Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 174 of 228
Found at i:52141292 original size:16 final size:17
Alignment explanation
Indices: 52141273--52141308 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
52141263 TTAAATTTTA
52141273 AAAATA-AAAAATACAT
1 AAAATATAAAAATACAT
52141289 AAAATATAAAAATACAT
1 AAAATATAAAAATACAT
52141306 AAA
1 AAA
52141309 GATTACAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATATAAAAATACAT
Found at i:52142310 original size:91 final size:92
Alignment explanation
Indices: 52142142--52142311 Score: 209
Period size: 91 Copynumber: 1.9 Consensus size: 92
52142132 AAAACGCTGG
* * * *
52142142 AAAATTTTAAACCAAAACGCAACGTTTCGTCTTGAGCTATAGCGCCGTCAGCGACGCTTACCCGA
1 AAAATTTTAAACCAAAACGCAACGTTTCGGCTTGACCTATAGAGCCATCAGCGACGCTTACCCGA
*
52142207 AAACGCCACTATATATCAAGCGCCGCA
66 AAACACCACTATATATCAAGCGCCGCA
* * * * **
52142234 AAAATTTT-GACCAAAACGCATCG-TTCTGGCTTGACCTATAGAGGCATTAGCGACGCTTACTTG
1 AAAATTTTAAACCAAAACGCAACGTTTC-GGCTTGACCTATAGAGCCATCAGCGACGCTTACCCG
*
52142297 AAAACACCGCTATAT
65 AAAACACCACTATAT
52142312 CCCTCAATTA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
90 3 0.05
91 54 0.83
92 8 0.12
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (92 bp):
AAAATTTTAAACCAAAACGCAACGTTTCGGCTTGACCTATAGAGCCATCAGCGACGCTTACCCGA
AAACACCACTATATATCAAGCGCCGCA
Found at i:52142333 original size:205 final size:212
Alignment explanation
Indices: 52142098--52142527 Score: 554
Period size: 205 Copynumber: 2.0 Consensus size: 212
52142088 GTAGAAAATG
***
52142098 CCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCTGGAAAATTTTAAACC-AAAACGC
1 CCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAACCGAAAA-GC
*
52142162 AACGTTTCGTCTTGAGCTATAGCGCCGTCAGCGACGCTTACCCGAAAA-C-GCCA-CTAT-A-TA
65 AACGTTTCGTCTTGAGCTATAGCGCCGTCAGCGACGCTTACCCGAAAAGCTGCCATATATCATTA
*
52142222 -T-CAAGCGCCGCAAAAATTTTGACCAAAACGCATCG-TTCTGGCTTGACCTATAGAGGCATTAG
130 GTACAAGCGCCGCAAAAATTTTGAACAAAACGCATCGTTTC-GGCTTGACCTATAGAGGCATTAG
52142284 CGACGCTTACTTGAAAACA
194 CGACGCTTACTTGAAAACA
* * * *
52142303 CCGCTATATCCCTCAATTAGTGGTGCTTAACTAAAAAATGCCAAAAAATTTTAAACCGAAAAGCA
1 CCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAACCGAAAAGCA
* * * * *
52142368 ACGTTTCGTCTTGAGCTATAGTGTCGTTAGCGGCGCTTACCCGAAAATGCTGCTATATATCAGCT
66 ACGTTTCGTCTTGAGCTATAGCGCCGTCAGCGACGCTTACCCGAAAA-GCTGCCATATATCA---
*
52142433 TTTAGTAGAAGCGCCGCAAAAATTTTGAACAAAACGCATCGTTTCGGCTTGACCTATAGAGGCAT
127 -TTAGTACAAGCGCCGCAAAAATTTTGAACAAAACGCATCGTTTCGGCTTGACCTATAGAGGCAT
* * * *
52142498 TAGTGGCGCTTATTTGAAAACG
191 TAGCGACGCTTACTTGAAAACA
*
52142520 CTGCTATA
1 CCGCTATA
52142528 GAGCAACTTT
Statistics
Matches: 191, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
205 96 0.50
206 4 0.02
207 1 0.01
208 3 0.02
209 3 0.02
210 1 0.01
215 2 0.01
216 1 0.01
217 77 0.40
218 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (212 bp):
CCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAACCGAAAAGCA
ACGTTTCGTCTTGAGCTATAGCGCCGTCAGCGACGCTTACCCGAAAAGCTGCCATATATCATTAG
TACAAGCGCCGCAAAAATTTTGAACAAAACGCATCGTTTCGGCTTGACCTATAGAGGCATTAGCG
ACGCTTACTTGAAAACA
Found at i:52143118 original size:46 final size:46
Alignment explanation
Indices: 52143066--52143160 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
52143056 ACAAAGATAG
52143066 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCTAATT
*
52143112 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCTAATT
52143158 AAA
1 AAA
52143161 AGAAAATAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCTAATT
Found at i:52147705 original size:24 final size:24
Alignment explanation
Indices: 52147676--52147754 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
52147666 TTAGCATCTA
52147676 ATCTCCTAATTAAACCAAAATATT
1 ATCTCCTAATTAAACCAAAATATT
* * * *
52147700 ATCTCCTAAACTT-TAGC---ATCTA
1 ATCTCCT-AA-TTAAACCAAAATATT
52147722 ATCTCCTAATTAAACCAAAATATT
1 ATCTCCTAATTAAACCAAAATATT
52147746 ATCTCCTAA
1 ATCTCCTAA
52147755 ACTTTAGCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 10 0.24
24 19 0.46
25 4 0.10
26 2 0.05
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.34
Consensus pattern (24 bp):
ATCTCCTAATTAAACCAAAATATT
Found at i:52147728 original size:22 final size:22
Alignment explanation
Indices: 52147700--52147776 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
52147690 CCAAAATATT
52147700 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
52147722 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
52147746 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
52147768 ATCTCCTAA
1 ATCTCCTAA
52147777 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:52147789 original size:46 final size:46
Alignment explanation
Indices: 52147641--52147781 Score: 273
Period size: 46 Copynumber: 3.1 Consensus size: 46
52147631 ACAAAGATAG
*
52147641 AAACCAAAATATTATCTCTTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
52147687 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
52147733 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
52147779 AAA
1 AAA
52147782 AGAAAATAGA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 94 1.00
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:52147900 original size:22 final size:21
Alignment explanation
Indices: 52147869--52147911 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
52147859 TGGTGGTTAT
*
52147869 TGTTTGTGGTTTACGAGTTTAA
1 TGTTTATGGTTTA-GAGTTTAA
*
52147891 TGTTTATGGTTTAGGGTTTAA
1 TGTTTATGGTTTAGAGTTTAA
52147912 GATTTTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (21 bp):
TGTTTATGGTTTAGAGTTTAA
Found at i:52148199 original size:15 final size:15
Alignment explanation
Indices: 52148179--52148208 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52148169 GATATTTTAG
*
52148179 AATATAAATGTAAAT
1 AATATAAATATAAAT
52148194 AATATAAATATAAAT
1 AATATAAATATAAAT
52148209 TATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:52148454 original size:21 final size:20
Alignment explanation
Indices: 52148414--52148451 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52148404 AATATATTGA
*
52148414 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
52148434 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
52148452 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:52148985 original size:19 final size:19
Alignment explanation
Indices: 52148963--52149007 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
52148953 CTGTCATCTC
*
52148963 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
52148982 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
52149001 CCCCAAA
1 CCCCAAA
52149008 CCCGACGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.22
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:52149373 original size:12 final size:12
Alignment explanation
Indices: 52149356--52149380 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52149346 CGTTGAAATT
52149356 TATATATATGTA
1 TATATATATGTA
52149368 TATATATATGTA
1 TATATATATGTA
52149380 T
1 T
52149381 TAAAACTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATGTA
Found at i:52150995 original size:43 final size:43
Alignment explanation
Indices: 52150936--52151214 Score: 396
Period size: 43 Copynumber: 6.5 Consensus size: 43
52150926 CGCCAAACGC
* *
52150936 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGACCTT
* * * *
52150979 TAGAGGCGTTTTTGAGATAAGCGCCGCTAAAGAACATGAGCTT
1 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGACCTT
* *
52151022 TAGCGGTGTTTGTGGGATAAGCGCCGCTAAAGAACATGAGCTT
1 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGACCTT
* * * *
52151065 TAGCGGTGTTTGTGGAATAAGCGCCACTAAAGAACATGAGCTT
1 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGACCTT
**
52151108 TAGCGGCGTTTGTGGGATAAGCGCTACTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGACCTT
* *
52151151 TAGCGGCGTTTGTGGGATAAGCGCCGCTAGATAACATGACCTT
1 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGACCTT
* *
52151194 TAGCAGCGTTTGTGGAATAAG
1 TAGCGGCGTTTGTGGGATAAG
52151215 TGCCTCAAAA
Statistics
Matches: 216, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 216 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGAACATGACCTT
Found at i:52153142 original size:50 final size:51
Alignment explanation
Indices: 52153080--52153217 Score: 197
Period size: 51 Copynumber: 2.7 Consensus size: 51
52153070 TCATGCAATA
* * * *
52153080 CACGTAGAAGCCTTCACATAGTACTACACATGTGATCAA-GCTTTTCGGTT
1 CACGTAGTAGCCTACACATAGTACTACACATGTGACCAAGGCTTTCCGGTT
*
52153130 CACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCTTTCCGGTT
1 CACGTAGTAGCCTACACATAGTACTACACATGTGACCAAGGCTTTCCGGTT
* * *
52153181 CACATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 CACGTAGTAGCCTACACATAGTACTACACATGTGACC
52153218 GTTATTTATC
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 35 0.45
51 43 0.55
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (51 bp):
CACGTAGTAGCCTACACATAGTACTACACATGTGACCAAGGCTTTCCGGTT
Found at i:52164367 original size:17 final size:17
Alignment explanation
Indices: 52164342--52164375 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52164332 TTAAAATCAG
*
52164342 ATTGAGAAATTTATTTA
1 ATTGAGAAATTAATTTA
*
52164359 ATTGGGAAATTAATTTA
1 ATTGAGAAATTAATTTA
52164376 TGATGTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
ATTGAGAAATTAATTTA
Found at i:52165718 original size:43 final size:43
Alignment explanation
Indices: 52165670--52165753 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
52165660 TATCAGCATG
*** *
52165670 ATCTTGCTCAAAGTGATAGTTCCTTTTATCGACGATTAAATTT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
*
52165713 ATCTTGCTCAAAGTGATAAAACTTTTTATCGACGATCAAAT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAAT
52165754 AAATTCTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (43 bp):
ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
Found at i:52175230 original size:34 final size:35
Alignment explanation
Indices: 52175168--52175263 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 35
52175158 TTATTCAAAT
* * * *
52175168 ACATATGCCAAAAGCATATATTTATACTTATCAAT-T
1 ACATATGCCAAATGCA-ACATATATACTTAT-AATCC
* *
52175204 ACATGTGCCGAATGC-ACATATATACTTATAATCC
1 ACATATGCCAAATGCAACATATATACTTATAATCC
52175238 ACATATGCCAAATGCATACATATATA
1 ACATATGCCAAATGCA-ACATATATA
52175264 TATCCAACAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
33 3 0.06
34 25 0.51
36 21 0.43
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (35 bp):
ACATATGCCAAATGCAACATATATACTTATAATCC
Found at i:52176238 original size:78 final size:78
Alignment explanation
Indices: 52176136--52176491 Score: 635
Period size: 78 Copynumber: 4.6 Consensus size: 78
52176126 CTACTCAACA
* *
52176136 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
52176200 AACATACATACTT
66 AACATACATACTT
52176213 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
52176278 AACATACATACTT
66 AACATACATACTT
*
52176291 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATTCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
52176356 AACATACATACTT
66 AACATACATACTT
*
52176369 TTAACTAAATTCAAGAATTTATTCATGCATATACATATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
52176434 AACATACATACTT
66 AACATACATACTT
*
52176447 TTAACTAAATTCAAGAACTTT-TACATGTATATACATATATTATCC
1 TTAACTAAATTCAAGAA-TTTATTCATGTATATACATATA-TATCC
52176492 ACTATTAGTT
Statistics
Matches: 269, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
77 14 0.05
78 247 0.92
79 8 0.03
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (78 bp):
TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:52183688 original size:19 final size:19
Alignment explanation
Indices: 52183664--52183700 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
52183654 TCTAAAACCA
52183664 AAAAAATTGTTGAAGAAGG
1 AAAAAATTGTTGAAGAAGG
52183683 AAAAAATTGTTGAAGAAG
1 AAAAAATTGTTGAAGAAG
52183701 ACTTTAGACT
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:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (19 bp):
AAAAAATTGTTGAAGAAGG
Found at i:52185641 original size:40 final size:40
Alignment explanation
Indices: 52185586--52185661 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
52185576 TTAAATTTCT
** *
52185586 TTTTGGATGTGCAATTTAAGCTTGTACTTAAGAGCATCTA
1 TTTTGGATGAACAATTTAAGCTCGTACTTAAGAGCATCTA
* *
52185626 TTTTGGATGAACAATTTAAGCTCGTGCTTAGGAGCA
1 TTTTGGATGAACAATTTAAGCTCGTACTTAAGAGCA
52185662 ATGTGACAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTGGATGAACAATTTAAGCTCGTACTTAAGAGCATCTA
Found at i:52194198 original size:21 final size:23
Alignment explanation
Indices: 52194174--52194217 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
52194164 AAACTTATGG
52194174 GCATACCATATA-A-ACTCAAAA
1 GCATACCATATACATACTCAAAA
**
52194195 GCATATTATATACATACTCAAAA
1 GCATACCATATACATACTCAAAA
52194218 TGCCATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (23 bp):
GCATACCATATACATACTCAAAA
Found at i:52195149 original size:51 final size:50
Alignment explanation
Indices: 52195063--52195168 Score: 167
Period size: 51 Copynumber: 2.1 Consensus size: 50
52195053 AAATTCATTT
* *
52195063 TAATTACCCGATTTTACATATTTTACTTACCCATTAAACTTGAAATAGCTA
1 TAATTACCCAATTTTACATATTTTAATTACCCATTAAAC-TGAAATAGCTA
*
52195114 TAATTACCCAATTTTACATATTTTAATTACTCATTAAACTGAAATAGCTA
1 TAATTACCCAATTTTACATATTTTAATTACCCATTAAACTGAAATAGCTA
*
52195164 CAATT
1 TAATT
52195169 CATTACCATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 15 0.29
51 36 0.71
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.40
Consensus pattern (50 bp):
TAATTACCCAATTTTACATATTTTAATTACCCATTAAACTGAAATAGCTA
Found at i:52195429 original size:40 final size:40
Alignment explanation
Indices: 52195383--52195493 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
52195373 CGTTTGGACA
* *
52195383 AAAAACGCCACTAAAAATCAAGCATTAGTGGCAC-TTTTAC
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCACATATT-C
* * * *
52195423 AAAAACGCCACTAAATATCGAGCATTAGCGGCGCATATTG
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCACATATTC
**
52195463 AAAAACGCCGTTAAAAAT-AAGCATTAGCGGC
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGC
52195494 GTTTTCCAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 12 0.20
40 45 0.75
41 3 0.05
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (40 bp):
AAAAACGCCACTAAAAATCAAGCATTAGCGGCACATATTC
Found at i:52195622 original size:41 final size:40
Alignment explanation
Indices: 52195566--52195678 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 40
52195556 TTTAGCGACG
* *
52195566 CTTTAGCAGCGTTTTTCAAAAGCGCCGCTAATGCTCGGTC
1 CTTTAGCGGCGTTTTTCAAAAGCGCCGCTAATGCTCGGGC
* *
52195606 TTTTAGCGGCATTTTTTCAAAAGCGCCGCTAATGCTCGGGC
1 CTTTAGCGGC-GTTTTTCAAAAGCGCCGCTAATGCTCGGGC
* * *
52195647 CTTTAGTGGCGTTTTTGAAATGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTCAAAAGCGCCGCTAAT
52195679 AATAAAATCT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 27 0.43
41 36 0.57
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTCAAAAGCGCCGCTAATGCTCGGGC
Found at i:52196768 original size:7 final size:7
Alignment explanation
Indices: 52196758--52196813 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
52196748 TTTTGAGTTC
52196758 AGGGTTT
1 AGGGTTT
52196765 AGGGTTT
1 AGGGTTT
52196772 A-GGTTT
1 AGGGTTT
*
52196778 AGGGCTT
1 AGGGTTT
* *
52196785 GGGGATT
1 AGGGTTT
*
52196792 GGGGTTT
1 AGGGTTT
*
52196799 AAGGTTT
1 AGGGTTT
*
52196806 AGAGTTT
1 AGGGTTT
52196813 A
1 A
52196814 CATTTTAGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 6 0.15
7 34 0.85
ACGTcount: A:0.18, C:0.02, G:0.41, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:52201429 original size:20 final size:20
Alignment explanation
Indices: 52201404--52201447 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
52201394 GCTCAAAAGT
52201404 TTTTTTTCTAAGGCTCATTG
1 TTTTTTTCTAAGGCTCATTG
52201424 TTTTTTTCTAAGGCTCATTG
1 TTTTTTTCTAAGGCTCATTG
52201444 TTTT
1 TTTT
52201448 GTGGGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (20 bp):
TTTTTTTCTAAGGCTCATTG
Found at i:52201506 original size:43 final size:43
Alignment explanation
Indices: 52201445--52201535 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
52201435 GGCTCATTGT
52201445 TTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTATTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTATTTAGCGGCG
*
52201488 TTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTATTTAGCGGCG
52201531 TTTGT
1 TTTGT
52201536 TTCTAAAAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (43 bp):
TTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTATTTAGCGGCG
Found at i:52209510 original size:74 final size:74
Alignment explanation
Indices: 52209389--52209539 Score: 302
Period size: 74 Copynumber: 2.0 Consensus size: 74
52209379 TACCTATTTG
52209389 AAGTCAAAGGTTGAGAAACTTTAATGAACATATAGGATAAGGAGAAATTGGATAGACATTTTTGT
1 AAGTCAAAGGTTGAGAAACTTTAATGAACATATAGGATAAGGAGAAATTGGATAGACATTTTTGT
52209454 TGGTGTTAA
66 TGGTGTTAA
52209463 AAGTCAAAGGTTGAGAAACTTTAATGAACATATAGGATAAGGAGAAATTGGATAGACATTTTTGT
1 AAGTCAAAGGTTGAGAAACTTTAATGAACATATAGGATAAGGAGAAATTGGATAGACATTTTTGT
52209528 TGGTGTTAA
66 TGGTGTTAA
52209537 AAG
1 AAG
52209540 AGTATACATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (74 bp):
AAGTCAAAGGTTGAGAAACTTTAATGAACATATAGGATAAGGAGAAATTGGATAGACATTTTTGT
TGGTGTTAA
Found at i:52209908 original size:16 final size:16
Alignment explanation
Indices: 52209889--52209934 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
52209879 TGAAAATAAA
52209889 AAAAAATTAAAATTAT
1 AAAAAATTAAAATTAT
52209905 AAAAAA-TAGAAATTAT
1 AAAAAATTA-AAATTAT
52209921 AAAAAATATAAAAT
1 AAAAAAT-TAAAAT
52209935 ATTACAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.07
16 19 0.70
17 4 0.15
18 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAAAATTAAAATTAT
Found at i:52210200 original size:42 final size:42
Alignment explanation
Indices: 52210136--52210543 Score: 496
Period size: 42 Copynumber: 9.8 Consensus size: 42
52210126 GTTTTCAAAT
* *
52210136 AAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA
52210178 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGG-
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA
*
52210219 AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGG-
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA
* *
52210260 AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGTGCTTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA
* *
52210302 AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA
52210344 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-GA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA
* *
52210385 ACAAAATGCCGCT--A-AACATGTTCTTTAGCGGCGCTTAGAA
1 A-AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA
* * * *
52210425 AAGAAACGTCGCTAAAGAAAATGTTCTTTAGCGGCACTTTA-AA
1 AA-AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTAGGA
* * * **
52210468 AAGAAATGCTGCTAAAG-ACAATGTTCTTTTAGCGGCGTTTATTA
1 AA-AAACGCCGCTAAAGAAC-ATGTTC-TTTAGCGGCGCTTAGGA
** *
52210512 TTAAGCGCCGCTAAAG---ATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
52210544 TTTTTGTAAA
Statistics
Matches: 329, Mismatches: 26, Indels: 25
0.87 0.07 0.07
Matches are distributed among these distances:
39 34 0.10
40 17 0.05
41 82 0.25
42 129 0.39
43 54 0.16
44 13 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA
Found at i:52210298 original size:124 final size:125
Alignment explanation
Indices: 52210142--52210504 Score: 529
Period size: 124 Copynumber: 2.9 Consensus size: 125
52210132 AAATAAAAGC
*
52210142 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTA
* *
52210207 GCGGCGCTTAGGAAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGA-AAAAT
66 GCGGCGCTTAGAAAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAACAAAAT
* *
52210266 GCCGCTAAAGAACATGTTCTTTAGCGGTGCTTAGGAAAAAATGCCGCTAAAGAACATGTTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTA
*
52210331 GCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAACAAAAT
66 GCGGCGCTTAG-AAAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAACAAAAT
* * *
52210392 GCCGCT--A-AACATGTTCTTTAGCGGCGCTTAGAAAAGAAACGTCGCTAAAGAAAATGTTCTTT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGAACATGTTCTTT
* * *
52210454 AGCGGCACTTTAAAAAGAAATGCTGCTAAAG-ACAATGTTCTTTTAGCGGCG
65 AGCGGCGC-TTAGAAA-AAATGCCGCTAAAGAAC-ATGTTC-TTTAGCGGCG
52210505 TTTATTATTA
Statistics
Matches: 217, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
123 26 0.12
124 109 0.50
125 61 0.28
126 21 0.10
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (125 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTA
GCGGCGCTTAGAAAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAACAAAAT
Found at i:52210533 original size:83 final size:82
Alignment explanation
Indices: 52210142--52210543 Score: 462
Period size: 83 Copynumber: 4.8 Consensus size: 82
52210132 AAATAAAAGC
* *
52210142 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTA
1 GCCGCTAAAGACAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAG-A-ATGTTCTTTA
*
52210207 GCGGCGCTTAG-GAAAAAT
64 GCGGCGCTTAGAAAAAAAT
* *
52210225 GCCGCTAAAGA-ACATGTTCTTTAGCGGCGCTTAG-GAAAAATGCCGCTAAAGAACATGTTCTTT
1 GCCGCTAAAGACA-ATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAG-A-ATGTTCTTT
* *
52210288 AGCGGTGCTTAGGAAAAAAT
63 AGCGGCGCTTAGAAAAAAAT
52210308 GCCGCTAAAGA-ACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTT
1 GCCGCTAAAGACA-ATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAG-A-ATGTTCTTT
*
52210372 AGCGGCGCTTAGAACAAAAT
63 AGCGGCGCTTAGAAAAAAAT
*
52210392 GCCGCT-AA-AC-ATGTTCTTTAGCGGCGCTTAGAAAAGAAACGTCGCTAAAGAAAATGTTCTTT
1 GCCGCTAAAGACAATGTTCTTTAGCGGCGCTTAGAAAA-AAACGCCGCTAAAG--AATGTTCTTT
*
52210454 AGCGGCACTTTA-AAAAGAAAT
63 AGCGGCGC-TTAGAAAA-AAAT
* * ** ** *
52210475 GCTGCTAAAGACAATGTTCTTTTAGCGGCGTTTATTATTAAGCGCCGCTAAAG-ATGTTCTTTAG
1 GCCGCTAAAGACAATGTTC-TTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAATGTTCTTTAG
52210539 CGGCG
65 CGGCG
52210544 TTTTTGTAAA
Statistics
Matches: 285, Mismatches: 22, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
81 25 0.09
82 71 0.25
83 103 0.36
84 52 0.18
85 2 0.01
86 18 0.06
87 14 0.05
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (82 bp):
GCCGCTAAAGACAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAATGTTCTTTAGC
GGCGCTTAGAAAAAAAT
Found at i:52210891 original size:21 final size:22
Alignment explanation
Indices: 52210865--52210916 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
52210855 TTTGGCCTGC
52210865 TCTGCTTCTCTT-GTTGCAGCT
1 TCTGCTTCTCTTCGTTGCAGCT
52210886 TCTGCTTCT-TTCGTTGCAGCT
1 TCTGCTTCTCTTCGTTGCAGCT
52210907 TCTGCTTCTC
1 TCTGCTTCTC
52210917 GCGCTGTCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.04, C:0.31, G:0.17, T:0.48
Consensus pattern (22 bp):
TCTGCTTCTCTTCGTTGCAGCT
Found at i:52216491 original size:9 final size:9
Alignment explanation
Indices: 52216479--52216661 Score: 123
Period size: 9 Copynumber: 21.1 Consensus size: 9
52216469 TGTACATCTA
52216479 TAAGTTATG
1 TAAGTTATG
52216488 TAAGTTATG
1 TAAGTTATG
*
52216497 T-A-TTAAG
1 TAAGTTATG
* *
52216504 TAAGCTATT
1 TAAGTTATG
*
52216513 TAAGTTGTG
1 TAAGTTATG
52216522 T-AG-TATG
1 TAAGTTATG
52216529 TAAGTTATG
1 TAAGTTATG
* *
52216538 TAAGTTTTC
1 TAAGTTATG
* *
52216547 AAAGTAATG
1 TAAGTTATG
*
52216556 TATGTTATG
1 TAAGTTATG
52216565 TAAG-T-TG
1 TAAGTTATG
52216572 TAAGTTAT-
1 TAAGTTATG
*
52216580 TATGTATTATG
1 TAAG--TTATG
*
52216591 TAGGTTATG
1 TAAGTTATG
52216600 TAAGTTATG
1 TAAGTTATG
*
52216609 TAAGTTTTG
1 TAAGTTATG
*
52216618 T-A-TTATT
1 TAAGTTATG
*
52216625 TAAGTTGTG
1 TAAGTTATG
52216634 TAAGTTATG
1 TAAGTTATG
* * *
52216643 GATGCTATG
1 TAAGTTATG
*
52216652 TAAGTAATG
1 TAAGTTATG
52216661 T
1 T
52216662 GTATTATCTA
Statistics
Matches: 129, Mismatches: 34, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
7 19 0.15
8 13 0.10
9 90 0.70
10 4 0.03
11 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:52216516 original size:25 final size:25
Alignment explanation
Indices: 52216479--52216642 Score: 92
Period size: 25 Copynumber: 6.7 Consensus size: 25
52216469 TGTACATCTA
*
52216479 TAAGTTATGTAAGTTATGTATTAAG
1 TAAGTTATGTAAGTTATGTAGTAAG
* * * *
52216504 TAAGCTATTTAAGTTGTGTAGTATG
1 TAAGTTATGTAAGTTATGTAGTAAG
* **
52216529 TAAGTTATGTAAGTTTTCAAAGTAATG
1 TAAGTTATGTAAGTTAT-GTAGTAA-G
*
52216556 TATGTTATGTAAG---T-T-GTAAG
1 TAAGTTATGTAAGTTATGTAGTAAG
* *
52216576 TTA-TTATGT-A-TTATGTAGGTTATG
1 TAAGTTATGTAAGTTATGTA-G-TAAG
* * **
52216600 TAAGTTATGTAAGTTTTGTATTATT
1 TAAGTTATGTAAGTTATGTAGTAAG
*
52216625 TAAGTTGTGTAAGTTATG
1 TAAGTTATGTAAGTTATG
52216643 GATGCTATGT
Statistics
Matches: 105, Mismatches: 22, Indels: 24
0.70 0.15 0.16
Matches are distributed among these distances:
18 1 0.01
19 6 0.06
20 3 0.03
21 5 0.05
23 1 0.01
24 6 0.06
25 59 0.56
26 5 0.05
27 19 0.18
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTAAGTTATGTAGTAAG
Found at i:52216628 original size:16 final size:16
Alignment explanation
Indices: 52216582--52216635 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
52216572 TAAGTTATTA
* *
52216582 TGTATTATGTAGGTTA
1 TGTATTATGTAAGTTG
*
52216598 TGTAAGTTATGTAAGTTT
1 TGT-A-TTATGTAAGTTG
*
52216616 TGTATTATTTAAGTTG
1 TGTATTATGTAAGTTG
52216632 TGTA
1 TGTA
52216636 AGTTATGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 17 0.53
17 2 0.06
18 13 0.41
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (16 bp):
TGTATTATGTAAGTTG
Found at i:52216769 original size:16 final size:16
Alignment explanation
Indices: 52216727--52216769 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
52216717 TTTGAGAATT
* *
52216727 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
52216743 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
52216759 TTATGTAAGTT
1 TTATGTAAGTT
52216770 TAATAAGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:52217021 original size:149 final size:149
Alignment explanation
Indices: 52216858--52217535 Score: 1207
Period size: 149 Copynumber: 4.5 Consensus size: 149
52216848 GTAAGTAATG
* * *
52216858 TAAGTCATGTAAAATGTACTTAATAATATATATTTAAGTAATGTAAGATATAAATTTTAAAATAA
1 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAA
52216923 TATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTT
66 TATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTT
52216988 TAAAATATATATTCATTAA
131 TAAAATATATATTCATTAA
*
52217007 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATAAATTTTAAAATAA
1 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAA
52217072 TATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTT
66 TATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTT
*
52217137 TCAAATATATATTCATTAA
131 TAAAATATATATTCATTAA
*
52217156 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAAATATCAATTTTAAAATAT
1 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATA-
*
52217221 ATATTCATTAATAAGTCGTGTAAAATATACTTAAT-A-ATATATTTAAGTAATGTAAGATATCAA
65 ATA-T-ATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAA
52217284 TTTTAAAATATATATTCATTAA
128 TTTTAAAATATATATTCATTAA
*
52217306 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAA
1 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAA
52217371 TATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTT
66 TATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTT
*
52217436 TCAAATATATATTCATTAA
131 TAAAATATATATTCATTAA
52217455 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATA-
52217520 ATATTCATTAATAAGT
65 ATA-T-ATTAATAAGT
52217536 TAAATGAAAT
Statistics
Matches: 509, Mismatches: 12, Indels: 13
0.95 0.02 0.02
Matches are distributed among these distances:
147 28 0.06
148 2 0.00
149 322 0.63
150 116 0.23
151 3 0.01
152 38 0.07
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (149 bp):
TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAA
TATATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTT
TAAAATATATATTCATTAA
Found at i:52217024 original size:76 final size:76
Alignment explanation
Indices: 52216858--52217535 Score: 1189
Period size: 76 Copynumber: 9.1 Consensus size: 76
52216848 GTAAGTAATG
* *
52216858 TAAGTCATGTAAAATGTACTTAATAATATATATTTAAGTAATGTAAGATATAAATTTTAAAATA-
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52216922 ATA-T-ATTAA
66 ATATTCATTAA
52216931 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52216996 ATATTCATTAA
66 ATATTCATTAA
* *
52217007 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATAAATTTTAAAATA-
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52217071 ATA-T-ATTAA
66 ATATTCATTAA
*
52217080 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTCAAATAT
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52217145 ATATTCATTAA
66 ATATTCATTAA
* *
52217156 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAAATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52217221 ATATTCATTAA
66 ATATTCATTAA
*
52217232 TAAGTCGTGTAAAATATACTTAAT-A-ATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52217295 ATATTCATTAA
66 ATATTCATTAA
52217306 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATA-
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52217370 ATA-T-ATTAA
66 ATATTCATTAA
*
52217379 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTCAAATAT
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52217444 ATATTCATTAA
66 ATATTCATTAA
*
52217455 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52217520 ATATTCATTAA
66 ATATTCATTAA
52217531 TAAGT
1 TAAGT
52217536 TAAATGAAAT
Statistics
Matches: 579, Mismatches: 15, Indels: 19
0.94 0.02 0.03
Matches are distributed among these distances:
73 196 0.34
74 82 0.14
75 11 0.02
76 290 0.50
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (76 bp):
TAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
ATATTCATTAA
Found at i:52217402 original size:299 final size:301
Alignment explanation
Indices: 52216858--52217535 Score: 1258
Period size: 299 Copynumber: 2.3 Consensus size: 301
52216848 GTAAGTAATG
* * *
52216858 TAAGTCATGTAAAATGTACTTAATAATATATATTTAAGTAATGTAAGATATAAATTTTAAAATA-
1 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52216922 ATA-T-ATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAA
66 ATATTCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAA
*
52216985 TTTTAAAATATATATTCATTAATAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATG
131 TTTTAAAATATATATTCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATG
52217050 TAAGATATAAATTTTAAAATAATATATTAATAAGTCATGTAAAATATACTTAATAATATATATTT
196 TAAGATATAAATTTTAAAATAATATATTAATAAGTCATGTAAAATATACTTAATAATATATATTT
52217115 AAGTAATGTAAGATATCAATTTTCAAATATATATTCATTAA
261 AAGTAATGTAAGATATCAATTTTCAAATATATATTCATTAA
*
52217156 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAAATATCAATTTTAAAATAT
1 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
*
52217221 ATATTCATTAATAAGTCGTGTAAAATATACTTAAT-A-ATATATTTAAGTAATGTAAGATATCAA
66 ATATTCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAA
52217284 TTTTAAAATATATATTCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATG
131 TTTTAAAATATATATTCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATG
*
52217349 TAAGATATCAATTTTAAAATAATATATTAATAAGTCATGTAAAATATACTTAATAATATATATTT
196 TAAGATATAAATTTTAAAATAATATATTAATAAGTCATGTAAAATATACTTAATAATATATATTT
52217414 AAGTAATGTAAGATATCAATTTTCAAATATATATTCATTAA
261 AAGTAATGTAAGATATCAATTTTCAAATATATATTCATTAA
52217455 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
52217520 ATATTCATTAATAAGT
66 ATATTCATTAATAAGT
52217536 TAAATGAAAT
Statistics
Matches: 369, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
298 60 0.16
299 279 0.76
300 2 0.01
301 28 0.08
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (301 bp):
TAAGTCGTGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
ATATTCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATGTAAGATATCAA
TTTTAAAATATATATTCATTAATAAGTCATGTAAAATATACTTAATAATATATATTTAAGTAATG
TAAGATATAAATTTTAAAATAATATATTAATAAGTCATGTAAAATATACTTAATAATATATATTT
AAGTAATGTAAGATATCAATTTTCAAATATATATTCATTAA
Found at i:52217731 original size:67 final size:67
Alignment explanation
Indices: 52217659--52217797 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
52217649 TTTGTTGAGA
*
52217659 ATTCATTATATAATGAATTTATTAAACATTCAATCAATTA-ACTAACCAAAATTGATAATTCATT
1 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACA-TAACCAAAATTGATAATTCATT
52217723 GAC
65 GAC
52217726 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
1 ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
52217791 AC
66 AC
52217793 ATTCA
1 ATTCA
52217798 ATCAATTAAT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (67 bp):
ATTCATTATATAATGAATTTATAAAACATTCAATCAATTACATAACCAAAATTGATAATTCATTG
AC
Found at i:52217878 original size:16 final size:16
Alignment explanation
Indices: 52217857--52217892 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
52217847 ATTAATTGAA
*
52217857 ATAAAATTGTAAATCG
1 ATAAAATTGCAAATCG
52217873 ATAAAATTGCAAATCG
1 ATAAAATTGCAAATCG
52217889 ATAA
1 ATAA
52217893 TTATAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (16 bp):
ATAAAATTGCAAATCG
Found at i:52220510 original size:21 final size:21
Alignment explanation
Indices: 52220486--52220561 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
52220476 TATAATTTCT
*
52220486 AATCCTTAAACCTCAAAAACC-
1 AATCCCTAAACC-CAAAAACCA
*
52220507 AATCCCTAAACCCTAAAACCA
1 AATCCCTAAACCCAAAAACCA
* **
52220528 AATCCCTAAATCCTAAACCCCA
1 AATCCCTAAA-CCCAAAAACCA
52220550 AA-CCCTAAACCC
1 AATCCCTAAACCC
52220562 TAAACCCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 9 0.20
21 28 0.61
22 9 0.20
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (21 bp):
AATCCCTAAACCCAAAAACCA
Found at i:52220522 original size:7 final size:7
Alignment explanation
Indices: 52220510--52220574 Score: 87
Period size: 7 Copynumber: 9.3 Consensus size: 7
52220500 AAAAACCAAT
52220510 CCCTAAA
1 CCCTAAA
52220517 CCCTAAA
1 CCCTAAA
*
52220524 ACC-AAA
1 CCCTAAA
52220530 TCCCTAAA
1 -CCCTAAA
*
52220538 TCCTAAA
1 CCCTAAA
*
52220545 CCCCAAA
1 CCCTAAA
52220552 CCCTAAA
1 CCCTAAA
52220559 CCCTAAA
1 CCCTAAA
52220566 CCCTAAA
1 CCCTAAA
52220573 CC
1 CC
52220575 ACAAAACCCC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
6 3 0.06
7 44 0.88
8 3 0.06
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:52220556 original size:14 final size:14
Alignment explanation
Indices: 52220505--52220579 Score: 71
Period size: 14 Copynumber: 5.4 Consensus size: 14
52220495 ACCTCAAAAA
*
52220505 CCAATCCCTAAACC
1 CCAAACCCTAAACC
* *
52220519 CTAAAACC-AAATCC
1 CCAAACCCTAAA-CC
* *
52220533 CTAAATCCTAAACC
1 CCAAACCCTAAACC
52220547 CCAAACCCTAAACC
1 CCAAACCCTAAACC
*
52220561 CTAAACCCTAAACC
1 CCAAACCCTAAACC
*
52220575 ACAAA
1 CCAAA
52220580 ACCCCGAGCA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
13 3 0.06
14 44 0.88
15 3 0.06
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.13
Consensus pattern (14 bp):
CCAAACCCTAAACC
Found at i:52220563 original size:21 final size:21
Alignment explanation
Indices: 52220505--52220583 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
52220495 ACCTCAAAAA
* *
52220505 CCAATCCCTAAACCCTAAA-A
1 CCAAACCCTAAACCCTAAACC
*
52220525 CCAAATCCCTAAATCCTAAACC
1 CCAAA-CCCTAAACCCTAAACC
52220547 CCAAACCCTAAACCCTAAACC
1 CCAAACCCTAAACCCTAAACC
* *
52220568 CTAAACCACAAAACCC
1 CCAAACC-CTAAACCC
52220584 CGAGCAGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.08
21 34 0.68
22 12 0.24
ACGTcount: A:0.44, C:0.43, G:0.00, T:0.13
Consensus pattern (21 bp):
CCAAACCCTAAACCCTAAACC
Found at i:52221384 original size:21 final size:19
Alignment explanation
Indices: 52221354--52221392 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 19
52221344 GTATCTTTTA
52221354 TAATTATATATAAAATTATT
1 TAATTATATAT-AAATTATT
52221374 TAATATATATATAAATTAT
1 TAAT-TATATATAAATTAT
52221393 AAATCAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTATATATAAATTATT
Found at i:52221521 original size:18 final size:18
Alignment explanation
Indices: 52221498--52221533 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
52221488 ATTGAATTTT
52221498 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
52221516 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
52221534 TATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:52221541 original size:18 final size:19
Alignment explanation
Indices: 52221502--52221542 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
52221492 AATTTTAATT
*
52221502 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
52221521 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
52221539 AATA
1 AATA
52221543 ATTTTGTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:52222076 original size:114 final size:114
Alignment explanation
Indices: 52221643--52222069 Score: 793
Period size: 114 Copynumber: 3.8 Consensus size: 114
52221633 CCGCTAATAC
* *
52221643 TATACTTCAGCGGCGTTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
*
52221708 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAATGCCGCTGATGA
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
*
52221757 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAATGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
*
52221822 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCACTGATGA
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
52221871 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
52221936 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
*
52221985 TATACTTTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
52222050 CGTTTTGGTTAAGAT-ATTTG
66 CGTTTTGGTTAAGATGATTTG
52222070 GAGGCGCTTC
Statistics
Matches: 305, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
113 5 0.02
114 300 0.98
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (114 bp):
TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGA
Found at i:52222189 original size:228 final size:228
Alignment explanation
Indices: 52221643--52222159 Score: 756
Period size: 228 Copynumber: 2.3 Consensus size: 228
52221633 CCGCTAATAC
* * * *
52221643 TATACTTCAGCGGCGTTTTTAACCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGATTTTAATCAAACGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
*
52221708 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAATGCCGCTGATGATATACTTTAGCGGCGT
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGATATACTTTAGCGGCGT
*
52221773 TTTTAATCAAGCGCCACTAATTCTAATACTCCTAATGACCAAAACTCTGCGTTTTGGTTAAGATG
131 TTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATG
* * *
52221838 ATTTGCGGCGCATCCGACAAACGCCACTGATGA
196 ATTTGAGGCGCATCCCACAAACGCCACTGATAA
* *
52221871 TATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
1 TATACTTTAGCGGCGATTTTAATCAAACGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
52221936 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGATATACTTTAGCGGCGT
66 CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGATATACTTTAGCGGCGT
*
52222001 TTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGAT-
131 TTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATG
* **
52222065 ATTTGGAGGCGCTTCCCACCAAACGCTGCT-ATAA
196 ATTT-GAGGCGCATCCCA-CAAACGCCACTGATAA
* ** * * * *
52222099 CTATCCTTTA-CTGGC-ATTTTCCTTAAACGCCACTAATTATAATA-TACATCAAGACCAAAAC
1 -TATACTTTAGC-GGCGATTTTAATCAAACGCCACTAATTCTAATACT-CCTAAAGACCAAAAC
52222160 GGAGCGTTTT
Statistics
Matches: 264, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
227 5 0.02
228 239 0.91
229 20 0.08
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (228 bp):
TATACTTTAGCGGCGATTTTAATCAAACGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTG
CGTTTTGGTTAAGATGATTTGCGGCGCATCCGACAAACGCCGCTGATGATATACTTTAGCGGCGT
TTTTAATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGCGTTTTGGTTAAGATG
ATTTGAGGCGCATCCCACAAACGCCACTGATAA
Found at i:52222267 original size:116 final size:113
Alignment explanation
Indices: 52222126--52222395 Score: 278
Period size: 114 Copynumber: 2.4 Consensus size: 113
52222116 TTTCCTTAAA
** * *
52222126 CGCCACTAATTATAATATACATCAAGACCAAAACGGAGCGTTTTGATTAGGATATC-TTGCGGCG
1 CGCCACTAATTGCAATATACATCAAGACCAAAACGCAGCGTTTTGATTA--ACATCGTTGCGGCG
* ** * * *
52222190 TTTAATGC-TATGCGCCGCTAATACAATACATTAGCGGCGTTTTATTTATAAG
64 CTT--CCCATAAGCGCCGCTAATACAATACATTACCGGCGTTTT-TTCATAAG
* * *
52222242 CGCCACTAATTGCAATATACATCAAGACC-AAACTCTGCGTTTTGGTTAACATCGTTTGCGGCGC
1 CGCCACTAATTGCAATATACATCAAGACCAAAACGCAGCGTTTTGATTAACATCG-TTGCGGCGC
* * *
52222306 TTCCCATAAGCGCCGCTAATACTATACATTACCGGTGTTTTTTCGTAAG
65 TTCCCATAAGCGCCGCTAATACAATACATTACCGGCGTTTTTTCATAAG
* * *
52222355 CGCCAC-AAATGCCAATATACATCAAGACCAGAACGCTGCGT
1 CGCCACTAATTG-CAATATACATCAAGACCAAAACGCAGCGT
52222396 GTTGGTCTTG
Statistics
Matches: 130, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
112 4 0.03
113 34 0.26
114 40 0.31
115 25 0.19
116 27 0.21
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (113 bp):
CGCCACTAATTGCAATATACATCAAGACCAAAACGCAGCGTTTTGATTAACATCGTTGCGGCGCT
TCCCATAAGCGCCGCTAATACAATACATTACCGGCGTTTTTTCATAAG
Found at i:52222418 original size:229 final size:229
Alignment explanation
Indices: 52221758--52222399 Score: 506
Period size: 228 Copynumber: 2.8 Consensus size: 229
52221748 CGCTGATGAT
* * * *
52221758 ATACTTTAGCGGCGTTTTTAATCAAGCGCCACTAATTCTAATACTCCTAATGACCAAAACTCTGC
1 ATACATTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCATAAAGACCAAAACTCTGC
* * * * * * * *
52221823 GTTTTGGTTAAGATGATTT-GCGGCGCATCCGA-CAAACGCCACTGATGA-TATACTTTAGCGGC
66 GTTTTGGTTAACAT-ATTTGGAGGCGCTTCCCACCAAACGCCGCT-ATAACTATACATTACCGGC
* *** * * * * * * * * * *
52221885 GTTTTTAATCAAGCGCCACTAAT-TCTAATACT-CCTAAAGACCAAAACTCTGCGTTTTGGTTAA
129 ATTTTCCGT-AAACGCCACAAATGAC-AATA-TACATCAAGACCAAAACGCAGCGTGTTGATTAG
** ** ** * *
52221948 GATGAT-TTGCGGCGCAT-CCGAC-AAACGCCGCTGATGA-T
191 GAT-ATCTTGCGGCGTTTAATG-CTATGCGCCGCTAAT-ACA
* *
52221986 ATACTTTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCCTAAAGACCAAAACTCTGC
1 ATACATTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCATAAAGACCAAAACTCTGC
* * * * *
52222051 GTTTTGGTTAAGATATTTGGAGGCGCTTCCCACCAAACGCTGCTATAACTATCCTTTACTGGCAT
66 GTTTTGGTTAACATATTTGGAGGCGCTTCCCACCAAACGCCGCTATAACTATACATTACCGGCAT
* * * * * *
52222116 TTTCCTTAAACGCCACTAATTATAATATACATCAAGACCAAAACGGAGCGTTTTGATTAGGATAT
131 TTTCCGTAAACGCCACAAATGACAATATACATCAAGACCAAAACGCAGCGTGTTGATTAGGATAT
52222181 CTTGCGGCGTTTAATGCTATGCGCCGCTAATACA
196 CTTGCGGCGTTTAATGCTATGCGCCGCTAATACA
*
52222215 ATACATTAGCGGCGTTTTATTTAT-AAGCGCCACTAATTGC-AATA-TACATCAAGACC-AAACT
1 ATACATTAGCGGCG-TTT-TTTATCAAGCGCCACTAATT-CTAATACT-CATAAAGACCAAAACT
* * * *
52222276 CTGCGTTTTGGTTAACATCGTTT-GCGGCGCTTCCCA-TAAGCGCCGCTA-ATACTATACATTAC
62 CTGCGTTTTGGTTAACAT-ATTTGGAGGCGCTTCCCACCAAACGCCGCTATA-ACTATACATTAC
** * * * * *
52222338 CGGTGTTTTTTCGTAAGCGCCACAAATGCCAATATACATCAAGACCAGAACGCTGCGTGTTG
125 CGG-CATTTTCCGTAAACGCCACAAATGACAATATACATCAAGACCAAAACGCAGCGTGTTG
52222400 GTCTTGATAT
Statistics
Matches: 340, Mismatches: 58, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
227 8 0.02
228 165 0.49
229 129 0.38
230 32 0.09
231 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (229 bp):
ATACATTAGCGGCGTTTTTTATCAAGCGCCACTAATTCTAATACTCATAAAGACCAAAACTCTGC
GTTTTGGTTAACATATTTGGAGGCGCTTCCCACCAAACGCCGCTATAACTATACATTACCGGCAT
TTTCCGTAAACGCCACAAATGACAATATACATCAAGACCAAAACGCAGCGTGTTGATTAGGATAT
CTTGCGGCGTTTAATGCTATGCGCCGCTAATACA
Found at i:52239622 original size:5 final size:5
Alignment explanation
Indices: 52239607--52239639 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
52239597 AGTTGATATA
52239607 TTATCT TTATT TTATT TTATT TTATT TTATT TT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TT
52239640 CTCAAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:52244287 original size:27 final size:27
Alignment explanation
Indices: 52244255--52244309 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
52244245 GTACAATATA
* *
52244255 TGTGGCAAAGCCACCAGTAATAGTAAT
1 TGTGGCAAAGCCACCAGAAACAGTAAT
52244282 TGTGGCAAAGCCACCAGAAACAGTAAT
1 TGTGGCAAAGCCACCAGAAACAGTAAT
52244309 T
1 T
52244310 CTTCCATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (27 bp):
TGTGGCAAAGCCACCAGAAACAGTAAT
Found at i:52244476 original size:27 final size:27
Alignment explanation
Indices: 52244437--52244556 Score: 127
Period size: 27 Copynumber: 4.5 Consensus size: 27
52244427 ACCCTAACGG
*
52244437 GGGTATTAT-GGTAATTTTACCCATCGA
1 GGGTATT-TCGGTAATTTTACCCATTGA
* *
52244464 GGGTGTTTCGGTAATTTTA-CCATTAA
1 GGGTATTTCGGTAATTTTACCCATTGA
* ** *
52244490 AGGTATTTCGAAAATTTTACCCATTGG
1 GGGTATTTCGGTAATTTTACCCATTGA
* * *
52244517 GGGTATTTCAGTAAGTTTACCTATTGA
1 GGGTATTTCGGTAATTTTACCCATTGA
52244544 GGGTATTTCGGTA
1 GGGTATTTCGGTA
52244557 TAGTTAACAA
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 21 0.28
27 53 0.72
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCATTGA
Found at i:52244506 original size:53 final size:54
Alignment explanation
Indices: 52244449--52244553 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 54
52244439 GTATTATGGT
* * *
52244449 AATTTTACCCATCGAGGGTGTTTCGGTAATTTTACC-ATTAAAGGTATTTCGAA
1 AATTTTACCCATCGAGGGTATTTCAGTAAGTTTACCTATTAAAGGTATTTCGAA
* * * *
52244502 AATTTTACCCATTGGGGGTATTTCAGTAAGTTTACCTATTGAGGGTATTTCG
1 AATTTTACCCATCGAGGGTATTTCAGTAAGTTTACCTATTAAAGGTATTTCG
52244554 GTATAGTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 31 0.70
54 13 0.30
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (54 bp):
AATTTTACCCATCGAGGGTATTTCAGTAAGTTTACCTATTAAAGGTATTTCGAA
Found at i:52259593 original size:38 final size:39
Alignment explanation
Indices: 52259460--52259593 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
52259450 CGTTTGGACA
* *
52259460 AAAAACGCCACTAAAAATTGAA-CATTAGCGGCGCCTT-T-A
1 AAAAACGCCGCTAAAAA-T-AAGCATTAGCGGCG-CTTATCC
* * **
52259499 AAAAATGTCGCTAAAGGTAGAGCATTAGCGGCGCTTATCC
1 AAAAACGCCGCTAAAAATA-AGCATTAGCGGCGCTTATCC
* *
52259539 AAAAACGCCGCTAAAAATAAGCATTAGCGGCG-TTTTCT
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTATCC
52259577 AAAAAGCGCCGC-AAAAA
1 AAAAA-CGCCGCTAAAAA
52259594 GTCTAAGCCA
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
37 1 0.01
38 19 0.24
39 43 0.55
40 15 0.19
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTATCC
Found at i:52259690 original size:41 final size:40
Alignment explanation
Indices: 52259633--52259909 Score: 304
Period size: 41 Copynumber: 6.8 Consensus size: 40
52259623 TTTTTGGGGG
52259633 CTTTAGCGGCGTTTTTGAATAAACGCCGCTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTGAA-AAACGCCGCTAATGCTCTGGC
* *
52259674 CTTTAGCGGCGTTTTTGAGTAAGCGCCGCTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTGA-AAAACGCCGCTAATGCTCTGGC
* * *
52259715 CTTTAGCGGCGTTTATTCAAAAGCGCCGCTAATGCTCTGTC
1 CTTTAGCGGCGTTT-TTGAAAAACGCCGCTAATGCTCTGGC
* **
52259756 TTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTATC
1 CTTTAGCGGCGTTTTTGAAAAA-CGCCGCTAATGCTCTGGC
* * * **
52259797 TTTTAGCGGCGTTTTTGAAGAACTGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAC-GCCGCTAATGCTCTGGC
* * * * *
52259838 CTTTAGCGGCATTTTT-AAAGAAGCGTCGGTATTGCTGTGGC
1 CTTTAGCGGCGTTTTTGAAA-AA-CGCCGCTAATGCTCTGGC
*
52259879 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
1 CTTTAGCGGCGTTTTTGAAAAA-CGCCGCTA
52259910 GTAATAATAA
Statistics
Matches: 202, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
40 9 0.04
41 186 0.92
42 7 0.03
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGAAAAACGCCGCTAATGCTCTGGC
Found at i:52259862 original size:123 final size:123
Alignment explanation
Indices: 52259633--52259909 Score: 355
Period size: 123 Copynumber: 2.3 Consensus size: 123
52259623 TTTTTGGGGG
*
52259633 CTTTAGCGGCGTTTTTGAATAAA-CGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAGTAAG
1 CTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTGAGTAAG
* * * * *
52259697 CGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTATTCAAAAGCGCCGCTAATGCTCTGTC
65 CGCCGCTAATGCTCAGACCTTTAGCGGCATTTATTAAAAAGCGCCGCTAATGCTCTGGC
* * *
52259756 TTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTATCTTTTAGCGGCGTTTTTGAAG-AA-
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTG-AGTAAG
* * * * *
52259819 CTGCCGCTAATGCTCAGATCTTTAGCGGCATTT-TTAAAGAAGCGTCGGTATTGCTGTGGC
65 C-GCCGCTAATGCTCAGACCTTTAGCGGCATTTATTAAA-AAGCGCCGCTAATGCTCTGGC
*
52259879 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTA
52259910 GTAATAATAA
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
122 8 0.06
123 124 0.93
124 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTGAGTAAGC
GCCGCTAATGCTCAGACCTTTAGCGGCATTTATTAAAAAGCGCCGCTAATGCTCTGGC
Found at i:52260843 original size:14 final size:15
Alignment explanation
Indices: 52260806--52260848 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
52260796 GGGGATTATA
52260806 TATGGATTT-AGGGAT
1 TATGGATTTAAGGG-T
52260821 TATGG-TTTAAGGGT
1 TATGGATTTAAGGGT
52260835 TA-GGATTTAAGGGT
1 TATGGATTTAAGGGT
52260849 CGGGTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.08
14 15 0.58
15 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.40
Consensus pattern (15 bp):
TATGGATTTAAGGGT
Found at i:52261925 original size:7 final size:7
Alignment explanation
Indices: 52261913--52262031 Score: 67
Period size: 7 Copynumber: 15.9 Consensus size: 7
52261903 GATATAAGGT
52261913 TTAGGGG
1 TTAGGGG
52261920 TTAGGGG
1 TTAGGGG
*
52261927 TTAGGGAT
1 TTAGGG-G
52261935 TTAGGGG
1 TTAGGGG
* **
52261942 CTATGAGAT
1 TTA-G-GGG
52261951 TTAGGGG
1 TTAGGGG
52261958 TTAGGGG
1 TTAGGGG
**
52261965 TTATGGAT
1 TTA-GGGG
*
52261973 TTAGGGAT
1 TTAGGG-G
52261981 TTAGGGG
1 TTAGGGG
* *
52261988 CTAGGAGA
1 TTAGG-GG
52261996 TCTAGGGG
1 T-TAGGGG
52262004 TTAGGGG
1 TTAGGGG
*
52262011 TTAGGGAT
1 TTAGGG-G
*
52262019 TTAGGGT
1 TTAGGGG
52262026 TTAGGG
1 TTAGGG
52262032 TGTCAATTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
7 51 0.59
8 29 0.33
9 7 0.08
ACGTcount: A:0.20, C:0.03, G:0.45, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:52261963 original size:23 final size:23
Alignment explanation
Indices: 52261935--52262031 Score: 108
Period size: 23 Copynumber: 4.3 Consensus size: 23
52261925 GGTTAGGGAT
52261935 TTAGGGGCTATGAGATTTAGGGG
1 TTAGGGGCTATGAGATTTAGGGG
* *
52261958 TTAGGGGTTATG-GATTTAGGGAT
1 TTAGGGGCTATGAGATTTAGGG-G
* *
52261981 TTAGGGGCTAGGAGATCTAGGGG
1 TTAGGGGCTATGAGATTTAGGGG
* * *
52262004 TTAGGGGTTA-GGGATTTAGGGT
1 TTAGGGGCTATGAGATTTAGGGG
52262026 TTAGGG
1 TTAGGG
52262032 TGTCAATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
22 24 0.39
23 30 0.48
24 8 0.13
ACGTcount: A:0.21, C:0.03, G:0.44, T:0.32
Consensus pattern (23 bp):
TTAGGGGCTATGAGATTTAGGGG
Found at i:52261982 original size:46 final size:45
Alignment explanation
Indices: 52261913--52262031 Score: 177
Period size: 46 Copynumber: 2.6 Consensus size: 45
52261903 GATATAAGGT
** * *
52261913 TTAGGGGTTAGGGGTTAGGGATTTAGGGGCTATGAGATTTAGGGG
1 TTAGGGGTTAGGATTTAGGGATTTAGGGGCTAGGAGATCTAGGGG
52261958 TTAGGGGTTATGGATTTAGGGATTTAGGGGCTAGGAGATCTAGGGG
1 TTAGGGGTTA-GGATTTAGGGATTTAGGGGCTAGGAGATCTAGGGG
52262004 TTAGGGGTTAGGGATTTAGGG-TTTAGGG
1 TTAGGGGTTA-GGATTTAGGGATTTAGGG
52262032 TGTCAATTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
45 17 0.25
46 51 0.75
ACGTcount: A:0.20, C:0.03, G:0.45, T:0.32
Consensus pattern (45 bp):
TTAGGGGTTAGGATTTAGGGATTTAGGGGCTAGGAGATCTAGGGG
Found at i:52262032 original size:7 final size:7
Alignment explanation
Indices: 52261892--52262032 Score: 59
Period size: 7 Copynumber: 19.0 Consensus size: 7
52261882 TATATGATTA
52261892 TTAGGGT
1 TTAGGGT
52261899 TT-GGGAT
1 TTAGGG-T
* *
52261906 ATAAGGT
1 TTAGGGT
*
52261913 TTAGGGG
1 TTAGGGT
*
52261920 TTAGGGG
1 TTAGGGT
52261927 TTAGGGAT
1 TTAGGG-T
*
52261935 TTAGGGG
1 TTAGGGT
* *
52261942 CTATGAGAT
1 TTA-G-GGT
*
52261951 TTAGGGG
1 TTAGGGT
*
52261958 TTAGGGG
1 TTAGGGT
*
52261965 TTATGGAT
1 TTA-GGGT
52261973 TTAGGGAT
1 TTAGGG-T
*
52261981 TTAGGGG
1 TTAGGGT
*
52261988 CTAGGAGAT
1 TTAGG-G-T
* *
52261997 CTAGGGG
1 TTAGGGT
*
52262004 TTAGGGG
1 TTAGGGT
52262011 TTAGGGAT
1 TTAGGG-T
52262019 TTAGGGT
1 TTAGGGT
52262026 TTAGGGT
1 TTAGGGT
52262033 GTCAATTAAT
Statistics
Matches: 102, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
6 3 0.03
7 61 0.60
8 30 0.29
9 8 0.08
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.33
Consensus pattern (7 bp):
TTAGGGT
Found at i:52265459 original size:29 final size:30
Alignment explanation
Indices: 52265418--52265477 Score: 68
Period size: 33 Copynumber: 1.9 Consensus size: 30
52265408 GATTAGTTTA
*
52265418 TTCGGTTTAATG-TGAATAAATTATCGATT
1 TTCGATTTAATGATGAATAAATTATCGATT
*
52265447 TTCGATTTTATGTCAATGAATAAATTATCGA
1 TTCGATTTAATG---ATGAATAAATTATCGA
52265478 CGTTATATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
33 15 0.60
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
TTCGATTTAATGATGAATAAATTATCGATT
Found at i:52265579 original size:11 final size:11
Alignment explanation
Indices: 52265559--52265591 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
52265549 ATTGATTGAC
*
52265559 TGTCAGTGAAT
1 TGTCAATGAAT
52265570 TGTCAATGAA-
1 TGTCAATGAAT
52265580 TGTCAATGAAT
1 TGTCAATGAAT
52265591 T
1 T
52265592 ATTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (11 bp):
TGTCAATGAAT
Found at i:52265672 original size:13 final size:13
Alignment explanation
Indices: 52265626--52265717 Score: 73
Period size: 13 Copynumber: 6.9 Consensus size: 13
52265616 TATAACTTAC
52265626 ATTACTTAAATAT
1 ATTACTTAAATAT
* *
52265639 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
52265654 -TTACTTAAATAT
1 ATTACTTAAATAT
*
52265666 ATTACTTAAATAC
1 ATTACTTAAATAT
* *
52265679 ATTACTT-ACTAGA
1 ATTACTTAAATA-T
52265692 ATTGGA-TTAAATAT
1 ATT--ACTTAAATAT
52265706 ATTACTTAAATA
1 ATTACTTAAATA
52265718 CATGACTTAC
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
12 8 0.13
13 35 0.56
14 11 0.18
15 8 0.13
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:52265688 original size:40 final size:39
Alignment explanation
Indices: 52265609--52265864 Score: 197
Period size: 40 Copynumber: 6.5 Consensus size: 39
52265599 TATATATTTT
* * * *
52265609 TAAAATTTA-TAACTTACATTACTTAAATATATTAATTAC
1 TAAAATTTATTAA-ATATATTACTTAAATACATTACTTAC
52265648 TAAAATTTACTTAAATATATTACTTAAATACATTACTTAC
1 TAAAATTTA-TTAAATATATTACTTAAATACATTACTTAC
* * *
52265688 TAGAATTGGATTAAATATATTACTTAAATACATGACTTAC
1 TAAAATT-TATTAAATATATTACTTAAATACATTACTTAC
**
52265728 TAAAA-TTA--AAGTATATATTACATTACTTACATTACTTAC
1 TAAAATTTATTAA--ATATATTAC-TTAAATACATTACTTAC
* * *
52265767 TAAAA--TA-T-ATTACATTACTTAAATATATTACTTAC
1 TAAAATTTATTAAATATATTACTTAAATACATTACTTAC
* * * *
52265802 AAAAATTTA-TAACTTACATTACTTAAATATATTACATTAC
1 TAAAATTTATTAA-ATATATTACTTAAATACATTAC-TTAC
* *
52265842 TTAAACTTTATATATATATATTA
1 -TAAAATTTAT-TAAATATATTA
52265865 AAAATTTAGC
Statistics
Matches: 179, Mismatches: 23, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
35 18 0.10
36 9 0.05
37 3 0.02
38 14 0.08
39 51 0.28
40 65 0.36
41 11 0.06
42 6 0.03
43 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (39 bp):
TAAAATTTATTAAATATATTACTTAAATACATTACTTAC
Found at i:52265782 original size:22 final size:21
Alignment explanation
Indices: 52265754--52265844 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 21
52265744 ATTACATTAC
52265754 TTACATTACTTACTAAAATATA
1 TTACATTACTTA-TAAAATATA
52265776 TTACATTAC-T-T-AAATATA
1 TTACATTACTTATAAAATATA
*
52265794 TTAC-TTAC--A-AAAATTTA
1 TTACATTACTTATAAAATATA
* *
52265811 TAAC-TTACATTACTTAAATATA
1 TTACATTAC-TTA-TAAAATATA
52265833 TTACATTACTTA
1 TTACATTACTTA
52265845 AACTTTATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 17 0.30
18 11 0.20
19 1 0.02
20 1 0.02
21 1 0.02
22 21 0.38
23 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (21 bp):
TTACATTACTTATAAAATATA
Found at i:52265807 original size:17 final size:17
Alignment explanation
Indices: 52265758--52265819 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
52265748 CATTACTTAC
*
52265758 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
52265775 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
52265793 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
52265810 ATAACTTACA
1 ATTACTTACA
52265820 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:52265843 original size:18 final size:18
Alignment explanation
Indices: 52265758--52265846 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
52265748 CATTACTTAC
*
52265758 ATTAC-TTACTAAAATAT
1 ATTACATTACTTAAATAT
52265775 ATTACATTACTTAAATAT
1 ATTACATTACTTAAATAT
**
52265793 ATTAC-TTACAAAAATTTAT
1 ATTACATTACTTAAA--TAT
52265812 AACTTACATTACTTAAATAT
1 -A-TTACATTACTTAAATAT
52265832 ATTACATTACTTAAA
1 ATTACATTACTTAAA
52265847 CTTTATATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 12 0.20
18 30 0.49
19 4 0.07
20 4 0.07
21 4 0.07
22 7 0.11
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTACATTACTTAAATAT
Found at i:52265979 original size:27 final size:27
Alignment explanation
Indices: 52265949--52266004 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
52265939 ATAATTGTAA
*
52265949 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTAAAATATTAAAACCTAT
52265976 ATGTTATTTTAAAATATTAAAACCTAT
1 ATGTTATTTTAAAATATTAAAACCTAT
52266003 AT
1 AT
52266005 TTTTAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (27 bp):
ATGTTATTTTAAAATATTAAAACCTAT
Found at i:52266071 original size:121 final size:120
Alignment explanation
Indices: 52265946--52266246 Score: 417
Period size: 121 Copynumber: 2.5 Consensus size: 120
52265936 AAAATAATTG
* *
52265946 TAAATGTTAT-TTTTAAATATTAAAACCTATATGTTATTTTAAAATATTAAAACCTATATTTTTA
1 TAAATGTTATATTTTAAA-AAT-AAACCTAAATGTTATTTTAAAATATTAAAACCTATATTTTTA
52266010 ATATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAA
64 ATATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAA
* *** *
52266067 TAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAA
1 TAAATGTTAT-ATTTTAAAAATAAACCTAAATGTTATTTTAAAATATTAAAACCTATATTTTTAA
*
52266132 TATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTAG-AAA
65 TATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATT-GTCAA
* *** * *
52266188 TAAATTTTATAATTTTAAAAATAATTGTAAATGCTATTTTTAAATATTAAAACCTATAT
1 TAAATGTTAT-ATTTTAAAAATAAACCTAAATGTTATTTTAAAATATTAAAACCTATAT
52266247 GTTATTTTTA
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
121 158 0.94
122 3 0.02
123 7 0.04
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (120 bp):
TAAATGTTATATTTTAAAAATAAACCTAAATGTTATTTTAAAATATTAAAACCTATATTTTTAAT
ATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAA
Found at i:52266255 original size:27 final size:27
Alignment explanation
Indices: 52266222--52266273 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
52266212 TTGTAAATGC
52266222 TATTTTTAAATATTAAAACCTATATGT
1 TATTTTTAAATATTAAAACCTATATGT
52266249 TATTTTTAAATATTAAAACCTATAT
1 TATTTTTAAATATTAAAACCTATAT
52266274 TTCTAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (27 bp):
TATTTTTAAATATTAAAACCTATATGT
Found at i:52266359 original size:25 final size:25
Alignment explanation
Indices: 52266330--52266608 Score: 210
Period size: 25 Copynumber: 11.2 Consensus size: 25
52266320 TCAATTTTTA
*
52266330 ATAACTTACATAATACACAACTTAC
1 ATAACTTACATAATACATAACTTAC
* *
52266355 ATAACTTAAATAGAAACGCATAA--TAC
1 ATAACTTACATA-ATA--CATAACTTAC
** *
52266381 ATAACTTTGATAACTAACATTA--TAC
1 ATAACTTACATAA-T-ACATAACTTAC
* *
52266406 ACAACTTACATAATACATTACTTAC
1 ATAACTTACATAATACATAACTTAC
* * *
52266431 TTAACATACATAGCTACATAACTTAC
1 ATAACTTACATA-ATACATAACTTAC
* *
52266457 ATAA-TTACAT-GTACATAACTTAA
1 ATAACTTACATAATACATAACTTAC
**
52266480 ATAACTTACATAATACATAACTTTG
1 ATAACTTACATAATACATAACTTAC
* * *
52266505 ATAACTAACATTATACACAACTTAC
1 ATAACTTACATAATACATAACTTAC
* ** *
52266530 ATAATTTACATGTTACATAACTTAA
1 ATAACTTACATAATACATAACTTAC
**
52266555 ATAACTTACATAATACATAACTTTG
1 ATAACTTACATAATACATAACTTAC
* * * *
52266580 ACAACTAACATTATACACAACTTAC
1 ATAACTTACATAATACATAACTTAC
52266605 ATAA
1 ATAA
52266609 TACATTACTT
Statistics
Matches: 199, Mismatches: 45, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
23 21 0.11
24 7 0.04
25 137 0.69
26 29 0.15
27 1 0.01
28 4 0.02
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATACATAACTTAC
Found at i:52266459 original size:9 final size:9
Alignment explanation
Indices: 52266330--52266688 Score: 143
Period size: 9 Copynumber: 43.0 Consensus size: 9
52266320 TCAATTTTTA
52266330 ATAACTTAC
1 ATAACTTAC
52266339 ATAA--TAC
1 ATAACTTAC
*
52266346 ACAACTTAC
1 ATAACTTAC
*
52266355 ATAACTTAA
1 ATAACTTAC
****
52266364 ATAGAAACGC
1 ATA-ACTTAC
52266374 ATAA--TAC
1 ATAACTTAC
**
52266381 ATAACTTTG
1 ATAACTTAC
*
52266390 ATAACTAAC
1 ATAACTTAC
*
52266399 ATTA--TAC
1 ATAACTTAC
*
52266406 ACAACTTAC
1 ATAACTTAC
52266415 ATAA--TAC
1 ATAACTTAC
*
52266422 ATTACTTAC
1 ATAACTTAC
* *
52266431 TTAACATAC
1 ATAACTTAC
*
52266440 ATAGC-TAC
1 ATAACTTAC
52266448 ATAACTTAC
1 ATAACTTAC
52266457 ATAA-TTAC
1 ATAACTTAC
*
52266465 AT---GTAC
1 ATAACTTAC
*
52266471 ATAACTTAA
1 ATAACTTAC
52266480 ATAACTTAC
1 ATAACTTAC
52266489 ATAA--TAC
1 ATAACTTAC
**
52266496 ATAACTTTG
1 ATAACTTAC
*
52266505 ATAACTAAC
1 ATAACTTAC
*
52266514 ATTA--TAC
1 ATAACTTAC
*
52266521 ACAACTTAC
1 ATAACTTAC
*
52266530 ATAATTTAC
1 ATAACTTAC
*
52266539 AT--GTTAC
1 ATAACTTAC
*
52266546 ATAACTTAA
1 ATAACTTAC
52266555 ATAACTTAC
1 ATAACTTAC
52266564 ATAA--TAC
1 ATAACTTAC
**
52266571 ATAACTTTG
1 ATAACTTAC
* *
52266580 ACAACTAAC
1 ATAACTTAC
*
52266589 ATTA--TAC
1 ATAACTTAC
*
52266596 ACAACTTAC
1 ATAACTTAC
52266605 ATAA--TAC
1 ATAACTTAC
*
52266612 ATTACTTAC
1 ATAACTTAC
52266621 ATAACTTAAAGC
1 ATAACTT--A-C
52266633 ATAA--TA-
1 ATAACTTAC
52266639 ATAACTTAC
1 ATAACTTAC
52266648 ATAA--TAC
1 ATAACTTAC
*
52266655 ACAACTTAC
1 ATAACTTAC
*
52266664 ATAGCTTAC
1 ATAACTTAC
*
52266673 ACAA--TAC
1 ATAACTTAC
52266680 ATAACTTAC
1 ATAACTTAC
52266689 CCGTGCAATT
Statistics
Matches: 249, Mismatches: 66, Indels: 70
0.65 0.17 0.18
Matches are distributed among these distances:
6 9 0.04
7 67 0.27
8 16 0.06
9 146 0.59
10 5 0.02
11 1 0.00
12 5 0.02
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:52266566 original size:75 final size:74
Alignment explanation
Indices: 52266445--52266630 Score: 304
Period size: 75 Copynumber: 2.5 Consensus size: 74
52266435 CATACATAGC
* *
52266445 TACATAACTTACATAATTACATG-TACATAACTTAAATAACTTACATAATACATAACTTTGATAA
1 TACACAACTTACATAATTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGACAA
52266509 CTAACATTA
66 CTAACATTA
52266518 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGACA
1 TACACAACTTACATAA-TTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGACA
52266583 ACTAACATTA
65 ACTAACATTA
*
52266593 TACACAACTTACATAA-TACATTACTTACATAACTTAAA
1 TACACAACTTACATAATTACA-T-GTTACATAACTTAAA
52266631 GCATAATAAT
Statistics
Matches: 106, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
73 19 0.18
74 8 0.08
75 79 0.75
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.33
Consensus pattern (74 bp):
TACACAACTTACATAATTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGACAA
CTAACATTA
Found at i:52272176 original size:66 final size:65
Alignment explanation
Indices: 52272069--52272239 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
52272059 GAGCAAGTTA
* * *
52272069 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAATAAAAG-TATGAAGAACTCCA
52272133 G
65 G
* *
52272134 CTACAACTGAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAATGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAATAAAAGTATGAAGAACTCCA
52272199 G
65 G
* ** * *
52272200 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGG
52272240 CGGTAGCAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAATAAAAGTATGAAGAACTCCAG
Found at i:52272322 original size:21 final size:21
Alignment explanation
Indices: 52272210--52272322 Score: 91
Period size: 21 Copynumber: 5.4 Consensus size: 21
52272200 CAGCAGCTTA
* * * *
52272210 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* * * *
52272231 AAGCAGAGGCGGTAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* *
52272252 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* ** *
52272273 AAGCAGAAGCTAAAGTGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
52272294 AAACAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
52272315 AAGCAGAG
1 AAGCAGAG
52272323 CAGCGTTAAA
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.37, C:0.16, G:0.41, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:52272697 original size:43 final size:43
Alignment explanation
Indices: 52272650--52272805 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 43
52272640 GTTTTTGGTC
*
52272650 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGTGTTTGTAGGG
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGTGTTTGTAGGG
* * *
52272693 AAAGCACCGCTAAAGATTAGGTTCTTTAGTGGTGTTTGT-GGTCG
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGTGTTTGTAGG--G
* * * **
52272737 -AAGCGCCGTTATAGATCAGGGTCTATT-GCGGCATTTG-AGGGG
1 AAAGCGCCGCTAAAGATTAGGGTCT-TTAGCGGTGTTTGTA-GGG
*
52272779 AAAGCGCCGCTAAAGATTAGGTTCTTT
1 AAAGCGCCGCTAAAGATTAGGGTCTTT
52272806 CGTGGCATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 5 0.05
43 81 0.89
44 5 0.05
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.29
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGTGTTTGTAGGG
Found at i:52272780 original size:86 final size:86
Alignment explanation
Indices: 52272631--52272880 Score: 315
Period size: 86 Copynumber: 2.9 Consensus size: 86
52272621 ATCTGCCAAA
* * * *
52272631 TTTAGTGGTGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGTGTTTGTA-GGGA
1 TTTAGTGGTGTTTCTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTG-AGGGGA
52272694 AAGCACCGCTAAAGATTAGGTTC
64 AAGCACCGCTAAAGATTAGGTTC
* * * *
52272717 TTTAGTGGTGTTTGTGGTCGAAGCGCCGTTATAGATCAGGGTCTATTGCGGCATTTGAGGGGAAA
1 TTTAGTGGTGTTTCTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAA
*
52272782 GCGCCGCTAAAGATTAGGTTC
66 GCACCGCTAAAGATTAGGTTC
* ** * ***
52272803 TTTCGTGGCATTTCTGGTCAAAGTGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAAAAAA
1 TTTAGTGGTGTTTCTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAA
*
52272868 ACACCGCTAAAGA
66 GCACCGCTAAAGA
52272881 CCCTGATCTT
Statistics
Matches: 141, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
85 1 0.01
86 138 0.98
87 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (86 bp):
TTTAGTGGTGTTTCTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAA
GCACCGCTAAAGATTAGGTTC
Found at i:52272813 original size:43 final size:43
Alignment explanation
Indices: 52272650--52272861 Score: 144
Period size: 43 Copynumber: 4.9 Consensus size: 43
52272640 GTTTTTGGTC
* **
52272650 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGTGTTTGTA-GGG
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTG-AGGGG
* * * ** * *
52272693 AAAGCACCGCTAAAGATTAGGTTCTTTAGTGGTGTTTGTGGTCG
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTGAGG-GG
* * *
52272737 -AAGCGCCGTTATAGATCAGGGTCTATT-GCGGCATTTGAGGGG
1 AAAGCGCCGCTAAAGATTAGGGTCT-TTAGCGGCATTTGAGGGG
* * * ** **
52272779 AAAGCGCCGCTAAAGATTAGGTTCTTTCGTGGCATTTCTGGTC
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTGAGGGG
* * * *
52272822 AAAGTGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAG
1 AAAGCGCCGCTAAAGATTAGGGTCT-TTAGCGGCATTTGAG
52272862 AAAAAAACAC
Statistics
Matches: 130, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
42 3 0.02
43 122 0.94
44 5 0.04
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTGAGGGG
Found at i:52272934 original size:43 final size:42
Alignment explanation
Indices: 52272864--52272983 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
52272854 CGTTTGAGAA
* * * * *
52272864 AAAAACACCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCCC
1 AAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTC-CAC
* *
52272907 AAAAACGCCGCTAAAGATCAGGGTCTTTAGCAGCGCTTCCAC
1 AAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTCCAC
* * * * *
52272949 TAAAGCGCCGCTAAAGGTCTTAGTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCG
52272984 TTTGTGCTAG
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTCCAC
Found at i:52273151 original size:22 final size:22
Alignment explanation
Indices: 52273123--52273166 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
52273113 CTGCGACACT
*
52273123 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
52273145 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
52273167 TTTTGGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:52274691 original size:15 final size:15
Alignment explanation
Indices: 52274647--52274698 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
52274637 TAATGAGTAC
52274647 TCGTGGTACGTGAGG
1 TCGTGGTACGTGAGG
* *
52274662 TCATGGTA-TTCGAGG
1 TCGTGGTACGT-GAGG
52274677 TCGTGGTACGTGAGG
1 TCGTGGTACGTGAGG
*
52274692 GCGTGGT
1 TCGTGGT
52274699 GGACATCATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (15 bp):
TCGTGGTACGTGAGG
Found at i:52277828 original size:29 final size:29
Alignment explanation
Indices: 52277795--52277963 Score: 221
Period size: 29 Copynumber: 5.8 Consensus size: 29
52277785 AATGGTTAGA
* *
52277795 ACCATCCCTTTTCATATTTGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
52277824 ACCATCCCTTGTCATATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * ***
52277853 ACCAACCCTTTTCATATTCAATGGTCAAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
52277882 ACTATCCCTTTTCATATTCGATGGCCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
52277911 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
52277940 ACCATCTCTTTTCATATTCAATGG
1 ACCATCCCTTTTCATATTCGATGG
52277964 GCATCGATAC
Statistics
Matches: 118, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:52277930 original size:87 final size:87
Alignment explanation
Indices: 52277784--52277963 Score: 270
Period size: 87 Copynumber: 2.1 Consensus size: 87
52277774 GTGTGCTAAG
* * * *
52277784 CAATGGTTAGAACCATCCCTTTTCATATTTGATGGTCATCACCATCCCTTGTCATATTCGATGGT
1 CAATGGTCAAAACCATCCCTTTTCATATTCGATGGCCATCACCATCCCTTGTCATATTCGATGGT
*
52277849 TGTCACCAACCCTTTTCATATT
66 CGTCACCAACCCTTTTCATATT
* * *
52277871 CAATGGTCAAAACTATCCCTTTTCATATTCGATGGCCGTCACCATCCCTTTTCATATTCGATGGT
1 CAATGGTCAAAACCATCCCTTTTCATATTCGATGGCCATCACCATCCCTTGTCATATTCGATGGT
* *
52277936 CGTCACCATCTCTTTTCATATT
66 CGTCACCAACCCTTTTCATATT
52277958 CAATGG
1 CAATGG
52277964 GCATCGATAC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (87 bp):
CAATGGTCAAAACCATCCCTTTTCATATTCGATGGCCATCACCATCCCTTGTCATATTCGATGGT
CGTCACCAACCCTTTTCATATT
Found at i:52279834 original size:43 final size:43
Alignment explanation
Indices: 52279780--52280009 Score: 298
Period size: 43 Copynumber: 5.3 Consensus size: 43
52279770 AAGCGCCAGA
* ** *
52279780 AAAAACACCGCTAAAGACCAATCCCTTTAGCGGCACTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
52279823 AAAAACGCCGCTAAAAACCAAGACCTTTAGCGGCACTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * *
52279866 ACAAACGCCGCTAAAGACCAAGAACTTTAACAGCGCTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
52279909 GAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * *
52279952 ACAAACGCCACTGAAGACCAAGAACTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
52279995 ACAAACGTCGCTAAA
1 AAAAACGCCGCTAAA
52280010 AACATGACTT
Statistics
Matches: 162, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 162 1.00
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
Found at i:52280233 original size:18 final size:18
Alignment explanation
Indices: 52280210--52280268 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
52280200 TTAAAACAAG
52280210 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
52280228 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
52280245 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
52280263 TTACAT
1 TTACAT
52280269 AAGTTCTGTT
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:52284355 original size:16 final size:16
Alignment explanation
Indices: 52284334--52284365 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52284324 AAACAAAGGG
52284334 TTTGAGATGCCTAAAC
1 TTTGAGATGCCTAAAC
52284350 TTTGAGATGCCTAAAC
1 TTTGAGATGCCTAAAC
52284366 AAAGGGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (16 bp):
TTTGAGATGCCTAAAC
Found at i:52284647 original size:21 final size:21
Alignment explanation
Indices: 52284621--52284666 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
52284611 TCTTGGATGT
52284621 GGGAAA-TTAGGGATTTTAGGG
1 GGGAAAGTTAGGGA-TTTAGGG
* *
52284642 GGGAAAGTTGGGGATTTCGGG
1 GGGAAAGTTAGGGATTTAGGG
52284663 GGGA
1 GGGA
52284667 GGGGGGAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.24, C:0.02, G:0.50, T:0.24
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTAGGG
Found at i:52285181 original size:33 final size:33
Alignment explanation
Indices: 52285139--52285209 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
52285129 ATCTAAATCA
* *
52285139 TAAACCCTAACCCGACCCTAAATCCCTAATCCC
1 TAAACCCTAACCCGACCCCAAATCCCTAACCCC
* * *
52285172 TAAACCCTAACTCGACCCCGAATGCCTAACCCC
1 TAAACCCTAACCCGACCCCAAATCCCTAACCCC
52285205 TAAAC
1 TAAAC
52285210 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.44, G:0.06, T:0.17
Consensus pattern (33 bp):
TAAACCCTAACCCGACCCCAAATCCCTAACCCC
Found at i:52285277 original size:116 final size:116
Alignment explanation
Indices: 52284969--52285290 Score: 307
Period size: 116 Copynumber: 2.7 Consensus size: 116
52284959 ATATAAGAAC
* * * * *
52284969 TTATTTAGTATATAAATTAAAAAAATACTAATTAATCTAAACCTTAAACCCTAACCCGACCCCGA
1 TTATTTAATATATAAATTGAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGA--CC--
* * * * * * *
52285034 ATTTCTAAACCCTAAATCACT-AACTCTTAACTCCAAACCCCTAA-CCACTAACCCCTAAACC
62 A----TAAATCCTAAATCCCTAAAC-CCTAACT-C-GACCCCGAATGC-CTAACCCCTAAACA
*
52285095 TTATTTAATATATAAATTGAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGACCCTAA
1 TTATTTAATATATAAATTGAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGACCATAA
52285160 ATCCCT-AATCCCTAAACCCTAACTCGACCCCGAATGCCTAACCCCTAAACA
66 AT-CCTAAATCCCTAAACCCTAACTCGACCCCGAATGCCTAACCCCTAAACA
* *
52285211 TTATTTAATATATAAATT-AAAACACACTAATTAATCTAAATCAT-AA-CTTGATA-CCGAATCC
1 TTATTTAATATATAAATTGAAAAAACACTAATTAATCTAAATCATAAACCCT-A-ACCCG-A-CC
52285272 ATAAATCCTAAATCCCTAA
62 ATAAATCCTAAATCCCTAA
52285291 CTGATCTTAA
Statistics
Matches: 172, Mismatches: 16, Indels: 26
0.80 0.07 0.12
Matches are distributed among these distances:
113 2 0.01
114 6 0.03
115 30 0.17
116 54 0.31
117 2 0.01
118 16 0.09
119 6 0.03
124 2 0.01
126 54 0.31
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (116 bp):
TTATTTAATATATAAATTGAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGACCATAA
ATCCTAAATCCCTAAACCCTAACTCGACCCCGAATGCCTAACCCCTAAACA
Found at i:52286074 original size:18 final size:17
Alignment explanation
Indices: 52286051--52286098 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
52286041 GATTAACTAA
52286051 ATATAAAATTATTTTTGG
1 ATATAAAATTATTTTT-G
52286069 ATATAAAATTATTTTTG
1 ATATAAAATTATTTTTG
*
52286086 TTAATAAAATTAT
1 AT-ATAAAATTAT
52286099 CAATATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
ATATAAAATTATTTTTG
Found at i:52286601 original size:41 final size:41
Alignment explanation
Indices: 52286529--52286770 Score: 340
Period size: 41 Copynumber: 5.9 Consensus size: 41
52286519 AGATTTTATT
* *
52286529 ATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAAGC
* * * * *
52286570 ATTACCGACGCTTTTTCAAAAACGCCACTAAAGGTCCTAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAAGC
* * *
52286611 ATTAGCGGTGCCTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAAGC
* *
52286652 ATTGGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCTCAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAAGC
* *
52286693 ATTAGCGTCGCTTTTTCAAAAACGTCGCTAAAGGCCCAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAAGC
* *
52286734 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAATGCCC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
52286771 CCAAAACTCA
Statistics
Matches: 175, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 175 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCAAGC
Found at i:52286899 original size:40 final size:38
Alignment explanation
Indices: 52286818--52286899 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
52286808 TTTGCGACGC
*
52286818 TTTTCAAAAAACACCGCTAATGCTTATTTTTAGCTGTG
1 TTTTCAAAAAACACCGCTAATGCTTATTTTTAGCTGCG
* *
52286856 TTTTCCAAAAAGCGCCGCTAATGCTTAATTTTTAG-TGGCG
1 TTTT-CAAAAAACACCGCTAATGCTT-ATTTTTAGCT-GCG
52286896 TTTT
1 TTTT
52286900 TTGTCCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.11
39 20 0.53
40 14 0.37
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (38 bp):
TTTTCAAAAAACACCGCTAATGCTTATTTTTAGCTGCG
Found at i:52293971 original size:12 final size:12
Alignment explanation
Indices: 52293956--52293983 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
52293946 GTCTTGAATC
52293956 AAGTCATTCATT
1 AAGTCATTCATT
52293968 AAGTCATTCATT
1 AAGTCATTCATT
52293980 AAGT
1 AAGT
52293984 GTTTTCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (12 bp):
AAGTCATTCATT
Found at i:52294123 original size:12 final size:12
Alignment explanation
Indices: 52293990--52294123 Score: 83
Period size: 12 Copynumber: 10.7 Consensus size: 12
52293980 AAGTGTTTTC
52293990 TTTCATCAAATGTT
1 TTTCATC-AA-GTT
52294004 TTTCATCAAGTT
1 TTTCATCAAGTT
*
52294016 CTTTTATCAAGTT
1 -TTTCATCAAGTT
* *
52294029 TTTAATTACCAATTT
1 TTTCA-T--CAAGTT
* *
52294044 TTTTATTAAGTT
1 TTTCATCAAGTT
*
52294056 TTGCATCAAGTT
1 TTTCATCAAGTT
* *
52294068 CTTT--TTAAGAT
1 -TTTCATCAAGTT
*
52294079 TTTCGTCAAGTCT
1 TTTCATCAAGT-T
52294092 TTTCATCAAGTT
1 TTTCATCAAGTT
*
52294104 TTCCATCAAGTT
1 TTTCATCAAGTT
*
52294116 TTTAATCA
1 TTTCATCA
52294124 TTAAGTTTTT
Statistics
Matches: 94, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
10 3 0.03
11 5 0.05
12 42 0.45
13 27 0.29
14 8 0.09
15 9 0.10
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (12 bp):
TTTCATCAAGTT
Found at i:52294946 original size:22 final size:20
Alignment explanation
Indices: 52294895--52294948 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
52294885 AAAGCTGAGC
*
52294895 TTATTTTAATTAATTTTTCT
1 TTATTTTATTTAATTTTTCT
*
52294915 TTATATTTATTTAAATTTTTTT
1 TTAT-TTTATTT-AATTTTTCT
52294937 ATTATTTTATTT
1 -TTATTTTATTT
52294949 TTAGCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 15 0.52
23 4 0.14
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTATTTAATTTTTCT
Found at i:52303052 original size:62 final size:62
Alignment explanation
Indices: 52302954--52303088 Score: 153
Period size: 62 Copynumber: 2.2 Consensus size: 62
52302944 TATCTAAACT
* * * * * ** ** *
52302954 TGACACTTTTTTTTTTAATTTGGTACTTGAAGTTTTTTTTTTTTGAATTTGATACTTGAACA
1 TGACACTTTTTTTCTTAATTTGGCACCTAAACTTTTTTTTGGTCAAAATTGATACTTGAACA
* * *
52303016 TGACACTTTTTTTCTTGATTTGGCACCTAAACTTTTTTTTGGTCAAAATTGGTACTTGAACT
1 TGACACTTTTTTTCTTAATTTGGCACCTAAACTTTTTTTTGGTCAAAATTGATACTTGAACA
52303078 TGACACTTTTT
1 TGACACTTTTT
52303089 CCTAATTTTG
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.52
Consensus pattern (62 bp):
TGACACTTTTTTTCTTAATTTGGCACCTAAACTTTTTTTTGGTCAAAATTGATACTTGAACA
Found at i:52314723 original size:5 final size:5
Alignment explanation
Indices: 52314713--52314737 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
52314703 ATTCAACCAA
52314713 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
52314738 GTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:52316258 original size:30 final size:30
Alignment explanation
Indices: 52316222--52316336 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
52316212 ATCCATATTT
* *
52316222 ATAGAAAATCAAAGATATGAGTATCAAATA
1 ATAGAAAGTCAAAGATATGGGTATCAAATA
52316252 ATAGAAAGTCAAAGATATGGGTATCAAATA
1 ATAGAAAGTCAAAGATATGGGTATCAAATA
*
52316282 TTAGAAAGTCAAAGATATGGGTATCAAATA
1 ATAGAAAGTCAAAGATATGGGTATCAAATA
* *
52316312 TTGGAAAGTCAAAGATATGGGTATC
1 ATAGAAAGTCAAAGATATGGGTATC
52316337 GAGATATTAG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (30 bp):
ATAGAAAGTCAAAGATATGGGTATCAAATA
Found at i:52320935 original size:15 final size:15
Alignment explanation
Indices: 52320915--52321022 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
52320905 TTTATGGAAA
52320915 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
52320930 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
*
52320944 AGTCAAAGATATAGGT
1 A-TCAAAGATATGGGT
* * **
52320960 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
52320974 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
52320990 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
52321004 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
52321020 ATC
1 ATC
52321023 GAGATATTAG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:52320952 original size:30 final size:30
Alignment explanation
Indices: 52320911--52321032 Score: 190
Period size: 30 Copynumber: 4.0 Consensus size: 30
52320901 CATATTTATG
* *
52320911 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
52320941 GAAAGTCAAAGATATAGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
52320971 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
52321001 GAAAGTCAAAGATATGGGTATCGAGATATTA
1 GAAAGTCAAAGATATGGGTATC-AAATATTA
52321032 G
1 G
52321033 CATAATAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 77 0.92
31 7 0.08
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATATTA
Found at i:52322768 original size:5 final size:5
Alignment explanation
Indices: 52322755--52322878 Score: 203
Period size: 5 Copynumber: 24.8 Consensus size: 5
52322745 GATATATTTT
* * ** *
52322755 TATCA TAACA TAACA TATTG TACCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
52322805 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
52322855 TATCA TATCA TATCA TATCA TATC
1 TATCA TATCA TATCA TATCA TATC
52322879 GTAACATACC
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 111 1.00
ACGTcount: A:0.40, C:0.20, G:0.01, T:0.39
Consensus pattern (5 bp):
TATCA
Found at i:52324168 original size:16 final size:17
Alignment explanation
Indices: 52324133--52324178 Score: 67
Period size: 16 Copynumber: 2.7 Consensus size: 17
52324123 AAACTCAAAG
*
52324133 AAAGAAGAAAGAATAGCA
1 AAAGATGAAA-AATAGCA
52324151 AAAGATGAAAAA-AGCA
1 AAAGATGAAAAATAGCA
52324167 AAAGATGAAAAA
1 AAAGATGAAAAA
52324179 GAAAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 16 0.59
17 2 0.07
18 9 0.33
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (17 bp):
AAAGATGAAAAATAGCA
Found at i:52336761 original size:16 final size:16
Alignment explanation
Indices: 52336722--52336763 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
52336712 AAATTTAACC
52336722 CTTATTTTTTTCAGTA
1 CTTATTTTTTTCAGTA
*
52336738 C-TAATTTTTTCTA-TA
1 CTTATTTTTTTC-AGTA
52336753 CTTATTTTTTT
1 CTTATTTTTTT
52336764 AATTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (16 bp):
CTTATTTTTTTCAGTA
Found at i:52354992 original size:18 final size:18
Alignment explanation
Indices: 52354957--52354997 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
52354947 ATATTACAAA
52354957 ATAAATTCAAAATAATTT
1 ATAAATTCAAAATAATTT
*
52354975 TTAAATTTCAAAAT-ATTT
1 ATAAA-TTCAAAATAATTT
52354993 ATAAA
1 ATAAA
52354998 AATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAATTCAAAATAATTT
Found at i:52362896 original size:12 final size:12
Alignment explanation
Indices: 52362879--52362914 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
52362869 ATAGGTTTCA
52362879 GAAAATGGAAAT
1 GAAAATGGAAAT
**
52362891 GAAAATAAAAAT
1 GAAAATGGAAAT
52362903 GAAAATGGAAAT
1 GAAAATGGAAAT
52362915 AATCCATTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (12 bp):
GAAAATGGAAAT
Found at i:52362903 original size:18 final size:18
Alignment explanation
Indices: 52362880--52362916 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
52362870 TAGGTTTCAG
*
52362880 AAAATGGAAATGAAAATA
1 AAAATGAAAATGAAAATA
*
52362898 AAAATGAAAATGGAAATA
1 AAAATGAAAATGAAAATA
52362916 A
1 A
52362917 TCCATTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATGAAAATA
Found at i:52363094 original size:25 final size:26
Alignment explanation
Indices: 52363060--52363120 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
52363050 ACATATTTTC
*
52363060 TCAAAATTTT-CTAGAGGAAAAATCA
1 TCAAAATTTTACCAGAGGAAAAATCA
* *
52363085 TCAAAATTTTACCAGAGGTAAAATCG
1 TCAAAATTTTACCAGAGGAAAAATCA
*
52363111 TCAAATTTTT
1 TCAAAATTTT
52363121 GCTAAGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACCAGAGGAAAAATCA
Found at i:52376341 original size:12 final size:12
Alignment explanation
Indices: 52376324--52376359 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
52376314 ATAGGTTTCA
52376324 GAAAATGGAAAT
1 GAAAATGGAAAT
**
52376336 GAAAATAAAAAT
1 GAAAATGGAAAT
52376348 GAAAATGGAAAT
1 GAAAATGGAAAT
52376360 AATCCATTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (12 bp):
GAAAATGGAAAT
Found at i:52376348 original size:18 final size:18
Alignment explanation
Indices: 52376325--52376361 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
52376315 TAGGTTTCAG
*
52376325 AAAATGGAAATGAAAATA
1 AAAATGAAAATGAAAATA
*
52376343 AAAATGAAAATGGAAATA
1 AAAATGAAAATGAAAATA
52376361 A
1 A
52376362 TCCATTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATGAAAATA
Found at i:52376537 original size:25 final size:26
Alignment explanation
Indices: 52376503--52376563 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
52376493 ACATATTTTC
*
52376503 TCAAAATTTT-CTAGAGGAAAAATCA
1 TCAAAATTTTACCAGAGGAAAAATCA
* *
52376528 TCAAAATTTTACCAGAGGTAAAATCG
1 TCAAAATTTTACCAGAGGAAAAATCA
*
52376554 TCAAATTTTT
1 TCAAAATTTT
52376564 GCTAAGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACCAGAGGAAAAATCA
Found at i:52378172 original size:27 final size:27
Alignment explanation
Indices: 52378121--52378173 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
52378111 TCCTAGTTTC
*
52378121 TTTTATAGTAAAATCATCGTCACTTTA
1 TTTTATAGTAAAATCATCATCACTTTA
* *
52378148 TTTTATAGTAAAATCGTCATTACTTT
1 TTTTATAGTAAAATCATCATCACTTT
52378174 GACGGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (27 bp):
TTTTATAGTAAAATCATCATCACTTTA
Found at i:52378219 original size:16 final size:18
Alignment explanation
Indices: 52378192--52378224 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
52378182 TAGAACTAAG
52378192 TTGAGAAAATT-ATTTAC
1 TTGAGAAAATTAATTTAC
52378209 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
52378225 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAC
Found at i:52380553 original size:57 final size:55
Alignment explanation
Indices: 52380484--52380591 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 55
52380474 AAATAGGAGA
*
52380484 CATTTGGAAATGATTAAGGTTTTATCCAAAATGAAAATGAAAATGTAGAAATGAAAT
1 CATTTGGAAATGAATAAGGTTTTATCCAAAATGAAAATGAAAA--TAGAAATGAAAT
** * * *
52380541 CATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAGATGGAAATAGAAATG
1 CATTTGGAAATGAATAAGGTTTTATCCAAAATGAAAATGAAAATAGAAATG
52380592 GGAATGAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 8 0.18
57 37 0.82
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (55 bp):
CATTTGGAAATGAATAAGGTTTTATCCAAAATGAAAATGAAAATAGAAATGAAAT
Found at i:52380617 original size:7 final size:7
Alignment explanation
Indices: 52380605--52380630 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
52380595 ATGAAAATGA
52380605 AAATGCG
1 AAATGCG
52380612 AAATGCG
1 AAATGCG
52380619 AAATGCG
1 AAATGCG
52380626 AAATG
1 AAATG
52380631 AACAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.27, T:0.15
Consensus pattern (7 bp):
AAATGCG
Found at i:52385096 original size:10 final size:10
Alignment explanation
Indices: 52385065--52385098 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
52385055 GTGACCCCTA
52385065 TTTCTAAAAT
1 TTTCTAAAAT
*
52385075 TTT-TAAATT
1 TTTCTAAAAT
52385084 TTTCTAAAAT
1 TTTCTAAAAT
52385094 TTTCT
1 TTTCT
52385099 GTTTTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTAAAAT
Done.