Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4364108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 17
Found at i:2679134 original size:72 final size:71
Alignment explanation
Indices: 2678978--2679220 Score: 274
Period size: 72 Copynumber: 3.3 Consensus size: 71
2678968 AATTTCAAAT
* * *
2678978 ATAGTTTTTGAAAATATATAAAATATAGTTTTTGAAAACTTATTTTCAAAAACATATAATATATA
1 ATAG-TTTTGAAAACATATAATATATAGTTTTT-AAAACGT-TTTT--AAAACATATAATATATA
2679043 G-TTTTTTAAA
61 GTTTTTTTAAA
* *
2679053 ATAGTTTTGAAAACGTATAATATATAGTTTTTAAAACGGTTTTTAAAACATATAGTATATAGTTT
1 ATAGTTTTGAAAACATATAATATATAGTTTTTAAAAC-GTTTTTAAAACATATAATATATAGTTT
2679118 TTTTAAA
65 TTTTAAA
* * * **
2679125 ATAGTTTTGAAAACGTATAATATATAGTTTTTTAAAAAGTTTTGAAAATGTATAATATATA-TTT
1 ATAGTTTTGAAAACATATAATATATAG-TTTTTAAAACGTTTTTAAAACATATAATATATAGTTT
*
2679189 TTTAAAA
65 TTTTAAA
* * *
2679196 ACAATTTTTGAAAGCATATAATATA
1 A-TAGTTTTGAAAACATATAATATA
2679221 ATATTATATA
Statistics
Matches: 149, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
71 27 0.18
72 74 0.50
73 18 0.12
74 26 0.17
75 4 0.03
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (71 bp):
ATAGTTTTGAAAACATATAATATATAGTTTTTAAAACGTTTTTAAAACATATAATATATAGTTTT
TTTAAA
Found at i:2679281 original size:4 final size:4
Alignment explanation
Indices: 2679245--2679311 Score: 50
Period size: 4 Copynumber: 16.2 Consensus size: 4
2679235 TTATTATTAC
*
2679245 ATTT ATTAT ATATT A-TT ATATT ATATA ATTT ATTT ATTT ATTT ATTT
1 ATTT ATT-T AT-TT ATTT AT-TT AT-TT ATTT ATTT ATTT ATTT ATTT
*
2679292 -TGTT TTTT ATTT -TTT ATTT A
1 AT-TT ATTT ATTT ATTT ATTT A
2679312 GGTCCAAGTC
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
3 7 0.13
4 31 0.58
5 14 0.26
6 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:2679288 original size:39 final size:41
Alignment explanation
Indices: 2679211--2679290 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
2679201 TTTTGAAAGC
* *
2679211 ATATAATATAATATTATATAGTTTTTATTATTACATTTATT
1 ATATAATATAATATTATATAATTTATATTATTACATTTATT
* * *
2679252 ATATATTATTATATTATATAATTTAT-TTATT-TATTTATT
1 ATATAATATAATATTATATAATTTATATTATTACATTTATT
2679291 TTGTTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 7 0.21
40 5 0.15
41 22 0.65
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (41 bp):
ATATAATATAATATTATATAATTTATATTATTACATTTATT
Found at i:2681465 original size:12 final size:12
Alignment explanation
Indices: 2681448--2681473 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2681438 TGGGGTAGGA
2681448 ATTATTATTTTT
1 ATTATTATTTTT
2681460 ATTATTATTTTT
1 ATTATTATTTTT
2681472 AT
1 AT
2681474 CTTACTAATT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTATTATTTTT
Found at i:2692570 original size:36 final size:36
Alignment explanation
Indices: 2692485--2692594 Score: 134
Period size: 35 Copynumber: 3.1 Consensus size: 36
2692475 ATAATATAGA
* *
2692485 TTTTTAAATAGTTTTGAAAATGTATAATAAATAG-T
1 TTTTTAAATAGTTTTGAAAACGTATAATATATAGTT
* ** ** *
2692520 TTTTAAAACGGTTTTGAAAACACATAGTATATAGTT
1 TTTTTAAATAGTTTTGAAAACGTATAATATATAGTT
2692556 TTTTTAAATAGTTTTGAAAACGTATAATATATA-TT
1 TTTTTAAATAGTTTTGAAAACGTATAATATATAGTT
2692591 TTTT
1 TTTT
2692595 AAAAAACAAT
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
35 32 0.53
36 28 0.47
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (36 bp):
TTTTTAAATAGTTTTGAAAACGTATAATATATAGTT
Found at i:2692695 original size:5 final size:5
Alignment explanation
Indices: 2692658--2692705 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
2692648 ATTTATTATA
*
2692658 TATTAT TATAT TA-TT TATTT TATTT TA-TT TATTT TA-TT T-TTT TATTT
1 TATT-T TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT
2692705 T
1 T
2692706 TAATTTCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
4 13 0.36
5 20 0.56
6 3 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:2692707 original size:14 final size:14
Alignment explanation
Indices: 2692653--2692705 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
2692643 ATTACATTTA
* *
2692653 TTATATATTATTATA
1 TTATTTATT-TTATT
2692668 TTATTTATTTTATT
1 TTATTTATTTTATT
2692682 TTATTTATTTTATT
1 TTATTTATTTTATT
2692696 TT-TTTATTTT
1 TTATTTATTTT
2692706 TAATTTCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.22
14 20 0.56
15 8 0.22
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTATTTTATT
Found at i:2695710 original size:40 final size:37
Alignment explanation
Indices: 2695644--2695744 Score: 141
Period size: 38 Copynumber: 2.6 Consensus size: 37
2695634 TTAAAATATG
*
2695644 TAAAAATTATATGCTACG-CTTTCTAAAAAAAATAGTATA
1 TAAATATT-TATGCTACGTCTTTCT--AAAAAATAGTATA
2695683 TAAATATTTATGCTACGTTCTTTCTAAAAAATAGTATA
1 TAAATATTTATGCTACG-TCTTTCTAAAAAATAGTATA
2695721 TAAATATTTATGCTACGTGCTTTC
1 TAAATATTTATGCTACGT-CTTTC
2695745 AAAGGAAGAT
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
37 1 0.02
38 44 0.76
39 7 0.12
40 6 0.10
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (37 bp):
TAAATATTTATGCTACGTCTTTCTAAAAAATAGTATA
Found at i:2701009 original size:58 final size:58
Alignment explanation
Indices: 2700911--2701021 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
2700901 TAGTGCTAGC
* *
2700911 CTGAATATGACACATAAGGTCGTGCCCACCATCTGTACTAGGTT-TCCTTTAGTACAGT
1 CTGAATATGACACATAAGGTCGTGCCCACCATATGCACTA-GTTATCCTTTAGTACAGT
2700969 CTGAATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATCCTTTAGT
1 CTGAATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATCCTTTAGT
2701022 GCAATCCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 3 0.06
58 47 0.94
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (58 bp):
CTGAATATGACACATAAGGTCGTGCCCACCATATGCACTAGTTATCCTTTAGTACAGT
Found at i:2712755 original size:3 final size:3
Alignment explanation
Indices: 2712749--2712786 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2712739 CTGATGATGA
*
2712749 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGA TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
2712787 ATGATGAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.00, G:0.63, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:2712791 original size:9 final size:9
Alignment explanation
Indices: 2712743--2712792 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
2712733 CTGTTCCTGA
*
2712743 TGATGATGG
1 TGATGGTGG
*
2712752 TGGTGGTGG
1 TGATGGTGG
*
2712761 TGGTGGTGG
1 TGATGGTGG
*
2712770 TGGTGGTGG
1 TGATGGTGG
*
2712779 TGATGGTGA
1 TGATGGTGG
2712788 TGATG
1 TGATG
2712793 AGAGTGAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.10, C:0.00, G:0.56, T:0.34
Consensus pattern (9 bp):
TGATGGTGG
Found at i:2713632 original size:16 final size:18
Alignment explanation
Indices: 2713602--2713634 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2713592 TGTTACAGAC
2713602 ATTCTATTTTATGTAGAA
1 ATTCTATTTTATGTAGAA
2713620 ATTCT-TTTT-TGTAGA
1 ATTCTATTTTATGTAGA
2713635 TCTGTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (18 bp):
ATTCTATTTTATGTAGAA
Found at i:2716177 original size:20 final size:20
Alignment explanation
Indices: 2716152--2716194 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2716142 GATTTTATAT
2716152 TGTTACCATATTGGAAAAAA
1 TGTTACCATATTGGAAAAAA
2716172 TGTTACCATATTGGAAAAAA
1 TGTTACCATATTGGAAAAAA
2716192 TGT
1 TGT
2716195 CTCGACGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTTACCATATTGGAAAAAA
Found at i:2716952 original size:47 final size:48
Alignment explanation
Indices: 2716890--2716983 Score: 127
Period size: 49 Copynumber: 2.0 Consensus size: 48
2716880 TATATTTTTA
* * *
2716890 TTATAATTATATTTTTAT-ATTTTTATTATAGTTTAAATTGATATAAT
1 TTATAATAATATTTTTATAATATTTATTATAGTTTAAATTAATATAAT
* *
2716937 TTATAATAATATTTTTTTGAATATTTATTATAGTTTATATTAATATA
1 TTATAATAATATTTTTAT-AATATTTATTATAGTTTAAATTAATATA
2716984 TTCATATAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 16 0.40
49 24 0.60
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (48 bp):
TTATAATAATATTTTTATAATATTTATTATAGTTTAAATTAATATAAT
Found at i:2717478 original size:26 final size:24
Alignment explanation
Indices: 2717447--2717504 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
2717437 AACAATTAAG
*
2717447 TTTTAAATTGTACTGTTGTACAACAC
1 TTTTAAATTGTA-T-TTCTACAACAC
* *
2717473 TTTTAAAATTTTATTTCTACCACAC
1 TTTT-AAATTGTATTTCTACAACAC
2717498 TTTTAAA
1 TTTTAAA
2717505 AATAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 3 0.11
25 13 0.46
26 5 0.18
27 7 0.25
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (24 bp):
TTTTAAATTGTATTTCTACAACAC
Found at i:2718156 original size:3 final size:3
Alignment explanation
Indices: 2718150--2718183 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
2718140 TTTTTTCTTC
*
2718150 AAT AAT AAT AAT AAT AAT AAT AAT GAAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
2718184 GCCAATAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.93
4 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2718304 original size:2 final size:2
Alignment explanation
Indices: 2718299--2718336 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2718289 CGCTGAGATA
2718299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2718337 CGAGTATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2719281 original size:2 final size:2
Alignment explanation
Indices: 2719274--2719304 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2719264 ATAAATCTTT
2719274 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2719305 GTATGTATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2727713 original size:18 final size:18
Alignment explanation
Indices: 2727686--2727720 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2727676 GATCACACTA
*
2727686 AAAAAATGATGTCACACC
1 AAAAAATGATATCACACC
*
2727704 AAAAACTGATATCACAC
1 AAAAAATGATATCACAC
2727721 GCTCCTTATG
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:0.51, C:0.23, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAAAATGATATCACACC
Found at i:2728065 original size:23 final size:22
Alignment explanation
Indices: 2728012--2728066 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
2728002 ATGAACACTA
* *
2728012 TTTACTTTTACTTGCTTTTTCT
1 TTTACTTTGACTTGCTGTTTCT
*
2728034 TTT-CTTTTGATCTTTCTGTTTCT
1 TTTAC-TTTGA-CTTGCTGTTTCT
2728057 TTTACTTTGA
1 TTTACTTTGA
2728067 AGATGACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.04
22 7 0.26
23 18 0.67
24 1 0.04
ACGTcount: A:0.09, C:0.16, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTACTTTGACTTGCTGTTTCT
Found at i:2728310 original size:24 final size:23
Alignment explanation
Indices: 2728283--2728329 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
2728273 GGTTAAGTGA
2728283 AAATGAATAA-AAATAGAATGATGG
1 AAATGAA-AACAAATAG-ATGATGG
2728307 AAATGAAAACGAAATAGATGATG
1 AAATGAAAAC-AAATAGATGATG
2728330 ATGACGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 2 0.10
24 13 0.62
25 6 0.29
ACGTcount: A:0.57, C:0.02, G:0.21, T:0.19
Consensus pattern (23 bp):
AAATGAAAACAAATAGATGATGG
Found at i:2734404 original size:21 final size:22
Alignment explanation
Indices: 2734369--2734409 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2734359 AGGAGGAGAT
2734369 GAAAAAGATGAACTCATTGAGG
1 GAAAAAGATGAACTCATTGAGG
*
2734391 GAAAAAGA-GCACTCATTGA
1 GAAAAAGATGAACTCATTGA
2734410 ATGAGAGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.17
Consensus pattern (22 bp):
GAAAAAGATGAACTCATTGAGG
Found at i:2736089 original size:17 final size:17
Alignment explanation
Indices: 2736067--2736102 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2736057 TAAGAGGTTG
2736067 ATTAATTAGCCACTAGC
1 ATTAATTAGCCACTAGC
*
2736084 ATTAATTAGCCACTGGC
1 ATTAATTAGCCACTAGC
2736101 AT
1 AT
2736103 GCTACTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (17 bp):
ATTAATTAGCCACTAGC
Found at i:2737271 original size:434 final size:433
Alignment explanation
Indices: 2736434--2737302 Score: 1107
Period size: 434 Copynumber: 2.0 Consensus size: 433
2736424 CTGCCAAATT
*** * * * *
2736434 AAATGATACTATGTTTGTCAAAGCGATTGAGGTAAAATTGATAATCTAAAAGCTATCATGCTATC
1 AAATGATACTATGTCCATCAAAGAGATTGAGGTAAAACTAAGAATCTAAAAGCTATCATGCTATC
* * * * * ** * * *
2736499 TTCTGGTGCGAGCATTGAGTTTAATGAGGAACCGGAGTAGTTAAAAGCTACTATATAATTAAAGA
66 TTATGCTGCAAGCATTAAGCTTAATGAGGAACCAAAGCAATTAAAAGCTACTATATAATCAAAGA
* * * * * *
2736564 TTAGAATGGAGGAGAAGGAATGATTGTAGAAGTCTAGGTTGAGGTGGTTCAAGGAAGGTTATAGA
131 TTAGAAGGGAGCAGAAGGAATGATTGCAGAAGTCTAGATTGAGGTGGTTCAAAGAAGGTAATAGA
* ** * * *
2736629 AACACCAAATTCTTTCACCTTTTAGTTTCTTTAAGAGGTAATTGTAACCATAAATTGTCTATTCG
196 AACAACAAATTCTTTCACCTTTTAACTTCATTAAGAGGTAAATGCAACCATAAATTGTCTATTCG
* * * *
2736694 GGTGAGAAATATTGAGATTACAGGCCCCAAACAAATATCTATGTTGTTTGAGAATCACTTTCAAA
261 GGTGAGAAATATTAAGATTACAGACCCCAAACAAATATCTATGTTGTTCGAGAATAACTTTCAAA
*
2736759 AAAATTTCAACAAAGTAAACATGCTCCCAATTAAAAGCTTAGGTATTTCCTTCAAGAAACTTGGT
326 AAAATTTCAACAAAGTAAACAAGCTCCCAATTAAAAGCTTAGGTATTTCCTTCAAGAAACTTGGT
2736824 TCGATTTCTAAAATATCAATTGAAGCTCTC-TTTTCAATAGAAG
391 TCGATTTCTAAAATATCAATTGAAGCTC-CATTTTCAATAGAAG
* *
2736867 AAATGATACTATGTCCATCAAAGATATTGAAGGTAAAACTAAGAATCTAGAAGCTATCATGCTAT
1 AAATGATACTATGTCCATCAAAGAGATTG-AGGTAAAACTAAGAATCTAAAAGCTATCATGCTAT
* * * ** *
2736932 CTTATGCTGTAAGCATTAAGCTTAATGAGGAACTAAAGCAATTAAAATCTACTATATGGTCGAAG
65 CTTATGCTGCAAGCATTAAGCTTAATGAGGAACCAAAGCAATTAAAAGCTACTATATAATCAAAG
* * *
2736997 ATTAGAAGGGAGCAGAAGGAATGGTTGCAGAAGTCTAGATTGATGTGGTTCAAAGAATGTAATAG
130 ATTAGAAGGGAGCAGAAGGAATGATTGCAGAAGTCTAGATTGAGGTGGTTCAAAGAAGGTAATAG
* ** *
2737062 AAACAACAAATTCTTTCACTTTTTAACTTCATTAAGAGGTAAATGCAACTACAT-TTTTTTCTAT
195 AAACAACAAATTCTTTCACCTTTTAACTTCATTAAGAGGTAAATGCAAC--CATAAATTGTCTAT
* * * * * * *
2737126 TTGGGTGAGAGATTTTAAGATTGCATACCCCAAGCAAATCTCTATGTTGTTCGAGAATAACTTTC
258 TCGGGTGAGAAATATTAAGATTACAGACCCCAAACAAATATCTATGTTGTTCGAGAATAACTTTC
* * * **
2737191 GAAAAAGTTTCAACAAAGTAAACAAGCTCCCGATTAAAAGCTTAGGT-TTTCCTTCAAGAGGCTT
323 AAAAAAATTTCAACAAAGTAAACAAGCTCCCAATTAAAAGCTTAGGTATTTCCTTCAAGAAACTT
*
2737255 GGTTC-AGTTTCTAAAATATTAATTGAAGCTCCATTTTCAATAGAAG
388 GGTTCGA-TTTCTAAAATATCAATTGAAGCTCCATTTTCAATAGAAG
2737301 AA
1 AA
2737303 GTATAGGCAC
Statistics
Matches: 369, Mismatches: 62, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
433 26 0.07
434 236 0.64
435 104 0.28
436 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (433 bp):
AAATGATACTATGTCCATCAAAGAGATTGAGGTAAAACTAAGAATCTAAAAGCTATCATGCTATC
TTATGCTGCAAGCATTAAGCTTAATGAGGAACCAAAGCAATTAAAAGCTACTATATAATCAAAGA
TTAGAAGGGAGCAGAAGGAATGATTGCAGAAGTCTAGATTGAGGTGGTTCAAAGAAGGTAATAGA
AACAACAAATTCTTTCACCTTTTAACTTCATTAAGAGGTAAATGCAACCATAAATTGTCTATTCG
GGTGAGAAATATTAAGATTACAGACCCCAAACAAATATCTATGTTGTTCGAGAATAACTTTCAAA
AAAATTTCAACAAAGTAAACAAGCTCCCAATTAAAAGCTTAGGTATTTCCTTCAAGAAACTTGGT
TCGATTTCTAAAATATCAATTGAAGCTCCATTTTCAATAGAAG
Found at i:2739387 original size:27 final size:28
Alignment explanation
Indices: 2739324--2739388 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
2739314 CTTATTACTG
*
2739324 CAAC-TTTTCTCAATTTATAGTTTTGTTA
1 CAACATTTTCTCAATTTATAG-TTTGCTA
2739352 CAACA-TTTCTC-ATTTAATA-TTTGCTA
1 CAACATTTTCTCAATTT-ATAGTTTGCTA
2739378 CAACATTTTCT
1 CAACATTTTCT
2739389 TATAATTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
26 11 0.33
27 9 0.27
28 13 0.39
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (28 bp):
CAACATTTTCTCAATTTATAGTTTGCTA
Found at i:2742118 original size:19 final size:19
Alignment explanation
Indices: 2742091--2742129 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2742081 GCCTAGCAAT
*
2742091 TTTGGAAATTTTACACTTA
1 TTTGCAAATTTTACACTTA
2742110 TTTGCAAATTTTACACTTA
1 TTTGCAAATTTTACACTTA
2742129 T
1 T
2742130 ACATATTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTGCAAATTTTACACTTA
Found at i:2745676 original size:12 final size:11
Alignment explanation
Indices: 2745638--2745683 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
2745628 TGATTACTAC
2745638 TTTC-TATT-T
1 TTTCTTATTCT
* *
2745647 TTTCTTCTTAT
1 TTTCTTATTCT
2745658 TTTCTTATTCT
1 TTTCTTATTCT
2745669 TTTCCTTATTCT
1 TTT-CTTATTCT
2745681 TTT
1 TTT
2745684 GGAGTTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 4 0.13
10 3 0.10
11 13 0.42
12 11 0.35
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTATTCT
Found at i:2748816 original size:21 final size:20
Alignment explanation
Indices: 2748769--2748816 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
2748759 GATGAAGAAC
*
2748769 AAGTTGGATTTGGATGATTT
1 AAGTTGGATTTGGATGATTG
2748789 AAGGTTGGATTT-GATGTTATTG
1 AA-GTTGGATTTGGATG--ATTG
2748811 AAGTTG
1 AAGTTG
2748817 TAAAGTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.25
21 13 0.54
22 5 0.21
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (20 bp):
AAGTTGGATTTGGATGATTG
Found at i:2760301 original size:13 final size:13
Alignment explanation
Indices: 2760236--2760300 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
2760226 TTGTATATCG
2760236 ATAGTAAGGCATA
1 ATAGTAAGGCATA
2760249 ATAGTAAGGCATA
1 ATAGTAAGGCATA
2760262 ATAGTAAGGCATA
1 ATAGTAAGGCATA
2760275 ATAGTAAGGCATA
1 ATAGTAAGGCATA
* *
2760288 TTAGTGAGGCATA
1 ATAGTAAGGCATA
2760301 TCAGGTGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.25
Consensus pattern (13 bp):
ATAGTAAGGCATA
Found at i:2764094 original size:32 final size:33
Alignment explanation
Indices: 2764045--2764114 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 33
2764035 GTTCTAAAAG
2764045 TTCTAGCTGGCATGTATACGATAATGAAATGTC
1 TTCTAGCTGGCATGTATACGATAATGAAATGTC
2764078 TTCTAGCT-GCATGTATACGATAATGAAATGTC
1 TTCTAGCTGGCATGTATACGATAATGAAATGTC
2764110 TTCTA
1 TTCTA
2764115 ATATAGTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 29 0.78
33 8 0.22
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (33 bp):
TTCTAGCTGGCATGTATACGATAATGAAATGTC
Found at i:2767207 original size:17 final size:17
Alignment explanation
Indices: 2767166--2767207 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
2767156 CAGATTCCTG
2767166 ATCTAGAAATTGTGTTAA
1 ATCTAGAAA-TGTGTTAA
2767184 ATACTAGAAA-GTGTTAA
1 AT-CTAGAAATGTGTTAA
2767201 AGTCTAG
1 A-TCTAG
2767208 TAAAAATTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 12 0.55
18 3 0.14
19 7 0.32
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (17 bp):
ATCTAGAAATGTGTTAA
Found at i:2777186 original size:5 final size:5
Alignment explanation
Indices: 2777176--2777226 Score: 68
Period size: 5 Copynumber: 9.8 Consensus size: 5
2777166 AACGGTCAAT
2777176 GGTCG GGTCG GGTCG GGTCG GGTTAAC- GGTCG GGTCG GGTCG GGTCG
1 GGTCG GGTCG GGTCG GGTCG GG-T--CG GGTCG GGTCG GGTCG GGTCG
2777223 GGTC
1 GGTC
2777227 AGACCGGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
4 1 0.02
5 36 0.86
6 2 0.05
7 2 0.05
8 1 0.02
ACGTcount: A:0.04, C:0.20, G:0.55, T:0.22
Consensus pattern (5 bp):
GGTCG
Found at i:2784370 original size:13 final size:14
Alignment explanation
Indices: 2784347--2784384 Score: 69
Period size: 13 Copynumber: 2.8 Consensus size: 14
2784337 TGTCAAAGGA
2784347 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
2784361 AGTC-ACGGTCAAC
1 AGTCAACGGTCAAC
2784374 AGTCAACGGTC
1 AGTCAACGGTC
2784385 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.16
Consensus pattern (14 bp):
AGTCAACGGTCAAC
Found at i:2784391 original size:5 final size:5
Alignment explanation
Indices: 2784381--2784427 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
2784371 AACAGTCAAC
*
2784381 GGTCG GGTCG GGTC- AGTCG GGTCG GGTCG GGTC- GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
2784428 AGTCGGGTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 7 0.18
5 31 0.82
ACGTcount: A:0.02, C:0.21, G:0.55, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:2784399 original size:14 final size:15
Alignment explanation
Indices: 2784381--2784435 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 15
2784371 AACAGTCAAC
*
2784381 GGTCGGGTCGGGTC-
1 GGTCGAGTCGGGTCG
* *
2784395 AGTCGGGTCGGGTCG
1 GGTCGAGTCGGGTCG
2784410 GGTCG-GTCGGGTCG
1 GGTCGAGTCGGGTCG
2784424 GGTC-AGTCGGGT
1 GGTCGAGTCGGGT
2784436 GGTGTCAGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 33 0.89
15 4 0.11
ACGTcount: A:0.04, C:0.20, G:0.55, T:0.22
Consensus pattern (15 bp):
GGTCGAGTCGGGTCG
Found at i:2784403 original size:19 final size:19
Alignment explanation
Indices: 2784381--2784427 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2784371 AACAGTCAAC
2784381 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
*
2784400 GGTCGGGTCGGGTCGGTCG
1 GGTCGGGTCGGGTCAGTCG
2784419 GGTCGGGTC
1 GGTCGGGTC
2784428 AGTCGGGTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.02, C:0.21, G:0.55, T:0.21
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGTCG
Found at i:2784435 original size:9 final size:9
Alignment explanation
Indices: 2784381--2784424 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
2784371 AACAGTCAAC
2784381 GGTCGGGTCG
1 GGTC-GGTCG
*
2784391 GGTCAGTCG
1 GGTCGGTCG
2784400 GGTCGGGTCG
1 GGTC-GGTCG
2784410 GGTCGGTCG
1 GGTCGGTCG
2784419 GGTCGG
1 GGTCGG
2784425 GTCAGTCGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 19 0.61
10 12 0.39
ACGTcount: A:0.02, C:0.20, G:0.57, T:0.20
Consensus pattern (9 bp):
GGTCGGTCG
Found at i:2784450 original size:33 final size:33
Alignment explanation
Indices: 2784380--2784450 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
2784370 CAACAGTCAA
* **
2784380 CGGTCGGGTCGGGTCAGTCGGGTCGGGTCGGGT
1 CGGTCGGGTCGGGTCAGTCGGGTCGGGTCAGAC
2784413 CGGTCGGGTCGGGTCAGTCGGGT-GGTGTCAGAC
1 CGGTCGGGTCGGGTCAGTCGGGTCGG-GTCAGAC
2784446 CGGTC
1 CGGTC
2784451 AAACCGGTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.06, C:0.23, G:0.51, T:0.21
Consensus pattern (33 bp):
CGGTCGGGTCGGGTCAGTCGGGTCGGGTCAGAC
Found at i:2784451 original size:9 final size:9
Alignment explanation
Indices: 2784439--2784507 Score: 57
Period size: 10 Copynumber: 7.2 Consensus size: 9
2784429 GTCGGGTGGT
*
2784439 GTCAGACCG
1 GTCAAACCG
2784448 GTCAAACCG
1 GTCAAACCG
*
2784457 GTTCATACCG
1 G-TCAAACCG
*
2784467 GTCAAACAG
1 GTCAAACCG
*
2784476 GTACGAACCG
1 GT-CAAACCG
*
2784486 GTCGAAACTG
1 GTC-AAACCG
2784496 GTCAGAACCG
1 GTCA-AACCG
2784506 GT
1 GT
2784508 TGAAAACTGG
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
9 19 0.40
10 28 0.60
ACGTcount: A:0.29, C:0.28, G:0.28, T:0.16
Consensus pattern (9 bp):
GTCAAACCG
Found at i:2784485 original size:19 final size:18
Alignment explanation
Indices: 2784444--2784507 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
2784434 GTGGTGTCAG
*
2784444 ACCGGTCAAACCGGTTC-A
1 ACCGGTCAAACAGG-TCGA
2784462 TACCGGTCAAACAGGTACGA
1 -ACCGGTCAAACAGGT-CGA
*
2784482 ACCGGTCGAAACTGGTCAGA
1 ACCGGTC-AAACAGGTC-GA
2784502 ACCGGT
1 ACCGGT
2784508 TGAAAACTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.03
19 22 0.56
20 16 0.41
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.16
Consensus pattern (18 bp):
ACCGGTCAAACAGGTCGA
Found at i:2784516 original size:21 final size:20
Alignment explanation
Indices: 2784463--2784524 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
2784453 ACCGGTTCAT
*
2784463 ACCGGTC-AAACAGGT-ACGA
1 ACCGGTCGAAACTGGTCA-GA
2784482 ACCGGTCGAAACTGGTCAGA
1 ACCGGTCGAAACTGGTCAGA
*
2784502 ACCGGTTGAAAACTGGTCA-A
1 ACCGGTCG-AAACTGGTCAGA
2784522 ACC
1 ACC
2784525 AGTTTCCAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
19 7 0.18
20 20 0.53
21 11 0.29
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.15
Consensus pattern (20 bp):
ACCGGTCGAAACTGGTCAGA
Found at i:2794547 original size:64 final size:64
Alignment explanation
Indices: 2794494--2794656 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
2794484 CGGTGCACCA
*
2794494 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
2794558 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
2794623 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
2794657 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2794628 original size:19 final size:19
Alignment explanation
Indices: 2794604--2794654 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
2794594 GAAAATATTC
2794604 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
2794623 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
2794642 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2794655 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2800437 original size:22 final size:21
Alignment explanation
Indices: 2800395--2800434 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2800385 GAGTTTGTTT
*
2800395 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2800416 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2800435 ACAGTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2802422 original size:64 final size:64
Alignment explanation
Indices: 2802352--2802514 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
2802342 CGGTGCACCA
*
2802352 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * * **
2802416 CTTGTGCATCTATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
2802481 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
2802515 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 38 0.46
65 45 0.54
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2802486 original size:19 final size:19
Alignment explanation
Indices: 2802462--2802512 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
2802452 GAAAATATTC
2802462 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
2802481 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
2802500 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2802513 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2803720 original size:27 final size:28
Alignment explanation
Indices: 2803665--2803743 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 28
2803655 TAGATTCTAT
* *
2803665 AAAATAGAAAAAGAAGATAATATTAAAG
1 AAAATAAAAAAAGAAGAAAATATTAAAG
* *
2803693 AAAATAAAAAAAGGATAAAATATT-AAG
1 AAAATAAAAAAAGAAGAAAATATTAAAG
*
2803720 AATGAATAAAGACAA-AAGAAAATA
1 AA--AATAAA-AAAAGAAGAAAATA
2803744 AGGGTATGAG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
27 5 0.12
28 20 0.49
29 13 0.32
30 3 0.07
ACGTcount: A:0.70, C:0.01, G:0.13, T:0.16
Consensus pattern (28 bp):
AAAATAAAAAAAGAAGAAAATATTAAAG
Found at i:2804659 original size:20 final size:21
Alignment explanation
Indices: 2804634--2804673 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2804624 CTTTGTATAG
2804634 TAGTATCGATACCAT-AGGCA
1 TAGTATCGATACCATCAGGCA
*
2804654 TAGTATTGATACCATCAGGC
1 TAGTATCGATACCATCAGGC
2804674 CCCAACAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
TAGTATCGATACCATCAGGCA
Found at i:2812782 original size:20 final size:20
Alignment explanation
Indices: 2812757--2812806 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2812747 AGTCATCAGG
*
2812757 GTATCGATACC-AGTAGGTGA
1 GTATCGATACCTA-TAGGTCA
*
2812777 GTATCGATACCTATAGTTCA
1 GTATCGATACCTATAGGTCA
2812797 GTATCGATAC
1 GTATCGATAC
2812807 TAAGGGGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (20 bp):
GTATCGATACCTATAGGTCA
Found at i:2817271 original size:41 final size:40
Alignment explanation
Indices: 2817226--2817556 Score: 259
Period size: 41 Copynumber: 8.0 Consensus size: 40
2817216 TGATCTTAGT
* * * *
2817226 AACATGCACTAATTCACAATTTGATCCAGTTCAATCATGGA
1 AACATGCAATAATTCACAATTCGAT-CAATTCAATCATGGC
* *
2817267 AACATGTAATAATTCACCATTCGAATCAATTCAATCATGGC
1 AACATGCAATAATTCACAATTCG-ATCAATTCAATCATGGC
** *
2817308 AGTATGCAATAATTCACAATCCGATTCAATTCAATCATGGC
1 AACATGCAATAATTCACAATTCGA-TCAATTCAATCATGGC
* * *
2817349 AGCATGCAATAATTCACAATTCAATTCAATCCAATTTATTCATGGC
1 AACATGCAATAATTCACAATTCGA-TCAATTC-A---A-TCATGGC
* * *
2817395 AACATGCAATAATTCACAATTCAACTTAATTCAATCATGAC
1 AACATGCAATAATTCACAATTCGA-TCAATTCAATCATGGC
* * * * * * *
2817436 ATCATGAAATAATTCATAGTTCAAATTAATTCAATCATTGC
1 AACATGCAATAATTCACAATTC-GATCAATTCAATCATGGC
* * * * *
2817477 AGCATGCAAAAATTAACAATTCAACTTAATTCAATCATGG-
1 AACATGCAATAATTCACAATTCGA-TCAATTCAATCATGGC
* * *
2817517 AAGCATGTAATAATTCACAAATCAATTCAATTCAATCATG
1 AA-CATGCAATAATTCACAATTCGA-TCAATTCAATCATG
2817557 ACACTCAATA
Statistics
Matches: 240, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.02
41 193 0.80
42 6 0.03
45 2 0.01
46 35 0.15
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (40 bp):
AACATGCAATAATTCACAATTCGATCAATTCAATCATGGC
Found at i:2817378 original size:82 final size:83
Alignment explanation
Indices: 2817255--2817556 Score: 337
Period size: 82 Copynumber: 3.6 Consensus size: 83
2817245 TTTGATCCAG
* * * *
2817255 TTCAATCATGGAAACATGTAATAATTCACCATTCGAA-TCAATTCAATCATGGCAGTATGCAATA
1 TTCAATCATGGAAGCATGTAATAATTCACAATTCAAATTCAATTCAATCATGGCAGCATGCAATA
* *
2817319 ATTCACAATCCGA-TTCAA
66 ATTCACAATTCAACTT-AA
* * * *
2817337 TTCAATCATGGCAGCATGCAATAATTCACAATTC-AATTCAATCCAATTTATTCATGGCAACATG
1 TTCAATCATGGAAGCATGTAATAATTCACAATTCAAATTCAATTC-A---A-TCATGGCAGCATG
2817401 CAATAATTCACAATTCAACTTAA
61 CAATAATTCACAATTCAACTTAA
* * * * * *
2817424 TTCAATCAT-GACATCATGAAATAATTCATAGTTCAAATT-AATTCAATCATTGCAGCATGCAAA
1 TTCAATCATGGA-AGCATGTAATAATTCACAATTCAAATTCAATTCAATCATGGCAGCATGCAAT
*
2817487 AATTAACAATTCAACTTAA
65 AATTCACAATTCAACTTAA
*
2817506 TTCAATCATGGAAGCATGTAATAATTCACAAATC-AATTCAATTCAATCATG
1 TTCAATCATGGAAGCATGTAATAATTCACAATTCAAATTCAATTCAATCATG
2817557 ACACTCAATA
Statistics
Matches: 184, Mismatches: 25, Indels: 22
0.80 0.11 0.10
Matches are distributed among these distances:
81 6 0.03
82 105 0.57
83 4 0.02
86 3 0.02
87 60 0.33
88 6 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (83 bp):
TTCAATCATGGAAGCATGTAATAATTCACAATTCAAATTCAATTCAATCATGGCAGCATGCAATA
ATTCACAATTCAACTTAA
Found at i:2817392 original size:128 final size:123
Alignment explanation
Indices: 2817257--2817559 Score: 344
Period size: 128 Copynumber: 2.4 Consensus size: 123
2817247 TGATCCAGTT
* * *
2817257 CAATCATGGAAACATGTAATAATTCACCATTCGAA-TCAATTCAATCATGGCAGT-ATGCAATAA
1 CAATCATGGAAACATGTAATAATTCACAATTC-AACTCAATTCAATCATGACA-TCATGAAATAA
** * *
2817320 TTCACA-ATCCGATTCAATTCAATCATGGCAGCATGCAATAATTCACAATTCAA-TTCAATC
64 TTCACAGATCAAATT-AATTCAATCATGGCAGCATGCAAAAATTAACAATTCAACTT-AATC
* * *
2817380 CAATTTATTCATGGCAACATGCAATAATTCACAATTCAACTTAATTCAATCATGACATCATGAAA
1 C-A---A-TCATGGAAACATGTAATAATTCACAATTCAACTCAATTCAATCATGACATCATGAAA
* * * *
2817445 TAATTCATAGTTCAAATTAATTCAATCATTGCAGCATGCAAAAATTAACAATTCAACTTAATT
61 TAATTCACAGATCAAATTAATTCAATCATGGCAGCATGCAAAAATTAACAATTCAACTTAATC
* * *
2817508 CAATCATGGAAGCATGTAATAATTCACAAATCAATTCAATTCAATCATGACA
1 CAATCATGGAAACATGTAATAATTCACAATTCAACTCAATTCAATCATGACA
2817560 CTCAATAGTT
Statistics
Matches: 151, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
123 44 0.29
124 2 0.01
127 5 0.03
128 93 0.62
129 7 0.05
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (123 bp):
CAATCATGGAAACATGTAATAATTCACAATTCAACTCAATTCAATCATGACATCATGAAATAATT
CACAGATCAAATTAATTCAATCATGGCAGCATGCAAAAATTAACAATTCAACTTAATC
Found at i:2819358 original size:16 final size:16
Alignment explanation
Indices: 2819319--2819365 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
2819309 TTCAATACTT
* *
2819319 AAATTAAAATAGAATGA
1 AAATTGAAATAAAAT-A
2819336 AAA-TGAAATAAAATA
1 AAATTGAAATAAAATA
2819351 AAATTG-AATAAAATA
1 AAATTGAAATAAAATA
2819366 TTACTATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 13 0.48
16 11 0.41
17 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (16 bp):
AAATTGAAATAAAATA
Found at i:2835088 original size:21 final size:20
Alignment explanation
Indices: 2835063--2835101 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2835053 CATTAGTGTC
*
2835063 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCAT-AAATCT
*
2835084 TTTGTCGAGGCCATAAAT
1 TTTGTCGAAGCCATAAAT
2835102 TCCTGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:2839570 original size:31 final size:30
Alignment explanation
Indices: 2839528--2839591 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
2839518 CACAATCTAC
*
2839528 ATAGCATTTTGAATT-AAGAAATTCAATATAT
1 ATAGCAATTTGAATTGAA-AAATTC-ATATAT
* *
2839559 ATAGCAATTTGATTTGAAAAATTCATGTAT
1 ATAGCAATTTGAATTGAAAAATTCATATAT
2839589 ATA
1 ATA
2839592 CATGCATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 19 0.66
32 2 0.07
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (30 bp):
ATAGCAATTTGAATTGAAAAATTCATATAT
Found at i:2840139 original size:41 final size:41
Alignment explanation
Indices: 2840014--2840324 Score: 168
Period size: 41 Copynumber: 7.6 Consensus size: 41
2840004 CATCATGTAC
* * *
2840014 TAATTCACAATTCGAA-TCAGTTCAATCATGGCAACATGTAA
1 TAATTCACAATTC-AATTCAATTCAATCATGACAACATGCAA
* * * ** * * *
2840055 TAATTCACTATTCGACTCAATTTGATCAAG-CTAGCATGAAA
1 TAATTCACAATTCAATTCAATTCAATCATGAC-AACATGCAA
* *
2840096 TAATTGAGAATTCAATTCAATTCAATCATCG-CAACATGCAA
1 TAATTCACAATTCAATTCAATTCAATCAT-GACAACATGCAA
*** *
2840137 TAATTCACAATTTGTTTCAATTCAATCATGACAGCATGCAA
1 TAATTCACAATTCAATTCAATTCAATCATGACAACATGCAA
* * ** * *
2840178 TAATTCATAATTCAACTT-AATTCAATAATGTTAGCATGCTA
1 TAATTCACAATTCAA-TTCAATTCAATCATGACAACATGCAA
* * * * * *
2840219 TAATTCATAATTCGACTGAATTCGATCATGTA-AGCATGCGAA
1 TAATTCACAATTCAATTCAATTCAATCATG-ACAACATGC-AA
* * * * * * * *
2840261 -AATTAATAATTTGACTT-AATTCTATCATGTCACCATGAAA
1 TAATTCACAA-TTCAATTCAATTCAATCATGACAACATGCAA
*
2840301 TAATTCATAATTCAATTCAATTCA
1 TAATTCACAATTCAATTCAATTCA
2840325 GTCGTGGCAC
Statistics
Matches: 207, Mismatches: 51, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
40 11 0.05
41 188 0.91
42 8 0.04
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (41 bp):
TAATTCACAATTCAATTCAATTCAATCATGACAACATGCAA
Found at i:2840157 original size:82 final size:82
Alignment explanation
Indices: 2840034--2840324 Score: 207
Period size: 82 Copynumber: 3.5 Consensus size: 82
2840024 TTCGAATCAG
* * * **
2840034 TTCAATCATGGCAACATGTAATAATTCACTATTCGACTCAATTTGATCAAG-CTAGCATGAAATA
1 TTCAATCATCGCAACATGCAATAATTCACAATTCGACTCAATTCAATCAAGAC-AGCATGAAATA
*
2840098 ATTGAGAATTCAA-TTCAA
65 ATTCAGAATTCAACTT-AA
* ** * *
2840116 TTCAATCATCGCAACATGCAATAATTCACAATTTGTTTCAATTCAATCATGACAGCATGCAATAA
1 TTCAATCATCGCAACATGCAATAATTCACAATTCGACTCAATTCAATCAAGACAGCATGAAATAA
*
2840181 TTCATAATTCAACTTAA
66 TTCAGAATTCAACTTAA
* * * * * * * * *
2840198 TTCAATAAT-GTTAGCATGCTATAATTCATAATTCGACTGAATTCGATCATGTA-AGCATGCGAA
1 TTCAATCATCG-CAACATGCAATAATTCACAATTCGACTCAATTCAATCAAG-ACAGCATG-AAA
* * **
2840261 -AATTAATAATTTGACTTAA
63 TAATTCAGAATTCAACTTAA
* * * * * *
2840280 TTCTATCAT-GTCACCATGAAATAATTCATAATTCAATTCAATTCA
1 TTCAATCATCG-CAACATGCAATAATTCACAATTCGACTCAATTCA
2840325 GTCGTGGCAC
Statistics
Matches: 168, Mismatches: 36, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
81 1 0.01
82 161 0.96
83 6 0.04
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (82 bp):
TTCAATCATCGCAACATGCAATAATTCACAATTCGACTCAATTCAATCAAGACAGCATGAAATAA
TTCAGAATTCAACTTAA
Found at i:2840213 original size:123 final size:124
Alignment explanation
Indices: 2840014--2840324 Score: 285
Period size: 123 Copynumber: 2.5 Consensus size: 124
2840004 CATCATGTAC
* * * * * * * *
2840014 TAATTCACAATTCGAATCAGTTCAATCATGGCAACATGTAATAATTCACT-ATTCGACTCAATTT
1 TAATTCACAATTTGATTCAATTCAATCATGACAACATGAAATAATTCA-TAATTCAACTTAATTC
* * *
2840078 GATCAAGCTAGCATGAAATAATTGAGAATTCAATTCAATTCAATCATCGCAA-CATGC-AA
65 AATCAAGCTAGCATGAAATAATTCAGAATTCAACTCAATTCAATCAT-GCAAGCATGCGAA
* * *
2840137 TAATTCACAATTTGTTTCAATTCAATCATGACAGCATGCAATAATTCATAATTCAACTTAATTCA
1 TAATTCACAATTTGATTCAATTCAATCATGACAACATGAAATAATTCATAATTCAACTTAATTCA
* ** * * * * *
2840202 AT-AATGTTAGCATGCTATAATTCATAATTCGACTGAATTCGATCATGTAAGCATGCGAA
66 ATCAA-GCTAGCATGAAATAATTCAGAATTCAACTCAATTCAATCATGCAAGCATGCGAA
* * * * *
2840261 -AATTAATAATTTGACTT-AATTCTATCATGTCACCATGAAATAATTCATAATTCAA-TTCAATT
1 TAATTCACAATTTGA-TTCAATTCAATCATGACAACATGAAATAATTCATAATTCAACTT-AATT
2840323 CA
64 CA
2840325 GTCGTGGCAC
Statistics
Matches: 154, Mismatches: 28, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
122 8 0.05
123 142 0.92
124 4 0.03
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (124 bp):
TAATTCACAATTTGATTCAATTCAATCATGACAACATGAAATAATTCATAATTCAACTTAATTCA
ATCAAGCTAGCATGAAATAATTCAGAATTCAACTCAATTCAATCATGCAAGCATGCGAA
Found at i:2844422 original size:22 final size:22
Alignment explanation
Indices: 2844396--2844445 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
2844386 GCACTAATTT
2844396 GATGATTCCAACAGGTTTAGGA
1 GATGATTCCAACAGGTTTAGGA
*
2844418 GATGATTCCAACATGTTTAGGA
1 GATGATTCCAACAGGTTTAGGA
*
2844440 AATGAT
1 GATGAT
2844446 GTTTGAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (22 bp):
GATGATTCCAACAGGTTTAGGA
Found at i:2848502 original size:22 final size:21
Alignment explanation
Indices: 2848460--2848499 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2848450 GAGTTTATTT
*
2848460 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2848481 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2848500 ACAATTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2855181 original size:424 final size:425
Alignment explanation
Indices: 2854587--2855404 Score: 1325
Period size: 426 Copynumber: 1.9 Consensus size: 425
2854577 AAAAGTTTTC
*
2854587 AAGTTTTATAGCTGATCCTCAAAATATTAGGCTCAATCTCATACCTGATGGGTTTAATCCTTTCA
1 AAGTTTTATAGCTGATCCTCAAAATATTAGGCTCAATCTCACACCTGATGGGTTTAATCCTTTCA
* *
2854652 AAATCATAAGTACTTCATAAAATACTTGGCATGTTTTGCTTGTCCTCTATAATTTCCCTCTGTGA
66 AAATCATAAGTACTCCATAAAATACTTGGCATGTTTTGCTTGTCCTCTATAATCTCCCTCTGTGA
* * *
2854717 ATTTGTATGAAACAATCATTCTTTATCTTATCAAGGATAATACCATGTG-AAAAAAGTCTTGAGA
131 ATTTGCATGAAACAATCATCCTTTATCTTATCAAGGATAATACCATGTGAAAAAAAGTCCTGAGA
* *
2854781 ATGTTAATGACATCTATATGCAACCTCATATTGAGGAGTTGAAACAATTATGGGTGAGCGTCGAA
196 ATGTTAATGACATCTATATCCAACCTCATATTGAGGAGTTGAAACAATTATGGGTGAGCATCGAA
* *
2854846 AAACATGATGTGTTGGAGAATGGGAACTTGAATTTATTTTCAACTTTATTATGGACTATTAATGA
261 AAACATGATGTGTTGAAGAATGAGAACTTGAATTTATTTTCAACTTTATTATGGACTATTAATGA
* * * *
2854911 TTTTCCTTCTTATGTAAATCTATCTAGTTGTAGTACCAAAGGTTGTTATGCATAACCTTATTGTG
326 TTTTCCTGCTTATGTAAATCTACCTAGTTGGAGTACCAAACGTTGTTATGCATAACCTTATTGTG
2854976 TTGCATGGACATGTTCAAAGTGGTTATATAAGAGA
391 TTGCATGGACATGTTCAAAGTGGTTATATAAGAGA
* * * * *
2855011 AAGTTTTATGGTTGATCCTCAAAAT-TTCAGGCTCGATCTTACATCTGATGGGTTTAATCCTTTC
1 AAGTTTTATAGCTGATCCTCAAAATATT-AGGCTCAATCTCACACCTGATGGGTTTAATCCTTTC
* * *
2855075 AAAATCATGAGTACTCCATAAAATGCTTGGCATGTTTTGCTTGTTCTCTATAATCTCCCTCTGTG
65 AAAATCATAAGTACTCCATAAAATACTTGGCATGTTTTGCTTGTCCTCTATAATCTCCCTCTGTG
*
2855140 AATTTGCATGAAACAATCATCCTTTATCTTATCAAGGATAATCCCATGTGAAAAAAAAGTCCTGA
130 AATTTGCATGAAACAATCATCCTTTATCTTATCAAGGATAATACCATGTG-AAAAAAAGTCCTGA
* * *
2855205 GAATGTTAGTGACATCTATATCCAACCTTATATTGAGGAGTTGAAACAATTTTGGGTGAGCATCG
194 GAATGTTAATGACATCTATATCCAACCTCATATTGAGGAGTTGAAACAATTATGGGTGAGCATCG
* *
2855270 AAACACATGATGTGTTGAAGAATGAGAACTTGAATTTATTTTCAACTTTATTATGGATTATTAAT
259 AAAAACATGATGTGTTGAAGAATGAGAACTTGAATTTATTTTCAACTTTATTATGGACTATTAAT
* * *
2855335 GATTTTCCTGCTTATGTAAATCTACCTAGTTGGAGTACCATACGTTGTTATGCATATCCTTGTTG
324 GATTTTCCTGCTTATGTAAATCTACCTAGTTGGAGTACCAAACGTTGTTATGCATAACCTTATTG
2855400 TGTTG
389 TGTTG
2855405 TGTAGACATG
Statistics
Matches: 360, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
423 2 0.01
424 162 0.45
426 196 0.54
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (425 bp):
AAGTTTTATAGCTGATCCTCAAAATATTAGGCTCAATCTCACACCTGATGGGTTTAATCCTTTCA
AAATCATAAGTACTCCATAAAATACTTGGCATGTTTTGCTTGTCCTCTATAATCTCCCTCTGTGA
ATTTGCATGAAACAATCATCCTTTATCTTATCAAGGATAATACCATGTGAAAAAAAGTCCTGAGA
ATGTTAATGACATCTATATCCAACCTCATATTGAGGAGTTGAAACAATTATGGGTGAGCATCGAA
AAACATGATGTGTTGAAGAATGAGAACTTGAATTTATTTTCAACTTTATTATGGACTATTAATGA
TTTTCCTGCTTATGTAAATCTACCTAGTTGGAGTACCAAACGTTGTTATGCATAACCTTATTGTG
TTGCATGGACATGTTCAAAGTGGTTATATAAGAGA
Found at i:2863866 original size:18 final size:19
Alignment explanation
Indices: 2863843--2863886 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
2863833 AAGTAATCCT
2863843 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
2863861 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
2863881 ATTCCA
1 ATTCCA
2863887 TGAACCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 5 0.21
20 16 0.67
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:2863873 original size:20 final size:20
Alignment explanation
Indices: 2863848--2863885 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2863838 ATCCTATTCC
2863848 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
2863868 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2863886 ATGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2867817 original size:34 final size:34
Alignment explanation
Indices: 2867774--2867992 Score: 141
Period size: 34 Copynumber: 5.8 Consensus size: 34
2867764 AGCTAAAATA
*
2867774 CATATGGGTGCATTATCGACATAAAAGAATAATG
1 CATATGGGTGCATTATCGGCATAAAAGAATAATG
*
2867808 CATATGGGTGCATTATTGGCATGAAATGATGTCATAGCTAAAATG
1 CATATGGGTGCATTATCGGCAT-AAA--A-G--A-A--T--AATG
*
2867853 CATATGGGTGCATTATCGGCATAAAAGAATAATA
1 CATATGGGTGCATTATCGGCATAAAAGAATAATG
** *
2867887 CATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGAAATA
1 CATATGGGTGCATTATCGGCAT-AAA--A-G--A-A--T--AATG
* * *
2867932 CATATGGATTCATTATCGGTATAAAAGAATAATG
1 CATATGGGTGCATTATCGGCATAAAAGAATAATG
* *
2867966 CATATGGGTGCATTATTGGCATGAAAG
1 CATATGGGTGCATTATCGGCATAAAAG
2867993 GAGGACATAG
Statistics
Matches: 146, Mismatches: 17, Indels: 44
0.71 0.08 0.21
Matches are distributed among these distances:
34 68 0.47
35 6 0.04
36 2 0.01
37 2 0.01
38 4 0.03
39 2 0.01
40 2 0.01
41 4 0.03
42 2 0.01
43 2 0.01
44 6 0.04
45 46 0.32
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (34 bp):
CATATGGGTGCATTATCGGCATAAAAGAATAATG
Found at i:2867857 original size:79 final size:79
Alignment explanation
Indices: 2867716--2868037 Score: 475
Period size: 79 Copynumber: 4.1 Consensus size: 79
2867706 GAACGAATAA
*
2867716 ATAAAA-AATAATGCATATGGGTGCATTATTGGCTTGAAAGGATGTCATAGCTAAAATACATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTAAAATACATATG
*
2867780 GGTGCATTATCGAC
66 GGTGCATTATCGGC
* *
2867794 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGTCATAGCTAAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTAAAATACATATG
2867859 GGTGCATTATCGGC
66 GGTGCATTATCGGC
* * * *
2867873 ATAAAAGAATAATACATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGAAATACATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTAAAATACATATG
* * *
2867938 GATTCATTATCGGT
66 GGTGCATTATCGGC
* * * *
2867952 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGAGGACATAGCTTAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTAAAATACATATG
* *
2868017 TGTGCATTATTGGC
66 GGTGCATTATCGGC
*
2868031 ATGAAAG
1 ATAAAAG
2868038 GATGCCATAG
Statistics
Matches: 218, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
78 6 0.03
79 212 0.97
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTAAAATACATATG
GGTGCATTATCGGC
Found at i:2867868 original size:45 final size:43
Alignment explanation
Indices: 2867804--2868246 Score: 337
Period size: 45 Copynumber: 10.8 Consensus size: 43
2867794 ATAAAAGAAT
*
2867804 AATGCATATGGGTGCATTATTGGCATGAAATGATGTCATAGCTAA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CATAGCT-A
*
2867849 AATGCATATGGGTGCATTATCGGCAT-AAA--A-G-A-A--T-
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCATAGCTA
* *
2867883 AATACATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CATAGCT-A
* * * * *
2867928 AATACATATGGATTCATTATCGGTAT-AAA--A-G-A-A--T-
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCATAGCTA
*
2867962 AATGCATATGGGTGCATTATTGGCATGAAAGGAGGACATAGCTTA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CATAGC-TA
*
2868007 AATGCATATGTGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CATAGCT-A
* *
2868052 AATGTATATGGGTGCATTATTGACAT-AAA--A-G-A-A--T-
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCATAGCTA
* *
2868086 AATGCATATGGGTGCATTCTTGGCATTAAAGGATGTCATAGCTAA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CATAGCT-A
* * *
2868131 AATTCATATGGATGCATTCTTGGCATGAAAGGATGTCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATG-CATAGCT-A
* *
2868176 AAAGCATATGGGTGCATTATTGTCAATG-AA--A-G-A-A--T-
1 AATGCATATGGGTGCATTATTGGC-ATGAAAGGATGCATAGCTA
2868211 AATGCATATGGGTGCATTATTGGCATGAAAGGATGC
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGC
2868247 CATAAATAAA
Statistics
Matches: 324, Mismatches: 34, Indels: 86
0.73 0.08 0.19
Matches are distributed among these distances:
34 70 0.22
35 33 0.10
36 3 0.01
37 5 0.02
38 7 0.02
39 4 0.01
40 4 0.01
41 6 0.02
42 4 0.01
43 3 0.01
44 11 0.03
45 171 0.53
46 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (43 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCATAGCTA
Found at i:2868045 original size:124 final size:122
Alignment explanation
Indices: 2867887--2868262 Score: 484
Period size: 124 Copynumber: 3.0 Consensus size: 122
2867877 AAGAATAATA
* * *
2867887 CATATGGGTGCATTATTAGCATGAAAGGATGCCATAGCTGAAATACATATGGATTCATTATCGGT
1 CATAT-GGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATACATATGGGTGCATTAT-GGT
*
2867952 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGAGGACATAGCTTAAATG
64 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGAGGACATAGCTAAAATG
** **
2868011 CATATGTGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGGTGCATTATTGAC
1 CATATG-GTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATACATATGGGTGCATTA-TGGT
* * * * *
2868076 ATAAAAGAATAATGCATATGGGTGCATTCTTGGCATTAAAGGATGTCATAGCTAAAATT
64 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGAGGACATAGCTAAAATG
* * *
2868135 CATATGGATGCATTCTTGGCATGAAAGGATGTCATAGCTGAAA-AGCATATGGGTGCATTATTGT
1 CATATGG-TGCATTATTGGCATGAAAGGATGCCATAGCTGAAATA-CATATGGGTGCATTATGGT
* * * **
2868199 CAATGAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAAATAAAATG
64 --ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGAGGACATAGCTAAAATG
2868260 CAT
1 CAT
2868263 GAAATGATGC
Statistics
Matches: 219, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
123 3 0.01
124 160 0.73
125 56 0.26
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (122 bp):
CATATGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATACATATGGGTGCATTATGGTAT
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGAGGACATAGCTAAAATG
Found at i:2868271 original size:26 final size:25
Alignment explanation
Indices: 2868233--2868284 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
2868223 TGCATTATTG
2868233 GCATGAAAGGATGCCA-TAAATAAAAT
1 GCATGAAAGGATG-CATTAAA-AAAAT
*
2868259 GCATGAAATGATGCATTAAAAAAAT
1 GCATGAAAGGATGCATTAAAAAAAT
2868284 G
1 G
2868285 AAAGAATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.50, C:0.10, G:0.19, T:0.21
Consensus pattern (25 bp):
GCATGAAAGGATGCATTAAAAAAAT
Found at i:2868800 original size:2 final size:2
Alignment explanation
Indices: 2868793--2868817 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2868783 TGAAAGGATG
2868793 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2868818 CATCAGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2873295 original size:79 final size:79
Alignment explanation
Indices: 2873160--2873683 Score: 771
Period size: 79 Copynumber: 6.6 Consensus size: 79
2873150 GAACGAATGA
* ** * *
2873160 ATAAAAGAATAATGCATATGGGCGCATTATTGTTATGAAATGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
2873225 GGTGCATTATCGGC
66 GGTGCATTATCGGC
* * * *
2873239 ATAAAAGAATAATGCATATGGGTGCATTTTTGTCATGAAAGGATGCCATAGTTGAAATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
2873304 GGTGCATTATCGGC
66 GGTGCATTATCGGC
* *
2873318 ATAATAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
2873383 GGTGCATTATCGGC
66 GGTGCATTATCGGC
* *
2873397 ATAAAAGAATAATACATATGGGTTCATT-TTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
2873461 GGTACATTATCGGC
66 GGTGCATTATCGGC
* ** *
2873475 ATAAAGGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATATCGTAGCTGAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
*
2873540 GGTGCCTTATCGGC
66 GGTGCATTATCGGC
* * * *
2873554 ATAAAAGAATAATGCATATGGGTGCATTATAGGCATGGAAGGATGCCATAGTTTAAATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
**
2873619 GGTGCATTATCATC
66 GGTGCATTATCGGC
* * * *
2873633 AATTAAACAATAATGTATATGGGTGCATTATTGGCGTGAAAGGATGCCATA
1 -ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA
2873684 AATAAAATGC
Statistics
Matches: 400, Mismatches: 43, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
78 73 0.18
79 283 0.71
80 44 0.11
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTGCATTATCGGC
Found at i:2873507 original size:157 final size:156
Alignment explanation
Indices: 2873163--2873683 Score: 790
Period size: 157 Copynumber: 3.3 Consensus size: 156
2873153 CGAATGAATA
* ** *
2873163 AAAGAATAATGCATATGGGCGCATTATTGTTATGAAATGATGTCATAGCTGAAATGCATATGGGT
1 AAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATGGGT
*
2873228 GCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTTTTGTCATGAAAGGATGCCATAGTTG
66 GCATTATCGGCATAAAAGAATAATGCATATGGGTGCA-TTTTGGCATGAAAGGATGCCATAGTTG
*
2873293 AAATGTATATGGGTGCATTATCGGCAT
130 AAATGCATATGGGTGCATTATCGGCAT
2873320 AATAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATGGG
1 AA-AGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATGGG
* * *
2873385 TGCATTATCGGCATAAAAGAATAATACATATGGGTTCATTTTGGCATGAAAGGATGCCATAGCTG
65 TGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTTTGGCATGAAAGGATGCCATAGTTG
*
2873450 AAATGCATATGGGTACATTATCGGCAT
130 AAATGCATATGGGTGCATTATCGGCAT
* *
2873477 AAAGGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATATCGTAGCTGAAATGCATATGGG
1 AAA-GAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATGGG
* * *
2873542 TGCCTTATCGGCATAAAAGAATAATGCATATGGGTGCATTATAGGCATGGAAGGATGCCATAGTT
65 TGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATT-TTGGCATGAAAGGATGCCATAGTT
* **
2873607 TAAATGCATATGGGTGCATTATCATCAATT
129 GAAATGCATATGGGTGCATTATCGGC-A-T
* * * *
2873637 AAACAATAATGTATATGGGTGCATTATTGGCGTGAAAGGATGCCATA
1 AAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATA
2873684 AATAAAATGC
Statistics
Matches: 331, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
156 1 0.00
157 150 0.45
158 137 0.41
159 39 0.12
160 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (156 bp):
AAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATGGGT
GCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTTTGGCATGAAAGGATGCCATAGTTGA
AATGCATATGGGTGCATTATCGGCAT
Found at i:2873619 original size:236 final size:238
Alignment explanation
Indices: 2873159--2873683 Score: 775
Period size: 236 Copynumber: 2.2 Consensus size: 238
2873149 AGAACGAATG
* ** * *
2873159 AATAAAAGAATAATGCATATGGGCGCATTATTGTTATGAAATGATGTCATAGCTGAAATGCATAT
1 AATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATAT
* * * *
2873224 GGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTTTTGTCATGAAAGGATGCCATA
66 GGGTACATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATACCATA
* * * *
2873289 GTTGAAATGTATATGGGTGCATTATCGGCATAATAGAATAATGCATATGGGTGCATTATTGGCAT
131 GCTGAAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATAGGCAT
* *
2873354 GAAAGGATGTCATAGCTGAAATGCATATGGGTGCATTATCGGC
196 GAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGC
* *
2873397 -ATAAAAGAATAATACATATGGGTTCATT-TTGGCATGAAAGGATGCCATAGCTGAAATGCATAT
1 AATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATAT
* * *
2873460 GGGTACATTATCGGCATAAAGGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATATCGTA
66 GGGTACATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATACCATA
*
2873525 GCTGAAATGCATATGGGTGCCTTATCGGCATAAAAGAATAATGCATATGGGTGCATTATAGGCAT
131 GCTGAAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATAGGCAT
* * * *
2873590 GGAAGGATGCCATAGTTTAAATGCATATGGGTGCATTATCATC
196 GAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGC
* * * *
2873633 AATTAAACAATAATGTATATGGGTGCATTATTGGCGTGAAAGGATGCCATA
1 AATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA
2873684 AATAAAATGC
Statistics
Matches: 254, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
236 186 0.73
237 48 0.19
238 20 0.08
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (238 bp):
AATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATAT
GGGTACATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATACCATA
GCTGAAATGCATATGGGTGCATTATCGGCATAAAAGAATAATGCATATGGGTGCATTATAGGCAT
GAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGC
Found at i:2875700 original size:21 final size:21
Alignment explanation
Indices: 2875674--2875719 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
2875664 CATGACATTA
2875674 ATACCACTGACCCTCAATAAC
1 ATACCACTGACCCTCAATAAC
2875695 ATACCACTGACCCTCAATAAC
1 ATACCACTGACCCTCAATAAC
2875716 ATAC
1 ATAC
2875720 TTGGGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.37, G:0.04, T:0.20
Consensus pattern (21 bp):
ATACCACTGACCCTCAATAAC
Found at i:2876564 original size:31 final size:30
Alignment explanation
Indices: 2876519--2876579 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
2876509 CAACCGTTCA
* * * *
2876519 CAACTTTTCCAAAATTGTTGAATTGGTCCCT
1 CAACTCTTCAAAAATTATAGAA-TGGTCCCT
2876550 CAACTCTTCAAAAATTATAGAATGGTCCCT
1 CAACTCTTCAAAAATTATAGAATGGTCCCT
2876580 AAATTTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (30 bp):
CAACTCTTCAAAAATTATAGAATGGTCCCT
Found at i:2884042 original size:41 final size:41
Alignment explanation
Indices: 2883985--2884065 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
2883975 TCTCTTTCTA
*
2883985 GGTTGATCACCCTTTCTAGGTTGGTAATTTGAATATGATAC
1 GGTTGATCACCCTTTCTAGGGTGGTAATTTGAATATGATAC
* * *
2884026 GGTTGCTCTCCCTTTCTAGGGTGGTGATTTGAATATGATA
1 GGTTGATCACCCTTTCTAGGGTGGTAATTTGAATATGATA
2884066 TAGTTGGAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (41 bp):
GGTTGATCACCCTTTCTAGGGTGGTAATTTGAATATGATAC
Found at i:2888120 original size:2 final size:2
Alignment explanation
Indices: 2888109--2888213 Score: 203
Period size: 2 Copynumber: 53.0 Consensus size: 2
2888099 GGTTAAGAAG
2888109 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2888150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2888192 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
2888214 GACATAGTAT
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 101 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2889248 original size:17 final size:17
Alignment explanation
Indices: 2889214--2889251 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2889204 TTTTAAATAG
*
2889214 TTTTTCTCTTTTCCTTT
1 TTTTTCTCTTTTCATTT
2889231 TTTTTCTCTTTGT-ATTT
1 TTTTTCTCTTT-TCATTT
2889248 TTTT
1 TTTT
2889252 GAATCCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTCTCTTTTCATTT
Found at i:2890204 original size:2 final size:2
Alignment explanation
Indices: 2890199--2890308 Score: 54
Period size: 2 Copynumber: 56.0 Consensus size: 2
2890189 ATAGGGTGAT
* * * *
2890199 TA TA TA TA TA TGG TA T- TA TA T- TA TA TA AA AA TA -A TA GA GTA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
2890240 TT TA TA TA GTA TA TA TA TA GGA TA TA TA TA TA TA TA T- TA TT TA
1 TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
*
2890283 GTA TA T- TA TA T- TT TA TA TA TA T- TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2890309 AAGTGCAAAT
Statistics
Matches: 83, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
1 7 0.08
2 69 0.83
3 7 0.08
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2890204 original size:17 final size:16
Alignment explanation
Indices: 2890184--2890225 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
2890174 ATATTCATAT
2890184 TATATATAGGGTGATTA
1 TATATATAGGGT-ATTA
*
2890201 TATATATATGGTATTA
1 TATATATAGGGTATTA
2890217 TATTATATA
1 TA-TATATA
2890226 AAAATAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (16 bp):
TATATATAGGGTATTA
Found at i:2890208 original size:19 final size:17
Alignment explanation
Indices: 2890184--2890225 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
2890174 ATATTCATAT
2890184 TATATATAGGGTGATTATA
1 TATATATA-GGT-ATTATA
2890203 TATATAT-GGTATTATA
1 TATATATAGGTATTATA
2890219 T-TATATA
1 TATATATA
2890226 AAAATAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 3 0.14
19 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (17 bp):
TATATATAGGTATTATA
Found at i:2890223 original size:15 final size:15
Alignment explanation
Indices: 2890181--2890224 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2890171 TATATATTCA
*
2890181 TATTATA-TATAGGG
1 TATTATATTATATGG
2890195 TGATTATATATATATGG
1 T-ATTATAT-TATATGG
2890212 TATTATATTATAT
1 TATTATATTATAT
2890225 AAAAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.42
16 7 0.27
17 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
TATTATATTATATGG
Found at i:2890256 original size:11 final size:11
Alignment explanation
Indices: 2890236--2890308 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
2890226 AAAATAATAG
*
2890236 AGTATTTATAT
1 AGTATATATAT
2890247 AGTATATATAT
1 AGTATATATAT
2890258 AGGATATATATAT
1 A-G-TATATATAT
*
2890271 A-TATATTATTT
1 AGTATA-TATAT
2890282 AGTATAT-TAT
1 AGTATATATAT
* *
2890292 ATTTTATATAT
1 AGTATATATAT
*
2890303 ATTATA
1 AGTATA
2890309 AAGTGCAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
10 11 0.22
11 25 0.49
12 5 0.10
13 10 0.20
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (11 bp):
AGTATATATAT
Found at i:2890259 original size:24 final size:23
Alignment explanation
Indices: 2890199--2890304 Score: 67
Period size: 25 Copynumber: 4.5 Consensus size: 23
2890189 ATAGGGTGAT
2890199 TATATATATAT-G-GTATTATATTA
1 TATATATATATAGAGTATT-TA-TA
* *
2890222 TATAAAAATAATAGAGTATTTATA
1 TATATATAT-ATAGAGTATTTATA
*
2890246 TAGTATATATATAG-G-ATATATA
1 TA-TATATATATAGAGTATTTATA
**
2890268 TATATATATTATTTAGTATATTATA
1 TATATATA-TATAGAGTAT-TTATA
*
2890293 TTTTATATATAT
1 -TATATATATAT
2890305 TATAAAGTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
21 6 0.09
22 11 0.17
23 9 0.14
24 12 0.18
25 15 0.23
26 12 0.18
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
TATATATATATAGAGTATTTATA
Found at i:2890301 original size:9 final size:9
Alignment explanation
Indices: 2890241--2890308 Score: 54
Period size: 9 Copynumber: 7.6 Consensus size: 9
2890231 AATAGAGTAT
2890241 TTATATAGTA
1 TTATATA-TA
2890251 -TATATATA
1 TTATATATA
**
2890259 GGATATATA
1 TTATATATA
2890268 -TATATATA
1 TTATATATA
2890276 TTATTTAGTATA
1 TTA--TA-TATA
2890288 TTATAT-T-
1 TTATATATA
2890295 TTATATATA
1 TTATATATA
2890304 TTATA
1 TTATA
2890309 AAGTGCAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
7 6 0.12
8 11 0.22
9 21 0.43
10 2 0.04
11 2 0.04
12 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (9 bp):
TTATATATA
Found at i:2890301 original size:14 final size:17
Alignment explanation
Indices: 2890249--2890304 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
2890239 ATTTATATAG
** *
2890249 TATATATATAGGATATA
1 TATATATATATTATTTA
2890266 TATATATATATTATTTA
1 TATATATATATTATTTA
2890283 GTATAT-TATA-T-TTTA
1 -TATATATATATTATTTA
2890298 TATATAT
1 TATATAT
2890305 TATAAAGTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.15
15 5 0.15
16 1 0.03
17 18 0.53
18 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
TATATATATATTATTTA
Found at i:2891492 original size:11 final size:11
Alignment explanation
Indices: 2891476--2891501 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2891466 AGAACCTTTA
2891476 GGTTATTTTTG
1 GGTTATTTTTG
2891487 GGTTATTTTTG
1 GGTTATTTTTG
2891498 GGTT
1 GGTT
2891502 GTTAGGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (11 bp):
GGTTATTTTTG
Found at i:2904541 original size:81 final size:80
Alignment explanation
Indices: 2904410--2904900 Score: 590
Period size: 81 Copynumber: 6.1 Consensus size: 80
2904400 AAATATTTTG
* * * * ** * *
2904410 TCTTTTAC-CAAAGGCATTTAGCCTTTCATCTAGCTTGCATTATTTTCACCTTTATGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGCATAATTGACACCTTTCTGTCAAATGC
* *
2904474 ACAACTAGGCATTTAA
65 ACAGCTAGGCAATTAA
* * * ** * * *
2904490 TCTTTAACTCAAAGGCACTTAGTCTTTTATCTAACTGACATAATTGACACCTTTTTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTG-CATAATTGACACCTTTCTGTCAAATGC
* * *
2904555 AAAGCTAGGGAAATAA
65 ACAGCTAGGCAATTAA
* * * * *
2904571 CCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTAACATAATTGACACTTTTAAT-TCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTGACACCTTT-CTGTCAAATG
2904635 CACAGCTAGGCAATTAA
64 CACAGCTAGGCAATTAA
* * *
2904652 TCTTTTACTCGAAGGTATTTAACCTTTCATCTAACTGCATAATTGACACTTTTCTATCAAATGCA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATGCA
*
2904717 CAGCTATGCAATTAA
66 CAGCTAGGCAATTAA
* *
2904732 TATTTTACTCAAAGGTATTTAACCTTTCATCTAATTTGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAA-CTGCATAATTGACACCTTTCTGTCAAATGC
*
2904797 ACAGCTAGGTAATTAA
65 ACAGCTAGGCAATTAA
* *
2904813 CCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACATCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGCATAATTGACACCTTTCTGTCAAATGC
*
2904878 ACAGCTAGACAATTAA
65 ACAGCTAGGCAATTAA
2904894 TCTTTTA
1 TCTTTTA
2904901 TTTAAAAAAG
Statistics
Matches: 354, Mismatches: 50, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.00
80 80 0.23
81 272 0.77
82 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATGCA
CAGCTAGGCAATTAA
Found at i:2904752 original size:161 final size:160
Alignment explanation
Indices: 2904410--2904900 Score: 585
Period size: 161 Copynumber: 3.0 Consensus size: 160
2904400 AAATATTTTG
* * * * ** * ** *
2904410 TCTTTTAC-CAAAGGCATTTAGCCTTTCATCTAGCTTGCATTATTTTCACCTTTATGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTAACATAATTGACACCTTTATGTCAAATGC
* * * * * ** *
2904474 ACAACTAGGCATTTAATCTTTAACTCAAAGGCACTTAGTCTTTTATCTAACTGACATAATTGACA
66 ACAGCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTG-CATAATTGACA
* * *
2904539 CCTTTT-TATCAAATGCAAAGCTAGGGAAATAA
130 -CTTTTCTATCAAATGCACAGCTA-GCAATTAA
* *
2904571 CCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTAACATAATTGACACTTTTAAT-TCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTAACATAATTGACACCTTT-ATGTCAAATG
*
2904635 CACAGCTAGGCAATTAATCTTTTACTCGAAGGTATTTAACCTTTCATCTAACTGCATAATTGACA
65 CACAGCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACA
2904700 CTTTTCTATCAAATGCACAGCTATGCAATTAA
130 CTTTTCTATCAAATGCACAGCTA-GCAATTAA
* * * ** *
2904732 TATTTTACTCAAAGGTATTTAACCTTTCATCTAATTTGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTAACATAATTGACACCTTTATGTCAAATGC
* *
2904797 ACAGCTAGGTAATTAACCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACA
66 ACAGCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGCATAATTGACA
*
2904862 -TCTTTCTGTCAAATGCACAGCTAGACAATTAA
130 CT-TTTCTATCAAATGCACAGCTAG-CAATTAA
2904894 TCTTTTA
1 TCTTTTA
2904901 TTTAAAAAAG
Statistics
Matches: 285, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
160 6 0.02
161 145 0.51
162 132 0.46
163 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (160 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTAACATAATTGACACCTTTATGTCAAATGC
ACAGCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACAC
TTTTCTATCAAATGCACAGCTAGCAATTAA
Found at i:2914053 original size:22 final size:22
Alignment explanation
Indices: 2913995--2914047 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
2913985 ATACACAGCT
2913995 AGGCATTTAATCTTTAACTCAA
1 AGGCATTTAATCTTTAACTCAA
2914017 AGGCATTTAATCTTTAACTCAA
1 AGGCATTTAATCTTTAACTCAA
2914039 AGGCATTTA
1 AGGCATTTA
2914048 GCCTTTCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (22 bp):
AGGCATTTAATCTTTAACTCAA
Found at i:2914102 original size:81 final size:80
Alignment explanation
Indices: 2914017--2914519 Score: 702
Period size: 81 Copynumber: 6.2 Consensus size: 80
2914007 TTTAACTCAA
* * * * * *
2914017 AGGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTAGTATAATTGACATCTTTA
1 AGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACA-CTTTC
* *
2914082 TGTCGAATGCACAACT
65 TGTCAAATGCACAGCT
* * *
2914098 AGGCAATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGTATAACTGATATCTTTC
1 AGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACA-CTTTC
2914163 TGTCAAATGCACAGCT
65 TGTCAAATGCACAGCT
* *
2914179 AGGAAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA-TCGGTATATTTGACACCTTT
1 AGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GGTATAATTGACA-CTTT
* *
2914243 CTATCAAATGCACTGCT
64 CTGTCAAATGCACAGCT
* *
2914260 AGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTC
1 AGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACA-CTTTC
*
2914325 TGTCAAATGCACATCT
65 TGTCAAATGCACAGCT
* * *
2914341 AGGTAATTAATCTTTTAATCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTC
1 AGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACAC-TTTC
2914406 TGTCAAATGCACAGCT
65 TGTCAAATGCACAGCT
* * * *
2914422 AGGCAATTAATCTTTTACTCAAAGCTATTTAACCTTTCATCTAACTTGAATAATTGACACATTTA
1 AGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACAC-TTTC
*
2914487 TGTCAAATGCAAAGCT
65 TGTCAAATGCACAGCT
2914503 AGGCAATTAATCTTTTA
1 AGGCAATTAATCTTTTA
2914520 TTTAAAATAG
Statistics
Matches: 382, Mismatches: 37, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
80 2 0.01
81 379 0.99
82 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (80 bp):
AGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACACTTTCT
GTCAAATGCACAGCT
Found at i:2914112 original size:103 final size:102
Alignment explanation
Indices: 2913925--2914129 Score: 268
Period size: 103 Copynumber: 2.0 Consensus size: 102
2913915 AAGCATTTTG
* * * * *
2913925 TCTTTTACCAAAGGCATTTAGTCTTTCATCTAACTTGCATTATTGACACCTTTCTGCCAGATACA
1 TCTTTAACCAAAGGCATTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTATGCCAGATACA
* *
2913990 CAGCTAGGCATTTAATCTTTAACTCAAAGGCATTTAA
66 CAACTAGGCAATTAATCTTTAACTCAAAGGCATTTAA
* * * *
2914027 TCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTAGTATAATTGACATCTTTATGTC-GAATG
1 TCTTTAAC-CAAAGGCATTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTATGCCAG-ATA
* *
2914091 CACAACTAGGCAATTAATCTTTTACTCAAAGGTATTTAA
64 CACAACTAGGCAATTAATCTTTAACTCAAAGGCATTTAA
2914130 CATTTCATCT
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
102 8 0.09
103 80 0.91
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
TCTTTAACCAAAGGCATTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTATGCCAGATACA
CAACTAGGCAATTAATCTTTAACTCAAAGGCATTTAA
Found at i:2916589 original size:49 final size:49
Alignment explanation
Indices: 2916506--2916802 Score: 357
Period size: 49 Copynumber: 6.1 Consensus size: 49
2916496 AATACCATGA
* * *
2916506 GTGGCACTTTTTATACCAAAAATGCACCGTTATGCATTTAACTTTCATTA
1 GTGGCACCTTTTATGCC-AAAATGCACCGTTATGCATTTAACTTTCATTT
* * *
2916556 GTAGCACCTTTTATGCCAAAACGCACCGTTATGCA--TAACATTCATTT
1 GTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
* * * * *
2916603 GTGGCACATTTTATGTCGAAATGCACCATTATGCATTTAACATTCATTT
1 GTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
* * * * *
2916652 GTGGTACATTTTATGTCAAAATGAACCGTTATGGATTTAACTTTCATTT
1 GTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
* * * *
2916701 GTGGCACCTTTTTATGTCGAAATGCATCGTTATGCATTTAACTTTCATTA
1 GTGGCACC-TTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
*
2916751 GTGGCACCATTTATGCCGAAAA-GCACCGTTATGCATTTAACTTTCATTT
1 GTGGCACCTTTTATGCC-AAAATGCACCGTTATGCATTTAACTTTCATTT
2916800 GTG
1 GTG
2916803 AGCAGTTTAT
Statistics
Matches: 213, Mismatches: 30, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
47 39 0.18
49 113 0.53
50 61 0.29
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (49 bp):
GTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
Found at i:2916739 original size:99 final size:97
Alignment explanation
Indices: 2916525--2916802 Score: 382
Period size: 99 Copynumber: 2.8 Consensus size: 97
2916515 TTTATACCAA
* *
2916525 AAATGCACCGTTATGCATTTAACTTTCATTAGTAGCACCTTTTATGCCAAAACGCACCGTTATGC
1 AAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACATTTTATGCCAAAA-GCACCGTTATGC
*
2916590 A--TAACATTCATTTGTGGCACATTTTATGTCG
65 ATTTAACTTTCATTTGTGGCACATTTTATGTCG
* * * * * * *
2916621 AAATGCACCATTATGCATTTAACATTCATTTGTGGTACATTTTATGTCAAAATGAACCGTTATGG
1 AAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACATTTTATGCCAAAA-GCACCGTTATGC
*
2916686 ATTTAACTTTCATTTGTGGCACCTTTTTATGTCG
65 ATTTAACTTTCATTTGTGGCA-CATTTTATGTCG
*
2916720 AAATGCATCGTTATGCATTTAACTTTCATTAGTGGCACCA-TTTATGCCGAAAAGCACCGTTATG
1 AAATGCACCGTTATGCATTTAACTTTCATTAGTGGCA-CATTTTATGCC-AAAAGCACCGTTATG
2916784 CATTTAACTTTCATTTGTG
64 CATTTAACTTTCATTTGTG
2916803 AGCAGTTTAT
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
96 56 0.36
98 17 0.11
99 78 0.50
100 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (97 bp):
AAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACATTTTATGCCAAAAGCACCGTTATGCA
TTTAACTTTCATTTGTGGCACATTTTATGTCG
Found at i:2929413 original size:19 final size:19
Alignment explanation
Indices: 2929377--2929416 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2929367 TTTTAAATAG
*
2929377 TTTTTCTCTTTTCCTTTTT
1 TTTTTCTCTTTTCATTTTT
2929396 TTTTTCTCTTTGT-ATTTTT
1 TTTTTCTCTTT-TCATTTTT
2929415 TT
1 TT
2929417 GAATCCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTTCTCTTTTCATTTTT
Found at i:2930369 original size:2 final size:2
Alignment explanation
Indices: 2930364--2930467 Score: 76
Period size: 2 Copynumber: 53.0 Consensus size: 2
2930354 ATAGGGTGAT
* * *
2930364 TA TA TA TA TA TA TA TGG TA T- TA TA TA TA AA AA TA -A TA -A GTA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
2930405 TT TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TT TA GTA TA T-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
2930448 TA TA T- TT TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
2930468 AAGTGCATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
1 6 0.07
2 71 0.86
3 6 0.07
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2937979 original size:13 final size:13
Alignment explanation
Indices: 2937961--2937987 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2937951 TTATGGTTGT
2937961 TAACATTTAATTA
1 TAACATTTAATTA
2937974 TAACATTTAATTA
1 TAACATTTAATTA
2937987 T
1 T
2937988 GCTAGCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TAACATTTAATTA
Found at i:2946850 original size:81 final size:81
Alignment explanation
Indices: 2946744--2947234 Score: 594
Period size: 81 Copynumber: 6.1 Consensus size: 81
2946734 AAATATTTTG
* * * * * * ** *
2946744 TCTTTTAC-CAAAGGCATTTAGCCTTTCATATAGCTTGTATTATTTTCACCTTTATGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTATGTCAAATGC
* *
2946808 ACAACTAGGCATTTAA
66 ACAGCTAGGCAATTAA
* * * * *
2946824 TCTTTAACTCAAAGGCATTTAGCCTTTTATCTAAC-TGACATAATTGACACCGTTT-TATCAAAT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTG-CATAATTGACACC-TTTATGTCAAAT
* * *
2946887 GCAAAGCTAGGGAAATAA
64 GCACAGCTAGGCAATTAA
* * * * * *
2946905 CCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTGGCATAATTGACACTTTTAAGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTATGTCAAATGC
2946970 ACAGCTAGGCAATTAA
66 ACAGCTAGGCAATTAA
* * * *
2946986 TCTTTTACTCGAAGGTATTTAACCTTTCATCTAAC-TGCATAATTGACACTTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTATGTCAAATGC
**
2947050 ACAGCTATACAATTAA
66 ACAGCTAGGCAATTAA
* *
2947066 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTTGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTATGTCAAATGC
* *
2947131 ATAGCTAGGTAATTAA
66 ACAGCTAGGCAATTAA
* *
2947147 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACATCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTATGTCAAATGC
*
2947212 ACAGCTAGACAATTAA
66 ACAGCTAGGCAATTAA
2947228 TCTTTTA
1 TCTTTTA
2947235 TTTAAAAAAG
Statistics
Matches: 353, Mismatches: 52, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
80 83 0.24
81 266 0.75
82 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTATGTCAAATGC
ACAGCTAGGCAATTAA
Found at i:2947075 original size:161 final size:161
Alignment explanation
Indices: 2946790--2947234 Score: 606
Period size: 161 Copynumber: 2.8 Consensus size: 161
2946780 GTATTATTTT
* * * * * * * *
2946790 CACCTTTATGCCAAATGCACAACTAGGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTTATC
1 CACCTTTAAGTCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATC
* * ** * *
2946855 TAACTGACATAATTGACACCGTTT-TATCAAATGCAAAGCTAGGGAAATAACCTTTTACTCAAAG
66 TAACTG-CATAATTGACA-CTTTTCTATCAAATGCACAGCTAGACAATTAATCTTTTACTCAAAG
2946919 GTATTTAACCTTTCAACTAACTGGCATAATTGA
129 GTATTTAACCTTTCAACTAACTGGCATAATTGA
* * *
2946952 CACTTTTAAGTCAAATACACAGCTAGGCAATTAATCTTTTACTCGAAGGTATTTAACCTTTCATC
1 CACCTTTAAGTCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATC
*
2947017 TAACTGCATAATTGACACTTTTCTATCAAATGCACAGCTATACAATTAATCTTTTACTCAAAGGT
66 TAACTGCATAATTGACACTTTTCTATCAAATGCACAGCTAGACAATTAATCTTTTACTCAAAGGT
* * *
2947082 ATTTAACCTTTCATCTAATTTGCATAATTGA
131 ATTTAACCTTTCAACTAACTGGCATAATTGA
** * *
2947113 CACCTTTCTGTCAAATGCATAGCTAGGTAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATC
1 CACCTTTAAGTCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATC
*
2947178 TAACTTGCATAATTGACA-TCTTTCTGTCAAATGCACAGCTAGACAATTAATCTTTTA
66 TAAC-TGCATAATTGACACT-TTTCTATCAAATGCACAGCTAGACAATTAATCTTTTA
2947235 TTTAAAAAAG
Statistics
Matches: 250, Mismatches: 30, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
160 4 0.02
161 138 0.55
162 108 0.43
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (161 bp):
CACCTTTAAGTCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATC
TAACTGCATAATTGACACTTTTCTATCAAATGCACAGCTAGACAATTAATCTTTTACTCAAAGGT
ATTTAACCTTTCAACTAACTGGCATAATTGA
Found at i:2956421 original size:81 final size:81
Alignment explanation
Indices: 2956273--2956845 Score: 765
Period size: 81 Copynumber: 7.1 Consensus size: 81
2956263 AAGCATTTTG
* ** * * * *
2956273 TCTTTTAC-CAAAGGCATTTAGTCTTTCATCTAACTTGCATTATTGACACCTTTCTGCCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2956337 ACAACTAGGCATTTAA
66 ACAACTAGGCAATTAA
* * * * * * * *
2956353 ACTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGTATAATTGACATCTTTATGTCGAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2956418 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * *
2956434 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGATATCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
2956499 ACAGCTAGGAAATTAA
66 ACAACTAGGCAATTAA
* * *
2956515 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAA-TCGGCATATTTGACACCTTTTTATCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GGCATAATTGACACCTTTCTGTCAAATG
*
2956579 CACAGCTAGGCAATTAA
65 CACAACTAGGCAATTAA
* *
2956596 TCTTTTACTCAAAGGTATTTAACCTTTAATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
** *
2956661 ACGTCTAGGTAATTAA
66 ACAACTAGGCAATTAA
* * *
2956677 TCTTTTAATCAAAGGTATTTAACCTTTCAACTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2956742 ACAGCTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
2956758 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGAATAATTGACACATTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2956823 A-AAGCTAGGCAATTAA
66 ACAA-CTAGGCAATTAA
2956839 TCTTTTA
1 TCTTTTA
2956846 TTTAAAATAG
Statistics
Matches: 439, Mismatches: 50, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
80 8 0.02
81 430 0.98
82 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCAATTAA
Found at i:2958911 original size:49 final size:49
Alignment explanation
Indices: 2958831--2959127 Score: 366
Period size: 49 Copynumber: 6.1 Consensus size: 49
2958821 AATACCATGA
* * *
2958831 GTGGCACTTTTTATACCAAAAATGCACCGTTATGCATTTAACTTTCATTA
1 GTGGCACCTTTTATGCC-AAAATGCACCGTTATGCATTTAACTTTCATTT
* *
2958881 GTAGCACCTTTTATGCCAAAATGCACCGTTATGCA--TAACATTCATTT
1 GTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
* * * * *
2958928 GTGGCACATTTTATGTCGAAATGCACCATTATGCATTTAACATTCATTT
1 GTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
* * * * * *
2958977 GTGGTACATTTTATGTCGAAATGAACCGTTATGGATTTAACTTTCATTT
1 GTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
* * * *
2959026 GTGGCACCTTTTTATGTCGAAATGCATCGTTATGCATTTAACTTTCATTA
1 GTGGCACC-TTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
2959076 GTGGCACCTTTTATGCCGAAAA-GCACCGTTATGCATTTAACTTTCATTT
1 GTGGCACCTTTTATGCC-AAAATGCACCGTTATGCATTTAACTTTCATTT
2959125 GTG
1 GTG
2959128 AGCAGTTTAT
Statistics
Matches: 218, Mismatches: 25, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
47 40 0.18
49 116 0.53
50 62 0.28
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (49 bp):
GTGGCACCTTTTATGCCAAAATGCACCGTTATGCATTTAACTTTCATTT
Found at i:2959064 original size:99 final size:98
Alignment explanation
Indices: 2958850--2959127 Score: 407
Period size: 99 Copynumber: 2.8 Consensus size: 98
2958840 TTTATACCAA
* *
2958850 AAATGCACCGTTATGCATTTAACTTTCATTAGTAGCACCTTTTATGCCAAAATGCACCGTTATGC
1 AAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCGTTATGC
*
2958915 A--TAACATTCATTTGTGGCACATTTTATGTCG
66 ATTTAACTTTCATTTGTGGCACATTTTATGTCG
* * * * * * * *
2958946 AAATGCACCATTATGCATTTAACATTCATTTGTGGTACATTTTATGTCGAAATGAACCGTTATGG
1 AAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCGTTATGC
*
2959011 ATTTAACTTTCATTTGTGGCACCTTTTTATGTCG
66 ATTTAACTTTCATTTGTGGCA-CATTTTATGTCG
* *
2959045 AAATGCATCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAAAGCACCGTTATGC
1 AAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCGTTATGC
2959110 ATTTAACTTTCATTTGTG
66 ATTTAACTTTCATTTGTG
2959128 AGCAGTTTAT
Statistics
Matches: 157, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
96 56 0.36
98 17 0.11
99 84 0.54
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (98 bp):
AAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGCCGAAATGCACCGTTATGC
ATTTAACTTTCATTTGTGGCACATTTTATGTCG
Found at i:2961532 original size:76 final size:76
Alignment explanation
Indices: 2961330--2961534 Score: 240
Period size: 75 Copynumber: 2.7 Consensus size: 76
2961320 CCGTTGTACA
* * * *
2961330 AGGGGGAATTGGTACCCCCT-TGGGGGGG-ATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGGA
1 AGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGGA
** *
2961392 ACAAAACTGTTT
65 ACAAAACCATTC
* *
2961404 AGGGGGGAATCGGTTCCTCCTAT--GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTTGGA
1 A-GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGA
* *
2961467 GCCAAACCATTC
65 ACAAAACCATTC
**
2961479 AGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTATGAGCAATCTGGAA
1 AGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
2961535 TTTTTGGCTT
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
74 27 0.24
75 53 0.48
76 31 0.28
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (76 bp):
AGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAA
CAAAACCATTC
Found at i:2964151 original size:21 final size:21
Alignment explanation
Indices: 2964125--2964164 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2964115 CAGAACCCCA
*
2964125 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2964146 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2964165 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2964223 original size:21 final size:23
Alignment explanation
Indices: 2964147--2964208 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
2964137 TTCCCCTGTG
2964147 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
2964170 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
2964193 GGGGGAATCGGTTCCC
1 GGGGGAATCGGTTCCC
2964209 TCAGGGGGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:2968082 original size:22 final size:21
Alignment explanation
Indices: 2968040--2968079 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2968030 GAGTTTGTTT
*
2968040 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2968061 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2968080 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2969814 original size:18 final size:18
Alignment explanation
Indices: 2969791--2969826 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2969781 GATTCTAGTT
2969791 GCTTGATGTTTCTTGTTA
1 GCTTGATGTTTCTTGTTA
2969809 GCTTGATGTTTCTTGTTA
1 GCTTGATGTTTCTTGTTA
2969827 CTGATCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.56
Consensus pattern (18 bp):
GCTTGATGTTTCTTGTTA
Found at i:2970192 original size:75 final size:76
Alignment explanation
Indices: 2970022--2970226 Score: 272
Period size: 74 Copynumber: 2.7 Consensus size: 76
2970012 CCGTTGTACA
* * * * *
2970022 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAA
** *
2970086 CAAAACTGTTT
66 CAAAACCATTC
*
2970097 A-GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAA
*
2970160 CCAAACCATTC
66 CAAAACCATTC
** *
2970171 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTATGAGCAATCTGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAA
2970227 TTTTTGGCTT
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
74 62 0.54
75 23 0.20
76 29 0.25
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAA
CAAAACCATTC
Found at i:2975239 original size:24 final size:24
Alignment explanation
Indices: 2975193--2975241 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2975183 GGTCTTCCTG
* *
2975193 ATGATGTATAAAATATATGTGTAC
1 ATGATGTATAAAACATATATGTAC
* *
2975217 ATGATGTATAAAGCATCTATGTAC
1 ATGATGTATAAAACATATATGTAC
2975241 A
1 A
2975242 ATGTTATGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (24 bp):
ATGATGTATAAAACATATATGTAC
Found at i:2977266 original size:50 final size:50
Alignment explanation
Indices: 2977189--2977288 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
2977179 TTCAACCTTT
*
2977189 GGGTGTGACCCTATAGGTTCATGTAATATTAGTAGTAATAATTAGAACCA
1 GGGTGTGACCCTATAGGTTCATATAATATTAGTAGTAATAATTAGAACCA
*
2977239 GGGTGTGACCCTATAGGTTCCTATAATATTAGTAGTAATAATTAGAACCA
1 GGGTGTGACCCTATAGGTTCATATAATATTAGTAGTAATAATTAGAACCA
2977289 TTGTAATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (50 bp):
GGGTGTGACCCTATAGGTTCATATAATATTAGTAGTAATAATTAGAACCA
Found at i:2979659 original size:16 final size:17
Alignment explanation
Indices: 2979630--2979661 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2979620 TTATTTAATA
2979630 ATAAACATTTTAAAATC
1 ATAAACATTTTAAAATC
2979647 ATAAACA-TTTAAAAT
1 ATAAACATTTTAAAAT
2979662 TCATCATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAAACATTTTAAAATC
Found at i:2979665 original size:17 final size:17
Alignment explanation
Indices: 2979630--2979680 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
2979620 TTATTTAATA
2979630 ATAAACATTTTAAAA-TC
1 ATAAACA-TTTAAAATTC
2979647 ATAAACATTTAAAATTC
1 ATAAACATTTAAAATTC
* * *
2979664 ATCATCATTAAAAATTC
1 ATAAACATTTAAAATTC
2979681 GTACTTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 7 0.23
17 23 0.77
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAACATTTAAAATTC
Found at i:2981747 original size:18 final size:18
Alignment explanation
Indices: 2981716--2981761 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
2981706 TTTACAGGCT
*
2981716 AAAA-TATATAAATTTTC
1 AAAATTATATTAATTTTC
2981733 AAAATTATATTAATTTTC
1 AAAATTATATTAATTTTC
2981751 AAAATTATATT
1 AAAATTATATT
2981762 TTTGTTCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATTATATTAATTTTC
Found at i:2982721 original size:5 final size:5
Alignment explanation
Indices: 2982689--2982714 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2982679 CAAATTAATG
2982689 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
2982715 AGTTTAGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:2983580 original size:2 final size:2
Alignment explanation
Indices: 2983495--2983561 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
2983485 GATATGTCAA
2983495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2983537 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2983562 ATCTGGTTTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2986063 original size:49 final size:49
Alignment explanation
Indices: 2986009--2986119 Score: 134
Period size: 49 Copynumber: 2.3 Consensus size: 49
2985999 ACACTCATTG
* ** * * *
2986009 GTATAAATATTATCATTTTCACATATATCACATATACATATTTACA-CTA
1 GTATAAATATAAAAATTCTCACATATATCACATACACATACTTACATC-A
*
2986058 GTATAAATATAAAAATTCTCACATATTTCACATACACATACTTACATCA
1 GTATAAATATAAAAATTCTCACATATATCACATACACATACTTACATCA
*
2986107 ATATAAATATAAA
1 GTATAAATATAAA
2986120 TATAAATATT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 52 0.98
50 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (49 bp):
GTATAAATATAAAAATTCTCACATATATCACATACACATACTTACATCA
Found at i:2988153 original size:39 final size:39
Alignment explanation
Indices: 2988109--2988185 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
2988099 CCCTCCATCC
*
2988109 AGCAGCCCCTCCACACATCATTTCCAGCAGCTTCCAGCG
1 AGCAGCCCCTCCACACATCAGTTCCAGCAGCTTCCAGCG
* * *
2988148 AGCAGCCCCTCCACGCATCAGTTGCAGTAGCTTCCAGC
1 AGCAGCCCCTCCACACATCAGTTCCAGCAGCTTCCAGC
2988186 ACTGCCAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.22, C:0.42, G:0.18, T:0.18
Consensus pattern (39 bp):
AGCAGCCCCTCCACACATCAGTTCCAGCAGCTTCCAGCG
Found at i:2989684 original size:11 final size:12
Alignment explanation
Indices: 2989673--2989713 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
2989663 ATTACTTTTA
2989673 TATTTTAATTAT
1 TATTTTAATTAT
2989685 TGA-TTTAATTAT
1 T-ATTTTAATTAT
2989697 TATTTT-ATTAT
1 TATTTTAATTAT
2989708 TATTTT
1 TATTTT
2989714 TATCTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 12 0.44
12 14 0.52
13 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:2989696 original size:23 final size:22
Alignment explanation
Indices: 2989636--2989712 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
2989626 TATTTTAATC
*
2989636 ATTATTTATTTACAATATTATTTT
1 ATTA-TTATTTA-ATTATTATTTT
* *
2989660 ATCATTACTT--TTA-TATTTT
1 ATTATTATTTAATTATTATTTT
2989679 AATTATTGATTTAATTATTATTTT
1 -ATTATT-ATTTAATTATTATTTT
2989703 ATTATTATTT
1 ATTATTATTT
2989713 TTATCTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 6 0.14
20 7 0.16
21 3 0.07
22 4 0.09
23 14 0.33
24 9 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (22 bp):
ATTATTATTTAATTATTATTTT
Found at i:2989722 original size:14 final size:11
Alignment explanation
Indices: 2989651--2989713 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
2989641 TTATTTACAA
2989651 TATTATTTTAT
1 TATTATTTTAT
*
2989662 CATTACTTTTA-
1 TATTA-TTTTAT
*
2989673 TA-T-TTTAAT
1 TATTATTTTAT
*
2989682 TATTGATTTAAT
1 TATT-ATTTTAT
2989694 TATTATTTTAT
1 TATTATTTTAT
2989705 TATTATTTT
1 TATTATTTT
2989714 TATCTTATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 4 0.09
9 2 0.05
10 2 0.05
11 20 0.47
12 15 0.35
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:2990011 original size:19 final size:20
Alignment explanation
Indices: 2989968--2990011 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
2989958 TCTGATATTT
2989968 TAAATAATATATTACTTTTA
1 TAAATAATATATTACTTTTA
*
2989988 TAAATTATAT-TTA-TTTTAA
1 TAAATAATATATTACTTTT-A
2990007 TAAAT
1 TAAAT
2990012 GCTTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAATAATATATTACTTTTA
Done.