1 TAAAAA
25670766 TAGGAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 7 0.26
12 9 0.33
13 11 0.41
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.10
Consensus pattern (12 bp):
TAAAAAACAACA
Found at i:25671636 original size:44 final size:44
Alignment explanation
Indices: 25671550--25671668 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
25671540 TTTTTTAAAC
* * *
25671550 AAAAACCCAACAACTTTTAAAAAATT-TAAAAGGCTCATCTCATA
1 AAAAACTCAACAA-TTTTGAAAAATTATAAAAGGCTCACCTCATA
*
25671594 AAAAACTCAACAATTTTGAAAAATTATAAAAGGCTTC-CCTCATT
1 AAAAACTCAACAATTTTGAAAAATTATAAAAGGC-TCACCTCATA
* * * *
25671638 AGAAGCTCAATAACTTTGAAAAATTATAAAA
1 AAAAACTCAACAATTTTGAAAAATTATAAAA
25671669 TGTTCCTCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
43 11 0.17
44 52 0.80
45 2 0.03
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (44 bp):
AAAAACTCAACAATTTTGAAAAATTATAAAAGGCTCACCTCATA
Found at i:25671731 original size:43 final size:43
Alignment explanation
Indices: 25671558--25671771 Score: 146
Period size: 43 Copynumber: 4.9 Consensus size: 43
25671548 ACAAAAACCC
* * * * ** *
25671558 AACAACTTTTAAAAAATTTAAAAGGCTCATCTCATAAAAAACTC
1 AACAAC-TTTGAAAAATATAAAAAGCTCATCTCATCAAATGCTT
* * * * *
25671602 AACAATTTTGAAAAATTATAAAAGGCTTC-CCTCATTAGAA-GCTC
1 AACAACTTTGAAAAA-TATAAAAAGC-TCATCTCATCA-AATGCTT
* * * * * * *
25671646 AATAACTTTGAAAAATTATAAAATGTTCCTCTAACCAGATGCTT
1 AACAACTTTGAAAAA-TATAAAAAGCTCATCTCATCAAATGCTT
25671690 -ACAACTTTGAAAAATAATAAAAAGCTCATCTCATCAAATGCTT
1 AACAACTTTGAAAAAT-ATAAAAAGCTCATCTCATCAAATGCTT
** * *
25671733 AACAACTTCAAAAAATATAAAAGGCTCTTCTCATCAAAT
1 AACAACTTTGAAAAATATAAAAAGCTCATCTCATCAAAT
25671772 ACTATGAAAC
Statistics
Matches: 136, Mismatches: 27, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 66 0.49
44 65 0.48
45 4 0.03
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (43 bp):
AACAACTTTGAAAAATATAAAAAGCTCATCTCATCAAATGCTT
Found at i:25671783 original size:43 final size:42
Alignment explanation
Indices: 25671690--25671800 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
25671680 CCAGATGCTT
* * *
25671690 ACAACTTTGAAAAATAATAAAAAGCTCATCTCATCAAATGCTTA
1 ACAAC-TTCAAAAAT-ATAAAAGGCTCATCTCATCAAATACTTA
* *
25671734 ACAACTTCAAAAAATATAAAAGGCTCTTCTCATCAAATACTATG
1 ACAACTTC-AAAAATATAAAAGGCTCATCTCATCAAATACT-TA
*
25671778 A-AACTTCAAAAATTTAAAAGGCT
1 ACAACTTCAAAAATATAAAAGGCT
25671801 ACTCTAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
42 15 0.25
43 31 0.53
44 13 0.22
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (42 bp):
ACAACTTCAAAAATATAAAAGGCTCATCTCATCAAATACTTA
Found at i:25671790 original size:42 final size:43
Alignment explanation
Indices: 25671558--25671800 Score: 127
Period size: 44 Copynumber: 5.6 Consensus size: 43
25671548 ACAAAAACCC
* * * * *
25671558 AACAACTTTTAAAAAATTTAAAAGGCTCATCTCATAAAAAACTC
1 AACAAC-TTCAAAAAATATAAAAGGCTCATCTCATCAAATACTT
* * * * * * *
25671602 AACAATTTTGAAAAATTATAAAAGGCTTC-CCTCATTAGAA-GCTC
1 AACAA-CTTCAAAAAATATAAAAGGC-TCATCTCATCA-AATACTT
* * * * * * * * * *
25671646 AATAACTTTGAAAAATTATAAAATGTTCCTCTAACCAGATGCTT
1 AACAAC-TTCAAAAAATATAAAAGGCTCATCTCATCAAATACTT
** * *
25671690 -ACAACTTTGAAAAATAATAAAAAGCTCATCTCATCAAATGCTT
1 AACAACTTCAAAAAAT-ATAAAAGGCTCATCTCATCAAATACTT
*
25671733 AACAACTTCAAAAAATATAAAAGGCTCTTCTCATCAAATACTAT
1 AACAACTTCAAAAAATATAAAAGGCTCATCTCATCAAATACT-T
* *
25671777 GA-AACTTC-AAAAATTTAAAAGGCT
1 AACAACTTCAAAAAATATAAAAGGCT
25671801 ACTCTAATAA
Statistics
Matches: 156, Mismatches: 34, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
42 22 0.14
43 57 0.37
44 73 0.47
45 4 0.03
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.29
Consensus pattern (43 bp):
AACAACTTCAAAAAATATAAAAGGCTCATCTCATCAAATACTT
Found at i:25672626 original size:25 final size:24
Alignment explanation
Indices: 25672598--25672644 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25672588 TTAATTATCC
25672598 AATGATGAAATTTATAGAAAATTTA
1 AATGAT-AAATTTATAGAAAATTTA
* * *
25672623 AATGGTAAATTTTTATAAAATT
1 AATGATAAATTTATAGAAAATT
25672645 CTTAGGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (24 bp):
AATGATAAATTTATAGAAAATTTA
Found at i:25672766 original size:15 final size:14
Alignment explanation
Indices: 25672734--25672782 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
25672724 TTATTTTCAA
* *
25672734 AAAAAAAAAAGGAG
1 AAAAAAAAAAGAAT
25672748 AAAAAGAAAAAGAAT
1 AAAAA-AAAAAGAAT
*
25672763 AAAAAAATAAAAAAT
1 AAAAAAA-AAAGAAT
25672778 AAAAA
1 AAAAA
25672783 TTTTGGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 7 0.23
15 23 0.77
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAGAAT
Found at i:25677474 original size:24 final size:24
Alignment explanation
Indices: 25677446--25677493 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
25677436 AAAAGGTTTC
* *
25677446 AAAGAGAGAAAGAAAAGCAAAATG
1 AAAGAAAGAAAGAAAAGAAAAATG
*
25677470 AAAGAAAGAGAGAAAAGAAAAATG
1 AAAGAAAGAAAGAAAAGAAAAATG
25677494 CCACAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (24 bp):
AAAGAAAGAAAGAAAAGAAAAATG
Found at i:25677870 original size:10 final size:9
Alignment explanation
Indices: 25677855--25677902 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
25677845 TGAAAGAATG
*
25677855 AAAAAAGGA
1 AAAAAAAGA
25677864 AAAAAAAGA
1 AAAAAAAGA
*
25677873 AAAAAATAAA
1 AAAAAA-AGA
25677883 AAATAAAAGA
1 AAA-AAAAGA
25677893 ATAAAAAAGA
1 A-AAAAAAGA
25677903 TGAAAATGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 14 0.42
10 14 0.42
11 5 0.15
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.06
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:25677883 original size:15 final size:15
Alignment explanation
Indices: 25677865--25677902 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25677855 AAAAAAGGAA
25677865 AAAAAAGAAAAAAAT
1 AAAAAAGAAAAAAAT
* *
25677880 AAAAAATAAAAGAAT
1 AAAAAAGAAAAAAAT
25677895 AAAAAAGA
1 AAAAAAGA
25677903 TGAAAATGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAGAAAAAAAT
Found at i:25677909 original size:30 final size:30
Alignment explanation
Indices: 25677855--25677923 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
25677845 TGAAAGAATG
*
25677855 AAAAAAGGAAAAAAAAGAAAAAAAT-A-AA
1 AAAAAAAGAAAAAAAAGAAAAAAATGAGAA
**
25677883 AAATAAAAGAATAAAAAAGATGAAAATGAGAA
1 AAA-AAAAGAA-AAAAAAGAAAAAAATGAGAA
25677915 AAAAAAAGA
1 AAAAAAAGA
25677924 CTCAGATTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 3 0.09
29 6 0.18
30 13 0.38
31 7 0.21
32 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (30 bp):
AAAAAAAGAAAAAAAAGAAAAAAATGAGAA
Found at i:25678775 original size:79 final size:79
Alignment explanation
Indices: 25678625--25678810 Score: 212
Period size: 79 Copynumber: 2.4 Consensus size: 79
25678615 TTCATTCTTG
* * ** *
25678625 AATGGTTAGTGCTGAGAAGCCTATGAATGGTGATCAAGTGATGAACACAAAGTGGATTAATTGAC
1 AATGGCTAGTGCTAAGAAGCCTATGAATGGTGATCAAGTGATGAACACAAAGTGGACCAAATGAC
25678690 AAAATTTATTCCAA
66 AAAATTTATTCCAA
* * * * *
25678704 AATGGCTAGTGCTAAGAAGCCTGTGAATGGTGATTAAGTGATGAACATAATGTGGACCAAATGAT
1 AATGGCTAGTGCTAAGAAGCCTATGAATGGTGATCAAGTGATGAACACAAAGTGGACCAAATGAC
* ***
25678769 AGAATTTATTCTTG
66 AAAATTTATTCCAA
* *
25678783 AATGGCTAGTGTTGAA-AGGCCTATGAAT
1 AATGGCTAGTGCT-AAGAAGCCTATGAAT
25678811 TACGGTTAGA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 87 0.98
80 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (79 bp):
AATGGCTAGTGCTAAGAAGCCTATGAATGGTGATCAAGTGATGAACACAAAGTGGACCAAATGAC
AAAATTTATTCCAA
Found at i:25679225 original size:21 final size:21
Alignment explanation
Indices: 25679201--25679327 Score: 155
Period size: 21 Copynumber: 5.7 Consensus size: 21
25679191 CTGAATTTTC
25679201 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
25679222 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
*
25679243 AAATGAGAATCTTTGAGACATTTT
1 AAATGAGAATCTTTGAG---TCTT
*
25679267 CAAATGAGAATCTTTGAGACATTTT
1 -AAATGAGAATCTTTGAG---TCTT
*
25679292 CAAATGAAAATCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
25679314 AAATGAGAATCTTT
1 AAATGAGAATCTTT
25679328 AAAACATTTT
Statistics
Matches: 98, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
21 51 0.52
22 3 0.03
24 3 0.03
25 41 0.42
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:25679277 original size:25 final size:25
Alignment explanation
Indices: 25679195--25679380 Score: 225
Period size: 25 Copynumber: 7.9 Consensus size: 25
25679185 GAAATCCTGA
25679195 ATTTTCAAATGAGAATCTTTGAG--
1 ATTTTCAAATGAGAATCTTTGAGAC
*
25679218 -TCTT-AAATGAGAATCTTTGAG--
1 ATTTTCAAATGAGAATCTTTGAGAC
*
25679239 -TCTT-AAATGAGAATCTTTGAGAC
1 ATTTTCAAATGAGAATCTTTGAGAC
25679262 ATTTTCAAATGAGAATCTTTGAGAC
1 ATTTTCAAATGAGAATCTTTGAGAC
*
25679287 ATTTTCAAATGAAAATCTTTGAG--
1 ATTTTCAAATGAGAATCTTTGAGAC
* * *
25679310 -TCTT-AAATGAGAATCTTTAAAAC
1 ATTTTCAAATGAGAATCTTTGAGAC
*
25679333 ATTTTCAAATGAGAATCTTTAAGAC
1 ATTTTCAAATGAGAATCTTTGAGAC
25679358 ATTTTCAAATGAGAATCTTTGAG
1 ATTTTCAAATGAGAATCTTTGAG
25679381 TTTTCAATTT
Statistics
Matches: 145, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
21 52 0.36
22 6 0.04
24 6 0.04
25 81 0.56
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (25 bp):
ATTTTCAAATGAGAATCTTTGAGAC
Found at i:25679284 original size:46 final size:46
Alignment explanation
Indices: 25679198--25679671 Score: 245
Period size: 46 Copynumber: 10.3 Consensus size: 46
25679188 ATCCTGAATT
*
25679198 TTCAAATGAGAATCTTTGAG--TCTT-AAATGAGAATCTTTGAGTC
1 TTCAAATGAGAATCTTTGAGAATTTTCAAATGAGAATCTTTGAGTC
*
25679241 TT-AAATGAGAATCTTTGAGACATTTTCAAATGAGAATCTTTGAGACATT
1 TTCAAATGAGAATCTTTGAGA-ATTTTCAAATGAGAATCTTTGAG---TC
* * * * *
25679290 TTCAAATGAAAATCTTTGAG--TCTT-AAATGAGAATCTTTAAAACATT
1 TTCAAATGAGAATCTTTGAGAATTTTCAAATGAGAATCTTT--GA-GTC
* *
25679336 TTCAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTT
1 TTCAAATGAGAATCTTTGAGA-ATTTTCAAATGAGAATCTTTGAGTC
* *
25679383 TTC-AAT-----T-TTTGAG--TCTTCAAATGAGAATCTTTGAGCC
1 TTCAAATGAGAATCTTTGAGAATTTTCAAATGAGAATCTTTGAGTC
* * * * *
25679420 TT-AAATGAGAAT-TTTTA-AGTCTT-AAATGAGAATCTTTAAGACATT
1 TTCAAATGAGAATCTTTGAGAATTTTCAAATGAGAATCTTT--GA-GTC
*
25679465 TTCAAATGAGAATATTTGAG---TTTCAAATGAGAATCTTTGAGTTTTCAATC
1 TTCAAATGAGAATCTTTGAGAATTTTCAAATGAGAATCTTTGAG-------TC
* * *
25679515 TTTGAGTCTTAAATGATAATCTTTGAGTCATTTTCAAATGAGAATCTTTGAATC
1 --T---TC--AAATGAGAATCTTTGAG-AATTTTCAAATGAGAATCTTTGAGTC
* * * *
25679569 TTCAAATGAGAATCTTT-A-AGTCTTCAAATGAAAATCTTTAAGAAATC
1 TTCAAATGAGAATCTTTGAGAATTTTCAAATGAGAATCTTT--G-AGTC
25679616 TTCAAATGA-AATCTTTGAG---TTTCAAATGAGAAAT-TTTGAGT-
1 TTCAAATGAGAATCTTTGAGAATTTTCAAATGAG-AATCTTTGAGTC
25679657 TTCAAATGAGAATCT
1 TTCAAATGAGAATCT
25679672 ATAAGGTGTG
Statistics
Matches: 342, Mismatches: 34, Indels: 111
0.70 0.07 0.23
Matches are distributed among these distances:
37 26 0.08
40 5 0.01
41 10 0.03
42 43 0.13
43 7 0.02
44 21 0.06
45 19 0.06
46 90 0.26
47 39 0.11
48 2 0.01
49 8 0.02
50 31 0.09
52 2 0.01
54 2 0.01
55 2 0.01
57 15 0.04
61 20 0.06
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (46 bp):
TTCAAATGAGAATCTTTGAGAATTTTCAAATGAGAATCTTTGAGTC
Found at i:25679415 original size:22 final size:22
Alignment explanation
Indices: 25679390--25679671 Score: 173
Period size: 21 Copynumber: 13.0 Consensus size: 22
25679380 GTTTTCAATT
25679390 TTTGAGTCTTCAAATGAGAATC
1 TTTGAGTCTTCAAATGAGAATC
* *
25679412 TTTGAGCCTT-AAATGAGAATT
1 TTTGAGTCTTCAAATGAGAATC
*
25679433 TTTAAGTCTT-AAATGAGAATC
1 TTTGAGTCTTCAAATGAGAATC
* * *
25679454 TTTAAGACATTTTCAAATGAGAATA
1 TTT--GA-GTCTTCAAATGAGAATC
25679479 TTTGAGT-TTCAAATGAGAATC
1 TTTGAGTCTTCAAATGAGAATC
* * ** *
25679500 TTTGAGTTTTCAATCTTTGAGTC
1 TTTGAGTCTTCAA-ATGAGAATC
** **
25679523 TTAAATGA-TAATC-TTTGAG--TC
1 TT---TGAGTCTTCAAATGAGAATC
*
25679544 ----A-TTTTCAAATGAGAATC
1 TTTGAGTCTTCAAATGAGAATC
*
25679561 TTTGAATCTTCAAATGAGAATC
1 TTTGAGTCTTCAAATGAGAATC
* *
25679583 TTTAAGTCTTCAAATGAAAATC
1 TTTGAGTCTTCAAATGAGAATC
*
25679605 TTTAAGAAATCTTCAAATGA-AATC
1 TTT--G-AGTCTTCAAATGAGAATC
25679629 TTTGAGT-TTCAAATGAGAAAT-
1 TTTGAGTCTTCAAATGAG-AATC
25679650 TTTGAGT-TTCAAATGAGAATC
1 TTTGAGTCTTCAAATGAGAATC
25679671 T
1 T
25679672 ATAAGGTGTG
Statistics
Matches: 205, Mismatches: 32, Indels: 47
0.72 0.11 0.17
Matches are distributed among these distances:
14 4 0.02
15 4 0.02
17 2 0.01
20 12 0.06
21 74 0.36
22 56 0.27
23 12 0.06
24 10 0.05
25 28 0.14
26 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (22 bp):
TTTGAGTCTTCAAATGAGAATC
Found at i:25679465 original size:129 final size:131
Alignment explanation
Indices: 25679390--25679637 Score: 295
Period size: 129 Copynumber: 2.0 Consensus size: 131
25679380 GTTTTCAATT
*
25679390 TTTGAGTCTTCAAATGAGAATCTTTGAG-C-CTT-AAATGAGAATTTTTAAGTCTTAAATGAGAA
1 TTTGAGTCTTCAAATGAGAATCTTTGAGACATTTCAAATGAGAATTTTTAAGTCTTAAATGAGAA
* *
25679452 TCTTTAAGACATTTTCAAATGAGAATATTT--G-AGTTTCAAATGAGAATCTTTGAGTTTTCAAT
66 TCTTTAAGACATTTTCAAATGAGAATCTTTAAGAATTTTCAAATGAGAATCTTTGAGTTTTCAAT
25679514 C
131 C
* * *
25679515 TTTGAGTCTT-AAATGATAATCTTTGAGTCATTTTCAAATGAGAATCTTTGAA-TCTTCAAATGA
1 TTTGAGTCTTCAAATGAGAATCTTTGAGACA-TTTCAAATGAGAAT-TTTTAAGTCTT-AAATGA
* * *
25679578 GAATCTTTAAG---TCTTCAAATGAAAATCTTTAAGAAATCTTCAAATGA-AATCTTTGAGTTT
63 GAATCTTTAAGACATTTTCAAATGAGAATCTTTAAG-AATTTTCAAATGAGAATCTTTGAGTTT
25679638 CAAATGAGAA
Statistics
Matches: 105, Mismatches: 8, Indels: 16
0.81 0.06 0.12
Matches are distributed among these distances:
124 16 0.15
125 11 0.10
126 16 0.15
127 2 0.02
128 15 0.14
129 35 0.33
130 10 0.10
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (131 bp):
TTTGAGTCTTCAAATGAGAATCTTTGAGACATTTCAAATGAGAATTTTTAAGTCTTAAATGAGAA
TCTTTAAGACATTTTCAAATGAGAATCTTTAAGAATTTTCAAATGAGAATCTTTGAGTTTTCAAT
C
Found at i:25679483 original size:104 final size:108
Alignment explanation
Indices: 25679290--25679487 Score: 314
Period size: 104 Copynumber: 1.9 Consensus size: 108
25679280 TTGAGACATT
* *
25679290 TTCAAATGAAAATCTTTGAGTCTTAAATGAGAATCTTTAAAACATTTTCAAATGAGAATCTTTAA
1 TTCAAATGAAAATCTTTGAGCCTTAAATGAGAATCTTTAAAACATCTTCAAATGAGAATCTTTAA
*
25679355 GACATTTTCAAATGAGAATCTTTGAGTTTTCAATTTTTGAGTC
66 GACATTTTCAAATGAGAATATTTGAGTTTTCAATTTTTGAGTC
* * *
25679398 TTCAAATGAGAATCTTTGAGCCTTAAATGAGAAT-TTT-TAA-GTCTT-AAATGAGAATCTTTAA
1 TTCAAATGAAAATCTTTGAGCCTTAAATGAGAATCTTTAAAACATCTTCAAATGAGAATCTTTAA
25679459 GACATTTTCAAATGAGAATATTTGAGTTT
66 GACATTTTCAAATGAGAATATTTGAGTTT
25679488 CAAATGAGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
104 44 0.52
105 3 0.04
106 2 0.02
107 3 0.04
108 32 0.38
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.39
Consensus pattern (108 bp):
TTCAAATGAAAATCTTTGAGCCTTAAATGAGAATCTTTAAAACATCTTCAAATGAGAATCTTTAA
GACATTTTCAAATGAGAATATTTGAGTTTTCAATTTTTGAGTC
Found at i:25679502 original size:150 final size:148
Alignment explanation
Indices: 25679218--25679671 Score: 403
Period size: 150 Copynumber: 3.0 Consensus size: 148
25679208 AATCTTTGAG
* *
25679218 TCTTAAATGAGAATCTTTGAGTC-TT-AAATGAGAATCTTTGAGACATTTTCAAATGAGAATCTT
1 TCTTAAATGATAATCTTTGAGTCTTTCAAATGAGAATCTTTGA-AC--CTTCAAATGAGAATCTT
* * * * * *
25679281 TGAGACATTTTCAAATGAAAATCTTT--G-AGTCTT-AAATGAGAATCTTTAAAACATTTTCAAA
63 T-A-A-GTCTTCAAATGAAAATCTTTAAGAAATCTTCAAATGA-AATATTT----GAGTTTCAAA
25679342 TGAGAATCTTTAAGACATTTTCAA-ATGAGAA
120 TGAGAATCTTT--GA-ATTTTCAATATGAGAA
* * ** * * *
25679373 TCTTTGAGTTTTCAATTTTTGAGTC-TTCAAATGAGAATCTTTGAGCCTT-AAATGAGAATTTTT
1 TC-TTAAATGAT-AATCTTTGAGTCTTTCAAATGAGAATCTTTGAACCTTCAAATGAGAATCTTT
* * *
25679436 AAGTCTT-AAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAGTTTCAAATGAGAATC
64 AAGTCTTCAAATGAAAATCTTTAAGAAATCTTCAAATGA-AATATTTGAGTTTCAAATGAGAATC
* * ** *
25679500 TTTGAGTTTTCAATCTTTGAG
128 TTTGAATTTTCAATATGAGAA
*
25679521 TCTTAAATGATAATCTTTGAGTCATTTTCAAATGAGAATCTTTGAATCTTCAAATGAGAATCTTT
1 TCTTAAATGATAATCTTTGAGTC--TTTCAAATGAGAATCTTTGAACCTTCAAATGAGAATCTTT
*
25679586 AAGTCTTCAAATGAAAATCTTTAAGAAATCTTCAAATGAAATCTTTGAGTTTCAAATGAGAAAT-
64 AAGTCTTCAAATGAAAATCTTTAAGAAATCTTCAAATGAAATATTTGAGTTTCAAATGAG-AATC
*
25679650 TTTG-AGTTTCAA-ATGAGAA
128 TTTGAATTTTCAATATGAGAA
25679669 TCT
1 TCT
25679672 ATAAGGTGTG
Statistics
Matches: 244, Mismatches: 41, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
146 11 0.05
147 12 0.05
148 13 0.05
149 28 0.11
150 76 0.31
151 34 0.14
152 2 0.01
153 4 0.02
154 26 0.11
155 4 0.02
156 4 0.02
157 14 0.06
158 16 0.07
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (148 bp):
TCTTAAATGATAATCTTTGAGTCTTTCAAATGAGAATCTTTGAACCTTCAAATGAGAATCTTTAA
GTCTTCAAATGAAAATCTTTAAGAAATCTTCAAATGAAATATTTGAGTTTCAAATGAGAATCTTT
GAATTTTCAATATGAGAA
Found at i:25679535 original size:21 final size:22
Alignment explanation
Indices: 25679511--25679671 Score: 179
Period size: 22 Copynumber: 7.2 Consensus size: 22
25679501 TTGAGTTTTC
*
25679511 AATCTTTGAGTCTT-AAATGAT
1 AATCTTTGAGTCTTCAAATGAG
25679532 AATCTTTGAGTCATTTTCAAATGAG
1 AATCTTTGAGTC---TTCAAATGAG
*
25679557 AATCTTTGAATCTTCAAATGAG
1 AATCTTTGAGTCTTCAAATGAG
* *
25679579 AATCTTTAAGTCTTCAAATGAA
1 AATCTTTGAGTCTTCAAATGAG
*
25679601 AATCTTTAAGAAATCTTCAAATGA-
1 AATCTTT--G-AGTCTTCAAATGAG
25679625 AATCTTTGAGT-TTCAAATGAG
1 AATCTTTGAGTCTTCAAATGAG
25679646 AAAT-TTTGAGT-TTCAAATGAG
1 -AATCTTTGAGTCTTCAAATGAG
25679667 AATCT
1 AATCT
25679672 ATAAGGTGTG
Statistics
Matches: 122, Mismatches: 8, Indels: 20
0.81 0.05 0.13
Matches are distributed among these distances:
20 12 0.10
21 32 0.26
22 40 0.33
24 9 0.07
25 29 0.24
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (22 bp):
AATCTTTGAGTCTTCAAATGAG
Found at i:25679536 original size:82 final size:83
Alignment explanation
Indices: 25679437--25679595 Score: 248
Period size: 82 Copynumber: 1.9 Consensus size: 83
25679427 AGAATTTTTA
*
25679437 AGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAGT-TTCAAATGAGAATCT
1 AGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAATCTTCAAATGAGAATCT
* *
25679501 TTGAGTTTTCAATCTTTG
66 TTAAGTCTTCAATCTTTG
* * * *
25679519 AGTCTTAAATGATAATCTTTGAGTCATTTTCAAATGAGAATCTTTGAATCTTCAAATGAGAATCT
1 AGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAATCTTCAAATGAGAATCT
25679584 TTAAGTCTTCAA
66 TTAAGTCTTCAA
25679596 ATGAAAATCT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 44 0.64
83 25 0.36
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (83 bp):
AGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAATCTTCAAATGAGAATCT
TTAAGTCTTCAATCTTTG
Found at i:25679616 original size:47 final size:44
Alignment explanation
Indices: 25679511--25679676 Score: 171
Period size: 47 Copynumber: 3.7 Consensus size: 44
25679501 TTGAGTTTTC
* * * *
25679511 AATCTTTGAGTCTT-AAATGATAATCTTTGAGTCATTTTCAAATGAG
1 AATCTTTGAATCTTCAAATGAGAATCTTTAAGTC---TTCAAATGAA
25679557 AATCTTTGAATCTTCAAATGAGAATCTTTAAGTCTTCAAATGAA
1 AATCTTTGAATCTTCAAATGAGAATCTTTAAGTCTTCAAATGAA
*
25679601 AATCTTTAAGAAATCTTCAAATGA-AATCTTTGAGT-TTCAAATGAGA
1 AATCTTT--G-AATCTTCAAATGAGAATCTTTAAGTCTTCAAATGA-A
* *
25679647 AAT-TTTGAGT-TTCAAATGAGAATCTATAAG
1 AATCTTTGAATCTTCAAATGAGAATCTTTAAG
25679677 GTGTGAAGCC
Statistics
Matches: 106, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
41 9 0.08
42 10 0.09
43 1 0.01
44 16 0.15
45 12 0.11
46 28 0.26
47 30 0.28
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (44 bp):
AATCTTTGAATCTTCAAATGAGAATCTTTAAGTCTTCAAATGAA
Found at i:25679628 original size:13 final size:13
Alignment explanation
Indices: 25679589--25679630 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
25679579 AATCTTTAAG
25679589 TCTTCAAATGAAAA
1 TCTTCAAATG-AAA
*
25679603 TCTT-TAA-GAAA
1 TCTTCAAATGAAA
25679614 TCTTCAAATGAAA
1 TCTTCAAATGAAA
25679627 TCTT
1 TCTT
25679631 TGAGTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 7 0.29
12 3 0.12
13 10 0.42
14 4 0.17
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (13 bp):
TCTTCAAATGAAA
Found at i:25679846 original size:42 final size:44
Alignment explanation
Indices: 25679791--25679874 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 44
25679781 TCAACTTTTG
* *
25679791 GATGTGAATCTCTAAAATTT-TT-AGTAAGAACCTTTGAACTTA
1 GATGTGAAACTCTAAAATTTATTGAATAAGAACCTTTGAACTTA
* *
25679833 GATGTGAAACTCTAAGATTTATTGAATATGAACCTTTGAACT
1 GATGTGAAACTCTAAAATTTATTGAATAAGAACCTTTGAACT
25679875 CGAATAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 18 0.50
43 2 0.06
44 16 0.44
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (44 bp):
GATGTGAAACTCTAAAATTTATTGAATAAGAACCTTTGAACTTA
Found at i:25680251 original size:83 final size:82
Alignment explanation
Indices: 25680151--25680334 Score: 237
Period size: 83 Copynumber: 2.2 Consensus size: 82
25680141 AAGTACCGAA
* * * * *
25680151 GAGCGTTTA-TTTTTCAAAGTTACGGTGCCTTTGTTTAGAAGAGCAATTTATTTTTCCAAAGTTG
1 GAGCATTTATTTTTTCAAAGTTACGATGCCTCTATTTAGAAGAGCAATTTATTTTT-CAAAATTG
*
25680215 TGGTGCCTCTATTTAG-G
65 TCGTGCCTCTATTTAGAG
** *
25680232 GAGCAATTTATTTTTTCAAAGTTGTGATGCCTCTATTTAGAAGAGCATTTTATTTTTCAAAATTG
1 GAGC-ATTTATTTTTTCAAAGTTACGATGCCTCTATTTAGAAGAGCAATTTATTTTTCAAAATTG
*
25680297 TCGTGCCTCTGTTTAGAG
65 TCGTGCCTCTATTTAGAG
25680315 GAGCATTTATTTTTTTCAAA
1 GAGCATTTA-TTTTTTCAAA
25680335 ATTGTTGAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
81 4 0.04
82 30 0.34
83 55 0.62
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.43
Consensus pattern (82 bp):
GAGCATTTATTTTTTCAAAGTTACGATGCCTCTATTTAGAAGAGCAATTTATTTTTCAAAATTGT
CGTGCCTCTATTTAGAG
Found at i:25680347 original size:83 final size:83
Alignment explanation
Indices: 25680184--25680355 Score: 242
Period size: 83 Copynumber: 2.1 Consensus size: 83
25680174 GGTGCCTTTG
* *
25680184 TTTAGAAGAGCAATTTATTTTTCCAAAGTTGTGGTGCCTCTATTTAGGGAGCAATTTATTTTTTC
1 TTTAGAAGAGCAATTTATTTTTCCAAAATTGTCGTGCCTCTATTTAGGGAGCAATTTATTTTTTC
*
25680249 AAAGTTGTGATGCCTCTA
66 AAAATTGTGATGCCTCTA
* *
25680267 TTTAGAAGAGCATTTTATTTTT-CAAAATTGTCGTGCCTCTGTTTAGAGGAGC-ATTTATTTTTT
1 TTTAGAAGAGCAATTTATTTTTCCAAAATTGTCGTGCCTCTATTTAG-GGAGCAATTTA-TTTTT
*
25680330 TCAAAATTGTTGA-GCCTCTG
64 TCAAAATTG-TGATGCCTCTA
25680350 TTTAGA
1 TTTAGA
25680356 GGGGCTTTGT
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
82 26 0.32
83 51 0.64
84 3 0.04
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (83 bp):
TTTAGAAGAGCAATTTATTTTTCCAAAATTGTCGTGCCTCTATTTAGGGAGCAATTTATTTTTTC
AAAATTGTGATGCCTCTA
Found at i:25680356 original size:42 final size:42
Alignment explanation
Indices: 25680177--25680357 Score: 199
Period size: 41 Copynumber: 4.4 Consensus size: 42
25680167 AAGTTACGGT
* * * * * *
25680177 GCCTTTGTTTAGAAGAGCAATTTATTTTTCCAAAGTTGTGGT
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAATTGTTGA
* *
25680219 GCCTCTATTTAG-GGAGCAATTTATTTTTTCAAAGTTG-TGA
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAATTGTTGA
* * * * *
25680259 TGCCTCTATTTAGAAGAGCATTTTA-TTTTTCAAAATTGTCGT
1 -GCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAATTGTTGA
25680301 GCCTCTGTTTAGAGGAGC-ATTTATTTTTTTCAAAATTGTTGA
1 GCCTCTGTTTAGAGGAGCAATTTA-TTTTTTCAAAATTGTTGA
25680343 GCCTCTGTTTAGAGG
1 GCCTCTGTTTAGAGG
25680358 GGCTTTGTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
40 5 0.04
41 63 0.53
42 50 0.42
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (42 bp):
GCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAATTGTTGA
Found at i:25680378 original size:42 final size:42
Alignment explanation
Indices: 25680177--25680378 Score: 121
Period size: 41 Copynumber: 4.9 Consensus size: 42
25680167 AAGTTACGGT
* * ** * * *
25680177 GCCTTTGTTTAGAAGAGCAATTTATTT-TTCCAAAGTTGTGGT
1 GCCTCTGTTTAGAGGAGC-ATTTATTTCTTAAAAAATTGTCGA
* ** *
25680219 GCCTCTATTTAG-GGAGCAATTTATTT-TTTCAAAGTTGT-GA
1 GCCTCTGTTTAGAGGAGC-ATTTATTTCTTAAAAAATTGTCGA
* * * *
25680259 TGCCTCTATTTAGAAGAGCATTTTATTT-TT-CAAAATTGTCGT
1 -GCCTCTGTTTAGAGGAGCA-TTTATTTCTTAAAAAATTGTCGA
* ** *
25680301 GCCTCTGTTTAGAGGAGCATTTATTTTTTTCAAAATTGTTGA
1 GCCTCTGTTTAGAGGAGCATTTATTTCTTAAAAAATTGTCGA
* *
25680343 GCCTCTGTTTAGAGGGGC-TTTGTTTACTTAAAAAAT
1 GCCTCTGTTTAGAGGAGCATTTATTT-CTTAAAAAAT
25680379 AAATAAATAA
Statistics
Matches: 136, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
40 8 0.06
41 70 0.51
42 58 0.43
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (42 bp):
GCCTCTGTTTAGAGGAGCATTTATTTCTTAAAAAATTGTCGA
Found at i:25682165 original size:43 final size:43
Alignment explanation
Indices: 25682072--25682265 Score: 185
Period size: 43 Copynumber: 4.5 Consensus size: 43
25682062 GACACTATGA
* * * *
25682072 AACTTTGAATATTGTAAAAGGACTCATCTCA-C-GAGGCTTAAC
1 AACTTTGAAAATTATAAAAGG-CTCATCTAATCAGAGGCTCAAC
* * * *
25682114 AACTTTTGAAAATTTTAAAAGGCTCTTTTAATCAGAGGCTCAAT
1 AAC-TTTGAAAATTATAAAAGGCTCATCTAATCAGAGGCTCAAC
* * *
25682158 AGCTTTGAAAAATTATAAAAGGCTCCTCTAATCAGAGACTCAAC
1 AACTTTG-AAAATTATAAAAGGCTCATCTAATCAGAGGCTCAAC
* * * * *
25682202 AACTTTAAAAAATATAAAAAGCCCATCTCATCAGAGGCTCAAC
1 AACTTTGAAAATTATAAAAGGCTCATCTAATCAGAGGCTCAAC
*
25682245 AACTTTTAAAATTTATAAAAG
1 AACTTTGAAAA-TTATAAAAG
25682266 ACTCCTTAAC
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
42 9 0.07
43 61 0.50
44 53 0.43
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (43 bp):
AACTTTGAAAATTATAAAAGGCTCATCTAATCAGAGGCTCAAC
Found at i:25682171 original size:44 final size:44
Alignment explanation
Indices: 25682111--25682271 Score: 166
Period size: 44 Copynumber: 3.7 Consensus size: 44
25682101 CACGAGGCTT
* * * *
25682111 AACAACTTTTG-AAAATTTTAAAAGGCTCTTTTAATCAGAGGCTC
1 AACAAC-TTTGAAAAATTATAAAAGGCTCCTCTAATCAGAGACTC
* *
25682155 AATAGCTTTGAAAAATTATAAAAGGCTCCTCTAATCAGAGACTC
1 AACAACTTTGAAAAATTATAAAAGGCTCCTCTAATCAGAGACTC
* * * *
25682199 AACAACTTT-AAAAAATATAAAAAGC-CCATCTCATCAGAGGCTC
1 AACAACTTTGAAAAATTATAAAAGGCTCC-TCTAATCAGAGACTC
* * *
25682242 AACAACTTTTAAAATTTATAAAAGACTCCT
1 AACAACTTTGAAAAATTATAAAAGGCTCCT
25682272 TAACCAAGGT
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.02
43 40 0.41
44 53 0.55
45 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (44 bp):
AACAACTTTGAAAAATTATAAAAGGCTCCTCTAATCAGAGACTC
Found at i:25691869 original size:36 final size:37
Alignment explanation
Indices: 25691795--25691870 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
25691785 TATAGCCAAC
*
25691795 AATGTCTTACAATCTATTGGTAAGACTTTTTAGTGAA
1 AATGTCTTACAATCTATTGGTAAGAATTTTTAGTGAA
*
25691832 AATGATCTTCCAATC-ATTGGT-AGAA-TTTTATGTGAA
1 AATG-TCTTACAATCTATTGGTAAGAATTTTTA-GTGAA
25691868 AAT
1 AAT
25691871 AAAACAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 5 0.14
36 11 0.31
37 10 0.29
38 9 0.26
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (37 bp):
AATGTCTTACAATCTATTGGTAAGAATTTTTAGTGAA
Found at i:25694746 original size:26 final size:25
Alignment explanation
Indices: 25694717--25694774 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
25694707 TTTTCCTATT
25694717 CAAATAAA-TAGATAAAACAAAAAAAA
1 CAAATAAATTAG-T-AAACAAAAAAAA
* *
25694743 CAAACAAATTAGTAAACAAAAAGAA
1 CAAATAAATTAGTAAACAAAAAAAA
25694768 -AAATAAA
1 CAAATAAA
25694775 AAATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 6 0.21
25 11 0.39
26 8 0.29
27 3 0.11
ACGTcount: A:0.74, C:0.09, G:0.05, T:0.12
Consensus pattern (25 bp):
CAAATAAATTAGTAAACAAAAAAAA
Found at i:25695770 original size:9 final size:9
Alignment explanation
Indices: 25695757--25695794 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
25695747 TAAATTAACC
25695757 AAATAAAAA
1 AAATAAAAA
*
25695766 TAATAAAAA
1 AAATAAAAA
25695775 AAATAAAAA
1 AAATAAAAA
25695784 AAATAACAAA
1 AAATAA-AAA
25695794 A
1 A
25695795 TCAACATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 22 0.85
10 4 0.15
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (9 bp):
AAATAAAAA
Found at i:25696137 original size:22 final size:20
Alignment explanation
Indices: 25696093--25696137 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
25696083 CACTCTCTCC
* *
25696093 TTAATTTTTTTTTCTGTTGA
1 TTAATTTTTTTTTATGTTAA
25696113 TTAATTTCTTTCTTTATGTTAA
1 TTAATTT-TTT-TTTATGTTAA
25696135 TTA
1 TTA
25696138 TGGTTGTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
22 11 0.52
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (20 bp):
TTAATTTTTTTTTATGTTAA
Found at i:25699098 original size:19 final size:19
Alignment explanation
Indices: 25699074--25699120 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
25699064 CAAGGATACG
25699074 AGTTTGGTGGCTGATGTTA
1 AGTTTGGTGGCTGATGTTA
25699093 AGTTTGGTGGCTGATGTTA
1 AGTTTGGTGGCTGATGTTA
25699112 AGTTTGGTG
1 AGTTTGGTG
25699121 AAGGCGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.15, C:0.04, G:0.38, T:0.43
Consensus pattern (19 bp):
AGTTTGGTGGCTGATGTTA
Found at i:25702081 original size:26 final size:24
Alignment explanation
Indices: 25702045--25702095 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
25702035 GTGATTATCT
25702045 TGTGTGAAAAAACTAAATAATAAAAC
1 TGTGTG-AAAAA-TAAATAATAAAAC
*
25702071 TGTGTGAAAAATTAATAATAAAAC
1 TGTGTGAAAAATAAATAATAAAAC
25702095 T
1 T
25702096 AAATGTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 13 0.54
25 5 0.21
26 6 0.25
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (24 bp):
TGTGTGAAAAATAAATAATAAAAC
Found at i:25702263 original size:22 final size:22
Alignment explanation
Indices: 25702235--25702278 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25702225 ATTTTTTGTC
**
25702235 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAAAGATACAAATA
25702257 CTTAATTCTAAAGATACAAATA
1 CTTAATTCTAAAGATACAAATA
25702279 TAAACATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAAAGATACAAATA
Found at i:25708423 original size:6 final size:6
Alignment explanation
Indices: 25708412--25708439 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
25708402 TATTTAAAGA
25708412 AAAATC AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAA
25708440 AGAAGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATC
Found at i:25708616 original size:28 final size:28
Alignment explanation
Indices: 25708530--25708618 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 28
25708520 TTTTTTAAGG
25708530 AAAATTGATACTTTCAACTTTTCCTCAA
1 AAAATTGATACTTTCAACTTTTCCTCAA
* * *
25708558 AAATATT--T--TTTGAAATATTT-TTCAA
1 AAA-ATTGATACTTTCAACT-TTTCCTCAA
25708583 GGAAAATTGATACTTTCAACTTTTCCTCAA
1 --AAAATTGATACTTTCAACTTTTCCTCAA
25708613 AAAATT
1 AAAATT
25708619 TTTTTGAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 18
0.66 0.09 0.26
Matches are distributed among these distances:
25 10 0.22
26 6 0.13
27 4 0.09
28 10 0.22
29 6 0.13
30 10 0.22
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (28 bp):
AAAATTGATACTTTCAACTTTTCCTCAA
Found at i:25708768 original size:54 final size:55
Alignment explanation
Indices: 25708469--25708785 Score: 436
Period size: 55 Copynumber: 5.7 Consensus size: 55
25708459 TCTTGTGCAG
* *
25708469 GGAAAATTGATACTTTCAATTTTTCCCCAAAAATTGATTTTTTGAAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAAAT--TTTTTTGAAATTTA-TTTTTAA
25708528 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTGAAA--TATTTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAAT-TTTTTTGAAATTTATTTTT-AA
25708583 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAATTTTTTTG-AAATTTATTTTTAA
25708640 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAA--TTTTTGAAATTTGA-TTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAATTTTTTTGAAATTT-ATTTTTAA
*
25708693 -GAAAATTGATACTTTCAACTTTT-CAAAAAAATTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTGAAATTTATTTTTAA
*
25708746 GGAAAATTGATACTTTCAACTTTTCCCAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTT
25708786 ATTTTTATTT
Statistics
Matches: 240, Mismatches: 5, Indels: 30
0.87 0.02 0.11
Matches are distributed among these distances:
51 6 0.03
52 24 0.10
53 30 0.12
54 35 0.15
55 52 0.22
56 14 0.06
57 41 0.17
58 14 0.06
59 24 0.10
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (55 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTGAAATTTATTTTTAA
Found at i:25708801 original size:106 final size:108
Alignment explanation
Indices: 25708470--25708804 Score: 462
Period size: 106 Copynumber: 3.1 Consensus size: 108
25708460 CTTGTGCAGG
* *
25708470 GAAAATTGATACTTTCAATTTTTCCCCAAAAATTGATTTTTTGAAATTTATTTTTTAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTT-CCCAAAAAAT--TTTTTTGAAATTTA-TTTTTAAGGAAAAT
* * *
25708535 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATATTT-TTCAAG
62 TGATACTTTCAACTTTTCCTC-AAAATATTTTTT--AATTTTTATTTAAA
25708584 GAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 GAAAATTGATACTTTCAACTTTTCC-CAAAAAATTTTTTTG-AAATTTATTTTTAAGGAAAATTG
* * * *
25708649 ATACTTTCAACTTTTCCTCAAAA-ATTTTTGAAATTTGATTTTAA
64 ATACTTTCAACTTTTCCTCAAAATATTTTTTAATTTTTATTTAAA
*
25708693 GAAAATTGATACTTTCAACTTTT-CAAAAAAATTTTTTTGAAATTTATTTTTAAGGAAAATTGAT
1 GAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTGAAATTTATTTTTAAGGAAAATTGAT
*
25708757 ACTTTCAACTTTTCC-CAAAATATTTTTTTATTTTTATTTAAA
66 ACTTTCAACTTTTCCTCAAAATATTTTTTAATTTTTATTTAAA
25708799 GAAAAT
1 GAAAAT
25708805 GAATAATAAA
Statistics
Matches: 202, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
105 5 0.02
106 62 0.31
107 14 0.07
108 5 0.02
109 26 0.13
110 6 0.03
111 4 0.02
112 42 0.21
113 9 0.04
114 29 0.14
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (108 bp):
GAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTGAAATTTATTTTTAAGGAAAATTGAT
ACTTTCAACTTTTCCTCAAAATATTTTTTAATTTTTATTTAAA
Found at i:25708835 original size:21 final size:21
Alignment explanation
Indices: 25708800--25708858 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
25708790 TTATTTAAAG
*
25708800 AAAATG-AATAATAAAAAAAT
1 AAAATGAAAAAATAAAAAAAT
*
25708820 AAAATGAAAAAATAAAAAAGT
1 AAAATGAAAAAATAAAAAAAT
25708841 AAAAT-AAAAAAGTAAAAA
1 AAAATGAAAAAA-TAAAAA
25708859 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 12 0.34
21 23 0.66
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAATGAAAAAATAAAAAAAT
Found at i:25708844 original size:13 final size:13
Alignment explanation
Indices: 25708828--25708873 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
25708818 ATAAAATGAA
25708828 AAAATAAAAAAGT
1 AAAATAAAAAAGT
25708841 AAAATAAAAAAGT
1 AAAATAAAAAAGT
25708854 AAAA-ATAAAAA-T
1 AAAATA-AAAAAGT
25708866 AAAATAAA
1 AAAATAAA
25708874 GATAAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.26
13 23 0.74
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAAGT
Found at i:25708864 original size:20 final size:19
Alignment explanation
Indices: 25708814--25708881 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 19
25708804 TGAATAATAA
25708814 AAAAAT-AAAATGAAAAAAT
1 AAAAATAAAAAT-AAAAAAT
25708833 AAAAA-AGTAAAATAAAAAAGT
1 AAAAATA--AAAATAAAAAA-T
25708854 AAAAATAAAAAT--AAAAT
1 AAAAATAAAAATAAAAAAT
*
25708871 AAAGATAAAAA
1 AAAAATAAAAA
25708882 GAATATTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
17 11 0.26
18 4 0.09
19 5 0.12
20 11 0.26
21 11 0.26
22 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAATAAAAAAT
Found at i:25709798 original size:28 final size:28
Alignment explanation
Indices: 25709734--25709806 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
25709724 CAAAAAAAAA
* * *
25709734 AAATAAAAAAAAATAATAATAATCAGAT
1 AAATAAAAAAAAATAAAAAAAAACAGAT
**
25709762 AAACGAAAAAAAATAAAAAAAAACAGAT
1 AAATAAAAAAAAATAAAAAAAAACAGAT
*
25709790 AATTAAAAATAAAATAA
1 AAATAAAAA-AAAATAA
25709807 GATAAATCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 29 0.81
29 7 0.19
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (28 bp):
AAATAAAAAAAAATAAAAAAAAACAGAT
Found at i:25709802 original size:38 final size:37
Alignment explanation
Indices: 25709729--25709802 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
25709719 ACAGCCAAAA
* *
25709729 AAAAAAAATAAAAAAAAATAATAATAATCAGATAAACG
1 AAAAAAAATAAAAAAAAACAATAATAA-CAAATAAACG
25709767 AAAAAAAATAAAAAAAAACAGATAATTAA-AAATAAA
1 AAAAAAAATAAAAAAAAACA-ATAA-TAACAAATAAA
25709803 ATAAGATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 25 0.78
39 4 0.12
40 3 0.09
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (37 bp):
AAAAAAAATAAAAAAAAACAATAATAACAAATAAACG
Found at i:25710172 original size:1 final size:1
Alignment explanation
Indices: 25710161--25710231 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
25710151 AACATTTTCA
* * * * * * * *
25710161 TTTTTTATTTTTTTTATTTTTTGTGTTTTTTTTTGTTCTTTTTTTTTTTTTTATTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
25710226 GTTTTT
1 TTTTTT
25710232 AACCAAAGCT
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:25710192 original size:19 final size:18
Alignment explanation
Indices: 25710168--25710232 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 18
25710158 TCATTTTTTA
25710168 TTTTTTTTATTTTTTGTGT
1 TTTTTTTTATTTTTTGT-T
*
25710187 TTTTTTTTGTTCTTTT-TT
1 TTTTTTTTATT-TTTTGTT
25710205 TTTTTTTTATTTTTTGTT
1 TTTTTTTTATTTTTTGTT
25710223 TTTGTTTTTA
1 TTT-TTTTTA
25710233 ACCAAAGCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.10
18 16 0.39
19 17 0.41
20 4 0.10
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.86
Consensus pattern (18 bp):
TTTTTTTTATTTTTTGTT
Found at i:25710206 original size:31 final size:31
Alignment explanation
Indices: 25710168--25710228 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
25710158 TCATTTTTTA
*
25710168 TTTTTTTTATTTTTTGTGTTTT-TTTTTGTTC
1 TTTTTTTT-TTTTTTATGTTTTGTTTTTGTTC
*
25710199 TTTTTTTTTTTTTTATTTTTTGTTTTTGTT
1 TTTTTTTTTTTTTTATGTTTTGTTTTTGTT
25710229 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (31 bp):
TTTTTTTTTTTTTTATGTTTTGTTTTTGTTC
Found at i:25710333 original size:41 final size:41
Alignment explanation
Indices: 25710239--25710451 Score: 302
Period size: 41 Copynumber: 5.1 Consensus size: 41
25710229 TTTAACCAAA
* * * *
25710239 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTGGAAAA-GTAAATT
25710282 GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
25710323 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTGGAAAAGTAAATT
* * * * *
25710364 TCTCCTCTAAACAGAGGTACCACAACTTTGAAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
*
25710405 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
25710446 GCTCCT
1 GCTCCT
25710452 TGACAATCAT
Statistics
Matches: 155, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
40 3 0.02
41 117 0.75
42 11 0.07
43 24 0.15
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
Found at i:25711448 original size:8 final size:8
Alignment explanation
Indices: 25711434--25711516 Score: 77
Period size: 8 Copynumber: 10.8 Consensus size: 8
25711424 TTGAGTCCTC
25711434 TTTTTTCA
1 TTTTTTCA
*
25711442 CTTTTTC-
1 TTTTTTCA
*
25711449 TTTTTTTA
1 TTTTTTCA
25711457 -TTTTTCA
1 TTTTTTCA
25711464 TTTTTTCCA
1 TTTTTT-CA
25711473 TTTTTTCA
1 TTTTTTCA
**
25711481 -TCATT--
1 TTTTTTCA
25711486 TTTTTTCA
1 TTTTTTCA
25711494 TTTTTTTCA
1 -TTTTTTCA
25711503 TTTTTTCA
1 TTTTTTCA
25711511 TTTTTT
1 TTTTTT
25711517 AAGCATAGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
6 3 0.05
7 14 0.23
8 27 0.45
9 16 0.27
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:25711452 original size:15 final size:14
Alignment explanation
Indices: 25711432--25711477 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
25711422 CCTTGAGTCC
25711432 TCTTTTTTCACTTTT
1 TCTTTTTTCA-TTTT
*
25711447 TCTTTTTTTATTTT
1 TCTTTTTTCATTTT
25711461 TCATTTTTTCCATTTT
1 TC-TTTTTT-CATTTT
25711477 T
1 T
25711478 TCATCATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 15 0.56
16 6 0.22
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTTTTCATTTT
Found at i:25711470 original size:30 final size:31
Alignment explanation
Indices: 25711434--25711517 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
25711424 TTGAGTCCTC
* *
25711434 TTTTTTCACTTTTTCTTTTTTTATTTTTCAT
1 TTTTTTCATTTTTTCATTTTTTATTTTTCAT
* **
25711465 TTTTTCCATTTTTTCATCATTT-TTTTTCAT
1 TTTTTTCATTTTTTCATTTTTTATTTTTCAT
25711495 TTTTTTCATTTTTTCATTTTTTA
1 TTTTTTCATTTTTTCATTTTTTA
25711518 AGCATAGTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 27 0.61
31 17 0.39
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTTTTCATTTTTTCATTTTTTATTTTTCAT
Found at i:25711476 original size:22 final size:22
Alignment explanation
Indices: 25711435--25711477 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
25711425 TGAGTCCTCT
**
25711435 TTTTTCACTTTTTCTTTTTTTA
1 TTTTTCACTTTTTCCATTTTTA
*
25711457 TTTTTCATTTTTTCCATTTTT
1 TTTTTCACTTTTTCCATTTTT
25711478 TCATCATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTCACTTTTTCCATTTTTA
Found at i:25711487 original size:10 final size:9
Alignment explanation
Indices: 25711434--25711516 Score: 79
Period size: 9 Copynumber: 9.6 Consensus size: 9
25711424 TTGAGTCCTC
25711434 TTTTTTCA-
1 TTTTTTCAT
*
25711442 CTTTTTC-T
1 TTTTTTCAT
25711450 TTTTTT-A-
1 TTTTTTCAT
25711457 -TTTTTCAT
1 TTTTTTCAT
*
25711465 TTTTTCCAT
1 TTTTTTCAT
25711474 TTTTTCATCATT
1 TTTTT--TCA-T
25711486 TTTTTTCAT
1 TTTTTTCAT
25711495 TTTTTTCA-
1 TTTTTTCAT
25711503 TTTTTTCAT
1 TTTTTTCAT
25711512 TTTTT
1 TTTTT
25711517 AAGCATAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
6 5 0.08
7 1 0.02
8 19 0.31
9 26 0.42
10 3 0.05
11 2 0.03
12 6 0.10
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:25711489 original size:22 final size:19
Alignment explanation
Indices: 25711434--25711516 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 19
25711424 TTGAGTCCTC
**
25711434 TTTTTTCACTTTTTCTTTTTT
1 TTTTTTCA-TTTTT-TTTCAT
*
25711455 TATTTTTCA-TTTTTTCCAT
1 T-TTTTTCATTTTTTTTCAT
25711474 TTTTTCATCATTTTTTTTCAT
1 TTTTT--TCATTTTTTTTCAT
25711495 TTTTTTCA--TTTTTTCAT
1 TTTTTTCATTTTTTTTCAT
25711512 TTTTT
1 TTTTT
25711517 AAGCATAGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
17 14 0.26
18 4 0.07
19 7 0.13
20 7 0.13
21 15 0.28
22 7 0.13
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTCATTTTTTTTCAT
Found at i:25720041 original size:58 final size:57
Alignment explanation
Indices: 25719856--25720071 Score: 265
Period size: 58 Copynumber: 3.7 Consensus size: 57
25719846 TTGTGCAGGA
* * * * *
25719856 AAAATTGATACTTTCAACTCTTCTCCAAAAATTGATTTTTTGAAATTT-ATTTTTTAAGA
1 AAAATTGATACTTTCAACTTTTC-CCAAAAAAT-ATTTTTGGAAATTTGA-TTTTCAAGG
*
25719915 AAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATA--TTTTTGGAAA-TTTGATTTTCAAGG
*
25719976 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTGGAAACTTTGGTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTGGAAA-TTTGATTTTCAAGG
*
25720034 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTT
25720072 TTTTATTTAA
Statistics
Matches: 141, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
57 1 0.01
58 59 0.42
59 26 0.18
60 25 0.18
61 29 0.21
62 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTGGAAATTTGATTTTCAAGG
Found at i:25720107 original size:13 final size:13
Alignment explanation
Indices: 25720091--25720164 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
25720081 AAGAAAATTG
* *
25720091 AATAATAAAACAA
1 AATAAAAAAAAAA
25720104 AATAAAAATGAAAAA
1 AATAAAAA--AAAAA
*
25720119 AATAAAAAAATAA
1 AATAAAAAAAAAA
**
25720132 AATAAAGAAAAGTA
1 AATAAA-AAAAAAA
*
25720146 AA-AAAAAATAAA
1 AATAAAAAAAAAA
25720158 AATAAAA
1 AATAAAA
25720165 TAAAGATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
12 6 0.12
13 24 0.49
14 7 0.14
15 12 0.24
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.14
Consensus pattern (13 bp):
AATAAAAAAAAAA
Found at i:25720110 original size:5 final size:5
Alignment explanation
Indices: 25720094--25720175 Score: 64
Period size: 5 Copynumber: 16.4 Consensus size: 5
25720084 AAAATTGAAT
* *
25720094 AATAA AACAA AATAAA AATGA AA-AA AAT-A AA-AA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA AATAA A-ATAA
* *
25720142 AGTAA AAAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AATAA AAT-AA AATAA AATAA A-ATAA AA
25720176 AGAATATTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
4 9 0.15
5 36 0.59
6 16 0.26
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.13
Consensus pattern (5 bp):
AATAA
Found at i:25720110 original size:23 final size:23
Alignment explanation
Indices: 25720084--25720151 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
25720074 TTATTTAAAG
* *
25720084 AAAATTGAATAATAA-AACAAAAT
1 AAAATTGAA-AAAAATAAAAAAAT
*
25720107 AAAAATGAAAAAAATAAAAAAAT
1 AAAATTGAAAAAAATAAAAAAAT
25720130 AAAA-T-AAAGAAAAGTAAAAAAA
1 AAAATTGAAA-AAAA-TAAAAAAA
25720152 AATAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.08
22 9 0.23
23 27 0.69
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (23 bp):
AAAATTGAAAAAAATAAAAAAAT
Found at i:25720117 original size:6 final size:6
Alignment explanation
Indices: 25720102--25720176 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
25720092 ATAATAAAAC
* *
25720102 AAAATA AAAATGA AAAA-A ATAA-A AAAAT- AAAATA AAGAA-A AGTAAAAA
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA AA-AATA A--AAATA
*
25720150 AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
25720177 GAATATTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
5 18 0.32
6 26 0.46
7 9 0.16
8 3 0.05
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:25720121 original size:9 final size:8
Alignment explanation
Indices: 25720094--25720247 Score: 66
Period size: 8 Copynumber: 18.2 Consensus size: 8
25720084 AAAATTGAAT
25720094 AATAAAACA
1 AATAAAA-A
*
25720103 AA-ATAAA
1 AATAAAAA
25720110 AATGAAAAA
1 AAT-AAAAA
25720119 AATAAAAA
1 AATAAAAA
25720127 AATAAAATA
1 AATAAAA-A
* *
25720136 AAGAAAAGT
1 AATAAAA-A
25720145 AA-AAAAA
1 AATAAAAA
25720152 AATAAAAA
1 AATAAAAA
25720160 TAA-AATAAA
1 -AATAA-AAA
*
25720169 GATAAAAA
1 AATAAAAA
25720177 GAATATTAAATA
1 -AATA--AAA-A
***
25720189 AACCTAATCT
1 AA--TAAAAA
25720199 AATAAATAA
1 AATAAA-AA
*
25720208 AA-AAATA
1 AATAAAAA
25720215 AATAAAAA
1 AATAAAAA
*
25720223 AAT-AAAT
1 AATAAAAA
*
25720230 AATAAATA
1 AATAAAAA
25720238 AATAAAAA
1 AATAAAAA
25720246 AA
1 AA
25720248 CTTGGAGCGG
Statistics
Matches: 109, Mismatches: 20, Indels: 33
0.67 0.12 0.20
Matches are distributed among these distances:
7 14 0.13
8 54 0.50
9 30 0.28
10 2 0.02
11 6 0.06
12 1 0.01
13 2 0.02
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (8 bp):
AATAAAAA
Found at i:25720128 original size:11 final size:11
Alignment explanation
Indices: 25720114--25720247 Score: 61
Period size: 12 Copynumber: 11.4 Consensus size: 11
25720104 AATAAAAATG
25720114 AAAAAAATAAAA
1 AAAAAAAT-AAA
25720126 AAATAAAATAAA
1 AAA-AAAATAAA
*
25720138 GAAAAGTAAAAAAA
1 -AAAA--AAATAAA
25720152 AATAAAAATAAA
1 AA-AAAAATAAA
* *
25720164 ATAAAGATAAA
1 AAAAAAATAAA
* * *
25720175 AAGAATATTAA
1 AAAAAAATAAA
* ** *
25720186 ATAAACCTAATC
1 AAAAAAATAA-A
* *
25720198 TAATAAATAAA
1 AAAAAAATAAA
25720209 AAAATAAATAAA
1 AAAA-AAATAAA
*
25720221 AAAATAAATAAT
1 AAAA-AAATAAA
*
25720233 AAATAAATAAA
1 AAAAAAATAAA
25720244 AAAA
1 AAAA
25720248 CTTGGAGCGG
Statistics
Matches: 89, Mismatches: 26, Indels: 15
0.68 0.20 0.12
Matches are distributed among these distances:
11 31 0.35
12 40 0.45
13 10 0.11
14 8 0.09
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:25720133 original size:22 final size:24
Alignment explanation
Indices: 25720102--25720190 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 24
25720092 ATAATAAAAC
25720102 AAAATAAAAATGAAA-AAAA-TAAA
1 AAAATAAAAAT-AAAGAAAAGTAAA
25720125 AAAAT-AAAATAAAGAAAAGTAAAAA
1 AAAATAAAAATAAAGAAAAGT--AAA
25720150 AAAATAAAAATAAA-ATAAAGATAAA
1 AAAATAAAAATAAAGA-AAAG-TAAA
*
25720175 AAGAATATTAAATAAA
1 AA-AATA-AAAATAAA
25720191 CCTAATCTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
21 3 0.05
22 9 0.16
23 6 0.11
25 14 0.25
26 16 0.29
27 8 0.14
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (24 bp):
AAAATAAAAATAAAGAAAAGTAAA
Found at i:25720151 original size:26 final size:26
Alignment explanation
Indices: 25720122--25720190 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
25720112 TGAAAAAAAT
25720122 AAAAAAATAAAATAAAGA-AAAG-TAA
1 AAAAAAATAAAATAAA-ATAAAGATAA
25720147 AAAAAAATAAAAATAAAATAAAGATAA
1 AAAAAAAT-AAAATAAAATAAAGATAA
* *
25720174 AAAGAATATTAAATAAA
1 AAA-AAAATAAAATAAA
25720191 CCTAATCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 9 0.24
26 12 0.32
27 13 0.34
28 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (26 bp):
AAAAAAATAAAATAAAATAAAGATAA
Found at i:25720206 original size:4 final size:4
Alignment explanation
Indices: 25720199--25720243 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
25720189 AACCTAATCT
* *
25720199 AATA AATA AAAA AATA AATA AAAA AATA AAT- AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
25720244 AAAACTTGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 3 0.08
4 33 0.92
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:25720216 original size:12 final size:12
Alignment explanation
Indices: 25720199--25720247 Score: 82
Period size: 12 Copynumber: 4.2 Consensus size: 12
25720189 AACCTAATCT
25720199 AATAAATAAAAA
1 AATAAATAAAAA
25720211 AATAAATAAAAA
1 AATAAATAAAAA
*
25720223 AATAAAT-AATA
1 AATAAATAAAAA
25720234 AATAAATAAAAA
1 AATAAATAAAAA
25720246 AA
1 AA
25720248 CTTGGAGCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
11 10 0.29
12 24 0.71
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:25720233 original size:15 final size:15
Alignment explanation
Indices: 25720091--25720243 Score: 63
Period size: 15 Copynumber: 10.1 Consensus size: 15
25720081 AAGAAAATTG
25720091 AATAATAAAACAAAATA
1 AATAAT-AAA-AAAATA
25720108 AA-AATGAAAAAAATA
1 AATAAT-AAAAAAATA
*
25720123 AA-AA-AATAAAATA
1 AATAATAAAAAAATA
* *
25720136 AAGAA-AAGTAAAAAAA
1 AATAATAA--AAAAATA
25720152 AATAA-AAATAAAATA
1 AATAATAAA-AAAATA
*
25720167 AA-GATAAAAAGAAT-
1 AATAATAAAAA-AATA
* * **
25720181 ATTAA-ATAAACCTA
1 AATAATAAAAAAATA
*
25720195 ATCTAATAAATAAAA-A
1 A-ATAATAAA-AAAATA
25720211 AATAAATAAAAAAATA
1 AAT-AATAAAAAAATA
*
25720227 AATAATAAATAAATA
1 AATAATAAAAAAATA
25720242 AA
1 AA
25720244 AAAACTTGGA
Statistics
Matches: 105, Mismatches: 18, Indels: 28
0.70 0.12 0.19
Matches are distributed among these distances:
13 11 0.10
14 14 0.13
15 45 0.43
16 31 0.30
17 4 0.04
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (15 bp):
AATAATAAAAAAATA
Found at i:25720236 original size:31 final size:31
Alignment explanation
Indices: 25720094--25720244 Score: 107
Period size: 32 Copynumber: 4.8 Consensus size: 31
25720084 AAAATTGAAT
* *
25720094 AATAAAACAAAATAAAAATGAAAAAAATAAAAA
1 AATAAAA-TAAATAAAAAT-AAAAAAATAAATA
* *
25720127 AATAAAATAAAGAAAAGT-AAAAAA-AAATA
1 AATAAAATAAATAAAAATAAAAAAATAAATA
* * *
25720156 AA-AATA-AAATAAAGATAAAAAGAAT-ATTA
1 AATAAAATAAATAAAAATAAAAA-AATAAATA
* *
25720185 AATAAACCTAATCTAATAAATAAAAAAATAAATA
1 AATAAA-ATAA-ATAA-AAATAAAAAAATAAATA
25720219 AA-AAAATAAATAATAAATAAATAAAA
1 AATAAAATAAATAA-AAATAAA-AAAA
25720245 AAACTTGGAG
Statistics
Matches: 92, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
27 7 0.08
28 7 0.08
29 13 0.14
30 8 0.09
31 11 0.12
32 17 0.18
33 16 0.17
34 13 0.14
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (31 bp):
AATAAAATAAATAAAAATAAAAAAATAAATA
Found at i:25721239 original size:25 final size:25
Alignment explanation
Indices: 25721193--25721258 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
25721183 AAGATAAAAA
25721193 AAATAATAAT-AA-ATAAA-T-TAT
1 AAATAATAATAAATATAAACTATAT
25721214 AATATAATAATAAATATATAACTATAT
1 AA-ATAATAATAAATATA-AACTATAT
*
25721241 AAATAA-AATACATATAAA
1 AAATAATAATAAATATAAA
25721259 TATTAACAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 2 0.05
22 8 0.21
23 2 0.05
24 5 0.13
25 11 0.29
26 5 0.13
27 5 0.13
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAATAAATATAAACTATAT
Found at i:25721240 original size:22 final size:22
Alignment explanation
Indices: 25721195--25721242 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25721185 GATAAAAAAA
*
25721195 ATAATAATAAATAAATTATAAT
1 ATAATAATAAATAAATAATAAT
*
25721217 ATAATAATAAATATATAACT-AT
1 ATAATAATAAATAAATAA-TAAT
25721239 ATAA
1 ATAA
25721243 ATAAAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAATAATAAATAAATAATAAT
Found at i:25728125 original size:29 final size:28
Alignment explanation
Indices: 25728058--25728131 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
25728048 ATTATAACTT
*
25728058 AATT-ATATATAAATATAATTTTTTATTA
1 AATTAATATATTAA-ATAATTTTTTATTA
*
25728086 AATTAAGATATTAAATAATATTTTTATT-
1 AATTAATATATTAAATAAT-TTTTTATTA
25728114 AATATAATATATATAAAT
1 AAT-TAATATAT-TAAAT
25728132 TAAATAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
28 12 0.31
29 22 0.56
30 5 0.13
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
AATTAATATATTAAATAATTTTTTATTA
Found at i:25729041 original size:12 final size:12
Alignment explanation
Indices: 25729024--25729049 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25729014 AAAATGATTT
25729024 AATAAAAAATAA
1 AATAAAAAATAA
25729036 AATAAAAAATAA
1 AATAAAAAATAA
25729048 AA
1 AA
25729050 AAAGTAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:25729052 original size:8 final size:8
Alignment explanation
Indices: 25728983--25729018 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
25728973 AAATTTATCT
25728983 AATAAAAA
1 AATAAAAA
25728991 AATAAAAA
1 AATAAAAA
25728999 AATAAAAA
1 AATAAAAA
*
25729007 AAGTGAAAA
1 AA-TAAAAA
25729016 AAT
1 AAT
25729019 GATTTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:25729403 original size:18 final size:17
Alignment explanation
Indices: 25729376--25729409 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25729366 TTAAAAAAAC
25729376 AAAGAAAATGACAAGAA
1 AAAGAAAATGACAAGAA
*
25729393 AAAGTAAAATGAGAAGA
1 AAAG-AAAATGACAAGA
25729410 CAATTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.09
Consensus pattern (17 bp):
AAAGAAAATGACAAGAA
Found at i:25731674 original size:158 final size:160
Alignment explanation
Indices: 25731159--25731674 Score: 670
Period size: 159 Copynumber: 3.3 Consensus size: 160
25731149 GTATATTACG
* *** *
25731159 ATGAGATCACATTTGTGAAAGATGAAAACTA-TACATATTTTGCATTGT-ATTCTAGGTGTGTAT
1 ATGAGATCACATTTGTGAAAGGTGAAAACTATTGTGTATTTTGCATTGTGATTCTAGTTGTGTAT
* * *
25731222 TGTGATTATTGATTAAATAGATAGTGTAATAATTGAAAAGCTTAATCATTGTAGGAAATTTAGTA
66 TGTGATTATTGATGAAATAGATAGTGTAATAATT-AAAAGCCTAATCATTGTAGGAAATTCAGTA
* * * *
25731287 TTGAACTAGATAGTGTTTTGTGCATATTGAG
130 TTGAACTAAATAGTATTTTATGCATATTGAA
* * * *
25731318 ACGAGATCACATTTGTGAAAGGTGAAAACTATTGTGTATTGTG-ATTGTGATTCTATTTGTGTTT
1 ATGAGATCACATTTGTGAAAGGTGAAAACTATTGTGTATTTTGCATTGTGATTCTAGTTGTGTAT
* * * * * *
25731382 TGTGATTATTGATGAAATAGATAGTGTAGTAACTGAAAGCCTAGTTATTGTAGGAAATTCAATAT
66 TGTGATTATTGATGAAATAGATAGTGTAATAATTAAAAGCCTAATCATTGTAGGAAATTCAGTAT
* *
25731447 TGAACTAAATAGTACTTTATGCATTTTGAA
131 TGAACTAAATAGTATTTTATGCATATTGAA
* *
25731477 ATGAGATCACATTTATGAAAGGTGAAAA-TATTGAT-TATTTTGCATTATGATTCTA-TTGTGTA
1 ATGAGATCACATTTGTGAAAGGTGAAAACTATTG-TGTATTTTGCATTGTGATTCTAGTTGTGTA
* *
25731539 TTGTGATTATTGATGAAGTAGATAGTGTAATAATTAAAAGCCTAAACATTGTAGGAAATTCAGTA
65 TTGTGATTATTGATGAAATAGATAGTGTAATAATTAAAAGCCTAATCATTGTAGGAAATTCAGTA
* *
25731604 TTTAACTATATAGTATTTTATGCATATTGAA
130 TTGAACTAAATAGTATTTTATGCATATTGAA
*
25731635 ATGTA-ATGAC-TTTGTGAAAGGTGAAAACTATTGTGTATTT
1 ATG-AGATCACATTTGTGAAAGGTGAAAACTATTGTGTATTT
25731675 AATAATCAAA
Statistics
Matches: 307, Mismatches: 43, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
157 17 0.06
158 118 0.38
159 122 0.40
160 50 0.16
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (160 bp):
ATGAGATCACATTTGTGAAAGGTGAAAACTATTGTGTATTTTGCATTGTGATTCTAGTTGTGTAT
TGTGATTATTGATGAAATAGATAGTGTAATAATTAAAAGCCTAATCATTGTAGGAAATTCAGTAT
TGAACTAAATAGTATTTTATGCATATTGAA
Found at i:25732223 original size:9 final size:9
Alignment explanation
Indices: 25732209--25732243 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
25732199 ATGATATATT
25732209 TTATGGATG
1 TTATGGATG
25732218 TTATGGATG
1 TTATGGATG
*
25732227 TTAAGGATG
1 TTATGGATG
25732236 TTATGGAT
1 TTATGGAT
25732244 AATTTGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (9 bp):
TTATGGATG
Found at i:25733632 original size:24 final size:27
Alignment explanation
Indices: 25733591--25733644 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 27
25733581 CATTTTTTAC
*
25733591 AAAATTTATCTAATAAAAAT-AAATAA
1 AAAATTTATATAATAAAAATAAAATAA
25733617 AAAATTTA-ATAA-AAAAATAAAATAA
1 AAAATTTATATAATAAAAATAAAATAA
25733642 AAA
1 AAA
25733645 CAAAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.23
25 12 0.46
26 8 0.31
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (27 bp):
AAAATTTATATAATAAAAATAAAATAA
Found at i:25735498 original size:28 final size:28
Alignment explanation
Indices: 25735466--25735520 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
25735456 CTAGCCATAA
25735466 ATTAAGCTGAGTCTAACTTTTGTTATCC
1 ATTAAGCTGAGTCTAACTTTTGTTATCC
*
25735494 ATTAAGTTGAGTCTAACTTTTGTTATC
1 ATTAAGCTGAGTCTAACTTTTGTTATC
25735521 TATTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (28 bp):
ATTAAGCTGAGTCTAACTTTTGTTATCC
Found at i:25737527 original size:67 final size:68
Alignment explanation
Indices: 25737428--25737608 Score: 180
Period size: 67 Copynumber: 2.7 Consensus size: 68
25737418 GTTTTCTTTG
* * *
25737428 CCTTTT-G-TTTTCTTCAA-TTTAAAAGTAATATTTAACTATTAATTGTGTTTTCATAG-CTTTA
1 CCTTTTCGATTTTCTTTAATTTTAAAAATAATATTTAACTATTAATTGTG-TATCATAGACTTTA
25737489 TTTA
65 TTTA
* * * * *
25737493 CCTTTTC-ATTTTCTTTAATTTTAAAAATATTATTT-ATTAATTAATTGTGTATCTTTGACTTTC
1 CCTTTTCGATTTTCTTTAATTTTAAAAATAATATTTAACT-ATTAATTGTGTATCATAGACTTTA
25737556 TTTA
65 TTTA
** *
25737560 TTTTTTCGA-TTTC-TTAATTTTTAAAAATAATATTTATCTATTAATTGTG
1 CCTTTTCGATTTTCTTTAA-TTTTAAAAATAATATTTAACTATTAATTGTG
25737609 ATAATTAGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
65 6 0.06
66 20 0.21
67 67 0.71
68 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.56
Consensus pattern (68 bp):
CCTTTTCGATTTTCTTTAATTTTAAAAATAATATTTAACTATTAATTGTGTATCATAGACTTTAT
TTA
Found at i:25742127 original size:19 final size:19
Alignment explanation
Indices: 25742103--25742141 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
25742093 CTTATAATTT
*
25742103 AATTAAAAATAATAAAATA
1 AATTAAAAATAAAAAAATA
*
25742122 AATTAAAGATAAAAAAATA
1 AATTAAAAATAAAAAAATA
25742141 A
1 A
25742142 CATGACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AATTAAAAATAAAAAAATA
Found at i:25742646 original size:8 final size:8
Alignment explanation
Indices: 25742633--25742657 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25742623 TCATGATTAA
25742633 AAAAAATT
1 AAAAAATT
25742641 AAAAAATT
1 AAAAAATT
25742649 AAAAAATT
1 AAAAAATT
25742657 A
1 A
25742658 TCAAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAAATT
Found at i:25744198 original size:22 final size:20
Alignment explanation
Indices: 25744161--25744200 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25744151 GTTCAGCCAA
*
25744161 CTATTTTTTTTTCTTTTTCT
1 CTATTTTTTTTGCTTTTTCT
25744181 CTATTTTCTTTTGGCTTTTT
1 CTATTTT-TTTT-GCTTTTT
25744201 TTTTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (20 bp):
CTATTTTTTTTGCTTTTTCT
Found at i:25756069 original size:3 final size:3
Alignment explanation
Indices: 25756061--25756101 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
25756051 CCAATATCTT
*
25756061 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATT ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
25756102 TATTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:25757069 original size:4 final size:4
Alignment explanation
Indices: 25757060--25757138 Score: 52
Period size: 4 Copynumber: 18.5 Consensus size: 4
25757050 TTTTTAGTAT
* * *
25757060 TTTA TTTA TTTTA TTTA CTTCA TGT- TTTA TTCTA TTTC TTATA TTTTA
1 TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA TT-TA TTTA TT-TA -TTTA
* *
25757108 TTTA TTTAA CTAA TTTA TTTA TTTA TTTA TT
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TT
25757139 GATCTGATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
3 2 0.03
4 38 0.66
5 16 0.28
6 2 0.03
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:25757249 original size:4 final size:4
Alignment explanation
Indices: 25757240--25757309 Score: 52
Period size: 4 Copynumber: 16.5 Consensus size: 4
25757230 TTTTTACTAT
* *
25757240 TTTA TTTA TTTCA TGT- TTTA TTTTA TTTC TTATA TTTTA TTTA TTTAA
1 TTTA TTTA TTT-A TTTA TTTA -TTTA TTTA TT-TA -TTTA TTTA TTT-A
* *
25757288 CTAA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TT
25757310 GATCTGATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
3 2 0.04
4 36 0.69
5 12 0.23
6 2 0.04
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:25757300 original size:35 final size:35
Alignment explanation
Indices: 25757221--25757302 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
25757211 CTAACGTTTT
* * * **
25757221 TTTAATTATTTTTTACTATTTTATTTATTTCATGT
1 TTTATTTATTTCTTACTATTTTATTTATTTAATAA
25757256 TTTATTTTATTTCTTA-TATTTTATTTATTTAACTAA
1 TTTA-TTTATTTCTTACTATTTTATTTATTTAA-TAA
25757292 TTTATTTATTT
1 TTTATTTATTT
25757303 ATTTATTGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 26 0.65
36 14 0.35
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (35 bp):
TTTATTTATTTCTTACTATTTTATTTATTTAATAA
Found at i:25757331 original size:171 final size:171
Alignment explanation
Indices: 25757066--25757392 Score: 627
Period size: 171 Copynumber: 1.9 Consensus size: 171
25757056 GTATTTTATT
25757066 TATTTTATTTACTTCATGTTTTATTCTATTTCTTATATTTTATTTATTTAACTAATTTATTTATT
1 TATTTTATTTACTTCATGTTTTATTCTATTTCTTATATTTTATTTATTTAACTAATTTATTTATT
*
25757131 TATTTATTGATCTGATATTTAAAATGTGTTTTTTATATAAAAAGTATAATAAATAAAAGCCTTAC
66 TATTTATTGATCTGATATTTAAAATGTGTTTTTTATATAAAAAGTATAATAAATAAAAACCTTAC
25757196 CAATGTATTGGAACGCTAACGTTTTTTTAATTATTTTTTAC
131 CAATGTATTGGAACGCTAACGTTTTTTTAATTATTTTTTAC
* *
25757237 TATTTTATTTATTTCATGTTTTATTTTATTTCTTATATTTTATTTATTTAACTAATTTATTTATT
1 TATTTTATTTACTTCATGTTTTATTCTATTTCTTATATTTTATTTATTTAACTAATTTATTTATT
25757302 TATTTATTGATCTGATATTTAAAATGTGTTTTTTATATAAAAAGTATAATAAATAAAAACCTTAC
66 TATTTATTGATCTGATATTTAAAATGTGTTTTTTATATAAAAAGTATAATAAATAAAAACCTTAC
25757367 CAATGTATTGGAACGCTAACGTTTTT
131 CAATGTATTGGAACGCTAACGTTTTT
25757393 CAAAGAAAAA
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 153 1.00
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (171 bp):
TATTTTATTTACTTCATGTTTTATTCTATTTCTTATATTTTATTTATTTAACTAATTTATTTATT
TATTTATTGATCTGATATTTAAAATGTGTTTTTTATATAAAAAGTATAATAAATAAAAACCTTAC
CAATGTATTGGAACGCTAACGTTTTTTTAATTATTTTTTAC
Found at i:25758235 original size:202 final size:201
Alignment explanation
Indices: 25757724--25758469 Score: 805
Period size: 202 Copynumber: 3.7 Consensus size: 201
25757714 CCCTATGTTT
* * * * * * *
25757724 TTTTTTTTATGATGTTAGTTTTCGTCAGCTATTTATGAAAAAAAAAAAACATTGAAGGCTATATT
1 TTTTTTTTGTGACGTTAGTTTTCATCAGCTATTTAT-AAAAAAAAATATCATTAAAGGCTATAAT
* * * * * * * * **
25757789 TCTCACAAAAAAAAAGAGAAAATCCGATATATTAATGATAAAAGGTAAATCGTTGCAATATTAGT
65 TGTCACAAAATAAATGATAAAATCTGATATATTAATGACAAAAAGTAAATCATCACAATATTAGT
* * * *
25757854 GACAAAATTATCATCACCAATGATTCTAAGATAATGTC-TACTATGACAATAAAATCAAACATCA
130 GACATAATTATCATCACAAATGATTATAAGATAATGTCATAC-GTGACAATAAAATCAAACATCA
25757918 CATTATGCG
194 CATTATG-G
* * * *
25757927 TTAATTTTTGTGACGTTAGTTTTCATCAGCTATTTATAAATAAAAATGTCCTTAAAGGCTATAAT
1 TT-TTTTTTGTGACGTTAGTTTTCATCAGCTATTTATAAAAAAAAATATCATTAAAGGCTATAAT
* * * *
25757992 CGTCACAAAATAAATGATAAAATCTTATATATTAGTGACAAAAAGTAAATCATCACAATATTTGT
65 TGTCACAAAATAAATGATAAAATCTGATATATTAATGACAAAAAGTAAATCATCACAATATTAGT
* * * *
25758057 GACATAATTATCATCACGAATTATTATAAGATAATATCATACGTGACAATAAAATCAAACAACAC
130 GACATAATTATCATCACAAATGATTATAAGATAATGTCATACGTGACAATAAAATCAAACATCAC
* *
25758122 CTTAAGG
195 ATTATGG
* * * * * * *
25758129 TTTTTTTAGATGACGTTAATTTTCGTCAACTATTTATAAAAAAAAACATCATTGAAGGTTATAAT
1 TTTTTTTTG-TGACGTTAGTTTTCATCAGCTATTTATAAAAAAAAATATCATTAAAGGCTATAAT
* * * * *
25758194 TATCACAAAATAAATGATAAAATCTAATATATTAATGACAAAAGGTAAATCATCATAGTATT-GA
65 TGTCACAAAATAAATGATAAAATCTGATATATTAATGACAAAAAGTAAATCATCACAATATTAG-
* * * * * *
25758258 TAATATAATTATCATCACAAATGATTGTAAGATAGTGTCAAATGTGACAATAAAATCAAACATCA
129 TGACATAATTATCATCACAAATGATTATAAGATAATGTCATACGTGACAATAAAATCAAACATCA
*
25758323 CATTATGC
194 CATTATGG
* * * * *
25758331 TTTTTTTTGTGACATTAGTTTTCATTAGCTATTTATGAAAAAAAATGTCATTAAAGGCTATAAAT
1 TTTTTTTTGTGACGTTAGTTTTCATCAGCTATTTATAAAAAAAAATATCATTAAAGGCTATAATT
* * * * * * * *
25758396 GTCACAAAATAAATGATTAAATTTGATATATTAGTGGC-AAAAGATAAATTATCAGAGTACTAGT
66 GTCACAAAATAAATGATAAAATCTGATATATTAATGACAAAAAG-TAAATCATCACAATATTAGT
25758460 GACATAATTA
130 GACATAATTA
25758470 ACATTATTAA
Statistics
Matches: 448, Mismatches: 89, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
200 4 0.01
201 106 0.24
202 173 0.39
203 132 0.29
204 33 0.07
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (201 bp):
TTTTTTTTGTGACGTTAGTTTTCATCAGCTATTTATAAAAAAAAATATCATTAAAGGCTATAATT
GTCACAAAATAAATGATAAAATCTGATATATTAATGACAAAAAGTAAATCATCACAATATTAGTG
ACATAATTATCATCACAAATGATTATAAGATAATGTCATACGTGACAATAAAATCAAACATCACA
TTATGG
Found at i:25758867 original size:118 final size:118
Alignment explanation
Indices: 25758659--25758892 Score: 414
Period size: 118 Copynumber: 2.0 Consensus size: 118
25758649 TCATCAAAAT
*
25758659 CCTATCTTCAAGCTCTCAATCCAAATCTTGTGTCAAGAGTGATTATGTTGATAATGAGTTTGTGT
1 CCTATCTTCAAGCTCTCAATCCAAATCTTGTGTCAAGAGTGATTATGTTGATAATGAGTTTATGT
25758724 TACTTGAAGCTATAATAAATAAATAATAGCAAATATCAAAACAAACTACAACA
66 TACTTGAAGCTATAATAAATAAATAATAGCAAATATCAAAACAAACTACAACA
** * *
25758777 CCTATCTTCAAGCTCTCAATCCAAATCTTGTGTTGAGAGTGATTGTGTTGATGATGAGTTTATGT
1 CCTATCTTCAAGCTCTCAATCCAAATCTTGTGTCAAGAGTGATTATGTTGATAATGAGTTTATGT
*
25758842 TACTTGAAGCTATAATAAATAAATAATATCAAATATCAAAACAAACTACAA
66 TACTTGAAGCTATAATAAATAAATAATAGCAAATATCAAAACAAACTACAA
25758893 TACACATAGC
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (118 bp):
CCTATCTTCAAGCTCTCAATCCAAATCTTGTGTCAAGAGTGATTATGTTGATAATGAGTTTATGT
TACTTGAAGCTATAATAAATAAATAATAGCAAATATCAAAACAAACTACAACA
Found at i:25763032 original size:237 final size:232
Alignment explanation
Indices: 25762596--25763349 Score: 707
Period size: 237 Copynumber: 3.2 Consensus size: 232
25762586 CGTCACATTC
* * ** * *
25762596 AATTTATCACAGATAAAATTTTAAATTGGTGACAAAATTAT-AATGTCACCTAAAATAAAAAATG
1 AATTCATCATAGATAAAATTTTAAATTAATGACAAAATTATAAATGTCA-C-AAAACAAAAAATC
* * * * * * *
25762660 TCATAAAAA-TTTTTCCATCAAATGAATTTGGCAGTAAAAGTTTGTGACATTTA-AGTTATTATC
64 TCA-AAAAACATTTCCCACCAAATAAAATTGACAGTAAAAG-TTGTGACATTTATA-TTATCATC
*** * ** * * * *
25762723 ATATAACGTTATATATTGATGTGATGAAATTGTAATGTCATTAATAATTAACTAAAGTATTCAAT
126 ATATAACACCATACATAAAAGTGAAGAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCAAT
*
25762788 TTGTGACAAAAATTAATAAC-ACTACCTAAAATCTATCAAAAA
191 TTGTGACAAAAATTAATAACGTC-ACCTAAAATCTATCAAAAA
* **
25762830 AATTCATCATAGATAAAATTTTAAATTAATGACAAAATTATAACACTGATTA-AAATACAAAACG
1 AATTCATCATAGATAAAATTTTAAATTAATGACAAAATTATAA-A-TG-TCACAAA-ACAAAAAA
** * * * * *
25762894 TCTCAAAAAA-ATTTTTTCTCCAAATAAAATTGACAGTAAAAATTTGTGTCATTTATGTTATCGT
62 TCTCAAAAAACA-TTTCCCACCAAATAAAATTGACAGT-AAAAGTTGTGACATTTATATTATCAT
* * * * *
25762958 TATATAATACCATAACATAAAAGTGAAGAAATTGCAATGTCATTAATAGTTAATTAAAGTATCCC
125 CATATAACACCAT-ACATAAAAGTGAAGAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCA
* * * *
25763023 ATTTGTGACAACAATTGATAATGTCACCTAAAATCTATTAGAAAA
189 ATTTGTGACAAAAATTAATAACGTCACCTAAAATCTATCA-AAAA
* * *
25763068 AATTCATCACAGAT-AAATTTTAAATTATTGACAAAATT-TAAATGTCACCTAAAACAAAAAATG
1 AATTCATCATAGATAAAATTTTAAATTAATGACAAAATTATAAATGTCA-C-AAAACAAAAAATC
* * *** *
25763131 TCAAAAAACATTTCCCACCAATTAAATTTGGTGGTAAAAGTTGTGACATTTATATTATTATCATA
64 TCAAAAAACATTTCCCACCAAATAAAATTGACAGTAAAAGTTGTGACATTTATATTATCATCATA
* ** * ** * *
25763196 TACCACCATACATTGATGTGACTAAATTGCAATGTCATTAATAGTTAACTAAAGTGTTCAATTTA
129 TAACACCATACATAAAAGTGAAGAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCAATTTG
*
25763261 TGACAAAAATTAATAACGTCACCTAAAATTTATCAAAAAA
194 TGACAAAAATTAATAACGTCACCTAAAATCTATC-AAAAA
** **
25763301 AATTTGTCATAGATAAAATTTTAAATTGGTGACAAAATTAT-AATGTCAC
1 AATTCATCATAGATAAAATTTTAAATTAATGACAAAATTATAAATGTCAC
25763350 CTAAAATAAA
Statistics
Matches: 419, Mismatches: 83, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
233 93 0.22
234 100 0.24
235 43 0.10
236 60 0.14
237 103 0.25
238 20 0.05
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (232 bp):
AATTCATCATAGATAAAATTTTAAATTAATGACAAAATTATAAATGTCACAAAACAAAAAATCTC
AAAAAACATTTCCCACCAAATAAAATTGACAGTAAAAGTTGTGACATTTATATTATCATCATATA
ACACCATACATAAAAGTGAAGAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCAATTTGTG
ACAAAAATTAATAACGTCACCTAAAATCTATCAAAAA
Found at i:25765301 original size:14 final size:15
Alignment explanation
Indices: 25765282--25765317 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
25765272 TTTCATCCCA
25765282 TTATTTTTAT-TGTT
1 TTATTTTTATATGTT
*
25765296 TTATTTTTATATTTT
1 TTATTTTTATATGTT
25765311 TTATTTT
1 TTATTTT
25765318 AACAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (15 bp):
TTATTTTTATATGTT
Found at i:25765318 original size:14 final size:15
Alignment explanation
Indices: 25765282--25765318 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
25765272 TTTCATCCCA
25765282 TTATTTT-TATTGTT
1 TTATTTTATATTGTT
25765296 TTATTTTTATATT-TT
1 TTA-TTTTATATTGTT
25765311 TTATTTTA
1 TTATTTTA
25765319 ACAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 9 0.43
16 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (15 bp):
TTATTTTATATTGTT
Found at i:25765642 original size:3 final size:3
Alignment explanation
Indices: 25765634--25765686 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
25765624 TTTATTTAAA
* *
25765634 ATT ATT ATT ATT ATT AGT ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25765682 ATT AT
1 ATT AT
25765687 GCATAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:25766278 original size:3 final size:3
Alignment explanation
Indices: 25766272--25766298 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25766262 CTTCGTCATC
25766272 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
25766299 TTATGACATA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.