Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 11 of 292
Found at i:3068097 original size:94 final size:95
Alignment explanation
Indices: 3067968--3068159 Score: 359
Period size: 94 Copynumber: 2.0 Consensus size: 95
3067958 TACTATGGAA
*
3067968 ATAAAGGTTGAATAGTAAGAGGGCTTTAAGCACATGGAAAAAATCACAAAAATTAAATATAAAGA
1 ATAAAGGTTGAACAGTAAGAGGGCTTTAAGCACATGGAAAAAATCACAAAAATTAAATATAAAGA
*
3068033 TATTGGTGAGGAAACTTGAAACTAGGACCT
66 TATTGGTAAGGAAACTTGAAACTAGGACCT
3068063 ATAAAGGTTGAACAGTAA-AGGGCTTTAAGCACATGGAAAAAATCACAAAAATTAAATATAAAGA
1 ATAAAGGTTGAACAGTAAGAGGGCTTTAAGCACATGGAAAAAATCACAAAAATTAAATATAAAGA
3068127 TATTGGTAAGGAAACTTGAAACTAGGACCT
66 TATTGGTAAGGAAACTTGAAACTAGGACCT
3068157 ATA
1 ATA
3068160 GGATATTAAT
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 78 0.82
95 17 0.18
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (95 bp):
ATAAAGGTTGAACAGTAAGAGGGCTTTAAGCACATGGAAAAAATCACAAAAATTAAATATAAAGA
TATTGGTAAGGAAACTTGAAACTAGGACCT
Found at i:3068635 original size:16 final size:16
Alignment explanation
Indices: 3068614--3068644 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3068604 TTCACTATTA
*
3068614 TATCTTTTGTATTTTC
1 TATCTTTTATATTTTC
3068630 TATCTTTTATATTTT
1 TATCTTTTATATTTT
3068645 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (16 bp):
TATCTTTTATATTTTC
Found at i:3068746 original size:45 final size:45
Alignment explanation
Indices: 3068683--3068773 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
3068673 ATATTAGCTC
3068683 ATTGATTGTCTAAAGTTCAAACTGAAGATAAGTGGCATTGTAAAG
1 ATTGATTGTCTAAAGTTCAAACTGAAGATAAGTGGCATTGTAAAG
3068728 ATTGATTGTCTAAAGTTCAAACTGAAGATAAGTGGCATTGTAAAG
1 ATTGATTGTCTAAAGTTCAAACTGAAGATAAGTGGCATTGTAAAG
3068773 A
1 A
3068774 ACATTTACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (45 bp):
ATTGATTGTCTAAAGTTCAAACTGAAGATAAGTGGCATTGTAAAG
Found at i:3070326 original size:37 final size:36
Alignment explanation
Indices: 3070276--3070396 Score: 115
Period size: 37 Copynumber: 3.3 Consensus size: 36
3070266 ATTCTAGAAA
*
3070276 AATATTATTTTAATAGTTTAATATTAAATTAAATTT
1 AATATTATCTTAATAGTTTAATATTAAATTAAATTT
* * *
3070312 AATACTTATCTTAATAGTATT-TTATTAATTTAATATTA
1 AATA-TTATCTTAATAGT-TTAATATTAAATTAA-ATTT
*
3070350 AAGTGATTATCTTAATA-TTTAAT-TT-AATTTAATTT
1 AA-T-ATTATCTTAATAGTTTAATATTAAATTAAATTT
3070385 AATATTTATCTT
1 AATA-TTATCTT
3070397 GTAGATAAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
33 1 0.01
34 8 0.11
35 5 0.07
36 8 0.11
37 26 0.37
38 9 0.13
39 12 0.17
40 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
AATATTATCTTAATAGTTTAATATTAAATTAAATTT
Found at i:3073390 original size:3 final size:3
Alignment explanation
Indices: 3073370--3073403 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3073360 TTATTGTTCA
* *
3073370 TGT TCT TGT TGC TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
3073404 AACATTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.06, G:0.29, T:0.65
Consensus pattern (3 bp):
TGT
Found at i:3086429 original size:17 final size:18
Alignment explanation
Indices: 3086404--3086437 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3086394 TAATTCTTAA
3086404 AAATAAAAA-GATAAAAG
1 AAATAAAAAGGATAAAAG
*
3086421 AAATTAAAAGGATAAAA
1 AAATAAAAAGGATAAAA
3086438 TTAAGTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
AAATAAAAAGGATAAAAG
Found at i:3086465 original size:20 final size:21
Alignment explanation
Indices: 3086440--3086485 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
3086430 GGATAAAATT
3086440 AAGTTTTCTT-ATAAAAACCC
1 AAGTTTTCTTCATAAAAACCC
3086460 AAG-TTTCTTCCGATAAAAACCC
1 AAGTTTTCTT-C-ATAAAAACCC
3086482 AAGT
1 AAGT
3086486 AATTTCCTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.27
20 3 0.14
22 13 0.59
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (21 bp):
AAGTTTTCTTCATAAAAACCC
Found at i:3086499 original size:22 final size:22
Alignment explanation
Indices: 3086452--3086499 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
3086442 GTTTTCTTAT
* *
3086452 AAAAACCCAAGTTTCTTCCGAT
1 AAAAACCCAAGTATCTTCCGAC
*
3086474 AAAAACCCAAGTAAT-TTCCTAC
1 AAAAACCCAAGT-ATCTTCCGAC
3086496 AAAA
1 AAAA
3086500 CCTCAAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAAACCCAAGTATCTTCCGAC
Found at i:3087118 original size:41 final size:39
Alignment explanation
Indices: 3087075--3087167 Score: 98
Period size: 41 Copynumber: 2.3 Consensus size: 39
3087065 AATTTAAAAA
* *
3087075 TTTTAACTTTCTTAATATATATTTTTAATTTTAAAAAATAATTT
1 TTTTAA-TTT-TT-ATAAATATTTTAAATTTTAAAAAATAA--T
*
3087119 TTTTAATTTTTATAAATATTTTAAATTTT-AAAAATTAT
1 TTTTAATTTTTATAAATATTTTAAATTTTAAAAAATAAT
*
3087157 TTTGAATTTTT
1 TTTTAATTTTT
3087168 GAAAATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 11 0.24
40 7 0.16
41 16 0.36
42 2 0.04
43 3 0.07
44 6 0.13
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (39 bp):
TTTTAATTTTTATAAATATTTTAAATTTTAAAAAATAAT
Found at i:3087119 original size:19 final size:19
Alignment explanation
Indices: 3087114--3087185 Score: 85
Period size: 18 Copynumber: 3.8 Consensus size: 19
3087104 TTTAAAAAAT
* *
3087114 AATTTTTTTAATTTTTATA
1 AATTATTTTAATTTTTAAA
*
3087133 AA-TATTTTAAATTTTAAA
1 AATTATTTTAATTTTTAAA
*
3087151 AATTATTTTGAATTTTTGAA
1 AATTATTTT-AATTTTTAAA
3087171 AATTA-TTTAATTTTT
1 AATTATTTTAATTTTT
3087186 TTTGTAACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
18 22 0.48
19 11 0.24
20 13 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
AATTATTTTAATTTTTAAA
Found at i:3087121 original size:22 final size:19
Alignment explanation
Indices: 3087093--3087184 Score: 78
Period size: 19 Copynumber: 4.7 Consensus size: 19
3087083 TTCTTAATAT
3087093 ATATTTTTAATTTTAAAAA
1 ATATTTTTAATTTTAAAAA
* *
3087112 ATAATTTTTTTAATTTTTATAA
1 AT-A--TTTTTAATTTTAAAAA
*
3087134 ATATTTTAAATTTTAAAAA
1 ATATTTTTAATTTTAAAAA
* * **
3087153 TTATTTTGAATTTTTGAAA
1 ATATTTTTAATTTTAAAAA
*
3087172 AT-TATTTAATTTT
1 ATATTTTTAATTTT
3087185 TTTTGTAACT
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
18 9 0.16
19 31 0.53
20 1 0.02
21 1 0.02
22 16 0.28
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATATTTTTAATTTTAAAAA
Found at i:3087139 original size:21 final size:21
Alignment explanation
Indices: 3087091--3087159 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 21
3087081 CTTTCTTAAT
*
3087091 ATATATTTTTAATTTTAAAAA
1 ATATTTTTTTAATTTTAAAAA
* *
3087112 ATAATTTTTTTAATTTTTATAA
1 AT-ATTTTTTTAATTTTAAAAA
*
3087134 ATA--TTTTAAATTTTAAAAA
1 ATATTTTTTTAATTTTAAAAA
*
3087153 TTATTTT
1 ATATTTT
3087160 GAATTTTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 15 0.39
21 5 0.13
22 18 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTTTTTTAATTTTAAAAA
Found at i:3092135 original size:23 final size:24
Alignment explanation
Indices: 3092093--3092153 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 24
3092083 AGTTTAATTG
*
3092093 TTAAAATATTAGATA-A-AATTAAA
1 TTAAAATA-AAGATATATAATTAAA
* * *
3092116 TTAAATTAAA-ATATATAATTTAG
1 TTAAAATAAAGATATATAATTAAA
3092139 TTAAAATAAAGATAT
1 TTAAAATAAAGATAT
3092154 GGTAATGGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 3 0.10
22 2 0.07
23 21 0.70
24 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (24 bp):
TTAAAATAAAGATATATAATTAAA
Found at i:3093356 original size:42 final size:42
Alignment explanation
Indices: 3093278--3093358 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
3093268 TAGAAAAGTT
* *
3093278 ACAGAGAGCAAACGTGAGAAAGAAAGAAATATAGAAAGACTA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
*
3093320 ACAGAGAGCAAACGTGAGAAAGAAAGAAGGAAAGAAAGA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGA
3093359 AAGAAATAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.58, C:0.09, G:0.27, T:0.06
Consensus pattern (42 bp):
ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:3095794 original size:85 final size:85
Alignment explanation
Indices: 3095636--3095834 Score: 244
Period size: 85 Copynumber: 2.4 Consensus size: 85
3095626 CGATGATGTG
* *
3095636 CTATTTGTGATAGCATAATTGCTTCAGTTTACCCAATGATGTAATTATGTGCTAATATATTTTCT
1 CTATTTGTGCTAGTATAATTGCTTCAGTTTACCCAATGATGTAATTATGTGCTAATATATTTTCT
* *
3095701 CCATTACATCCGGTGATGCA
66 CCATTACATCCGATGATACA
** *
3095721 CTATTTGTGCTAGTATAATTGCTTTGGTTTACCCAATGAT-TCATTTATGTGCTAATATATTTTC
1 CTATTTGTGCTAGTATAATTGCTTCAGTTTACCCAATGATGT-AATTATGTGCTAATATATTTTC
**
3095785 TTTGA-TACATCCGATGATACA
65 -TCCATTACATCCGATGATACA
** *
3095806 CT-TACGTGCTAGTATATTTGCTTC-GTTTA
1 CTATTTGTGCTAGTATAATTGCTTCAGTTTA
3095835 TCTGATGATG
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
83 5 0.05
84 19 0.19
85 73 0.74
86 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (85 bp):
CTATTTGTGCTAGTATAATTGCTTCAGTTTACCCAATGATGTAATTATGTGCTAATATATTTTCT
CCATTACATCCGATGATACA
Found at i:3095802 original size:42 final size:42
Alignment explanation
Indices: 3095680--3095824 Score: 105
Period size: 42 Copynumber: 3.4 Consensus size: 42
3095670 AATGATGTAA
** * *
3095680 TTATGTGCTAATATATTTTC-TCCATTACATCCGGTGATGCACT
1 TTATGTGCTAATATATTTTCTTTGA-TACATCCGATGATACA-T
* * * * ** * * *
3095723 ATT-TGTGCTAGTATAATTGCTTTGGTTTACCCAATGATTCAT
1 -TTATGTGCTAATATATTTTCTTTGATACATCCGATGATACAT
*
3095765 TTATGTGCTAATATATTTTCTTTGATACATCCGATGATACAC
1 TTATGTGCTAATATATTTTCTTTGATACATCCGATGATACAT
* *
3095807 TTACGTGCTAGTATATTT
1 TTATGTGCTAATATATTT
3095825 GCTTCGTTTA
Statistics
Matches: 75, Mismatches: 24, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
41 2 0.03
42 46 0.61
43 24 0.32
44 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (42 bp):
TTATGTGCTAATATATTTTCTTTGATACATCCGATGATACAT
Found at i:3103747 original size:2 final size:2
Alignment explanation
Indices: 3103726--3103787 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
3103716 AAATAACCAA
* * *
3103726 AT AT TT AT AT AC AT AC 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
3103768 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
3103788 TTGACATTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3105531 original size:3 final size:3
Alignment explanation
Indices: 3105523--3105572 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
3105513 TTTTCATCTT
3105523 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3105571 TT
1 TT
3105573 GTCATTTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3108133 original size:19 final size:19
Alignment explanation
Indices: 3108111--3108148 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3108101 GTATGAAAAT
3108111 GATGTTAAAGTAAAGTTTA
1 GATGTTAAAGTAAAGTTTA
3108130 GATGTTAAAGTAAAGTTTA
1 GATGTTAAAGTAAAGTTTA
3108149 CTTATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (19 bp):
GATGTTAAAGTAAAGTTTA
Found at i:3120620 original size:15 final size:16
Alignment explanation
Indices: 3120591--3120621 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3120581 ATTGCTTACC
3120591 ATATGCAATCAATTTA
1 ATATGCAATCAATTTA
3120607 ATATGCAA-CAATTTA
1 ATATGCAATCAATTTA
3120622 TCATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (16 bp):
ATATGCAATCAATTTA
Found at i:3124617 original size:10 final size:10
Alignment explanation
Indices: 3124602--3124628 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3124592 ATGGAAATGG
3124602 TTAATGGGAA
1 TTAATGGGAA
3124612 TTAATGGGAA
1 TTAATGGGAA
3124622 TTAATGG
1 TTAATGG
3124629 ATGAGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (10 bp):
TTAATGGGAA
Found at i:3126359 original size:203 final size:203
Alignment explanation
Indices: 3126010--3126422 Score: 826
Period size: 203 Copynumber: 2.0 Consensus size: 203
3126000 ATCGTGTTTA
3126010 CTATCCCGACGAACTCTCTATGTTGCCATAGTCGAACTACGAACTTACATAGTATACCCCATGTT
1 CTATCCCGACGAACTCTCTATGTTGCCATAGTCGAACTACGAACTTACATAGTATACCCCATGTT
3126075 TAATGCTCTAAAAGACTCCAGTGGTTGCCTTAGTCTAACTATGGACCTACACCTCGGGATACCCA
66 TAATGCTCTAAAAGACTCCAGTGGTTGCCTTAGTCTAACTATGGACCTACACCTCGGGATACCCA
3126140 TTTTTATTGTTCCGACAGGCAATCTTGTGTTTAATGTCCCAACAGACTATCCCATGTTTATCGTC
131 TTTTTATTGTTCCGACAGGCAATCTTGTGTTTAATGTCCCAACAGACTATCCCATGTTTATCGTC
3126205 CCGGCAGG
196 CCGGCAGG
3126213 CTATCCCGACGAACTCTCTATGTTGCCATAGTCGAACTACGAACTTACATAGTATACCCCATGTT
1 CTATCCCGACGAACTCTCTATGTTGCCATAGTCGAACTACGAACTTACATAGTATACCCCATGTT
3126278 TAATGCTCTAAAAGACTCCAGTGGTTGCCTTAGTCTAACTATGGACCTACACCTCGGGATACCCA
66 TAATGCTCTAAAAGACTCCAGTGGTTGCCTTAGTCTAACTATGGACCTACACCTCGGGATACCCA
3126343 TTTTTATTGTTCCGACAGGCAATCTTGTGTTTAATGTCCCAACAGACTATCCCATGTTTATCGTC
131 TTTTTATTGTTCCGACAGGCAATCTTGTGTTTAATGTCCCAACAGACTATCCCATGTTTATCGTC
3126408 CCGGCAGG
196 CCGGCAGG
3126416 CTATCCC
1 CTATCCC
3126423 ATGTTTAGTG
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
203 210 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (203 bp):
CTATCCCGACGAACTCTCTATGTTGCCATAGTCGAACTACGAACTTACATAGTATACCCCATGTT
TAATGCTCTAAAAGACTCCAGTGGTTGCCTTAGTCTAACTATGGACCTACACCTCGGGATACCCA
TTTTTATTGTTCCGACAGGCAATCTTGTGTTTAATGTCCCAACAGACTATCCCATGTTTATCGTC
CCGGCAGG
Found at i:3126400 original size:27 final size:27
Alignment explanation
Indices: 3126370--3126434 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
3126360 GGCAATCTTG
3126370 TGTTTAATGTCCCAACAGACTATCCCA
1 TGTTTAATGTCCCAACAGACTATCCCA
** *
3126397 TGTTT-ATCGTCCCGGCAGGCTATCCCA
1 TGTTTAAT-GTCCCAACAGACTATCCCA
*
3126424 TGTTTAGTGTC
1 TGTTTAATGTC
3126435 ATGGTAGACT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 29 0.91
28 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (27 bp):
TGTTTAATGTCCCAACAGACTATCCCA
Found at i:3126446 original size:27 final size:28
Alignment explanation
Indices: 3126385--3126458 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 28
3126375 AATGTCCCAA
*
3126385 CAGACTATCCCATGTTTA-TCGTCCCGG
1 CAGACTATCCCATGTTTAGTCGTCACGG
* *
3126412 CAGGCTATCCCATGTTTAGT-GTCATGG
1 CAGACTATCCCATGTTTAGTCGTCACGG
* *
3126439 TAGACTATCCCGTGTTTAGT
1 CAGACTATCCCATGTTTAGT
3126459 ATCTCGATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (28 bp):
CAGACTATCCCATGTTTAGTCGTCACGG
Found at i:3126469 original size:27 final size:27
Alignment explanation
Indices: 3126416--3126472 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
3126406 TCCCGGCAGG
* *
3126416 CTATCCCATGTTTAGTGTCATGGTAGA
1 CTATCCCATGTTTAGTATCATGATAGA
*
3126443 CTATCCCGTGTTTAGTATC-TCGATAGA
1 CTATCCCATGTTTAGTATCAT-GATAGA
3126470 CTA
1 CTA
3126473 CAAAAAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
CTATCCCATGTTTAGTATCATGATAGA
Found at i:3129389 original size:6 final size:6
Alignment explanation
Indices: 3129378--3129405 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3129368 TATTTCTCTT
3129378 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
3129406 GGAGAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:3129396 original size:69 final size:67
Alignment explanation
Indices: 3129312--3129466 Score: 229
Period size: 69 Copynumber: 2.3 Consensus size: 67
3129302 ATTTTTCAGG
* * ** *
3129312 TCATTTTCATTTTCATTTTTATTTTGGAGAAAATTACTTTCATTTCAAAATGATTTTATTTCTCT
1 TCATTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTCAAAATGATTTTA--TCTCA
3129377 TTTT
64 TTTT
*
3129381 TCATTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTCCAAATGATTTTATCTCATT
1 TCATTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTCAAAATGATTTTATCTCATT
3129446 TT
66 TT
*
3129448 TCTTTTTCATTTTCATTTT
1 TCATTTTCATTTTCATTTT
3129467 GGAGAAACAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
67 26 0.33
69 53 0.67
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.57
Consensus pattern (67 bp):
TCATTTTCATTTTCATTTTCATTTTGGAGAAAATCACTTAAATTTCAAAATGATTTTATCTCATT
TT
Found at i:3129399 original size:19 final size:18
Alignment explanation
Indices: 3129364--3129405 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3129354 TTTCAAAATG
*
3129364 ATTTTATTTCTCTTTTTTC
1 ATTTTATTTCTC-ATTTTC
3129383 ATTTTCATTT-TCATTTTC
1 ATTTT-ATTTCTCATTTTC
3129401 ATTTT
1 ATTTT
3129406 GGAGAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 7 0.33
20 4 0.19
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTATTTCTCATTTTC
Found at i:3133305 original size:2 final size:2
Alignment explanation
Indices: 3133300--3133335 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3133290 TTTAAAGATA
3133300 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
3133336 TGAAAGTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3134405 original size:31 final size:31
Alignment explanation
Indices: 3134309--3134414 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 31
3134299 CATAATAACA
* * *
3134309 AATTTAGTCCTCAATATTTATATATTCAATC
1 AATTTAATCCTCAATATTTAAAAATTCAATC
*
3134340 AATTTAATCCT--AT-TTCTAAATAATTCAATA
1 AATTTAATCCTCAATATT-TAAA-AATTCAATC
* * *
3134370 AATTTAACCCTCAATATTTACAAATTCTATC
1 AATTTAATCCTCAATATTTAAAAATTCAATC
*
3134401 AATTTGATCCTCAA
1 AATTTAATCCTCAA
3134415 ACACATATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
28 2 0.03
29 5 0.08
30 17 0.28
31 29 0.48
32 5 0.08
33 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.42
Consensus pattern (31 bp):
AATTTAATCCTCAATATTTAAAAATTCAATC
Found at i:3135187 original size:24 final size:25
Alignment explanation
Indices: 3135149--3135207 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
3135139 ATTCCATAAG
3135149 ATTAAAAATCACATTGATCTTTA-T
1 ATTAAAAATCACATTGATCTTTATT
** * *
3135173 ATTAAAAATTTCATTTATTTTTATT
1 ATTAAAAATCACATTGATCTTTATT
*
3135198 GTTAAAAATC
1 ATTAAAAATC
3135208 TAATTATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.47
Consensus pattern (25 bp):
ATTAAAAATCACATTGATCTTTATT
Found at i:3135604 original size:13 final size:13
Alignment explanation
Indices: 3135583--3135615 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
3135573 AAATTCCAAA
*
3135583 CTTACCTTCTTTT
1 CTTATCTTCTTTT
3135596 CTTATCTTCTTTT
1 CTTATCTTCTTTT
3135609 CTTATCT
1 CTTATCT
3135616 CTAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (13 bp):
CTTATCTTCTTTT
Found at i:3140051 original size:17 final size:19
Alignment explanation
Indices: 3140029--3140071 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
3140019 ATGGAAATAT
3140029 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
3140046 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
3140065 AATCTTA
1 AATCTTA
3140072 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:3140082 original size:22 final size:19
Alignment explanation
Indices: 3140037--3140073 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3140027 ATAATCTTCA
3140037 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
3140056 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
3140074 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:3140387 original size:17 final size:17
Alignment explanation
Indices: 3140365--3140397 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3140355 TTTCCCTGAT
3140365 TTTTTTA-TATATTTTAA
1 TTTTTTACTA-ATTTTAA
3140382 TTTTTTACTAATTTTA
1 TTTTTTACTAATTTTA
3140398 GTATCATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTTACTAATTTTAA
Found at i:3149781 original size:17 final size:18
Alignment explanation
Indices: 3149759--3149793 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3149749 GATATGATAC
*
3149759 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
3149776 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
3149794 AAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:3150106 original size:19 final size:19
Alignment explanation
Indices: 3150082--3150153 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
3150072 AATCATAACT
3150082 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3150101 TCTAAGATTG--TATCA-A
1 TCTAAGATTGCATATCATA
3150117 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3150136 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
3150154 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.22
17 5 0.10
18 5 0.10
19 29 0.58
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:3151061 original size:81 final size:82
Alignment explanation
Indices: 3150932--3151083 Score: 263
Period size: 81 Copynumber: 1.9 Consensus size: 82
3150922 ATCTTAAAGG
* *
3150932 TTTCTTAATTTCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTCTATGGGTGGCAT
1 TTTCTTAACTTCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATCCTATGGGTGGCAT
3150997 AAAAAAAAAATTAAACA
66 AAAAAAAAAATTAAACA
3151014 TTTCTTAACTTCT-CAAGATTGGGTTTCTCTTTCAA-AGCAAGCTCAAGAATCCTATGGGTGGCA
1 TTTCTTAACTTCTCCAAGATTGGGTTTCTCTTTCAACA-CAAGCTCAAGAATCCTATGGGTGGCA
3151077 TAAAAAA
65 TAAAAAA
3151084 TTCAGTGTTG
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
80 1 0.01
81 54 0.81
82 12 0.18
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (82 bp):
TTTCTTAACTTCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATCCTATGGGTGGCAT
AAAAAAAAAATTAAACA
Found at i:3156346 original size:130 final size:128
Alignment explanation
Indices: 3156088--3156497 Score: 413
Period size: 130 Copynumber: 3.2 Consensus size: 128
3156078 TTGCCACTAA
* * * *
3156088 CAAGAGTGAAGATTGAATCTTCAAGCTGTTTAACCTTTGATTTT-TATTTTCAGAAAAG-AAAAG
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAGAAAAAG
* * *
3156151 --AGAAGGCCTGCTTGGTCCCTTTACCTAAGAAAATGCTCTTCCTGATTGGTATTCAATCACCAG
66 AAAAAAGGCCTGCTTGGTCCC--TACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCAG
3156214 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAAGAAAGA
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAG-AAAAGAAA-A
* * * *
3156279 AGAAAAAAGGCCTGCTTGGTGCCC-ATCTAAGAAATTACTCTTGCTGATTGATATTCGATCACCA
64 AGAAAAAAGGCCTGCTTGGT-CCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCA
3156343 G
128 G
* * * * * *
3156344 CAAGGGTAAAGATTGAATCTTTGAGCTGTTTAACCTTTGC-TTAGAATTCTCAGGAAAAGAAAAG
1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCA-GAAAAGAAAAA
* * * *** * ** * *
3156408 GAAAAAAGGCCAT-CTTGTTGTCCGTGCCT-AGAAAATGCTCCAGCTGATTGGTGGTCAACCACT
65 GAAAAAAGGCC-TGCTTG--GTCCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACC
3156471 AG
127 AG
* *
3156473 CAAGAGCAAACATTGAATCTTCGAG
1 CAAGAGTAAAGATTGAATCTTCGAG
3156498 TAACAAAATT
Statistics
Matches: 238, Mismatches: 34, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
126 41 0.17
127 8 0.03
128 21 0.09
129 69 0.29
130 81 0.34
132 15 0.06
133 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (128 bp):
CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAGAAAAAG
AAAAAAGGCCTGCTTGGTCCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCAG
Found at i:3158852 original size:80 final size:80
Alignment explanation
Indices: 3158719--3158879 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
3158709 CTAATCATAA
*
3158719 CGGTGGTTTATGGGAATTATGTACTTCTTAAATAATTTTAGAACAAAAATAATTATAATCTATAC
1 CGGTGGTTTATGGGAATTATGTACTTCTTAAATAATTTTAGAACAAAAATAATTACAATCTATAC
3158784 ATATAATTTAGTTTT
66 ATATAATTTAGTTTT
*
3158799 CGGTGGTTTATGGGAATTATGTACTTCTTAAATAATTTTAGAACAAAAATAATTGCAATCTATAC
1 CGGTGGTTTATGGGAATTATGTACTTCTTAAATAATTTTAGAACAAAAATAATTACAATCTATAC
3158864 ATATAATTTAGTTTT
66 ATATAATTTAGTTTT
3158879 C
1 C
3158880 TTAATTTTAC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.42
Consensus pattern (80 bp):
CGGTGGTTTATGGGAATTATGTACTTCTTAAATAATTTTAGAACAAAAATAATTACAATCTATAC
ATATAATTTAGTTTT
Found at i:3159762 original size:31 final size:30
Alignment explanation
Indices: 3159719--3159796 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 30
3159709 ATTTTGATTA
*
3159719 ATTTTTAAAATTTTAATAA-ATATTAATAAAT
1 ATTTTTATAATTTTAA-AATATATTAA-AAAT
*
3159750 ATTTTTATAATTTTTAAAATTATTTTAAAAAT
1 ATTTTTATAA-TTTTAAAA-TATATTAAAAAT
3159782 ATTTTTTATAATTTT
1 A-TTTTTATAATTTT
3159797 TTTAATTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 11 0.27
32 15 0.37
33 15 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTTTATAATTTTAAAATATATTAAAAAT
Found at i:3159777 original size:11 final size:11
Alignment explanation
Indices: 3159728--3159786 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
3159718 AATTTTTAAA
3159728 ATTTTAATAAAT
1 ATTTTAA-AAAT
3159740 A--TTAATAAAT
1 ATTTTAA-AAAT
* *
3159750 ATTTTTATAAT
1 ATTTTAAAAAT
*
3159761 -TTTTAAAATT
1 ATTTTAAAAAT
3159771 ATTTTAAAAAT
1 ATTTTAAAAAT
3159782 ATTTT
1 ATTTT
3159787 TTATAATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
10 17 0.45
11 17 0.45
12 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:3165277 original size:23 final size:22
Alignment explanation
Indices: 3165251--3165293 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3165241 GTTCATGAGT
* *
3165251 ATGAATTAAATTTGATTTTTAAA
1 ATGAAATAAA-TTGAATTTTAAA
3165274 ATGAAATAAATTGAATTTTA
1 ATGAAATAAATTGAATTTTA
3165294 TTTATTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (22 bp):
ATGAAATAAATTGAATTTTAAA
Found at i:3168056 original size:9 final size:9
Alignment explanation
Indices: 3168042--3168075 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
3168032 GATCAAGCAA
3168042 AATTAAATT
1 AATTAAATT
3168051 AATTAAATT
1 AATTAAATT
*
3168060 AATCAAATT
1 AATTAAATT
3168069 AATTAAA
1 AATTAAA
3168076 ATAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AATTAAATT
Found at i:3168549 original size:68 final size:69
Alignment explanation
Indices: 3168459--3168591 Score: 196
Period size: 68 Copynumber: 1.9 Consensus size: 69
3168449 TGTAATAAAT
* * * * *
3168459 TTAATATTTAATTTAATTTAATACTTATCTTAAT-ATTATTGTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATAATAAAGTGAT
3168523 CATC
66 CATC
* *
3168527 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATAATAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATAATAAAGTGAT
3168592 TAAGTTTAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
68 30 0.53
69 27 0.47
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATACTTATCTTAATAAGTATTATATTAATTTAATAATAAAGTGAT
CATC
Found at i:3168754 original size:26 final size:26
Alignment explanation
Indices: 3168725--3168776 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
3168715 TTAGAAAATT
*
3168725 TATAAAGATATTTTTCATATTTACAA
1 TATAAAGATATTTTCCATATTTACAA
3168751 TATAAAGATATTTTCCATATTTACAA
1 TATAAAGATATTTTCCATATTTACAA
3168777 CTTGATCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (26 bp):
TATAAAGATATTTTCCATATTTACAA
Found at i:3172294 original size:32 final size:32
Alignment explanation
Indices: 3172247--3172308 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3172237 GGGAGGTGAA
** *
3172247 TGTTCTTATTTATGTGTGTATATTTTGGTGGT
1 TGTTCTTATCGATGTGTGCATATTTTGGTGGT
3172279 TGTTCTTATCGATGTGTGCATATTTTGGTG
1 TGTTCTTATCGATGTGTGCATATTTTGGTG
3172309 AAATATTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.13, C:0.06, G:0.26, T:0.55
Consensus pattern (32 bp):
TGTTCTTATCGATGTGTGCATATTTTGGTGGT
Found at i:3176667 original size:2 final size:2
Alignment explanation
Indices: 3176660--3176698 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3176650 ATAAGGTATG
*
3176660 TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3176699 GAAATGTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3177727 original size:2 final size:2
Alignment explanation
Indices: 3177720--3177758 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3177710 TATGTATGCC
3177720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3177759 GTGTGCTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3186874 original size:50 final size:50
Alignment explanation
Indices: 3186820--3186921 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
3186810 ATTATAGATG
*
3186820 TATGGAATTCATTTCATAATGTATGTCGTGTTTCATAGATATTATATTTT
1 TATGGAATTCATTTCATAATGTATGCCGTGTTTCATAGATATTATATTTT
3186870 TATGGAATTCATTTCATAATGTATGCCGTGTTTCATAGATATTATATTTT
1 TATGGAATTCATTTCATAATGTATGCCGTGTTTCATAGATATTATATTTT
3186920 TA
1 TA
3186922 AGTTATCTAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (50 bp):
TATGGAATTCATTTCATAATGTATGCCGTGTTTCATAGATATTATATTTT
Found at i:3187795 original size:24 final size:24
Alignment explanation
Indices: 3187762--3187835 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
3187752 AAGTCTGTCT
*
3187762 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
3187786 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
3187810 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
3187834 GG
1 GG
3187836 TGAACTATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:3189329 original size:29 final size:27
Alignment explanation
Indices: 3189268--3189379 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
3189258 AGGAAGCGTC
*
3189268 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
3189295 CTGGTGGCTCTGCCACATATATATCTGTT
1 CTGGTGGCTCTGCCACA-AT-TATCTGAT
* * *
3189324 CTGGTGGTTCTGCTACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
3189352 TTGGTGACTCTGTCAC-ATTATCTG-T
1 CTGGTGGCTCTGCCACAATTATCTGAT
3189377 CTG
1 CTG
3189380 ACAGCCATGC
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.04
27 30 0.43
28 16 0.23
29 21 0.30
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:3195624 original size:24 final size:24
Alignment explanation
Indices: 3195591--3195664 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
3195581 AAGTCTGTCT
*
3195591 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
3195615 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
3195639 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
3195663 GG
1 GG
3195665 TGAACTGTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:3197138 original size:27 final size:27
Alignment explanation
Indices: 3197098--3197205 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
3197088 AGGAAGCATC
*
3197098 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
3197125 CTGGTGGCTCTGCCACATATATATCTGTT
1 CTGGTGGCTCTGCCACA-AT-TATCTGAT
* *
3197154 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
3197182 CTGGTGACTCTGTCAC-ATTATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
3197206 TTCTAGCAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 30 0.43
28 18 0.26
29 22 0.31
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:3201449 original size:18 final size:19
Alignment explanation
Indices: 3201426--3201461 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
3201416 ATGTGACCCC
3201426 TGTTTTCCC-AAATTTTCA
1 TGTTTTCCCAAAATTTTCA
3201444 TGTTTTCCCAAAATTTTC
1 TGTTTTCCCAAAATTTTC
3201462 TTATTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (19 bp):
TGTTTTCCCAAAATTTTCA
Found at i:3201947 original size:38 final size:38
Alignment explanation
Indices: 3201905--3202029 Score: 169
Period size: 38 Copynumber: 3.3 Consensus size: 38
3201895 ACAAAATTTG
* * * *
3201905 CATGTTTACTGTTAATAATAAATTTAGTACGTGTTAAA
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
*
3201943 CATGTCTACTGTTAATGATGAATTGAGTACATGTTAAA
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
* **
3201981 CATGTCTACTGTTAATAATGAATTGAGCACATGTTGTA
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
*
3202019 CATGTTTACTG
1 CATGTCTACTG
3202030 CAAGTGTTGA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (38 bp):
CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
Found at i:3203488 original size:38 final size:38
Alignment explanation
Indices: 3203446--3203533 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 38
3203436 ACATAATTTG
* *
3203446 CATGTCTACTGTTAATAATAAATTAAGTACGTGTTAAA
1 CATGTCTACTGTTAATAATAAATTAAGTACATATTAAA
** * *
3203484 CATGTCTACTGTTAATGGTGAATTAAGTATATATTAAA
1 CATGTCTACTGTTAATAATAAATTAAGTACATATTAAA
3203522 CATGTCTACTGT
1 CATGTCTACTGT
3203534 ACATGTCTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (38 bp):
CATGTCTACTGTTAATAATAAATTAAGTACATATTAAA
Found at i:3203539 original size:13 final size:13
Alignment explanation
Indices: 3203521--3203545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3203511 TATATATTAA
3203521 ACATGTCTACTGT
1 ACATGTCTACTGT
3203534 ACATGTCTACTG
1 ACATGTCTACTG
3203546 CTACTGTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (13 bp):
ACATGTCTACTGT
Found at i:3203835 original size:89 final size:89
Alignment explanation
Indices: 3203668--3203838 Score: 200
Period size: 89 Copynumber: 1.9 Consensus size: 89
3203658 CTAGAAGAAA
* * * * **
3203668 ATTTTATTTACGAGATTTTTCTGTGTATCCACAGCCAAAGGTAGATTCTAATTTTGGGATAATTG
1 ATTTTATCTACGAGATTTTTCTGTGCATCCACAGCCAAAGGCAGATTCTAACTGCGGGATAATTG
** *
3203733 TTGTGTTTTCATAGCCAGAGGCTG
66 TTGTGCGTCCATAGCCAGAGGCTG
* * * * *
3203757 ATTTTATCTGCGAGATTTTTGTTGTGCATCCATAGCCAGAGGCAGATTCTAACTGCGGGAT-TTT
1 ATTTTATCTACGAGATTTTT-CTGTGCATCCACAGCCAAAGGCAGATTCTAACTGCGGGATAATT
3203821 GTTGTGCGTCCATAGCCA
65 GTTGTGCGTCCATAGCCA
3203839 CTGGCAGTTT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
89 35 0.52
90 32 0.48
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (89 bp):
ATTTTATCTACGAGATTTTTCTGTGCATCCACAGCCAAAGGCAGATTCTAACTGCGGGATAATTG
TTGTGCGTCCATAGCCAGAGGCTG
Found at i:3203836 original size:44 final size:45
Alignment explanation
Indices: 3203742--3203838 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
3203732 GTTGTGTTTT
* * *
3203742 CATAGCCAGAGGCTGATTTTATCTGCGAGATTTTTGTTGTGCATC
1 CATAGCCAGAGGCAGATTCTAACTGCGAGATTTTTGTTGTGCATC
* *
3203787 CATAGCCAGAGGCAGATTCTAACTGCGGGA-TTTTGTTGTGCGTC
1 CATAGCCAGAGGCAGATTCTAACTGCGAGATTTTTGTTGTGCATC
3203831 CATAGCCA
1 CATAGCCA
3203839 CTGGCAGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 21 0.45
45 26 0.55
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (45 bp):
CATAGCCAGAGGCAGATTCTAACTGCGAGATTTTTGTTGTGCATC
Found at i:3204818 original size:11 final size:11
Alignment explanation
Indices: 3204802--3204827 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3204792 AAAACTAATC
3204802 TTAATTAATAA
1 TTAATTAATAA
3204813 TTAATTAATAA
1 TTAATTAATAA
3204824 TTAA
1 TTAA
3204828 AATAAGAAAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAATTAATAA
Found at i:3214491 original size:7 final size:7
Alignment explanation
Indices: 3214479--3214517 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
3214469 CATTTCTAAA
3214479 CATCCCT
1 CATCCCT
3214486 CATCCCT
1 CATCCCT
3214493 CATCCCT
1 CATCCCT
*
3214500 CATCACT
1 CATCCCT
3214507 CATCCCT
1 CATCCCT
3214514 CATC
1 CATC
3214518 ATTCATCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.18, C:0.54, G:0.00, T:0.28
Consensus pattern (7 bp):
CATCCCT
Found at i:3214498 original size:14 final size:14
Alignment explanation
Indices: 3214479--3214524 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
3214469 CATTTCTAAA
*
3214479 CATCCCTCATCCCT
1 CATCCCTCATCACT
3214493 CATCCCTCATCACT
1 CATCCCTCATCACT
*
3214507 CATCCCTCATCATT
1 CATCCCTCATCACT
3214521 CATC
1 CATC
3214525 ATTCTCTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (14 bp):
CATCCCTCATCACT
Found at i:3214523 original size:21 final size:21
Alignment explanation
Indices: 3214479--3214525 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3214469 CATTTCTAAA
* *
3214479 CATCCCTCATCCCTCATCCCT
1 CATCACTCATCCCTCATCACT
*
3214500 CATCACTCATCCCTCATCATT
1 CATCACTCATCCCTCATCACT
3214521 CATCA
1 CATCA
3214526 TTCTCTCATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.49, G:0.00, T:0.30
Consensus pattern (21 bp):
CATCACTCATCCCTCATCACT
Found at i:3222167 original size:27 final size:27
Alignment explanation
Indices: 3222129--3222236 Score: 180
Period size: 27 Copynumber: 4.0 Consensus size: 27
3222119 AAAAAGACTA
3222129 AGTGATGCAGTAATGGGAATGAACATG
1 AGTGATGCAGTAATGGGAATGAACATG
3222156 AGTGATGCAGTAATGGGAATGAACATG
1 AGTGATGCAGTAATGGGAATGAACATG
**
3222183 AGTGATGTGGTAATGGGAATGAACATG
1 AGTGATGCAGTAATGGGAATGAACATG
**
3222210 AGTGATGTGGTAATGGGAATGAACATG
1 AGTGATGCAGTAATGGGAATGAACATG
3222237 TCTAGGATTG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (27 bp):
AGTGATGCAGTAATGGGAATGAACATG
Found at i:3223191 original size:117 final size:117
Alignment explanation
Indices: 3222985--3223223 Score: 433
Period size: 117 Copynumber: 2.0 Consensus size: 117
3222975 CAAAAAGGAA
* * *
3222985 AAATGTATGAGCTTAAGTTCAAAATAAGTTTGGGGGTGTTCTAAAGGTTCGCTTAAAGAAAAAGG
1 AAATGCATGAGCTTAAGTTCAAAATAAGTTTGGGGGTGTTCCAAAGGTTCACTTAAAGAAAAAGG
*
3223050 TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACTG
66 TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACCG
*
3223102 AAATGCATGAGCTTAAGTTCAAAATATGTTTGGGGGTGTTCCAAAGGTTCACTTAAAGAAAAAGG
1 AAATGCATGAGCTTAAGTTCAAAATAAGTTTGGGGGTGTTCCAAAGGTTCACTTAAAGAAAAAGG
3223167 TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACCG
66 TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACCG
3223219 AAATG
1 AAATG
3223224 TCCCTCTTAA
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (117 bp):
AAATGCATGAGCTTAAGTTCAAAATAAGTTTGGGGGTGTTCCAAAGGTTCACTTAAAGAAAAAGG
TTGTATTACGAGAAAACCAAGACAAAGTTAAAGGTTAAGATTTTTAAAACCG
Found at i:3224405 original size:14 final size:14
Alignment explanation
Indices: 3224386--3224417 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3224376 CATTTCTAAG
3224386 CATCCCTCATCACT
1 CATCCCTCATCACT
*
3224400 CATCCCTCATCATT
1 CATCCCTCATCACT
3224414 CATC
1 CATC
3224418 ATTCTCTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.47, G:0.00, T:0.31
Consensus pattern (14 bp):
CATCCCTCATCACT
Found at i:3224462 original size:19 final size:19
Alignment explanation
Indices: 3224435--3224476 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
3224425 CATCTCTAAA
*
3224435 TTCTCTTAGCATTCTTCTT
1 TTCTATTAGCATTCTTCTT
3224454 TTCTATTAGCATTCTTCTT
1 TTCTATTAGCATTCTTCTT
3224473 TTCT
1 TTCT
3224477 CCCCACGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.24, G:0.05, T:0.60
Consensus pattern (19 bp):
TTCTATTAGCATTCTTCTT
Found at i:3225270 original size:19 final size:22
Alignment explanation
Indices: 3225237--3225276 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
3225227 AGTTTATTTA
3225237 TGTTATAATTGTTGC-AAAATG
1 TGTTATAATTGTTGCTAAAATG
3225258 TGTT-TAATT-TTGCTAAAAT
1 TGTTATAATTGTTGCTAAAAT
3225277 CTATTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTTATAATTGTTGCTAAAATG
Found at i:3234260 original size:15 final size:15
Alignment explanation
Indices: 3234240--3234273 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3234230 AATGTAAATT
3234240 ATAAAAAAACTAAAA
1 ATAAAAAAACTAAAA
* *
3234255 ATAAAAAAATTGAAA
1 ATAAAAAAACTAAAA
3234270 ATAA
1 ATAA
3234274 TAGTCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (15 bp):
ATAAAAAAACTAAAA
Found at i:3235676 original size:17 final size:16
Alignment explanation
Indices: 3235640--3235685 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
3235630 TTTAGTATAG
3235640 ATATTTATAAAAACAT
1 ATATTTATAAAAACAT
3235656 ATATTTATGAAACAA-AT
1 ATATTTAT-AAA-AACAT
3235673 ATATTTATAAAAA
1 ATATTTATAAAAA
3235686 AAGTAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 13 0.46
18 2 0.07
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (16 bp):
ATATTTATAAAAACAT
Found at i:3239750 original size:16 final size:18
Alignment explanation
Indices: 3239718--3239752 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3239708 ATGTGTCCCT
3239718 TCCACACGGGCGCGTGTC
1 TCCACACGGGCGCGTGTC
*
3239736 TCCACACGGGCGTGTGT
1 TCCACACGGGCGCGTGT
3239753 AGCTTTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.34, G:0.34, T:0.20
Consensus pattern (18 bp):
TCCACACGGGCGCGTGTC
Found at i:3239799 original size:19 final size:19
Alignment explanation
Indices: 3239775--3239813 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3239765 GGCATGTAGG
* *
3239775 CTTCCACACGGCGAAGGCA
1 CTTCCACACAGCCAAGGCA
3239794 CTTCCACACAGCCAAGGCA
1 CTTCCACACAGCCAAGGCA
3239813 C
1 C
3239814 ACAACCGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.41, G:0.21, T:0.10
Consensus pattern (19 bp):
CTTCCACACAGCCAAGGCA
Found at i:3244683 original size:16 final size:17
Alignment explanation
Indices: 3244651--3244683 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3244641 ATTTTATAAG
3244651 TTTAATACAAAGGTTAA
1 TTTAATACAAAGGTTAA
*
3244668 TTTAATA-AATGGTTAA
1 TTTAATACAAAGGTTAA
3244684 ATGTAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (17 bp):
TTTAATACAAAGGTTAA
Found at i:3245986 original size:35 final size:35
Alignment explanation
Indices: 3245937--3246027 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
3245927 GTTATCTGGC
* * *
3245937 GTGCTGGATAGTACTGGCTCTAATGAACAATTGGT
1 GTGCTGGATGGTACTGACTCTAACGAACAATTGGT
* * * *
3245972 GTGCTGGATGGTACTGACTTTCACGAGCAGTTGGT
1 GTGCTGGATGGTACTGACTCTAACGAACAATTGGT
* *
3246007 GTGTTGGATGGTACTGCCTCT
1 GTGCTGGATGGTACTGACTCT
3246028 TTTGAGCATC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.33
Consensus pattern (35 bp):
GTGCTGGATGGTACTGACTCTAACGAACAATTGGT
Found at i:3248703 original size:17 final size:18
Alignment explanation
Indices: 3248690--3248814 Score: 100
Period size: 19 Copynumber: 6.9 Consensus size: 18
3248680 TAATCTTCAA
3248690 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
3248709 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
3248726 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
3248745 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
3248761 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
3248780 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
3248798 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
3248815 AGATATGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.26
18 28 0.31
19 30 0.33
20 4 0.04
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:3248759 original size:35 final size:35
Alignment explanation
Indices: 3248697--3248814 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
3248687 CAATGATATG
*
3248697 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
3248733 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
3248768 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
3248805 CAATCTTAGA
1 CAATCTTAGA
3248815 AGATATGATT
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 51 0.65
36 15 0.19
37 13 0.16
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:3251103 original size:25 final size:25
Alignment explanation
Indices: 3251069--3251119 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3251059 CTACTTGTTT
3251069 GCCAATCTTTCTTTCAAGGTAATCA
1 GCCAATCTTTCTTTCAAGGTAATCA
3251094 GCCAATCTTTCTTTCAAGGTAATCA
1 GCCAATCTTTCTTTCAAGGTAATCA
3251119 G
1 G
3251120 AGCAACTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (25 bp):
GCCAATCTTTCTTTCAAGGTAATCA
Found at i:3253996 original size:1 final size:1
Alignment explanation
Indices: 3253990--3254054 Score: 67
Period size: 1 Copynumber: 65.0 Consensus size: 1
3253980 CTTCTATTTC
* * * * * * *
3253990 AAAAAAAAGAAAAAAAAAAAAAGAAAAGAAAAGAAAAAAAAAAAGAAAAAAGAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3254055 TGGAGAGGCC
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:3254021 original size:24 final size:24
Alignment explanation
Indices: 3253990--3254054 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
3253980 CTTCTATTTC
3253990 AAAA-AAAAGAAAAAAAAAAA-AA
1 AAAAGAAAAGAAAAAAAAAAAGAA
3254012 GAAAAGAAAAGAAAAAAAAAAAGAA
1 -AAAAGAAAAGAAAAAAAAAAAGAA
*
3254037 AAAAGAAAA-AAAGAAAAA
1 AAAAGAAAAGAAAAAAAAA
3254055 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 12 0.31
24 25 0.64
25 2 0.05
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (24 bp):
AAAAGAAAAGAAAAAAAAAAAGAA
Found at i:3254026 original size:22 final size:21
Alignment explanation
Indices: 3253992--3254054 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 21
3253982 TCTATTTCAA
3253992 AAAAAAGAAAAAAAAAAAAAG
1 AAAAAAGAAAAAAAAAAAAAG
3254013 AAAAGAA-AAGAAAAAAAAAAAG
1 AAAA-AAGAA-AAAAAAAAAAAG
*
3254035 AAAAAAGAAAAAAAGAAAAA
1 AAAAAAGAAAAAAAAAAAAA
3254055 TGGAGAGGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
21 18 0.47
22 20 0.53
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAAAAAG
Found at i:3255138 original size:79 final size:81
Alignment explanation
Indices: 3255028--3255184 Score: 246
Period size: 79 Copynumber: 2.0 Consensus size: 81
3255018 GGTTAAATTT
* *
3255028 GCAGATCTTATATCTCTAAGCAGTAGTGGAGCAGATCGA-A-GACTCGCCTAAATCCCCTAAGCA
1 GCAGATCTTATATCCCTAAGCAGTAGCGGAGCAGATCGAGACGACTCGCCTAAATCCCCTAAGCA
3255091 GTAGGGTAACAGGTTC
66 GTAGGGTAACAGGTTC
* * *
3255107 GCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGATGACTACTCGCCTTAATCCCCTAAGC
1 GCAGATCTTATATCCCTAAGCAGTAGCGGAGCAGATCGA-GACGACTCGCCTAAATCCCCTAAGC
3255172 AGTAGGGTAACAG
65 AGTAGGGTAACAG
3255185 ATCTTATCCC
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 36 0.51
81 1 0.01
82 33 0.47
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (81 bp):
GCAGATCTTATATCCCTAAGCAGTAGCGGAGCAGATCGAGACGACTCGCCTAAATCCCCTAAGCA
GTAGGGTAACAGGTTC
Found at i:3255232 original size:72 final size:72
Alignment explanation
Indices: 3255108--3255252 Score: 188
Period size: 72 Copynumber: 2.0 Consensus size: 72
3255098 AACAGGTTCG
** * * *
3255108 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGATGACTACTCGCCTTAATCCCCTAAGCA
1 CAGATCTTA-CTCCCTAAAAAGTAGCAGAGCAGATCGAAGACTACTCACCTTAA-CCCCTAAGCA
3255173 GTAGGGTAA
64 GTAGGGTAA
3255182 CAGATCTTA-TCCCTAAAAAGTAGCAGAGCAGATCGAAGA-TGA-TGCACCTTAACCCCTAAGCA
1 CAGATCTTACTCCCTAAAAAGTAGCAGAGCAGATCGAAGACT-ACT-CACCTTAACCCCTAAGCA
3255244 GTAGGGTAA
64 GTAGGGTAA
3255253 TAGACCAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
71 21 0.33
72 34 0.53
74 9 0.14
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (72 bp):
CAGATCTTACTCCCTAAAAAGTAGCAGAGCAGATCGAAGACTACTCACCTTAACCCCTAAGCAGT
AGGGTAA
Found at i:3255617 original size:206 final size:206
Alignment explanation
Indices: 3255263--3256049 Score: 1333
Period size: 206 Copynumber: 3.8 Consensus size: 206
3255253 TAGACCAAAG
* * * * * *
3255263 CATAGCAGATCTTACATTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * *
3255328 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
* * * *
3255393 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAATTTTGGCGTCTCCATATTCGACG
131 AAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
3255458 GAGGGCAGACA
196 GAGGGCAGACA
3255469 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
*
3255534 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
3255599 AAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
131 AAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
*
3255664 GAGAGCAGACA
196 GAGGGCAGACA
*
3255675 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATTCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * * *
3255740 CTTACAAGGAGAAAATCGAAGATATAGCTGATTTGGTTTTCGCGTGCTTACGCCGAAGCAAGTCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
* *
3255805 AAGATAAGTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCACCTCCATATTCGACG
131 AAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
3255870 GAGGGCAGACA
196 GAGGGCAGACA
*
3255881 CATAGTAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
*
3255946 CTTACAAGGAGCAAATCGAAGACATAGCTAATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
66 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
*
3256011 AAGATGATTTGGCATCTCTGTATTGTCA-AGGAACAAATC
131 AAGATAATTTGGCATCTCTGTATTGTCAGA-GAACAAATC
3256050 GAAGAAGCAG
Statistics
Matches: 549, Mismatches: 31, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
205 1 0.00
206 548 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (206 bp):
CATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
AAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGCCTCCATATTCGACG
GAGGGCAGACA
Found at i:3256494 original size:17 final size:17
Alignment explanation
Indices: 3256453--3256570 Score: 146
Period size: 17 Copynumber: 6.6 Consensus size: 17
3256443 CAATGATATG
*
3256453 CAATCTTAGATGTGATAA
1 CAATCTTAGATATGAT-A
3256471 GCAATCTTAGATATGATA
1 -CAATCTTAGATATGATA
*
3256489 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
3256507 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
3256524 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
3256542 CAATATTAGATATGATATA
1 CAATCTTAGATATG--ATA
3256561 CAATCTTAGA
1 CAATCTTAGA
3256571 AGATATGATT
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
17 31 0.35
18 31 0.35
19 25 0.28
20 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:3256516 original size:35 final size:35
Alignment explanation
Indices: 3256453--3256570 Score: 182
Period size: 35 Copynumber: 3.3 Consensus size: 35
3256443 CAATGATATG
* *
3256453 CAATCTTAGATGTGATAAGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
3256489 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
3256524 CAATCTTAGATATGATTGCAATATTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
3256561 CAATCTTAGA
1 CAATCTTAGA
3256571 AGATATGATT
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 49 0.64
36 15 0.19
37 13 0.17
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:3271079 original size:29 final size:29
Alignment explanation
Indices: 3271033--3271134 Score: 71
Period size: 29 Copynumber: 3.4 Consensus size: 29
3271023 ATTTGAGCAC
* *
3271033 TTTTGAAAAGGCTAGGCCCTTCTCTGACCA
1 TTTTG-AAAGGTTAGGCCCTTCTATGACCA
* * *
3271063 TTTTGAAAGGTTTGG-CCTTCATTTGAGCA
1 TTTTGAAAGGTTAGGCCCTTC-TATGACCA
* * * *
3271092 CTTTTATAAAAGTTAGGCTCTTATATGACCA
1 -TTTT-GAAAGGTTAGGCCCTTCTATGACCA
*
3271123 TCTTGAAAGGTT
1 TTTTGAAAGGTT
3271135 TGGTTCTTAT
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
28 5 0.09
29 20 0.37
30 12 0.22
31 14 0.26
32 3 0.06
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (29 bp):
TTTTGAAAGGTTAGGCCCTTCTATGACCA
Found at i:3271121 original size:60 final size:59
Alignment explanation
Indices: 3271019--3271137 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 59
3271009 TTTGAGAAGC
* * * *
3271019 CCTTATTTGAGCACTTTTGAAAAGGCTAGGCCCTTCTCTGACCATTTTGAAAGGTTTGG
1 CCTTATTTGAGCACTTTTGAAAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTGG
* *
3271078 CCTTCATTTGAGCACTTTT-ATAAAAGTTAGGCTCTTATATGACCATCTTGAAAGGTTTGG
1 CCTT-ATTTGAGCACTTTTGA-AAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTGG
3271138 TTCTTATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 5 0.10
60 47 0.90
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (59 bp):
CCTTATTTGAGCACTTTTGAAAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTGG
Found at i:3271571 original size:6 final size:6
Alignment explanation
Indices: 3271560--3271588 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3271550 CGGAGAAATT
3271560 ATTATG ATTATG ATTATG ATTATG ATTAT
1 ATTATG ATTATG ATTATG ATTATG ATTAT
3271589 TTTTGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTATG
Found at i:3276515 original size:9 final size:9
Alignment explanation
Indices: 3276501--3276534 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
3276491 GTTTTCGAAT
*
3276501 TCGAATAAC
1 TCGAATAAA
*
3276510 TCGAATAAT
1 TCGAATAAA
3276519 TCGAATAAA
1 TCGAATAAA
3276528 TCGAATA
1 TCGAATA
3276535 TCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:3276519 original size:18 final size:18
Alignment explanation
Indices: 3276498--3276534 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3276488 TGAGTTTTCG
*
3276498 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
3276516 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
3276534 A
1 A
3276535 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:3276951 original size:18 final size:18
Alignment explanation
Indices: 3276928--3276989 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
3276918 CTCCCTCTTA
3276928 TTTACTTTCCCTC-AAACT
1 TTTACTTTCCC-CAAAACT
3276946 TTTAC-TTCCCCAAAACTT
1 TTTACTTTCCCCAAAAC-T
* *
3276964 TTTATTTTCTCCCTAAACT
1 TTTACTTTC-CCCAAAACT
3276983 TTTACTT
1 TTTACTT
3276990 CTCACCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.03
17 9 0.24
18 10 0.27
19 10 0.27
20 7 0.19
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTACTTTCCCCAAAACT
Found at i:3278024 original size:51 final size:51
Alignment explanation
Indices: 3277958--3278121 Score: 204
Period size: 51 Copynumber: 3.1 Consensus size: 51
3277948 GGTCATTTTT
* * *
3277958 TTTTCTTTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCA
* *
3278009 TTTTCATTTTGGAGAAAACTATAATCATTTCCAAATGATTTCATTTCTCCATTTCTA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCT-C----C-A
3278066 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTTCCCATTTCTCCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGA-TT-CCATTTCTCCA
3278118 TTTT
1 TTTT
3278122 TACCATTTCT
Statistics
Matches: 98, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
51 43 0.44
52 6 0.06
53 1 0.01
56 2 0.02
57 39 0.40
58 7 0.07
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.44
Consensus pattern (51 bp):
TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCA
Found at i:3278076 original size:57 final size:58
Alignment explanation
Indices: 3277997--3278120 Score: 198
Period size: 57 Copynumber: 2.1 Consensus size: 58
3277987 TCCAAATGAT
*
3277997 TCCATTTCTCCATTTTCATTTTGGAGAAAACTATAATCATTTCCAAATGATTT-CATTTC
1 TCCATTTCT-CATTTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTTCCATTTC
3278056 TCCATTTCT-ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCCCATTTC
1 TCCATTTCTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTT-CCATTTC
3278114 TCCATTT
1 TCCATTT
3278121 TTACCATTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
56 4 0.06
57 36 0.58
58 13 0.21
59 9 0.15
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (58 bp):
TCCATTTCTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCCATTTC
Found at i:3289662 original size:73 final size:72
Alignment explanation
Indices: 3289585--3289767 Score: 195
Period size: 73 Copynumber: 2.5 Consensus size: 72
3289575 GGCTGTATAG
* * * * * *
3289585 CGGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGCGAGCCAATAACAAGTAGCTCCAAAGAG
1 CGGGAAGCTCAGAAGAGCCATAATCGGGAAGCTCAAGCGAGCC-ATAACAAGAAGCCCCAAAGAA
3289650 CCATTAAT
65 CCATTAAT
* * * * * * * *
3289658 CGGGAAGCTCCGGATAGCCATATATCGGGAAGTTCAAGTGAGCCATATCGAGAAGCCCCGAAGAA
1 CGGGAAGCTCAGAAGAGCCATA-ATCGGGAAGCTCAAGCGAGCCATAACAAGAAGCCCCAAAGAA
3289723 CCATTAAT
65 CCATTAAT
*
3289731 CAGGAAGCTCACGAAGAGCCATTAATCGGGAAGCTCA
1 CGGGAAGCTCA-GAAGAGCCA-TAATCGGGAAGCTCA
3289768 CGAAGAGCCA
Statistics
Matches: 88, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
73 50 0.57
74 36 0.41
75 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (72 bp):
CGGGAAGCTCAGAAGAGCCATAATCGGGAAGCTCAAGCGAGCCATAACAAGAAGCCCCAAAGAAC
CATTAAT
Found at i:3289668 original size:25 final size:25
Alignment explanation
Indices: 3289638--3289787 Score: 132
Period size: 26 Copynumber: 6.0 Consensus size: 25
3289628 AATAACAAGT
*
3289638 AGCTCCAAAGAGCCATTAATCGGGA
1 AGCTCCGAAGAGCCATTAATCGGGA
* *
3289663 AGCTCCGGATAGCCA-TATATCGGGA
1 AGCTCCGAAGAGCCATTA-ATCGGGA
* *
3289688 AG-TTC-AAGTGAGCCA-T-ATCGAGA
1 AGCTCCGAA--GAGCCATTAATCGGGA
* * *
3289711 AGCCCCGAAGAACCATTAATCAGGA
1 AGCTCCGAAGAGCCATTAATCGGGA
3289736 AGCTCACGAAGAGCCATTAATCGGGA
1 AGCTC-CGAAGAGCCATTAATCGGGA
3289762 AGCTCACGAAGAGCCATATAA-CGGGA
1 AGCTC-CGAAGAGCCAT-TAATCGGGA
3289788 CACTCATAAG
Statistics
Matches: 101, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
23 14 0.14
24 6 0.06
25 38 0.38
26 40 0.40
27 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.16
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCGGGA
Found at i:3289793 original size:26 final size:26
Alignment explanation
Indices: 3289585--3289787 Score: 142
Period size: 25 Copynumber: 8.2 Consensus size: 26
3289575 GGCTGTATAG
*
3289585 CGGGAAGCTCA-TAAGAGCCA-TAAT
1 CGGGAAGCTCACGAAGAGCCATTAAT
* * * *
3289609 CAGGAAGCTCATG-CGAGCCAATAA-
1 CGGGAAGCTCACGAAGAGCCATTAAT
** * *
3289633 CAAGTAGCTC-CAAAGAGCCATTAAT
1 CGGGAAGCTCACGAAGAGCCATTAAT
* *
3289658 CGGGAAGCTC-CGGATAGCCA-TATAT
1 CGGGAAGCTCACGAAGAGCCATTA-AT
* * *
3289683 CGGGAAGTTCAAG-TGAGCCA-T-AT
1 CGGGAAGCTCACGAAGAGCCATTAAT
* * *
3289706 CGAGAAGC-CCCGAAGAACCATTAAT
1 CGGGAAGCTCACGAAGAGCCATTAAT
*
3289731 CAGGAAGCTCACGAAGAGCCATTAAT
1 CGGGAAGCTCACGAAGAGCCATTAAT
3289757 CGGGAAGCTCACGAAGAGCCATATAA-
1 CGGGAAGCTCACGAAGAGCCAT-TAAT
3289783 CGGGA
1 CGGGA
3289788 CACTCATAAG
Statistics
Matches: 138, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
22 2 0.01
23 13 0.09
24 36 0.26
25 42 0.30
26 42 0.30
27 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (26 bp):
CGGGAAGCTCACGAAGAGCCATTAAT
Found at i:3294244 original size:6 final size:5
Alignment explanation
Indices: 3294215--3294252 Score: 58
Period size: 5 Copynumber: 7.2 Consensus size: 5
3294205 AATCTTTTAA
3294215 TTATT TTATT TTATT TTATT TTATTT TTATTT TTATT T
1 TTATT TTATT TTATT TTATT TTA-TT TTA-TT TTATT T
3294253 CAAAAAATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 21 0.66
6 11 0.34
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:3295686 original size:22 final size:23
Alignment explanation
Indices: 3295659--3295712 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
3295649 AGCTTACCGA
* *
3295659 TTTCAGCTCGTATGAACTTACTG
1 TTTCAGCTCGAAAGAACTTACTG
*
3295682 -TTCAGCTCGAAAGAGCTTACTG
1 TTTCAGCTCGAAAGAACTTACTG
3295704 TTTCAGCTC
1 TTTCAGCTC
3295713 AATAGAGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (23 bp):
TTTCAGCTCGAAAGAACTTACTG
Found at i:3295712 original size:23 final size:22
Alignment explanation
Indices: 3295641--3295751 Score: 91
Period size: 23 Copynumber: 4.8 Consensus size: 22
3295631 GATATATCAT
*
3295641 CTCATAAGAGCTTACCGATTTCAG
1 CTCA-AAGAGCTTACTG-TTTCAG
* * *
3295665 CTCGTATGAACTTACTG-TTCAG
1 CTC-AAAGAGCTTACTGTTTCAG
3295687 CTCGAAAGAGCTTACTGTTTCAG
1 CTC-AAAGAGCTTACTGTTTCAG
*
3295710 CTCAATAGAG-TGTACCGTTTCAG
1 CTCAA-AGAGCT-TACTGTTTCAG
*
3295733 CTCATTAGAGCTTACTGTT
1 CTCA-AAGAGCTTACTGTT
3295752 CATCAGCTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
22 22 0.31
23 36 0.51
24 13 0.18
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (22 bp):
CTCAAAGAGCTTACTGTTTCAG
Found at i:3297153 original size:11 final size:11
Alignment explanation
Indices: 3297137--3297166 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3297127 ATTTTTTTCC
3297137 AAAAATAAAAT
1 AAAAATAAAAT
3297148 AAAAATAAAAT
1 AAAAATAAAAT
3297159 -AAAATAAA
1 AAAAATAAA
3297167 GTAAGTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:3298874 original size:41 final size:41
Alignment explanation
Indices: 3298826--3298906 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
3298816 ATAGGACAAG
3298826 TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCCA
1 TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCCA
3298867 TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCC
1 TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCC
3298907 TTATAGTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (41 bp):
TCTAAATTTTGCTTGTCTAGAAATAAGGTCTTTAGGATCCA
Found at i:3303980 original size:30 final size:31
Alignment explanation
Indices: 3303944--3304007 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
3303934 ACTTAACAAG
* * *
3303944 CAAATGTTTCTAAAATAAT-AACAAAATTAA
1 CAAATGTCTATAAAATAATAAAAAAAATTAA
3303974 CAAATGTCTATAAAATAATAAAAAAAATTAA
1 CAAATGTCTATAAAATAATAAAAAAAATTAA
3304005 CAA
1 CAA
3304008 TAAAATAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (31 bp):
CAAATGTCTATAAAATAATAAAAAAAATTAA
Found at i:3304062 original size:22 final size:22
Alignment explanation
Indices: 3304037--3304079 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3304027 TATCTAAATA
3304037 ATAAAAACAAAATAGTAGCAAC
1 ATAAAAACAAAATAGTAGCAAC
* **
3304059 ATAATAGTAAAATAGTAGCAA
1 ATAAAAACAAAATAGTAGCAA
3304080 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAAATAGTAGCAAC
Found at i:3304083 original size:11 final size:11
Alignment explanation
Indices: 3304044--3304084 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
3304034 ATAATAAAAA
3304044 CAAAATAGTAG
1 CAAAATAGTAG
* *
3304055 CAACATAATAG
1 CAAAATAGTAG
*
3304066 TAAAATAGTAG
1 CAAAATAGTAG
3304077 CAAAATAG
1 CAAAATAG
3304085 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:3305819 original size:19 final size:21
Alignment explanation
Indices: 3305797--3305842 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
3305787 CTAAAATTCC
*
3305797 TTTTA-ATTT-TTAAATATTT
1 TTTTATATTTATTAAATAATT
*
3305816 TTTTATATTTATTAGATAATT
1 TTTTATATTTATTAAATAATT
3305837 TTTTAT
1 TTTTAT
3305843 CCAATAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 14 0.61
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTATATTTATTAAATAATT
Found at i:3315213 original size:88 final size:88
Alignment explanation
Indices: 3315103--3315282 Score: 333
Period size: 88 Copynumber: 2.0 Consensus size: 88
3315093 CTTCTTTACC
*
3315103 CTTGGCAAGTAACTCAAACTTTGAAAATCTTCTATTTCCTTTGTGCCACTTCTTAGGAGTCACAT
1 CTTGGCAAGTAACTCAAACTTTGAAAATCTTCTATTTCCTTTGTGCCACTTCCTAGGAGTCACAT
*
3315168 ATGTAAAGATTTTAATAAAGAGA
66 ATGTAAAGATTTTAATAAAAAGA
*
3315191 CTTGGCAAGTAACTCAAACTTTGACAATCTTCTATTTCCTTTGTGCCACTTCCTAGGAGTCACAT
1 CTTGGCAAGTAACTCAAACTTTGAAAATCTTCTATTTCCTTTGTGCCACTTCCTAGGAGTCACAT
3315256 ATGTAAAGATTTTAATAAAAAGA
66 ATGTAAAGATTTTAATAAAAAGA
3315279 CTTG
1 CTTG
3315283 AAGAAGTTGA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (88 bp):
CTTGGCAAGTAACTCAAACTTTGAAAATCTTCTATTTCCTTTGTGCCACTTCCTAGGAGTCACAT
ATGTAAAGATTTTAATAAAAAGA
Found at i:3326618 original size:36 final size:36
Alignment explanation
Indices: 3326571--3326648 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
3326561 CTCCATTTAC
*
3326571 ATAGAT-AATGTAAAATGGGTTTTACACTAGTATAA
1 ATAGATCAATGTAAAACGGGTTTTACACTAGTATAA
3326606 ATAGATCAATGTAAAACGGGTTTTACACTAGTATAA
1 ATAGATCAATGTAAAACGGGTTTTACACTAGTATAA
3326642 ATAGATC
1 ATAGATC
3326649 CTCGCCATAC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 6 0.15
36 35 0.85
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (36 bp):
ATAGATCAATGTAAAACGGGTTTTACACTAGTATAA
Found at i:3331588 original size:12 final size:12
Alignment explanation
Indices: 3331570--3331612 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
3331560 AATAATATAT
3331570 TATAATTT-AAA
1 TATAATTTAAAA
3331581 TAATAATTTAAAA
1 T-ATAATTTAAAA
3331594 TATAATTATAAACA
1 TATAATT-TAAA-A
3331608 TATAA
1 TATAA
3331613 AACTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 13 0.46
13 8 0.29
14 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
TATAATTTAAAA
Found at i:3332832 original size:2 final size:2
Alignment explanation
Indices: 3332827--3332852 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3332817 TTTTTATGAT
3332827 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
3332853 AAGTATTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3339607 original size:40 final size:39
Alignment explanation
Indices: 3339547--3339681 Score: 162
Period size: 40 Copynumber: 3.4 Consensus size: 39
3339537 TAAATAACAG
* * * *
3339547 GCTTTGTGCTAGTATATTTATCGGGCTTTGTGCTTAGCA
1 GCTTTGTGCTAGTGTGTTTATTGGGCTTTGTGCCTAGCA
* *
3339586 GACTTTGTGCTGGTGTGTTTATTGGGCTTTGTGCCTAGTA
1 G-CTTTGTGCTAGTGTGTTTATTGGGCTTTGTGCCTAGCA
*
3339626 GGCTTTATGCTAGTGTGTTTATTGGGCTTTGTGCCTAGCA
1 -GCTTTGTGCTAGTGTGTTTATTGGGCTTTGTGCCTAGCA
* *
3339666 TGCCTTGTGCTGGTGT
1 -GCTTTGTGCTAGTGT
3339682 TGTCTATCAG
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 79 0.98
41 1 0.01
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.44
Consensus pattern (39 bp):
GCTTTGTGCTAGTGTGTTTATTGGGCTTTGTGCCTAGCA
Found at i:3341488 original size:33 final size:33
Alignment explanation
Indices: 3341428--3341491 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
3341418 GAACTATCTT
* * * *
3341428 TGTGTTTATTGTCCTAGCAGACTTTCTCTATTC
1 TGTGTTTATTGTCCCAACAAACATTCTCTATTC
*
3341461 TGTGTTTATTGTCCCAATAAACATTCTCTAT
1 TGTGTTTATTGTCCCAACAAACATTCTCTAT
3341492 GGATTTCATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (33 bp):
TGTGTTTATTGTCCCAACAAACATTCTCTATTC
Found at i:3345857 original size:32 final size:32
Alignment explanation
Indices: 3345810--3345873 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
3345800 TTAAAGGGAG
** *
3345810 ATAGTTTGTTGTGGATATTATAGTAAGAGCTC
1 ATAGTTTGTCATGGATATTAGAGTAAGAGCTC
3345842 ATAGTTTGTCATGGATATTAGAGTAAGAGCTC
1 ATAGTTTGTCATGGATATTAGAGTAAGAGCTC
3345874 CTTTTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (32 bp):
ATAGTTTGTCATGGATATTAGAGTAAGAGCTC
Found at i:3351126 original size:22 final size:22
Alignment explanation
Indices: 3351098--3351142 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
3351088 GTTCTTATAT
*
3351098 TAGGAGTTAGATTGCATTTTGC
1 TAGGAGTTAGAATGCATTTTGC
3351120 TAGGAGTTAGAATGCATTTTGC
1 TAGGAGTTAGAATGCATTTTGC
3351142 T
1 T
3351143 CTCTTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (22 bp):
TAGGAGTTAGAATGCATTTTGC
Found at i:3353372 original size:9 final size:10
Alignment explanation
Indices: 3353357--3353391 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
3353347 AAAAAAAAGG
3353357 ATAAAAATTC
1 ATAAAAATTC
3353367 ATAAAAATT-
1 ATAAAAATTC
3353376 ATAAAAAGTTC
1 ATAAAAA-TTC
3353387 ATAAA
1 ATAAA
3353392 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 11 0.48
11 5 0.22
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (10 bp):
ATAAAAATTC
Found at i:3353372 original size:20 final size:20
Alignment explanation
Indices: 3353339--3353391 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
3353329 CATATTCAAA
* *
3353339 AAAAATTTAAAAAAAAGGAT
1 AAAAATTCATAAAAAAGGAT
**
3353359 AAAAATTCAT-AAAAATTAT
1 AAAAATTCATAAAAAAGGAT
3353378 AAAAAGTTCATAAA
1 AAAAA-TTCATAAA
3353392 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.44
20 13 0.48
21 2 0.07
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAAATTCATAAAAAAGGAT
Found at i:3353392 original size:18 final size:18
Alignment explanation
Indices: 3353357--3353399 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
3353347 AAAAAAAAGG
3353357 ATAAAAATTCATAAAAATT
1 ATAAAAATTCAT-AAAATT
3353376 ATAAAAAGTTCAT-AAATT
1 ATAAAAA-TTCATAAAATT
3353394 A-AAAAA
1 ATAAAAA
3353400 AAATGAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 7 0.30
20 5 0.22
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAATTCATAAAATT
Found at i:3355109 original size:30 final size:29
Alignment explanation
Indices: 3355037--3355120 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
3355027 AAAATTATTA
3355037 TAAT-ATTATTATAATTTTTTATAACATTT
1 TAATAATT-TTATAATTTTTTATAACATTT
* * * * *
3355066 AAAAAAATCTATAATTTTTCTATTACATTT
1 TAATAATTTTATAATTTTT-TATAACATTT
3355096 TAATAATTTTATAATTTATTTATAA
1 TAATAATTTTATAATTT-TTTATAA
3355121 TTTTCTAACA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
29 12 0.29
30 28 0.67
31 2 0.05
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (29 bp):
TAATAATTTTATAATTTTTTATAACATTT
Found at i:3355157 original size:24 final size:23
Alignment explanation
Indices: 3355130--3355193 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
3355120 ATTTTCTAAC
3355130 AAAATTTTAATAATTTATATTTTT
1 AAAATTTTAATAATTT-TATTTTT
3355154 AAAA--TT-AT-A-TTTATTTTT
1 AAAATTTTAATAATTTTATTTTT
3355172 -AAATTTTAATAACTTTTTATTT
1 AAAATTTTAATAA--TTTTATTT
3355194 AAATAATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
17 3 0.09
18 7 0.21
19 4 0.12
20 3 0.09
21 3 0.09
22 2 0.06
24 11 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AAAATTTTAATAATTTTATTTTT
Found at i:3355163 original size:14 final size:16
Alignment explanation
Indices: 3355134--3355165 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3355124 TCTAACAAAA
3355134 TTTTAATAATTTATAT
1 TTTTAATAATTTATAT
3355150 TTTTAA-AA-TTATAT
1 TTTTAATAATTTATAT
3355164 TT
1 TT
3355166 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAATAATTTATAT
Done.