Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 72 of 129
Found at i:11362630 original size:13 final size:13
Alignment explanation
Indices: 11362607--11362639 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11362597 AAAACAAACC
11362607 AAAAT-AAAAAAT
1 AAAATAAAAAAAT
11362619 AAAATAAAAAAAT
1 AAAATAAAAAAAT
11362632 AAAA-AAAA
1 AAAATAAAA
11362640 GAAAAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:11362946 original size:24 final size:22
Alignment explanation
Indices: 11362915--11362960 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
11362905 TTTTTAAAGG
* *
11362915 CCCATTTAGAAGCCTTAATAAAA
1 CCCATTTACAA-CCTTAAAAAAA
11362938 CCCATTTTACAACCTTAAAAAAA
1 CCCA-TTTACAACCTTAAAAAAA
11362961 GACCCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (22 bp):
CCCATTTACAACCTTAAAAAAA
Found at i:11363802 original size:9 final size:9
Alignment explanation
Indices: 11363788--11363821 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11363778 TTCAAATGAA
11363788 AAAAAAATG
1 AAAAAAATG
*
11363797 AAAAAACTAG
1 AAAAAAAT-G
11363807 AAAAAAATG
1 AAAAAAATG
11363816 AAAAAA
1 AAAAAA
11363822 CGAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAAATG
Found at i:11363830 original size:20 final size:19
Alignment explanation
Indices: 11363788--11363833 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
11363778 TTCAAATGAA
*
11363788 AAAAAAATGAAAAAACTAG
1 AAAAAAATGAAAAAACAAG
*
11363807 AAAAAAATGAAAAAACGAAT
1 AAAAAAATGAAAAAAC-AAG
11363827 AAAAAAA
1 AAAAAAA
11363834 ATACAACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAAAATGAAAAAACAAG
Found at i:11364905 original size:160 final size:159
Alignment explanation
Indices: 11364706--11364994 Score: 443
Period size: 160 Copynumber: 1.8 Consensus size: 159
11364696 GTTGGGCTTA
* * * * * * *
11364706 TGATTGTGAAGTTGTTGCATTGCATATTTCCCTTTTGCCTTCCTTTTGTTTGGTTTAAAATGGGA
1 TGATTGTGAAGTTGTTACATTACATATTTCCCATTTGCCTTACTTTGGTTTGGCTTAAAATAGGA
* *
11364771 TAGGTCCAAACAATTTCTTTTAGTTAGAATTTTATAATAAATAAAATTTTAAAATATAAATCATA
66 TAGGTCCAAACAATTT-TTTTAGTTAGAATTCTATAATAAATAAAATTTTAAAATATAAAGCATA
11364836 TAAACCTCAAAATCCATGACATGGGGACTG
130 TAAACCTCAAAATCCATGACATGGGGACTG
* *
11364866 TGATTGTGAAGTTGTTACATTATATATTTGCCATTTGCCTTACTTTGGTTTGGCTTAAAATAGGA
1 TGATTGTGAAGTTGTTACATTACATATTTCCCATTTGCCTTACTTTGGTTTGGCTTAAAATAGGA
* * *
11364931 TAGGTGCAGACAATTTTTTTAGTTGGAATTCTATAATAAATAAAATTTTAAAATATAAAGCATA
66 TAGGTCCAAACAATTTTTTTAGTTAGAATTCTATAATAAATAAAATTTTAAAATATAAAGCATA
11364995 AAGTTTGTTC
Statistics
Matches: 115, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
159 45 0.39
160 70 0.61
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (159 bp):
TGATTGTGAAGTTGTTACATTACATATTTCCCATTTGCCTTACTTTGGTTTGGCTTAAAATAGGA
TAGGTCCAAACAATTTTTTTAGTTAGAATTCTATAATAAATAAAATTTTAAAATATAAAGCATAT
AAACCTCAAAATCCATGACATGGGGACTG
Found at i:11365238 original size:3 final size:3
Alignment explanation
Indices: 11365232--11365277 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
11365222 AATAGTAATA
*
11365232 ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
11365278 AAGTCTCTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:11366169 original size:20 final size:21
Alignment explanation
Indices: 11366144--11366184 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11366134 TTTCAAACCT
11366144 TTCCTT-TT-TCTTTATTTTCC
1 TTCCTTATTCTCTTT-TTTTCC
11366164 TTCCTTATTCTCTTTTTTTCC
1 TTCCTTATTCTCTTTTTTTCC
11366185 ACTTTGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCCTTATTCTCTTTTTTTCC
Found at i:11366224 original size:11 final size:11
Alignment explanation
Indices: 11366208--11366246 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11366198 GGATTATTCA
11366208 TTCTTTTTTTT
1 TTCTTTTTTTT
11366219 TTC--TTTTTT
1 TTCTTTTTTTT
11366228 TTCTTTTTTTT
1 TTCTTTTTTTT
*
11366239 TCCTTTTT
1 TTCTTTTT
11366247 GGTTGCCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:11366227 original size:10 final size:10
Alignment explanation
Indices: 11366212--11366246 Score: 54
Period size: 9 Copynumber: 3.5 Consensus size: 10
11366202 TATTCATTCT
11366212 TTTTTTTTTC
1 TTTTTTTTTC
11366222 -TTTTTTTTC
1 TTTTTTTTTC
11366231 TTTTTTTTTCC
1 TTTTTTTTT-C
11366242 TTTTT
1 TTTTT
11366247 GGTTGCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 8 0.35
11 6 0.26
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:11366233 original size:20 final size:20
Alignment explanation
Indices: 11366208--11366246 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11366198 GGATTATTCA
*
11366208 TTCTTTTTTTTTTCTTTTTT
1 TTCTTTTTTTTTCCTTTTTT
11366228 TTCTTTTTTTTTCCTTTTT
1 TTCTTTTTTTTTCCTTTTT
11366247 GGTTGCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (20 bp):
TTCTTTTTTTTTCCTTTTTT
Found at i:11366295 original size:9 final size:9
Alignment explanation
Indices: 11366281--11366320 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
11366271 AATCCAATTC
11366281 TTTTTCTTT
1 TTTTTCTTT
11366290 TTTTTC--T
1 TTTTTCTTT
11366297 TTTTTCTTT
1 TTTTTCTTT
11366306 TTTTTCTTT
1 TTTTTCTTT
11366315 TATTTT
1 T-TTTT
11366321 TATTGTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.25
9 17 0.61
10 4 0.14
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:11366302 original size:16 final size:16
Alignment explanation
Indices: 11366281--11366315 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11366271 AATCCAATTC
11366281 TTTTTCTTTTTTTTCT
1 TTTTTCTTTTTTTTCT
11366297 TTTTTCTTTTTTTTCT
1 TTTTTCTTTTTTTTCT
11366313 TTT
1 TTT
11366316 ATTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTTTTTTCT
Found at i:11368974 original size:23 final size:21
Alignment explanation
Indices: 11368947--11369000 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
11368937 TGGAACCAAC
11368947 CAAACCACCAAGCTACCAATAAT
1 CAAACCACCAA-CTACC-ATAAT
**
11368970 CAAACCAATAACTACCATAAT
1 CAAACCACCAACTACCATAAT
*
11368991 -AATCCACCAA
1 CAAACCACCAA
11369001 ACTATAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 5 0.19
23 9 0.35
ACGTcount: A:0.50, C:0.33, G:0.02, T:0.15
Consensus pattern (21 bp):
CAAACCACCAACTACCATAAT
Found at i:11374067 original size:24 final size:25
Alignment explanation
Indices: 11374039--11374087 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
11374029 AATTCTTTCA
**
11374039 TTTAAAATAACTATTTTA-TAATTT
1 TTTAAAATAAAAATTTTATTAATTT
11374063 TTTAAAATAAAAATTTTATTAATTT
1 TTTAAAATAAAAATTTTATTAATTT
11374088 ATACTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAAAATAAAAATTTTATTAATTT
Found at i:11375874 original size:1 final size:1
Alignment explanation
Indices: 11375868--11375893 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
11375858 TTATAAAATT
11375868 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
11375894 CCCTTCCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11390659 original size:44 final size:46
Alignment explanation
Indices: 11390589--11390677 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
11390579 CTTAAAAAAA
* *
11390589 AAGAGAAAGAAAAAAAAAGAAGAGAATTCAGGTTGAAAACCCAAAT
1 AAGAGAAAGAAAAAAAAAGAAGAGAATTCAAGTTAAAAACCCAAAT
11390635 AAGAGAAA-AAAAAAAAA-AAGAGAATTCAAGTTAAAAACCCAAA
1 AAGAGAAAGAAAAAAAAAGAAGAGAATTCAAGTTAAAAACCCAAA
11390678 AAAGGCAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 24 0.59
45 9 0.22
46 8 0.20
ACGTcount: A:0.65, C:0.09, G:0.16, T:0.10
Consensus pattern (46 bp):
AAGAGAAAGAAAAAAAAAGAAGAGAATTCAAGTTAAAAACCCAAAT
Found at i:11391315 original size:10 final size:10
Alignment explanation
Indices: 11391295--11391339 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
11391285 ATAATGATGG
11391295 AAAAATG-AT
1 AAAAATGAAT
11391304 AAAAATGAAT
1 AAAAATGAAT
11391314 AAAAA--AAT
1 AAAAATGAAT
11391322 AAAAATGAA-
1 AAAAATGAAT
11391331 AAAATATGA
1 AAAA-ATGA
11391340 TGAAATGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.25
9 11 0.34
10 13 0.41
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (10 bp):
AAAAATGAAT
Found at i:11391317 original size:18 final size:18
Alignment explanation
Indices: 11391296--11391349 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
11391286 TAATGATGGA
11391296 AAAATGATAAAAATGAAT
1 AAAATGATAAAAATGAAT
** *
11391314 AAAAAAATAAAAATGAAA
1 AAAATGATAAAAATGAAT
*
11391332 AAATATGAT-GAAATGAAT
1 AAA-ATGATAAAAATGAAT
11391350 GAAAGAATGG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (18 bp):
AAAATGATAAAAATGAAT
Found at i:11391333 original size:8 final size:9
Alignment explanation
Indices: 11391295--11391335 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
11391285 ATAATGATGG
11391295 AAAAATGAT
1 AAAAATGAT
11391304 AAAAATGAAT
1 AAAAATG-AT
*
11391314 AAAAA-AAT
1 AAAAATGAT
11391322 AAAAATGA-
1 AAAAATGAT
11391330 AAAAAT
1 AAAAAT
11391336 ATGATGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 13 0.46
9 8 0.29
10 7 0.25
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (9 bp):
AAAAATGAT
Found at i:11391991 original size:49 final size:48
Alignment explanation
Indices: 11391857--11392631 Score: 541
Period size: 50 Copynumber: 15.7 Consensus size: 48
11391847 AAACTTTTTC
* * * *
11391857 CTTTTCAAAATATTAGATTTTTAAAATTTCTTGGCCTATCTTAAT-AGAAG
1 CTTTTC-AAA-ATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AG
* *
11391907 CCTTTTTCAAAATGGGATTTTTTAAAGTTTCTTAGCTTATCTTTATAAGAG
1 -C-TTTTCAAAATGAGA-TTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
*
11391958 ACTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTGAT-AGAAG
1 -CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AG
* * * *
11392007 CTTTTTTAAAATGAGATTTTTAAAGTTTTTTAGCCTATTTTTATAGGAG
1 C-TTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
* * *
11392056 CCTTTCAAAATATGAGATTTTTAAAGTTTCTTAACCTATCTTTATAGGAG
1 CTTTTC-AAA-ATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
* * * * * * *
11392106 TTTTTCAATATGAGATTTTAAAAATTTCTTAACCTATTTTTATAGGAG
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
* * * * * *
11392154 CTTTTCAAAATATGAAATTCTTAAAATTTCTTAACCTATATTTATAAAAG
1 CTTTTC-AAA-ATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
* *
11392204 TTTTTCAAAATGAGATTTTTAAAGTTTCTTAGTCTATCTTTAT-AGAAG
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AG
* * * *
11392252 TCTTTTCCAAATTAAGATTTTTAAAG-TT-TTAGTCTATCTCTATATAAG-T
1 -CTTTT-CAAAATGAGATTTTTAAAGTTTCTTAGCCTATCT-T-TATAAGAG
* * * * *
11392301 CTTTTCAAAATGAGATTTTTAAAATTTCTTAACATATCTTTATAGGGG
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
* * * * * *
11392349 TTTTTTCAAAATGAGATTTTTAAAATTTTTTTAACATATTTTTAT-AGAAG
1 -CTTTTCAAAATGAGATTTTT-AAAGTTTCTTAGCCTATCTTTATAAG-AG
* * * * * * * *
11392399 TCTCTTCCAAATTGAGCTTTTTAAAATTTTTTAGCCTGTCTTTATAGGTG
1 -CT-TTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
* * * *
11392449 CCTTTTCAAAATGAGATTTTAAAAATTTCTTAGCTTATCTTTATAA-ATC
1 -CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGA-G
* * *
11392498 CTTTTTCAAAATTTGAGA-TTTTAAAGTTTCCTAGCCTTTCTTTA-AAGTAA
1 C-TTTTCAAAA--TGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AG
** * * * *
11392548 CTTTTCAAGTTTGAGATTTTTGAAA-TTT-TATAGCCTTTATTTAGATGAG
1 CTTTTCAA-AATGAGATTTTT-AAAGTTTCT-TAGCCTATCTTTATAAGAG
* * * *
11392597 TTTTTTCAAATTAAGA-TTTTAAAGTTTCGTAGCCT
1 -CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCT
11392632 CTATTTAGAT
Statistics
Matches: 588, Mismatches: 98, Indels: 79
0.77 0.13 0.10
Matches are distributed among these distances:
47 25 0.04
48 115 0.20
49 192 0.33
50 194 0.33
51 55 0.09
52 7 0.01
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (48 bp):
CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAG
Found at i:11392123 original size:98 final size:98
Alignment explanation
Indices: 11391857--11392654 Score: 663
Period size: 98 Copynumber: 8.1 Consensus size: 98
11391847 AAACTTTTTC
* * * *
11391857 CTTTTCAAAATATTAGATTTTTAAAATTTCTTGGCCTATCTTAATAGAAGCCTTTTTCAAAATGG
1 CTTTTC-AAATATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGAAG--TTTTTCAAAATGA
* * * *
11391922 GATTTTTTAAAGTTTCTTAGCTTATCTTTATAAGAGA
63 GA-TTTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
* * *
11391959 CTTTTCAAA-ATGAGATTTTTAAAGTTTCTTAGCCTATCTTGATAGAAGCTTTTTTAAAATGAGA
1 CTTTTCAAATATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGAAG-TTTTTCAAAATGAGA
* * *
11392023 TTTTTAAAGTTTTTTAGCCTATTTTTATAGGAG-
65 TTTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
* * * * *
11392056 CCTTTCAAAATATGAGATTTTTAAAGTTTCTTAACCTATCTTTATAGGAGTTTTTCAATATGAGA
1 CTTTTC-AAATATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGAAGTTTTTCAAAATGAGA
* * *
11392121 TTTTAAAAATTTCTTAACCTATTTTTATAGGAG-
65 TTTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
* * * * *
11392154 CTTTTCAAAATATGAAATTCTTAAAATTTCTTAACCTATATTTATAAAAGTTTTTCAAAATGAGA
1 CTTTTC-AAATATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGAAGTTTTTCAAAATGAGA
* * *
11392219 TTTTTAAAGTTTCTTAGTCTATCTTTATAGAAGT
65 TTTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
* * * * *
11392253 CTTTTCCAAAT-TAAGATTTTT-AAAGTT-TTAGTCTATCTCTATATAAGTCTTTTCAAAATGAG
1 CTTTT-CAAATATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGAAGT-TTTTCAAAATGAG
* * *
11392315 ATTTTTAAAATTTCTTAACATATCTTTATAGGGGT
64 ATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
* * * * * * *
11392350 TTTTTCAAA-ATGAGATTTTTAAAATTTTTTTAACATATTTTTATAGAAGTCTCTTCCAAATTGA
1 CTTTTCAAATATGAGATTTTTAAAA-TTTCTTAGCCTATCTTTATAGAAGT-T-TTTCAAAATGA
* * * * *
11392414 GCTTTTTAAAATTTTTTAGCCTGTCTTTATAGGTGC
63 GATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
* * *
11392450 CTTTTCAAA-ATGAGATTTTAAAAATTTCTTAGCTTATCTTTATA-AATCCTTTTTCAAAATTTG
1 CTTTTCAAATATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGAA--GTTTTTCAAAA--TG
* * * * * *
11392513 AGA-TTTTAAAGTTTCCTAGCCTTTCTTTAAAGTA-A
62 AGATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
* * * * * * * *
11392548 CTTTTCAAGTTTGAGATTTTTGAAATTT-TATAGCCTTTATTTAGATG-AGTTTTTTCAAATTAA
1 CTTTTCAAATATGAGATTTTTAAAATTTCT-TAGCCTATCTTTATA-GAAG-TTTTTCAAAATGA
* * * * * *
11392611 GA-TTTTAAAGTTTCGTAGCCTCTATTTAGATGAGT
63 GATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
11392646 -TTTTCAAAT
1 CTTTTCAAAT
11392655 TTCAAATCCT
Statistics
Matches: 572, Mismatches: 104, Indels: 45
0.79 0.14 0.06
Matches are distributed among these distances:
96 29 0.05
97 96 0.17
98 184 0.32
99 152 0.27
100 102 0.18
101 3 0.01
102 6 0.01
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (98 bp):
CTTTTCAAATATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGAAGTTTTTCAAAATGAGAT
TTTTAAAATTTCTTAGCCTATCTTTATAGGAGT
Found at i:11394571 original size:274 final size:274
Alignment explanation
Indices: 11394082--11394629 Score: 999
Period size: 274 Copynumber: 2.0 Consensus size: 274
11394072 AGAATCAAGT
* *
11394082 AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTTGGCCAAGCATCATTCCACCATGCC
1 AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTCGGCCAAGCATCAATCCACCATGCC
11394147 CGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTGA
66 CGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTGA
* *
11394212 ATGTTATTCCATATGTTTAATGCATGCATGTTGGTTAGTTTAGTAGTTTGTTTGTAGTGTTTAAC
131 ATATTATTCCATATGTTTAATGCATGCATGTTGGTTAGTTTAGTAGTTTGTTTATAGTGTTTAAC
* *
11394277 TAAGTATGTATGTTTTCATGGTCTCCTTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTTT
196 TAACTATGTATGTGTTCATGGTCTCCTTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTTT
11394342 CATGATAAAAATGC
261 CATGATAAAAATGC
11394356 AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTCGGCCAAGCATCAATCCA-CATTGC
1 AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTCGGCCAAGCATCAATCCACCA-TGC
11394420 CCGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTG
65 CCGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTG
* * *
11394485 AGTATTATTTCATATGTTTAATGCATGCATGTTGGTTAGTTTAGTAGTTTGTTTATAGTGTTTAG
130 AATATTATTCCATATGTTTAATGCATGCATGTTGGTTAGTTTAGTAGTTTGTTTATAGTGTTTAA
11394550 CTAACTATGTATGTGTTCATGGTCTCCTTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTT
195 CTAACTATGTATGTGTTCATGGTCTCCTTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTT
11394615 TCATGATAAAAATGC
260 TCATGATAAAAATGC
11394630 CTTTACATTA
Statistics
Matches: 264, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
273 2 0.01
274 262 0.99
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (274 bp):
AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTCGGCCAAGCATCAATCCACCATGCC
CGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTGA
ATATTATTCCATATGTTTAATGCATGCATGTTGGTTAGTTTAGTAGTTTGTTTATAGTGTTTAAC
TAACTATGTATGTGTTCATGGTCTCCTTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTTT
CATGATAAAAATGC
Found at i:11395283 original size:13 final size:13
Alignment explanation
Indices: 11395262--11395435 Score: 90
Period size: 13 Copynumber: 13.4 Consensus size: 13
11395252 TTCAAAATCC
11395262 TAAACCTAAACCT
1 TAAACCTAAACCT
* *
11395275 TAAATCT-AACTT
1 TAAACCTAAACCT
11395287 TAAACTCTAAACC-
1 TAAAC-CTAAACCT
* *
11395300 -AAACCTTGAACTT
1 TAAACC-TAAACCT
* *
11395313 TAAAGCTAAACAT
1 TAAACCTAAACCT
* *
11395326 TAAACCCAAACCC
1 TAAACCTAAACCT
* *
11395339 CAAATCTAAACCT
1 TAAACCTAAACCT
* *
11395352 TAAACTTTAAACCC
1 TAAAC-CTAAACCT
*
11395366 TAAACCTAAA-CG
1 TAAACCTAAACCT
11395378 TAAACCCTAAA-CT
1 TAAA-CCTAAACCT
* * *
11395391 CTAATCTTAAACCC
1 -TAAACCTAAACCT
*
11395405 TAAACCTTAAATCT
1 TAAACC-TAAACCT
*
11395419 AAAACCTAAACC-
1 TAAACCTAAACCT
11395431 TAAAC
1 TAAAC
11395436 TATAAACCTC
Statistics
Matches: 117, Mismatches: 34, Indels: 21
0.68 0.20 0.12
Matches are distributed among these distances:
11 1 0.01
12 25 0.21
13 59 0.50
14 32 0.27
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.24
Consensus pattern (13 bp):
TAAACCTAAACCT
Found at i:11395355 original size:7 final size:7
Alignment explanation
Indices: 11395345--11395444 Score: 61
Period size: 7 Copynumber: 15.0 Consensus size: 7
11395335 ACCCCAAATC
11395345 TAAACCT
1 TAAACCT
*
11395352 TAAACTT
1 TAAACCT
*
11395359 TAAACCC
1 TAAACCT
11395366 TAAACC-
1 TAAACCT
*
11395372 TAAA-CG
1 TAAACCT
*
11395378 TAAACCC
1 TAAACCT
11395385 TAAA-CT
1 TAAACCT
*
11395391 CT-AATCT
1 -TAAACCT
*
11395398 TAAACCC
1 TAAACCT
11395405 TAAACCT
1 TAAACCT
*
11395412 TAAATCT
1 TAAACCT
*
11395419 AAAACC-
1 TAAACCT
11395425 TAAACC-
1 TAAACCT
11395431 TAAA-CT
1 TAAACCT
11395437 ATAAACCT
1 -TAAACCT
11395445 CAAATTCTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
5 2 0.03
6 21 0.29
7 48 0.66
8 2 0.03
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:11395375 original size:20 final size:20
Alignment explanation
Indices: 11395344--11395443 Score: 107
Period size: 20 Copynumber: 5.0 Consensus size: 20
11395334 AACCCCAAAT
11395344 CTAAACCTTAAACTTTAAACC
1 CTAAACC-TAAACTTTAAACC
*
11395365 CTAAACCTAAAC-GTAAACC
1 CTAAACCTAAACTTTAAACC
*
11395384 CTAAACTCTAATC-TTAAACC
1 CTAAAC-CTAAACTTTAAACC
* *
11395404 CTAAACCTTAAA-TCTAAAAC
1 CTAAACC-TAAACTTTAAACC
*
11395424 CTAAACCTAAACTATAAACC
1 CTAAACCTAAACTTTAAACC
11395444 TCAAATTCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
19 17 0.25
20 43 0.64
21 7 0.10
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (20 bp):
CTAAACCTAAACTTTAAACC
Found at i:11395376 original size:46 final size:47
Alignment explanation
Indices: 11395300--11395444 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 47
11395290 ACTCTAAACC
* * * *
11395300 AAACCTTGAACTTTAAA-GCTAAACATTAAACCCAAACCCCAAA-TCT
1 AAACCTTAAACTTTAAACCCTAAAC-CTAAACCTAAACCCCAAACTCT
* *
11395346 AAACCTTAAACTTTAAACCCTAAACCTAAACGTAAACCCTAAACTCT
1 AAACCTTAAACTTTAAACCCTAAACCTAAACCTAAACCCCAAACTCT
* ** * * * *
11395393 -AATCTTAAACCCTAAACCTTAAATCTAAAACCTAAA-CCTAAACTAT
1 AAACCTTAAACTTTAAACCCTAAACCT-AAACCTAAACCCCAAACTCT
11395439 AAACCT
1 AAACCT
11395445 CAAATTCTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
46 60 0.74
47 21 0.26
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.23
Consensus pattern (47 bp):
AAACCTTAAACTTTAAACCCTAAACCTAAACCTAAACCCCAAACTCT
Found at i:11395382 original size:33 final size:33
Alignment explanation
Indices: 11395318--11395390 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
11395308 AACTTTAAAG
*
11395318 CTAAACATTAAACCCAAACCCCAAATCTAAACC
1 CTAAACTTTAAACCCAAACCCCAAATCTAAACC
* *
11395351 TTAAACTTTAAACCCTAAA-CCTAAA-CGTAAACC
1 CTAAACTTTAAACCC-AAACCCCAAATC-TAAACC
11395384 CTAAACT
1 CTAAACT
11395391 CTAATCTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 1 0.03
33 30 0.88
34 3 0.09
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.21
Consensus pattern (33 bp):
CTAAACTTTAAACCCAAACCCCAAATCTAAACC
Found at i:11395996 original size:22 final size:23
Alignment explanation
Indices: 11395944--11395998 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
11395934 TATTTTAATC
*
11395944 CAAAAAAAAATTGTTTTGCTTTT
1 CAAAAAAAAATTGCTTTGCTTTT
*
11395967 TAAAAAAAAA-TGCTTTGC-TTT
1 CAAAAAAAAATTGCTTTGCTTTT
11395988 CAAAGAAAAAA
1 CAAA-AAAAAA
11395999 AAGATTAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 13 0.46
23 9 0.32
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (23 bp):
CAAAAAAAAATTGCTTTGCTTTT
Found at i:11395996 original size:23 final size:23
Alignment explanation
Indices: 11395945--11395999 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
11395935 ATTTTAATCC
* **
11395945 AAAAAAAAATTGTTTTGCTTTTT
1 AAAAAAAAATTGCTTTGCTTTCA
11395968 AAAAAAAAA-TGCTTTGCTTTCA
1 AAAAAAAAATTGCTTTGCTTTCA
11395990 AAGAAAAAAA
1 AA-AAAAAAA
11396000 AGATTAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (23 bp):
AAAAAAAAATTGCTTTGCTTTCA
Found at i:11397071 original size:43 final size:43
Alignment explanation
Indices: 11397024--11397116 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
11397014 CACATTTCTT
11397024 TTATTTATT-TGATTTTTAAATGTAATAAGCTATTAAATATTTA
1 TTATTT-TTATGATTTTTAAATGTAATAAGCTATTAAATATTTA
* ** *
11397067 TTATTTTTATGATTTTTAAATGTAGTAATTTATTAAGTATTT-
1 TTATTTTTATGATTTTTAAATGTAATAAGCTATTAAATATTTA
*
11397109 TAATTTTT
1 TTATTTTT
11397117 TACATATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 9 0.20
43 35 0.80
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (43 bp):
TTATTTTTATGATTTTTAAATGTAATAAGCTATTAAATATTTA
Found at i:11397219 original size:3 final size:3
Alignment explanation
Indices: 11397206--11397253 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
11397196 TTAAGTATAC
*
11397206 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11397254 TAATCTACTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11412023 original size:88 final size:88
Alignment explanation
Indices: 11411931--11412094 Score: 258
Period size: 88 Copynumber: 1.9 Consensus size: 88
11411921 TAAAAATAAA
* * ** *
11411931 TAAAAACTAAAAACTAAAAGAGAGAAGAGAAGTGAGGAGTGGGATGATT-GAAATGAAGGAATAG
1 TAAAAACTAAAAACTAAAAGAGAAAAGAGAAATGAGGAGTAAGATGATTAG-AATGAAAGAATAG
*
11411995 CCTTCCTAATTAAAAAAAAAAACC
65 CCTCCCTAATTAAAAAAAAAAACC
11412019 TAAAAACTAAAAACTAAAAGAGAAAAGAGAAATGAGGAGTAAGATGATTAGAATGAAAGAATAGC
1 TAAAAACTAAAAACTAAAAGAGAAAAGAGAAATGAGGAGTAAGATGATTAGAATGAAAGAATAGC
11412084 CTCCCTAATTA
66 CTCCCTAATTA
11412095 TAGAATGGGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
88 68 0.99
89 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.20, T:0.18
Consensus pattern (88 bp):
TAAAAACTAAAAACTAAAAGAGAAAAGAGAAATGAGGAGTAAGATGATTAGAATGAAAGAATAGC
CTCCCTAATTAAAAAAAAAAACC
Found at i:11412120 original size:18 final size:18
Alignment explanation
Indices: 11412097--11412160 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
11412087 CCTAATTATA
11412097 GAATGGGATTCAGCCAAG
1 GAATGGGATTCAGCCAAG
11412115 GAATGGGATTCAGCCAAG
1 GAATGGGATTCAGCCAAG
*
11412133 GAATGAGATTCAGCCAAG
1 GAATGGGATTCAGCCAAG
11412151 GAATGGGATT
1 GAATGGGATT
11412161 ACAATATACA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (18 bp):
GAATGGGATTCAGCCAAG
Found at i:11422543 original size:86 final size:87
Alignment explanation
Indices: 11422402--11422563 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 87
11422392 TAAAAATAAA
* ** *
11422402 TAAAAACTAAAAACTAAAAGAGAGAAGAGAAGTGAGGAGTGGGATGATTGAAATGAAGGAATAGC
1 TAAAAACTAAAAACTAAAAGAGAGAAGAGAAATGAGGAGTAAGATGATTGAAATGAAAGAATAGC
*
11422467 CTTCCTAATTAAAAAAAAAACC
66 CTCCCTAATTAAAAAAAAAACC
11422489 TAAAAACTAAAAACTAAAAGAGA-AAGAGAAATGAGGAGTAAGATGATT-AGAATGAAAGAATAG
1 TAAAAACTAAAAACTAAAAGAGAGAAGAGAAATGAGGAGTAAGATGATTGA-AATGAAAGAATAG
11422552 CCTCCCTAATTA
65 CCTCCCTAATTA
11422564 TAGAATGGGA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
85 1 0.01
86 45 0.65
87 23 0.33
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.18
Consensus pattern (87 bp):
TAAAAACTAAAAACTAAAAGAGAGAAGAGAAATGAGGAGTAAGATGATTGAAATGAAAGAATAGC
CTCCCTAATTAAAAAAAAAACC
Found at i:11422589 original size:18 final size:18
Alignment explanation
Indices: 11422566--11422628 Score: 110
Period size: 18 Copynumber: 3.6 Consensus size: 18
11422556 CCTAATTATA
11422566 GAATGGGATTCAGCCAAG
1 GAATGGGATTCAGCCAAG
11422584 GAAT-GGATTCAGCCAAG
1 GAATGGGATTCAGCCAAG
*
11422601 GAATGAGATTCAGCCAAG
1 GAATGGGATTCAGCCAAG
11422619 GAATGGGATT
1 GAATGGGATT
11422629 ACAATATACA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.40
18 25 0.60
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (18 bp):
GAATGGGATTCAGCCAAG
Found at i:11424932 original size:22 final size:21
Alignment explanation
Indices: 11424887--11424937 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
11424877 AATTTGAAAG
* *
11424887 AAAATTTCTCTAAACACCCTA
1 AAAATTTTTCTAAACACCCAA
*
11424908 AAAATTTTTCGTAGACACCCAA
1 AAAATTTTTC-TAAACACCCAA
11424930 AAAATTTT
1 AAAATTTT
11424938 CCTTAGACGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAATTTTTCTAAACACCCAA
Found at i:11424944 original size:22 final size:22
Alignment explanation
Indices: 11424900--11424945 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
11424890 ATTTCTCTAA
* *
11424900 ACACCCTAAAAATTTTTCGTAG
1 ACACCCAAAAAATTTTCCGTAG
*
11424922 ACACCCAAAAAATTTTCCTTAG
1 ACACCCAAAAAATTTTCCGTAG
11424944 AC
1 AC
11424946 GCTATAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (22 bp):
ACACCCAAAAAATTTTCCGTAG
Found at i:11429259 original size:56 final size:57
Alignment explanation
Indices: 11429135--11429260 Score: 159
Period size: 56 Copynumber: 2.2 Consensus size: 57
11429125 AATATTTTCT
* *
11429135 TTTTTAAATTTTTAAATTCTCCATTATTTGGGCTTATCTAGAAATTATTTTTATTTA
1 TTTTTAAATTTTTAAATTCTCCATCATTTGGGCTTATCTAGAAATTATTTTTATTAA
** * *
11429192 TTTTTTTATTTTTAAATT-TTCATCATTTGGG-TTAATTTAGAAATATATTTTT-TTAA
1 TTTTTAAATTTTTAAATTCTCCATCATTTGGGCTT-ATCTAGAAAT-TATTTTTATTAA
11429248 TTTTTAAATTTTT
1 TTTTTAAATTTTT
11429261 CACAATTTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
55 2 0.03
56 34 0.58
57 23 0.39
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (57 bp):
TTTTTAAATTTTTAAATTCTCCATCATTTGGGCTTATCTAGAAATTATTTTTATTAA
Found at i:11430256 original size:15 final size:14
Alignment explanation
Indices: 11430233--11430262 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
11430223 CATTCACCCC
11430233 TTTTTTTGTTTTTT
1 TTTTTTTGTTTTTT
11430247 TTTTTATTGTTTTTT
1 TTTTT-TTGTTTTTT
11430262 T
1 T
11430263 AAGTAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (14 bp):
TTTTTTTGTTTTTT
Found at i:11430414 original size:30 final size:30
Alignment explanation
Indices: 11430375--11430434 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
11430365 AAATAGAGGC
*
11430375 ACCATAACTTTAAAAAGTAAAATGCTCCTT
1 ACCACAACTTTAAAAAGTAAAATGCTCCTT
* *
11430405 ACCACAACTTTGAAAGGTAAAATGCTCCTT
1 ACCACAACTTTAAAAAGTAAAATGCTCCTT
11430435 TAAATAGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (30 bp):
ACCACAACTTTAAAAAGTAAAATGCTCCTT
Found at i:11430481 original size:42 final size:42
Alignment explanation
Indices: 11430405--11430527 Score: 160
Period size: 41 Copynumber: 3.0 Consensus size: 42
11430395 AATGCTCCTT
** *
11430405 ACCACAACTTTGA-AAGGTAAAATGCTCCTTTAAATAGAGGC
1 ACCACAACTTTGAGAAAATAAAATGCTCCTTTAAATAAAGGC
* * *
11430446 ACCACAATTTTGAGAAAATAAATTGCTCCTCTAAATAAAGGC
1 ACCACAACTTTGAGAAAATAAAATGCTCCTTTAAATAAAGGC
* *
11430488 ACTACAACTTTG-GAAAATAAAATGCTCCTTTAAACAAAGG
1 ACCACAACTTTGAGAAAATAAAATGCTCCTTTAAATAAAGG
11430528 AGTCATAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
41 37 0.53
42 33 0.47
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (42 bp):
ACCACAACTTTGAGAAAATAAAATGCTCCTTTAAATAAAGGC
Found at i:11430498 original size:113 final size:112
Alignment explanation
Indices: 11430312--11430517 Score: 261
Period size: 113 Copynumber: 1.8 Consensus size: 112
11430302 TGAGAAAAAT
* * * *
11430312 AAATGCTCCTCTAAACAGAGGCATCACAACTTTGAAAAGTAAAAAATTCATCTAAATAGAGGCAC
1 AAATGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAAAAACTCATCTAAATAAAGGCAC
*
11430377 CATAACTTT-AAAAAGTAAAATGCTCCTTACCACAACTTTGAAAGGTA
66 CACAACTTTGAAAAA-TAAAATGCTCCTTACCACAACTTTGAAAGGTA
* * * *** *
11430424 AAATGCTCCTTTAAATAGAGGCACCACAATTTTGAGAAAATAAATTGCTCCTCTAAATAAAGGCA
1 AAATGCTCCTCTAAACAGAGGCACCACAACTTTGA-AAAATAAAAAACTCATCTAAATAAAGGCA
* *
11430489 CTACAACTTTGGAAAATAAAATGCTCCTT
65 CCACAACTTTGAAAAATAAAATGCTCCTT
11430518 TAAACAAAGG
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
112 31 0.40
113 43 0.55
114 4 0.05
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (112 bp):
AAATGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAAAAACTCATCTAAATAAAGGCAC
CACAACTTTGAAAAATAAAATGCTCCTTACCACAACTTTGAAAGGTA
Found at i:11430870 original size:80 final size:80
Alignment explanation
Indices: 11430778--11430957 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 80
11430768 CATCCAAAAG
* * * * *
11430778 TTCAAAGCTTCTCATTTTAGTCTAAAGGCTCGCATTT-GACAAA-TTTTAGGATTTCACACCTTA
1 TTCAAAGATTCTCATTTGAGTCTAAAGACTCACATTTCGACAAATTTTTA-G-TTTCACACCTCA
* * *
11430841 AAGATTTTTATTTATAA
64 AAGATTCTCATTTAGAA
* * * *
11430858 TTCAAAGATTCTCATTTGAGTTTGAAGATTCACATTTCTACAAATTTTTAGTTTCACACCTCAAA
1 TTCAAAGATTCTCATTTGAGTCTAAAGACTCACATTTCGACAAATTTTTAGTTTCACACCTCAAA
11430923 GATTCTCATTTAGAA
66 GATTCTCATTTAGAA
11430938 TTCAAAGATTCTCATTTGAG
1 TTCAAAGATTCTCATTTGAG
11430958 AACTCAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 75 0.87
81 6 0.07
82 5 0.06
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (80 bp):
TTCAAAGATTCTCATTTGAGTCTAAAGACTCACATTTCGACAAATTTTTAGTTTCACACCTCAAA
GATTCTCATTTAGAA
Found at i:11430942 original size:21 final size:22
Alignment explanation
Indices: 11430917--11430973 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
11430907 AGTTTCACAC
11430917 CTCAAAGATTCTCATTT-AGAA
1 CTCAAAGATTCTCATTTGAGAA
*
11430938 TTCAAAGATTCTCATTTGAGAA
1 CTCAAAGATTCTCATTTGAGAA
*
11430960 CTCAAAAATTCTCA
1 CTCAAAGATTCTCA
11430974 CCAAAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAGAA
Found at i:11431332 original size:23 final size:23
Alignment explanation
Indices: 11431306--11431349 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11431296 TTAAAACAAG
*
11431306 TTTCATCAAC-TGATCATCATTAT
1 TTTCATC-ACTTGATCACCATTAT
11431329 TTTCATCACTTGATCACCATT
1 TTTCATCACTTGATCACCATT
11431350 CATAGCCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (23 bp):
TTTCATCACTTGATCACCATTAT
Found at i:11432258 original size:8 final size:8
Alignment explanation
Indices: 11432247--11432312 Score: 62
Period size: 9 Copynumber: 7.8 Consensus size: 8
11432237 CATTCTTTCA
11432247 TTTTTTA-
1 TTTTTTAT
11432254 TTTTTTATT
1 TTTTTTA-T
11432263 TTTTTTAT
1 TTTTTTAT
11432271 TTTTTTCAT
1 TTTTTT-AT
*
11432280 TTTTTTCCT
1 TTTTTT-AT
11432289 TTATTTTCAT
1 TT-TTTT-AT
*
11432299 TTTTTCAT
1 TTTTTTAT
11432307 TTTTTT
1 TTTTTT
11432313 TTATCTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
7 7 0.14
8 14 0.27
9 22 0.43
10 8 0.16
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTAT
Found at i:11432266 original size:9 final size:9
Alignment explanation
Indices: 11432208--11432312 Score: 89
Period size: 8 Copynumber: 12.2 Consensus size: 9
11432198 AATTTGAGTC
11432208 TTCATTTTCT
1 TTCATTTT-T
* *
11432218 CTCATTTTC
1 TTCATTTTT
*
11432227 ATC-TTTTT
1 TTCATTTTT
*
11432235 TTCA-TTCT
1 TTCATTTTT
11432243 TTCA-TTTT
1 TTCATTTTT
11432251 TT-A-TTTT
1 TTCATTTTT
11432258 TT-ATTTTT
1 TTCATTTTT
*
11432266 TTTATTTTT
1 TTCATTTTT
11432275 TTCATTTTT
1 TTCATTTTT
*
11432284 TTCCTTTATT
1 TTCATTT-TT
11432294 TTCA-TTTT
1 TTCATTTTT
11432302 TTCATTTTT
1 TTCATTTTT
11432311 TT
1 TT
11432313 TTATCTTTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
7 8 0.10
8 30 0.38
9 30 0.38
10 12 0.15
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.75
Consensus pattern (9 bp):
TTCATTTTT
Found at i:11432283 original size:19 final size:19
Alignment explanation
Indices: 11432222--11432312 Score: 76
Period size: 17 Copynumber: 5.2 Consensus size: 19
11432212 TTTTCTCTCA
11432222 TTTTCATCTTTTTTTCA-TT
1 TTTTCAT-TTTTTTTCATTT
*
11432241 CTTTCA--TTTTTT-A-TT
1 TTTTCATTTTTTTTCATTT
11432256 TTTT-ATTTTTTTT-ATTT
1 TTTTCATTTTTTTTCATTT
*
11432273 TTTTCA-TTTTTTTCCTTT
1 TTTTCATTTTTTTTCATTT
11432291 ATTTTCA--TTTTTTCATTT
1 -TTTTCATTTTTTTTCATTT
11432309 TTTT
1 TTTT
11432313 TTATCTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
14 1 0.02
15 6 0.10
16 13 0.21
17 17 0.27
18 14 0.23
19 11 0.18
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCATTTTTTTTCATTT
Found at i:11432314 original size:19 final size:19
Alignment explanation
Indices: 11432222--11432323 Score: 77
Period size: 19 Copynumber: 5.3 Consensus size: 19
11432212 TTTTCTCTCA
*
11432222 TTTTCATCTTTTTTTCATT
1 TTTTCATTTTTTTTTCATT
* *
11432241 CTTTCATTTTTTATTTTTTATT
1 TTTTCA--TTTT-TTTTTCATT
11432263 TTTT--TTATTTTTTTCATTT
1 TTTTCATT-TTTTTTTCA-TT
* *
11432282 TTTTC-CTTTATTTTCATT
1 TTTTCATTTTTTTTTCATT
11432300 TTTTCATTTTTTTTT-ATCT
1 TTTTCATTTTTTTTTCAT-T
11432319 TTTTC
1 TTTTC
11432324 CATCCATTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
18 17 0.26
19 34 0.52
20 1 0.02
21 3 0.05
22 11 0.17
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCATTTTTTTTTCATT
Found at i:11432322 original size:11 final size:10
Alignment explanation
Indices: 11432222--11432313 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 10
11432212 TTTTCTCTCA
11432222 TTTTCATCTTT
1 TTTTCAT-TTT
11432233 TTTTCATTCTT
1 TTTTCATT-TT
11432244 TCATTT--TTTAT
1 T--TTTCATTT-T
*
11432255 TTTTTATTTT
1 TTTTCATTTT
11432265 TTTT-A-TTT
1 TTTTCATTTT
11432273 TTTTCA-TTT
1 TTTTCATTTT
* *
11432282 TTTTCCTTTA
1 TTTTCATTTT
11432292 TTTTCA--TT
1 TTTTCATTTT
11432300 TTTTCATTTT
1 TTTTCATTTT
11432310 TTTT
1 TTTT
11432314 TATCTTTTTC
Statistics
Matches: 67, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
8 14 0.21
9 13 0.19
10 20 0.30
11 17 0.25
13 3 0.04
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:11432716 original size:24 final size:23
Alignment explanation
Indices: 11432673--11432717 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
11432663 TTTGTGGCAT
*
11432673 TTTTATTTTTTCTCTTTCTTTCA
1 TTTTATTTTTTCTCTCTCTTTCA
11432696 TTTTACTTTTCTT-TCTCTCTTT
1 TTTTA-TTTT-TTCTCTCTCTTT
11432718 GAGACTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTATTTTTTCTCTCTCTTTCA
Found at i:11440251 original size:36 final size:38
Alignment explanation
Indices: 11440181--11440263 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 38
11440171 CAAAAAAGCA
* **
11440181 AAAAAAATGATAATGATGGAAATATGATAAAAATGAAT
1 AAAAAAATGAAAATGATAAAAATATGATAAAAATGAAT
*
11440219 AAAAAAATGAAAATGA-AAAAATATGAT-GAAATGAAT
1 AAAAAAATGAAAATGATAAAAATATGATAAAAATGAAT
* *
11440255 GAAAGAATG
1 AAAAAAATG
11440264 GGGAAATGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 15 0.38
37 9 0.23
38 15 0.38
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (38 bp):
AAAAAAATGAAAATGATAAAAATATGATAAAAATGAAT
Found at i:11440885 original size:49 final size:49
Alignment explanation
Indices: 11440761--11441526 Score: 639
Period size: 49 Copynumber: 15.6 Consensus size: 49
11440751 AAACTTTTCG
* * * *
11440761 CTTTTCAAAATATTAGATTTTTAAAATTTCCTAGCCTATC-TTA-ACAGAAGC
1 CTTTTC-AAA-ATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATA-AG-AGT
* * * *
11440812 CTTTTTCAAAATGGGATTTTTAAAGTTTCTTTGCTTATCTTTATAAGAGA
1 C-TTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
* * *
11440862 CTTTTCAGAATGAGATTTTTAAAGTTTCTTAGCCTATTTTTATACGAG-
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
* *
11440910 CCTTTCAAAATATGAGATTTTTAAAGTTTCTTAGCCTATTTTTATAAGAGT
1 CTTTTC-AAA-ATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
* * * * * *
11440961 -TTTTCAATATGAGATTTTAAAAATTTCTTAACCTATATTTATAGGAG-
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
* * * *
11441008 CTTTTCAAAATATGAAATTCTTAAAATTTCTTAACCTATCTTTAT-AGAAG-
1 CTTTTC-AAA-ATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AGT
* *
11441058 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATATGAGC
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
* *
11441107 CTTTTTAAAATGAGATTTTTAAAGTTTCTTAGTCTATCTTTAT-AGAAGT
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AGT
* * * *
11441156 CTTTTCTAAATTAAGATTTTTAAAG-TT-TTAGTCTATCTCTATATA-AGT
1 CTTTTC-AAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATA-AGAGT
* * * * *
11441204 CTTTTCAAAATGAGGTTTTTAAAATTTCTTAACATATCTTTATAAGGGT
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
* * * * * * *
11441253 TTTTTCAAAATGAGATTTTTAAAATTATTTTAACATATTTTTATAGGAGT
1 CTTTTCAAAATGAGATTTTTAAAGTT-TCTTAGCCTATCTTTATAAGAGT
* * * * * *
11441303 CTTTTCCAAATTGAGATTTTTAAATTTTTTTAGCCTATCTTTATAGGTGC
1 CTTTT-CAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
* * *
11441353 CTTTTCAAAATGAGATTTTTAAAATTTCTTAGCTTATCTTTATAAAAGT
1 CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
* * * * *
11441402 TTTTTCAAATTTTGAGA-TTTTAAAGTTTCCTAGCCTTTCTTTA-AAGTA-A
1 CTTTTCAAA--ATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AGT
* * * * *
11441451 CTTTTCAAATTTGAGATTTTTGAAA-TTT-TATAGCCTTTATTTAGAGGAGT
1 CTTTTCAAA-ATGAGATTTTT-AAAGTTTCT-TAGCCTATCTTTATAAGAGT
* * *
11441501 TTTTTCAAATTAAGA-TTTTAAAGTTT
1 CTTTTCAAAATGAGATTTTTAAAGTTT
11441527 TGCAGCCTCT
Statistics
Matches: 597, Mismatches: 88, Indels: 63
0.80 0.12 0.08
Matches are distributed among these distances:
47 17 0.03
48 117 0.20
49 219 0.37
50 205 0.34
51 33 0.06
52 6 0.01
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (49 bp):
CTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGT
Found at i:11441003 original size:98 final size:100
Alignment explanation
Indices: 11440761--11441526 Score: 667
Period size: 99 Copynumber: 7.8 Consensus size: 100
11440751 AAACTTTTCG
* * * * * *
11440761 CTTTTCAAAATATTAGATTTTTAAAATTTCCTAGCCTATCTTAACAGAAGCCTTTTTC-AAA-AT
1 CTTTTC-AAA-ATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGTC-TTTTCAAAATAT
* * *
11440824 GGGATTTTTAAAGTTTCTTTGCTTATCTTTATAAGAGA
63 GAGATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGA
* * * * *
11440862 CTTTTCAGAATGAGATTTTTAAAGTTTCTTAGCCTATTTTTATACGAG-CCTTTCAAAATATGAG
1 CTTTTCAAAATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGTCTTTTCAAAATATGAG
*
11440926 ATTTTTAAAGTTTCTTAGCCTATTTTTATAAGAG-
66 ATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGA
* * * * * *
11440960 TTTTTCAATATGAGATTTTAAAAATTTCTTAACCTATATTTATAGGAG-CTTTTCAAAATATGAA
1 CTTTTCAAAATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGTCTTTTCAAAATATGAG
* * *
11441024 ATTCTTAAAATTTCTTAACCTATCTTTAT-AGA-A
66 ATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGA
* * * *
11441057 GCTTTTCAAAATGAGATTTTTAAAGTTTCTTAGCCTATCTTTATATGAGCCTTTT-TAAA-ATGA
1 -CTTTTCAAAATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGTCTTTTCAAAATATGA
* *
11441120 GATTTTTAAAGTTTCTTAGTCTATCTTTAT-AGAAGT
65 GATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AGA
* * * * * **
11441156 CTTTTCTAAATTAAGATTTTT-AAAGTT-TTAGTCTATCTCTATATAAGTCTTTTC-AAA-ATGA
1 CTTTTC-AAAATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGTCTTTTCAAAATATGA
* * * * * *
11441217 GGTTTTTAAAATTTCTTAACATATCTTTATAAGGGT
65 GATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGA
* * * * * *
11441253 TTTTTCAAAATGAGATTTTTAAAATTATTTTAACATATTTTTATAGGAGTCTTTTCCAAAT-TGA
1 CTTTTCAAAATGAGATTTTTAAAATT-TCTTAGCCTATCTTTATAGGAGTCTTTTCAAAATATGA
* * * * *
11441317 GATTTTTAAATTTTTTTAGCCTATCTTTATAGGTGC
65 GATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGA
* ** * * *
11441353 CTTTTCAAAATGAGATTTTTAAAATTTCTTAGCTTATCTTTATAAAAGTTTTTTCAAATTTTGAG
1 CTTTTCAAAATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGTCTTTTCAAAATATGAG
* *
11441418 A-TTTTAAAGTTTCCTAGCCTTTCTTTA-AAGTA-A
66 ATTTTTAAAGTTTCTTAGCCTATCTTTATAAG-AGA
* * * * * * *
11441451 CTTTTCAAATTTGAGATTTTTGAAATTT-TATAGCCTTTATTTAGAGGAGTTTTTTC-AAAT-TA
1 CTTTTCAAA-ATGAGATTTTTAAAATTTCT-TAGCCTATCTTTATAGGAGTCTTTTCAAAATATG
11441513 AGA-TTTTAAAGTTT
64 AGATTTTTAAAGTTT
11441527 TGCAGCCTCT
Statistics
Matches: 544, Mismatches: 102, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
96 12 0.02
97 118 0.22
98 156 0.29
99 186 0.34
100 66 0.12
101 6 0.01
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (100 bp):
CTTTTCAAAATGAGATTTTTAAAATTTCTTAGCCTATCTTTATAGGAGTCTTTTCAAAATATGAG
ATTTTTAAAGTTTCTTAGCCTATCTTTATAAGAGA
Found at i:11443473 original size:274 final size:274
Alignment explanation
Indices: 11442984--11443528 Score: 1000
Period size: 274 Copynumber: 2.0 Consensus size: 274
11442974 AGAATCAAGT
*
11442984 AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTTGGCCAAGCATCATTCCACCATGCC
1 AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTCGGCCAAGCATCATTCCACCATGCC
11443049 CGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTGA
66 CGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTGA
*
11443114 GTGTTATTCCATATGTTTAATACATGCATATTGGTTAGTTTAGTAGTTTGTTTGTAGTGTTTAGC
131 GTATTATTCCATATGTTTAATACATGCATATTGGTTAGTTTAGTAGTTTGTTTGTAGTGTTTAGC
11443179 TAAGTATATATGTTTTCATGGTCTCATTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTTT
196 TAAGTATATATGTTTTCATGGTCTCATTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTTT
11443244 CACGATAAAAACGC
261 CACGATAAAAACGC
*
11443258 AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTCGGCCAAGCATCATTCCACCTTGCC
1 AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTCGGCCAAGCATCATTCCACCATGCC
11443323 CGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTGA
66 CGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTGA
* *
11443388 GTATTATTCCATATGTTTAATGCATGCATGTTGGTTAGTTTAGTAGTTTGTTTGTAGTGTTTAGC
131 GTATTATTCCATATGTTTAATACATGCATATTGGTTAGTTTAGTAGTTTGTTTGTAGTGTTTAGC
* * * *
11443453 TCAGTATGTATGTTTTCATGGTCTCCTTGCTAGTTAGTTTATTAAATATTTGATAAATTTCCTTT
196 TAAGTATATATGTTTTCATGGTCTCATTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTTT
*
11443518 CATGATAAAAA
261 CACGATAAAAA
11443529 TGCCTTTACA
Statistics
Matches: 261, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
274 261 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (274 bp):
AACAAAAAATTCCATCATTTATTATAAGCCATTAGAGGTTCGGCCAAGCATCATTCCACCATGCC
CGAACCTTCTTTTGGTCTTTCTTGGTTGTTTTTCTTGCTTCTAATAATGTTTATAAATGATTTGA
GTATTATTCCATATGTTTAATACATGCATATTGGTTAGTTTAGTAGTTTGTTTGTAGTGTTTAGC
TAAGTATATATGTTTTCATGGTCTCATTGCTAGTTAGTTTATTAAATATTTGATAAAATTCCTTT
CACGATAAAAACGC
Found at i:11444178 original size:7 final size:7
Alignment explanation
Indices: 11444168--11444344 Score: 71
Period size: 7 Copynumber: 27.0 Consensus size: 7
11444158 ATCCTAAATC
11444168 TAAACCT
1 TAAACCT
*
11444175 TAAATC-
1 TAAACCT
*
11444181 T-AACTT
1 TAAACCT
11444187 TAAA-CT
1 TAAACCT
11444193 CTAAA-CT
1 -TAAACCT
11444200 -AAACCT
1 TAAACCT
*
11444206 TGAACCT
1 TAAACCT
*
11444213 TAAAGC-
1 TAAACCT
*
11444219 TAAACAT
1 TAAACCT
11444226 TAAACC-
1 TAAACCT
* *
11444232 CAAACCC
1 TAAACCT
*
11444239 TAAATC-
1 TAAACCT
11444245 TAAACCT
1 TAAACCT
*
11444252 TAAACTT
1 TAAACCT
*
11444259 TAAACCC
1 TAAACCT
11444266 TAAACC-
1 TAAACCT
*
11444272 TAAA-CG
1 TAAACCT
11444278 TAAACCT
1 TAAACCT
*
11444285 TGAA-CT
1 TAAACCT
*
11444291 CT-AACTT
1 -TAAACCT
11444298 TAAATCC-
1 TAAA-CCT
11444305 TAAACCT
1 TAAACCT
*
11444312 TAAATCT
1 TAAACCT
*
11444319 AAAACC-
1 TAAACCT
11444325 TAAACC-
1 TAAACCT
11444331 TAAA-CT
1 TAAACCT
11444337 ATAAACCT
1 -TAAACCT
11444345 CAAATTCTAA
Statistics
Matches: 127, Mismatches: 25, Indels: 35
0.68 0.13 0.19
Matches are distributed among these distances:
5 7 0.06
6 43 0.34
7 74 0.58
8 3 0.02
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (7 bp):
TAAACCT
Found at i:11444181 original size:13 final size:13
Alignment explanation
Indices: 11444162--11444335 Score: 88
Period size: 13 Copynumber: 12.8 Consensus size: 13
11444152 TTCAAAATCC
11444162 TAAATCTAAACCT
1 TAAATCTAAACCT
*
11444175 TAAATCT-AACTT
1 TAAATCTAAACCT
11444187 TAAACTCTAAA-C-
1 TAAA-TCTAAACCT
* *
11444199 TAAACCTTGAACCT
1 TAAATC-TAAACCT
* *
11444213 TAAAGCTAAACAT
1 TAAATCTAAACCT
* * *
11444226 TAAACCCAAACCC
1 TAAATCTAAACCT
11444239 TAAATCTAAACCT
1 TAAATCTAAACCT
* *
11444252 TAAACTTTAAACCC
1 TAAA-TCTAAACCT
11444266 TAAACCTAAACGTAAACCT
1 TAAA--T---C-TAAACCT
* *
11444285 TGAACTCT-AACTT
1 T-AAATCTAAACCT
11444298 TAAATCCTAAACCT
1 TAAAT-CTAAACCT
11444312 TAAATCTAAAACC-
1 TAAATCT-AAACCT
*
11444325 TAAACCTAAAC
1 TAAATCTAAAC
11444336 TATAAACCTC
Statistics
Matches: 123, Mismatches: 23, Indels: 31
0.69 0.13 0.18
Matches are distributed among these distances:
11 1 0.01
12 22 0.18
13 54 0.44
14 33 0.27
15 3 0.02
18 1 0.01
19 7 0.06
20 2 0.02
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.26
Consensus pattern (13 bp):
TAAATCTAAACCT
Found at i:11444215 original size:26 final size:26
Alignment explanation
Indices: 11444187--11444315 Score: 100
Period size: 26 Copynumber: 4.9 Consensus size: 26
11444177 AATCTAACTT
* *
11444187 TAAACTCTAAAC-TAAACCTTGAACCT
1 TAAA-TCTAAACTTAAACCTTAAACCC
* *
11444213 TAAAGCTAAACATTAAACC-CAAACCC
1 TAAATCTAAAC-TTAAACCTTAAACCC
*
11444239 TAAATCTAAACCTTAAACTTTAAACCC
1 TAAATCTAAA-CTTAAACCTTAAACCC
* * * *
11444266 TAAACCTAAACGTAAACCTTGAACTC
1 TAAATCTAAACTTAAACCTTAAACCC
* * *
11444292 TAACTTTAAATCCTAAACCTTAAA
1 TAAATCTAAA-CTTAAACCTTAAA
11444316 TCTAAAACCT
Statistics
Matches: 81, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.07
26 42 0.52
27 33 0.41
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (26 bp):
TAAATCTAAACTTAAACCTTAAACCC
Found at i:11444231 original size:20 final size:19
Alignment explanation
Indices: 11444168--11444231 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
11444158 ATCCTAAATC
*
11444168 TAAACCTTAAATCT-AACTT
1 TAAACCTTAAA-CTAAACAT
*
11444187 TAAA-CTCTAAACTAAACCT
1 TAAACCT-TAAACTAAACAT
*
11444206 TGAACCTTAAAGCTAAACAT
1 TAAACCTTAAA-CTAAACAT
11444226 TAAACC
1 TAAACC
11444232 CAAACCCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.11
19 19 0.51
20 14 0.38
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAACCTTAAACTAAACAT
Found at i:11444256 original size:33 final size:33
Alignment explanation
Indices: 11444219--11444285 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
11444209 ACCTTAAAGC
11444219 TAAACATTAAACCC-AAACCCTAAATC-TAAACCT
1 TAAACATTAAACCCTAAA-CCTAAA-CGTAAACCT
*
11444252 TAAACTTTAAACCCTAAACCTAAACGTAAACCT
1 TAAACATTAAACCCTAAACCTAAACGTAAACCT
11444285 T
1 T
11444286 GAACTCTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 1 0.03
33 27 0.87
34 3 0.10
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.24
Consensus pattern (33 bp):
TAAACATTAAACCCTAAACCTAAACGTAAACCT
Found at i:11444262 original size:20 final size:20
Alignment explanation
Indices: 11444239--11444344 Score: 80
Period size: 20 Copynumber: 5.3 Consensus size: 20
11444229 ACCCAAACCC
*
11444239 TAAATCTAAACCTTAAACTT
1 TAAACCTAAACCTTAAACTT
*
11444259 TAAACCCTAAACC-TAAAC-G
1 TAAA-CCTAAACCTTAAACTT
*
11444278 TAAACCTTGAA-CTCT-AACTT
1 TAAACC-TAAACCT-TAAACTT
11444298 TAAATCCTAAACCTTAAA-TCT
1 TAAA-CCTAAACCTTAAACT-T
* *
11444319 AAAACCTAAACC-TAAACTA
1 TAAACCTAAACCTTAAACTT
11444338 TAAACCT
1 TAAACCT
11444345 CAAATTCTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
18 3 0.04
19 20 0.29
20 28 0.41
21 17 0.25
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAACCTAAACCTTAAACTT
Found at i:11444308 original size:60 final size:61
Alignment explanation
Indices: 11444239--11444383 Score: 172
Period size: 60 Copynumber: 2.4 Consensus size: 61
11444229 ACCCAAACCC
* **
11444239 TAAAT-CTAAACCTTAAACTTTAAACCCTAAACCTAAAC-GTAAACCTTGAACTCTAACTT
1 TAAATCCTAAACCTTAAACTTTAAACCCTAAACCTAAACTATAAACCTCAAACTCTAACTT
* * * *
11444298 TAAATCCTAAACCTTAAA-TCTAAAACCTAAACCTAAACTATAAACCTCAAATTCTAATTT
1 TAAATCCTAAACCTTAAACTTTAAACCCTAAACCTAAACTATAAACCTCAAACTCTAACTT
* *
11444358 TAAATCCTGAA-CTGTAAGCTTTAAAC
1 TAAATCCTAAACCT-TAAACTTTAAAC
11444384 TAAATCTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 25 0.35
60 41 0.58
61 5 0.07
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.30
Consensus pattern (61 bp):
TAAATCCTAAACCTTAAACTTTAAACCCTAAACCTAAACTATAAACCTCAAACTCTAACTT
Found at i:11444437 original size:26 final size:26
Alignment explanation
Indices: 11444383--11444435 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
11444373 AAGCTTTAAA
*
11444383 CTAAATCTTAAACCAAAACCCTAACC
1 CTAAATCTGAAACCAAAACCCTAACC
11444409 CTAAATCCTGAAACCAAAACCCTAACC
1 CTAAAT-CTGAAACCAAAACCCTAACC
11444436 TAGACCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (26 bp):
CTAAATCTGAAACCAAAACCCTAACC
Found at i:11444922 original size:21 final size:22
Alignment explanation
Indices: 11444873--11444923 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
11444863 TTTTAATCCA
* *
11444873 AAAAAAAATTGTTTTGCTATTT
1 AAAAAAAATTGCTTTGCTATTC
11444895 AAAAAAAA-TGCTTTGCT-TTC
1 AAAAAAAATTGCTTTGCTATTC
11444915 AAAGAAAAA
1 AAA-AAAAA
11444924 AAGATTCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 13 0.50
22 8 0.31
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (22 bp):
AAAAAAAATTGCTTTGCTATTC
Found at i:11447636 original size:19 final size:19
Alignment explanation
Indices: 11447612--11447666 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
11447602 TCGATCAAAG
11447612 AGCTTAGCTTGGCCAAAAA
1 AGCTTAGCTTGGCCAAAAA
*
11447631 AGCTTAGCTTTGCCAAAAA
1 AGCTTAGCTTGGCCAAAAA
* *
11447650 AGCTTACCTTGGTCAAA
1 AGCTTAGCTTGGCCAAA
11447667 GAATTGATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (19 bp):
AGCTTAGCTTGGCCAAAAA
Found at i:11447906 original size:121 final size:121
Alignment explanation
Indices: 11447700--11448027 Score: 355
Period size: 121 Copynumber: 2.8 Consensus size: 121
11447690 TAAAAAACTT
* * * *
11447700 ATCTCAATAAATTACTTACATAAAAGC-T---T-GGCCACTTCAGCCAAAGTGATTAGCTTGGCC
1 ATCTCGATAAATTGCTTACATAAAAGCTTGGCTGGGCCACATCAACCAAAGTGATTAGCTTGGCC
* * * ** *
11447760 AAAAGGACTT-AGCTCGATCAAAAGAGCTCATCTCGG-CTACCTCGGTCAAAGAGCTT
66 AAAA-GAGTTCAGCTTGATCAAAAGAGCTCATCTCGGTC-ACCTCGATCAAAGAAATC
* * * *
11447816 ATCTTGATAAATTGCTTACATAAAAGCTTGGCTGGGCCACATCGACTAAAGTGATTAACTTGGCC
1 ATCTCGATAAATTGCTTACATAAAAGCTTGGCTGGGCCACATCAACCAAAGTGATTAGCTTGGCC
* * *
11447881 AAAAGAGTTCACCTTAATCAAAAGAGCTCATCTCGGTCACCTCGATCAAATAAATC
66 AAAAGAGTTCAGCTTGATCAAAAGAGCTCATCTCGGTCACCTCGATCAAAGAAATC
* * * * * * *
11447937 ATCTCGATAAATTGCTTACTTAAAGGCTTGGTTGGGCTACCTCAACCAAAATGATTAGCTTGGCT
1 ATCTCGATAAATTGCTTACATAAAAGCTTGGCTGGGCCACATCAACCAAAGTGATTAGCTTGGCC
* *
11448002 AAAATAGCTCAGCTTGATCAAAAGAG
66 AAAAGAGTTCAGCTTGATCAAAAGAG
11448028 TTTATCTTGA
Statistics
Matches: 173, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
116 24 0.14
117 1 0.01
120 5 0.03
121 142 0.82
122 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (121 bp):
ATCTCGATAAATTGCTTACATAAAAGCTTGGCTGGGCCACATCAACCAAAGTGATTAGCTTGGCC
AAAAGAGTTCAGCTTGATCAAAAGAGCTCATCTCGGTCACCTCGATCAAAGAAATC
Found at i:11448062 original size:28 final size:28
Alignment explanation
Indices: 11448019--11448087 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
11448009 CTCAGCTTGA
* * *
11448019 TCAAAAGAGTTTATCTTGACCACCTTAG
1 TCAAAAGAGCTCATCTTGACCACCTCAG
* *
11448047 TCAAAAGAGCTCATCTTGATCATCTCAG
1 TCAAAAGAGCTCATCTTGACCACCTCAG
*
11448075 T-AAAAAAGCTCAT
1 TCAAAAGAGCTCAT
11448088 ATTGGTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
27 11 0.31
28 24 0.69
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (28 bp):
TCAAAAGAGCTCATCTTGACCACCTCAG
Found at i:11448820 original size:3 final size:3
Alignment explanation
Indices: 11448807--11448862 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
11448797 ATGCATTCTT
*
11448807 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11448855 ATA ATA AT
1 ATA ATA AT
11448863 TCATAATCCG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11455868 original size:16 final size:16
Alignment explanation
Indices: 11455847--11455877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11455837 ATAATAATTT
*
11455847 TTAGTATTTTATTGAA
1 TTAGTATTTGATTGAA
11455863 TTAGTATTTGATTGA
1 TTAGTATTTGATTGA
11455878 GTTAAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (16 bp):
TTAGTATTTGATTGAA
Found at i:11457695 original size:20 final size:20
Alignment explanation
Indices: 11457672--11457711 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11457662 AATGCTAAAA
11457672 TTAAAGTAAA-AAATAAATTT
1 TTAAA-TAAACAAATAAATTT
*
11457692 TTAAATAAACAAATTAATTT
1 TTAAATAAACAAATAAATTT
11457712 CCCATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
TTAAATAAACAAATAAATTT
Found at i:11459510 original size:90 final size:88
Alignment explanation
Indices: 11459407--11459581 Score: 253
Period size: 90 Copynumber: 2.0 Consensus size: 88
11459397 CTAAAGAAAT
* * **
11459407 AAAAAAAAATAAAAA-TCAAAAACTAAAAGAGAGAAGAGAAGTGAGGAGTGGGATGATTGAAATG
1 AAAAAAAAATAAAAACT-AAAAAATAAAAGAGAAAAGAGAAGTGAGGAGTAAGATGATTGAAATG
* *
11459471 AAGGAATAGCCTTCCTAATTAAAA
65 AAAGAATAGCCTCCCTAATTAAAA
*
11459495 AAAAAAAAACCTAAAAACTAAAAAATAAAAGAGAAAAGAGAAGTGAGGAGTAAGATGATTGGAAT
1 AAAAAAAAA--TAAAAACTAAAAAATAAAAGAGAAAAGAGAAGTGAGGAGTAAGATGATTGAAAT
11459560 GAAAGAATAGCCTCCCTAATTA
64 GAAAGAATAGCCTCCCTAATTA
11459582 TAGAATGGGA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
88 9 0.12
90 67 0.87
91 1 0.01
ACGTcount: A:0.55, C:0.08, G:0.20, T:0.17
Consensus pattern (88 bp):
AAAAAAAAATAAAAACTAAAAAATAAAAGAGAAAAGAGAAGTGAGGAGTAAGATGATTGAAATGA
AAGAATAGCCTCCCTAATTAAAA
Found at i:11460547 original size:21 final size:21
Alignment explanation
Indices: 11460522--11460567 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11460512 AATTTGAAAG
11460522 AAAATTTCTC-TAAACACCTCA
1 AAAATTTCTCTTAAACACC-CA
*
11460543 AAAATTTTTCTTAAACACCCA
1 AAAATTTCTCTTAAACACCCA
11460564 AAAA
1 AAAA
11460568 ATTTTCCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATTTCTCTTAAACACCCA
Found at i:11460572 original size:21 final size:22
Alignment explanation
Indices: 11460522--11460582 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
11460512 AATTTGAAAG
11460522 AAAA-TTTCTCTAAACACCTCAA
1 AAAATTTTCT-TAAACACCTCAA
*
11460544 AAATTTTTCTTAAACACC-CAA
1 AAAATTTTCTTAAACACCTCAA
*
11460565 AAAATTTTCCTTAGACAC
1 AAAATTTT-CTTAAACAC
11460583 TATAACTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.29
22 19 0.56
23 5 0.15
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATTTTCTTAAACACCTCAA
Found at i:11463649 original size:15 final size:15
Alignment explanation
Indices: 11463631--11463660 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11463621 GCAAATTACT
*
11463631 CAAATCTTAATTTAA
1 CAAATCTTAACTTAA
11463646 CAAATCTTAACTTAA
1 CAAATCTTAACTTAA
11463661 ACTTATTATG
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:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (15 bp):
CAAATCTTAACTTAA
Found at i:11464929 original size:49 final size:47
Alignment explanation
Indices: 11464824--11464931 Score: 117
Period size: 50 Copynumber: 2.2 Consensus size: 47
11464814 ATTTTTATTT
* * * ***
11464824 ATTCTTTTTTTTATTTGTAAATTTTCACCATTTGGGTTAATTTAGAA
1 ATTCTTTTTTTAATTTCTAAATTTTCACAATTTGGACCAATTTAGAA
* *
11464871 ATATTTTTTTTTAAATTTCTAAATTTTTCACAATTTGGACCCATTTAGAA
1 AT-TCTTTTTTT-AATTTCTAAA-TTTTCACAATTTGGACCAATTTAGAA
11464921 ATTCTTTTTTT
1 ATTCTTTTTTT
11464932 TTTTGAAAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
47 2 0.04
48 8 0.16
49 16 0.33
50 23 0.47
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (47 bp):
ATTCTTTTTTTAATTTCTAAATTTTCACAATTTGGACCAATTTAGAA
Found at i:11466026 original size:41 final size:41
Alignment explanation
Indices: 11465962--11466195 Score: 308
Period size: 41 Copynumber: 5.7 Consensus size: 41
11465952 ATGACTTTGA
* *
11465962 GAAAAAT-AAATGCTCATCTAAACAGAGGCATCACAACTTT
1 GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTT
* * * * *
11466002 GAAAAGTAAAATGTTCCTTTAAACAAAGGCACCATAACTTT
1 GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTT
* *
11466043 GAAAAATAAATTACTCCTCTAAACAGAGGCACCACAACTTT
1 GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTT
* * * * *
11466084 GAAAAGTAAAATGCTCATTTAAACAGATGCACCATAACTTT
1 GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTT
* *
11466125 GAGAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTT
1 GA-AAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTT
11466167 GAAAAATAAAATGCTCCTCTAAACAGAGG
1 GAAAAATAAAATGCTCCTCTAAACAGAGG
11466196 AGTCATAAAT
Statistics
Matches: 162, Mismatches: 30, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 6 0.04
41 122 0.75
42 34 0.21
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (41 bp):
GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTT
Found at i:11466079 original size:82 final size:82
Alignment explanation
Indices: 11465962--11466191 Score: 354
Period size: 82 Copynumber: 2.8 Consensus size: 82
11465952 ATGACTTTGA
* * *
11465962 GAAAAATAAA-TGCTCATCTAAACAGAGGCATCACAACTTTGAAAAGTAAAATGTTCCTTTAAAC
1 GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAAATGCTCCTTTAAAC
11466026 AAAGGCACCATAACTTT
66 AAAGGCACCATAACTTT
* *
11466043 GAAAAATAAATTACTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAAATGCTCATTTAAAC
1 GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAAATGCTCCTTTAAAC
* *
11466108 AGATGCACCATAACTTT
66 AAAGGCACCATAACTTT
* * *
11466125 GAGAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAATAAAATGCTCCTCTAAA
1 GA-AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAAATGCTCCTTTAAA
11466190 CA
65 CA
11466192 GAGGAGTCAT
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
81 10 0.07
82 66 0.49
83 59 0.44
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (82 bp):
GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAAATGCTCCTTTAAAC
AAAGGCACCATAACTTT
Found at i:11466177 original size:83 final size:83
Alignment explanation
Indices: 11465932--11466195 Score: 370
Period size: 83 Copynumber: 3.2 Consensus size: 83
11465922 GTAAACAAAA
** * * * *
11465932 CTCATTTAAACAGAGGTTCAATGACTTTGAGAAAAATAAA-TGCTCATCTAAACAGAGGCATCAC
1 CTCATTTAAACAGAGGCACCATAACTTTGAG-AAAATAAATTGCTCCTCTAAACAGAGGCACCAC
11465996 AACTTTGAAAAGTAAAATG
65 AACTTTGAAAAGTAAAATG
* * * *
11466015 TTCCTTTAAACAAAGGCACCATAACTTTGA-AAAATAAATTACTCCTCTAAACAGAGGCACCACA
1 CTCATTTAAACAGAGGCACCATAACTTTGAGAAAATAAATTGCTCCTCTAAACAGAGGCACCACA
11466079 ACTTTGAAAAGTAAAATG
66 ACTTTGAAAAGTAAAATG
* *
11466097 CTCATTTAAACAGATGCACCATAACTTTGAGAAAATAAATTGCTCCTCTAAATAGAGGCACCACA
1 CTCATTTAAACAGAGGCACCATAACTTTGAGAAAATAAATTGCTCCTCTAAACAGAGGCACCACA
*
11466162 ACTTTGAAAAATAAAATG
66 ACTTTGAAAAGTAAAATG
* *
11466180 CTCCTCTAAACAGAGG
1 CTCATTTAAACAGAGG
11466196 AGTCATAAAT
Statistics
Matches: 159, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
81 8 0.05
82 66 0.42
83 85 0.53
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (83 bp):
CTCATTTAAACAGAGGCACCATAACTTTGAGAAAATAAATTGCTCCTCTAAACAGAGGCACCACA
ACTTTGAAAAGTAAAATG
Found at i:11466492 original size:21 final size:21
Alignment explanation
Indices: 11466466--11466521 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
11466456 TTCACACCTT
11466466 AAAGATTCTTATTTATAATTC
1 AAAGATTCTTATTTATAATTC
11466487 AAAGATTCTTATTTATAATTC
1 AAAGATTCTTATTTATAATTC
*
11466508 AAAGATTCTCATTT
1 AAAGATTCTTATTT
11466522 GAGTTTGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (21 bp):
AAAGATTCTTATTTATAATTC
Found at i:11467883 original size:8 final size:8
Alignment explanation
Indices: 11467843--11467970 Score: 75
Period size: 8 Copynumber: 15.4 Consensus size: 8
11467833 AATTTGAGTA
11467843 TTCATTTT
1 TTCATTTT
11467851 CTCTCATTTT
1 -T-TCATTTT
*
11467861 CGTC-TTTT
1 -TTCATTTT
*
11467869 TTCCATTCT
1 TT-CATTTT
11467878 TTCATTTT
1 TTCATTTT
11467886 TTCATTTT
1 TTCATTTT
*
11467894 TTC-TCTCT
1 TTCAT-TTT
11467902 TT--TTTT
1 TTCATTTT
11467908 TTCATTTTCT
1 TTCA-TTT-T
11467918 TTCATTTT
1 TTCATTTT
*
11467926 TTTATTTT
1 TTCATTTT
* *
11467934 TCCTTTATT
1 TTCATT-TT
11467943 TTCATTTT
1 TTCATTTT
*
11467951 TTCCTTTTT
1 TT-CATTTT
*
11467960 TTCATCTT
1 TTCATTTT
11467968 TTC
1 TTC
11467971 CCATCCATTA
Statistics
Matches: 94, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
6 4 0.04
7 3 0.03
8 47 0.50
9 27 0.29
10 13 0.14
ACGTcount: A:0.09, C:0.20, G:0.01, T:0.71
Consensus pattern (8 bp):
TTCATTTT
Found at i:11467893 original size:25 final size:25
Alignment explanation
Indices: 11467865--11467971 Score: 71
Period size: 25 Copynumber: 4.3 Consensus size: 25
11467855 CATTTTCGTC
11467865 TTTTTTCCATTCTTTCATTTTTTCA
1 TTTTTTCCATTCTTTCATTTTTTCA
11467890 TTTTTT-C-TCTCTTT--TTTTTTCA
1 TTTTTTCCAT-TCTTTCATTTTTTCA
* * * *
11467912 TTTTCTTTCATTTTTTTA-TTTTTCC
1 TTTT-TTCCATTCTTTCATTTTTTCA
* * *
11467937 TTTATTTTCATTTTTTCCTTTTTTTCA
1 TTT-TTTCCATTCTTT-CATTTTTTCA
*
11467964 TCTTTTCC
1 TTTTTTCC
11467972 CATCCATTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
22 12 0.18
23 3 0.05
24 11 0.17
25 27 0.41
26 5 0.08
27 8 0.12
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTTTCCATTCTTTCATTTTTTCA
Found at i:11467912 original size:65 final size:65
Alignment explanation
Indices: 11467843--11467969 Score: 161
Period size: 65 Copynumber: 2.0 Consensus size: 65
11467833 AATTTGAGTA
11467843 TTCATTTTCTCTCATTTTCGTCT-TTTTTCCATT-CTTTCATTTTTTCATTTTTTCTC-TCTTTT
1 TTCATTTTCTCTCATTTT--TCTATTTTTCCATTACTTTCATTTTTTCATTTTTT-TCATCTTTT
11467905 TTT
63 TTT
* * * * *
11467908 TTCATTTTCTTTCATTTTTTTATTTTTCCTTTATTTTCATTTTTTCCTTTTTTTCATCTTTT
1 TTCATTTTCTCTCATTTTTCTATTTTTCCATTACTTTCATTTTTTCATTTTTTTCATCTTTT
11467970 CCCATCCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
63 2 0.04
64 11 0.20
65 41 0.76
ACGTcount: A:0.09, C:0.19, G:0.01, T:0.72
Consensus pattern (65 bp):
TTCATTTTCTCTCATTTTTCTATTTTTCCATTACTTTCATTTTTTCATTTTTTTCATCTTTTTTT
Found at i:11467915 original size:10 final size:10
Alignment explanation
Indices: 11467882--11467928 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
11467872 CATTCTTTCA
11467882 TTTTTTCATT
1 TTTTTTCATT
*
11467892 TTTTCTCTCTTT
1 TTTT-T-TCATT
11467904 TTTTTTCATT
1 TTTTTTCATT
*
11467914 TTCTTTCATT
1 TTTTTTCATT
11467924 TTTTT
1 TTTTT
11467929 ATTTTTCCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 21 0.68
11 2 0.06
12 8 0.26
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:11467944 original size:17 final size:16
Alignment explanation
Indices: 11467903--11467971 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 16
11467893 TTTCTCTCTT
*
11467903 TTTTTTTCATTTTCTTTCA
1 TTTTTTTCA--TT-TTTCC
11467922 TTTTTTT-ATTTTTCC
1 TTTTTTTCATTTTTCC
11467937 TTTATTTTCATTTTTTCC
1 TTT-TTTTCA-TTTTTCC
11467955 TTTTTTTCATCTTTTCC
1 TTTTTTTCAT-TTTTCC
11467972 CATCCATTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
15 7 0.16
16 7 0.16
17 13 0.29
18 11 0.24
19 7 0.16
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTTCATTTTTCC
Found at i:11472026 original size:16 final size:16
Alignment explanation
Indices: 11471994--11472023 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11471984 TATCTAGAAA
11471994 TTCTTTTTATTTATTC
1 TTCTTTTTATTTATTC
11472010 TTCTTTTT-TTTATT
1 TTCTTTTTATTTATT
11472024 TCTAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (16 bp):
TTCTTTTTATTTATTC
Found at i:11472102 original size:49 final size:46
Alignment explanation
Indices: 11472013--11472120 Score: 128
Period size: 49 Copynumber: 2.3 Consensus size: 46
11472003 TTTATTCTTC
* **
11472013 TTTTTTTTATTTCTAAATTTTTCATAATTTGGGTTAATTTAGAAATAT
1 TTTTTTTTATTTCTAAATTTTTCACAATTTGGGCCAATTTA-AAA-AT
* *
11472061 TTTTTTTTAATTTCTAAATTTTTCACCATTTGGGCCCATTTAAAAA-
1 TTTTTTTT-ATTTCTAAATTTTTCACAATTTGGGCCAATTTAAAAAT
*
11472107 TTCTTTTTATTTCT
1 TTTTTTTTATTTCT
11472121 CCTTTTTCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 6 0.11
46 7 0.13
47 1 0.02
48 11 0.21
49 28 0.53
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.57
Consensus pattern (46 bp):
TTTTTTTTATTTCTAAATTTTTCACAATTTGGGCCAATTTAAAAAT
Found at i:11472308 original size:130 final size:132
Alignment explanation
Indices: 11472167--11472437 Score: 485
Period size: 130 Copynumber: 2.1 Consensus size: 132
11472157 TTTATTGAAA
11472167 TTTTATTAAAATTCTTCCACCATTTGGAACAAATTTAAAG-AAATTTCTCACCTAGAGATTTATT
1 TTTTATTAAAATTCTTCCACCATTTGGAACAAATTTAAAGAAAATTT-TCACCTAGAGATTTATT
11472231 AAAAAATTTACCATTTGAAATTTCTAAGAATCTTATCCTTG-GA-TGTCAAATATTTTCAACCAA
65 AAAAAATTTACCATTTGAAATTTCTAAGAATCTTATCCTTGAGATTGTCAAATATTTTCAACCAA
11472294 AAT
130 AAT
11472297 TTTTATTAAAATTCTTCCACCATTTGGAACAAATTTAAAGAAAATTTTCACCTAGAGATTTATTA
1 TTTTATTAAAATTCTTCCACCATTTGGAACAAATTTAAAGAAAATTTTCACCTAGAGATTTATTA
*
11472362 AAAAATTTACCATTTGAAATTTCTAAGAATCTTATCCTTGAATATTTGTCAAATATTTTCAACCA
66 AAAAATTTACCATTTGAAATTTCTAAGAATCTTATCCTTG-AGA-TTGTCAAATATTTTCAACCA
11472427 AAAT
129 AAAT
11472431 TTTTATT
1 TTTTATT
11472438 TTTTATTTTT
Statistics
Matches: 135, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
130 98 0.73
131 6 0.04
132 1 0.01
134 30 0.22
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (132 bp):
TTTTATTAAAATTCTTCCACCATTTGGAACAAATTTAAAGAAAATTTTCACCTAGAGATTTATTA
AAAAATTTACCATTTGAAATTTCTAAGAATCTTATCCTTGAGATTGTCAAATATTTTCAACCAAA
AT
Found at i:11473892 original size:37 final size:37
Alignment explanation
Indices: 11473835--11473909 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
11473825 TAAATATAAC
*
11473835 TTAGAAAAAATCATAGACATAGATTAAACACCAAGAA
1 TTAGAAAAAATCATAAACATAGATTAAACACCAAGAA
* *
11473872 TTAGAGAAAATGATAAACATAGATTAAACACCAAGAA
1 TTAGAAAAAATCATAAACATAGATTAAACACCAAGAA
11473909 T
1 T
11473910 CATTCAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (37 bp):
TTAGAAAAAATCATAAACATAGATTAAACACCAAGAA
Found at i:11489216 original size:22 final size:22
Alignment explanation
Indices: 11489188--11489239 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
11489178 AAAGCTTTTG
*
11489188 AACTTAAATTTAAA-TGAAACAA
1 AACTTAAATTAAAACTGAAA-AA
11489210 AACTTAAATTAAAACTGAAAAA
1 AACTTAAATTAAAACTGAAAAA
*
11489232 AATTTAAA
1 AACTTAAA
11489240 AAAAAAAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AACTTAAATTAAAACTGAAAAA
Found at i:11489245 original size:22 final size:23
Alignment explanation
Indices: 11489202--11489245 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
11489192 TAAATTTAAA
**
11489202 TGAAACAAAACTTAAATTAAAAC
1 TGAAACAAAACTTAAAAAAAAAC
*
11489225 TGAAA-AAAATTTAAAAAAAAA
1 TGAAACAAAACTTAAAAAAAAA
11489246 AAGCTTAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (23 bp):
TGAAACAAAACTTAAAAAAAAAC
Found at i:11489296 original size:40 final size:41
Alignment explanation
Indices: 11489220--11489298 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
11489210 AACTTAAATT
* *
11489220 AAAACTGAAAAAAATTTAAAAAAAAAAAGCTTAAGAATATG
1 AAAACTGAAAAAAACTTAAAAAAAAAAAGCTAAAGAATATG
* *
11489261 AAAACT-AAAGAAAACTTAAAAAAGAAGA-CTAAAGAATA
1 AAAACTGAAA-AAAACTTAAAAAAAAAAAGCTAAAGAATA
11489299 CAAGAGATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 12 0.36
41 21 0.64
ACGTcount: A:0.67, C:0.06, G:0.10, T:0.16
Consensus pattern (41 bp):
AAAACTGAAAAAAACTTAAAAAAAAAAAGCTAAAGAATATG
Found at i:11493535 original size:59 final size:58
Alignment explanation
Indices: 11493416--11493577 Score: 193
Period size: 58 Copynumber: 2.8 Consensus size: 58
11493406 AAGAAACTGA
* * * * * *
11493416 TTTAAGAAAAAGTCGAAACTATCAAGTTTCTTTGAAAATAAAATTTTCAAAAAATATTT
1 TTTAAGGAAAAGTTGAAAGTATTAATTTTCATT-AAAATAAAATTTTCAAAAAATATTT
*
11493475 TTTAAGGAAAAGTTGAAAGTATTAATTTTC-TTAAAGATAAAATTTTCAAAAGATATTT
1 TTTAAGGAAAAGTTGAAAGTATTAATTTTCATTAAA-ATAAAATTTTCAAAAAATATTT
* * * *
11493533 TTTGACGAAAAGTTGAGAGTATTAATTTTCATTAAAA-ATAATTTT
1 TTTAAGGAAAAGTTGAAAGTATTAATTTTCATTAAAATAAAATTTT
11493578 TTTTAAAAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
57 10 0.11
58 51 0.56
59 30 0.33
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (58 bp):
TTTAAGGAAAAGTTGAAAGTATTAATTTTCATTAAAATAAAATTTTCAAAAAATATTT
Found at i:11493820 original size:57 final size:57
Alignment explanation
Indices: 11493607--11493813 Score: 218
Period size: 58 Copynumber: 3.5 Consensus size: 57
11493597 TTAAGAAACC
* * *
11493607 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATGAATATTTCAAAAAAGTGTT
1 TTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTC-AAAAA-T-AT
* * * * * *
11493668 TTTTTTAGAAAAAGTTAAAAATATCAATTTTCCTT-AAAGGTAAATTTTTAAAAGATAT
1 TTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAA-ATAAAATTTCAAAA-ATAT
* * * *
11493726 TTTTTGAGAAAAAGTTTAGAGTATCAATTTTCTTTGAAAATAAAATTTCAAAAATAT
1 TTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAATAT
* *
11493783 TTTTTAAGAAAAAGTTGAATGTATCTATTTT
1 TTTTTAAGAAAAAGTTGAAAGTATCAATTTT
11493814 TTTTGAATAA
Statistics
Matches: 121, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
57 30 0.25
58 42 0.35
59 8 0.07
60 9 0.07
61 32 0.26
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (57 bp):
TTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAATAT
Found at i:11496381 original size:12 final size:12
Alignment explanation
Indices: 11496364--11496404 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
11496354 TTTTTAATAA
11496364 AAATATAAAATT
1 AAATATAAAATT
*
11496376 AAATATATATAAAT
1 AAATATA-A-AATT
11496390 AAATATAAAATT
1 AAATATAAAATT
11496402 AAA
1 AAA
11496405 AAATAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 13 0.52
13 2 0.08
14 10 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATAAAATT
Found at i:11496383 original size:14 final size:13
Alignment explanation
Indices: 11496363--11496410 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
11496353 ATTTTTAATA
11496363 AAAATATAAAATT
1 AAAATATAAAATT
11496376 AAATATATATAAA-T
1 AAA-ATATA-AAATT
11496390 -AAATATAAAATT
1 AAAATATAAAATT
*
11496402 AAAAAATAA
1 AAAATATAA
11496411 TTTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
11 3 0.10
12 6 0.20
13 12 0.40
14 6 0.20
15 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATATAAAATT
Found at i:11498213 original size:8 final size:8
Alignment explanation
Indices: 11498200--11498262 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 8
11498190 ATGGATGAAG
11498200 TGAAAAAA
1 TGAAAAAA
11498208 TG--AAAA
1 TGAAAAAA
*
11498214 GGCAAAAAA
1 TG-AAAAAA
11498223 TTGAAAAAA
1 -TGAAAAAA
*
11498232 TGAAAAAG
1 TGAAAAAA
11498240 TGAAAAAA
1 TGAAAAAA
*
11498248 TGAAATAA
1 TGAAAAAA
11498256 TGAAAAA
1 TGAAAAA
11498263 TGTGAAATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 5 0.11
8 29 0.64
9 10 0.22
10 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.16, T:0.14
Consensus pattern (8 bp):
TGAAAAAA
Found at i:11498262 original size:24 final size:24
Alignment explanation
Indices: 11498200--11498269 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
11498190 ATGGATGAAG
11498200 TGAAAAAATG-AAAAG-GCAAAAAA
1 TGAAAAAATGAAAAAGTG-AAAAAA
11498223 TTGAAAAAATGAAAAAGTGAAAAAA
1 -TGAAAAAATGAAAAAGTGAAAAAA
*
11498248 TGAAATAATGAAAAATGTGAAA
1 TGAAAAAATGAAAAA-GTGAAA
11498270 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
24 24 0.57
25 17 0.40
26 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.17, T:0.16
Consensus pattern (24 bp):
TGAAAAAATGAAAAAGTGAAAAAA
Found at i:11498275 original size:24 final size:23
Alignment explanation
Indices: 11498200--11498279 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
11498190 ATGGATGAAG
* **
11498200 TGAAAAAATGAAAAGGCAAAAAAT
1 TGAAAAAATGAAAAAG-TGAAAAT
*
11498224 TGAAAAAATGAAAAAGTGAAAAAA
1 TGAAAAAATGAAAAAGTG-AAAAT
*
11498248 TGAAATAATGAAAAATGTG-AAAT
1 TGAAAAAATGAAAAA-GTGAAAAT
11498271 GTGAAAAAA
1 -TGAAAAAA
11498280 AAATAAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 3 0.07
24 40 0.87
25 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.17, T:0.16
Consensus pattern (23 bp):
TGAAAAAATGAAAAAGTGAAAAT
Found at i:11499682 original size:17 final size:17
Alignment explanation
Indices: 11499660--11499783 Score: 85
Period size: 17 Copynumber: 7.4 Consensus size: 17
11499650 AAAATTCTTA
11499660 TGAATCTCCAAATTTTG
1 TGAATCTCCAAATTTTG
*
11499677 TGAATCT-CTAATTTT-
1 TGAATCTCCAAATTTTG
* *
11499692 TGCAA-ATCCAAATCTTG
1 TG-AATCTCCAAATTTTG
* *
11499709 TGAATCTCCAATTTTTA
1 TGAATCTCCAAATTTTG
**
11499726 TGAAT-TTAAAATTCTTG
1 TGAATCTCCAAATT-TTG
** *
11499743 TGAATCTGAAAATCTTG
1 TGAATCTCCAAATTTTG
* *
11499760 TGAATTTCCAATTTTTG
1 TGAATCTCCAAATTTTG
*
11499777 TAAATCT
1 TGAATCT
11499784 TTAATTCTCA
Statistics
Matches: 80, Mismatches: 21, Indels: 12
0.71 0.19 0.11
Matches are distributed among these distances:
15 3 0.04
16 22 0.28
17 49 0.61
18 6 0.08
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (17 bp):
TGAATCTCCAAATTTTG
Found at i:11499789 original size:17 final size:17
Alignment explanation
Indices: 11499769--11499817 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
11499759 GTGAATTTCC
11499769 AATTTTTGTAAATCTTT
1 AATTTTTGTAAATCTTT
* ***
11499786 AATTCTCACAAATCTTT
1 AATTTTTGTAAATCTTT
*
11499803 AATTTTTGTGAATCT
1 AATTTTTGTAAATCT
11499818 GTTTTCTTGT
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (17 bp):
AATTTTTGTAAATCTTT
Found at i:11499800 original size:51 final size:51
Alignment explanation
Indices: 11499701--11499800 Score: 112
Period size: 51 Copynumber: 2.0 Consensus size: 51
11499691 TTGCAAATCC
* ****
11499701 AAATCTTGTGAATCTCCAATTTTTATGAATTTAAAATTCTTGTGAATCTGA
1 AAATCTTGTGAATCTCCAATTTTTATAAATTTAAAATTCTCACAAATCTGA
* * *
11499752 AAATCTTGTGAATTTCCAATTTTTGTAAATCTT-TAATTCTCACAAATCT
1 AAATCTTGTGAATCTCCAATTTTTATAAAT-TTAAAATTCTCACAAATCT
11499801 TTAATTTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
51 38 0.95
52 2 0.05
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (51 bp):
AAATCTTGTGAATCTCCAATTTTTATAAATTTAAAATTCTCACAAATCTGA
Found at i:11500639 original size:62 final size:62
Alignment explanation
Indices: 11500521--11500667 Score: 159
Period size: 62 Copynumber: 2.4 Consensus size: 62
11500511 TGGAGCAACA
* * * * * * *
11500521 ACGATCAAAGAATAGGGTTTCAAATGTAGGATTCTGTTGCGACTCATATTGGCAGAGCAATG
1 ACGATCAAAGAGTAGGGTTTCAAATGTAGGATTCTATTACGACTAACATCGACAGAGCAATG
* ** * * *
11500583 ATGATCAAAGAGTAGGGTTTCAGGTGTAGGATTCTATTATGCCTAACATCGACAGAGCGATG
1 ACGATCAAAGAGTAGGGTTTCAAATGTAGGATTCTATTACGACTAACATCGACAGAGCAATG
* *
11500645 GCGATCAAAAAGTAGGGTTTCAA
1 ACGATCAAAGAGTAGGGTTTCAA
11500668 TTACATTTGA
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
62 68 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (62 bp):
ACGATCAAAGAGTAGGGTTTCAAATGTAGGATTCTATTACGACTAACATCGACAGAGCAATG
Found at i:11501320 original size:60 final size:58
Alignment explanation
Indices: 11501179--11501571 Score: 185
Period size: 58 Copynumber: 6.4 Consensus size: 58
11501169 CTTTTTGATG
* * *
11501179 AAAAGTTGAAAATATCAATTTT-TTTAAAATAAAAATTTTAGAAAATATTTTTTTAAGG
1 AAAAGTTGAAAGTATCAATTTTCTTAAAAAT-AAAATTTTAGAAAATATTTTTTTAAGA
* *
11501237 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCA-AAAGGTATTTTTTTAA-A
1 AAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAAATTTT-AGAAA-ATATTTTTTTAAGA
* * ** *
11501296 ATATAATTTGAGAGTATCAATTTTCTTAAAAATAATTTTTTTTTAAAAATATGTATTTCTCAAGA
1 A-A-AAGTTGAAAGTATCAATTTTCTTAAAAATAA---AATTTTAGAAA-A--TA--T-T-----
*
11501361 AATTTTTTAAGG
50 ---TTTTTAAGA
* * * * *
11501373 AAAAGTTAAAAGAATCAATTTTCCTTAAAAATGAAAATTTCAAAACAATATTTTTTTCA-A
1 AAAAGTTGAAAGTATCAATTTT-CTTAAAAAT-AAAATTTTAGAA-AATATTTTTTTAAGA
* * ** *
11501433 AAAAGTTGAAAATATCAATTTT-TTTAAGGTAAAATTTTCA-AAAGATA-TTTGTTAAG-
1 AAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTT-AGAAA-ATATTTTTTTAAGA
* * * * * * *
11501489 AAAAGTTGAGAGTGTCAATTTTCCTTGAAAAGAAATATTTCA-AAAAAATTTTTTGAAG-
1 AAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAA-ATTTTAGAAAATATTTTTTTAAGA
*
11501547 AAAAGATGAAAGTATCAATTTTCTT
1 AAAAGTTGAAAGTATCAATTTTCTT
11501572 TGAATAAATG
Statistics
Matches: 257, Mismatches: 44, Indels: 69
0.69 0.12 0.19
Matches are distributed among these distances:
56 26 0.10
57 17 0.07
58 60 0.23
59 20 0.08
60 53 0.21
61 20 0.08
62 1 0.00
63 7 0.03
65 2 0.01
67 1 0.00
68 1 0.00
69 1 0.00
70 1 0.00
72 2 0.01
74 8 0.03
75 17 0.07
76 17 0.07
77 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.40
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTTAGAAAATATTTTTTTAAGA
Found at i:11501565 original size:58 final size:57
Alignment explanation
Indices: 11501360--11501575 Score: 199
Period size: 58 Copynumber: 3.7 Consensus size: 57
11501350 ATTTCTCAAG
* * *
11501360 AAATTTTTTAAGGAAAAGTTAAAAGAATCAATTTTCCTTAAAAATGAAAATTTCAAAAC
1 AAATTTTTTAA-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-GAAAATTTCAAAAC
* * * *
11501419 AATATTTTTTTCAA-AAAAGTTGAAAATATCAATTTT--TT-TAAGGTAAAATTTTCAAAAG
1 AA-A-TTTTTT-AAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAG-AAAA-TTTCAAAAC
* * * *
11501477 ATATTTGTTAAGAAAAGTTGAGAGTGTCAATTTTCCTTGAAAAGAAATATTTCAAAA-
1 AAATTTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAGAAA-ATTTCAAAAC
* *
11501534 AAATTTTTTGAAGAAAAGATGAAAGTATCAATTTTCTTTGAA
1 AAATTTTTT-AAGAAAAGTTGAAAGTATCAATTTTCCTTGAA
11501576 TAAATGCATT
Statistics
Matches: 127, Mismatches: 19, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
55 2 0.02
56 25 0.20
57 14 0.11
58 52 0.41
59 6 0.05
60 20 0.16
61 6 0.05
62 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (57 bp):
AAATTTTTTAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAGAAAATTTCAAAAC
Found at i:11506151 original size:30 final size:30
Alignment explanation
Indices: 11506115--11506174 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
11506105 AACTTTGATA
* **
11506115 ACATTTAATTTTAATTTAAATAAAATAAAT
1 ACATTTAATCTTAAAATAAATAAAATAAAT
*
11506145 ACATTTAATCTTAAAATAAATAATATAAAT
1 ACATTTAATCTTAAAATAAATAAAATAAAT
11506175 GTGGGAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (30 bp):
ACATTTAATCTTAAAATAAATAAAATAAAT
Found at i:11506177 original size:130 final size:131
Alignment explanation
Indices: 11505943--11506205 Score: 456
Period size: 130 Copynumber: 2.0 Consensus size: 131
11505933 GAAAATACAT
11505943 AAATTTTTGTTTAAATATATATTTAATTATAAACTCTTAATAACATTTAATTTTAATTTAAATAA
1 AAATTTTTGTTTAAATATATATTTAATTATAAACTCTTAATAACATTTAATTTTAATTTAAATAA
* * * *
11506008 AATAAATATATTTAATCTTAAAATAAGTAATACAAATGTGGAAATATTGGAGACTAGTTCTCAAG
66 AATAAATACATTTAATCTTAAAATAAATAATACAAATGTGGAAATAGTGGAGACAAGTTCTCAAG
11506073 C
131 C
*
11506074 AAATTTTTGTTTAAATATATATTTAATTATAAACT-TTGATAACATTTAATTTTAATTTAAATAA
1 AAATTTTTGTTTAAATATATATTTAATTATAAACTCTTAATAACATTTAATTTTAATTTAAATAA
* *
11506138 AATAAATACATTTAATCTTAAAATAAATAATATAAATGTGGGAATAGTGGAGACAAGTTCTCAAG
66 AATAAATACATTTAATCTTAAAATAAATAATACAAATGTGGAAATAGTGGAGACAAGTTCTCAAG
11506203 C
131 C
11506204 AA
1 AA
11506206 GCATGAGCAA
Statistics
Matches: 125, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
130 90 0.72
131 35 0.28
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (131 bp):
AAATTTTTGTTTAAATATATATTTAATTATAAACTCTTAATAACATTTAATTTTAATTTAAATAA
AATAAATACATTTAATCTTAAAATAAATAATACAAATGTGGAAATAGTGGAGACAAGTTCTCAAG
C
Found at i:11509855 original size:10 final size:10
Alignment explanation
Indices: 11509840--11509872 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11509830 AATAAAATTT
11509840 TAAAAATATA
1 TAAAAATATA
11509850 TAAAAACTA-A
1 TAAAAA-TATA
11509860 TAAAAATATA
1 TAAAAATATA
11509870 TAA
1 TAA
11509873 TTTAGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAATATA
Found at i:11512629 original size:20 final size:21
Alignment explanation
Indices: 11512590--11512631 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
11512580 ATAAAATTGT
11512590 ATTTTAGTTTTCTTTTTAATA
1 ATTTTAGTTTTCTTTTTAATA
11512611 ATTTTA-TTTT-TTTTCTAATA
1 ATTTTAGTTTTCTTTT-TAATA
11512631 A
1 A
11512632 ATACATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTAGTTTTCTTTTTAATA
Found at i:11516131 original size:336 final size:336
Alignment explanation
Indices: 11515518--11516190 Score: 1301
Period size: 336 Copynumber: 2.0 Consensus size: 336
11515508 TTGTTAGGAT
*
11515518 ATCAGCTACTTGTTACTTTGTAGGAATATAGGTTGTACAGATCACTCCCATATTAATCTTCTCTT
1 ATCAGCTACTTGTTACTTTGTAGGAATATAGGTCGTACAGATCACTCCCATATTAATCTTCTCTT
11515583 TGATAAAGCCTATCAACTTCAACATGCTTTGTTCGATCATGATGCACTGGGTTATGAGCAATACT
66 TGATAAAGCCTATCAACTTCAACATGCTTTGTTCGATCATGATGCACTGGGTTATGAGCAATACT
*
11515648 TATGGCAGCCTTGTTATCACAATGCAGTTTCATAGGGTATTCAGCTGTCATTTTCAATTCTCCCA
131 TATAGCAGCCTTGTTATCACAATGCAGTTTCATAGGGTATTCAGCTGTCATTTTCAATTCTCCCA
11515713 AAAGTTTCTTTAGCCAGATAAGTTCACAAGTTCCTTGCGCAGGAGCTTTAAATTTAGCTTCTGCA
196 AAAGTTTCTTTAGCCAGATAAGTTCACAAGTTCCTTGCGCAGGAGCTTTAAATTTAGCTTCTGCA
11515778 TTACTTCGAGCAACAACAGACTGTTTCTTGCTCTTCCATGTGACAAGATTACCCCAAACCTTCGT
261 TTACTTCGAGCAACAACAGACTGTTTCTTGCTCTTCCATGTGACAAGATTACCCCAAACCTTCGT
11515843 ACAATACCCAG
326 ACAATACCCAG
11515854 ATCAGCTACTTGTTACTTTGTAGGAATATAGGTCGTACAGATCACTCCCATATTAATCTTCTCTT
1 ATCAGCTACTTGTTACTTTGTAGGAATATAGGTCGTACAGATCACTCCCATATTAATCTTCTCTT
11515919 TGATAAAGCCTATCAACTTCAACATGCTTTGTTCGATCATGATGCACTGGGTTATGAGCAATACT
66 TGATAAAGCCTATCAACTTCAACATGCTTTGTTCGATCATGATGCACTGGGTTATGAGCAATACT
11515984 TATAGCAGCCTTGTTATCACAATGCAGTTTCATAGGGTATTCAGCTGTCATTTTCAATTCTCCCA
131 TATAGCAGCCTTGTTATCACAATGCAGTTTCATAGGGTATTCAGCTGTCATTTTCAATTCTCCCA
* *
11516049 AAAGTTTCTTTAGCCAGATAAGTTCATAAGTTCCTTGCGCAGGAGCTTTAAGTTTAGCTTCTGCA
196 AAAGTTTCTTTAGCCAGATAAGTTCACAAGTTCCTTGCGCAGGAGCTTTAAATTTAGCTTCTGCA
11516114 TTACTTCGAGCAACAACAGACTGTTTCTTGCTCTTCCATGTGACAAGATTACCCCAAACCTTCGT
261 TTACTTCGAGCAACAACAGACTGTTTCTTGCTCTTCCATGTGACAAGATTACCCCAAACCTTCGT
*
11516179 ACAATAGCCAG
326 ACAATACCCAG
11516190 A
1 A
11516191 GGTGGATTTT
Statistics
Matches: 332, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
336 332 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (336 bp):
ATCAGCTACTTGTTACTTTGTAGGAATATAGGTCGTACAGATCACTCCCATATTAATCTTCTCTT
TGATAAAGCCTATCAACTTCAACATGCTTTGTTCGATCATGATGCACTGGGTTATGAGCAATACT
TATAGCAGCCTTGTTATCACAATGCAGTTTCATAGGGTATTCAGCTGTCATTTTCAATTCTCCCA
AAAGTTTCTTTAGCCAGATAAGTTCACAAGTTCCTTGCGCAGGAGCTTTAAATTTAGCTTCTGCA
TTACTTCGAGCAACAACAGACTGTTTCTTGCTCTTCCATGTGACAAGATTACCCCAAACCTTCGT
ACAATACCCAG
Found at i:11521542 original size:27 final size:26
Alignment explanation
Indices: 11521490--11521542 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
11521480 AAAGAATCTG
* *
11521490 AAAAATAAAATATTAAAAAGATATTC
1 AAAAATAAAAGATTAAAAAGAAATTC
11521516 AAAAATAAAAAGATTATAAAA-AAATTC
1 AAAAAT-AAAAGATTA-AAAAGAAATTC
11521543 CATAGGGTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 13 0.57
28 4 0.17
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (26 bp):
AAAAATAAAAGATTAAAAAGAAATTC
Found at i:11521764 original size:19 final size:17
Alignment explanation
Indices: 11521742--11521819 Score: 77
Period size: 18 Copynumber: 4.3 Consensus size: 17
11521732 TGTTTTCAAT
11521742 TTTTTTTCAGATTTTTTAG
1 TTTTTTT-A-ATTTTTTAG
*
11521761 TTTTTTTTGATTTTTTTAG
1 -TTTTTTT-AATTTTTTAG
11521780 TGTTTTTTAATTTTTTAG
1 T-TTTTTTAATTTTTTAG
*
11521798 CTTTTTTGAATTTTTTA-
1 -TTTTTTTAATTTTTTAG
11521815 TTTTT
1 TTTTT
11521820 GAATTTTCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.10
18 24 0.46
19 15 0.29
20 8 0.15
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTTTTTAATTTTTTAG
Found at i:11521849 original size:8 final size:8
Alignment explanation
Indices: 11521763--11521852 Score: 51
Period size: 9 Copynumber: 10.8 Consensus size: 8
11521753 TTTTTTAGTT
11521763 TTTTTTGA
1 TTTTTTGA
*
11521771 TTTTTTTAGTG
1 -TTTTTT-G-A
*
11521782 TTTTTTAA
1 TTTTTTGA
*
11521790 TTTTTTAGC
1 TTTTTT-GA
11521799 TTTTTTGAA
1 TTTTTTG-A
11521808 TTTTTT-A
1 TTTTTTGA
11521815 -TTTTTGA
1 TTTTTTGA
* *
11521822 -ATTTTCA
1 TTTTTTGA
11521829 TATTTTTGAA
1 T-TTTTTG-A
11521839 TTTTTTGA
1 TTTTTTGA
11521847 TTTTTT
1 TTTTTT
11521853 AAAAAATTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
6 5 0.08
7 7 0.11
8 14 0.22
9 28 0.44
10 9 0.14
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (8 bp):
TTTTTTGA
Found at i:11521849 original size:16 final size:15
Alignment explanation
Indices: 11521800--11521851 Score: 77
Period size: 16 Copynumber: 3.3 Consensus size: 15
11521790 TTTTTTAGCT
11521800 TTTTTGAATTTTTTA
1 TTTTTGAATTTTTTA
*
11521815 TTTTTGAATTTTCATA
1 TTTTTGAATTTT-TTA
11521831 TTTTTGAATTTTTTGA
1 TTTTTGAATTTTTT-A
11521847 TTTTT
1 TTTTT
11521852 TAAAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 13 0.39
16 20 0.61
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (15 bp):
TTTTTGAATTTTTTA
Found at i:11521983 original size:17 final size:15
Alignment explanation
Indices: 11521948--11521998 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
11521938 TTAAAATTAG
*
11521948 TTTTTAATTTTT-TAA
1 TTTTT-ATTTTTAAAA
11521963 TTTTTACTTTTTCAAAA
1 TTTTTA-TTTTT-AAAA
11521980 TTTTTTATTTTTAAAA
1 -TTTTTATTTTTAAAA
11521996 TTT
1 TTT
11521999 ATTTCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.03
15 13 0.42
16 4 0.13
17 7 0.23
18 6 0.19
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTATTTTTAAAA
Found at i:11526759 original size:24 final size:24
Alignment explanation
Indices: 11526732--11526802 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 24
11526722 TCGTAAAAAG
11526732 ATTTACATATACACTTGTTAAATA
1 ATTTACATATACACTTGTTAAATA
* * * * *
11526756 ATTT--ATA-GCTATTTATGAAAAAA
1 ATTTACATATAC-ACTTGT-TAAATA
11526779 ATTTACATATACACTTGTTAAATA
1 ATTTACATATACACTTGTTAAATA
11526803 TATATAATAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
21 1 0.03
22 7 0.22
23 8 0.25
24 8 0.25
25 7 0.22
26 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.41
Consensus pattern (24 bp):
ATTTACATATACACTTGTTAAATA
Found at i:11536126 original size:159 final size:160
Alignment explanation
Indices: 11535810--11536126 Score: 548
Period size: 161 Copynumber: 2.0 Consensus size: 160
11535800 TATATCGCAT
* * * *
11535810 TAAATAAGGTGTCAATAGAATTTCCCTTTTGTTTGAAATGTTTTTATTCACACCCCAACTTTTTC
1 TAAATAAAGTGTAAATAGAATTCCCCTTTTGGTTGAAATGTTTTTATTCACACCCCAACTTTTTC
*
11535875 TTTTTACTGAAAGATGGAAGTTTTTTTTTTCAAAATTTTTTGTAAGTGAAATTATTTAATTATCT
66 TCTTTACTGAAAGATGGAAG-TTTTTTTTTCAAAATTTTTTGTAAGTGAAATTATTTAATTATCT
11535940 TTCTCATAAATTTTTAGATATCTATATCCGA
130 TTCTCATAAATTTTTAGATATCTATATCCGA
*
11535971 TAAATAAAGTGTAAATAGAATTCCCCTTTTGGTTGAAATGTTTTTATTCACACCCTAACTTTTTC
1 TAAATAAAGTGTAAATAGAATTCCCCTTTTGGTTGAAATGTTTTTATTCACACCCCAACTTTTTC
11536036 TCTTTACT-AAATGATGGAA-TTTTTTTTTCAAAATTTTTTGTAAGTGAAATTATTTAATTATCT
66 TCTTTACTGAAA-GATGGAAGTTTTTTTTTCAAAATTTTTTGTAAGTGAAATTATTTAATTATCT
11536099 TTCTCATAAATTTTTAGATATCTATATC
130 TTCTCATAAATTTTTAGATATCTATATC
11536127 TAATAAATTT
Statistics
Matches: 149, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
159 72 0.48
160 3 0.02
161 74 0.50
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (160 bp):
TAAATAAAGTGTAAATAGAATTCCCCTTTTGGTTGAAATGTTTTTATTCACACCCCAACTTTTTC
TCTTTACTGAAAGATGGAAGTTTTTTTTTCAAAATTTTTTGTAAGTGAAATTATTTAATTATCTT
TCTCATAAATTTTTAGATATCTATATCCGA
Found at i:11536133 original size:159 final size:160
Alignment explanation
Indices: 11535800--11536134 Score: 548
Period size: 159 Copynumber: 2.1 Consensus size: 160
11535790 AAGTGGGGTT
* * * * *
11535800 TATATCGCATTAAATAAGGTGTCAATAGAATTTCCCTTTTGTTTGAAATGTTTTTATTCACACCC
1 TATATC-CAATAAATAAAGTGTAAATAGAATTCCCCTTTTGGTTGAAATGTTTTTATTCACACCC
*
11535865 CAACTTTTTCTTTTTACTGAAAGATGGAAGTTTTTTTTTTCAAAATTTTTTGTAAGTGAAATTAT
65 CAACTTTTTCTCTTTACTGAAAGATGGAAG-TTTTTTTTTCAAAATTTTTTGTAAGTGAAATTAT
11535930 TTAATTATCTTTCTCATAAATTTTTAGATATC
129 TTAATTATCTTTCTCATAAATTTTTAGATATC
* *
11535962 TATATCCGATAAATAAAGTGTAAATAGAATTCCCCTTTTGGTTGAAATGTTTTTATTCACACCCT
1 TATATCCAATAAATAAAGTGTAAATAGAATTCCCCTTTTGGTTGAAATGTTTTTATTCACACCCC
11536027 AACTTTTTCTCTTTACT-AAATGATGGAA-TTTTTTTTTCAAAATTTTTTGTAAGTGAAATTATT
66 AACTTTTTCTCTTTACTGAAA-GATGGAAGTTTTTTTTTCAAAATTTTTTGTAAGTGAAATTATT
11536090 TAATTATCTTTCTCATAAATTTTTAGATATC
130 TAATTATCTTTCTCATAAATTTTTAGATATC
*
11536121 TATATCTAATAAAT
1 TATATCCAATAAAT
11536135 TTTATAACTT
Statistics
Matches: 162, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
159 78 0.48
160 3 0.02
161 75 0.46
162 6 0.04
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (160 bp):
TATATCCAATAAATAAAGTGTAAATAGAATTCCCCTTTTGGTTGAAATGTTTTTATTCACACCCC
AACTTTTTCTCTTTACTGAAAGATGGAAGTTTTTTTTTCAAAATTTTTTGTAAGTGAAATTATTT
AATTATCTTTCTCATAAATTTTTAGATATC
Found at i:11536177 original size:34 final size:35
Alignment explanation
Indices: 11536131--11536212 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 35
11536121 TATATCTAAT
* * **
11536131 AAATTTTATAACTTTTC-AAAAATTTATTTTTGAA
1 AAATTATATAACTTTACAAAAAATGAATTTTTGAA
*
11536165 ATATTATATAAC-TTACAAAAAATGAATTTTTGAA
1 AAATTATATAACTTTACAAAAAATGAATTTTTGAA
11536199 AAATTATATAACTT
1 AAATTATATAACTT
11536213 ACTGAAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.08
34 36 0.90
35 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (35 bp):
AAATTATATAACTTTACAAAAAATGAATTTTTGAA
Found at i:11536246 original size:34 final size:34
Alignment explanation
Indices: 11536156--11536239 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
11536146 TCAAAAATTT
* *
11536156 ATTTTTGAAATATTATATAACTTACAAAAAATGA
1 ATTTCTGAAAAATTATATAACTTACAAAAAATGA
* ** *
11536190 ATTTTTGAAAAATTATATAACTTACTGAAAATGG
1 ATTTCTGAAAAATTATATAACTTACAAAAAATGA
11536224 ATTTCT-AAAAAGTTAT
1 ATTTCTGAAAAA-TTAT
11536240 TAAACTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 5 0.11
34 39 0.89
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (34 bp):
ATTTCTGAAAAATTATATAACTTACAAAAAATGA
Found at i:11537348 original size:22 final size:23
Alignment explanation
Indices: 11537323--11537366 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
11537313 AAAATTCATT
11537323 AATTAAT-GAAACATGA-TTTATC
1 AATTAATAGAAA-ATGAGTTTATC
11537345 AATTAATAGAAAATGAGTTTAT
1 AATTAATAGAAAATGAGTTTAT
11537367 TTTTCAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (23 bp):
AATTAATAGAAAATGAGTTTATC
Done.