Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000913.1 Hibiscus syriacus cultivar Beakdansim tig00001818_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: 1610646
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:739358 original size:2 final size:2
Alignment explanation
Indices: 739351--739391 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
739341 TCAATCTACA
739351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
739392 ATTCACGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:739553 original size:85 final size:84
Alignment explanation
Indices: 739419--739575 Score: 260
Period size: 85 Copynumber: 1.9 Consensus size: 84
739409 ACGACACACG
* * *
739419 AATGTGTATCATTTTATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATGTGTGT
1 AATGTGTATCATTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATGCGCGT
739484 CATAAATTTATGACACATA
66 CATAAATTTATGACACATA
* *
739503 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATAAATGCGCG
1 AATGTGTATCAT-TTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATGCGCG
739568 TCATAAAT
65 TCATAAAT
739576 GCGTGTCATA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 11 0.16
85 56 0.84
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (84 bp):
AATGTGTATCATTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATGCGCGT
CATAAATTTATGACACATA
Found at i:739570 original size:13 final size:13
Alignment explanation
Indices: 739554--739601 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
739544 CGCAATGTAA
739554 GTCATAAATGCGC
1 GTCATAAATGCGC
*
739567 GTCATAAATGCGT
1 GTCATAAATGCGC
739580 GTCATAAATGCGC
1 GTCATAAATGCGC
739593 GTCATAAAT
1 GTCATAAAT
739602 TTATGACGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:739576 original size:26 final size:26
Alignment explanation
Indices: 739547--739601 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
739537 AATGACGCGC
*
739547 AATGTAAGTCATAAATGCGCGTCATA
1 AATGCAAGTCATAAATGCGCGTCATA
**
739573 AATGCGTGTCATAAATGCGCGTCATA
1 AATGCAAGTCATAAATGCGCGTCATA
739599 AAT
1 AAT
739602 TTATGACGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
AATGCAAGTCATAAATGCGCGTCATA
Found at i:748219 original size:16 final size:16
Alignment explanation
Indices: 748200--748266 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
748190 TTCCAAATAC
748200 AAGAAATAAAGAAGAA
1 AAGAAATAAAGAAGAA
* *
748216 AAGAAA-AGAATAAGTA
1 AAGAAATA-AAGAAGAA
*
748232 AAGAGATAAA-AAGAA
1 AAGAAATAAAGAAGAA
*
748247 TAAGAGAAAAAAG-AGAA
1 -AAGA-AATAAAGAAGAA
748264 AAG
1 AAG
748267 TGAAAGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
15 5 0.12
16 26 0.65
17 9 0.22
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (16 bp):
AAGAAATAAAGAAGAA
Found at i:748235 original size:21 final size:20
Alignment explanation
Indices: 748211--748276 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
748201 AGAAATAAAG
748211 AAGAAAAGAAAAGAATAAGTA
1 AAGAAAA-AAAAGAATAAGTA
*
748232 AAGAGATAAAAAGAATAAG--
1 AAGA-AAAAAAAGAATAAGTA
*
748251 -AGAAAAAAGAGAA-AAGTGA
1 AAGAAAAAAAAGAATAAGT-A
748270 AAGAAAA
1 AAGAAAA
748277 GAGATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
16 3 0.08
17 8 0.22
18 3 0.08
20 6 0.16
21 15 0.41
22 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (20 bp):
AAGAAAAAAAAGAATAAGTA
Found at i:748260 original size:9 final size:9
Alignment explanation
Indices: 748231--748357 Score: 76
Period size: 9 Copynumber: 15.0 Consensus size: 9
748221 AAGAATAAGT
*
748231 AAAGAGATA
1 AAAGAGAAA
748240 AAA-AG-AA
1 AAAGAGAAA
*
748247 TAAGAGAAA
1 AAAGAGAAA
748256 AAAGAGAAA
1 AAAGAGAAA
**
748265 AGTGA-AAGA
1 AAAGAGAA-A
*
748274 AAAGAGATA
1 AAAGAGAAA
748283 AAA-AG-AA
1 AAAGAGAAA
* *
748290 TAAGAGAAG
1 AAAGAGAAA
748299 AAAGAG-AA
1 AAAGAGAAA
*
748307 GAA-A-AAA
1 AAAGAGAAA
748314 AAAGA-AAA
1 AAAGAGAAA
748322 AAA-AGAAA
1 AAAGAGAAA
* *
748330 AAAAAGGAA
1 AAAGAGAAA
748339 AAAGAGAAA
1 AAAGAGAAA
748348 AAATGAGAAA
1 AAA-GAGAAA
748358 GAAAATAAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
7 12 0.13
8 26 0.29
9 44 0.49
10 7 0.08
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (9 bp):
AAAGAGAAA
Found at i:748285 original size:27 final size:27
Alignment explanation
Indices: 748241--748362 Score: 100
Period size: 26 Copynumber: 4.7 Consensus size: 27
748231 AAAGAGATAA
*
748241 AAAGAATAAGAGAAAAAAGAGAA-AAGTG
1 AAAGAA-AAGAGAAAAAA-AGAATAAGAG
*
748269 AAAGAAAAGAGATAAAAAGAATAAGAG
1 AAAGAAAAGAGAAAAAAAGAATAAGAG
748296 -AAG-AAAGAGAAGAAAAA-AA-AAGA-
1 AAAGAAAAGAGAA-AAAAAGAATAAGAG
*
748319 AAA-AAAAGA-AAAAAAAGGAAAAAGAG
1 AAAGAAAAGAGAAAAAAA-GAATAAGAG
*
748345 AAA-AAATGAGAAAGAAAA
1 AAAGAAAAGAGAAA-AAAA
748363 TAAATCAAGT
Statistics
Matches: 80, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
22 5 0.06
23 2 0.03
24 13 0.16
25 13 0.16
26 20 0.25
27 17 0.21
28 10 0.12
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (27 bp):
AAAGAAAAGAGAAAAAAAGAATAAGAG
Found at i:748294 original size:21 final size:21
Alignment explanation
Indices: 748219--748299 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
748209 AGAAGAAAAG
*
748219 AAAAGAATAAGTAAAGAGATA
1 AAAAGAATAAGAAAAGAGATA
* *
748240 AAAAGAATAAGAGAAAAAAGA-G
1 AAAAGAAT-A-AGAAAAGAGATA
*
748262 AAAAGTGA-AAGAAAAGAGATA
1 AAAAG-AATAAGAAAAGAGATA
*
748283 AAAAGAATAAGAGAAGA
1 AAAAGAATAAGAAAAGA
748300 AAGAGAAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 10 0.21
21 22 0.47
22 6 0.13
23 9 0.19
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (21 bp):
AAAAGAATAAGAAAAGAGATA
Found at i:748296 original size:16 final size:15
Alignment explanation
Indices: 748200--748321 Score: 76
Period size: 15 Copynumber: 8.1 Consensus size: 15
748190 TTCCAAATAC
*
748200 AAGAAATAAAGAAGAA
1 AAGAGATAAA-AAGAA
* *
748216 AAGA-AAAGAATAAGTA
1 AAGAGATA-AA-AAGAA
748232 AAGAGATAAAAAGAA
1 AAGAGATAAAAAGAA
748247 TAAGAGA-AAAAAGAGA
1 -AAGAGATAAAAAGA-A
*
748263 AA-AG-T-GAAAGAA
1 AAGAGATAAAAAGAA
748275 AAGAGATAAAAAGAA
1 AAGAGATAAAAAGAA
* *
748290 TAAGAGA-AGAAAGAG
1 -AAGAGATAAAAAGAA
* *
748305 AAGAAAAAAAAAGAA
1 AAGAGATAAAAAGAA
748320 AA
1 AA
748322 AAAAGAAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 3 0.04
13 7 0.08
14 8 0.10
15 35 0.42
16 29 0.35
17 2 0.02
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (15 bp):
AAGAGATAAAAAGAA
Found at i:748320 original size:19 final size:19
Alignment explanation
Indices: 748207--748350 Score: 84
Period size: 19 Copynumber: 7.7 Consensus size: 19
748197 TACAAGAAAT
*
748207 AAAGAAGAAAAGAAAAGAA
1 AAAGAAGAAAAAAAAAGAA
* * *
748226 TAAGTAAAGAGATAAAAAGAA
1 AAAG--AAGAAAAAAAAAGAA
* *
748247 TAAG-AG-AAAAAAGAG-A
1 AAAGAAGAAAAAAAAAGAA
* * *
748263 AAAG-TGAAAGAAAAGAGAT
1 AAAGAAGAAA-AAAAAAGAA
* *
748282 AAA-AAGAATAAGAGAAGAA
1 AAAGAAGAA-AAAAAAAGAA
*
748301 AGAGAAGAAAAAAAAAGAA
1 AAAGAAGAAAAAAAAAGAA
* *
748320 AAAAAAGAAAAAAAAGGAA
1 AAAGAAGAAAAAAAAAGAA
748339 AAAG-AGAAAAAA
1 AAAGAAGAAAAAA
748351 TGAGAAAGAA
Statistics
Matches: 95, Mismatches: 22, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
16 5 0.05
17 8 0.08
18 17 0.18
19 43 0.45
20 6 0.06
21 16 0.17
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAGAAGAAAAAAAAAGAA
Found at i:748328 original size:22 final size:21
Alignment explanation
Indices: 748294--748334 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
748284 AAAGAATAAG
* *
748294 AGAAGAAAGAGAAGAAAAAAAA
1 AGAAAAAAAAGAA-AAAAAAAA
748316 AGAAAAAAAAGAAAAAAAA
1 AGAAAAAAAAGAAAAAAAA
748335 GGAAAAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAGAAAAAAAAAA
Found at i:748332 original size:16 final size:16
Alignment explanation
Indices: 748207--748350 Score: 65
Period size: 18 Copynumber: 8.1 Consensus size: 16
748197 TACAAGAAAT
748207 AAAGAAGAAAAGAAAAGA
1 AAAGAA-AAAAGAAAA-A
* * *
748225 ATAAGTAAAGAG-ATAA
1 A-AAGAAAAAAGAAAAA
*
748241 AAAGAATAAGAGAAAAA
1 AAAGAA-AAAAGAAAAA
* **
748258 AGAGAAAAGTGAAAGAA
1 AAAGAAAAAAGAAA-AA
748275 AAGAGATAAAAAGAATAAGA
1 AA-AGA-AAAAAGAA-AA-A
*
748295 GAAGAAAGAGAAGAAAAAA
1 AAAGAAA-A-AAG-AAAAA
748314 AAAGAAAAAAAAGAAAAA
1 AAAG--AAAAAAGAAAAA
748332 AAAGGAAAAAGAGAAAAA
1 AAA-GAAAAA-AGAAAAA
748350 A
1 A
748351 TGAGAAAGAA
Statistics
Matches: 99, Mismatches: 12, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
15 4 0.04
16 14 0.14
17 18 0.18
18 26 0.26
19 23 0.23
20 9 0.09
21 5 0.05
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (16 bp):
AAAGAAAAAAGAAAAA
Found at i:748350 original size:10 final size:10
Alignment explanation
Indices: 748291--748362 Score: 60
Period size: 10 Copynumber: 7.2 Consensus size: 10
748281 TAAAAAGAAT
748291 AAGAGAAGAAA
1 AAGAGAA-AAA
*
748302 GAGAAGAAAAA
1 AAG-AGAAAAA
*
748313 AAAAGAAAAA
1 AAGAGAAAAA
748323 AA-AGAAAAA
1 AAGAGAAAAA
*
748332 AA-AG-GAAA
1 AAGAGAAAAA
748340 AAGAGAAAAA
1 AAGAGAAAAA
*
748350 ATGAGAAAGAA
1 AAGAGAAA-AA
748361 AA
1 AA
748363 TAAATCAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
8 5 0.10
9 13 0.26
10 19 0.38
11 9 0.18
12 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (10 bp):
AAGAGAAAAA
Found at i:748357 original size:18 final size:17
Alignment explanation
Indices: 748231--748349 Score: 81
Period size: 16 Copynumber: 7.2 Consensus size: 17
748221 AAGAATAAGT
*
748231 AAAGAGATAAAA-AGAA
1 AAAGAGAAAAAAGAGAA
*
748247 TAAGAGAAAAAAGAG-A
1 AAAGAGAAAAAAGAGAA
*
748263 AAAGTGAAAGAAAAGAGATA
1 AAAGAG-AA-AAAAGAGA-A
*
748283 AAA-AG-AATAAGAGAA
1 AAAGAGAAAAAAGAGAA
*
748298 GAAAGAGAAGAAA-A-AA
1 -AAAGAGAAAAAAGAGAA
*
748314 AAAGAAAAAAAAGA-AA
1 AAAGAGAAAAAAGAGAA
* *
748330 AAAAAGGAAAAAGAGAA
1 AAAGAGAAAAAAGAGAA
748347 AAA
1 AAA
748350 ATGAGAAAGA
Statistics
Matches: 80, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
15 11 0.14
16 41 0.51
17 13 0.16
18 10 0.12
19 1 0.01
20 4 0.05
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (17 bp):
AAAGAGAAAAAAGAGAA
Found at i:748358 original size:16 final size:16
Alignment explanation
Indices: 748321--748362 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
748311 AAAAAAGAAA
748321 AAAAAGAAAAAAAAGG
1 AAAAAGAAAAAAAAGG
* *
748337 AAAAAGAGAAAAAATG
1 AAAAAGAAAAAAAAGG
*
748353 AGAAAGAAAA
1 AAAAAGAAAA
748363 TAAATCAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAAAAGG
Found at i:750658 original size:41 final size:42
Alignment explanation
Indices: 750553--750658 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
750543 CTAAATTGGT
* ** * *
750553 AAGTCCTTCGAGCCATCAGTAAGTCTTTTGAGCATGATGATT
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCAAGATGATC
* * *
750595 AAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGA-C
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCAAGATGATC
* *
750636 AAGTCCTTTGGGCCATCCGTAAG
1 AAGTCCTTCGGGCCATCAGTAAG
750659 ACCTTCGGGT
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 19 0.37
42 33 0.63
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCAAGATGATC
Found at i:750911 original size:257 final size:257
Alignment explanation
Indices: 750448--750915 Score: 710
Period size: 257 Copynumber: 1.8 Consensus size: 257
750438 ATAAGAAACT
* ** *
750448 GATTTCTAAAGTTTCTCATTTAATCTTTTTCAAAAATGAAATTTTTGAAAAGTAATAAAGCGATT
1 GATTTCCAAAGTTTCTCATTTAATCTTTTTCAAAAATGAAATTTTTGAAAAACAAGAAAGCGATT
* * * *
750513 TCCAAAGTTTCTTACCTAGTAAACTATTTCCTAAATTGGTAAGTCCTTCGAGCCATCAGTAAGTC
66 ACCAAAGTTTCTTACCCAGTAAACTATTTCCTAAATTGGTAAGTCATTCGAGCCATCAGTAAGAC
* * *
750578 TTTTGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGACAAGTCCT
131 TTTCGAGCATCATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGACAAGTCAT
*
750643 TTGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAATTGTGAAAATGGGAAAGC
196 TCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAATTGTGAAAATGGGAAAGC
750705 GATTTCCAAAGTTTCTCATTTAAATC-TTTTCTAAAAATGAAATTTTTGAAAAACAAGAAA-CGA
1 GATTTCCAAAGTTTCTCATTT-AATCTTTTTC-AAAAATGAAATTTTTGAAAAACAAGAAAGCGA
* * *
750768 TTACCAAAGTTTCTTACCCAGTAAATTATTT-CTGAAATTGGTAAGTCATTCGGGCCATTAGTAA
64 TTACCAAAGTTTCTTACCCAGTAAACTATTTCCT-AAATTGGTAAGTCATTCGAGCCATCAGTAA
* * *
750832 GACTTTCGAGCATCATGATTAAATCCTTCGGGTCAGT-TGTAAGTCTTTCAAGGAAGATTATAAG
128 GACTTTCGAGCATCATGATTAAATCCTTCGGGTCA-TCTGTAAGTCTTTCAAGCAAGATGACAAG
750896 TCATTCGGGCCATCCGTAAG
192 TCATTCGGGCCATCCGTAAG
750916 TCTTTCGAGC
Statistics
Matches: 189, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
256 2 0.01
257 157 0.83
258 30 0.16
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (257 bp):
GATTTCCAAAGTTTCTCATTTAATCTTTTTCAAAAATGAAATTTTTGAAAAACAAGAAAGCGATT
ACCAAAGTTTCTTACCCAGTAAACTATTTCCTAAATTGGTAAGTCATTCGAGCCATCAGTAAGAC
TTTCGAGCATCATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGACAAGTCAT
TCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATGAATTGTGAAAATGGGAAAGC
Found at i:750915 original size:41 final size:41
Alignment explanation
Indices: 750809--750956 Score: 149
Period size: 41 Copynumber: 3.6 Consensus size: 41
750799 CTGAAATTGG
** * *
750809 TAAGTCATTCGGGCCATTAGTAAGACTTTCGAGCATCATGATTA
1 TAAGTCATTCGGGCCATCCGTAAGTCTTTCAAGCA--A-GATTA
* * * *
750853 -AA-TCCTTCGGGTCAGT-TGTAAGTCTTTCAAGGAAGATTA
1 TAAGTCATTCGGGCCA-TCCGTAAGTCTTTCAAGCAAGATTA
*
750892 TAAGTCATTCGGGCCATCCGTAAGTCTTTCGAGCAAGATTA
1 TAAGTCATTCGGGCCATCCGTAAGTCTTTCAAGCAAGATTA
*
750933 TAAGTCATTCGGGCCATCCATAAG
1 TAAGTCATTCGGGCCATCCGTAAG
750957 ACCTTCGGGT
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.06
40 4 0.05
41 53 0.60
42 23 0.26
43 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (41 bp):
TAAGTCATTCGGGCCATCCGTAAGTCTTTCAAGCAAGATTA
Found at i:751385 original size:3 final size:3
Alignment explanation
Indices: 751379--751426 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
751369 CTAATAATTT
*
751379 TTA TTA TTA TTA -TA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
751426 T
1 T
751427 ATTTTTATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:755090 original size:38 final size:38
Alignment explanation
Indices: 755041--755117 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
755031 ACTTGAAAAG
**
755041 AAAAAAGTTTTTTCATAAAAATGAATTTGTCCAAATAA
1 AAAAAAGTTTTTTCATAAAAATGAATTCCTCCAAATAA
755079 AAAAAAGTTTTTTCATAAAAATGAATTCCTCCAAATAA
1 AAAAAAGTTTTTTCATAAAAATGAATTCCTCCAAATAA
755117 A
1 A
755118 CAAACATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.32
Consensus pattern (38 bp):
AAAAAAGTTTTTTCATAAAAATGAATTCCTCCAAATAA
Found at i:756610 original size:300 final size:296
Alignment explanation
Indices: 756238--757418 Score: 1205
Period size: 300 Copynumber: 4.0 Consensus size: 296
756228 TTGTCAGTGT
* * *
756238 TTGTCAGTGTTTGTTCTGTTTTTGAGAGTTCTTTATATTGA-AAGTTCGTTACCT-GGTTACATT
1 TTGTCAGTGTTTGTTCTGTTTTTGAGAGTTCTTTATATTGATATGTTAGTTAGCTAGGTTACATT
* *
756301 AGTAATAATCAATTGTGTAGATGCAAACCTGCAGAGTTTTGTAATATATACATT-TCTTGGCCAT
66 AATAATAATCAATTGTTTAGATGCAAACCTGCAGAGTTTTGTAATATATACATTGT-TTGGCCAT
756365 GATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAAGTTCCTAATTGCTACTGTTTATGC
130 GATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAA--TCCT-ATTGCTACT-TTTATGC
* * *
756430 TGCCAATGGATCCTATTTATAGATAGATTGTCTGATGGGAATAGTATATGTGTAAGATGTTTTTT
191 TGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGG-ATAGTATATCTGTAAGATGTTTTTT
*
756495 GTTAGGGTTAACATATTAACATTTTTATGGTCCATGAAAGCC
255 GTTAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCC
* * *
756537 TTATCAGTGTTTTGTTCTGTTTTTGAGAGTGCTTTATATTGA-ATGTTTGTTAGCT-GGTTACAT
1 TTGTCAGTG-TTTGTTCTGTTTTTGAGAGTTCTTTATATTGATATGTTAGTTAGCTAGGTTACAT
* **
756600 TAATAATAATCAATTGTCTAGATGCAAACCTTTAGAGTTTTGTAATATATACATTGTTTGGCCAT
65 TAATAATAATCAATTGTTTAGATGCAAACCTGCAGAGTTTTGTAATATATACATTGTTTGGCCAT
* *
756665 GATTGACTGTTTAGAATGCAAACACTGCTAATGAATCC---T--GATTGCTACTTCTTATGCTGC
130 GATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATCCTATTGCTACTT-TTATGCTGC
* *
756725 CAATGGATCCTATTTATATAGAGATTGG-T--T--GAT-G-------G---GA-----TTTGGTA
194 CAATGGATCCTATTTATAGAGAGATTGGCTGATGGGATAGTATATCTGTAAGATGTTTTTTGTTA
*
756769 GGGTTAACATATTAATATTTTTATGGTCAATGAAAGCC
259 GGGTTAACATATTAACATTTTTATGGTCAATGAAAGCC
* * * **
756807 TTGTCAGTCAGTGTTTGATCTGTTTTTGAGAGTTCTTTATACTGATTTCGTTAGCTTAAAAATTA
1 -T-T--GTCAGTGTTTGTTCTGTTTTTGAGAGTTCTTTATATTGATAT-GTTAG-TT---AGCTA
* * * * * * * *
756872 GGATGATACATTAATAGTAAACAATTGTTTGGGTTCAAACCTACAGAG-TTTGCAAAATATACAT
57 GG-T--TACATTAATAATAATCAATTGTTTAGATGCAAACCTGCAGAGTTTTGTAATATATACAT
* *
756936 TGTTTGGCCATGATTTACTATTTAGAATGCAAACACTACTAATGAATCCT-A----ATTGCTACT
119 TGTTTGGCCATGATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATCCTATTGCTACT
* * *
756996 ACTTATGCTGCCAATGGATCCTATTTATAGAGAGGTTGGCTGATGGGATCAGTATCTCTGTAAGA
184 -TTTATGCTGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGGAT-AGTATATCTGTAAGA
*
757061 TGTTTCGTTGTTAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCC
247 TGTTT-TTTGTTAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCC
* *
757112 TTGTAAGTGTTTGTTCTGTTTTTTTG-GAGTTCTTTATACAATT-ATACTGAAAATTAG-GATGA
1 TTGTCAGTGTTTGTTCTG--TTTTTGAGAGTTCTTTAT---ATTGATA-TG----TTAGTTA-G-
* * * *
757174 CATGGGTTACATTAATAATAATCAATTGTTTAGGTGCAAACCTGCAGAGTTTTCTAATATATACG
54 C-TAGGTTACATTAATAATAATCAATTGTTTAGATGCAAACCTGCAGAGTTTTGTAATATATACA
* *
757239 TTTTTTGGCCATGATTGACTATTTAGAAAGCAAACACTGCTAATGAATCCT-A----ATTGCTAC
118 TTGTTTGGCCATGATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATCCTATTGCTA-
** * *
757299 CGCTTATGCTGCCAATGGATCCTATTAATAGAGAGATTGGCTGATGGGATTAGTATTTCTGTAAG
182 CTTTTATGCTGCCAATGGATCCTATTTATAGAGAGATTGGCTGATGGGA-TAGTATATCTGTAAG
*
757364 ATGTTTTTTTGTTA-GGTTAACATATTGAA-ATTTTTGTGGTCAATGAAAGCC
246 ATG-TTTTTTGTTAGGGTTAACATATT-AACATTTTTATGGTCAATGAAAGCC
757415 TTGT
1 TTGT
757419 AACTTGTAAG
Statistics
Matches: 750, Mismatches: 71, Indels: 118
0.80 0.08 0.13
Matches are distributed among these distances:
270 42 0.06
271 1 0.00
272 1 0.00
273 29 0.04
274 7 0.01
275 6 0.01
276 2 0.00
278 1 0.00
279 2 0.00
280 2 0.00
281 1 0.00
282 104 0.14
283 35 0.05
285 2 0.00
286 2 0.00
287 4 0.01
289 2 0.00
291 2 0.00
292 43 0.06
295 1 0.00
296 1 0.00
299 10 0.01
300 145 0.19
301 15 0.02
302 11 0.01
303 82 0.11
304 139 0.19
305 51 0.07
306 3 0.00
308 4 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (296 bp):
TTGTCAGTGTTTGTTCTGTTTTTGAGAGTTCTTTATATTGATATGTTAGTTAGCTAGGTTACATT
AATAATAATCAATTGTTTAGATGCAAACCTGCAGAGTTTTGTAATATATACATTGTTTGGCCATG
ATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATCCTATTGCTACTTTTATGCTGCCA
ATGGATCCTATTTATAGAGAGATTGGCTGATGGGATAGTATATCTGTAAGATGTTTTTTGTTAGG
GTTAACATATTAACATTTTTATGGTCAATGAAAGCC
Found at i:756980 original size:282 final size:278
Alignment explanation
Indices: 756492--757349 Score: 902
Period size: 282 Copynumber: 3.0 Consensus size: 278
756482 TAAGATGTTT
* * *
756492 TTTGTTAGGGTTAACATATTAACATTTTTATGGTCCATGAAAGCCTTATCAGT-GT-TTTGTTCT
1 TTTGGTAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCCTTGTCAGTAGTGTTTGTTCT
* * * * **
756555 GTTTTTGAGAGTGCTTTATATTGAATGTTTG-TT--AGCT-GG-T--TACATTAATAATAATCAA
66 GTTTTTGAGAGTTCTTTATACTGATTGTTAGCTTAAAATTAGGATGATACATTAATAATAATCAA
* * ** * *
756613 TTGTCTAGATGCAAACCTTTAGAGTTTTGTAATATATACATTGTTTGGCCATGATTGACTGTTTA
131 TTGTTTAGGTGCAAACCTACAGAG-TTTGCAATATATACATTGTTTGGCCATGATTGACTATTTA
* *
756678 GAATGCAAACACTGCTAATGAATCCTGATTGCTACTTCTTATGCTGCCAATGGATCCTATTTATA
195 GAATGCAAACACTGCTAATGAATCCTAATTGCTACTACTTATGCTGCCAATGGATCCTATTTATA
*
756743 TAGAGATTGGTTGATGGGA
260 GAGAGATTGGTTGATGGGA
* *
756762 TTTGGTAGGGTTAACATATTAATATTTTTATGGTCAATGAAAGCCTTGTCAGTCAGTGTTTGATC
1 TTTGGTAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCCTTGTCAGT-AGTGTTTGTTC
*
756827 TGTTTTTGAGAGTTCTTTATACTGATTTCGTTAGCTTAAAAATTAGGATGATACATTAATAGTAA
65 TGTTTTTGAGAGTTCTTTATACTGA-TT-GTTAGCTT-AAAATTAGGATGATACATTAATAATAA
* * * * *
756892 ACAATTGTTTGGGTTCAAACCTACAGAGTTTGCAAAATATACATTGTTTGGCCATGATTTACTAT
127 TCAATTGTTTAGGTGCAAACCTACAGAGTTTGCAATATATACATTGTTTGGCCATGATTGACTAT
*
756957 TTAGAATGCAAACACTACTAATGAATCCTAATTGCTACTACTTATGCTGCCAATGGATCCTATTT
192 TTAGAATGCAAACACTGCTAATGAATCCTAATTGCTACTACTTATGCTGCCAATGGATCCTATTT
*
757022 ATAGAGAGGTTGGCTGATGGGATCAGTATCTCTGTAAGA
257 ATAGAGAGATTGG-T--T--GAT--G-------G---GA
757061 TGTTTCGTTGTTAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCCTTGT-A--AGTGTT
1 --TTT-G--G-TAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCCTTGTCAGTAGTGTT
* * *
757123 TGTTCTGTTTTTTTG-GAGTTCTTTATAC-AATT-ATA-CTGAAAATTAGGATGACATGGGTTAC
60 TGTTCTG--TTTTTGAGAGTTCTTTATACTGATTGTTAGCTTAAAATTAGGATG--A-----TAC
* * * *
757184 ATTAATAATAATCAATTGTTTAGGTGCAAACCTGCAGAGTTTTCTAATATATACGTTTTTTGGCC
116 ATTAATAATAATCAATTGTTTAGGTGCAAACCTACAGAGTTTGC-AATATATACATTGTTTGGCC
* **
757249 ATGATTGACTATTTAGAAAGCAAACACTGCTAATGAATCCTAATTGCTACCGCTTATGCTGCCAA
180 ATGATTGACTATTTAGAATGCAAACACTGCTAATGAATCCTAATTGCTACTACTTATGCTGCCAA
* *
757314 TGGATCCTATTAATAGAGAGATTGGCTGATGGGA
245 TGGATCCTATTTATAGAGAGATTGGTTGATGGGA
757348 TT
1 TT
757350 AGTATTTCTG
Statistics
Matches: 492, Mismatches: 50, Indels: 77
0.79 0.08 0.12
Matches are distributed among these distances:
270 49 0.10
272 2 0.00
273 29 0.06
274 1 0.00
275 4 0.01
276 2 0.00
279 2 0.00
280 2 0.00
281 1 0.00
282 106 0.22
283 35 0.07
285 3 0.01
287 5 0.01
289 1 0.00
290 1 0.00
296 13 0.03
297 3 0.01
298 3 0.01
299 5 0.01
300 2 0.00
301 17 0.03
302 14 0.03
303 47 0.10
304 102 0.21
305 43 0.09
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (278 bp):
TTTGGTAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCCTTGTCAGTAGTGTTTGTTCT
GTTTTTGAGAGTTCTTTATACTGATTGTTAGCTTAAAATTAGGATGATACATTAATAATAATCAA
TTGTTTAGGTGCAAACCTACAGAGTTTGCAATATATACATTGTTTGGCCATGATTGACTATTTAG
AATGCAAACACTGCTAATGAATCCTAATTGCTACTACTTATGCTGCCAATGGATCCTATTTATAG
AGAGATTGGTTGATGGGA
Found at i:757317 original size:304 final size:298
Alignment explanation
Indices: 756767--757420 Score: 870
Period size: 304 Copynumber: 2.2 Consensus size: 298
756757 TGGGATTTGG
756767 TAGGGTTAACATATTAATATTTTTATGGTCAATGAAAGCCTTGTCAGTCAGTGTTTGATCTGTTT
1 TAGGGTTAACATATTAA-ATTTTTATGGTCAATGAAAGCCTTGT-A---AGTGTTTGATCTGTTT
* * *
756832 TTGAGAGTTCTTTATACTGATTTCGTTAGCTTAAAAATTAGGATGATACATTAATAGTAAACAAT
61 TTGAGAGTTCTTTATAC-GAATTC-ATAGCTTAAAAATTAGGATGATACATTAATAATAAACAAT
* * *
756897 TGTTTGGGTTCAAACCTACAGAGTTTGCAAAATATACATTGTTTGGCCATGATTTACTATTTAGA
124 TGTTTAGGTGCAAACCTACAGAGTTTGCAAAATATACATTGTTTGGCCATGATTGACTATTTAGA
* * *
756962 ATGCAAACACTACTAATGAATCCTAATTGCTACTACTTATGCTGCCAATGGATCCTATTTATAGA
189 AAGCAAACACTACTAATGAATCCTAATTGCTACCACTTATGCTGCCAATGGATCCTATTAATAGA
*
757027 GAGGTTGGCTGATGGGATCAGTATCTCTGTAAGATGTTTCGTTGT
254 GAGATTGGCTGATGGGATCAGTATCTCTGTAAGATGTTTCGTTGT
*
757072 TAGGGTTAACATATTAACATTTTTATGGTCAATGAAAGCCTTGTAAGTGTTTGTTCTGTTTTTTT
1 TAGGGTTAACATATTAA-ATTTTTATGGTCAATGAAAGCCTTGTAAGTGTTTGATCTG--TTTTT
* *
757137 G-GAGTTCTTTATAC-AATT-ATA-C-TGAAAATTAGGATGACATGGGTTACATTAATAATAATC
63 GAGAGTTCTTTATACGAATTCATAGCTTAAAAATTAGGATG--A-----TACATTAATAATAAAC
* * * * *
757197 AATTGTTTAGGTGCAAACCTGCAGAGTTTTCTAATATATACGTTTTTTGGCCATGATTGACTATT
121 AATTGTTTAGGTGCAAACCTACAGAGTTTGC-AAAATATACATTGTTTGGCCATGATTGACTATT
* *
757262 TAGAAAGCAAACACTGCTAATGAATCCTAATTGCTACCGCTTATGCTGCCAATGGATCCTATTAA
185 TAGAAAGCAAACACTACTAATGAATCCTAATTGCTACCACTTATGCTGCCAATGGATCCTATTAA
* * **
757327 TAGAGAGATTGGCTGATGGGATTAGTATTTCTGTAAGATGTTTTTTTGT
250 TAGAGAGATTGGCTGATGGGATCAGTATCTCTGTAAGATGTTTCGTTGT
*
757376 TA-GGTTAACATATTGAAATTTTTGTGGTCAATGAAAGCCTTGTAA
1 TAGGGTTAACATATT-AAATTTTTATGGTCAATGAAAGCCTTGTAA
757421 CTTGTAAGTG
Statistics
Matches: 312, Mismatches: 26, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
296 13 0.04
297 1 0.00
298 3 0.01
300 3 0.01
301 12 0.04
302 13 0.04
303 86 0.28
304 138 0.44
305 43 0.14
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (298 bp):
TAGGGTTAACATATTAAATTTTTATGGTCAATGAAAGCCTTGTAAGTGTTTGATCTGTTTTTGAG
AGTTCTTTATACGAATTCATAGCTTAAAAATTAGGATGATACATTAATAATAAACAATTGTTTAG
GTGCAAACCTACAGAGTTTGCAAAATATACATTGTTTGGCCATGATTGACTATTTAGAAAGCAAA
CACTACTAATGAATCCTAATTGCTACCACTTATGCTGCCAATGGATCCTATTAATAGAGAGATTG
GCTGATGGGATCAGTATCTCTGTAAGATGTTTCGTTGT
Found at i:758038 original size:13 final size:14
Alignment explanation
Indices: 758020--758052 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
758010 CTCCAACTTC
758020 TTATTTTAACC-TT
1 TTATTTTAACCTTT
*
758033 TTATTTTAGCCTTT
1 TTATTTTAACCTTT
758047 TTATTT
1 TTATTT
758053 GCCTTCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.67
Consensus pattern (14 bp):
TTATTTTAACCTTT
Found at i:758795 original size:83 final size:83
Alignment explanation
Indices: 758635--758801 Score: 246
Period size: 83 Copynumber: 2.0 Consensus size: 83
758625 TTGAGAACTT
* * *
758635 TCATACCAATATCTTCTAATTAATTTAACAGGTTAATCTTGTTTTAAAAAATCTATCAGAAGGAT
1 TCATACCAATATCTTCTAATTAATATAAAAGGTTAATCTTCTTTTAAAAAATCTATCAGAAGGAT
*
758700 AATATAATAAAATG-TAC
66 AATATAACAAAATGCTAC
* *
758717 TCATGCCAATATCTTCTAATTTAATATAAAAGGTTAATCTTCTTTTAAAAAATCTATCGGAAGGA
1 TCATACCAATATCTTCTAA-TTAATATAAAAGGTTAATCTTCTTTTAAAAAATCTATCAGAAGGA
* *
758782 TAATTTAGCAAAATGCTAC
65 TAATATAACAAAATGCTAC
758801 T
1 T
758802 TAATATGGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
82 18 0.24
83 53 0.71
84 4 0.05
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (83 bp):
TCATACCAATATCTTCTAATTAATATAAAAGGTTAATCTTCTTTTAAAAAATCTATCAGAAGGAT
AATATAACAAAATGCTAC
Found at i:767060 original size:31 final size:31
Alignment explanation
Indices: 767024--767082 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
767014 AACTTAAAAG
*
767024 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
* *
767055 AGTTTTATAATATTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
767083 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:767134 original size:22 final size:22
Alignment explanation
Indices: 767106--767513 Score: 470
Period size: 22 Copynumber: 18.6 Consensus size: 22
767096 ATAATAATTT
767106 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
767128 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
*
767150 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
767172 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
***
767194 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
* *
767216 TTTTAAAATAAATCAATCCATT
1 TTTTAAAATAAATCAATTCATA
**
767238 TTTTAAAATAAATCAACCCATA
1 TTTTAAAATAAATCAATTCATA
*
767260 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
**
767282 TTTTAAAATAAAT-TTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
* *
767304 TTTTAACATAAATCAATTCACA
1 TTTTAAAATAAATCAATTCATA
***
767326 TTTTAAAAT-AATTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
767347 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
**
767369 TTTTAAAATAAAT-TTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
* * *
767391 TTTTAAAATAAATCAATCCTTT
1 TTTTAAAATAAATCAATTCATA
* ***
767413 TTTTTAAAT-AATTTTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
*
767435 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
767457 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
767479 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
767501 TTTTAAAATAAAT
1 TTTTAAAATAAAT
767514 TTTAAAATAG
Statistics
Matches: 326, Mismatches: 48, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
21 28 0.09
22 289 0.89
23 9 0.03
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:767172 original size:44 final size:44
Alignment explanation
Indices: 767106--767516 Score: 544
Period size: 44 Copynumber: 9.4 Consensus size: 44
767096 ATAATAATTT
**
767106 TTTTAAAATAAATCAATT-CATATTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAAT-TTTTCCATATTTTAAAATAAATCAATCTATA
*** *
767150 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCTATA
* * *
767194 TTTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATCCATT
1 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCTATA
**** *
767238 TTTTAAAATAAATCAACCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCTATA
* *
767282 TTTTAAAATAAATTTTTCCATATTTTAACATAAATCAAT-TCACA
1 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCT-ATA
*
767326 TTTTAAAAT-AATTTTTTCATATTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCTATA
*
767369 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCCT-TT
1 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAAT-CTATA
* * *
767413 TTTTTAAATAATTTTTTCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCTATA
**
767457 TTTTAAAATAAATCAATT-CATATTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAAT-TTTTCCATATTTTAAAATAAATCAATCTATA
767501 TTTTAAAATAAATTTT
1 TTTTAAAATAAATTTT
767517 AAAATAGATT
Statistics
Matches: 323, Mismatches: 37, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
43 42 0.13
44 277 0.86
45 4 0.01
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.44
Consensus pattern (44 bp):
TTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCTATA
Found at i:779468 original size:27 final size:27
Alignment explanation
Indices: 779432--779485 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
779422 GGCCCAGTTT
779432 TTATTTTGAGAAATACGGTAAATGCTA
1 TTATTTTGAGAAATACGGTAAATGCTA
779459 TTATTTTGAGAAATACGGTAAATGCTA
1 TTATTTTGAGAAATACGGTAAATGCTA
779486 CAGTGCACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (27 bp):
TTATTTTGAGAAATACGGTAAATGCTA
Found at i:788334 original size:16 final size:17
Alignment explanation
Indices: 788297--788337 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
788287 AAAATATAAA
*
788297 TAAA-TTTATTTTTCTT
1 TAAATTTTAATTTTCTT
*
788313 TTAATTTTAATTTT-TT
1 TAAATTTTAATTTTCTT
788329 TAAATTTTA
1 TAAATTTTA
788338 TCCGGTCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TAAATTTTAATTTTCTT
Found at i:788419 original size:26 final size:26
Alignment explanation
Indices: 788367--788422 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
788357 GTTCTTTTGA
* *
788367 TTTT-TTTTTAATTTAAAAATTTTAT
1 TTTTATTTTTAATTTAAAAATATAAT
788392 TTTTATTTTATAATTTAAAAA-ATAAT
1 TTTTATTTT-TAATTTAAAAATATAAT
788418 TTTTA
1 TTTTA
788423 AGAGATTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 4 0.15
26 12 0.44
27 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTATTTTTAATTTAAAAATATAAT
Found at i:788421 original size:27 final size:25
Alignment explanation
Indices: 788367--788421 Score: 58
Period size: 27 Copynumber: 2.1 Consensus size: 25
788357 GTTCTTTTGA
**
788367 TTTTTTTTTAATTTAAAAATTTTAT
1 TTTTTTTTTAATTTAAAAATAATAT
788392 TTTTATTTTATAATTTAAAAAATAAT-T
1 TTTT-TTTT-TAATTT-AAAAATAATAT
788419 TTT
1 TTT
788422 AAGAGATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 4 0.16
26 4 0.16
27 10 0.40
28 7 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTTTTTAATTTAAAAATAATAT
Found at i:789057 original size:77 final size:78
Alignment explanation
Indices: 788949--789095 Score: 242
Period size: 77 Copynumber: 1.9 Consensus size: 78
788939 TTAATTTAAA
* * *
788949 TATTTTTGTTAGCCGAAAATGCGACAAGGAAATAAGTTGACTTGGTAATTAAAGTTTGAGTCTTT
1 TATTTTTGTTAGCCGAAAATACGACAAGGAAATAAGTTGAATTGGTAATTAAAGTTTGAGCCTTT
789014 CATCCTCAATTTT
66 CATCCTCAATTTT
* *
789027 TATTTTTGTTAGTC-AAAATACGACAAGGAAATAAGTTGAATTGGTAATTAGAGTTTGAGCCTTT
1 TATTTTTGTTAGCCGAAAATACGACAAGGAAATAAGTTGAATTGGTAATTAAAGTTTGAGCCTTT
789091 CATCC
66 CATCC
789096 ACTAGATCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
77 51 0.80
78 13 0.20
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (78 bp):
TATTTTTGTTAGCCGAAAATACGACAAGGAAATAAGTTGAATTGGTAATTAAAGTTTGAGCCTTT
CATCCTCAATTTT
Found at i:792382 original size:31 final size:33
Alignment explanation
Indices: 792344--792404 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
792334 ATTTGTGCAG
792344 TTAATATT-TAAAAAATATAA-C-ATTATATTTT
1 TTAATATTAT-AAAAATATAATCAATTATATTTT
*
792375 TTAATATTATAATAATATAATCAATTATAT
1 TTAATATTATAAAAATATAATCAATTATAT
792405 CATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 17 0.65
32 2 0.08
33 7 0.27
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (33 bp):
TTAATATTATAAAAATATAATCAATTATATTTT
Found at i:792404 original size:23 final size:23
Alignment explanation
Indices: 792378--792430 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
792368 ATATTTTTTA
792378 ATATTATAATAATATAATCA-ATT
1 ATATTATAATAATAT-ATCATATT
* *
792401 ATATCATAATAATATATGATATT
1 ATATTATAATAATATATCATATT
792424 ATATTAT
1 ATATTAT
792431 TATTTTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (23 bp):
ATATTATAATAATATATCATATT
Found at i:792536 original size:27 final size:28
Alignment explanation
Indices: 792489--792552 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
792479 AATTTTCTAA
792489 AAATAATATTATTGAATTA-TTAATAAT
1 AAATAATATTATTGAATTATTTAATAAT
* * *
792516 AAATTATATTATTTACA-TATTTAATATT
1 AAATAATATTATTGA-ATTATTTAATAAT
792544 AATATAATA
1 AA-ATAATA
792553 GTCTAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 15 0.50
28 10 0.33
29 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (28 bp):
AAATAATATTATTGAATTATTTAATAAT
Found at i:792694 original size:16 final size:17
Alignment explanation
Indices: 792670--792708 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
792660 TTATAAAGTT
* *
792670 ATAAAAATAAT-ATGTC
1 ATAATAATAATAATGAC
792686 ATAATAATAATAATGAC
1 ATAATAATAATAATGAC
792703 ATAATA
1 ATAATA
792709 GTATTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (17 bp):
ATAATAATAATAATGAC
Found at i:793425 original size:17 final size:17
Alignment explanation
Indices: 793399--793435 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
793389 TCTTTTTAAA
*
793399 AAATATATATATATAAT
1 AAATAAATATATATAAT
*
793416 AAATAAATATATATATT
1 AAATAAATATATATAAT
793433 AAA
1 AAA
793436 AATAAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATAAATATATATAAT
Found at i:793427 original size:19 final size:19
Alignment explanation
Indices: 793399--793442 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 19
793389 TCTTTTTAAA
793399 AAATATATATATATAATAAAT
1 AAATATATATAT-TAA-AAAT
793420 AAATATATATATTAAAAAT
1 AAATATATATATTAAAAAT
793439 AAAT
1 AAAT
793443 TTCATTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.35
20 3 0.13
21 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATATATATATTAAAAAT
Found at i:800262 original size:287 final size:286
Alignment explanation
Indices: 799729--800302 Score: 1098
Period size: 287 Copynumber: 2.0 Consensus size: 286
799719 AAATTGTACA
799729 ACCGGAAAACTTAACTTGTCGTTCGTGTCGATCCAAATTAAAAATGTATCGATCCAACGAATAAC
1 ACCGGAAAACTTAACTTG-CGTTCGTGTCGATCCAAATTAAAAATGTATCGATCCAACGAATAAC
799794 AGGTAAAACTATGACAAAACCGGTATTGAAATGATAAAACCGGTAAAGCGGTACCGGATATATTT
65 AGGTAAAACTATGACAAAACCGGTATTGAAATGATAAAACCGGTAAAGCGGTACCGGATATATTT
799859 AAAGTGTCGGTACTTTAATATAAGGATCGACACTTCATTAATTTAAAAGAGAAGCAGTTTTAGCG
130 AAAGTGTCGGTACTTTAATATAAGGATCGACACTTCATTAATTTAAAAGAGAAGCAGTTTTAGCG
799924 CCTATAAAGTGTCGATACTTTAAAAAAATGTATCGATCCACAACGATATAACATATAAAAATATG
195 CCTATAAAGTGTCGATACTTTAAAAAAATGTATCGATCCACAACGATATAACATATAAAAATATG
799989 ATAAAA-CGGTATCAAAATGATGAAAC
260 ATAAAACCGGTATCAAAATGATGAAAC
800015 ACCGGAAAACTTAACTTG-GTTCGTGTCGATCCAAATTAAAAATGTATCGATCCACAACGATATA
1 ACCGGAAAACTTAACTTGCGTTCGTGTCGATCCAAATTAAAAATGTATCGAT-C-CAACGA-ATA
800079 ACAGGTAAAACTATGACAAAACCGGTATTGAAATGATAAAACCGGTAAAGCGGTACCGGATATAT
63 ACAGGTAAAACTATGACAAAACCGGTATTGAAATGATAAAACCGGTAAAGCGGTACCGGATATAT
800144 TTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCATTAATTTAAAAGAGAAGCAGTTTTAG
128 TTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCATTAATTTAAAAGAGAAGCAGTTTTAG
800209 CGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCGATCCACAACGATATAACATATAAAAATA
193 CGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCGATCCACAACGATATAACATATAAAAATA
800274 TGATAAAACCGGTATCAAAATGATGAAAC
258 TGATAAAACCGGTATCAAAATGATGAAAC
800303 CGGTAAAACG
Statistics
Matches: 284, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
284 33 0.12
285 1 0.00
286 24 0.08
287 206 0.73
288 20 0.07
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (286 bp):
ACCGGAAAACTTAACTTGCGTTCGTGTCGATCCAAATTAAAAATGTATCGATCCAACGAATAACA
GGTAAAACTATGACAAAACCGGTATTGAAATGATAAAACCGGTAAAGCGGTACCGGATATATTTA
AAGTGTCGGTACTTTAATATAAGGATCGACACTTCATTAATTTAAAAGAGAAGCAGTTTTAGCGC
CTATAAAGTGTCGATACTTTAAAAAAATGTATCGATCCACAACGATATAACATATAAAAATATGA
TAAAACCGGTATCAAAATGATGAAAC
Found at i:800436 original size:181 final size:182
Alignment explanation
Indices: 800052--800524 Score: 795
Period size: 181 Copynumber: 2.6 Consensus size: 182
800042 GATCCAAATT
* * * **
800052 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
800117 AAACCGGTAAAGCGGTACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
800182 ATTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
131 ATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* *
800234 AAAAATGTATCGATCCACAACGATATAACATATAAAAATATGATAAAACCGGTATCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
800299 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
800363 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
131 ATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
*
800415 AAAAATGTATTGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
800480 AAACCGGTAAAACGCTACCGAATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
800525 CGTAAGTACG
Statistics
Matches: 273, Mismatches: 18, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
181 174 0.64
182 99 0.36
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
ATGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:802648 original size:15 final size:15
Alignment explanation
Indices: 802630--802661 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
802620 TGGTTGTATT
*
802630 GGGGATGACGGTGAG
1 GGGGACGACGGTGAG
802645 GGGGACGACGGTGAG
1 GGGGACGACGGTGAG
802660 GG
1 GG
802662 AAAACAGAGT
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:0.19, C:0.09, G:0.62, T:0.09
Consensus pattern (15 bp):
GGGGACGACGGTGAG
Found at i:802770 original size:21 final size:21
Alignment explanation
Indices: 802744--802808 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
802734 AAGACAATCA
* *
802744 AGAGTCGAAGAGAAATTTGAT
1 AGAGTCGAAGAGAAACTTGAG
802765 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
802786 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
802807 AG
1 AG
802809 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:802884 original size:33 final size:33
Alignment explanation
Indices: 802842--802907 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
802832 AAATAGATGG
* *
802842 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGGTAAGGGGTGA
*
802875 AGTGGTGAAAGAAGTTGAGGTGGTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGGTAAGGGGTGA
802908 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.21
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGGTAAGGGGTGA
Found at i:804723 original size:19 final size:19
Alignment explanation
Indices: 804699--804747 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
804689 AATGTAGGGT
804699 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
804718 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
804737 TAACTTTGTAT
1 TAATTTTGTAT
804748 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:805327 original size:200 final size:197
Alignment explanation
Indices: 804977--805738 Score: 1222
Period size: 200 Copynumber: 3.9 Consensus size: 197
804967 AATTTACAAT
*
804977 ATGGCAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTG-CGATCCCAGAAACAT
805042 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
65 CGAAA-CCATAAGTATAATGTAATAGGTAA-TTTTCAATCTAACCGGTATAAGTATACCGGTTTT
*
805107 ATGAGAGATTAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
128 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
805172 AATGA
193 AATGA
* *
805177 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCAATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTG-CGATCCCAGAAACAT
805242 CGAAACACATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
65 CGAAAC-CATAAGTATAATGTAATAGGTAA-TTTTCAATCTAACCGGTATAAGTATACCGGTTTT
* * * *
805307 ATAAGAGAATAGGAGTAATATATGTATTGACACTTTTTAATTTTGTGTCGATACTATTGGTCTAG
128 ATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
805372 AATGA
193 AATGA
805377 ATGGCAAACAGGGTGCAACCATAAA-----G---------T-----GT-CGATCCCAGAAACATC
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGCGATCCCAGAAACATC
805422 GAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTA
66 GAAA-CCATAAGTATAATGTAATAGGTAA-TTTTCAATCTAACCGGTATAAGTATACCGGTTTTA
*
805487 TGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCAATACTATTGGTCCAGA
129 TGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
805552 ATGA
194 ATGA
805556 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGCGATCCCAGAAACATC
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGCGATCCCAGAAACATC
805621 GAAACCATAAGTATAATGTAATAGGTAATTTTCAATCTAACCGGTATAAGTATACCGGTTTTATG
66 GAAACCATAAGTATAATGTAATAGGTAATTTTCAATCTAACCGGTATAAGTATACCGGTTTTATG
*
805686 AGATAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTA
131 AGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTA
805739 ATTTAAATAT
Statistics
Matches: 524, Mismatches: 16, Indels: 47
0.89 0.03 0.08
Matches are distributed among these distances:
179 167 0.32
180 1 0.00
181 2 0.00
184 1 0.00
186 1 0.00
193 1 0.00
195 1 0.00
197 88 0.17
198 26 0.05
199 21 0.04
200 215 0.41
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (197 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGCGATCCCAGAAACATC
GAAACCATAAGTATAATGTAATAGGTAATTTTCAATCTAACCGGTATAAGTATACCGGTTTTATG
AGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGAAT
GA
Found at i:805529 original size:179 final size:179
Alignment explanation
Indices: 805223--805738 Score: 764
Period size: 179 Copynumber: 2.8 Consensus size: 179
805213 TATATAAAAG
* *
805223 GTGTCAATCCCAGAAACATCGAAACACATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCG
1 GTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCG
* * *
805288 GTATAAGTATACCGGTTTTATAAGAGAATAGGAGTAATATATGTATTGACACTTTTTAATTTTGT
66 GTATAAGTATACCGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGT
*
805353 GTCGATACTATTGGTCTAGAATGAATGGCAAACAGGGTGCAACCATAAA
131 GTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAA
805402 GTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCG
1 GTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCG
805467 GTATAAGTATACCGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGT
66 GTATAAGTATACCGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGT
*
805532 GTCAATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAA
131 GTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAA
* *
805581 GTGTCGATCCATATATAAAAAGTGCGATCCCAGAAACATCGAAACCATAAGTATAATGTAATAGG
1 GTGTCGATCC-----CAGAAA---C-AT--C-G-AA-A-C----CCATAAGTATAATGTAATAGG
*
805646 TAA-TTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGAGATAATAGGTGTAATATATGTAT
47 TAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGAGAGAATAGGTGTAATATATGTAT
805710 CGACACTTTTTAATTTTGTGTCGATACTA
112 CGACACTTTTTAATTTTGTGTCGATACTA
805739 ATTTAAATAT
Statistics
Matches: 307, Mismatches: 11, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
179 182 0.59
184 4 0.01
187 1 0.00
188 2 0.01
190 1 0.00
191 1 0.00
192 2 0.01
193 1 0.00
194 1 0.00
197 88 0.29
198 24 0.08
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (179 bp):
GTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCG
GTATAAGTATACCGGTTTTATGAGAGAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGT
GTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAA
Found at i:808701 original size:184 final size:184
Alignment explanation
Indices: 808207--808914 Score: 1249
Period size: 184 Copynumber: 3.9 Consensus size: 184
808197 ATATCAGCAT
808207 AAAGTGTCGA-ATCCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGT
1 AAAGTGTCGATA-CCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGT
*
808271 AATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAAC
65 AATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAAC
* *
808336 CTATATCGACACTTTTTAATATTATGTTGCTACTTTATGTCCAGAATGGATGAAA
130 CTATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
* **
808391 AAAATGTCGATACCTTTTCAAAAAGT-TAAATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* *
808455 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACT
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
*
808520 TATATCGACAGTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
* * *
808574 AAAGTATCGATACCTTTTCAAAAAGTGTTGATTGAAAAAACATCAGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* *
808639 ATAAGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
* *
808704 TATATCGACACTTTTTTATATTGTGTCGCTACTTTATGTCCATAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
808758 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
808823 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
808888 TATATCGACACTTTTTAATATTGTGTC
131 TATATCGACACTTTTTAATATTGTGTC
808915 AATACTTTTA
Statistics
Matches: 497, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
183 175 0.35
184 321 0.65
185 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (184 bp):
AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
Found at i:811828 original size:22 final size:22
Alignment explanation
Indices: 811769--811830 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
811759 ATTACATAAC
* * *
811769 TTTTA-AAAAAGTATGAAACCT
1 TTTTATAAAAAGTATGGATCAT
811790 TTTTATAAAAAGTATGGATCAT
1 TTTTATAAAAAGTATGGATCAT
811812 TTTTATAAAAAGTATGGAT
1 TTTTATAAAAAGTATGGAT
811831 ACTTTCAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 5 0.14
22 32 0.86
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.39
Consensus pattern (22 bp):
TTTTATAAAAAGTATGGATCAT
Found at i:811977 original size:23 final size:23
Alignment explanation
Indices: 811946--812018 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
811936 ATAGATAAAA
*
811946 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
811969 ATATAATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
811992 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
812015 ATAT
1 ATAT
812019 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:812789 original size:15 final size:15
Alignment explanation
Indices: 812769--812798 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
812759 TCGATACATT
*
812769 TATAAAAAGTATCGA
1 TATAAAAAATATCGA
812784 TATAAAAAATATCGA
1 TATAAAAAATATCGA
812799 AACCGATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (15 bp):
TATAAAAAATATCGA
Found at i:812973 original size:87 final size:87
Alignment explanation
Indices: 812877--813039 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
812867 AAATAGGTCA
812877 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
* *
812942 TCGGTTAAATACCTATTTTATT
66 CCGATTAAATACCTATTTTATT
* *
812964 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
813029 CCGATTAAATA
66 CCGATTAAATA
813040 ATATAACATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGATTAAATACCTATTTTATT
Found at i:813011 original size:23 final size:23
Alignment explanation
Indices: 812961--813005 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
812951 TACCTATTTT
* *
812961 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
812984 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
813006 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:817287 original size:30 final size:30
Alignment explanation
Indices: 817249--817391 Score: 123
Period size: 30 Copynumber: 4.9 Consensus size: 30
817239 GTCTGCATTT
817249 TCTA-TTTAGCCCCTTAAGTTTCTATTTTA
1 TCTATTTTAGCCCCTTAAGTTTCTATTTTA
* * * *
817278 TCCATTTTAGTCCCGTT-AGTTTATGTTTTA
1 TCTATTTTAG-CCCCTTAAGTTTCTATTTTA
* * *
817308 TCTATTTTAGTCCCTGAAGTTTCTATTTTC
1 TCTATTTTAGCCCCTTAAGTTTCTATTTTA
* * * * *
817338 TTTATTTTGGTCCC-TAA-TTTTTATTTTT
1 TCTATTTTAGCCCCTTAAGTTTCTATTTTA
* *
817366 TCTATTTTAGCCCTTTAAGCTTCTAT
1 TCTATTTTAGCCCCTTAAGTTTCTAT
817392 ATTTGTATTC
Statistics
Matches: 87, Mismatches: 22, Indels: 9
0.74 0.19 0.08
Matches are distributed among these distances:
28 19 0.22
29 11 0.13
30 52 0.60
31 5 0.06
ACGTcount: A:0.17, C:0.18, G:0.09, T:0.55
Consensus pattern (30 bp):
TCTATTTTAGCCCCTTAAGTTTCTATTTTA
Found at i:817345 original size:60 final size:57
Alignment explanation
Indices: 817246--817379 Score: 146
Period size: 60 Copynumber: 2.3 Consensus size: 57
817236 AATGTCTGCA
* *
817246 TTTTCTA-TTTAGCCCCTTAAGTTTCTATTTTATCCATTTTAGTCCCGTTA-GTTTATGT
1 TTTTCTATTTTAG-CCCTGAAGTTTCTATTTTATCCATTTTAGTCCC-TAATGTTTAT-T
* ** * *
817304 TTTATCTATTTTAGTCCCTGAAGTTTCTATTTTCTTTATTTTGGTCCCTAATTTTTATT
1 TTT-TCTATTTTAG-CCCTGAAGTTTCTATTTTATCCATTTTAGTCCCTAATGTTTATT
817363 TTTTCTATTTTAGCCCT
1 TTTTCTATTTTAGCCCT
817380 TTAAGCTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
57 4 0.06
58 13 0.20
59 10 0.15
60 38 0.58
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.57
Consensus pattern (57 bp):
TTTTCTATTTTAGCCCTGAAGTTTCTATTTTATCCATTTTAGTCCCTAATGTTTATT
Found at i:819411 original size:32 final size:32
Alignment explanation
Indices: 819367--819428 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
819357 TCTTACTTGT
*
819367 ACTAACTAATTTTTTTTTATTTTG-TTGTGTAC
1 ACTAACTAA-TTTTGTTTATTTTGTTTGTGTAC
* *
819399 ACTAACTTATTTTGTTTCTTTTGTTTGTGT
1 ACTAACTAATTTTGTTTATTTTGTTTGTGT
819429 CATTTTGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.18, C:0.10, G:0.11, T:0.61
Consensus pattern (32 bp):
ACTAACTAATTTTGTTTATTTTGTTTGTGTAC
Found at i:823090 original size:2 final size:2
Alignment explanation
Indices: 823083--823175 Score: 168
Period size: 2 Copynumber: 46.5 Consensus size: 2
823073 ATACATACAT
823083 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
823125 AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
823167 AC AA AC AC A
1 AC AC AC AC A
823176 TGATACATAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.52, C:0.47, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:823933 original size:27 final size:28
Alignment explanation
Indices: 823840--823933 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 28
823830 CTCTTCAAAC
* *
823840 AAATC-TTGAGTCTATTCCTTTTTAAAA
1 AAATCTTTGAGTCTATTTCTTTTAAAAA
* *
823867 AAATCTTTGAGTTTTTTTCTTTTAAACAA
1 AAATCTTTGAGTCTATTTCTTTTAAA-AA
*
823896 AATCGTCTTTGAGTCTATTTC-TTTAAAAA
1 AA--ATCTTTGAGTCTATTTCTTTTAAAAA
823925 CAAAT-TTTG
1 -AAATCTTTG
823934 TCTCTCTTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
27 9 0.17
28 17 0.31
29 6 0.11
30 8 0.15
31 14 0.26
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.47
Consensus pattern (28 bp):
AAATCTTTGAGTCTATTTCTTTTAAAAA
Found at i:824555 original size:36 final size:36
Alignment explanation
Indices: 824505--824633 Score: 188
Period size: 36 Copynumber: 3.5 Consensus size: 36
824495 GTTTATCTGG
824505 AAACACAAAA-TCTTTGAGTTTGTTTCACTTGAAACA
1 AAACA-AAAATTCTTTGAGTTTGTTTCACTTGAAACA
824541 AAACAAAAATTCTTTGAGTTTGTTTCACTTGAAACA
1 AAACAAAAATTCTTTGAGTTTGTTTCACTTGAAACA
**
824577 AAATGAAAATTCTTTGAGTTTGTTTCACTTGAAACA
1 AAACAAAAATTCTTTGAGTTTGTTTCACTTGAAACA
* *
824613 AAATGAAAAAAATCTTTGAGT
1 AAA--CAAAAATTCTTTGAGT
824634 CTGATTCTTT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
35 4 0.05
36 68 0.80
38 13 0.15
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (36 bp):
AAACAAAAATTCTTTGAGTTTGTTTCACTTGAAACA
Found at i:824743 original size:29 final size:28
Alignment explanation
Indices: 824674--824745 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
824664 TTTGAGACTA
*
824674 TTTCTTTTGAGAAAATCATCTTTGAATCCG
1 TTTC-TTTGA-AACATCATCTTTGAATCCG
* * *
824704 TTTATTGTGAAACATCATCTTTGAGTCGG
1 TTTCTT-TGAAACATCATCTTTGAATCCG
824733 TTTCTCTTGAAAC
1 TTTCT-TTGAAAC
824746 CATTATCCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 28 0.80
30 7 0.20
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (28 bp):
TTTCTTTGAAACATCATCTTTGAATCCG
Found at i:825053 original size:132 final size:134
Alignment explanation
Indices: 824769--825110 Score: 338
Period size: 132 Copynumber: 2.6 Consensus size: 134
824759 GATGGACTTT
* * * ** * * *
824769 CGTCCTCATCACATAGGAACCATGTCATCC-CTTTACCAGACCTCCTCATCACGTAGAAGTCGTG
1 CGTCCTCATCACATATGAATCGTGTCATCCAC-CAACCAGGCCTCCTCATCATGTAGGAGTCGTG
** *
824833 TCACCCTTTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCGTTATTCCTAAAGATG
65 TCACCC-TTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCCCTATTCCAAAAGATG
**
824898 ACCTGT
129 ACCTAA
* * *
824904 CGTCCTCATCACGTATGAATCGTTTCATCCCCCAACCAGGCCTCCTCATCATGTAGGAGTCGTGT
1 CGTCCTCATCACATATGAATCGTGTCATCCACCAACCAGGCCTCCTCATCATGTAGGAGTCGTGT
* * *
824969 AACCCCTAGATAACCAGCCGT-C-CATCACGTAGGAACCGTGTTATCACCT-TT-CAAAAGAT-A
66 CACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATC-CCTATTCCAAAAGATGA
825029 GCCAATAA
130 -CC--TAA
* * * * * * * *
825037 C-TCTTCATCGCATATGAGTCGTGTCATCCACCGACCAAGTCTCCTCATCATGTAGGTGTCCTGT
1 CGTCCTCATCACATATGAATCGTGTCATCCACCAACCAGGCCTCCTCATCATGTAGGAGTCGTGT
825101 CACCCTTAGA
66 CACCCTTAGA
825111 AGACCAGACC
Statistics
Matches: 171, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
130 1 0.01
131 9 0.05
132 84 0.49
133 4 0.02
134 15 0.09
135 57 0.33
136 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (134 bp):
CGTCCTCATCACATATGAATCGTGTCATCCACCAACCAGGCCTCCTCATCATGTAGGAGTCGTGT
CACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCCCTATTCCAAAAGATGAC
CTAA
Found at i:825304 original size:3 final size:3
Alignment explanation
Indices: 825296--825347 Score: 79
Period size: 3 Copynumber: 17.0 Consensus size: 3
825286 TTGTTCGGGT
825296 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA
825342 TTA TTA
1 TTA TTA
825348 ATATCAAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.02
3 41 0.89
4 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:826766 original size:30 final size:30
Alignment explanation
Indices: 826732--826815 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
826722 GTATTTTCTA
*
826732 TTTAGCCCCTTAAGTTTCAATTTTATCCAT
1 TTTAGCCCCTTAAGTTTCTATTTTATCCAT
* * *
826762 TTTAGTCTCGTTAA-TTTCTATTTTATCTAT
1 TTTAG-CCCCTTAAGTTTCTATTTTATCCAT
* * *
826792 TTTGGTCCCTAAAGTTTCTATTTT
1 TTTAGCCCCTTAAGTTTCTATTTT
826816 CTTTATTTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
29 4 0.09
30 33 0.77
31 6 0.14
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTAGCCCCTTAAGTTTCTATTTTATCCAT
Found at i:826851 original size:29 final size:29
Alignment explanation
Indices: 826774--826853 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 29
826764 TAGTCTCGTT
826774 AATTTCTATTT-TATCTATTTTGGTCCCTA
1 AATTTCTATTTCT-TCTATTTTGGTCCCTA
826803 AAGTTTCTATTTTCTT-TATTTTGGTCCCTA
1 AA-TTTCTA-TTTCTTCTATTTTGGTCCCTA
826833 AATTTCTATTTCTTCTATTTT
1 AATTTCTATTTCTTCTATTTT
826854 ATCCCTTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
28 6 0.13
29 14 0.30
30 22 0.47
31 4 0.09
32 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.59
Consensus pattern (29 bp):
AATTTCTATTTCTTCTATTTTGGTCCCTA
Found at i:826894 original size:58 final size:59
Alignment explanation
Indices: 826774--826902 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 59
826764 TAGTCTCGTT
* * *
826774 AATTTCTATTTTATCTATTTTGGTCCCTAAAGTTTCTATTTTCTTTATTTTGGTCCCTA
1 AATTTCTATTTTATCTATTTTGATCCCTAAAGCTTCTATTTTCTTTATTTCGGTCCCTA
* * *
826833 AATTTCTATTTCT-TCTATTTT-ATCCCTTTAAGCTTCTGA-TTT-TTTATTTCGTTCCTTA
1 AATTTCTATTT-TATCTATTTTGATCCC-TAAAGCTTCT-ATTTTCTTTATTTCGGTCCCTA
826891 AATTTCTATTTT
1 AATTTCTATTTT
826903 TTGCCATTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
57 1 0.02
58 28 0.46
59 30 0.49
60 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.06, T:0.58
Consensus pattern (59 bp):
AATTTCTATTTTATCTATTTTGATCCCTAAAGCTTCTATTTTCTTTATTTCGGTCCCTA
Found at i:826951 original size:25 final size:24
Alignment explanation
Indices: 826909--826961 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
826899 TTTTTTGCCA
*
826909 TTTTAGTACTCTAGGTTTTTTTATT
1 TTTTAGTACCCTAGG-TTTTTTATT
*
826934 CTTTTAGT-CCCTATGTTTTTTATT
1 -TTTTAGTACCCTAGGTTTTTTATT
826958 TTTT
1 TTTT
826962 CCATTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 9 0.36
25 5 0.20
26 7 0.28
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.66
Consensus pattern (24 bp):
TTTTAGTACCCTAGGTTTTTTATT
Found at i:829557 original size:32 final size:32
Alignment explanation
Indices: 829516--829619 Score: 185
Period size: 32 Copynumber: 3.3 Consensus size: 32
829506 GAGTCGAGGG
829516 TTACCTATGTCTTTCGGGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
829548 TTACCTATGTCTTTCGGGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
*
829580 TTACCTATGTTTTTCGGGACATATGGACA-G-
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
829610 TTACCTATGT
1 TTACCTATGT
829620 TCTTAGGAAC
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
30 10 0.14
31 1 0.01
32 60 0.85
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAGGA
Found at i:830251 original size:21 final size:22
Alignment explanation
Indices: 830225--830275 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
830215 GCCGAAATTA
* *
830225 CTGTAGTAGGGTATCGGTA-CC
1 CTGTAGCAGGGTATCGATACCC
830246 CTGTAGCAGGGTATCGATACCC
1 CTGTAGCAGGGTATCGATACCC
830268 CTGTAGCA
1 CTGTAGCA
830276 TTCTGGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (22 bp):
CTGTAGCAGGGTATCGATACCC
Found at i:830335 original size:20 final size:20
Alignment explanation
Indices: 830310--830379 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
830300 TACTGTTTAT
830310 TACTATTCATACAGTATCGA
1 TACTATTCATACAGTATCGA
** * ** *
830330 TACTATTTGTACAATGCCAA
1 TACTATTCATACAGTATCGA
* *
830350 TACTATTCATGCAGTATAG-
1 TACTATTCATACAGTATCGA
830369 TACTATTCATA
1 TACTATTCATA
830380 AAAACATTAA
Statistics
Matches: 35, Mismatches: 15, Indels: 1
0.69 0.29 0.02
Matches are distributed among these distances:
19 10 0.29
20 25 0.71
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (20 bp):
TACTATTCATACAGTATCGA
Found at i:835460 original size:4 final size:4
Alignment explanation
Indices: 835451--835478 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
835441 ATACATCAAC
835451 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
835479 GATACATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:836202 original size:28 final size:30
Alignment explanation
Indices: 836130--836202 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 30
836120 CTTGAGACAA
836130 TTTCTCTTTAAACAAATCTTTGAGTCTATTC
1 TTTCTC-TTAAACAAATCTTTGAGTCTATTC
* * * *
836161 ATT-T-TGAAAAAAATCTTTGAGT-T-TTT
1 TTTCTCTTAAACAAATCTTTGAGTCTATTC
836187 TTTCTCTTAAACAAAT
1 TTTCTCTTAAACAAAT
836203 TCATCTTTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
26 4 0.12
27 2 0.06
28 24 0.73
30 1 0.03
31 2 0.06
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTCTCTTAAACAAATCTTTGAGTCTATTC
Found at i:836857 original size:32 final size:32
Alignment explanation
Indices: 836815--836879 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
836805 TTGCAAACAC
* *
836815 AAAATATTTGAGTTTGTTTCATTTGAAAAAAA
1 AAAATATTTGAGTCTGTTTCACTTGAAAAAAA
* *
836847 AAAATCTTTGAGTCTGTTTCACTTGAAACAAA
1 AAAATATTTGAGTCTGTTTCACTTGAAAAAAA
836879 A
1 A
836880 TGAAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (32 bp):
AAAATATTTGAGTCTGTTTCACTTGAAAAAAA
Found at i:837316 original size:134 final size:135
Alignment explanation
Indices: 837057--837367 Score: 362
Period size: 134 Copynumber: 2.3 Consensus size: 135
837047 GCTATCCCTT
* * * * * *
837057 GACCATACCTCCTCATCACGTACGAGCTGTGTCACCCTTTAGATAACTAGCCGTCCTCATCATGT
1 GACCAGACCTCCTCATCACGTAGGAGCCGTGTCACCCTATAGATAACCAGCCGTCCTCATCACGT
* * ****
837122 AAGAACTGTGTTATCACCATTCTAAAAGATGGTCTATCGTTCTTATCACGTAGGAATCGTGTCAT
66 AAGAACTGTGTTATCACCATTCTAAAAGATGGCCAAGAACTCTTATCACGTAGGAATCGTGTCAT
*
837187 CCCCC
131 CCACC
*
837192 GACCAGACCTCCTCATCACGTAGGAGCCGTGTCACCC-ATAGATAACCAGCCGTCCTCATCGCGT
1 GACCAGACCTCCTCATCACGTAGGAGCCGTGTCACCCTATAGATAACCAGCCGTCCTCATCACGT
* * *
837256 AGGAA-TCGTGTTATCACC-TTCCT-AAAGATGGCCAAGAACTCTTCATCACGTATGAGTCGTGT
66 AAGAACT-GTGTTATCACCATT-CTAAAAGATGGCCAAGAACTCTT-ATCACGTAGGAATCGTGT
837318 CATCCACC
128 CATCCACC
* ** * *
837326 AACCAGGTCTCCTCATCACGTAGGAGTCGTGTCAGCCT-TAGA
1 GACCAGACCTCCTCATCACGTAGGAGCCGTGTCACCCTATAGA
837368 CGACCAAACC
Statistics
Matches: 150, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
133 17 0.11
134 99 0.66
135 34 0.23
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (135 bp):
GACCAGACCTCCTCATCACGTAGGAGCCGTGTCACCCTATAGATAACCAGCCGTCCTCATCACGT
AAGAACTGTGTTATCACCATTCTAAAAGATGGCCAAGAACTCTTATCACGTAGGAATCGTGTCAT
CCACC
Found at i:837591 original size:25 final size:24
Alignment explanation
Indices: 837558--837609 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
837548 CGGGTCTTTT
*
837558 TTATTTTATTTTGTTT-TATTATTA
1 TTATTTTATTATGTTTAT-TTATTA
837582 TTATTATTATTATGTTTATTTATTA
1 TTATT-TTATTATGTTTATTTATTA
837607 TTA
1 TTA
837610 ATATCAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (24 bp):
TTATTTTATTATGTTTATTTATTA
Found at i:839218 original size:29 final size:28
Alignment explanation
Indices: 838986--839232 Score: 117
Period size: 30 Copynumber: 8.6 Consensus size: 28
838976 AATGTCTGTA
*
838986 TTTTCTA-TTTAGCCCCTTAAGTTTTT-T
1 TTTTCTATTTTAG-TCCTTAAGTTTTTGT
* * * *
839013 TTATCCATTTTAGTCCCGTT-AGTTTCTAT
1 TTTTCTATTTTAGT-CC-TTAAGTTTTTGT
* * * *
839042 TTTATCTATTTTGGTCCCTGAAGTTTCTAT
1 TTT-TCTATTTTAGT-CCTTAAGTTTTTGT
* * *
839072 TTTCTTTATTTTGGTCCTTAAATTTTTGT
1 TTT-TCTATTTTAGTCCTTAAGTTTTTGT
* * * *
839101 TTCTTCTATGTTAGCCCTTTAAGCTTCTGT
1 TT-TTCTATTTTAGTCC-TTAAGTTTTTGT
* * * * *
839131 ATTTGTATTTGAGTCCTTAAATTTCTTTT
1 TTTTCTATTTTAGTCCTTAAGTTT-TTGT
* **
839160 TTTTACCATTTTAGTCCTCT-AGGATTT-T
1 TTTT-CTATTTTAGTCCT-TAAGTTTTTGT
*
839188 TTTACTATTTTAGTCCTTAAGTTTTTGT
1 TTTTCTATTTTAGTCCTTAAGTTTTTGT
*
839216 TTTTGCCATTTTAGTCC
1 TTTT-CTATTTTAGTCC
839233 CTTTATTCCT
Statistics
Matches: 163, Mismatches: 43, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
26 1 0.01
27 22 0.13
28 27 0.17
29 55 0.34
30 57 0.35
31 1 0.01
ACGTcount: A:0.16, C:0.17, G:0.11, T:0.56
Consensus pattern (28 bp):
TTTTCTATTTTAGTCCTTAAGTTTTTGT
Found at i:841766 original size:23 final size:23
Alignment explanation
Indices: 841714--841766 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
841704 TAATAAAATT
* *
841714 ATTATTTTAAATTAATTTGATAA
1 ATTATATTAAATTAATTCGATAA
**
841737 AAAATATTAAATTAATTCGATAA
1 ATTATATTAAATTAATTCGATAA
*
841760 TTTATAT
1 ATTATAT
841767 ACATAAAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
ATTATATTAAATTAATTCGATAA
Found at i:842959 original size:23 final size:22
Alignment explanation
Indices: 842907--842961 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
842897 AGTATTTTTT
**
842907 AAAAAAA-TTATTTAAAATTAA
1 AAAAAAATTTATTTAAAAACAA
842928 AAACTAAAATTTATTTAAAAACACA
1 AAA--AAAATTTATTTAAAAACA-A
842953 AAAAAAATT
1 AAAAAAATT
842962 AACATAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
23 10 0.36
24 11 0.39
25 4 0.14
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATTTATTTAAAAACAA
Found at i:844161 original size:21 final size:21
Alignment explanation
Indices: 844135--844234 Score: 114
Period size: 21 Copynumber: 4.7 Consensus size: 21
844125 AGGGTGTCAA
844135 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
*
844156 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTAC
844177 AGTGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCACC--CCTAC
* * **
844199 TAGTGCATCGATGCA-CCATGT
1 -AGTGCATCCATGCACCCCTAC
844220 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
844235 TCCATTTCGA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
20 14 0.21
21 36 0.54
22 2 0.03
23 15 0.22
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:844427 original size:20 final size:22
Alignment explanation
Indices: 844389--844428 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
844379 TTTGAGTAGA
844389 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
844411 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
844429 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:845079 original size:32 final size:32
Alignment explanation
Indices: 845043--845103 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
845033 TTAACCAGAA
* *
845043 CCAAAAATCAACCGATCTGATATTGACCCGAT
1 CCAAAAATAAACCGATATGATATTGACCCGAT
**
845075 CCAAAAATAAATTGATATGATATTGACCC
1 CCAAAAATAAACCGATATGATATTGACCC
845104 AACATGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (32 bp):
CCAAAAATAAACCGATATGATATTGACCCGAT
Found at i:845323 original size:15 final size:15
Alignment explanation
Indices: 845303--845332 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
845293 ATCTAGACTT
845303 GAAATGAACCGACCC
1 GAAATGAACCGACCC
*
845318 GAAATGACCCGACCC
1 GAAATGAACCGACCC
845333 AAACCTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.37, G:0.20, T:0.07
Consensus pattern (15 bp):
GAAATGAACCGACCC
Found at i:845797 original size:21 final size:22
Alignment explanation
Indices: 845747--845806 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
845737 TCTTTGATAA
* *
845747 AAATATATGATGATTTTTATCAG
1 AAATATATAAT-ATTTTTATCAC
845770 AAATATATAATATTTTTAT-AC
1 AAATATATAATATTTTTATCAC
*
845791 AAGTATATGAATATTT
1 AAATATAT-AATATTT
845807 CAAATATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.24
22 15 0.45
23 10 0.30
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (22 bp):
AAATATATAATATTTTTATCAC
Found at i:845847 original size:23 final size:22
Alignment explanation
Indices: 845746--845847 Score: 67
Period size: 23 Copynumber: 4.8 Consensus size: 22
845736 ATCTTTGATA
845746 AAAATATATGATGATTTTTATC
1 AAAATATATGATGATTTTTATC
*
845768 AGAAATATATAAT-ATTTTTAT-
1 A-AAATATATGATGATTTTTATC
* *
845789 ACAAGTATATGA--A-TATT-TC
1 A-AAATATATGATGATTTTTATC
* *
845808 -AAATATATGA-GTTTTTTTTTC
1 AAAATATATGATG-ATTTTTATC
845829 ATAAATATATGATGATTTT
1 A-AAATATATGATGATTTT
845848 AATACATGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
17 9 0.15
18 1 0.02
19 3 0.05
20 4 0.06
21 11 0.18
22 9 0.15
23 24 0.39
24 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (22 bp):
AAAATATATGATGATTTTTATC
Found at i:851929 original size:27 final size:27
Alignment explanation
Indices: 851891--853223 Score: 2616
Period size: 27 Copynumber: 49.4 Consensus size: 27
851881 TAATTAGGTA
851891 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
851918 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
851945 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
*
851972 TATATGATTTTAAGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
851999 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852026 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852053 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852080 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852107 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852134 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852161 TATATGA-TTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852187 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852214 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852241 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852268 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852295 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852322 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852349 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852376 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852403 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852430 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852457 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852484 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852511 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852538 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852565 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852592 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852619 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852646 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852673 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852700 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852727 TATATGATTTTATGTT-AAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852753 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852780 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852807 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852834 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852861 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852888 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852915 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
*
852942 TATATGATTTTATGTTATAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852969 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
852996 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
853023 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
853050 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
853077 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
*
853104 TATATGATTTTATGTTAAAATCAAATT
1 TATATGATTTTATGTTAAAAACAAATT
853131 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
853158 TATATGATTTTATGTTAAAAACAAATT
1 TATATGATTTTATGTTAAAAACAAATT
*
853185 TATATGATTTTATGTTAAAAATAAATT
1 TATATGATTTTATGTTAAAAACAAATT
853212 TATATGATTTTA
1 TATATGATTTTA
853224 AAAAGATAAA
Statistics
Matches: 1297, Mismatches: 7, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
26 52 0.04
27 1245 0.96
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (27 bp):
TATATGATTTTATGTTAAAAACAAATT
Found at i:856809 original size:34 final size:34
Alignment explanation
Indices: 856771--856835 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
856761 TGAATTTTTT
856771 TTATTAAATACATTTTAAAGCAATAATAAGTTTC
1 TTATTAAATACATTTTAAAGCAATAATAAGTTTC
856805 TTATTAAATACATTTTAAAGCAATAATAAGT
1 TTATTAAATACATTTTAAAGCAATAATAAGT
856836 AGGGATGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (34 bp):
TTATTAAATACATTTTAAAGCAATAATAAGTTTC
Found at i:857341 original size:3 final size:3
Alignment explanation
Indices: 857335--857362 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
857325 AAAAAGTTAA
857335 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
857363 CATTAACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:860648 original size:44 final size:43
Alignment explanation
Indices: 860578--860679 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 43
860568 TGTTGGATTT
* * ** *
860578 CCAACTTATTTGTCTCACTATGTTGGAGCTATTGTCAGTATTAC
1 CCAACTTATTT-CCTCACTATATTGGAGCTATTACCAGCATTAC
*
860622 CCAACTTATTTCCTGAGCTATATTGGAGCTATTACCAGCATTAC
1 CCAACTTATTTCCTCA-CTATATTGGAGCTATTACCAGCATTAC
*
860666 CTAACTTATTTCCT
1 CCAACTTATTTCCT
860680 AAGATCTCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 3 0.06
44 47 0.94
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.39
Consensus pattern (43 bp):
CCAACTTATTTCCTCACTATATTGGAGCTATTACCAGCATTAC
Found at i:872712 original size:21 final size:21
Alignment explanation
Indices: 872682--872760 Score: 122
Period size: 21 Copynumber: 3.8 Consensus size: 21
872672 ACATAGAATT
* * *
872682 TGTCCAGAAGAACCACATATA
1 TGTCCCGAAGGACCACATAGA
*
872703 TGTCTCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
872724 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
872745 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
872761 TTCTTAAGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.34, C:0.28, G:0.22, T:0.16
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATAGA
Found at i:873790 original size:63 final size:63
Alignment explanation
Indices: 873723--873858 Score: 175
Period size: 63 Copynumber: 2.2 Consensus size: 63
873713 AGCTTATGGT
* *
873723 ATCGATACTG-TTCATACAATATCAATACCCTACTCCAAATATCATATATTATTCCTTTGAAGA
1 ATCGATACTGATTCA-ACAATATCAATACCCTACTCCAAATATAATATATTATTCCTTTAAAGA
* * * * * *
873786 ATCGATACTGATTCAATAGTATCGATACCTTACTCCAAATATAATCTATTATTCCTTTAAAGT
1 ATCGATACTGATTCAACAATATCAATACCCTACTCCAAATATAATATATTATTCCTTTAAAGA
*
873849 ATCGGTACTG
1 ATCGATACTG
873859 GATGAATTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 59 0.94
64 4 0.06
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.36
Consensus pattern (63 bp):
ATCGATACTGATTCAACAATATCAATACCCTACTCCAAATATAATATATTATTCCTTTAAAGA
Found at i:876661 original size:2 final size:2
Alignment explanation
Indices: 876654--876679 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
876644 CAACAAATAC
876654 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
876680 TATCATTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:877010 original size:21 final size:21
Alignment explanation
Indices: 876955--877012 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
876945 ACATAGAATT
876955 TGTCCTGAAGGACCACATAGA
1 TGTCCTGAAGGACCACATAGA
*
876976 TGT-CTCAAAGGACCACATAGA
1 TGTCCT-GAAGGACCACATAGA
*
876997 TGTCCTGAATGACCAC
1 TGTCCTGAAGGACCAC
877013 TCCTTAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (21 bp):
TGTCCTGAAGGACCACATAGA
Found at i:880363 original size:20 final size:22
Alignment explanation
Indices: 880324--880368 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
880314 CGGAGTTGAC
*
880324 TTATAAAAATTTCGAGTCGAAT
1 TTATAAAAATTTCGACTCGAAT
*
880346 TTAT-AAAA-TTCGACTCGAGT
1 TTATAAAAATTTCGACTCGAAT
880366 TTA
1 TTA
880369 GTCGATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 4 0.19
22 4 0.19
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (22 bp):
TTATAAAAATTTCGACTCGAAT
Found at i:885051 original size:21 final size:20
Alignment explanation
Indices: 885025--885080 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
885015 TTCTATTTAG
885025 TTTTATTTTAATTTAG-TCAC
1 TTTTATTTTAATTTAGCT-AC
*
885045 TGTTTATTTCTTATTTAGCTAC
1 T-TTTATTT-TAATTTAGCTAC
*
885067 TATTATTTTAATTT
1 TTTTATTTTAATTT
885081 TCTTGCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.20
21 13 0.43
22 10 0.33
23 1 0.03
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTATTTTAATTTAGCTAC
Found at i:885154 original size:17 final size:19
Alignment explanation
Indices: 885132--885169 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
885122 GTTCTTTTAC
885132 TTATGTT-TATTTACT-TT
1 TTATGTTGTATTTACTGTT
*
885149 TTATGTTGTTTTTACTGTT
1 TTATGTTGTATTTACTGTT
885168 TT
1 TT
885170 TTTACTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 7 0.39
19 4 0.22
ACGTcount: A:0.13, C:0.05, G:0.11, T:0.71
Consensus pattern (19 bp):
TTATGTTGTATTTACTGTT
Found at i:887682 original size:21 final size:21
Alignment explanation
Indices: 887658--887697 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
887648 TGCATCTTTG
887658 CATTAGCAT-ATATACATTGTA
1 CATTA-CATGATATACATTGTA
*
887679 CATTACATGGTATACATTG
1 CATTACATGATATACATTG
887698 AATCTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (21 bp):
CATTACATGATATACATTGTA
Found at i:888719 original size:23 final size:22
Alignment explanation
Indices: 888687--888736 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 22
888677 TAGTTTCATT
888687 TATCCTTTCATATATATGTATA
1 TATCCTTTCATATATATGTATA
888709 TATCCATTTCATATATATGTATA
1 TATCC-TTTCATATATATGTATA
888732 TATCC
1 TATCC
888737 CTTGTTGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (22 bp):
TATCCTTTCATATATATGTATA
Found at i:889000 original size:25 final size:26
Alignment explanation
Indices: 888972--889032 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 26
888962 TAACATGGAG
*
888972 AGAAAAATAATAGACATAGCAAA-AA
1 AGAAAAATAATAGACATAGAAAATAA
* *
888997 AG-AAAATAAAAGAGATAGAAAATAA
1 AGAAAAATAATAGACATAGAAAATAA
889022 AGAAAAA-AATA
1 AGAAAAATAATA
889033 ATGAAAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 17 0.57
25 9 0.30
26 4 0.13
ACGTcount: A:0.72, C:0.03, G:0.13, T:0.11
Consensus pattern (26 bp):
AGAAAAATAATAGACATAGAAAATAA
Found at i:889040 original size:1 final size:1
Alignment explanation
Indices: 889036--889096 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
889026 AAAAATAATG
* * * * * * * *
889036 AAAAACAAAAAGAGAAAAAAGAAAAAAGAAAAAAAAAAGAAAAAAAGAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
889097 GAAAGAATAA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:889053 original size:7 final size:7
Alignment explanation
Indices: 889036--889100 Score: 71
Period size: 7 Copynumber: 9.3 Consensus size: 7
889026 AAAAATAATG
*
889036 AAAAACA
1 AAAAAGA
889043 AAAAGAGA
1 AAAA-AGA
889051 AAAAAGA
1 AAAAAGA
889058 AAAAAGA
1 AAAAAGA
889065 AAAAA-A
1 AAAAAGA
*
889071 AAAGA-A
1 AAAAAGA
889077 AAAAAGA
1 AAAAAGA
*
889084 AAAGAAAA
1 AAA-AAGA
889092 AAAAAGA
1 AAAAAGA
889099 AA
1 AA
889101 GAATAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
6 10 0.20
7 28 0.56
8 12 0.24
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:889057 original size:33 final size:32
Alignment explanation
Indices: 889020--889096 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
889010 GATAGAAAAT
** *
889020 AAAGAAAAAAATAATGAAAAACAAAAAGAGAAA
1 AAAGAAAAAAA-AAAAAAAAACAAAAAAAGAAA
*
889053 AAAGAAAAAAGAAAAAAAAAAGAAAAAAAG--A
1 AAAGAAAAAA-AAAAAAAAAACAAAAAAAGAAA
889084 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
889097 GAAAGAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 3 0.08
31 11 0.28
33 24 0.62
34 1 0.03
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (32 bp):
AAAGAAAAAAAAAAAAAAAACAAAAAAAGAAA
Found at i:889067 original size:40 final size:38
Alignment explanation
Indices: 889015--889112 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 38
889005 AAAGAGATAG
* *
889015 AAAATAAAGAAAAAAATAATGAAAAACAA-AAAGAGAAAAA
1 AAAAGAAAGAAAAAAA-AAAGAAAAA-AAGAAA-AGAAAAA
889055 AGAAA-AAAGAAAAAAAAAAGAAAAAAAGAAAAGAAAAA
1 A-AAAGAAAGAAAAAAAAAAGAAAAAAAGAAAAGAAAAA
*
889093 AAAAGAAAGAATAAATAAAA
1 AAAAGAAAGAA-AAAAAAAA
889113 CCTATCAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
37 3 0.06
38 16 0.31
39 18 0.35
40 12 0.23
41 3 0.06
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.05
Consensus pattern (38 bp):
AAAAGAAAGAAAAAAAAAAGAAAAAAAGAAAAGAAAAA
Found at i:889101 original size:27 final size:26
Alignment explanation
Indices: 888992--889103 Score: 97
Period size: 26 Copynumber: 4.3 Consensus size: 26
888982 TAGACATAGC
* * * *
888992 AAAAAAGAAAATAA-AAGAGATAGAA
1 AAAAAAGAAAAAAAGAAAAGAAAAAA
* * *
889017 AATAAAGAAAAAAA-TAATG-AAAAA
1 AAAAAAGAAAAAAAGAAAAGAAAAAA
*
889041 CAAAAAGAGAAAAAAGAAAA-AAGAAAA
1 AAAAAAGA-AAAAAAGAAAAGAA-AAAA
889068 AAAAAAGAAAAAAAGAAAAGAAAAAA
1 AAAAAAGAAAAAAAGAAAAGAAAAAA
889094 AAAGAAAGAA
1 AAA-AAAGAA
889104 TAAATAAAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
24 9 0.13
25 20 0.29
26 21 0.30
27 19 0.28
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.04
Consensus pattern (26 bp):
AAAAAAGAAAAAAAGAAAAGAAAAAA
Found at i:889112 original size:19 final size:17
Alignment explanation
Indices: 889036--889103 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 17
889026 AAAAATAATG
*
889036 AAAAACAAAAAG--AGA
1 AAAAAAAAAAAGAAAGA
889051 AAAAAGAAAAAAGAAA-A
1 AAAAA-AAAAAAGAAAGA
*
889068 AAAAAAGAAAA-AAAGAA
1 AAAAAAAAAAAGAAAG-A
889085 AAGAAAAAAAAAGAAAGA
1 AA-AAAAAAAAAGAAAGA
889103 A
1 A
889104 TAAATAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
15 8 0.19
16 11 0.26
17 9 0.21
18 11 0.26
19 4 0.09
ACGTcount: A:0.85, C:0.01, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAGA
Found at i:892108 original size:136 final size:136
Alignment explanation
Indices: 891932--892556 Score: 817
Period size: 136 Copynumber: 4.6 Consensus size: 136
891922 TCAACCTTTT
* *
891932 AAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAAGAGGGAGAAGAAGTTCATAATGAGAAGA
1 AAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGA
* * *
891997 GCTTGTTCGACCTATCACTCGATTCATGGCATTTCGAATTAGTGACGCCTCGCTTGAGGGATTAA
66 GCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTAA
892062 CATTTC
131 CATTTC
* * * *
892068 AAATGGAGAGTTCATAATGAGAAGAACCCATCCGACAGAGGGAGAAGAAGTTCACAATGTGTAGA
1 AAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGA
* **
892133 GCTTGTTCGACCTATCACTCGATTCACGGTATTTCGAATCAGTGA-AGCCTCGCTTGAGGGATTA
66 GCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACA-CCTCGCTTGAGGGATTA
*
892197 ATATTTC
130 ACATTTC
* *
892204 AAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCACAATGAGTAGA
1 AAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGA
892269 GCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTAA
66 GCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTAA
**
892334 CATTAA
131 CATTTC
*
892340 AAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGAGAAGA
1 AAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGA
* * * * *** * *
892405 ACTTGTTCAACCT-T-AGCTCGATTCATCACATATGGAGTTGAATCAACAACACCTCACTCGAGG
66 GCTTGTTCGACCTATCA-CTCGATTCATGACAT-T----TCGAATCAGTGACACCTCGCTTGAGG
* *
892468 GATCAACATTTT
125 GATTAACATTTC
** * ** * *
892480 TGATAGAGAGTTCATAATGAGAAGAAAACATCCGA-TGAGGGAGAAGAAGTTCGTAATGAGAAGA
1 AAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGA
* *
892544 ACTTGTTCAACCT
66 GCTTGTTCGACCT
892557 TAGCTAGTTT
Statistics
Matches: 440, Mismatches: 41, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
134 1 0.00
135 15 0.03
136 324 0.74
137 1 0.00
139 40 0.09
140 59 0.13
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (136 bp):
AAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGA
GCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCGCTTGAGGGATTAA
CATTTC
Found at i:893758 original size:25 final size:26
Alignment explanation
Indices: 893730--893779 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
893720 ATATTTATTT
*
893730 TATTTTTTGTTTTTTGTT-TTGTTAC
1 TATTTTTTGTTTTTTATTATTGTTAC
893755 TATTTTTTGTTTTTTATTATTGTTA
1 TATTTTTTGTTTTTTATTATTGTTA
893780 TTTTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (26 bp):
TATTTTTTGTTTTTTATTATTGTTAC
Found at i:893781 original size:23 final size:23
Alignment explanation
Indices: 893724--893785 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 23
893714 GTACTTATAT
*
893724 TTATT-TTATTTTTTGTTTTTTG
1 TTATTGTTATTTTTTGTTTTTTA
893746 TT-TTGTTACTATTTTTTGTTTTTTA
1 TTATTG-T--TATTTTTTGTTTTTTA
893771 TTATTGTTATTTTTT
1 TTATTGTTATTTTTT
893786 AATTAGGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
21 2 0.06
22 2 0.06
23 9 0.26
25 18 0.53
26 3 0.09
ACGTcount: A:0.11, C:0.02, G:0.08, T:0.79
Consensus pattern (23 bp):
TTATTGTTATTTTTTGTTTTTTA
Found at i:893813 original size:16 final size:16
Alignment explanation
Indices: 893792--893834 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
893782 TTTTAATTAG
893792 GTTTATTAATTGTTTT
1 GTTTATTAATTGTTTT
893808 GTTTATTAATTGTTTT
1 GTTTATTAATTGTTTT
*
893824 GTTTAATAATT
1 GTTTATTAATT
893835 TAAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (16 bp):
GTTTATTAATTGTTTT
Found at i:893822 original size:27 final size:25
Alignment explanation
Indices: 893767--893822 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 25
893757 TTTTTTGTTT
893767 TTTATTATTGTTATTTTTTAATTAGG
1 TTTATTATTGTTATTTTTTAATTA-G
*
893793 TTTATTAATTGTTTTGTTTATTAATT-G
1 TTTATT-ATTGTTAT-TTT-TTAATTAG
893820 TTT
1 TTT
893823 TGTTTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 6 0.23
27 11 0.42
28 3 0.12
29 6 0.23
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (25 bp):
TTTATTATTGTTATTTTTTAATTAG
Found at i:895570 original size:23 final size:23
Alignment explanation
Indices: 895523--895572 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
895513 AATAACATAT
* **
895523 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATAAAA
895546 TAGGTAACGCTTATATAATAAAA
1 TAGGTAACGCTTATATAATAAAA
895569 TAGG
1 TAGG
895573 CATTTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATAAAA
Found at i:895634 original size:87 final size:87
Alignment explanation
Indices: 895486--895648 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
895476 TATGTTATAT
*
895486 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGT
*
895551 AACGCTTATATAATAAAATAGG
66 AACCCTTATATAATAAAATAGG
*
895573 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGT
*
895638 AGCCCTTATAT
66 AACCCTTATAT
895649 TGACCTTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGT
AACCCTTATATAATAAAATAGG
Found at i:895636 original size:23 final size:23
Alignment explanation
Indices: 895601--895648 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
895591 ATCAAGTACA
* *
895601 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCCCTTAT
*
895624 ATAATATAATAGGTAGCCCTTAT
1 ATAACATAATAGGTAGCCCTTAT
895647 AT
1 AT
895649 TGACCTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCCCTTAT
Found at i:896016 original size:200 final size:196
Alignment explanation
Indices: 895666--896368 Score: 910
Period size: 199 Copynumber: 3.5 Consensus size: 196
895656 TTTTCTAACT
* * * * *
895666 AAACCGGTATATTTATACCGGTAATATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTCTACTGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * *
895731 TGTTTTCGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCAT
66 T-TTTTTGGGATCGAT--ATTTTAATAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCAT
* *
895794 TCATTCTGGAAAAAAAGTATCGACGCAATCTTAAAAAGTATTGATACATTATGTAGACCTATTTT
128 TCATTCTGG-AAAAAAGTATCGACACAAT-TTAAAAAGTGTTGATACATTATGTAGACCTATTTT
*
895859 ATCATA
191 CTCATA
* * * *
895865 AAACCGATATATTTCTACTGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGA
1 AAACCGGTATATTTCTACTGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
895930 TGTTTTTGGGATTGATATTGTTAATAAATGTATCGACACTTTATGCGTGCACCCCATTTGGCATT
66 T-TTTTTGGGATCGATATT-TTAATAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATT
* * * * *
895995 CATTATGGAAAAAATGTATCGACATAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTC
129 CATTCTGGAAAAAA-GTATCGACA-CAATTTAAAAAGTGTTGATACATTATGTAGACCTATTTTC
896060 TCATA
192 TCATA
**
896065 AAACCGGTATATTTCTACTGGTTACATTGGAAATTTACCTATTACATTATAATTATATGTTTCGA
1 AAACCGGTATATTTCTACTGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGA
**
896130 TTTTTTGGGATCGATACTTTTAATAAATGTATCG-CTACTTTATGCGCCCACCCCGTTTGGCATT
66 TTTTTTGGGATCGATA-TTTTAATAAATGTATCGAC-ACTTTATGCGTGCACCCCGTTTGGCATT
* * *
896194 CATTCTGGACAAAAAGTATGGACACAAATTTAAAAAATGTTGATACATTATGTAGACCTGTTTTC
129 CATTCTGGA-AAAAAGTATCGACAC-AATTTAAAAAGTGTTGATACATTATGTAGACCTATTTTC
*
896259 TAAT-
192 TCATA
* * * * * *
896263 TAATCGGTATATTTTTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCAGTTTTGA
1 AAACCGGTATATTTCTACTGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
896328 TTTTTTGGGATCAATAATTTTAATAAATGTATCGACACTTT
66 TTTTTTGGGATCGAT-ATTTTAATAAATGTATCGACACTTT
896369 TGTTTACCTG
Statistics
Matches: 445, Mismatches: 48, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
197 2 0.00
198 97 0.22
199 187 0.42
200 156 0.35
201 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (196 bp):
AAACCGGTATATTTCTACTGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGA
TTTTTTGGGATCGATATTTTAATAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCA
TTCTGGAAAAAAGTATCGACACAATTTAAAAAGTGTTGATACATTATGTAGACCTATTTTCTCAT
A
Found at i:901127 original size:200 final size:200
Alignment explanation
Indices: 900768--901524 Score: 1032
Period size: 200 Copynumber: 3.8 Consensus size: 200
900758 CGTGAAATTT
* * * * *
900768 AAAAAGGTATCAACACAAATTTAAAAAATGTCGATACATAATGTTGATCGCTTTTATAATTAAAC
1 AAAAA-GTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAAC
* * * * *
900833 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTTGATGTT
65 CGGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTT
*
900898 TTT-GAGATCGATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCTCGTTGGGCATTGAT
130 TTTGGA-ATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTGAT
900962 TCTGGAC
194 TCTGGAC
*
900969 AAAAAGTATCGACACAAATTTAAAAAGTGTCAATACATTATGTTGACCGCTTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAACC
* *
901034 GGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
66 GGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * *
901099 TTGGAATCAATACTTTTTATACATGTATCGACACTTTATGCGTGCAACTCGTTGGGCATTGATTA
131 TTGGAATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTGATTC
901164 TGGAC
196 TGGAC
* *
901169 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATCATGTTGACCGCTTTTCTAATTAAATC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAACC
* *
901234 GGTATATTTATATCGATTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
66 GGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
901299 TTGGGATCGATACTTTTTATAAATGTATCG--A---TATGCGTGCATCCT-TTTGGGCATTCATT
131 TTGGAATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCA-CCTCGTTGGGCATTGATT
901358 CTGGAC
195 CTGGAC
** * ** * * * *
901364 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATG-T-A-CTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAACC
* * * * *
901426 GGCATATCTATAACGGTTACATTGAAAAATTACTTATTACATTATAATTATGGGTTTCGATGTTT
66 GGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
* *
901491 TTGTG-ATCGATACTTTTTATAACTATATCGACAC
131 TTG-GAATCGATACTTTTTATAAATGTATCGACAC
901525 ATCTGTTAAC
Statistics
Matches: 504, Mismatches: 46, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
192 97 0.19
193 2 0.00
194 2 0.00
195 65 0.13
196 2 0.00
198 1 0.00
200 328 0.65
201 7 0.01
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAACC
GGTATATTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGAATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTGATTC
TGGAC
Found at i:903510 original size:18 final size:18
Alignment explanation
Indices: 903487--903561 Score: 132
Period size: 18 Copynumber: 4.2 Consensus size: 18
903477 TCCTCTTTAT
*
903487 TTCCTCTATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
903505 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
903523 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
903541 TTTCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
903559 TTC
1 TTC
903562 ATATTTTTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.05, C:0.36, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:903941 original size:15 final size:16
Alignment explanation
Indices: 903921--903950 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
903911 ATTTTCCCTC
903921 ACCGTCATCC-CCCCG
1 ACCGTCATCCACCCCG
903936 ACCGTCATCCACCCC
1 ACCGTCATCCACCCC
903951 TACAACCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.60, G:0.10, T:0.13
Consensus pattern (16 bp):
ACCGTCATCCACCCCG
Found at i:904255 original size:22 final size:24
Alignment explanation
Indices: 904227--904274 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
904217 AACCTGCATT
*
904227 TATAATAA-AAT-TTATCATTTTA
1 TATAATAACAATACTATCATTTTA
*
904249 TATAATAACTATACTATCATTTTA
1 TATAATAACAATACTATCATTTTA
904273 TA
1 TA
904275 AAAAAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 2 0.09
24 12 0.55
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (24 bp):
TATAATAACAATACTATCATTTTA
Found at i:911228 original size:157 final size:159
Alignment explanation
Indices: 910932--911264 Score: 437
Period size: 157 Copynumber: 2.1 Consensus size: 159
910922 CGTACTTATT
* * *
910932 AAAGTATCGACACTTTCAGCATATCCAGTAGCGCTTTATCGGTTTTGTCATTTCGAGACCGGTTT
1 AAAGTGTCGACACTTTCAACATATCCAGTAGCGCTTTATCGGCTTTGTCATTTCGAGACCGGTTT
* *
910997 TGTCATATTTTACCTATTATATTGTTAAGTGTATATACATTTTTATAAAGTATCGACACTTTATA
66 TATCATATTTTACCTATTATATTGTTAAGCG--TATACATTTTTATAAAGTATCGACACTTTATA
911062 GGCGCTATTACTGCTTGTCTTTTAAATT-TCA
129 GGCGCTATTACTGCTTGTCTTTTAAATTCT-A
* * *
911093 AAAGTGTCGACACTTTCAACATATCCGGTAGCGTTTTA-CTGGCTTTGTCATTTTACGA-A-TGG
1 AAAGTGTCGACACTTTCAACATATCCAGTAGCGCTTTATC-GGCTTTGTCA-TTT-CGAGACCGG
* * *
911155 TTTTATCATATTTTTGCCTTTTATATTGTT-A-CG-ATACATTTTTATAAAGTATTGACACTTTA
63 TTTTATCATA-TTTTACCTATTATATTGTTAAGCGTATACATTTTTATAAAGTATCGACACTTTA
*
911217 TAGGCGCTATTACTGCTTGTTTTTTAAATTCTA
127 TAGGCGCTATTACTGCTTGTCTTTTAAATTCTA
*
911250 AAAGTGTCGATACTT
1 AAAGTGTCGACACTT
911265 ATAATATAGT
Statistics
Matches: 154, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
157 72 0.47
158 1 0.01
160 2 0.01
161 55 0.36
162 21 0.14
163 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (159 bp):
AAAGTGTCGACACTTTCAACATATCCAGTAGCGCTTTATCGGCTTTGTCATTTCGAGACCGGTTT
TATCATATTTTACCTATTATATTGTTAAGCGTATACATTTTTATAAAGTATCGACACTTTATAGG
CGCTATTACTGCTTGTCTTTTAAATTCTA
Found at i:911429 original size:182 final size:181
Alignment explanation
Indices: 911093--911562 Score: 646
Period size: 182 Copynumber: 2.6 Consensus size: 181
911083 TTAAATTTCA
* * * **
911093 AAAGTGTCGACACTTTCAACATATCCGGTAGCGT-TTTACTGGCTTTGTCATTTT-ACGAATGGT
1 AAAGTATCGACACTTTCAACATATCCGGTAGC-TCTTTACCGGTTTTGTCATTTTGA-GACCGGT
* * * *
911156 TTTATCATATTTTTGCCTTTTATATTG-T-T--ACGATACATTTTTATAAAGTATTGACACTTTA
64 TTTGTCATATTTTTACCTGTTATATTGTTATGGACGATACATTTTTATAAAGTATCGACACTTTA
* * *
911217 TAGGCGCTATTACTGCTTGTTTTTTAAATTCTAAAAGTGTCGATACTTATAAT
129 TAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
* *
911270 ATAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACCGATTT
1 AAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACCGGTTT
911335 TGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTAT
66 TGTCATATTTTTACCTGTTATATTGTTATGGA-CGATACATTTTTATAAAGTATCGACACTTTAT
* *
911400 AGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATGCTTATATT
130 AGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
* * * * * * *
911452 AAAGTATTGACACTTTCAACATATCTGATAGCGCTTTACCGGTTTGGTCATTTCGATACCGGTTT
1 AAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACCGGTTT
*
911517 GGTCATATTTTTACCTGTTATATTGTTATGGAACGATACATTTTTA
66 TGTCATATTTTTACCTGTTATATTGTTATGG-ACGATACATTTTTA
911563 ATTTGTATCG
Statistics
Matches: 259, Mismatches: 26, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
176 1 0.00
177 76 0.29
178 2 0.01
179 1 0.00
181 1 0.00
182 177 0.68
183 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACCGGTTT
TGTCATATTTTTACCTGTTATATTGTTATGGACGATACATTTTTATAAAGTATCGACACTTTATA
GGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
Found at i:911531 original size:20 final size:20
Alignment explanation
Indices: 911485--911531 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
911475 TCTGATAGCG
911485 CTTTACCGGTTTGGTCATTT
1 CTTTACCGGTTTGGTCATTT
**
911505 CGATACCGGTTTGGTCATATT
1 CTTTACCGGTTTGGTCAT-TT
911526 -TTTACC
1 CTTTACC
911532 TGTTATATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (20 bp):
CTTTACCGGTTTGGTCATTT
Done.