Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 85 of 91
Found at i:19212332 original size:2 final size:2
Alignment explanation
Indices: 19212317--19212414 Score: 61
Period size: 2 Copynumber: 52.5 Consensus size: 2
19212307 ATTATTATTT
* *
19212317 TA TA TA AA TCA TA TA TA TA TA TA TA TA TA T- TA -A TA T- TA TT
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
19212357 TA TA -A TA T- TA TCA TA T- TA TT TA T- TA TA TA GA AA TA T- TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
19212395 TA TA TA TA TA T- TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA T
19212415 TATTTTAGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
1 9 0.12
2 61 0.82
3 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19212384 original size:42 final size:42
Alignment explanation
Indices: 19212324--19212419 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 42
19212314 TTTTATATAA
* ** *
19212324 ATCATATATATATATATATATATTAATATTATTTATA-ATATT
1 ATCATAT-TATTTATATATATAGAAATATTATATATATATATT
19212366 ATCATATTATTTAT-TATATAGAAATATTATATATATATATT
1 ATCATATTATTTATATATATAGAAATATTATATATATATATT
*
19212407 ATAAATATTATTT
1 AT-CATATTATTT
19212420 TAGTTTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 18 0.38
41 13 0.28
42 16 0.34
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (42 bp):
ATCATATTATTTATATATATAGAAATATTATATATATATATT
Found at i:19215086 original size:20 final size:20
Alignment explanation
Indices: 19215043--19215086 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
19215033 TTGTTTCATT
* *
19215043 TGCATCTTTGCATTTGCATG
1 TGCATCTTTGCATTAGCATA
*
19215063 TGCATCTTTGCATTAGTATA
1 TGCATCTTTGCATTAGCATA
19215083 TGCA
1 TGCA
19215087 CATTGTACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (20 bp):
TGCATCTTTGCATTAGCATA
Found at i:19216382 original size:20 final size:19
Alignment explanation
Indices: 19216357--19216400 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
19216347 GCAAAACAAA
*
19216357 AAAAAAT-ATAGAAAAGAAAG
1 AAAAAATGA-AGAAAA-AAAC
19216377 AAAAAATGAAGAAAAAAAC
1 AAAAAATGAAGAAAAAAAC
19216396 AAAAA
1 AAAAA
19216401 GAGAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 13 0.59
21 1 0.05
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (19 bp):
AAAAAATGAAGAAAAAAAC
Found at i:19216415 original size:16 final size:17
Alignment explanation
Indices: 19216354--19216430 Score: 72
Period size: 16 Copynumber: 4.6 Consensus size: 17
19216344 TCAGCAAAAC
*
19216354 AAAAAA-AAATAT-AGA
1 AAAAAAGAAAAATGAGA
19216369 AAAGAAAGAAAAAATGAAGA
1 AAA-AAAG-AAAAATG-AGA
*
19216389 AAAAAACAAAAA-GAGA
1 AAAAAAGAAAAATGAGA
*
19216405 AAAAATGAAAAATGA-A
1 AAAAAAGAAAAATGAGA
19216421 AAAAAAGAAA
1 AAAAAAGAAA
19216431 CAAAGAAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
15 3 0.06
16 26 0.51
17 3 0.06
18 10 0.20
19 3 0.06
20 6 0.12
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAAAAGAAAAATGAGA
Found at i:19216423 original size:24 final size:24
Alignment explanation
Indices: 19216366--19216446 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 24
19216356 AAAAAAATAT
*
19216366 AGAAAAGAAAGAAA-AAATGAAGAA
1 AGAAAAAAAAGAAACAAA-GAAGAA
* *
19216390 AAAAACAAAAAGAGAAAAAATGAA-AA
1 AGAAA-AAAAAGA-AACAAA-GAAGAA
19216416 ATGAAAAAAAAGAAACAAAGAAGAA
1 A-GAAAAAAAAGAAACAAAGAAGAA
19216441 AGAAAA
1 AGAAAA
19216447 CCGATCAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
24 12 0.25
25 14 0.29
26 12 0.25
27 10 0.21
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (24 bp):
AGAAAAAAAAGAAACAAAGAAGAA
Found at i:19216634 original size:25 final size:25
Alignment explanation
Indices: 19216606--19216655 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
19216596 TTTATGGTGC
19216606 GATTTAAATTTACACAAAATGGGAA
1 GATTTAAATTTACACAAAATGGGAA
*** *
19216631 GATTTGTTTTTACACAGAATGGGAA
1 GATTTAAATTTACACAAAATGGGAA
19216656 AAATGAGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (25 bp):
GATTTAAATTTACACAAAATGGGAA
Found at i:19218719 original size:43 final size:43
Alignment explanation
Indices: 19218665--19218752 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
19218655 CCTGCATCAC
19218665 TGGTTTTCCTTGTCTCGGAATGAATTCAAATCGACATGCATGG
1 TGGTTTTCCTTGTCTCGGAATGAATTCAAATCGACATGCATGG
19218708 TGGTTTTCCTTGTCTCGGAATGAATTCAAATCGACATGCATGG
1 TGGTTTTCCTTGTCTCGGAATGAATTCAAATCGACATGCATGG
19218751 TG
1 TG
19218753 CTCCATTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (43 bp):
TGGTTTTCCTTGTCTCGGAATGAATTCAAATCGACATGCATGG
Found at i:19222085 original size:23 final size:23
Alignment explanation
Indices: 19222055--19222107 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
19222045 TATTCGTGTA
*
19222055 CATTATACGCGACACTAGCTGTG
1 CATTATACGCGACACTAGATGTG
* * *
19222078 CATTATACGTGGCACTATATGTG
1 CATTATACGCGACACTAGATGTG
19222101 CATTATA
1 CATTATA
19222108 AGAGTTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (23 bp):
CATTATACGCGACACTAGATGTG
Found at i:19229724 original size:11 final size:11
Alignment explanation
Indices: 19229710--19229740 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
19229700 TGCACTACAT
19229710 GTGCATTATAC
1 GTGCATTATAC
*
19229721 GTGCATTATAT
1 GTGCATTATAC
19229732 GTGCATTAT
1 GTGCATTAT
19229741 GAGAATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (11 bp):
GTGCATTATAC
Found at i:19240300 original size:65 final size:64
Alignment explanation
Indices: 19240225--19240360 Score: 175
Period size: 65 Copynumber: 2.1 Consensus size: 64
19240215 ACACTAATTA
* * * * *
19240225 CATTCGATGTTTCAA-ACAAGCTAGGAGTGCATCGTTGCATGGTCTGTGCATCGATGCATAAAAT
1 CATTTGATGTTTCAATAAAAGCCA-GAGTGCATCGATGCATGG-CTATGCATCGATGCATAAAAT
19240289 G
64 G
* * *
19240290 CATTTGATGTTTCAATAAAATCCATAGTGCATCGATGCATGGCTATGCATCGGTGCATAAAATG
1 CATTTGATGTTTCAATAAAAGCCAGAGTGCATCGATGCATGGCTATGCATCGATGCATAAAATG
19240354 CATTTGA
1 CATTTGA
19240361 AATGGGGTGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 27 0.44
65 30 0.48
66 5 0.08
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (64 bp):
CATTTGATGTTTCAATAAAAGCCAGAGTGCATCGATGCATGGCTATGCATCGATGCATAAAATG
Found at i:19241079 original size:16 final size:16
Alignment explanation
Indices: 19241055--19241089 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19241045 CAAATTCAAG
19241055 CATAACAATCCAAAAA
1 CATAACAATCCAAAAA
* *
19241071 CATATCAATCCAACAA
1 CATAACAATCCAAAAA
19241087 CAT
1 CAT
19241090 CAAAGTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (16 bp):
CATAACAATCCAAAAA
Found at i:19242773 original size:23 final size:22
Alignment explanation
Indices: 19242729--19242825 Score: 92
Period size: 23 Copynumber: 4.5 Consensus size: 22
19242719 CGACGAGTGT
* *
19242729 ATCGATGCACAGT--AGAGTGC
1 ATCGATGCACATTCAAGGGTGC
*
19242749 ATCGATGCATATTCAAGGAGTGC
1 ATCGATGCACATTCAAGG-GTGC
* * * *
19242772 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAAGGGTGC
19242793 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACATTCAAGGG-TGC
19242816 ATCGATGCAC
1 ATCGATGCAC
19242826 TGCCTTGTGT
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.18
21 15 0.25
22 7 0.12
23 27 0.45
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGGTGC
Found at i:19242801 original size:21 final size:21
Alignment explanation
Indices: 19242772--19242844 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
19242762 CAAGGAGTGC
*
19242772 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTCATGGTGT
* * *
19242793 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACCTTC-ATGG-TGT
* * *
19242816 ATCGATGCA-CTGCCTTGTGT
1 ATCGATGCACCTTCATGGTGT
19242836 ATCGATGCA
1 ATCGATGCA
19242845 TTATGCATAA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
20 11 0.28
21 13 0.32
22 5 0.12
23 11 0.28
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (21 bp):
ATCGATGCACCTTCATGGTGT
Found at i:19242807 original size:44 final size:43
Alignment explanation
Indices: 19242749--19242844 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 43
19242739 AGTAGAGTGC
* * *
19242749 ATCGATGCATATTCAA-GGAGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGGA-TGCATCGATGCA-CTGCATGGTGT
* *
19242793 ATCGATGCACATTCAAGGGATGCATCGATGCACTGCCTTGTGT
1 ATCGATGCACATTCAAGGGATGCATCGATGCACTGCATGGTGT
19242836 ATCGATGCA
1 ATCGATGCA
19242845 TTATGCATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 17 0.37
44 26 0.57
45 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (43 bp):
ATCGATGCACATTCAAGGGATGCATCGATGCACTGCATGGTGT
Found at i:19244717 original size:22 final size:22
Alignment explanation
Indices: 19244655--19244736 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
19244645 GAGTCGAGGG
*
19244655 TATAGTAGTCCTTTGGGACGTA
1 TATAGTAGTCCTTCGGGACGTA
** * *
19244677 TCCAGTAGTCCTACAGGACGTA
1 TATAGTAGTCCTTCGGGACGTA
*
19244699 TATAGTGGTCCTTCGGGAC--A
1 TATAGTAGTCCTTCGGGACGTA
19244719 TA-A-TAGTCCTTCGGGACG
1 TATAGTAGTCCTTCGGGACG
19244737 AATACTGAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
18 13 0.27
19 1 0.02
20 3 0.06
22 31 0.65
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (22 bp):
TATAGTAGTCCTTCGGGACGTA
Found at i:19248580 original size:21 final size:20
Alignment explanation
Indices: 19248554--19248604 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
19248544 GAGATTATTT
*
19248554 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTT-AAAAA
**
19248575 TCATTTTTGTATTTTAAAAA
1 TCATTTTTCAATTTTAAAAA
*
19248595 TAATTTTTCA
1 TCATTTTTCA
19248605 TAATCCGAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (20 bp):
TCATTTTTCAATTTTAAAAA
Found at i:19250618 original size:65 final size:64
Alignment explanation
Indices: 19250549--19250684 Score: 202
Period size: 65 Copynumber: 2.1 Consensus size: 64
19250539 ACACTAATTA
* * *
19250549 CATTCGATGTTTTAA-ACAAGCCAGGAGTGCATCGATGCATGGTCTGTGCATCGGTGCATAAAAT
1 CATTCGATGTTTCAATAAAAGCCA-GAGTGCATCGATGCATAGT-TGTGCATCGGTGCATAAAAT
19250613 G
64 G
**
19250614 CATTCGATGTTTCAATAAAATTCAGAGTGCATCGATGCATAGTTGTGCATCGGTGCATAAAATG
1 CATTCGATGTTTCAATAAAAGCCAGAGTGCATCGATGCATAGTTGTGCATCGGTGCATAAAATG
19250678 CATTCGA
1 CATTCGA
19250685 AATGTGGTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 28 0.43
65 32 0.49
66 5 0.08
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (64 bp):
CATTCGATGTTTCAATAAAAGCCAGAGTGCATCGATGCATAGTTGTGCATCGGTGCATAAAATG
Found at i:19254633 original size:56 final size:56
Alignment explanation
Indices: 19254573--19254679 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
19254563 TACACACACT
** * *
19254573 AATGTAAGGCTCAAAAATTAAAATGAGTTTAATATTTTTATTCTTAAATTATAGTG
1 AATGTAAAACTCAAAAATAAAAATAAGTTTAATATTTTTATTCTTAAATTATAGTG
* * *
19254629 AATGTAAAACTTACAAATAAAAATAAGTTTAATATTTTTATTCTTATATTA
1 AATGTAAAACTCAAAAATAAAAATAAGTTTAATATTTTTATTCTTAAATTA
19254680 AACTATTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (56 bp):
AATGTAAAACTCAAAAATAAAAATAAGTTTAATATTTTTATTCTTAAATTATAGTG
Found at i:19255350 original size:17 final size:17
Alignment explanation
Indices: 19255328--19255361 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19255318 TGACTTAGTG
19255328 ATGCATATAAAACATAT
1 ATGCATATAAAACATAT
19255345 ATGCATATAAAACATAT
1 ATGCATATAAAACATAT
19255362 GATGTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
ATGCATATAAAACATAT
Found at i:19255802 original size:30 final size:30
Alignment explanation
Indices: 19255766--19255827 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
19255756 TGTCCCGAAA
19255766 TACCTATCCATATGTCCCGAAGGACATAGG
1 TACCTATCCATATGTCCCGAAGGACATAGG
19255796 TACCTATCCATATGTCCCGAAGGACATAGG
1 TACCTATCCATATGTCCCGAAGGACATAGG
19255826 TA
1 TA
19255828 ACCCTCGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (30 bp):
TACCTATCCATATGTCCCGAAGGACATAGG
Found at i:19256606 original size:17 final size:18
Alignment explanation
Indices: 19256574--19256607 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19256564 TTATAAATAA
*
19256574 TTTTAATATAGTTTTATT
1 TTTTAATATAGATTTATT
19256592 TTTTAATATA-ATTTAT
1 TTTTAATATAGATTTAT
19256608 ATATTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTAATATAGATTTATT
Found at i:19256609 original size:27 final size:28
Alignment explanation
Indices: 19256561--19256625 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
19256551 CCTTACTTAG
*
19256561 ATTTTATAAATAATTTTAATATAGTT-TT
1 ATTTTTTAAATAATTTTAATATA-TTATT
19256589 ATTTTTTAATATAA-TTT-ATATATTATT
1 ATTTTTTAA-ATAATTTTAATATATTATT
*
19256616 ATTATTTAAA
1 ATTTTTTAAA
19256626 AATAATTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 15 0.45
28 11 0.33
29 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTTAAATAATTTTAATATATTATT
Found at i:19257670 original size:30 final size:30
Alignment explanation
Indices: 19257625--19257685 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
19257615 GTCCCAAAGG
19257625 ACCTATCCATATGTCCCGAAGGACATAGGT
1 ACCTATCCATATGTCCCGAAGGACATAGGT
* * *
19257655 ACCTATGCATGTGTCCCGAATGACATAGGT
1 ACCTATCCATATGTCCCGAAGGACATAGGT
19257685 A
1 A
19257686 ACCCTCGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
ACCTATCCATATGTCCCGAAGGACATAGGT
Found at i:19258465 original size:17 final size:18
Alignment explanation
Indices: 19258433--19258466 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19258423 CTATAAATAA
*
19258433 TTTTAATATAGTTTTATT
1 TTTTAATATAGATTTATT
19258451 TTTTAATATA-ATTTAT
1 TTTTAATATAGATTTAT
19258467 ATATTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTAATATAGATTTATT
Found at i:19258490 original size:28 final size:27
Alignment explanation
Indices: 19258427--19258497 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
19258417 TAGATTCTAT
*
19258427 AAATAATTTTAATATAGTTTTATTTTTTA
1 AAATAA-TTT-ATATAGTTTTATTTTTAA
*
19258456 ATATAATTTATATA-TTATTATTATTTAA
1 AAATAATTTATATAGTT-TTATT-TTTAA
*
19258484 AAATAATTCATATA
1 AAATAATTTATATA
19258498 AAAATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.06
27 10 0.28
28 19 0.53
29 5 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
AAATAATTTATATAGTTTTATTTTTAA
Found at i:19259510 original size:30 final size:29
Alignment explanation
Indices: 19259462--19259521 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
19259452 GTCCCGAATG
*
19259462 ACCTATCCATTGTCCCGAAGGACATAGGT
1 ACCTATCCATTATCCCGAAGGACATAGGT
19259491 ACCTATCCATATATCCCGAAGGACATAGGT
1 ACCTATCCAT-TATCCCGAAGGACATAGGT
19259521 A
1 A
19259522 ACCCTCGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (29 bp):
ACCTATCCATTATCCCGAAGGACATAGGT
Found at i:19275570 original size:22 final size:21
Alignment explanation
Indices: 19275497--19275580 Score: 125
Period size: 21 Copynumber: 4.0 Consensus size: 21
19275487 GGCATGTGAT
19275497 ATCTATGTCCCGAAGGACATC
1 ATCTATGTCCCGAAGGACATC
*
19275518 ATCTATGTCCCAAAGGACATC
1 ATCTATGTCCCGAAGGACATC
*
19275539 ATCTATGTCCCGAAGGACCT-
1 ATCTATGTCCCGAAGGACATC
19275559 ATTCATATGTCCCGAAGGACAT
1 A-TC-TATGTCCCGAAGGACAT
19275581 AGATACCTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
20 1 0.02
21 40 0.70
22 16 0.28
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (21 bp):
ATCTATGTCCCGAAGGACATC
Found at i:19275596 original size:30 final size:30
Alignment explanation
Indices: 19275555--19275612 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19275545 GTCCCGAAGG
* *
19275555 ACCTATTCATATGTCCCGAAGGACATAGAT
1 ACCTATCCATATATCCCGAAGGACATAGAT
*
19275585 ACCTATCCATATATCCCGAATGACATAG
1 ACCTATCCATATATCCCGAAGGACATAG
19275613 GTAACCCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (30 bp):
ACCTATCCATATATCCCGAAGGACATAGAT
Found at i:19284468 original size:17 final size:17
Alignment explanation
Indices: 19284446--19284482 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
19284436 ATTTTTATTG
19284446 TTAATAATAATAAT-ATA
1 TTAATAAT-ATAATAATA
19284463 TTAATAATATAATAATA
1 TTAATAATATAATAATA
19284480 TTA
1 TTA
19284483 TTAGTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATAATATAATAATA
Found at i:19284905 original size:114 final size:114
Alignment explanation
Indices: 19284644--19285308 Score: 714
Period size: 114 Copynumber: 5.8 Consensus size: 114
19284634 CTCAGAGAAG
* * * * * * *
19284644 ATTGAATCGAGGTAGATTTGTTCCACTTGCACT-CAGGGAATATCAAATCTTGGAAGATA-AG-G
1 ATTGAATTGGGGTAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTT-GAA-AAAGAGAG
* * * * * *
19284706 ATATGTTATG-TTTCTTCTTGAAGGAAATATCAGATCTGGAAGGAGTTTGATCT
64 ATATGTTCTGCTTAC-TC-TGAAGGGAATATCAGATCT-GAAAGAATTTGATCC
* * *
19284759 ATTTAATTGGGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTCG-AAAATAGAGA
1 ATTGAATTGGGGTAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTT-GAAAAAGAGAGA
* * * * *
19284823 TCTGTTTTGGTTACTCTGAAGGGAATATCAGATCT-AAAGAAGGTTGGTCC
65 TATGTTCTGCTTACTCTGAAGGGAATATCAGATCTGAAAGAA-TTTGATCC
* * ** * * *
19284873 ATTGAATCGAGACATACTTGTTCCACTTACTCTGAATGGAATATCAAATCATGAAAAAGAGAGAT
1 ATTGAATTGGGGTAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGAT
* * *
19284938 ATGTTCCGCTTACTCTGAAGGGAATATCATATCTGAAGGAATTTGATCC
66 ATGTTCTGCTTACTCTGAAGGGAATATCAGATCTGAAAGAATTTGATCC
* *
19284987 ATTGAATTGGGGTAAACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAAAGAGAT
1 ATTGAATTGGGGTAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGAT
* * * * *
19285052 TTTTTCCGCTTATTCTGAAGGGAATATCAGATCTGAAGGAATTTGATCC
66 ATGTTCTGCTTACTCTGAAGGGAATATCAGATCTGAAAGAATTTGATCC
* * **
19285101 ATTGAATTGGGGGAGACTTATTCTGCTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGAT
1 ATTGAATTGGGGTAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGAT
* * * * *
19285166 ATGTTCCGCTTACTCTGATGGGAATACCAAATCT-AAAGGAATTTGATCT
66 ATGTTCTGCTTACTCTGAAGGGAATATCAGATCTGAAA-GAATTTGATCC
* * * ** **
19285215 AATGAATTGGGGTAGACTTGTTTCGCTTACTCTGAAGGGAATATCAAATCTTGGGAAAGAGAGGC
1 ATTGAATTGGGGTAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGAT
*
19285280 CTGTTCTGCTTACTCTGAAGGGAATATCA
66 ATGTTCTGCTTACTCTGAAGGGAATATCA
19285309 TATTTTTGGG
Statistics
Matches: 468, Mismatches: 74, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
113 7 0.01
114 377 0.81
115 52 0.11
116 29 0.06
117 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (114 bp):
ATTGAATTGGGGTAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGAT
ATGTTCTGCTTACTCTGAAGGGAATATCAGATCTGAAAGAATTTGATCC
Found at i:19287143 original size:29 final size:29
Alignment explanation
Indices: 19287101--19287164 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
19287091 CAAAGTCTTT
19287101 GAATTGACAACCACAGTGGAGCAAACACC
1 GAATTGACAACCACAGTGGAGCAAACACC
19287130 GAATTGACAACCACAGTGGAGCAAACACC
1 GAATTGACAACCACAGTGGAGCAAACACC
19287159 GAATTG
1 GAATTG
19287165 CCAAGTACCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.41, C:0.25, G:0.22, T:0.12
Consensus pattern (29 bp):
GAATTGACAACCACAGTGGAGCAAACACC
Found at i:19289637 original size:11 final size:11
Alignment explanation
Indices: 19289621--19289661 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
19289611 GAAAAAGTAA
19289621 ATGCAATGTGG
1 ATGCAATGTGG
19289632 ATGCAATGTGG
1 ATGCAATGTGG
*
19289643 ATGCAATGTGA
1 ATGCAATGTGG
19289654 ATGCAATG
1 ATGCAATG
19289662 CAAGGTGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (11 bp):
ATGCAATGTGG
Found at i:19290549 original size:20 final size:20
Alignment explanation
Indices: 19290524--19290562 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19290514 TTTTCAAGGG
19290524 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
19290544 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
19290563 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:19290631 original size:45 final size:46
Alignment explanation
Indices: 19290582--19290680 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 46
19290572 GAACATCGAA
*
19290582 TGCATTTTCTACATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTTCTACATCGATGCACAAGACCATGCATCGATGCACTCAG
** **
19290627 TGCATTTGATGGATCGATGCACAAGACCATGCATCGATGCACTCAG
1 TGCATTTTCTACATCGATGCACAAGACCATGCATCGATGCACTCAG
*
19290673 -GCTTTTTC
1 TGCATTTTC
19290681 AAAACATCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
45 23 0.51
46 22 0.49
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (46 bp):
TGCATTTTCTACATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:19290731 original size:19 final size:18
Alignment explanation
Indices: 19290691--19290733 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
19290681 AAAACATCGA
*
19290691 ATGCA-TCTTATGCATCG
1 ATGCACTCTTATGCACCG
*
19290708 GTGCACTCTTAGTGCACCG
1 ATGCACTCTTA-TGCACCG
19290727 ATGCACT
1 ATGCACT
19290734 GGGTTTCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (18 bp):
ATGCACTCTTATGCACCG
Found at i:19297618 original size:45 final size:46
Alignment explanation
Indices: 19297569--19297659 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
19297559 GAACATCGAA
* *
19297569 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
*
19297614 TGCATTTGATGCATCGATGCACAAGATCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
19297660 GCTTTTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:19300876 original size:5 final size:5
Alignment explanation
Indices: 19300866--19300894 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
19300856 GTAATAATAA
19300866 AAATT AAATT AAATT AAATT AAATT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAAT
19300895 AATAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:19301427 original size:45 final size:46
Alignment explanation
Indices: 19301378--19301468 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
19301368 GAACATCGAA
*
19301378 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAG
19301423 TGCATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAG
19301469 GATTTTTCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 21 0.48
46 23 0.52
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAATACCATGCATCGATGCACTCAG
Found at i:19301504 original size:18 final size:19
Alignment explanation
Indices: 19301481--19301529 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
19301471 TTTTTCAAAA
19301481 CATCGAATGCA-TCTTA-TG
1 CATCG-ATGCACTCTTAGTG
19301499 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTTAGTG
*
19301518 CACCGATGCACT
1 CATCGATGCACT
19301530 GAGAGTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.18
18 10 0.36
19 13 0.46
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (19 bp):
CATCGATGCACTCTTAGTG
Found at i:19307307 original size:24 final size:24
Alignment explanation
Indices: 19307280--19307360 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
19307270 ACACTTAACA
19307280 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
19307304 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
19307326 -TGCACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
19307348 GTGCATCGATGCA
1 GTGCATCGATGCA
19307361 CGGGGTCGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:19309762 original size:45 final size:46
Alignment explanation
Indices: 19309713--19309804 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 46
19309703 TCAAACATCG
* *
19309713 AATGCATTTTATGCATCGATGCAC-ATACCATACATCGATGCACTC
1 AATGCATTTGATGCATCGATGCACAAGACCATACATCGATGCACTC
* *
19309758 AATGCATTTGATGCATCGATGCACAAGATCATGCATCGATGCACTC
1 AATGCATTTGATGCATCGATGCACAAGACCATACATCGATGCACTC
19309804 A
1 A
19309805 GGCTTTTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 23 0.55
46 19 0.45
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (46 bp):
AATGCATTTGATGCATCGATGCACAAGACCATACATCGATGCACTC
Found at i:19311577 original size:11 final size:11
Alignment explanation
Indices: 19311561--19311611 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
19311551 TTGTTAATAA
19311561 TAATAATATAT
1 TAATAATATAT
*
19311572 TAATAATATAA
1 TAATAATATAT
19311583 TAAT-AT-TA-
1 TAATAATATAT
19311591 TAATAATATTAT
1 TAATAATA-TAT
*
19311603 TAGTAATAT
1 TAATAATAT
19311612 CGAAAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 4 0.12
9 4 0.12
10 2 0.06
11 17 0.50
12 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
TAATAATATAT
Found at i:19312430 original size:15 final size:14
Alignment explanation
Indices: 19312409--19312439 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19312399 TTGTTTTCTT
*
19312409 TTATTTTTTAAATA
1 TTATTTTTTTAATA
19312423 TTATTTTTTTAATA
1 TTATTTTTTTAATA
19312437 TTA
1 TTA
19312440 AATTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTTTTTAATA
Found at i:19314497 original size:34 final size:34
Alignment explanation
Indices: 19314424--19314535 Score: 134
Period size: 34 Copynumber: 3.2 Consensus size: 34
19314414 ATTGTTTTCG
* **
19314424 AAACCATATAATATATATTTTCAAAAATTATTTTTA
1 AAACTATATAATATATATTTTCAAAAA-T-TTTCAA
* *
19314460 AAACTATATAATATATATTTTTAAAAATTTTCCA
1 AAACTATATAATATATATTTTCAAAAATTTTCAA
* *
19314494 AAACTATATATTATATATTTTCAAAATGTTTTCAA
1 AAACTATATAATATATATTTTCAAAA-ATTTTCAA
19314529 AAACTAT
1 AAACTAT
19314536 TTTTATATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 28 0.42
35 14 0.21
36 25 0.37
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (34 bp):
AAACTATATAATATATATTTTCAAAAATTTTCAA
Found at i:19314545 original size:36 final size:35
Alignment explanation
Indices: 19314434--19314547 Score: 106
Period size: 34 Copynumber: 3.2 Consensus size: 35
19314424 AAACCATATA
** * *
19314434 ATATATATTTTCAAAAATTATTTTTAAAACTA-TATA
1 ATATATATTTTC-AAAATT-TTTCAAAAACTATTTTT
* * * * *
19314470 ATATATATTTTTAAAAATTTTCCAAAACTATATAT
1 ATATATATTTTCAAAATTTTTCAAAAACTATTTTT
19314505 -TATATATTTTCAAAATGTTTTCAAAAACTATTTTT
1 ATATATATTTTCAAAAT-TTTTCAAAAACTATTTTT
19314540 ATATATAT
1 ATATATAT
19314548 ATATATATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
34 24 0.39
35 20 0.32
36 18 0.29
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.48
Consensus pattern (35 bp):
ATATATATTTTCAAAATTTTTCAAAAACTATTTTT
Found at i:19314546 original size:2 final size:2
Alignment explanation
Indices: 19314539--19314563 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19314529 AAACTATTTT
19314539 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
19314564 GTTTTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19314571 original size:54 final size:51
Alignment explanation
Indices: 19314498--19314601 Score: 145
Period size: 54 Copynumber: 2.0 Consensus size: 51
19314488 TTTCCAAAAC
* * *
19314498 TATATATTATATATTTTCAAAATGTTTTCAAAAACTATTTTTATATATATATA
1 TATATATTATATATTTTCAAAATGCTTTC-AAAACTA-TATAATATATATATA
*
19314551 TATATATATATATGTTTTCAAAATGCTTTCAAAACTATATAATATATATAT
1 TATATAT-TATATATTTTCAAAATGCTTTCAAAACTATATAATATATATAT
19314602 TCTCGAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
52 12 0.26
53 14 0.30
54 20 0.43
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (51 bp):
TATATATTATATATTTTCAAAATGCTTTCAAAACTATATAATATATATATA
Found at i:19314597 original size:36 final size:38
Alignment explanation
Indices: 19314549--19314640 Score: 125
Period size: 38 Copynumber: 2.4 Consensus size: 38
19314539 TATATATATA
* * *
19314549 TATATATATATATATGTTTTC-AAAA-TGCTTTCAAAAC
1 TATATA-ATATATATATTCTCGAAAACCGCTTTCAAAAC
*
19314586 TATATAATATATATATTCTCGAAAACCGTTTTCAAAAC
1 TATATAATATATATATTCTCGAAAACCGCTTTCAAAAC
19314624 TATATAATATATATATT
1 TATATAATATATATATT
19314641 GTATGTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 12 0.24
37 10 0.20
38 27 0.55
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (38 bp):
TATATAATATATATATTCTCGAAAACCGCTTTCAAAAC
Found at i:19314675 original size:124 final size:120
Alignment explanation
Indices: 19314459--19314682 Score: 258
Period size: 124 Copynumber: 1.8 Consensus size: 120
19314449 AATTATTTTT
* * *
19314459 AAAACTATATAATATATATTTTTAAAAATTTTCCAAAACTATATATTATATATTTTCAAAATGTT
1 AAAACTATATAATATATATTTTGAAAAATTTTCCAAAACTATATAATATATATATT-AAAATGTT
* *
19314524 TTCAAAAACTATTTTTATATATATATATATATATATATATGTTTTCAAAATGCTTTC
65 TTCAAAAACCATTTTTATATAAATATATAT-TATATATATGTTTTCAAAATGCTTTC
* **
19314581 AAAACTATATAATATATATATTCTCGAAAACCGTTTT-CAAAACTATATAATATATATATT-GTA
1 AAAACTATATAATATATAT-TT-T-GAAAA--ATTTTCCAAAACTATATAATATATATATTAAAA
*
19314644 TGTTTTTAAAAACCATTTTCTA-A-AAACTATATATTATAT
61 TGTTTTCAAAAACCATTTT-TATATAAA-TATATATTATAT
19314683 TTTTCAAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
122 19 0.22
123 9 0.10
124 27 0.31
125 6 0.07
126 21 0.24
127 4 0.05
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.44
Consensus pattern (120 bp):
AAAACTATATAATATATATTTTGAAAAATTTTCCAAAACTATATAATATATATATTAAAATGTTT
TCAAAAACCATTTTTATATAAATATATATTATATATATGTTTTCAAAATGCTTTC
Found at i:19314702 original size:21 final size:24
Alignment explanation
Indices: 19314659--19314704 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
19314649 TTAAAAACCA
*
19314659 TTTTCTAAAAACTATATATTATAT
1 TTTTCTAAAAACTATATACTATAT
19314683 TTTTC-AAAAA-T-TATACTATAT
1 TTTTCTAAAAACTATATACTATAT
19314704 T
1 T
19314705 AACATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 5 0.24
24 5 0.24
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTTCTAAAAACTATATACTATAT
Found at i:19315388 original size:85 final size:85
Alignment explanation
Indices: 19315245--19315739 Score: 765
Period size: 85 Copynumber: 5.8 Consensus size: 85
19315235 CTCACTGTCA
* * *
19315245 TTGAGCTGAATGGAATCGAACTCAAAGGTTTTTGTTGACAGTTAACCCTTCTCGCCTTGAGCTAT
1 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
19315310 GCTGTAAATTTGATATGCCC
66 GCTGTAAATTTGATATGCCC
* * * * * *
19315330 TTGAGTTGAATGTAATCTAATTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGATAT
1 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
19315395 GCTGTAAATTTGATATGCCC
66 GCTGTAAATTTGATATGCCC
* * *
19315415 TTGAGCTAAAATGGAATCCAACTCAAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTA
1 TTGAGCT-GAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTA
* *
19315480 TGTTGTAAATTTGATATGACC
65 TGCTGTAAATTTGATATGCCC
* * * * *
19315501 TTGAGCTGAATGTAATCGAACTCGAAGGTTCTTGTTGACATATAGCCTTTCTCTCCTTGAGCTAT
1 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
*
19315566 GCTGTATATTTGATATGCCC
66 GCTGTAAATTTGATATGCCC
* *
19315586 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGTTAT
1 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
*
19315651 GTTGTAAATTTGATATGCCC
66 GCTGTAAATTTGATATGCCC
*
19315671 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTATTGACAGATAGCCCTTCTCGCCTTGAGCTAT
1 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
19315736 GCTG
66 GCTG
19315740 CGAACAGTTT
Statistics
Matches: 368, Mismatches: 41, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
85 292 0.79
86 76 0.21
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (85 bp):
TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
GCTGTAAATTTGATATGCCC
Found at i:19315538 original size:171 final size:170
Alignment explanation
Indices: 19315245--19315739 Score: 792
Period size: 171 Copynumber: 2.9 Consensus size: 170
19315235 CTCACTGTCA
* *
19315245 TTGAGCTGAATGGAATCGAACTCAAAGGTTTTTGTTGACAGTTAACCCTTCTCGCCTTGAGCTAT
1 TTGAGCTGAATGGAATCGAACTCAAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
* * * * *
19315310 GCTGTAAATTTGATATGCCCTTGAGTTGAATGTAATCTAATTCGAAGGTTTTTGTTGACAGATAA
66 GTTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAG
*
19315375 CCCTTCTCGCCTTGAGATATGCTGTAAATTTGATATGCCC
131 CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCC
* *
19315415 TTGAGCTAAAATGGAATCCAACTCAAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTA
1 TTGAGCT-GAATGGAATCGAACTCAAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTA
* * *
19315480 TGTTGTAAATTTGATATGACCTTGAGCTGAATGTAATCGAACTCGAAGGTTCTTGTTGACATATA
65 TGTTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATA
* * *
19315545 GCCTTTCTCTCCTTGAGCTATGCTGTATATTTGATATGCCC
130 GCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCC
* * *
19315586 TTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGCCTTGAGTTAT
1 TTGAGCTGAATGGAATCGAACTCAAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
* *
19315651 GTTGTAAATTTGATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTATTGACAGATAG
66 GTTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAG
19315716 CCCTTCTCGCCTTGAGCTATGCTG
131 CCCTTCTCGCCTTGAGCTATGCTG
19315740 CGAACAGTTT
Statistics
Matches: 296, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
170 142 0.48
171 154 0.52
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (170 bp):
TTGAGCTGAATGGAATCGAACTCAAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
GTTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAG
CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCC
Found at i:19322043 original size:37 final size:36
Alignment explanation
Indices: 19321996--19322148 Score: 118
Period size: 37 Copynumber: 4.3 Consensus size: 36
19321986 TTAAAATTAT
* *
19321996 ATATTATATATGCTTTCAAAAATTGTTTTCAAAACCC
1 ATATAATATATACTTTCAAAAATTGTTTTCAAAA-CC
* * *
19322033 ATATAATATATATTTTCAAAAATTGTTTTTAAAACT
1 ATATAATATATACTTTCAAAAATTGTTTTCAAAACC
* * * *
19322069 ATATAATATATATTTTTTAAAAA---TTTCCAAAACT
1 ATATAATATATA-CTTTCAAAAATTGTTTTCAAAACC
* * * **
19322103 ATATATTATATATTTTC-AAAA-TGTTTTAAAAATT
1 ATATAATATATACTTTCAAAAATTGTTTTCAAAACC
*
19322137 ATATTATATATA
1 ATATAATATATA
19322149 TATATATTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
32 4 0.04
33 4 0.04
34 38 0.39
36 13 0.13
37 39 0.40
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (36 bp):
ATATAATATATACTTTCAAAAATTGTTTTCAAAACC
Found at i:19322080 original size:36 final size:35
Alignment explanation
Indices: 19321983--19322231 Score: 173
Period size: 40 Copynumber: 6.7 Consensus size: 35
19321973 ATAAAAATCA
* * *
19321983 TTTTTAAAATTATATATTATATATGCTTTCAAAAATTG
1 TTTTCAAAACTATATAATATATAT--TTTCAAAAA-TG
*
19322021 TTTTCAAAACCCATATAATATATATTTTCAAAAATTG
1 TTTTCAAAA-CTATATAATATATATTTTCAAAAA-TG
* *
19322058 TTTTTAAAACTATATAATATATATTTTTTAAAAA--
1 TTTTCAAAACTATATAATATATA-TTTTCAAAAATG
* *
19322092 TTTCCAAAACTATATATTATATATTTTC-AAAATG
1 TTTTCAAAACTATATAATATATATTTTCAAAAATG
* *
19322126 TTTTAAAAATTATATTATATATATATATATTTTC-AAAATG
1 TTTT--CAA--A-ACTATATA-ATATATATTTTCAAAAATG
* * **
19322166 CTTTCAAAACTATATGATATATATGTATTCTCGAAAACCG
1 TTTTCAAAACTATAT-A-ATATA--TATTTTC-AAAAATG
19322206 TTTTCAAAACTATAATATATATATAT
1 TTTTCAAAACTAT-ATA-ATATATAT
19322232 ATATATTTTT
Statistics
Matches: 173, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
32 4 0.02
33 4 0.02
34 23 0.13
35 6 0.03
36 23 0.13
37 29 0.17
38 20 0.12
39 19 0.11
40 43 0.25
41 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (35 bp):
TTTTCAAAACTATATAATATATATTTTCAAAAATG
Found at i:19322101 original size:34 final size:34
Alignment explanation
Indices: 19322021--19322189 Score: 126
Period size: 34 Copynumber: 4.7 Consensus size: 34
19322011 TCAAAAATTG
* *
19322021 TTTTCAAAACCCATATAATATATA-TTTTCAAAAA
1 TTTTCAAAA-CTATATAATATATATTTTTTAAAAA
*
19322055 TTGTTTTTAAAACTATATAATATATATTTTTTAAAAA
1 ---TTTTCAAAACTATATAATATATATTTTTTAAAAA
* * * *
19322092 TTTCCAAAACTATATATTATATA-TTTTCAAAATG
1 TTTTCAAAACTATATAATATATATTTTTTAAAA-A
* * *
19322126 TTTTAAAAATTATATTATATATATATATATTTTCAAAA
1 TTTTCAAAACTATA-TA-ATATATAT-T-TTTTAAAAA
*
19322164 TGCTTTCAAAACTATATGATATATAT
1 T--TTTCAAAACTATATAATATATAT
19322190 GTATTCTCGA
Statistics
Matches: 105, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
33 8 0.08
34 31 0.30
35 2 0.02
36 19 0.18
37 17 0.16
38 10 0.10
39 7 0.07
40 11 0.10
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (34 bp):
TTTTCAAAACTATATAATATATATTTTTTAAAAA
Found at i:19322124 original size:32 final size:33
Alignment explanation
Indices: 19321988--19322147 Score: 108
Period size: 32 Copynumber: 4.6 Consensus size: 33
19321978 AATCATTTTT
* *
19321988 AAAATTATATATTATATATGCTTTCAAAAATTGTTTTC
1 AAAACTATATATTATATAT--TTT-AAAAA-TG-TTCC
* * **
19322026 AAAACCCATATAATATATATTTTCAAAAATTGTTTTT
1 AAAA-CTATATATTATATATTTT-AAAAA-TG-TTCC
*
19322063 AAAACTATATAATATATATTTTTTAAAAAT-TTCC
1 AAAACTATAT-AT-TATATATTTTAAAAATGTTCC
* **
19322097 AAAACTATATATTATATATTTTCAAAATGTTTT
1 AAAACTATATATTATATATTTTAAAAATGTTCC
*
19322130 AAAAAT-TATATTATATAT
1 AAAACTATATATTATATAT
19322148 ATATATATTT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
32 26 0.25
33 9 0.09
34 12 0.12
36 6 0.06
37 26 0.25
38 13 0.12
39 12 0.12
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (33 bp):
AAAACTATATATTATATATTTTAAAAATGTTCC
Found at i:19322342 original size:35 final size:38
Alignment explanation
Indices: 19322268--19322354 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 38
19322258 TAAAAAAACA
* *
19322268 TATATATTATATGTTTTTAAAAACTGTTTTCTAAAAAT
1 TATATATTATATGTTTATAAAAACTATTTTCTAAAAAT
*
19322306 TATATATTATAT-TTTATAAAAA-TATTTT-TAATAAT
1 TATATATTATATGTTTATAAAAACTATTTTCTAAAAAT
19322341 TATATTATATATAT
1 TATA-TAT-TATAT
19322355 ATATATATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
35 10 0.23
36 8 0.18
37 14 0.32
38 12 0.27
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (38 bp):
TATATATTATATGTTTATAAAAACTATTTTCTAAAAAT
Found at i:19322353 original size:2 final size:2
Alignment explanation
Indices: 19322341--19322387 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
19322331 TTTTAATAAT
19322341 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19322382 TA TA TA
1 TA TA TA
19322388 CTAAAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19323259 original size:27 final size:26
Alignment explanation
Indices: 19323224--19323303 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 26
19323214 TTCAACTAAA
19323224 TTATGTATTTACATTTTATTTTAATAAT
1 TTAT-TATTTA-ATTTTATTTTAATAAT
* ***
19323252 TTATTATTAATATTCTTA-AAAAATAAT
1 TTATTATTTA-ATT-TTATTTTAATAAT
19323279 TTATTATTTAATAATTTATTTTAAT
1 TTATTATTTAAT--TTTATTTTAAT
19323304 TGTTTAAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
26 2 0.05
27 26 0.67
28 11 0.28
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (26 bp):
TTATTATTTAATTTTATTTTAATAAT
Found at i:19323588 original size:52 final size:53
Alignment explanation
Indices: 19323518--19323622 Score: 117
Period size: 51 Copynumber: 2.0 Consensus size: 53
19323508 TAATTTATAT
* * * *
19323518 TCATATTTTTAATTCAAAATATAATATC-TATAATGAAAATTTGTTCTTTTAAAC
1 TCATATTTTTAATCCAAAA-AAAATATCAAATAAT-AAAATTTGTACTTTTAAAC
* *
19323572 TCAT-TTTTTAA-CCAAAAAAAATCTCAAATAATTAAATTTGTACTTTTAAAC
1 TCATATTTTTAATCCAAAAAAAATATCAAATAATAAAATTTGTACTTTTAAAC
19323623 AACATTTTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
51 23 0.52
52 10 0.23
53 7 0.16
54 4 0.09
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (53 bp):
TCATATTTTTAATCCAAAAAAAATATCAAATAATAAAATTTGTACTTTTAAAC
Found at i:19323820 original size:21 final size:22
Alignment explanation
Indices: 19323781--19323838 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
19323771 TAAAATTTGA
*
19323781 ATTTAAAATTAAAACTTATTAG
1 ATTTAATATTAAAACTTATTAG
*
19323803 ATTTAATA-TAAAATTTATTAG
1 ATTTAATATTAAAACTTATTAG
*
19323824 GTTTAATCATTAAAA
1 ATTTAAT-ATTAAAA
19323839 ATAAAAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.58
22 8 0.26
23 5 0.16
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTTAATATTAAAACTTATTAG
Found at i:19323859 original size:20 final size:22
Alignment explanation
Indices: 19323824--19323863 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
19323814 AATTTATTAG
19323824 GTTTAATCATTAAAAATAAAAA
1 GTTTAATCATTAAAAATAAAAA
19323846 GTTTAAT-A-TAAAAATAAA
1 GTTTAATCATTAAAAATAAA
19323864 TATTTAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (22 bp):
GTTTAATCATTAAAAATAAAAA
Found at i:19327342 original size:21 final size:21
Alignment explanation
Indices: 19327316--19327356 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19327306 ATTATCGAAT
*
19327316 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
19327337 AAACTTGAAATCCATAACAA
1 AAACTTGAAATCCATAACAA
19327357 TCAATGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.20
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:19333949 original size:165 final size:165
Alignment explanation
Indices: 19333677--19334492 Score: 1181
Period size: 165 Copynumber: 5.0 Consensus size: 165
19333667 TAGCTCAAGA
* * * * *
19333677 CAAGAAGGGCTATTTCCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
1 CAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTCA
*
19333742 TTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
66 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
* *
19333807 CTTCGAGGGAATATCATTTGCAGCATAACTTAAGT
131 CTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
* * * *
19333842 CAAGAAGGGTTATCTGCCAACCGAAGACCTTCGAGTTCGACTACGTTCATCTCCAAGGTACGTCA
1 CAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTCA
*
19333907 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCAATTACACTCAG
66 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
* * *
19333972 CTTCGAGGGCACATCATTTACAGCATAACTCAAGG
131 CTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
* * * *
19334007 CTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTACGTTCAGCTCTAAGGCACGTC
1 CAAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTC
*
19334071 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
65 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
* *
19334136 GCTTCAAAGGCACATCATTTGCAGCATAACTTAAGT
130 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
* * *
19334172 CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCA
1 CAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTCA
* * * *
19334237 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACATTAAG
66 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
* *
19334302 CTTCGAGGGCACATTATTTGCACCATAACTTAAGT
131 CTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
* * * *
19334337 CGAGAAGGGTTATCT-CCAAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCTAAGGCATAG-
1 CAAGAAGGGTTATCTGCC-AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CGT
* * * * *
19334400 CATTTGCAGCATAGCTTAAGGCTAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACGCTC
64 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
* * *
19334465 AGC-TCCAAGGCACATCATTTACAGCATA
129 AGCTTCGAGGGCACATCATTTGCAGCATA
19334493 GCCCAAGGCA
Statistics
Matches: 588, Mismatches: 59, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
164 25 0.04
165 560 0.95
166 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (165 bp):
CAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACGTCA
TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAG
CTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
Found at i:19335101 original size:36 final size:36
Alignment explanation
Indices: 19335023--19335306 Score: 253
Period size: 37 Copynumber: 7.8 Consensus size: 36
19335013 TGAAAATACG
* * *
19335023 TATATAATATGTAGTTTTCAAAACATTTTTGAAAAAA
1 TATATAATATATAGTTTTTAAAACATTTTT-AAAAAT
*
19335060 TATATATTATATAGTTTTTAAAACATTTTTAAAAATT
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAA-T
* *
19335097 ATATATAATATATAATTTTTTAAAACATTTTTGAAAAT
1 -TATATAATATAT-AGTTTTTAAAACATTTTTAAAAAT
19335135 ATATATAATATATAGTTTTTGAAAAAACATTTTTAAAAA-
1 -TATATAATATATAGTTTTT---AAAACATTTTTAAAAAT
* * *
19335174 CATAT-A-ATATAG-TTTTAAAACATTTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAT
* * *
19335207 TATATAACATAAAG-TTTAAAAACATTTTT-AAAAT
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAT
* * **
19335241 TTTATAATATAT-GATTTTAAAA-ATATTTTTGAAAT
1 TATATAATATATAGTTTTTAAAACAT-TTTTAAAAAT
*
19335276 GTATATTATATATAG-TTTTAAAACAATTTTT
1 -TATATAATATATAGTTTTTAAAAC-ATTTTT
19335307 TTTAGTCTAT
Statistics
Matches: 209, Mismatches: 22, Indels: 32
0.79 0.08 0.12
Matches are distributed among these distances:
32 15 0.07
33 7 0.03
34 25 0.12
35 27 0.13
36 29 0.14
37 39 0.19
38 31 0.15
39 21 0.10
40 15 0.07
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTTAAAAAT
Found at i:19335110 original size:38 final size:37
Alignment explanation
Indices: 19334980--19335306 Score: 300
Period size: 39 Copynumber: 8.9 Consensus size: 37
19334970 CATTTTATAT
** **
19334980 ATATATATACATATATAGTTTGCAAATGATTTTTGAAA
1 ATATATATA-ATATATAGTTTTTAAAACATTTTTGAAA
* *
19335018 ATACGTATATAATATGTAGTTTTCAAAACATTTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAACATTTTTGAAA
* * *
19335057 AAATATATATTATATAGTTTTTAAAACATTTTTAAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
*
19335094 ATTATATATAATATATAATTTTTTAAAACATTTTTGAAA
1 A-TATATATAATATAT-AGTTTTTAAAACATTTTTGAAA
19335133 ATATATATAATATATAGTTTTTGAAAAAACATTTTT-AAA
1 ATATATATAATATATAGTTTTT---AAAACATTTTTGAAA
*
19335172 A-ACATAT-A-ATATAG-TTTTAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* * * *
19335205 A-CTATATAACATAAAG-TTTAAAAACATTTTT-AAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* * *
19335239 AT-TTTATAATATAT-GATTTTAAAAATATTTTTG-AA
1 ATATATATAATATATAG-TTTTTAAAACATTTTTGAAA
* *
19335274 ATGTATATTATATATAG-TTTTAAAACAATTTTT
1 ATATATATAATATATAGTTTTTAAAAC-ATTTTT
19335307 TTTAGTCTAT
Statistics
Matches: 245, Mismatches: 27, Indels: 36
0.80 0.09 0.12
Matches are distributed among these distances:
32 11 0.04
33 9 0.04
34 14 0.06
35 48 0.20
36 22 0.09
37 39 0.16
38 34 0.14
39 51 0.21
40 17 0.07
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
Found at i:19335351 original size:13 final size:13
Alignment explanation
Indices: 19335333--19335358 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19335323 TAGTTTTTAT
19335333 TTATTTTTATTCA
1 TTATTTTTATTCA
19335346 TTATTTTTATTCA
1 TTATTTTTATTCA
19335359 CCCGTTGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTTTATTCA
Found at i:19336486 original size:13 final size:13
Alignment explanation
Indices: 19336441--19336490 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
19336431 CATTTATCTA
19336441 TTTATTTAT-TTA-
1 TTTATTT-TCTTAT
*
19336453 TTTACTTTTTTTAT
1 TTTA-TTTTCTTAT
19336467 TTT-TTTTCTTAT
1 TTTATTTTCTTAT
19336479 TTTATTTTCTTA
1 TTTATTTTCTTA
19336491 ACATTTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 16 0.48
13 14 0.42
14 3 0.09
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTTCTTAT
Found at i:19336486 original size:17 final size:17
Alignment explanation
Indices: 19336445--19336486 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
19336435 TATCTATTTA
* *
19336445 TTTATTTATTTACTTTT
1 TTTATTTTTTTACTTAT
*
19336462 TTTATTTTTTTTCTTAT
1 TTTATTTTTTTACTTAT
19336479 TTTATTTT
1 TTTATTTT
19336487 CTTAACATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTATTTTTTTACTTAT
Found at i:19339393 original size:57 final size:57
Alignment explanation
Indices: 19339270--19339477 Score: 202
Period size: 57 Copynumber: 3.6 Consensus size: 57
19339260 GTTTATGTGA
* ** * ** **
19339270 ATATGTTCTAAGAAAATAAATGATAATTTGAATAATGATATATGAAACACTAAAAGT
1 ATATGTTCTATGTGAATAAATGATAATTTGAATAATGCTATATGAAATTCTATGAGT
* * *
19339327 ATATATTCTATGTGAATAAATGATAAGTTGAGTAATGCTATATGAAATTCTATGAGT
1 ATATGTTCTATGTGAATAAATGATAATTTGAATAATGCTATATGAAATTCTATGAGT
* * * ** ** *
19339384 A-ATTGTTCTATATGGATAAATAATAAATTTGGGTAATGCTACGTGAAATTCTATGAAT
1 ATA-TGTTCTATGTGAATAAATGAT-AATTTGAATAATGCTATATGAAATTCTATGAGT
* *
19339442 ATATGTTTTATGTGAACAAATGATAATTTGAATAAT
1 ATATGTTCTATGTGAATAAATGATAATTTGAATAAT
19339478 ATTATGTGAA
Statistics
Matches: 121, Mismatches: 27, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
56 1 0.01
57 74 0.61
58 45 0.37
59 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.37
Consensus pattern (57 bp):
ATATGTTCTATGTGAATAAATGATAATTTGAATAATGCTATATGAAATTCTATGAGT
Found at i:19339595 original size:23 final size:23
Alignment explanation
Indices: 19339569--19339612 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19339559 GGGTTCTACT
*
19339569 TGGTCCTTCGGGAAAATTCTATG
1 TGGTCATTCGGGAAAATTCTATG
*
19339592 TGGTCATTCGGGACAATTCTA
1 TGGTCATTCGGGAAAATTCTA
19339613 CGCGACCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (23 bp):
TGGTCATTCGGGAAAATTCTATG
Found at i:19339648 original size:46 final size:47
Alignment explanation
Indices: 19339573--19339662 Score: 107
Period size: 46 Copynumber: 1.9 Consensus size: 47
19339563 TCTACTTGGT
*
19339573 CCTTCGGGAAAATTCTATGTGGTCATTCGG-G-ACAATTCTACGCGAC
1 CCTTCGGGAAAATTCTATGTGGACATTCGGTGCA-AATTCTACGCGAC
*
19339619 CCTTTGGGACAAA-TCTATGT-GACACTTCGGTGCAAATTCTACGC
1 CCTTCGGGA-AAATTCTATGTGGACA-TTCGGTGCAAATTCTACGC
19339663 TGGAGTTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
45 3 0.08
46 20 0.53
47 14 0.37
48 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (47 bp):
CCTTCGGGAAAATTCTATGTGGACATTCGGTGCAAATTCTACGCGAC
Found at i:19344494 original size:19 final size:20
Alignment explanation
Indices: 19344456--19344494 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
19344446 TCATGGTTGG
19344456 TATAGAAGATTGAGGAAACT
1 TATAGAAGATTGAGGAAACT
* *
19344476 TATAGATGA-TGATGAAACT
1 TATAGAAGATTGAGGAAACT
19344495 AAGTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (20 bp):
TATAGAAGATTGAGGAAACT
Found at i:19345449 original size:14 final size:14
Alignment explanation
Indices: 19345432--19345459 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19345422 AATGAAAAAT
19345432 GTTAAAATGAATGC
1 GTTAAAATGAATGC
19345446 GTTAAAATGAATGC
1 GTTAAAATGAATGC
19345460 TATGAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
GTTAAAATGAATGC
Found at i:19346994 original size:2 final size:2
Alignment explanation
Indices: 19346987--19347015 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19346977 ATCAAAGTTA
19346987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19347016 ATTTAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19347168 original size:19 final size:19
Alignment explanation
Indices: 19347144--19347187 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
19347134 GGAGCCATCT
19347144 AAAATATTTAAAAA-ATAGA
1 AAAATA-TTAAAAACATAGA
*
19347163 AAAATATTAAAAACATATA
1 AAAATATTAAAAACATAGA
19347182 AAAATA
1 AAAATA
19347188 ATTATGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATATTAAAAACATAGA
Found at i:19348246 original size:13 final size:12
Alignment explanation
Indices: 19348228--19348261 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19348218 AAGTTCCCTT
19348228 TTTTAATTTCTAA
1 TTTTAATTTC-AA
19348241 TTTTAATTTCAA
1 TTTTAATTTCAA
*
19348253 TTATAATTT
1 TTTTAATTT
19348262 TTTTAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTAATTTCAA
Found at i:19351181 original size:17 final size:17
Alignment explanation
Indices: 19351159--19351197 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
19351149 TTTTTTAAGA
*
19351159 TGTTTATGTTCAGTTTG
1 TGTTTATGCTCAGTTTG
*
19351176 TGTTTATGCTCGGTTTG
1 TGTTTATGCTCAGTTTG
19351193 TGTTT
1 TGTTT
19351198 GTTTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.08, C:0.08, G:0.26, T:0.59
Consensus pattern (17 bp):
TGTTTATGCTCAGTTTG
Found at i:19351289 original size:24 final size:24
Alignment explanation
Indices: 19351257--19351339 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
19351247 TGTTCGTGTT
*
19351257 TGTTTGTTTTAGTGTTCACAAACA
1 TGTTCGTTTTAGTGTTCACAAACA
* *
19351281 TGTTCGTTTTAGTGTTCATAAATA
1 TGTTCGTTTTAGTGTTCACAAACA
** * *
19351305 TGTTCG-TTTAACGTTCACGAGCA
1 TGTTCGTTTTAGTGTTCACAAACA
19351328 TGTTCGTGTTTA
1 TGTTCGT-TTTA
19351340 ACGTTTGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 17 0.35
24 27 0.56
25 4 0.08
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (24 bp):
TGTTCGTTTTAGTGTTCACAAACA
Found at i:19351320 original size:23 final size:24
Alignment explanation
Indices: 19351270--19351344 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 24
19351260 TTGTTTTAGT
**
19351270 GTTCACAAACATGTTCGTTTTAGT
1 GTTCACAAACATGTTCGTTTTAAC
* *
19351294 GTTCATAAATATGTTCG-TTTAAC
1 GTTCACAAACATGTTCGTTTTAAC
* *
19351317 GTTCACGAGCATGTTCGTGTTTAAC
1 GTTCACAAACATGTTCGT-TTTAAC
19351342 GTT
1 GTT
19351345 TGTTTAATGC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 17 0.41
24 15 0.37
25 9 0.22
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
GTTCACAAACATGTTCGTTTTAAC
Found at i:19352108 original size:27 final size:27
Alignment explanation
Indices: 19352070--19352125 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
19352060 ACTGAACAAG
19352070 TCAAGCACAACTCAACTAACTAACGAC
1 TCAAGCACAACTCAACTAACTAACGAC
19352097 TCAAGCACAACTCAACTAACTAACGAC
1 TCAAGCACAACTCAACTAACTAACGAC
19352124 TC
1 TC
19352126 GCTAGATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.34, G:0.07, T:0.16
Consensus pattern (27 bp):
TCAAGCACAACTCAACTAACTAACGAC
Found at i:19352232 original size:26 final size:27
Alignment explanation
Indices: 19352203--19352253 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
19352193 ACACATGCAC
19352203 AACTCTGATATAA-ATCACAAGGACCT
1 AACTCTGATATAAGATCACAAGGACCT
*
19352229 AACTTTGATATAAGATCACAAGGAC
1 AACTCTGATATAAGATCACAAGGAC
19352254 TCGCATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.24
Consensus pattern (27 bp):
AACTCTGATATAAGATCACAAGGACCT
Found at i:19375857 original size:20 final size:20
Alignment explanation
Indices: 19375787--19375850 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
19375777 ACAGACCAAA
* *
19375787 AGTATCGATACTCAAA-ATAG
1 AGTATCGATACCCAAAGAT-T
*
19375807 AGTATCGATACCCATAGATT
1 AGTATCGATACCCAAAGATT
*
19375827 AGTATCGATACCCAAAGGTT
1 AGTATCGATACCCAAAGATT
19375847 AGTA
1 AGTA
19375851 CGTATACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
20 36 0.95
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (20 bp):
AGTATCGATACCCAAAGATT
Found at i:19384213 original size:49 final size:49
Alignment explanation
Indices: 19384126--19384234 Score: 155
Period size: 49 Copynumber: 2.2 Consensus size: 49
19384116 TGAAGACTCT
19384126 TTTGAGGATAAGGTCAAATTCGTAGCACGATCGTATCTTCTCTAATTGA
1 TTTGAGGATAAGGTCAAATTCGTAGCACGATCGTATCTTCTCTAATTGA
* * * * *
19384175 TTTGTGGATGAGGTTAAATTCGTAGCACGATTGTATCTTCTTTAATTGA
1 TTTGAGGATAAGGTCAAATTCGTAGCACGATCGTATCTTCTCTAATTGA
*
19384224 TTGGAGAGATA
1 TTTGAG-GATA
19384235 TTGTTACCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 48 0.94
50 3 0.06
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (49 bp):
TTTGAGGATAAGGTCAAATTCGTAGCACGATCGTATCTTCTCTAATTGA
Found at i:19384499 original size:24 final size:25
Alignment explanation
Indices: 19384467--19384528 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
19384457 TAGAAGGTAT
19384467 ATTTTAAATTTATT-TTTTACTAAA
1 ATTTTAAATTTATTCTTTTACTAAA
* *
19384491 ATTTTAAATTTATTCTTTTTCTTAA
1 ATTTTAAATTTATTCTTTTACTAAA
*
19384516 ATTTT-TATTTATT
1 ATTTTAAATTTATT
19384529 ATATTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 21 0.62
25 13 0.38
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTTAAATTTATTCTTTTACTAAA
Found at i:19384714 original size:17 final size:19
Alignment explanation
Indices: 19384673--19384714 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19384663 TATTTATTTA
*
19384673 TTTATAATTTATACTAATT
1 TTTATAATTTATACTAATG
*
19384692 TTTATAATTTA-A-TTATG
1 TTTATAATTTATACTAATG
19384709 TTTATA
1 TTTATA
19384715 GTTTTGTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTATAATTTATACTAATG
Found at i:19385835 original size:90 final size:89
Alignment explanation
Indices: 19385697--19385871 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
19385687 CCTAACACAC
* * * *
19385697 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
*
19385762 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
* *
19385787 CCTTTTATATCCGAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
19385852 ATTTAATTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
19385872 ATATTCGGGA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGAGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:19390638 original size:20 final size:20
Alignment explanation
Indices: 19390613--19390655 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
19390603 GTTTTAGAGT
*
19390613 TATAAACATGTTTAAATCCC
1 TATAAACATGTTTAAAGCCC
19390633 TATAAACATGTTTAAAGCCC
1 TATAAACATGTTTAAAGCCC
19390653 TAT
1 TAT
19390656 TTATTCTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.35
Consensus pattern (20 bp):
TATAAACATGTTTAAAGCCC
Found at i:19399756 original size:18 final size:18
Alignment explanation
Indices: 19399730--19399767 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
19399720 GTTTTTAAGG
*
19399730 AGTGGTCCTTCGGGACAT
1 AGTGATCCTTCGGGACAT
19399748 AGTGATCCTTCGGGACAT
1 AGTGATCCTTCGGGACAT
19399766 AG
1 AG
19399768 GTCCTTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (18 bp):
AGTGATCCTTCGGGACAT
Found at i:19399780 original size:16 final size:16
Alignment explanation
Indices: 19399733--19399773 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 16
19399723 TTTAAGGAGT
19399733 GGTCCTTCGGGACATA
1 GGTCCTTCGGGACATA
19399749 GTGATCCTTCGGGACATA
1 G-G-TCCTTCGGGACATA
19399767 GGTCCTT
1 GGTCCTT
19399774 TGAGACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.26
17 2 0.09
18 15 0.65
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.29
Consensus pattern (16 bp):
GGTCCTTCGGGACATA
Found at i:19401242 original size:4 final size:4
Alignment explanation
Indices: 19401233--19401257 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
19401223 TTTATCCATT
19401233 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
19401258 ATAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:19401266 original size:3 final size:3
Alignment explanation
Indices: 19401258--19401286 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19401248 ATTTATTTAT
19401258 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
19401287 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:19402723 original size:15 final size:17
Alignment explanation
Indices: 19402683--19402725 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
19402673 ATAATAAATA
*
19402683 ATAATTTATTTTTTTAC
1 ATAATTTATTTTTATAC
*
19402700 ATAAATTATTTTTAT-C
1 ATAATTTATTTTTATAC
19402716 AT-ATTTATTT
1 ATAATTTATTT
19402726 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 7 0.30
16 3 0.13
17 13 0.57
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
ATAATTTATTTTTATAC
Found at i:19402923 original size:23 final size:26
Alignment explanation
Indices: 19402897--19402951 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 26
19402887 CCTTTTCTGA
19402897 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTCTAAATATATATAAATTATTT
*
19402920 TATTTATAAATATATATAAATTATTT
1 TATTTCTAAATATATATAAATTATTT
19402946 T-TTTCT
1 TATTTCT
19402952 CTCATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.41
24 1 0.04
25 9 0.33
26 6 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTTCTAAATATATATAAATTATTT
Found at i:19406808 original size:15 final size:15
Alignment explanation
Indices: 19406788--19406819 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19406778 ATCAATACCT
19406788 TTTTGCATACATACA
1 TTTTGCATACATACA
*
19406803 TTTTGCATACATTCA
1 TTTTGCATACATACA
19406818 TT
1 TT
19406820 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:19414157 original size:10 final size:10
Alignment explanation
Indices: 19414142--19414166 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19414132 ATTATGCTTG
19414142 AAAAAAAAGA
1 AAAAAAAAGA
19414152 AAAAAAAAGA
1 AAAAAAAAGA
19414162 AAAAA
1 AAAAA
19414167 GGGGGTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:19415616 original size:44 final size:44
Alignment explanation
Indices: 19415548--19415638 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
19415538 CAAGTGTCAT
*
19415548 GTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAA
1 GTGCTCATAGTAGAAATAAAAAGACCCAATAGCATCTTCTGGAA
*
19415592 GTGCTCATAGTAGAAATAAAAAGACCCAATAGTATCTTCTGGAA
1 GTGCTCATAGTAGAAATAAAAAGACCCAATAGCATCTTCTGGAA
19415636 GTG
1 GTG
19415639 TTCTTTGAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (44 bp):
GTGCTCATAGTAGAAATAAAAAGACCCAATAGCATCTTCTGGAA
Found at i:19415904 original size:44 final size:44
Alignment explanation
Indices: 19415833--19415923 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
19415823 AAAGATGAAT
*
19415833 GTGCTCATAGTAGAAATAAGAACACCCAATAGCATCTTCTGGAA
1 GTGCTCATAGTAGAAATAAAAACACCCAATAGCATCTTCTGGAA
*
19415877 GTGCTCATAGTAGAAATAAAAAGACCCAATAGCATCTTCTGGAA
1 GTGCTCATAGTAGAAATAAAAACACCCAATAGCATCTTCTGGAA
19415921 GTG
1 GTG
19415924 TTCTTTGAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (44 bp):
GTGCTCATAGTAGAAATAAAAACACCCAATAGCATCTTCTGGAA
Found at i:19415916 original size:285 final size:274
Alignment explanation
Indices: 19415546--19416153 Score: 1054
Period size: 285 Copynumber: 2.2 Consensus size: 274
19415536 AGCAAGTGTC
19415546 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGCTCATAGTAGAAATAA
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGCTCATAGTAGAAATAA
* * *
19415611 AAAGACCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTTATCTGGTTTGGTGTGAATCCC
66 AAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAATCCC
19415676 AAAAACCAGTCATTGGATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCA
131 AAAAACCAGTCATTGGATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCA
19415741 TTTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCGGTATGAACCCCAAAA
196 TTTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGG--T--T-T------GGTATGAACCCCAAAA
19415806 ACCAATTATTGGATTTGAAAGATGA
250 ACCAATTATTGGATTTGAAAGATGA
*
19415831 ATGTGCTCATAGTAGAAATAAGAACACCCAATAGCATCTTCTGGAAGTGCTCATAGTAGAAATAA
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGCTCATAGTAGAAATAA
19415896 AAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAATCCC
66 AAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAATCCC
19415961 AAAAACCAGTCATTGGATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCA
131 AAAAACCAGTCATTGGATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCA
*
19416026 TTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATTATTG
196 TTTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATTATTG
19416091 GATTTGAAAGATGA
261 GATTTGAAAGATGA
* *
19416105 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGTATTTTCTGGAAGTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTG
19416154 TTCTTTGAGT
Statistics
Matches: 315, Mismatches: 8, Indels: 11
0.94 0.02 0.03
Matches are distributed among these distances:
274 87 0.28
280 1 0.00
281 1 0.00
283 1 0.00
285 225 0.71
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (274 bp):
ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGCTCATAGTAGAAATAA
AAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAATCCC
AAAAACCAGTCATTGGATTTGAAAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCA
TTTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATTATTG
GATTTGAAAGATGA
Found at i:19416079 original size:115 final size:115
Alignment explanation
Indices: 19415877--19416303 Score: 764
Period size: 115 Copynumber: 3.7 Consensus size: 115
19415867 TCTTCTGGAA
*
19415877 GTGCTCATAGTAGAAATAAAAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 GTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
* * *
19415942 CTGGTTTGGTATGAATCCCAAAAACCAGTCATTGGATTTGAAAGATGAAT
66 CTGGTTTGGTATGAACCCCAAAAACCAATTATTGGATTTGAAAGATGAAT
*
19415992 GTGCTCATAGTAGAAATAAGAAGACCCAATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 GTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
19416057 CTGGTTTGGTATGAACCCCAAAAACCAATTATTGGATTTGAAAGATGAAT
66 CTGGTTTGGTATGAACCCCAAAAACCAATTATTGGATTTGAAAGATGAAT
* *
19416107 GTGCTCATAGTAGAAATAAGAAGACCCAATAGTATTTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 GTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
*
19416172 CTGGTTTGGTATGAACCCCAAAAACCAATTATTAGATTTGAAAGATGAAT
66 CTGGTTTGGTATGAACCCCAAAAACCAATTATTGGATTTGAAAGATGAAT
19416222 GTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 GTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
* *
19416287 CTGGTTCGGTAGGAACC
66 CTGGTTTGGTATGAACC
19416304 ACAGAACTAA
Statistics
Matches: 301, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 301 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (115 bp):
GTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGGTATGAACCCCAAAAACCAATTATTGGATTTGAAAGATGAAT
Found at i:19417462 original size:113 final size:113
Alignment explanation
Indices: 19417053--19417468 Score: 584
Period size: 113 Copynumber: 3.7 Consensus size: 113
19417043 CAGCTTTTCC
* * ** * **
19417053 AGAA-AAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATC
1 AGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATC
* *
19417117 AGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
65 AGCATTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
19417166 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG-TCTAAATTCATTATTTGATGGATT
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC-AAATCCATCATTTGATGGATC
* * * *
19417230 AACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCGTCTGAAGAAGGA
65 AGCATTTCCAGTTCGAGTTCATAATGAGAAGAACTCA---TCTGAAGAAGGA
*
19417282 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCA
*
19417347 GCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 GCATTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
19417395 AGAAGAAATTCATAATGAAAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCA
1 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCA
*
19417460 GCTTTTCCA
66 GCATTTCCA
19417469 AAAAAAATGT
Statistics
Matches: 271, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
112 1 0.00
113 166 0.61
114 2 0.01
116 100 0.37
117 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (113 bp):
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCA
GCATTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:19417511 original size:188 final size:188
Alignment explanation
Indices: 19417290--19417649 Score: 506
Period size: 188 Copynumber: 1.9 Consensus size: 188
19417280 GAAGAAGAAA
* * * * ** *
19417290 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACT-TGATGGATCAGCTTTTC
1 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCAG-TGGAACAACAGTAC
* * *
19417354 CAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAAAAGAA
65 CAGTTAGAGTTCATAATGAGAAGAACTCACCTAAAGAAGGAAGAAGAAATTCATAATGAAAAGAA
* **
19417419 TTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAATG
130 CTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCTTTTCCAAAAAAAATG
* * *
19417478 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAGTGGAACAACAGTACC
1 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCAGTGGAACAACAGTACC
* *
19417543 AGTTAGAGTTCATAATGAGAAGAACTCACCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
66 AGTTAGAGTTCATAATGAGAAGAACTCACCTAAAGAAGGAAGAAGAAATTCATAATGAAAAGAAC
* ** *
19417608 TTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCAGC
131 TTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGC
19417650 ATTACCAGTT
Statistics
Matches: 149, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
188 148 0.99
189 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (188 bp):
TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCAGTGGAACAACAGTACC
AGTTAGAGTTCATAATGAGAAGAACTCACCTAAAGAAGGAAGAAGAAATTCATAATGAAAAGAAC
TTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCTTTTCCAAAAAAAATG
Found at i:19417607 original size:113 final size:113
Alignment explanation
Indices: 19417477--19418059 Score: 725
Period size: 113 Copynumber: 5.2 Consensus size: 113
19417467 CAAAAAAAAT
* * *
19417477 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCAC-TCAGTGGAACAACAGTA
1 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTTGA-TGGATCAACATTA
* *
19417541 CCAGTTAGAGTTCATAATGAGAAGAACTCACCTAAAGAAGGAAGAAGAA
65 CCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * *
19417590 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCA-TTCAATGGATCAGCATTA
1 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTT-GATGGATCAACATTA
* * *
19417654 CCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAAGAAGAA
65 CCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * * * * * *
19417703 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTATTTGATGGATTAACATTGC
1 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTTGATGGATCAACATTAC
*
19417768 CAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
66 CAGTTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAA
* * * * * *
19417819 ATTCATAATGAGAAGAATTTGTTCAA-TCTTTTGCTCAAATTCATCACTTGATGGATCAGCTTTT
1 GTTCATAATGAGAAGAACTTGTTCAACT-TTTTGCTTAAATTCATCACTTGATGGATCAACATTA
*
19417883 CCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
65 CCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * * *** *
19417932 GTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAGTTTTTT
1 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTTGATGGATCA-ACATTA
*
19417997 CCA--AAGAAGTTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAA
65 CCAGTTAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
19418041 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
19418060 CATCTGAAGA
Statistics
Matches: 418, Mismatches: 42, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
109 27 0.06
110 3 0.01
112 1 0.00
113 276 0.66
114 12 0.03
115 1 0.00
116 98 0.23
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTTGATGGATCAACATTAC
CAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
Found at i:19417670 original size:301 final size:303
Alignment explanation
Indices: 19417173--19417758 Score: 849
Period size: 301 Copynumber: 1.9 Consensus size: 303
19417163 GGAAGAAGAA
* * ** ** * *
19417173 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTAAATTCATTATTTGATGGATTAACATTGC
1 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTAAATTCATCATCAGATGGAACAACAGTAC
*
19417238 CAGGTAGAGTTCATAATGAGAAGAACTCATCGTCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
66 CAGGTAGAGTTCATAATGAGAAGAACTCATCG-CTAAAGAAGGAAGAAGAAATTCATAATGAGAA
* * * *
19417303 GAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCAT
130 GAACTTGTTCAACCTTTTGCTCAAATCCATCACTTAATGGATCAGCATTACCAGTTCGAGTTCAT
* *
19417368 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAAAAGAATTTGTTCAACCTTT
195 AATAAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAAAAGAATTTGTTCAACCTTT
19417433 TGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAAT
260 TGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAAT
*
19417477 GTTCATAATGAGAAGAACTTGTTCAACTTTTTG-CTTAAATTCATCACTCAG-TGGAACAACAGT
1 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTC-TAAATTCATCA-TCAGATGGAACAACAGT
* *
19417540 ACCAGTTAGAGTTCATAATGAGAAGAACTCA-C-CTAAAGAAGGAAGAAGAAGTTCATAATGAGA
64 ACCAGGTAGAGTTCATAATGAGAAGAACTCATCGCTAAAGAAGGAAGAAGAAATTCATAATGAGA
* ** *
19417603 AGAACTTGTTCAACTTTTTGCTTGAATTCATCA-TTCAATGGATCAGCATTACCAGTTCGAGTTC
129 AGAACTTGTTCAACCTTTTGCTCAAATCCATCACTT-AATGGATCAGCATTACCAGTTCGAGTTC
* *
19417667 ATAATAAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCT
193 ATAATAAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAAAAGAATTTGTTCAACCT
* * * *
19417732 TTTGTTTAAATTCATTATTTGATGGAT
258 TTTGCTCAAATCCATCATTTGATGGAT
19417759 TAACATTGCC
Statistics
Matches: 251, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
300 2 0.01
301 166 0.66
303 2 0.01
304 79 0.31
305 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (303 bp):
GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTAAATTCATCATCAGATGGAACAACAGTAC
CAGGTAGAGTTCATAATGAGAAGAACTCATCGCTAAAGAAGGAAGAAGAAATTCATAATGAGAAG
AACTTGTTCAACCTTTTGCTCAAATCCATCACTTAATGGATCAGCATTACCAGTTCGAGTTCATA
ATAAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAAAAGAATTTGTTCAACCTTTT
GCTCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAAT
Found at i:19417837 original size:417 final size:414
Alignment explanation
Indices: 19417021--19417885 Score: 1286
Period size: 417 Copynumber: 2.1 Consensus size: 414
19417011 TAGCAAAGAT
*
19417021 TCAAATCCATCATTTGATGGATCAGCTTTTCC-AGAAAAAGTTCATAATGAGAAGAACTTGTTCA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAAGTTCATAATGAGAAGAACTTGTTCA
* * * * * *
19417085 ACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAA
66 ACTTTTTGCTTAAATTCATCACTCAATGGAACAACAGTACCAGTTAGAGTTCATAATAAGAAGAA
* * *
19417150 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTAAATTC
131 CTCACCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTAAATTC
* ** * * *
19417215 ATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCGTCTGAAGAAG
196 ATCATTCAATGGATCAACATTACCAGGTAGAGTTCATAATAAGAAGAACTCA-C-TCTGAAGAAG
*
19417280 GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
259 AAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
* * * * *
19417345 CAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
324 CAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
19417410 TGAAAAGAATTTGTTCAACCTTTTGC
389 TGAAAAGAATTTGTTCAACCTTTTGC
19417436 TCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAATGTTCATAATGAGAAGAACTTGTTC
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAA-GTTCATAATGAGAAGAACTTGTTC
* *
19417501 AACTTTTTGCTTAAATTCATCACTCAGTGGAACAACAGTACCAGTTAGAGTTCATAATGAGAAGA
65 AACTTTTTGCTTAAATTCATCACTCAATGGAACAACAGTACCAGTTAGAGTTCATAATAAGAAGA
* *
19417566 ACTCACCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTG-CTTGAAT
130 ACTCACCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTC-TAAAT
* * *
19417630 TCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCA-TCTGAAGAAG
194 TCATCATTCAATGGATCAACATTACCAGGTAGAGTTCATAATAAGAAGAACTCACTCTGAAGAAG
* * * * * *
19417694 AAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTATTTGATGGAT
259 AAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
*
19417759 TAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAATTCA
324 CAACATTGCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAATTCA
* *
19417824 TAATGAGAAGAATTTGTTCAATCTTTTGC
386 TAATGAAAAGAATTTGTTCAACCTTTTGC
* *
19417853 TCAAATTCATCACTTGATGGATCAGCTTTTCCA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCA
19417886 GTTCGAGTTC
Statistics
Matches: 404, Mismatches: 40, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
414 96 0.24
415 32 0.08
416 8 0.02
417 268 0.66
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (414 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAAAAAAAAGTTCATAATGAGAAGAACTTGTTCA
ACTTTTTGCTTAAATTCATCACTCAATGGAACAACAGTACCAGTTAGAGTTCATAATAAGAAGAA
CTCACCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTCTAAATTC
ATCATTCAATGGATCAACATTACCAGGTAGAGTTCATAATAAGAAGAACTCACTCTGAAGAAGAA
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
ACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
AAAAGAATTTGTTCAACCTTTTGC
Found at i:19417889 original size:229 final size:226
Alignment explanation
Indices: 19417477--19418059 Score: 749
Period size: 229 Copynumber: 2.6 Consensus size: 226
19417467 CAAAAAAAAT
* * * * *
19417477 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAGTGGAACAACAGTAC
1 GTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTGA-TGGATCAACATTAC
*
19417542 CAGTTAGAGTTCATAATGAGAAGAACTCA-C--CTAAAGAAGGAAGAAGAAGTTCATAATGAGAA
65 CAG-TAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA-TTCATAATGAGAA
**
19417604 GAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCAT
128 GAACTTGTTCAACTTTTTGCTCAAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCAT
19417669 AATAAGAAGAACTCATCTGAAGAAGAAAGAAGAA
193 AATAAGAAGAACTCATCTGAAGAAGAAAGAAGAA
* * * * *
19417703 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTATTTGATGGATTAACATTGC
1 GTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCA-TTGATGGATCAACATTAC
19417768 CAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
65 CA-GTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAG-AATTCATAATGAGAA
* * * *
19417833 GAATTTGTTCAA-TCTTTTGCTCAAATTCATCACTT-GATGGATCAGCTTTTCCAGTTCGAGTTC
128 GAACTTGTTCAACT-TTTTGCTCAAATTCATCA-TTCAATGGATCAGCATTACCAGTTCGAGTTC
* *
19417896 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
191 ATAATAAGAAGAACTCATCTGAAGAAGAAAGAAGAA
* * *** *
19417932 GTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAGTTTTTT
1 GTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCA-TTGATGGATCA-ACATTA
*
19417997 CCA-AAGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA-GAAGAAG--TTCATAATGAGAA
64 CCAGTAG-AGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAATTCATAATGAGAA
19418055 GAACT
128 GAACT
19418060 CATCTGAAGA
Statistics
Matches: 315, Mismatches: 32, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
222 17 0.05
225 7 0.02
226 91 0.29
227 5 0.02
228 3 0.01
229 183 0.58
230 9 0.03
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (226 bp):
GTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTGATGGATCAACATTACC
AGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAATTCATAATGAGAAGAA
CTTGTTCAACTTTTTGCTCAAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAAT
AAGAAGAACTCATCTGAAGAAGAAAGAAGAA
Found at i:19418044 original size:36 final size:36
Alignment explanation
Indices: 19418000--19418092 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
19417990 GTTTTTTCCA
19418000 AAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 AAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
19418036 AAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 AAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
* *
19418072 AAAAAGTTCACAATGAGAAGA
1 AAGAAGTTCATAATGAGAAGA
19418093 GCTTATTCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (36 bp):
AAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
Found at i:19418056 original size:17 final size:17
Alignment explanation
Indices: 19418000--19418057 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
19417990 GTTTTTTCCA
19418000 AAGAAGTTCATAATGAG
1 AAGAAGTTCATAATGAG
*
19418017 AAGAA-CTCATCTGAA-GAAG
1 AAGAAGTTCA--T-AATG-AG
19418036 AAGAAGTTCATAATGAG
1 AAGAAGTTCATAATGAG
19418053 AAGAA
1 AAGAA
19418058 CTCATCTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 3 0.09
17 14 0.42
18 4 0.12
19 9 0.27
20 3 0.09
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (17 bp):
AAGAAGTTCATAATGAG
Found at i:19418258 original size:124 final size:120
Alignment explanation
Indices: 19418039--19418315 Score: 373
Period size: 124 Copynumber: 2.3 Consensus size: 120
19418029 GAAGAAGAAG
19418039 AAGTTCATAATGAGAAGAACTCATCTG-A-AGAAGAAAAAGTTCACAATGAGAAGAGCTTATTCA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAATGAGAAGAGCTTATTCA
* * * *
19418102 ACCTTTTGCATAATTCTATCACAGAAGCAAATAGATTAGCATCAACCTTTCCAG-AGA
66 ACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC---CCAGTAGA
* *
19418159 AAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAA-GAG-AAGAAAAAGTTCACAATGAGAAGAGCTTATT
* * * * * *
19418224 CAATCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCCCCAGTGGA
64 CAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACCCCAGTAGA
19418281 AAGTTCATAATGAGAAGAACTCATCTGAAGA-AAGA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGA
19418316 GAAGGATTTA
Statistics
Matches: 140, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
119 4 0.03
120 27 0.19
121 7 0.05
122 31 0.22
123 2 0.01
124 69 0.49
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (120 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAATGAGAAGAGCTTATTCA
ACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACCCCAGTAGA
Found at i:19418479 original size:3 final size:3
Alignment explanation
Indices: 19418471--19418527 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
19418461 ATTTATTTAT
* * *
19418471 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19418519 TTA TTA TTA
1 TTA TTA TTA
19418528 ATATATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:19418494 original size:18 final size:18
Alignment explanation
Indices: 19418473--19418525 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
19418463 TTATTTATTT
19418473 ATTATTATTATTATTATA
1 ATTATTATTATTATTATA
*
19418491 ATTATTATTATTATAATA
1 ATTATTATTATTATTATA
19418509 ATTATTATTATTATTAT
1 ATTATTATTATTATTAT
19418526 TAATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTATTATTATTATTATA
Found at i:19420027 original size:23 final size:26
Alignment explanation
Indices: 19419995--19420044 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
19419985 CATTTTCTGA
*
19419995 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
19420018 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
19420044 T
1 T
19420045 TTCTCTCGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:19428299 original size:15 final size:16
Alignment explanation
Indices: 19428270--19428303 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19428260 AGATAAAGTT
19428270 AAAAATAAATTTAAATA
1 AAAAATAAA-TTAAATA
19428287 AAAAATAAA-TAAATA
1 AAAAATAAATTAAATA
19428302 AA
1 AA
19428304 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAATTAAATA
Found at i:19430023 original size:19 final size:19
Alignment explanation
Indices: 19429999--19430045 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
19429989 AATAAAAAAA
*
19429999 TATATAATAATTTATTAAT
1 TATATAATAATTCATTAAT
19430018 TATATAATAATTCATTAAT
1 TATATAATAATTCATTAAT
*
19430037 TATAAAATA
1 TATATAATA
19430046 TTATTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATAATAATTCATTAAT
Found at i:19431343 original size:15 final size:15
Alignment explanation
Indices: 19431323--19431360 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
19431313 GATTTATTAA
19431323 AATAAAAGGAAAAAT
1 AATAAAAGGAAAAAT
**
19431338 AATAAAATAAAAAAT
1 AATAAAAGGAAAAAT
19431353 AA-AAAAGG
1 AATAAAAGG
19431361 GATTTTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (15 bp):
AATAAAAGGAAAAAT
Found at i:19432832 original size:21 final size:21
Alignment explanation
Indices: 19432806--19432905 Score: 130
Period size: 21 Copynumber: 4.7 Consensus size: 21
19432796 AGGGTGTTAA
19432806 AGTGCATCCATGCACCCGTGC
1 AGTGCATCCATGCACCCGTGC
19432827 AGTGCATCCATGCACCCGTGC
1 AGTGCATCCATGCACCCGTGC
* **
19432848 AGTGCATCCATGCACCTGCCAC
1 AGTGCATCCATGCACCCG-TGC
* *
19432870 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCCATGCACCCGTGC
19432891 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
19432906 TCCATTTCGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
20 13 0.19
21 39 0.58
22 2 0.03
23 13 0.19
ACGTcount: A:0.22, C:0.36, G:0.22, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCGTGC
Found at i:19432987 original size:20 final size:20
Alignment explanation
Indices: 19432925--19432997 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
19432915 AATGCAATTA
19432925 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
19432945 ATGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
* * *
19432965 GTGTATCGATGCATCATGTT
1 GTGCATCGATGCATCCTGCT
*
19432985 GTGCATCTATGCA
1 GTGCATCGATGCA
19432998 CCAAGGCTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:19435365 original size:19 final size:20
Alignment explanation
Indices: 19435328--19435368 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
19435318 TGAGACCATG
19435328 AATTTCAAATATACAAAATT
1 AATTTCAAATATACAAAATT
19435348 AATTTCAAA-ACT-CAAAATT
1 AATTTCAAATA-TACAAAATT
19435367 AA
1 AA
19435369 AGATAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTTCAAATATACAAAATT
Found at i:19436504 original size:10 final size:10
Alignment explanation
Indices: 19436491--19436542 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
19436481 TATATATTCA
19436491 AACAATTGGT
1 AACAATTGGT
19436501 AACAATTGGT
1 AACAATTGGT
*
19436511 AACAATTGAT
1 AACAATTGGT
* * *
19436521 ATCATTTTGTT
1 AACA-ATTGGT
19436532 AACAATTGGT
1 AACAATTGGT
19436542 A
1 A
19436543 TTTTATTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 27 0.79
11 7 0.21
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (10 bp):
AACAATTGGT
Done.