Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 10 of 138
Found at i:2938264 original size:26 final size:26
Alignment explanation
Indices: 2938234--2938284 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2938224 TATTTAAGGG
*
2938234 TAAAAA-AGTAAATTAATAATAAAAAT
1 TAAAAATA-TAAATTAAAAATAAAAAT
*
2938260 TAAAAATATATATTAAAAATAAAAA
1 TAAAAATATAAATTAAAAATAAAAA
2938285 ATTCGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAAAATATAAATTAAAAATAAAAAT
Found at i:2938266 original size:20 final size:21
Alignment explanation
Indices: 2938243--2938287 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
2938233 GTAAAAAAGT
*
2938243 AAATTA-ATAATAAAAATTAA
1 AAATTATATAATAAAAATAAA
*
2938263 AAA-TATATATTAAAAATAAA
1 AAATTATATAATAAAAATAAA
2938283 AAATT
1 AAATT
2938288 CGATTAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 18 0.86
21 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATTATATAATAAAAATAAA
Found at i:2943207 original size:20 final size:19
Alignment explanation
Indices: 2943167--2943203 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2943157 TATAATAAGA
2943167 TAAAAAATTTAAAAAAAAT
1 TAAAAAATTTAAAAAAAAT
*
2943186 TAAAAACTTTAAAAAAAA
1 TAAAAAATTTAAAAAAAA
2943204 ATTATCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAAATTTAAAAAAAAT
Found at i:2943636 original size:21 final size:20
Alignment explanation
Indices: 2943610--2943648 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2943600 CTAAACAAAA
2943610 ATTTTTAATTTATCACTTTTG
1 ATTTTTAATTT-TCACTTTTG
2943631 ATTTTTAATTTTCA-TTTT
1 ATTTTTAATTTTCACTTTT
2943649 TATATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 3 0.17
21 11 0.61
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTTTAATTTTCACTTTTG
Found at i:2944812 original size:29 final size:27
Alignment explanation
Indices: 2944762--2944821 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
2944752 TTTGATATTT
* **
2944762 ATTTTTAAATTAATTTATTGAATTAAA
1 ATTTTAAAATTAATTTATTGAAACAAA
*
2944789 ATTTTAAAATATATATTTTTTGAAACAAA
1 ATTTTAAAAT-TA-ATTTATTGAAACAAA
2944818 ATTT
1 ATTT
2944822 GCAGACCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 9 0.33
28 2 0.07
29 16 0.59
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (27 bp):
ATTTTAAAATTAATTTATTGAAACAAA
Found at i:2947292 original size:3 final size:3
Alignment explanation
Indices: 2947284--2947308 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2947274 TTAAAAAATG
2947284 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
2947309 GTAGTAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2947348 original size:25 final size:26
Alignment explanation
Indices: 2947331--2947388 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 26
2947321 TCCTCATAAA
2947331 AAATAAAAATAAAAATCCACATAAAAT
1 AAAT-AAAATAAAAATCCACATAAAAT
* *
2947358 AAATAAAATCAAAATCAAAACATAAAAT
1 AAATAAAATAAAAATC--CACATAAAAT
2947386 AAA
1 AAA
2947389 CATAAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 4 0.15
28 12 0.44
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (26 bp):
AAATAAAATAAAAATCCACATAAAAT
Found at i:2948232 original size:3 final size:3
Alignment explanation
Indices: 2948226--2948269 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
2948216 TTTCTTTTTT
*
2948226 TTA TTA TTA TTT TTAA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2948270 TGTTTCGGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:2948237 original size:27 final size:27
Alignment explanation
Indices: 2948207--2948263 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
2948197 ATTGAAACAA
* * * *
2948207 ATTTTTACTTTTCTTTTTTTTATTATT
1 ATTTTTAATTTTATTATTATTATTATT
2948234 ATTTTTAATTTTATTATTATTATTATT
1 ATTTTTAATTTTATTATTATTATTATT
2948261 ATT
1 ATT
2948264 ATTATTTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (27 bp):
ATTTTTAATTTTATTATTATTATTATT
Found at i:2950419 original size:23 final size:23
Alignment explanation
Indices: 2950393--2950439 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
2950383 TGAAATCACC
*
2950393 ACTACCTAGTATGTTTTATTGTA
1 ACTACCTAATATGTTTTATTGTA
2950416 ACTACCTAATATGTTTTATTGTA
1 ACTACCTAATATGTTTTATTGTA
2950439 A
1 A
2950440 GGATGCCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.47
Consensus pattern (23 bp):
ACTACCTAATATGTTTTATTGTA
Found at i:2956147 original size:25 final size:24
Alignment explanation
Indices: 2956098--2956151 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
2956088 TATTTAACGA
* *
2956098 TAAAAATACTATCAATATTTTTAT
1 TAAAAATACTATCAATATATATAT
2956122 TAAAAATATCTATCTAA-ATATATAT
1 TAAAAATA-CTATC-AATATATATAT
2956147 TAAAA
1 TAAAA
2956152 TTTTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 16 0.62
26 2 0.08
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAAATACTATCAATATATATAT
Found at i:2958195 original size:33 final size:33
Alignment explanation
Indices: 2958158--2958226 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
2958148 GTAAAAATAT
2958158 TTAAGGTTTTATTATTAAATTTATGAGATAAAA
1 TTAAGGTTTTATTATTAAATTTATGAGATAAAA
*
2958191 TTAAGTTTTTATTATTAAATTTATGAGATAAAA
1 TTAAGGTTTTATTATTAAATTTATGAGATAAAA
2958224 TTA
1 TTA
2958227 TGAAAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (33 bp):
TTAAGGTTTTATTATTAAATTTATGAGATAAAA
Found at i:2958226 original size:19 final size:19
Alignment explanation
Indices: 2958171--2958226 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
2958161 AGGTTTTATT
2958171 ATTAAATTTATGAGATAAA
1 ATTAAATTTATGAGATAAA
* **
2958190 ATTAAGTTT-T----TATT
1 ATTAAATTTATGAGATAAA
2958204 ATTAAATTTATGAGATAAA
1 ATTAAATTTATGAGATAAA
2958223 ATTA
1 ATTA
2958227 TGAAAATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 10
0.62 0.14 0.24
Matches are distributed among these distances:
14 10 0.38
15 1 0.04
18 1 0.04
19 14 0.54
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (19 bp):
ATTAAATTTATGAGATAAA
Found at i:2959529 original size:14 final size:13
Alignment explanation
Indices: 2959496--2959532 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2959486 TTAATAAATT
2959496 AAAATTAAAATCG
1 AAAATTAAAATCG
2959509 AAAATTAAAATCG
1 AAAATTAAAATCG
2959522 ATAAATTAAAA
1 A-AAATTAAAA
2959533 GATTTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (13 bp):
AAAATTAAAATCG
Found at i:2961769 original size:2 final size:2
Alignment explanation
Indices: 2961764--2961803 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2961754 TATATATATA
2961764 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2961804 AGTTCTATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2965544 original size:15 final size:15
Alignment explanation
Indices: 2965524--2965552 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2965514 ATTAATCCAT
2965524 TTCCTAAACTAATGA
1 TTCCTAAACTAATGA
2965539 TTCCTAAACTAATG
1 TTCCTAAACTAATG
2965553 TTAGGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (15 bp):
TTCCTAAACTAATGA
Found at i:2967289 original size:3 final size:3
Alignment explanation
Indices: 2967281--2967306 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2967271 CATATTACCA
2967281 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2967307 GATTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2973777 original size:42 final size:40
Alignment explanation
Indices: 2973718--2973797 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 40
2973708 TATATCAGTA
* *
2973718 TAAGTATTAT-ATTTTTTATTGTTAAATCAAAATGATTAAATG
1 TAAGTATTATAAATTTTAATT-TT-AATCAAAAT-ATTAAATG
*
2973760 TAAGTATTATAAATTTTAATTTTAATTAAAATATTAAA
1 TAAGTATTATAAATTTTAATTTTAATCAAAATATTAAA
2973798 AATATATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 6 0.18
41 8 0.24
42 12 0.35
43 8 0.24
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.47
Consensus pattern (40 bp):
TAAGTATTATAAATTTTAATTTTAATCAAAATATTAAATG
Found at i:2973862 original size:22 final size:21
Alignment explanation
Indices: 2973814--2973863 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
2973804 TATGTAACAT
2973814 TAAATTTTATATTAATATAAA
1 TAAATTTTATATTAATATAAA
* **
2973835 TAAAATTTTATGTTTTTATTAAA
1 T-AAATTTTATATTAATA-TAAA
2973858 TAAATT
1 TAAATT
2973864 AAAATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAATTTTATATTAATATAAA
Found at i:2976915 original size:16 final size:17
Alignment explanation
Indices: 2976870--2976915 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
2976860 ATAGATTTAT
2976870 ATATTTATATTAAAAGTA
1 ATATTT-TATTAAAAGTA
*
2976888 ATTATATT-TTAAAA-TA
1 A-TATTTTATTAAAAGTA
2976904 ATATTTTATTAA
1 ATATTTTATTAA
2976916 TTTTGAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 6 0.25
18 2 0.08
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATTTTATTAAAAGTA
Found at i:2978262 original size:21 final size:21
Alignment explanation
Indices: 2978238--2978278 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2978228 TTTGTTTTTA
* *
2978238 TTTTTGTTTTCTATAAAATAG
1 TTTTTATTTTCTAAAAAATAG
2978259 TTTTTATTTTCTAAAAAATA
1 TTTTTATTTTCTAAAAAATA
2978279 TATTTGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTTATTTTCTAAAAAATAG
Found at i:2978726 original size:20 final size:19
Alignment explanation
Indices: 2978696--2978735 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2978686 TATGTTATAA
2978696 AATTTAAAAAT-TTGAATTT
1 AATTTAAAAATATT-AATTT
2978715 AATTTAAAAAATATTAATTT
1 AATTT-AAAAATATTAATTT
2978735 A
1 A
2978736 TATATATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 12 0.63
21 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
AATTTAAAAATATTAATTT
Found at i:2981376 original size:23 final size:23
Alignment explanation
Indices: 2981350--2981395 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2981340 ACTAATCTTC
* *
2981350 TATATATGTTTCTATTTATTAAT
1 TATAAATGTTTCTAGTTATTAAT
* *
2981373 TATAAATTTTTCTCGTTATTAAT
1 TATAAATGTTTCTAGTTATTAAT
2981396 CCAATAAGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (23 bp):
TATAAATGTTTCTAGTTATTAAT
Found at i:2984576 original size:27 final size:28
Alignment explanation
Indices: 2984524--2984602 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
2984514 TGTTTATAAT
*
2984524 TTGATTTTATTTGAATTAATTAATCAAA
1 TTGATTTAATTTGAATTAATTAATCAAA
2984552 TTGATTTAATTTG-ATTAA-TAGATCAATAA
1 TTGATTTAATTTGAATTAATTA-ATC-A-AA
* * *
2984581 TTAAATTAATTTTAATTAATTA
1 TTGATTTAATTTGAATTAATTA
2984603 TAAAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 2 0.05
27 8 0.19
28 13 0.31
29 12 0.29
30 5 0.12
31 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (28 bp):
TTGATTTAATTTGAATTAATTAATCAAA
Found at i:2991360 original size:15 final size:15
Alignment explanation
Indices: 2991340--2991371 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2991330 TTTTATCGAT
2991340 AATTTTATAATTTAA
1 AATTTTATAATTTAA
*
2991355 AATTTTATATTTTAA
1 AATTTTATAATTTAA
2991370 AA
1 AA
2991372 GATGAAGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTTATAATTTAA
Found at i:2996310 original size:13 final size:15
Alignment explanation
Indices: 2996276--2996313 Score: 53
Period size: 13 Copynumber: 2.6 Consensus size: 15
2996266 AACCCAATGC
2996276 GAAAGAAGAAAGAGAT
1 GAAA-AAGAAAGAGAT
2996292 GAAAAAGAAAG-GA-
1 GAAAAAGAAAGAGAT
2996305 GAAAAAGAA
1 GAAAAAGAA
2996314 TAACTCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 2 0.09
15 7 0.32
16 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAAAGAAAGAGAT
Found at i:2997213 original size:23 final size:23
Alignment explanation
Indices: 2997149--2997213 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
2997139 TTTAATTTAT
** *
2997149 TTTTTATTTGAAATGTTTTAAAA
1 TTTTTATTTTTAATATTTTAAAA
* *
2997172 TTTTTATTTTTTATATTTTAAAC
1 TTTTTATTTTTAATATTTTAAAA
*
2997195 TTATTT-TTTTTAATTTTTT
1 TT-TTTATTTTTAATATTTT
2997214 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 31 0.91
24 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (23 bp):
TTTTTATTTTTAATATTTTAAAA
Found at i:2997743 original size:10 final size:10
Alignment explanation
Indices: 2997730--2997764 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
2997720 TAATTATATT
2997730 TTAAATATAA
1 TTAAATATAA
2997740 TTAAATATAA
1 TTAAATATAA
2997750 TATAAATAATAA
1 T-TAAAT-ATAA
2997762 TTA
1 TTA
2997765 TTTTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.48
11 7 0.30
12 5 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TTAAATATAA
Found at i:2998517 original size:3 final size:3
Alignment explanation
Indices: 2998511--2998560 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
2998501 CAGCAGCAGC
2998511 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
2998558 AGA
1 AGA
2998561 TCATCGAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3003446 original size:19 final size:19
Alignment explanation
Indices: 3003422--3003461 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3003412 CCAACCCAGA
3003422 AATTTGCTGTTCCTACCAT
1 AATTTGCTGTTCCTACCAT
3003441 AATTTGCTGTTCCTACCAT
1 AATTTGCTGTTCCTACCAT
3003460 AA
1 AA
3003462 AAGACTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (19 bp):
AATTTGCTGTTCCTACCAT
Found at i:3005714 original size:5 final size:6
Alignment explanation
Indices: 3005686--3005711 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3005676 TTTAATTTTT
3005686 AAATTA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AA
3005712 TTATTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:3005944 original size:27 final size:29
Alignment explanation
Indices: 3005885--3005946 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
3005875 ATTATATTCA
*
3005885 TAAA-TTATTTAAATAAAATATTAAAATT
1 TAAATTTATTTAAATAAAATATAAAAATT
3005913 T-AATTTATTT-AAT-AAATA-AAAATATT
1 TAAATTTATTTAAATAAAATATAAAA-ATT
3005939 TAAATTTA
1 TAAATTTA
3005947 AATTAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 3 0.10
26 9 0.30
27 11 0.37
28 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TAAATTTATTTAAATAAAATATAAAAATT
Found at i:3005987 original size:21 final size:21
Alignment explanation
Indices: 3005938--3005987 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3005928 ATAAAAATAT
* **
3005938 TTAAATTTAAATTAAATTCGA
1 TTAAAATTAAATTAAATTAAA
3005959 -TAATAATTAAATTAAATTAAA
1 TTAA-AATTAAATTAAATTAAA
3005980 TTAAAATT
1 TTAAAATT
3005988 TTATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.12
21 18 0.75
22 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTAAAATTAAATTAAATTAAA
Found at i:3006868 original size:22 final size:21
Alignment explanation
Indices: 3006837--3006884 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
3006827 TAAAAGTTTT
*
3006837 TATAATTTATATTATGTTTTAAA
1 TATAAATTATA-TAT-TTTTAAA
3006860 -ATAAATTATATATTTTTAAA
1 TATAAATTATATATTTTTAAA
3006880 TATAA
1 TATAA
3006885 TGGGTATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TATAAATTATATATTTTTAAA
Found at i:3012917 original size:205 final size:205
Alignment explanation
Indices: 3012565--3012979 Score: 814
Period size: 205 Copynumber: 2.0 Consensus size: 205
3012555 GCTCAAAAAT
3012565 AGTATCTCCATGGGATTACATGCACAAAATACCATGCTCAAGCCATATCTGACATGCATGCATTG
1 AGTATCTCCATGGGATTACATGCACAAAATACCATGCTCAAGCCATATCTGACATGCATGCATTG
*
3012630 CATAAGGATAGATGCTTTGTATTAACTTAAATTTTAGGTAACTCTTCCTCTTTTTCCCTTTCGGT
66 CATAAGGATAGATGCTTTGTATTAACTTAAATTTTAGGTAACTCTTCCTCTTTTTCCCTTTCAGT
3012695 AAAGATACTAATACAGTTCAAAAGCAGAACCGTATGAATGCACCCAAAGACCATGAAAGGACCAA
131 AAAGATACTAATACAGTTCAAAAGCAGAACCGTATGAATGCACCCAAAGACCATGAAAGGACCAA
3012760 GGACATTTTC
196 GGACATTTTC
3012770 AGTATCTCCATGGGATTACATGCACAAAATACCATGCTCAAGCCATATCTGACATGCATGCATTG
1 AGTATCTCCATGGGATTACATGCACAAAATACCATGCTCAAGCCATATCTGACATGCATGCATTG
3012835 CATAAGGATAGATGCTTTGTATTAACTTAAATTTTAGGTAACTCTTCCTCTTTTTCCCTTTCAGT
66 CATAAGGATAGATGCTTTGTATTAACTTAAATTTTAGGTAACTCTTCCTCTTTTTCCCTTTCAGT
3012900 AAAGATACTAATACAGTTCAAAAGCAGAACCGTATGAATGCACCCAAAGACCATGAAAGGACCAA
131 AAAGATACTAATACAGTTCAAAAGCAGAACCGTATGAATGCACCCAAAGACCATGAAAGGACCAA
3012965 GGACATTTTC
196 GGACATTTTC
3012975 A-TATC
1 AGTATC
3012980 ATACTAAGAG
Statistics
Matches: 209, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
204 4 0.02
205 205 0.98
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (205 bp):
AGTATCTCCATGGGATTACATGCACAAAATACCATGCTCAAGCCATATCTGACATGCATGCATTG
CATAAGGATAGATGCTTTGTATTAACTTAAATTTTAGGTAACTCTTCCTCTTTTTCCCTTTCAGT
AAAGATACTAATACAGTTCAAAAGCAGAACCGTATGAATGCACCCAAAGACCATGAAAGGACCAA
GGACATTTTC
Found at i:3014778 original size:15 final size:14
Alignment explanation
Indices: 3014759--3014787 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3014749 TAAAATAATT
3014759 TTAT-TTTTTAAAA
1 TTATATTTTTAAAA
3014772 TTATATTTTTAAAA
1 TTATATTTTTAAAA
3014786 TT
1 TT
3014788 TTATATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATATTTTTAAAA
Found at i:3016231 original size:30 final size:32
Alignment explanation
Indices: 3016195--3016257 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
3016185 ATTGAAATTT
* *
3016195 TAATTTT-AATAATCAAAAT-TTAATTTTTAA
1 TAATTTTAAATAATAAAAAAGTTAATTTTTAA
*
3016225 TAATTTTAAATATTAAAAAAGTTAATTTTTAA
1 TAATTTTAAATAATAAAAAAGTTAATTTTTAA
3016257 T
1 T
3016258 TTAATAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.25
31 9 0.32
32 12 0.43
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (32 bp):
TAATTTTAAATAATAAAAAAGTTAATTTTTAA
Found at i:3016256 original size:16 final size:16
Alignment explanation
Indices: 3016209--3016256 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
3016199 TTTAATAATC
3016209 AAAATTTAATTTTTAA
1 AAAATTTAATTTTTAA
* * * *
3016225 TAATTTTAAATATTAA
1 AAAATTTAATTTTTAA
*
3016241 AAAAGTTAATTTTTAA
1 AAAATTTAATTTTTAA
3016257 TTTAATAAGA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AAAATTTAATTTTTAA
Found at i:3016270 original size:32 final size:31
Alignment explanation
Indices: 3016209--3016271 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
3016199 TTTAATAATC
* *
3016209 AAAATTTAATTTTTAATAATTTTAAATATTAA
1 AAAAGTTAATTTTTAAT-ATTATAAATATTAA
3016241 AAAAGTTAATTTTTAAT-TTAATAAGATATTA
1 AAAAGTTAATTTTTAATATT-ATAA-ATATTA
3016272 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 2 0.07
31 3 0.11
32 22 0.81
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
AAAAGTTAATTTTTAATATTATAAATATTAA
Found at i:3016339 original size:33 final size:33
Alignment explanation
Indices: 3016302--3016368 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
3016292 AAAATGAAAG
3016302 TAGTAGTGGTTTTAAAATTTCTAAAAGGGTGGA
1 TAGTAGTGGTTTTAAAATTTCTAAAAGGGTGGA
3016335 TAGTAGTGGTTTTAAAATTTCTAAAAGGGTGGA
1 TAGTAGTGGTTTTAAAATTTCTAAAAGGGTGGA
3016368 T
1 T
3016369 GGAAGCACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (33 bp):
TAGTAGTGGTTTTAAAATTTCTAAAAGGGTGGA
Found at i:3025813 original size:29 final size:31
Alignment explanation
Indices: 3025780--3025849 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
3025770 TTTTTATAGC
*
3025780 ATAATGTCACATATATAT-TAA-A-TAATATA
1 ATAATGTCACATA-AAATCTAATATTAATATA
* *
3025809 ATAATATCACATAAAATCTAATATTAATATG
1 ATAATGTCACATAAAATCTAATATTAATATA
3025840 ATAATGTCAC
1 ATAATGTCAC
3025850 TTTACCTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 3 0.09
29 15 0.44
30 1 0.03
31 15 0.44
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (31 bp):
ATAATGTCACATAAAATCTAATATTAATATA
Found at i:3032918 original size:17 final size:17
Alignment explanation
Indices: 3032896--3032930 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3032886 AGATTGAAAG
3032896 TGTTTA-TGAGTATTGAT
1 TGTTTAGTGAG-ATTGAT
3032913 TGTTTAGTGAGATTGAT
1 TGTTTAGTGAGATTGAT
3032930 T
1 T
3032931 TAATCTCCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (17 bp):
TGTTTAGTGAGATTGAT
Found at i:3037020 original size:5 final size:5
Alignment explanation
Indices: 3037006--3037035 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
3036996 GTTTTTAAAA
*
3037006 ATTTT GTTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
3037036 TAATTTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:3037042 original size:11 final size:11
Alignment explanation
Indices: 3037012--3037044 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3037002 AAAAATTTTG
3037012 TTTTATTTTA-
1 TTTTATTTTAT
3037022 TTTTATTTTAT
1 TTTTATTTTAT
*
3037033 TTTTAATTTAT
1 TTTTATTTTAT
3037044 T
1 T
3037045 GAATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:3037189 original size:23 final size:26
Alignment explanation
Indices: 3037163--3037225 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 26
3037153 TATTTATTAA
3037163 TATATTATTTATTTA-T-TA-TATAT
1 TATATTATTTATTTACTATATTATAT
3037186 TATATTATTTA-TTACTATATTATAT
1 TATATTATTTATTTACTATATTATAT
3037211 TAATATTATGTTATT
1 T-ATATTAT-TTATT
3037226 AATCTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.09
23 12 0.35
24 2 0.06
25 6 0.18
26 7 0.21
27 3 0.09
28 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TATATTATTTATTTACTATATTATAT
Found at i:3037191 original size:16 final size:15
Alignment explanation
Indices: 3037143--3037260 Score: 73
Period size: 16 Copynumber: 7.6 Consensus size: 15
3037133 GCTTCATTTG
3037143 TTATTAATA--ATAT
1 TTATTAATATTATAT
3037156 TTATTAATATATTATTTAT
1 TTATT-A-ATATTA--TAT
3037175 TTATTATATATTATA-
1 TTATTA-ATATTATAT
* *
3037190 TTATTTATTACTATAT
1 TTA-TTAATATTATAT
*
3037206 TATATTAATATTAT-G
1 T-TATTAATATTATAT
* *
3037221 TTATTAATCTAATAT
1 TTATTAATATTATAT
* *
3037236 ATGATTAATATAATAT
1 -TTATTAATATTATAT
3037252 TTATTAATA
1 TTATTAATA
3037261 AAATATTATT
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
13 5 0.06
14 11 0.13
15 21 0.25
16 27 0.33
17 3 0.04
18 8 0.10
19 8 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (15 bp):
TTATTAATATTATAT
Found at i:3037218 original size:38 final size:39
Alignment explanation
Indices: 3037144--3037255 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 39
3037134 CTTCATTTGT
*
3037144 TATTAATAATATTTATTAATATATTATTTATTTATTATA
1 TATTAATAATATTTATTAATATATTATTTATATATTATA
* * *
3037183 TATT-ATATTATTTATTACTATATTATATTA-ATATTATGT
1 TATTAATAATATTTATTAATATATTAT-TTATATATTAT-A
* *
3037222 TATTAATCTAATATATGATTAATATAATATTTAT
1 TATTAA--TAATAT-TTATTAATATATTATTTAT
3037256 TAATAAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
38 26 0.45
39 11 0.19
40 1 0.02
42 8 0.14
43 12 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (39 bp):
TATTAATAATATTTATTAATATATTATTTATATATTATA
Found at i:3037236 original size:27 final size:24
Alignment explanation
Indices: 3037163--3037290 Score: 84
Period size: 27 Copynumber: 5.2 Consensus size: 24
3037153 TATTTATTAA
*
3037163 TATATTATTTATTTATT-ATATAT
1 TATATTATTTATTAATTAATATAT
* *
3037186 TATATTATTTATTACTATATTATAT
1 TATATTATTTATTAAT-TAATATAT
3037211 TAATATTATGTTATTAATCTAATATAT
1 T-ATATTAT-TTATTAAT-TAATATAT
* * * *
3037238 GATTAATATAATATTTATTAATA-A-
1 TA-TATTAT-TTATTAATTAATATAT
*
3037262 AATATTATTTTATTAATATAATA-AT
1 TATATTA-TTTATTAAT-TAATATAT
3037287 TATA
1 TATA
3037291 ACTTATTATA
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
23 24 0.30
24 9 0.11
25 10 0.12
26 13 0.16
27 25 0.31
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TATATTATTTATTAATTAATATAT
Found at i:3037275 original size:19 final size:20
Alignment explanation
Indices: 3037251--3037289 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3037241 TAATATAATA
3037251 TTTATTAATAAAAT-ATTAT
1 TTTATTAATAAAATAATTAT
*
3037270 TTTATTAATATAATAATTAT
1 TTTATTAATAAAATAATTAT
3037290 AACTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTAATAAAATAATTAT
Found at i:3037289 original size:81 final size:78
Alignment explanation
Indices: 3037141--3037290 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 78
3037131 AAGCTTCATT
* * * * * * *
3037141 TGTTATTAATAATATTTATTAATATATTATTTATTTATTATATATTATATTATTTATTACTATAT
1 TGTTATTAATAATATTGATTAATATAATATTTATTAATAAAATATTATATTATTAATTAATATAT
3037206 TATATTAATATTA
66 TATATTAATATTA
*
3037219 TGTTATTAATCTAATATATGATTAATATAATATTTATTAATAAAATATTATTTTATTAATATAAT
1 TGTTATTAA--TAATAT-TGATTAATATAATATTTATTAATAAAATATTATATTATTAAT-TAAT
3037284 A-ATTATA
62 ATATTATA
3037291 ACTTATTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 9 0.15
80 6 0.10
81 41 0.68
82 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (78 bp):
TGTTATTAATAATATTGATTAATATAATATTTATTAATAAAATATTATATTATTAATTAATATAT
TATATTAATATTA
Found at i:3043245 original size:339 final size:340
Alignment explanation
Indices: 3042619--3043302 Score: 1361
Period size: 339 Copynumber: 2.0 Consensus size: 340
3042609 TTTAGTAGGG
3042619 ACAATCCTACCAGCCTGATGTAATTACAGAATTTGGAGGTTGGGATCTTTTGTGCTTTGAAATGC
1 ACAATCCTACCAGCCTGATGTAATTACAGAATTTGGAGGTTGGGATCTTTTGTGCTTTGAAATGC
3042684 ACCCTCCTCCAGCCCCTAGCAGGAATTACATGGTGCTCTATGCAAGGTAACGAAACAAGCACTGA
66 ACCCTCCTCCAGCCCCTAGCAGGAATTACATGGTGCTCTATGCAAGGTAACGAAACAAGCACTGA
3042749 GACATCATCAACTTGCAGATGATTGTTGAGACCATCTGATGGTTTGGAGTTTGGAACAGTATGCC
131 GACATCATCAACTTGCAGATGATTGTTGAGACCATCTGATGGTTTGGAGTTTGGAACAGTATGCC
3042814 ATCTTTTAACATCCTGATTCCTGAAGGTTTTAGAGAGTTACTAGTATTATCTTTTCTTGCATCGA
196 ATCTTTTAACATCCTGATTCCTGAAGGTTTTAGAGAGTTACTAGTATTATCTTTTCTTGCATCGA
3042879 CTCTGCACAAGGCTCAAGAGAATGTCTGTTAATGTATGTTCATTCCCTGGCATTTTCCCATGTCC
261 CTCTGCACAAGGCTCAAGAGAATGTCTGTTAATGTATGTTCATTCCCTGGCATTTTCCCATGTCC
3042944 TGCAATATTTCACAA
326 TGCAATATTTCACAA
3042959 ACAAT-CTACCAGCCTGATGTAATTACAGAATTTGGAGGTTGGGATCTTTTGTGCTTTGAAATGC
1 ACAATCCTACCAGCCTGATGTAATTACAGAATTTGGAGGTTGGGATCTTTTGTGCTTTGAAATGC
3043023 ACCCTCCTCCAGCCCCTAGCAGGAATTACATGGTGCTCTATGCAAGGTAACGAAACAAGCACTGA
66 ACCCTCCTCCAGCCCCTAGCAGGAATTACATGGTGCTCTATGCAAGGTAACGAAACAAGCACTGA
3043088 GACATCATCAACTTGCAGATGATTGTTGAGACCATCTGATGGTTTGGAGTTTGGAACAGTATGCC
131 GACATCATCAACTTGCAGATGATTGTTGAGACCATCTGATGGTTTGGAGTTTGGAACAGTATGCC
3043153 ATCTTTTAACATCCTGATTCCTGAAGGTTTTAGAGAGTTACTAGTATTATCTTTTCTTGCATCGA
196 ATCTTTTAACATCCTGATTCCTGAAGGTTTTAGAGAGTTACTAGTATTATCTTTTCTTGCATCGA
3043218 CTCTGCACAAGGCTCAAGAGAATGTCTGTTAATGTATGTTCATTCCCTGGCATTTTCCCATGTCC
261 CTCTGCACAAGGCTCAAGAGAATGTCTGTTAATGTATGTTCATTCCCTGGCATTTTCCCATGTCC
3043283 TGCAATATTTCACAA
326 TGCAATATTTCACAA
3043298 ACAAT
1 ACAAT
3043303 TGCTGAGCAA
Statistics
Matches: 344, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
339 339 0.99
340 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (340 bp):
ACAATCCTACCAGCCTGATGTAATTACAGAATTTGGAGGTTGGGATCTTTTGTGCTTTGAAATGC
ACCCTCCTCCAGCCCCTAGCAGGAATTACATGGTGCTCTATGCAAGGTAACGAAACAAGCACTGA
GACATCATCAACTTGCAGATGATTGTTGAGACCATCTGATGGTTTGGAGTTTGGAACAGTATGCC
ATCTTTTAACATCCTGATTCCTGAAGGTTTTAGAGAGTTACTAGTATTATCTTTTCTTGCATCGA
CTCTGCACAAGGCTCAAGAGAATGTCTGTTAATGTATGTTCATTCCCTGGCATTTTCCCATGTCC
TGCAATATTTCACAA
Found at i:3044186 original size:7 final size:7
Alignment explanation
Indices: 3044176--3044213 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
3044166 TGAATTTTGT
3044176 AATAAAA
1 AATAAAA
3044183 AATAAAA
1 AATAAAA
3044190 AATAAAA
1 AATAAAA
*
3044197 AAAAAAA
1 AATAAAA
3044204 AATTAAAA
1 AA-TAAAA
3044212 AA
1 AA
3044214 AGAGAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AATAAAA
Found at i:3044997 original size:14 final size:15
Alignment explanation
Indices: 3044955--3044997 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
3044945 TGAGTTGATC
*
3044955 TTATTTTACTATTTTT
1 TTATTTTACT-TTTAT
3044971 TTATTTTAC-TTTAT
1 TTATTTTACTTTTAT
3044985 TTA-TTTACTTTTA
1 TTATTTTACTTTTA
3044998 AAGTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 5 0.20
14 11 0.44
16 9 0.36
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTACTTTTAT
Found at i:3045117 original size:25 final size:26
Alignment explanation
Indices: 3045089--3045151 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 26
3045079 TTAATTATCC
3045089 AATGATGAAATTTATA-AAAATTTCA-
1 AATGATGAAATTTATATAAAA-TTCAT
* *
3045114 AATGGT-AAATTTTTATAAAATTCAT
1 AATGATGAAATTTATATAAAATTCAT
3045139 AAGTGA-GAAATTT
1 AA-TGATGAAATTT
3045152 CTCTAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 12 0.39
25 11 0.35
26 8 0.26
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (26 bp):
AATGATGAAATTTATATAAAATTCAT
Found at i:3056098 original size:16 final size:16
Alignment explanation
Indices: 3056079--3056113 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3056069 ACTATGCTTG
3056079 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
*
3056095 AAAATAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
3056111 AAA
1 AAA
3056114 TGAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.91, C:0.00, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAA
Found at i:3056119 original size:16 final size:15
Alignment explanation
Indices: 3056079--3056125 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
3056069 ACTATGCTTG
3056079 AAAAA-AAAAAGAAAA
1 AAAAATAAAAAG-AAA
3056094 AAAAATAAAAAGAAA
1 AAAAATAAAAAGAAA
3056109 AAAAATGAAAAA-AAA
1 AAAAAT-AAAAAGAAA
3056124 AA
1 AA
3056126 TACTCAAGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.89, C:0.00, G:0.06, T:0.04
Consensus pattern (15 bp):
AAAAATAAAAAGAAA
Found at i:3057279 original size:44 final size:44
Alignment explanation
Indices: 3057229--3057396 Score: 170
Period size: 44 Copynumber: 3.9 Consensus size: 44
3057219 TACTTAAAGG
*
3057229 AGCCTTATTTTATTTTTTAAAGTTATTGATCCTCTGTTTAGAGA
1 AGCCTTATTTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGA
* * **
3057273 AGCCTTATTTTATTTTTTAAAATTGTTGAGCCTCTACTTAGATGA
1 AGCCTTATTTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGA-GA
* * * *
3057318 A-CGTTATTTTATTTTTTAAAGATT-TTGAGCCTTTGTTTAAAGG
1 AGCCTTATTTTATTTTTTAAAG-TTATTGAGCCTCTGTTTAGAGA
*
3057361 AG-C--A-TTTATTTTTACAAAGTTA-TGAGCCTCTGTTTA
1 AGCCTTATTTTATTTTT-TAAAGTTATTGAGCCTCTGTTTA
3057397 AAGGAGTTTT
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
40 24 0.23
41 5 0.05
43 2 0.02
44 68 0.65
45 5 0.05
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.48
Consensus pattern (44 bp):
AGCCTTATTTTATTTTTTAAAGTTATTGAGCCTCTGTTTAGAGA
Found at i:3057387 original size:40 final size:40
Alignment explanation
Indices: 3057325--3057402 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
3057315 TGAACGTTAT
* * *
3057325 TTTATTTTTTAAAGATTTTGAGCCTTTGTTTAAAGGAGCA
1 TTTATTTTTCAAAGATTATGAGCCTCTGTTTAAAGGAGCA
3057365 TTTATTTTTACAAAG-TTATGAGCCTCTGTTTAAAGGAG
1 TTTATTTTT-CAAAGATTATGAGCCTCTGTTTAAAGGAG
3057403 TTTTTAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 30 0.88
41 4 0.12
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (40 bp):
TTTATTTTTCAAAGATTATGAGCCTCTGTTTAAAGGAGCA
Found at i:3059826 original size:3 final size:3
Alignment explanation
Indices: 3059818--3059873 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
3059808 GTATAAAACT
3059818 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3059866 TAA TAA TA
1 TAA TAA TA
3059874 TTATTATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3059878 original size:3 final size:3
Alignment explanation
Indices: 3059872--3059911 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
3059862 ATAATAATAA
3059872 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3059912 TTTACAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3070234 original size:52 final size:52
Alignment explanation
Indices: 3070171--3070291 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 52
3070161 TATATTAATA
* **
3070171 TTTTTATTATAAAATATCATATTAATCAATGAT-ATTGGATATTC-ATTAACAT
1 TTTTTATTATAAAATATAATATTAATCAAT-ATCATTGGAT-GCCAATTAACAT
* *
3070223 TTTTTATTATAAAATATAATTTTAATCAATTTCATTGGATGCCAATTAACAT
1 TTTTTATTATAAAATATAATATTAATCAATATCATTGGATGCCAATTAACAT
3070275 TTTCTTATTATAAAATA
1 TTT-TTATTATAAAATA
3070292 ATTTTACTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 2 0.03
52 46 0.75
53 13 0.21
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (52 bp):
TTTTTATTATAAAATATAATATTAATCAATATCATTGGATGCCAATTAACAT
Found at i:3073020 original size:15 final size:14
Alignment explanation
Indices: 3072992--3073024 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3072982 AGAAAAATAA
3072992 ATTAAAATATTTTT
1 ATTAAAATATTTTT
*
3073006 ATTAAAATAATTTT
1 ATTAAAATATTTTT
3073020 -TTAAA
1 ATTAAA
3073025 TGTTCCAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTAAAATATTTTT
Found at i:3073529 original size:82 final size:81
Alignment explanation
Indices: 3073396--3073552 Score: 280
Period size: 82 Copynumber: 1.9 Consensus size: 81
3073386 TCATCGGATA
3073396 AAATTTTTTTTTTCTCATTTTAATTACTTATATTTTTAATATATTAATCAATTTTTATTTATTAT
1 AAATTTTTTTTTTCTCATTTTAATTACTTATATTTTTAATATATTAATCAATTTTTATTTATTAT
3073461 TATTTTATAATAAGAT
66 TATTTTATAATAAGAT
*
3073477 AAATTTTCTTTTCTTCTCATTTTTATTACTTATA-TTTTAATATATTAATCAATTTTTATTTATT
1 AAATTTT-TTTT-TTCTCATTTTAATTACTTATATTTTTAATATATTAATCAATTTTTATTTATT
3073541 ATTATTTTATAA
64 ATTATTTTATAA
3073553 CCAAAAAAGG
Statistics
Matches: 73, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
81 7 0.10
82 46 0.63
83 20 0.27
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (81 bp):
AAATTTTTTTTTTCTCATTTTAATTACTTATATTTTTAATATATTAATCAATTTTTATTTATTAT
TATTTTATAATAAGAT
Found at i:3074894 original size:14 final size:14
Alignment explanation
Indices: 3074856--3074901 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
3074846 TCCTTGATTT
3074856 TTTTTTGTTTTTGT-
1 TTTTTTG-TTTTGTA
*
3074870 TCTATTT-TTTTGTA
1 T-TTTTTGTTTTGTA
3074884 TTTTTTGTTTTGTA
1 TTTTTTGTTTTGTA
3074898 TTTT
1 TTTT
3074902 GTATTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 10 0.37
14 13 0.48
15 4 0.15
ACGTcount: A:0.07, C:0.02, G:0.11, T:0.80
Consensus pattern (14 bp):
TTTTTTGTTTTGTA
Found at i:3074899 original size:24 final size:23
Alignment explanation
Indices: 3074872--3074953 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 23
3074862 GTTTTTGTTC
*
3074872 TATTTTTTTGTATTTTTTGTTTTG
1 TATTTTTTTGTATTTATT-TTTTG
3074896 TA---TTTTGTA-TTATTTTTTG
1 TATTTTTTTGTATTTATTTTTTG
* * * *
3074915 TATTTTTTTATATTTCGTATTTTA
1 TATTTTTTTGTATTT-ATTTTTTG
3074939 TATTTTTTTGTATTT
1 TATTTTTTTGTATTT
3074954 CTTATTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
19 7 0.15
20 4 0.09
21 7 0.15
22 6 0.13
23 2 0.04
24 21 0.45
ACGTcount: A:0.15, C:0.01, G:0.09, T:0.76
Consensus pattern (23 bp):
TATTTTTTTGTATTTATTTTTTG
Found at i:3074904 original size:7 final size:7
Alignment explanation
Indices: 3074877--3074944 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
3074867 TGTTCTATTT
3074877 TTTTGTA
1 TTTTGTA
* *
3074884 TTTTTTG
1 TTTTGTA
3074891 TTTTGTA
1 TTTTGTA
3074898 TTTTGTA
1 TTTTGTA
*
3074905 TTAT-T-
1 TTTTGTA
3074910 TTTTGTA
1 TTTTGTA
*
3074917 TTTTTTTA
1 -TTTTGTA
3074925 TATTTCGTA
1 T-TTT-GTA
*
3074934 TTTTATA
1 TTTTGTA
3074941 TTTT
1 TTTT
3074945 TTTGTATTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.06
6 2 0.04
7 27 0.57
8 12 0.26
9 3 0.06
ACGTcount: A:0.15, C:0.01, G:0.09, T:0.75
Consensus pattern (7 bp):
TTTTGTA
Found at i:3074910 original size:34 final size:33
Alignment explanation
Indices: 3074853--3074962 Score: 106
Period size: 34 Copynumber: 3.3 Consensus size: 33
3074843 CCATCCTTGA
3074853 TTTTTTTTTGT-TTTTGT-TCTATTTTTTTGTAT
1 TTTTTTTTTGTATTTTGTAT-TATTTTTTTGTAT
3074885 TTTTTGTTTTGTATTTTGTATTA-TTTTTTGTATT
1 TTTTT-TTTTGTATTTTGTATTATTTTTTTGTA-T
3074919 TTTTTATATTTCGTA-TTT-TA-TATTTTTTTGTAT
1 TTTTT-T-TTT-GTATTTTGTATTATTTTTTTGTAT
3074952 TTCTTATTTTT
1 TT-TT-TTTTT
3074963 TTCTGGACAA
Statistics
Matches: 68, Mismatches: 1, Indels: 17
0.79 0.01 0.20
Matches are distributed among these distances:
32 5 0.07
33 23 0.34
34 29 0.43
35 8 0.12
36 3 0.04
ACGTcount: A:0.12, C:0.03, G:0.08, T:0.77
Consensus pattern (33 bp):
TTTTTTTTTGTATTTTGTATTATTTTTTTGTAT
Found at i:3074953 original size:43 final size:44
Alignment explanation
Indices: 3074855--3074953 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 44
3074845 ATCCTTGATT
* ** * *
3074855 TTTTTTTGT-TTTTGTTCTATTTTTTTGTATTTTTTGTTTTGTA
1 TTTTTTTGTATTTTGTTCTATTTTTTTATATTTCGTATTTTATA
* *
3074898 TTTTGTAT-TATTTT-TTGTATTTTTTTATATTTCGTATTTTATA
1 TTTT-TTTGTATTTTGTTCTATTTTTTTATATTTCGTATTTTATA
3074941 TTTTTTTGTATTT
1 TTTTTTTGTATTT
3074954 CTTATTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.04
43 37 0.82
44 6 0.13
ACGTcount: A:0.12, C:0.02, G:0.09, T:0.77
Consensus pattern (44 bp):
TTTTTTTGTATTTTGTTCTATTTTTTTATATTTCGTATTTTATA
Found at i:3074954 original size:24 final size:24
Alignment explanation
Indices: 3074910--3074961 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
3074900 TTGTATTATT
*
3074910 TTTTGTATTTTTTTATATTTCGTA
1 TTTTATATTTTTTTATATTTCGTA
* *
3074934 TTTTATATTTTTTTGTATTTCTTA
1 TTTTATATTTTTTTATATTTCGTA
3074958 TTTT
1 TTTT
3074962 TTTCTGGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTATATTTTTTTATATTTCGTA
Found at i:3075234 original size:49 final size:48
Alignment explanation
Indices: 3075143--3076049 Score: 865
Period size: 49 Copynumber: 18.7 Consensus size: 48
3075133 AAAAGACTAA
* * * * * *
3075143 TCTCAGCAGATGCTCAATACCTTTAAAAATTTCATTTTGAAAAGGGTTCC
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAA-GGCTCC
* * **
3075193 TCTCAGCAGAGGCTCTACAACTTTAAAATCTC-TTTTGGAAAA-GCTTT
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-GAAAAGGCTCC
* * * *
3075240 TCTTAACAGAAGCTCAACAACTTTAAAATC-CATCTTGAAAAGAGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAG-GCTCC
*
3075288 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG-AAAAGGCTCC
* * * *
3075337 TCTCAACAGAGGCTCAATAACTTTAAAAAT-TTATCTTGAAAAGGGTTCC
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAA-GGCTCC
* *
3075386 TCTCAGCAAAGGCTCAACAACTTTAAAAAAT-TCATTTTGAAAA-GCTCC
1 TCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTGAAAAGGCTCC
* *
3075434 TCTCAGCAGAGGCTCAATAACTTTAAAATCTCATCTTGAAAAAGGCTCT
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG-AAAAGGCTCC
* *
3075483 TCTCAGCAGAAGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG-AAAAGGCTCC
* * * *
3075532 TCTCAGCAGAGGCTCAACGACTTTAAAAAT-TTATTTTGAAAAGGGCTCA
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAA-GGCTCC
* * **
3075581 TCTCAGCAGAGACTCAACGACTTTAAAAAATCATCTTGAAAAGGACTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGG-CTCC
* ** * *
3075630 TCTCAGCAGAAGCTCAATGACTTTAAAAAT-TCATCTTAAAAATGGCTCT
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAA-GGCTCC
* *
3075679 TCTCAGCAGAGGCTCAACGACTTTAAAAAT-TCATCTTGAAAATGGCTCA
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAA-GGCTCC
* * * *
3075728 TCTTAGCAGAGGCTAAACAACTTTAAAAAAT-TTATCTTGAAAAAGGCTCA
1 TCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTG-AAAAGGCTCC
* * * * ** *
3075778 TCTCAGCAAAGGCTCAATAACTTTAAAATCTTAT-TTTAAAAAACTCT
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGGCTCC
* * * **
3075825 TCTCAACAGAGGCTCAACAACTTTAAAATCTCATCTTAAAAAAAGCTTT
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-GAAAAGGCTCC
* * * * *
3075874 TCTCAACAGAGACTCAACAACTTTAAAAAT-TTATTTTGAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAGGCTCC
* * *
3075922 TCTTAACAGAGGCTCAACAACTTTAAAA-ATCATCTTGAAAA-GCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGGCTCC
* * *
3075968 TCTCGGCAGAGGCTCAACAATTTTAAAAT-TCATCTTGAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGGCTCC
* *
3076015 TCCCAGCAAAGGCTCAACAACTTTAAAATCTCATC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC
3076050 ATTTCTCAAA
Statistics
Matches: 732, Mismatches: 97, Indels: 58
0.83 0.11 0.07
Matches are distributed among these distances:
46 52 0.07
47 119 0.16
48 122 0.17
49 335 0.46
50 100 0.14
51 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (48 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGGCTCC
Found at i:3075399 original size:98 final size:96
Alignment explanation
Indices: 3075143--3076042 Score: 954
Period size: 98 Copynumber: 9.3 Consensus size: 96
3075133 AAAAGACTAA
* * * * * *
3075143 TCTCAGCAGATGCTCAATACCTTTAAAAATTTCATTTTGAAAAGGGTTCCTCTCAGCAGAGGCTC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAA-TTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTC
* * * **
3075208 TACAACTTTAAAATCTC-TTTTGGAAAAGCTTT
65 AACAACTTTAAAAT-TCATCTTGAAAAAGCTCC
* * * * *
3075240 TCTTAACAGAAGCTCAACAACTTT-AAAATCCATCTTGAAAAGAGCTCATCTCAGCAGAGGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCA
3075304 ACAACTTTAAAATCTCATCTTGAAAAAAGCTCC
66 ACAACTTTAAAAT-TCATCTTG-AAAAAGCTCC
* * * * * *
3075337 TCTCAACAGAGGCTCAATAACTTTAAAAATTTATCTTGAAAAGGGTTCCTCTCAGCAAAGGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCA
*
3075402 ACAACTTTAAAAAATTCATTTTG-AAAAGCTCC
66 ACAACTTT--AAAATTCATCTTGAAAAAGCTCC
* * * *
3075434 TCTCAGCAGAGGCTCAATAACTTT-AAAATCTCATCTTGAAAAAGGCTCTTCTCAGCAGAAGCTC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTC
3075498 AACAACTTTAAAAATTCATCTTGAAAAAAGCTCC
65 AACAACTTT-AAAATTCATCTTG-AAAAAGCTCC
* * * *
3075532 TCTCAGCAGAGGCTCAACGACTTTAAAAATTTATTTTGAAAAGGGCTCATCTCAGCAGAGACTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCA
* * *
3075597 ACGACTTTAAAAAATCATCTTGAAAAGGACTCC
66 ACAACTTT-AAAATTCATCTTGAAAAAG-CTCC
* ** * * *
3075630 TCTCAGCAGAAGCTCAATGACTTTAAAAATTCATCTTAAAAATGGCTCTTCTCAGCAGAGGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCA
* * *
3075695 ACGACTTTAAAAATTCATCTTGAAAATGGCTCA
66 ACAACTTT-AAAATTCATCTTGAAAA-AGCTCC
* * * * *
3075728 TCTTAGCAGAGGCTAAACAACTTTAAAAAATTTATCTTGAAAAAGGCTCATCTCAGCAAAGGCTC
1 TCTCAGCAGAGGCTCAACAACTTT-AAAAATTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTC
* * * * *
3075793 AATAACTTTAAAATCTTAT-TTTAAAAAACTCT
65 AACAACTTTAAAAT-TCATCTTGAAAAAGCTCC
* * ** ** * *
3075825 TCTCAACAGAGGCTCAACAACTTT-AAAATCTCATCTTAAAAAAAGCTTTTCTCAACAGAGACTC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTC
* *
3075889 AACAACTTTAAAAATTTATTTTGAAAAAGCTCC
65 AACAACTTT-AAAATTCATCTTGAAAAAGCTCC
* * * *
3075922 TCTTAACAGAGGCTCAACAACTTTAAAAA-TCATCTTGAAAA--GCTCCTCTCGGCAGAGGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCA
*
3075984 ACAATTTTAAAATTCATCTTGAAAAAGCTCC
66 ACAACTTTAAAATTCATCTTGAAAAAGCTCC
* *
3076015 TCCCAGCAAAGGCTCAACAACTTTAAAA
1 TCTCAGCAGAGGCTCAACAACTTTAAAA
3076043 TCTCATCATT
Statistics
Matches: 686, Mismatches: 100, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
93 45 0.07
94 23 0.03
95 51 0.07
96 75 0.11
97 183 0.27
98 245 0.36
99 59 0.09
100 5 0.01
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (96 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCA
ACAACTTTAAAATTCATCTTGAAAAAGCTCC
Found at i:3075456 original size:146 final size:144
Alignment explanation
Indices: 3075133--3076049 Score: 926
Period size: 146 Copynumber: 6.3 Consensus size: 144
3075123 TAAAATCTGA
* * * * * * * *
3075133 AAAAGACTAATCTCAGCAGATGCTCAATACCTTTAAAAATTTCATTTTGAAAAGGGTTCCTCTCA
1 AAAAG-CTCATCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGGCTCCTCTCA
* * ** * * *
3075198 GCAGAGGCTCTACAACTTT-AAAATCTC-TTTTGGAAAA-GCTTTTCTTAACAGAAGCTCAACAA
64 GCAGAGGCTCAACAACTTTAAAAAT-TCATCTT-GAAAAGGCTCCTCTCAGCAGAGGCTCAACAA
*
3075260 CTTT-AAAATCCATCTTG
127 CTTTAAAAATTCATCTTG
*
3075277 AAAAGAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAAGCTCCTCTCA
1 -AAA-AGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCA
* * * * *
3075342 ACAGAGGCTCAATAACTTTAAAAATTTATCTTGAAAAGGGTTCCTCTCAGCAAAGGCTCAACAAC
64 GCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAA-GGCTCCTCTCAGCAGAGGCTCAACAAC
*
3075407 TTTAAAAAATTCATTTTG
128 TTT-AAAAATTCATCTTG
* * *
3075425 AAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAATCTCATCTTGAAAAAGGCTCTTCTCAGC
1 AAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGC
* * *
3075490 AGAAGCTCAACAACTTTAAAAATTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACGACTT
66 AGAGGCTCAACAACTTTAAAAATTCATCTTG-AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTT
* *
3075555 TAAAAATTTATTTTG
130 TAAAAATTCATCTTG
* * **
3075570 AAAAGGGCTCATCTCAGCAGAGACTCAACGACTTTAAAAAATCATCTTG-AAAAGGACTCCTCTC
1 AAAA--GCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGG-CTCCTCTC
* ** * * *
3075634 AGCAGAAGCTCAATGACTTTAAAAATTCATCTTAAAAATGGCTCTTCTCAGCAGAGGCTCAACGA
63 AGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAA-GGCTCCTCTCAGCAGAGGCTCAACAA
3075699 CTTTAAAAATTCATCTTG
127 CTTTAAAAATTCATCTTG
* * * *
3075717 AAAATGGCTCATCTTAGCAGAGGCTAAACAACTTTAAAAAAT-TTATCTTGAAAAAGGCTCATCT
1 AAAA--GCTCATCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTGAAAAAGGCTCCTCT
* * * * ** * *
3075781 CAGCAAAGGCTCAATAACTTT-AAAATCTTAT-TTTAAAAAACTCTTCTCAACAGAGGCTCAACA
62 CAGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAACA
*
3075844 ACTTT-AAAATCTCATCTTAAA
126 ACTTTAAAAAT-TCATCTT--G
** * * * * * *
3075865 AAAAGCTTTTCTCAACAGAGACTCAACAACTTTAAAAAT-TTATTTTGAAAAA-GCTCCTCTTAA
1 AAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGGCTCCTCTCAG
*
3075928 CAGAGGCTCAACAACTTTAAAAA-TCATCTTGAAAA-GCTCCTCTCGGCAGAGGCTCAACAA-TT
65 CAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTT
*
3075990 TTAAAATTCATCTTG
130 TAAAAATTCATCTTG
* * *
3076005 AAAAAGCTCCTCCCAGCAAAGGCTCAACAACTTTAAAATCTCATC
1 -AAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC
3076050 ATTTCTCAAA
Statistics
Matches: 653, Mismatches: 95, Indels: 52
0.82 0.12 0.06
Matches are distributed among these distances:
140 5 0.01
141 30 0.05
142 10 0.02
143 29 0.04
144 77 0.12
145 79 0.12
146 201 0.31
147 163 0.25
148 49 0.08
149 10 0.02
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (144 bp):
AAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAGC
AGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT
AAAAATTCATCTTG
Found at i:3082816 original size:25 final size:26
Alignment explanation
Indices: 3082757--3082821 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
3082747 ATTTTTATCC
* *
3082757 TGTATTATTAT-TATTTTTTTCCTTT
1 TGTATTATTATGTATTTTATTCATTT
3082782 TGTATT-TTATGTATTTTATT-ATTT
1 TGTATTATTATGTATTTTATTCATTT
3082806 AT-TATTATTATGTATT
1 -TGTATTATTATGTATT
3082822 AATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 11 0.31
25 24 0.69
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (26 bp):
TGTATTATTATGTATTTTATTCATTT
Found at i:3082822 original size:10 final size:9
Alignment explanation
Indices: 3082782--3082821 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
3082772 TTTTTCCTTT
3082782 TGTATTTTA
1 TGTATTTTA
3082791 TGTATTTTA
1 TGTATTTTA
3082800 T-TA-TTTA
1 TGTATTTTA
3082807 T-TATTATTA
1 TGTATT-TTA
3082816 TGTATT
1 TGTATT
3082822 AATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.25
8 3 0.11
9 14 0.50
10 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (9 bp):
TGTATTTTA
Found at i:3082896 original size:21 final size:17
Alignment explanation
Indices: 3082862--3082924 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 17
3082852 ATTTAGAATA
*
3082862 TATTTATAT-GTAT-TT
1 TATTTATATATTATATT
3082877 TATTTATATAGTTCTATATT
1 TATTTATATA--T-TATATT
3082897 TA-TTATATATTATAATT
1 TATTTATATATTAT-ATT
3082914 TATTTAT-TATT
1 TATTTATATATT
3082925 TCTCTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
15 9 0.22
16 3 0.08
17 10 0.25
18 4 0.10
19 10 0.25
20 4 0.10
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (17 bp):
TATTTATATATTATATT
Found at i:3082914 original size:17 final size:19
Alignment explanation
Indices: 3082875--3082917 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
3082865 TTATATGTAT
*
3082875 TTTATTTATATAGTTCTATA
1 TTTA-TTATATAGTTATATA
3082895 TTTATTATATA-TTATA-A
1 TTTATTATATAGTTATATA
3082912 TTTATT
1 TTTATT
3082918 TATTATTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 7 0.32
20 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATTATATAGTTATATA
Found at i:3082921 original size:25 final size:25
Alignment explanation
Indices: 3082787--3082921 Score: 66
Period size: 25 Copynumber: 5.4 Consensus size: 25
3082777 CCTTTTGTAT
* * *
3082787 TTTATGTATTTTATTATTTATTATTA
1 TTTATTTA-TTTATTATATATTATAA
* * *
3082813 -TTATGTATTAATATATATATCTGT-A
1 TTTATTTATTTAT-TATATAT-TATAA
*
3082838 TTTATTTATTT-TT-TAT-TTAGAA
1 TTTATTTATTTATTATATATTATAA
* *
3082860 TATATTTATATGTATTTTAT-TTATATA
1 TTTATTTAT-T-TATTATATATTATA-A
* * *
3082887 GTTCTATATTTATTATATATTATAA
1 TTTATTTATTTATTATATATTATAA
3082912 TTTATTTATT
1 TTTATTTATT
3082922 ATTTCTCTTA
Statistics
Matches: 82, Mismatches: 17, Indels: 21
0.68 0.14 0.17
Matches are distributed among these distances:
21 1 0.01
22 10 0.12
23 4 0.05
24 6 0.07
25 32 0.39
26 23 0.28
27 6 0.07
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTATTTATTTATTATATATTATAA
Found at i:3082934 original size:37 final size:37
Alignment explanation
Indices: 3082875--3082981 Score: 89
Period size: 35 Copynumber: 2.9 Consensus size: 37
3082865 TTATATGTAT
* *
3082875 TTTATTTATATAGTTCT-ATATTTATTATATATTATAA
1 TTTATTTAT-TATTTCTCTTATTTATTATATATTATAA
* *
3082912 TTTATTTATTATTTCTCTTATTT-TT-TATTTTTTAA
1 TTTATTTATTATTTCTCTTATTTATTATATATTATAA
* *
3082947 TATT-TTT-TTGATTTATCTTATTGTATTATCTATTA
1 T-TTATTTATT-ATTTCTCTTATT-TATTATATATTA
3082982 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
34 2 0.04
35 23 0.41
36 11 0.20
37 16 0.29
38 4 0.07
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (37 bp):
TTTATTTATTATTTCTCTTATTTATTATATATTATAA
Found at i:3083934 original size:10 final size:10
Alignment explanation
Indices: 3083912--3084035 Score: 53
Period size: 10 Copynumber: 12.3 Consensus size: 10
3083902 TTTTAATTTG
3083912 TTTTATTTA-
1 TTTTATTTAT
3083921 -TTTATTTAT
1 TTTTATTTAT
3083930 TTTTATTTAT
1 TTTTATTTAT
*
3083940 TAGATTAGATTTAT
1 T---TT-TATTTAT
*
3083954 TTGATATTT-T
1 TT-TTATTTAT
* *
3083964 TCTATCTTTAT
1 T-TTTATTTAT
*
3083975 CTTTATCTTAT
1 TTTTAT-TTAT
3083986 TTTTA-TT-T
1 TTTTATTTAT
* *
3083994 TTGT-TTTAC
1 TTTTATTTAT
*
3084003 TTTTCTTTAT
1 TTTTATTTAT
*
3084013 TTTTTTTTAT
1 TTTTATTTAT
*
3084023 CTTTATTTAT
1 TTTTATTTAT
3084033 TTT
1 TTT
3084036 CACTTGTATT
Statistics
Matches: 86, Mismatches: 16, Indels: 25
0.68 0.13 0.20
Matches are distributed among these distances:
8 14 0.16
9 5 0.06
10 43 0.50
11 15 0.17
13 2 0.02
14 7 0.08
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:3084020 original size:20 final size:21
Alignment explanation
Indices: 3083976--3084035 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
3083966 TATCTTTATC
*
3083976 TTTATCTTATTTTTATTTTTGT
1 TTTATCTT-TATTTATTTTTGT
*
3083998 TTTA-CTTTTCTTTATTTTT-T
1 TTTATC-TTTATTTATTTTTGT
3084018 TTTATCTTTATTTATTTT
1 TTTATCTTTATTTATTTT
3084036 CACTTGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 16 0.47
21 12 0.35
22 6 0.18
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTATCTTTATTTATTTTTGT
Found at i:3084025 original size:16 final size:16
Alignment explanation
Indices: 3083970--3084035 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
3083960 TTTTTCTATC
*
3083970 TTTATCTTTATCTTATT
1 TTTATCTTTAT-TTTTT
* * **
3083987 TTTATTTTTGTTTTAC
1 TTTATCTTTATTTTTT
3084003 TTT-TCTTTATTTTTT
1 TTTATCTTTATTTTTT
3084018 TTTATCTTTATTTATTT
1 TTTATCTTTATTT-TTT
3084035 T
1 T
3084036 CACTTGTATT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
15 11 0.29
16 14 0.37
17 13 0.34
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTATCTTTATTTTTT
Found at i:3084226 original size:60 final size:58
Alignment explanation
Indices: 3084072--3084524 Score: 614
Period size: 60 Copynumber: 7.7 Consensus size: 58
3084062 AAATAAAAAT
3084072 CAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAAGTTT-
1 CAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA-TTTC
*
3084130 CAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCCTGAAAATCAAAATTTC
1 CAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
* *
3084189 CAAAAAATATTTTTTGAGGAAAAGTTGAAAGTGTCAATTTTCCTTGAAAATTAAAATTTC
1 CAAAAAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
* *
3084249 CAAAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTT-
1 CAAAA-AATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
*
3084307 CAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 CAAAAAATA--TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
* *
3084368 TAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
1 -CAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
*
3084428 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAA-AATAAATTTC
1 CAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCA-AAATTTC
* * *
3084486 TAAAAAATA-TTTTGGAGAAAAATTAAAAGTATCAATTTT
1 CAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
3084525 TTCTGCACAA
Statistics
Matches: 362, Mismatches: 18, Indels: 31
0.88 0.04 0.08
Matches are distributed among these distances:
56 2 0.01
57 29 0.08
58 76 0.21
59 101 0.28
60 140 0.39
61 7 0.02
62 7 0.02
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
CAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
Found at i:3084345 original size:119 final size:118
Alignment explanation
Indices: 3084072--3084524 Score: 661
Period size: 119 Copynumber: 3.8 Consensus size: 118
3084062 AAATAAAAAT
3084072 CAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAAGTTT-CAAA
1 CAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAA-TTTCCAAA
* *
3084134 AAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCCTGAAAATCAAAATTTC
64 AAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
*
3084189 CAAAAAATATTTTTTGAGGAAAAGTTGAAAGTGTCAATTTTCCTTGAAAATTAAAATTTCCAAAA
1 CAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAATTTCCAAAA
*
3084254 GAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTT-
65 -AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
* * *
3084307 CAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCTAAA
1 CAAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAATTTC-CAA
*
3084372 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
63 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
* * * *
3084428 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAT-AAATTTCTAAAAA
1 CAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAATTTCCAAAAA
*
3084492 ATA-TTTTGGAGAAAAA-TTAAAAGTATCAATTTT
66 ATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTT
3084525 TTCTGCACAA
Statistics
Matches: 307, Mismatches: 19, Indels: 21
0.88 0.05 0.06
Matches are distributed among these distances:
116 22 0.07
117 22 0.07
118 54 0.18
119 148 0.48
120 53 0.17
121 8 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (118 bp):
CAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATTAAAATTTCCAAAAA
ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
Found at i:3090239 original size:13 final size:14
Alignment explanation
Indices: 3090223--3090255 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3090213 TAATTTCGAA
3090223 ATTTTTATT-TTTT
1 ATTTTTATTATTTT
3090236 ATTTTTATTATTTT
1 ATTTTTATTATTTT
*
3090250 CTTTTT
1 ATTTTT
3090256 TTGTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (14 bp):
ATTTTTATTATTTT
Found at i:3091278 original size:18 final size:18
Alignment explanation
Indices: 3091255--3091301 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
3091245 CTCAACTACC
*
3091255 TATTTTCTCTTT-TTTATT
1 TATTTTCTATTTATTT-TT
*
3091273 TATTTTTTATTTATTTTT
1 TATTTTCTATTTATTTTT
*
3091291 TATTTTTTATT
1 TATTTTCTATT
3091302 ACAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (18 bp):
TATTTTCTATTTATTTTT
Found at i:3091280 original size:11 final size:11
Alignment explanation
Indices: 3091264--3091295 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
3091254 CTATTTTCTC
3091264 TTTTTTATTTA
1 TTTTTTATTTA
3091275 TTTTTTATTTA
1 TTTTTTATTTA
3091286 TTTTTTATTT
1 TTTTTTATTT
3091296 TTTATTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:3091281 original size:7 final size:7
Alignment explanation
Indices: 3091264--3091301 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
3091254 CTATTTTCTC
3091264 TTTTTTA
1 TTTTTTA
3091271 TTTATTT-
1 TTT-TTTA
3091278 TTTATTTA
1 TTT-TTTA
3091286 TTTTTTA
1 TTTTTTA
3091293 TTTTTTA
1 TTTTTTA
3091300 TT
1 TT
3091302 ACAAAATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:3095460 original size:313 final size:310
Alignment explanation
Indices: 3094925--3095514 Score: 798
Period size: 313 Copynumber: 1.9 Consensus size: 310
3094915 TTTTTTAAAA
* * * * *
3094925 TTTTCTTGAGAGTTTGGTTTTTTTAATAGATAAATTTTGAGAAAATTAAGTTAATGGAATTATCC
1 TTTTCTTAAGAGTTTGGTTTTTTTAATAGATAAATTTTAAGAAAATGAAATTAATGGAAGTATCC
* ** *
3094990 ACATGTCACCCTAGTTTTTTTTTTTATCTTTCTTTTTTTTTTTTAATTTGATAAATTTTACAAAA
66 ACATGTCACCCTAATTTTTTTTTTTATCTTTCTTCATTTTTTTTAATTTGATAAAATTTAC-AAA
* **
3095055 AAAAATAATTAATAATAATAACAAAATAAAAAAATTTTGACCTGCAATAATGCGTGGATATTCAT
130 AAAAATAATTAATAAAAATAACAAAATAAAAAAATTTTGACCT-CAATAATGCGCAGATATTCAT
**
3095120 CTAGTTATATATAAAAGAGAGAAATATATATTATCTTATTTTTTAGTAACAATATTATTATCAAA
194 CTAGTTATATATAAAAGAGAGAAATATATATTATCTTA-TTTTTAACAACAATATTATTATCAAA
*
3095185 AATGATTTTCAAATTCATTTTTTTTTTTTTTCATTTTTCCCCTTTTCATTTTT
258 AATGATTTTCAAAGTCATTTTTTTTTTTTTTCATTTTTCCCCTTTTCATTTTT
* *
3095238 TTTTCTTAAGAGTTTGGTTTTTTTATTAGATAAATTCTATAAGCAAATGAAATTAATGGAAGTAT
1 TTTTCTTAAGAGTTTGGTTTTTTTAATAGATAAATT-T-TAAGAAAATGAAATTAATGGAAGTAT
*
3095303 GCACATGTCACCCTAATTTGTTTTTTTT-T-TTTACCTCTCATTTTTTTT-ATTTGA-AATAATT
64 CCACATGTCACCCTAATTT-TTTTTTTTATCTTT--CT-TCATTTTTTTTAATTTGATAA-AATT
* * *
3095364 TAC-AAAAAAATGATTAATAAAAATAATAAAAT-AAAAAATTTTG-GCTCATAATAATGCGCAGA
124 TACAAAAAAAATAATTAATAAAAATAACAAAATAAAAAAATTTTGACCTC--AATAATGCGCAGA
* * *
3095426 TATTCATCTAGTTATATATAAAGGAGATAAATATATATTATTTTATTTTTAACAACAATATTATT
187 TATTCATCTAGTTATATATAAAAGAGAGAAATATATATTATCTTATTTTTAACAACAATATTATT
*
3095491 ATCAACAATGATTTTCAAAGTCAT
252 ATCAAAAATGATTTTCAAAGTCAT
3095515 ATTAAATTTT
Statistics
Matches: 243, Mismatches: 25, Indels: 19
0.85 0.09 0.07
Matches are distributed among these distances:
311 1 0.00
312 42 0.17
313 98 0.40
314 30 0.12
315 41 0.17
316 22 0.09
317 9 0.04
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (310 bp):
TTTTCTTAAGAGTTTGGTTTTTTTAATAGATAAATTTTAAGAAAATGAAATTAATGGAAGTATCC
ACATGTCACCCTAATTTTTTTTTTTATCTTTCTTCATTTTTTTTAATTTGATAAAATTTACAAAA
AAAATAATTAATAAAAATAACAAAATAAAAAAATTTTGACCTCAATAATGCGCAGATATTCATCT
AGTTATATATAAAAGAGAGAAATATATATTATCTTATTTTTAACAACAATATTATTATCAAAAAT
GATTTTCAAAGTCATTTTTTTTTTTTTTCATTTTTCCCCTTTTCATTTTT
Found at i:3097867 original size:16 final size:16
Alignment explanation
Indices: 3097846--3097883 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3097836 TTAATAAAAT
*
3097846 AATATTTTTATTAATA
1 AATATTTATATTAATA
3097862 AATA-TTATATTAATA
1 AATATTTATATTAATA
3097877 ATATATT
1 A-ATATT
3097884 AACAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 11 0.58
16 7 0.37
17 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATTTATATTAATA
Found at i:3097872 original size:15 final size:15
Alignment explanation
Indices: 3097854--3098005 Score: 72
Period size: 15 Copynumber: 10.1 Consensus size: 15
3097844 ATAATATTTT
3097854 TATTAATAAATATTA
1 TATTAATAAATATTA
3097869 TATTAATAATATATTA
1 TATTAATAA-ATATTA
** *
3097885 -ACAAATAATATTTTA
1 TATTAATAA-ATATTA
*
3097900 GATTAATAACATA--A
1 TATTAATAA-ATATTA
3097914 TATTAATATAATA-TA
1 TATTAATA-AATATTA
* *
3097929 GTAATAA-ATAATATAA
1 -TATTAATA-AATATTA
3097945 TATATAATAAATA--A
1 TAT-TAATAAATATTA
3097959 -A-TAATAATATATTA
1 TATTAATAA-ATATTA
*
3097973 -ATAAATAAGTAATATTA
1 TATTAAT-A--AATATTA
3097990 TATTAATAAATATTA
1 TATTAATAAATATTA
3098005 T
1 T
3098006 TAATAACAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 32
0.71 0.08 0.21
Matches are distributed among these distances:
11 6 0.06
12 3 0.03
13 1 0.01
14 14 0.13
15 42 0.39
16 28 0.26
17 8 0.07
18 6 0.06
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTAATAAATATTA
Found at i:3097881 original size:11 final size:11
Alignment explanation
Indices: 3097862--3098010 Score: 71
Period size: 11 Copynumber: 13.6 Consensus size: 11
3097852 TTTATTAATA
*
3097862 AATATTATATT
1 AATAATATATT
3097873 AATAATATATT
1 AATAATATATT
* *
3097884 AACAA-ATAAT
1 AATAATATATT
** *
3097894 -ATTTTAGATT
1 AATAATATATT
3097904 AATAACATAATATT
1 AAT-A-AT-ATATT
*
3097918 AATATAATATAGT
1 -A-ATAATATATT
*
3097931 AATAA-ATAAT
1 AATAATATATT
3097941 -ATAATATA-T
1 AATAATATATT
*
3097950 AATAA-ATAAAT
1 AATAATAT-ATT
3097961 AATAATATATT
1 AATAATATATT
*
3097972 AATAA-ATAAGT
1 AATAATAT-ATT
*
3097983 AATATTATATT
1 AATAATATATT
3097994 AATAA-ATATT
1 AATAATATATT
*
3098004 ATTAATA
1 AATAATA
3098011 ACAAATGAAG
Statistics
Matches: 104, Mismatches: 19, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
9 8 0.08
10 30 0.29
11 46 0.44
12 5 0.05
13 5 0.05
14 6 0.06
15 2 0.02
16 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (11 bp):
AATAATATATT
Found at i:3097922 original size:27 final size:25
Alignment explanation
Indices: 3097889--3097964 Score: 68
Period size: 27 Copynumber: 3.0 Consensus size: 25
3097879 ATATTAACAA
** *
3097889 ATAATATTTTAGATTAATAACATAAT
1 ATAATATAATAGAGTAATAA-ATAAT
*
3097915 ATTAATATAATATAGTAATAAATAAT
1 A-TAATATAATAGAGTAATAAATAAT
3097941 ATAATAT-ATA-A-TAAATAAATAAT
1 ATAATATAATAGAGT-AATAAATAAT
3097964 A
1 A
3097965 ATATATTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 1 0.02
23 12 0.27
24 3 0.07
25 6 0.14
26 7 0.16
27 15 0.34
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (25 bp):
ATAATATAATAGAGTAATAAATAAT
Found at i:3097949 original size:22 final size:22
Alignment explanation
Indices: 3097832--3098010 Score: 117
Period size: 22 Copynumber: 8.0 Consensus size: 22
3097822 TTACAATTAT
3097832 TATATTAATAAAATAATAT--T-
1 TATATTAAT-AAATAATATAATA
*
3097852 TTTATTAATAAATATTATATTAATAA
1 TATATTAATAAATA--ATA-TAAT-A
* *
3097878 TATATTAACAAATAATAT--TT
1 TATATTAATAAATAATATAATA
*
3097898 TAGATTAATAACATAATATTAATA
1 TATATTAATAA-ATAATA-TAATA
3097922 TAATATAGTAATAAATAATAT-A-A
1 T-ATAT--TAATAAATAATATAATA
3097945 TATA-TAATAAATAA-ATAATAA
1 TATATTAATAAATAATATAAT-A
*
3097966 TATATTAATAAATAA-GTAATA
1 TATATTAATAAATAATATAATA
*
3097987 TTATATTAATAAATATTATTAATA
1 -TATATTAATAAATAATA-TAATA
3098011 ACAAATGAAG
Statistics
Matches: 127, Mismatches: 11, Indels: 38
0.72 0.06 0.22
Matches are distributed among these distances:
18 2 0.02
19 16 0.13
20 17 0.13
21 16 0.13
22 33 0.26
23 3 0.02
24 12 0.09
25 4 0.03
26 18 0.14
27 6 0.05
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (22 bp):
TATATTAATAAATAATATAATA
Found at i:3097964 original size:26 final size:26
Alignment explanation
Indices: 3097903--3097969 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
3097893 TATTTTAGAT
* *
3097903 TAATAACATAATATTAATATAATATAG
1 TAATAA-ATAATATAAATATAATATAA
3097930 TAATAAATAATATAATATATAATA-AA
1 TAATAAATAATATAA-ATATAATATAA
3097956 TAA-ATAATAATATA
1 TAATA-AATAATATA
3097970 TTAATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 1 0.03
26 21 0.58
27 14 0.39
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (26 bp):
TAATAAATAATATAAATATAATATAA
Found at i:3103217 original size:274 final size:274
Alignment explanation
Indices: 3102336--3103438 Score: 1573
Period size: 274 Copynumber: 4.0 Consensus size: 274
3102326 AAATACATAC
** * * **
3102336 CCATATATACATATTCATTATACCTATATAAATACTCTCAATCTCCTCTAGTCTACTCCCATGCA
1 CCATATATACCCATTCATCATACCTATATGAACCCTCTCAATCTCCTCTAGTCTACTCCCATGCA
** ** * * * **
3102401 -TCATACCTATGTAAACATTCTCAGTCTAC-TCTAGTCCACTCAAACATACACACTAATAAAGAT
66 CT-ATGTCTATGCGAACTTTCTCAGTCT-CTTTTAGTTCACTCAAACATACACACCCATAAAGAT
* * * * * * * *
3102464 GTTAAATCCCCAATAGTACTATGGGTGTCTATTCCATAAAACCCTATAATTCTTTTATATCTTTT
129 GTTAAATCCCCCATAGTACTATAGGTGTCTATCCCATAGAACCATATAACTCTCTTATATCTTCT
* * * * *
3102529 TCTCATAGCTAACCCTATAAATATTTCACTTATTTATGAGCATATAAACTTACCTATTAAAAATT
194 TCTCATACCTAACCCTATAAAGACTTCACCTATTTATGAGCATATAAACTTACCTATTAAAAATC
3102594 CATTTCCTCTTGGAAT
259 CATTTCCTCTTGGAAT
* * *
3102610 CCATATATACCCATTCATCATACCTATGTGAACCCTCTCAATCTCCTCTAGTCTATTCCCATACA
1 CCATATATACCCATTCATCATACCTATATGAACCCTCTCAATCTCCTCTAGTCTACTCCCATGCA
* *
3102675 CTGTGTCTATGCGAACTTTCTCAGTCTCTTTTAGTTCACTCAAACATGCACACCCATAAAGATGT
66 CTATGTCTATGCGAACTTTCTCAGTCTCTTTTAGTTCACTCAAACATACACACCCATAAAGATGT
3102740 T-AATCCCCCATAGTACTATAGGTGTCTATCTCATAGAACCATAGAACCATATAACTCTCTTATA
131 TAAATCCCCCATAGTACTATAGGTGTCTA--TC------CCATAGAACCATATAACTCTCTTATA
* * * * *
3102804 TCCTCTTCTCATACATAACCCTATAAAAACTTCACTTATTTATGAGCATATAAACTTGCCTATTA
188 TCTTCTTCTCATACCTAACCCTATAAAGACTTCACCTATTTATGAGCATATAAACTTACCTATTA
*
3102869 AAAATTCATTTCCTCTTGGAAT
253 AAAATCCATTTCCTCTTGGAAT
* * *
3102891 CCATATATACCCATTCATCATACCTATGTGAACCCTCTCAATCTCTTCTAGTCTACTCTCATGCA
1 CCATATATACCCATTCATCATACCTATATGAACCCTCTCAATCTCCTCTAGTCTACTCCCATGCA
* *
3102956 CAATGTCTATGCGAACTTTCTCAATCTCTTTTAGTTCACTCAAACATACACACCCATAAAGATGT
66 CTATGTCTATGCGAACTTTCTCAGTCTCTTTTAGTTCACTCAAACATACACACCCATAAAGATGT
* *
3103021 TAAATCTCCCATAGTACTATAGGTGTCTATCCCATAGAACCATATAACTCTCTTATATCTTTTTC
131 TAAATCCCCCATAGTACTATAGGTGTCTATCCCATAGAACCATATAACTCTCTTATATCTTCTTC
*
3103086 TCATACCTAACCCTATAAAGACTTCACCTATTTATGAGCATATAGACTTACCTATTAAAAATCCA
196 TCATACCTAACCCTATAAAGACTTCACCTATTTATGAGCATATAAACTTACCTATTAAAAATCCA
3103151 TTTCCTCTTGGAAT
261 TTTCCTCTTGGAAT
*
3103165 CCATATATACCCATTCATCATACCTATATGAACCCTCTTAATCTCCTCTAGTCTACTCCCATGCA
1 CCATATATACCCATTCATCATACCTATATGAACCCTCTCAATCTCCTCTAGTCTACTCCCATGCA
* *
3103230 CTGTGTCTATGCGAATTTTCTCAGTCTCTTTTAGTTCACTCAAACATACACACCCATAAAGATGT
66 CTATGTCTATGCGAACTTTCTCAGTCTCTTTTAGTTCACTCAAACATACACACCCATAAAGATGT
*
3103295 TAAATCCCCCATAGTACTATAGGTGTCTATCCCATAGAACCATATAACTCTCTTATATATTCTTC
131 TAAATCCCCCATAGTACTATAGGTGTCTATCCCATAGAACCATATAACTCTCTTATATCTTCTTC
* ** * *
3103360 TCATACCTAACCCTATAAGGACTTCACCTATTTATGAGCATGCAAACTTACCTATTAAGAATCTA
196 TCATACCTAACCCTATAAAGACTTCACCTATTTATGAGCATATAAACTTACCTATTAAAAATCCA
* *
3103425 TTTTCTCTTAGAAT
261 TTTCCTCTTGGAAT
3103439 TCTTCTGCAA
Statistics
Matches: 748, Mismatches: 70, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
273 26 0.03
274 467 0.62
275 2 0.00
280 2 0.00
281 225 0.30
282 26 0.03
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (274 bp):
CCATATATACCCATTCATCATACCTATATGAACCCTCTCAATCTCCTCTAGTCTACTCCCATGCA
CTATGTCTATGCGAACTTTCTCAGTCTCTTTTAGTTCACTCAAACATACACACCCATAAAGATGT
TAAATCCCCCATAGTACTATAGGTGTCTATCCCATAGAACCATATAACTCTCTTATATCTTCTTC
TCATACCTAACCCTATAAAGACTTCACCTATTTATGAGCATATAAACTTACCTATTAAAAATCCA
TTTCCTCTTGGAAT
Found at i:3107134 original size:26 final size:27
Alignment explanation
Indices: 3107074--3107140 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
3107064 CTTTTCTCTC
*
3107074 TTTTATATTTTTAGATAGGTAATAACT
1 TTTTATATTTTTAAATAGGTAATAACT
3107101 TTTCTATATTTATTAAATA-GTAA-AA-T
1 TTT-TATATTT-TTAAATAGGTAATAACT
3107127 TATTTATAATTTTT
1 T-TTTAT-ATTTTT
3107141 TGGTACAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
26 7 0.20
27 11 0.31
28 11 0.31
29 6 0.17
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (27 bp):
TTTTATATTTTTAAATAGGTAATAACT
Found at i:3108871 original size:33 final size:32
Alignment explanation
Indices: 3108829--3108915 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
3108819 AAAAAAAATA
* * *
3108829 ATTTTTTATAATGGAATAAAGTTCATTTGTTTT
1 ATTTTTTATAATGG-ATAAAATCCATTTGCTTT
3108862 ATTTTTTATAATGGATAAAATCCATTTGCTTT
1 ATTTTTTATAATGGATAAAATCCATTTGCTTT
** *
3108894 ATTACTTATAATAAGATAAAAT
1 ATTTTTTATAAT-GGATAAAAT
3108916 TTAATTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 25 0.53
33 22 0.47
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (32 bp):
ATTTTTTATAATGGATAAAATCCATTTGCTTT
Found at i:3110044 original size:29 final size:31
Alignment explanation
Indices: 3109976--3110045 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
3109966 GATAGGTAAA
*
3109976 GTGACATTATCATATTAATATTAGATTTTAT
1 GTGACATTATCATATTAATATTAGATTATAT
* *
3110007 GTGATATTATTATATT-AT-TTA-ATATATAT
1 GTGACATTATCATATTAATATTAGAT-TATAT
3110036 GTGACATTAT
1 GTGACATTAT
3110046 GCTATAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 16 0.47
30 2 0.06
31 14 0.41
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (31 bp):
GTGACATTATCATATTAATATTAGATTATAT
Found at i:3119528 original size:20 final size:21
Alignment explanation
Indices: 3119503--3119542 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
3119493 AATATTTAAA
3119503 ATTATTAAAATT-AAATTTTG
1 ATTATTAAAATTAAAATTTTG
3119523 ATTATTAAAATTAAAATTTT
1 ATTATTAAAATTAAAATTTT
3119543 AATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTATTAAAATTAAAATTTTG
Found at i:3119548 original size:20 final size:20
Alignment explanation
Indices: 3119505--3119548 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3119495 TATTTAAAAT
*
3119505 TATTAAAATTAAATTTTGAT
1 TATTAAAATTAAATTTTGAA
3119525 TATTAAAATTAAAATTTT-AA
1 TATTAAAATT-AAATTTTGAA
3119545 TATT
1 TATT
3119549 TATTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTAAAATTAAATTTTGAA
Found at i:3120396 original size:34 final size:32
Alignment explanation
Indices: 3120334--3120397 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 32
3120324 AATTTTAAGA
* *
3120334 CAAAAAAAAAAGTTTCCACTTTTCTTTTTTTT
1 CAAAAAAAAAAGTTTCAACTTATCTTTTTTTT
3120366 CAAAAAAAAGAAGGTTTCAACATTAT-TTTTTT
1 CAAAAAAAA-AA-GTTTCAAC-TTATCTTTTTT
3120398 CAAAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 9 0.33
33 2 0.07
34 13 0.48
35 3 0.11
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (32 bp):
CAAAAAAAAAAGTTTCAACTTATCTTTTTTTT
Found at i:3120957 original size:18 final size:20
Alignment explanation
Indices: 3120908--3120957 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
3120898 TTATTTTGTT
3120908 TTTTAAAAATTATATTAATAA
1 TTTTAAAAA-TATATTAATAA
*
3120929 -TTT-AAATTATA-TAA-AA
1 TTTTAAAAATATATTAATAA
3120945 TTTTAAAAATATA
1 TTTTAAAAATATA
3120958 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
16 2 0.08
17 6 0.24
18 11 0.44
19 3 0.12
20 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAAAATATATTAATAA
Found at i:3120969 original size:15 final size:14
Alignment explanation
Indices: 3120939--3120975 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
3120929 TTTAAATTAT
3120939 ATAAAATTTTAAAA
1 ATAAAATTTTAAAA
*
3120953 ATATAATTTTAAAAA
1 ATAAAATTTT-AAAA
3120968 ATAAAATT
1 ATAAAATT
3120976 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAAAATTTTAAAA
Found at i:3123109 original size:205 final size:205
Alignment explanation
Indices: 3122753--3123167 Score: 814
Period size: 205 Copynumber: 2.0 Consensus size: 205
3122743 CTCTTAGTAT
3122753 GATA-TGAAAATGTCCTTGGTCCTTTCATGGTCTTTGGGTGCATTCATACGGTTCTGCTTTTGAA
1 GATACTGAAAATGTCCTTGGTCCTTTCATGGTCTTTGGGTGCATTCATACGGTTCTGCTTTTGAA
*
3122817 CTGTATTAGTATCTTTACTGAAAGGGAAAAAGAGGAAGAGTTACCTAAAATTTAAGTTAATACAA
66 CTGTATTAGTATCTTTACCGAAAGGGAAAAAGAGGAAGAGTTACCTAAAATTTAAGTTAATACAA
3122882 AGCATCTATCCTTATGCAATGCATGCATGTCAGATATGGCTTGAGCATGGTATTTTGTGCATGTA
131 AGCATCTATCCTTATGCAATGCATGCATGTCAGATATGGCTTGAGCATGGTATTTTGTGCATGTA
3122947 ATCCCATGGA
196 ATCCCATGGA
3122957 GATACTGAAAATGTCCTTGGTCCTTTCATGGTCTTTGGGTGCATTCATACGGTTCTGCTTTTGAA
1 GATACTGAAAATGTCCTTGGTCCTTTCATGGTCTTTGGGTGCATTCATACGGTTCTGCTTTTGAA
3123022 CTGTATTAGTATCTTTACCGAAAGGGAAAAAGAGGAAGAGTTACCTAAAATTTAAGTTAATACAA
66 CTGTATTAGTATCTTTACCGAAAGGGAAAAAGAGGAAGAGTTACCTAAAATTTAAGTTAATACAA
3123087 AGCATCTATCCTTATGCAATGCATGCATGTCAGATATGGCTTGAGCATGGTATTTTGTGCATGTA
131 AGCATCTATCCTTATGCAATGCATGCATGTCAGATATGGCTTGAGCATGGTATTTTGTGCATGTA
3123152 ATCCCATGGA
196 ATCCCATGGA
3123162 GATACT
1 GATACT
3123168 ATTTTTGAGC
Statistics
Matches: 209, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
204 4 0.02
205 205 0.98
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (205 bp):
GATACTGAAAATGTCCTTGGTCCTTTCATGGTCTTTGGGTGCATTCATACGGTTCTGCTTTTGAA
CTGTATTAGTATCTTTACCGAAAGGGAAAAAGAGGAAGAGTTACCTAAAATTTAAGTTAATACAA
AGCATCTATCCTTATGCAATGCATGCATGTCAGATATGGCTTGAGCATGGTATTTTGTGCATGTA
ATCCCATGGA
Found at i:3129796 original size:19 final size:19
Alignment explanation
Indices: 3129769--3129831 Score: 50
Period size: 19 Copynumber: 3.7 Consensus size: 19
3129759 TTATTATCGA
*
3129769 ATTTAATTTAAATTTAAAT
1 ATTTTATTTAAATTTAAAT
3129788 ATTTTATTT--A-TTAAAT
1 ATTTTATTTAAATTTAAAT
* *
3129804 A----AATTAAATTTTAAT
1 ATTTTATTTAAATTTAAAT
3129819 ATTTTATTTAAAT
1 ATTTTATTTAAAT
3129832 AATTTATGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
12 3 0.09
14 1 0.03
15 6 0.18
16 7 0.21
17 1 0.03
19 15 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATTTAAATTTAAAT
Found at i:3130071 original size:37 final size:37
Alignment explanation
Indices: 3130030--3130101 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
3130020 ATTTTATTTT
*
3130030 AATTTAAAAAATTAAATTTTAATTAAA-TTCAAAATCA
1 AATTTAAAAAATTAAATTTGAA-TAAATTTCAAAATCA
* *
3130067 AATTTTAAAAATTTAATTTGAATAAATTTCAAAAT
1 AATTTAAAAAATTAAATTTGAATAAATTTCAAAAT
3130102 ATTTTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (37 bp):
AATTTAAAAAATTAAATTTGAATAAATTTCAAAATCA
Found at i:3137217 original size:3 final size:3
Alignment explanation
Indices: 3137204--3137238 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
3137194 AACTCGATGA
3137204 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
3137239 GCTGCTGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:3138017 original size:10 final size:10
Alignment explanation
Indices: 3137988--3138022 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
3137978 TAAAATAAAA
3137988 TAATTATTATT
1 TAATTA-TATT
3137999 TATATTATATT
1 TA-ATTATATT
3138010 TAATTATATT
1 TAATTATATT
3138020 TAA
1 TAA
3138023 AATATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.48
11 8 0.35
12 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TAATTATATT
Found at i:3141219 original size:19 final size:17
Alignment explanation
Indices: 3141164--3141222 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 17
3141154 TACTATGCTT
3141164 GAAAAAAAAAAGAAAAA
1 GAAAAAAAAAAGAAAAA
* *
3141181 TAAAAAAAAATAAAAAAAA
1 -GAAAAAAAA-AAGAAAAA
3141200 GAAAGAAAAAAATGAAAAA
1 GAAA-AAAAAAA-GAAAAA
3141219 GAAA
1 GAAA
3141223 TACTCAAGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.38
19 21 0.62
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
GAAAAAAAAAAGAAAAA
Found at i:3142283 original size:29 final size:28
Alignment explanation
Indices: 3142241--3142299 Score: 100
Period size: 29 Copynumber: 2.1 Consensus size: 28
3142231 TCAAGACGCC
3142241 TTATATTATTTTTCAAAGTTGTTGAAGCA
1 TTATATTATTTTTCAAAGTTGTTGAA-CA
*
3142270 TTATTTTATTTTTCAAAGTTGTTGAACA
1 TTATATTATTTTTCAAAGTTGTTGAACA
3142298 TT
1 TT
3142300 TGCTTAGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.53
Consensus pattern (28 bp):
TTATATTATTTTTCAAAGTTGTTGAACA
Found at i:3142380 original size:44 final size:43
Alignment explanation
Indices: 3142330--3142453 Score: 178
Period size: 44 Copynumber: 2.8 Consensus size: 43
3142320 TAAAGGAGCT
*
3142330 TTATTTTATTTTTTAAAATTATTGATCCTCTGTTTAGA-GAAGCC
1 TTATTTTATTTTTTAAAATT-TTGAGCCTCTGTTTAGATGAA-CC
* *
3142374 TTATTTTATTTTTTAAAATTGTTGAGCCTCTATTTAGATGAACG
1 TTATTTTATTTTTTAAAATT-TTGAGCCTCTGTTTAGATGAACC
3142418 TTATTTTATTTTTTAAAGATTTTGAGCCTCTGTTTA
1 TTATTTTATTTTTTAAA-ATTTTGAGCCTCTGTTTA
3142454 AAGGAGCATT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 67 0.92
45 6 0.08
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (43 bp):
TTATTTTATTTTTTAAAATTTTGAGCCTCTGTTTAGATGAACC
Found at i:3144931 original size:3 final size:3
Alignment explanation
Indices: 3144923--3144954 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3144913 GTATAAAACT
3144923 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3144955 TTTTTACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3155273 original size:52 final size:52
Alignment explanation
Indices: 3155195--3155313 Score: 147
Period size: 52 Copynumber: 2.3 Consensus size: 52
3155185 TATATTAATA
* **
3155195 TTTTTATTAT-AAATATCATATTAATCAATGAT-ATTGGATATTC-ATTAACAT
1 TTTTTATTATAAAATATAATATTAATCAATG-TCATTGGAT-GCCAATTAACAT
*
3155246 TTTTTATTATAAAATATAATTTTAATCAATGTCATTGGATGCCAATTAACAT
1 TTTTTATTATAAAATATAATATTAATCAATGTCATTGGATGCCAATTAACAT
3155298 TTTCTTA-TATAAAATA
1 TTT-TTATTATAAAATA
3155314 ATTTTACTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
51 12 0.20
52 45 0.75
53 3 0.05
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.46
Consensus pattern (52 bp):
TTTTTATTATAAAATATAATATTAATCAATGTCATTGGATGCCAATTAACAT
Found at i:3157491 original size:954 final size:945
Alignment explanation
Indices: 3155559--3157619 Score: 2469
Period size: 954 Copynumber: 2.2 Consensus size: 945
3155549 GAAAAACAAC
* * * * * * *
3155559 TTTCAA-AGGGAAAAATGAATTTTACTTATAAACCCAC-ACTTCAATTATTCATTATCAAATGTG
1 TTTCAATA-GGAAAAATGACTTTTATTTATAAAGCCACTGC-TCAATTATTGACTATTAAATGTG
* * * * * * *
3155622 AGATTGTTTTTCCTTAATGCTAGATTCCATAGTTAATGGCGTGAATTTTGTGTTCATTTAGGATG
64 AGATTGTTTTTCCTTAATACTAGCTTCCATAGTTAAAGGTGTGAATTTTGTATTCGTTTA-GACG
* *
3155687 ATACGACTTTTCATAGACAATGTCATTA-TCGATACAACGGATCAACATTATTAATTTAAAAATT
128 ATACG-CTTTCCATAGACAATGTCATTACTCGACACAACGGATCAACATTATTAATTTAAAAATT
* ** * * * * *
3155751 ATTGAACTATATTTATTATGAAATATTATCTGCTTTATGACTCTTGAGATTTATAGTCACTATTT
192 ATTAAACTATATCCATTATGAAATATTATCTACTATATGACTCTTGAGATTTACACTCACAATTT
* * *
3155816 TCTGATTTAAGAAAATGCCCTTCAATAGGAGAAATGTGACATTTTTTAAACAACAACAATCCACA
257 TCTCATTTAAGAAAATGCCCTTCAATAGAAGAAATGTGACATTTCTTAAACAACAACAATCCACA
**** * *
3155881 CCCTTGAAAATTTTTTAAAAAATTAATATGATTTAGAAAATTATTGTCGATAATAGTATTGTTGC
322 CCCTTGAAAATTAAAAAAAAAATTAATATGATTTAGAAAATCATTGTCGATAATAATATTGTTGC
3155946 TAAAAATAAGATAATATACATTTCGCTCCTTTATATATAAATAAATGAATATTCACGCATTACTA
387 TAAAAATAAGATAATATACATTTCGCTCCTTTATATATAAATAAATGAATATTCACGCATTACTA
* * ** *
3156011 TGGGTCAAAATTTTTTTATTTTGTCATTCCTATTAATCTTTTTTTTTTGTAAATTTTACCAAATA
452 CGAGTCAAAATTTTTTTATTTTGTCATTCCTATTAATAATTTTTTTTTGTAAAATTTACCAAATA
** * * * *
3156076 AAAAAAAAGGCAAAAAAGCAAATTAGGGTGACATGTGGATACTTCCATTAACTTTATTTTCTCAT
517 AAAAAAAAGAAAAAAAAACAAATTAGGGTGACATGTGGATACTTCCATTAACTTCATATTCTCAC
*
3156141 AGAATTTATCTAATAAAAAAACCAAATTCTCAAGAAAATAAAAAAAAAAGTGAAAAGGGACAAAA
582 AGAATTTATCTAATAAAAAAACCAAAATCTC-A-AAAATAAAAAAAAAAGTGAAAAGGG--AAAA
* ** * * *
3156206 AAAACACTCGTAAAAGGTGCTATGTAGAAAATTCTAATGAATTTAAATTATTAAATTCTTATTAT
643 AAAACACTCATAAAAGGTGCTACATAGAAAATTATAATGAATTTAAAATATTAAATTCTTATTAC
3156271 AAAATGATTTTACTAAAAAATACGTTAATTAGAAATTTAAAAGTAGTTAATATTATTTTTAAAAT
708 AAAATGATTTTACTAAAAAATACGTTAATTAGAAATTTAAAAGTAGTTAATATTATTTTTAAAAT
* * *
3156336 CCGGTTAACAAATGCTTATAAGTACTAATTAAAAATAGTTAAATTAATATTTCATAAATAATATA
773 CCCGTTAACAAATGCTTATAAATACCAATTAAAAATAGTTAAATTAATATTTCATAAATAATATA
*
3156401 TTACAAATAAGTTAGGTAAAGATTTTTGGATTATGCTTATTAAGATATATTGTTTGTTATGATAG
838 TTACAAATAAGTTAGGTAAAGATTTTTAGATTATGCTTATTAAGATATATTGTTTGTTATGATAG
** *
3156466 CTTAAAGGTTTGCCCATGATTTTATCATTTGAAAAAGAAGACA
903 CTTAAAGGTTTGCCCACAATTTTATCATTTGAAAAAAAAGACA
*
3156509 TTTCAATAGGAAAAACGACTTTTATTTATAAAGCCACTGCTCAATTATTGACTATTAAATGTGAG
1 TTTCAATAGGAAAAATGACTTTTATTTATAAAGCCACTGCTCAATTATTGACTATTAAATGTGAG
* * * *
3156574 ATTATCTTTCCTTAATACTAGCTTCCATTGTTAAAGGTGTGAATTTTATATTCGTTTAGTACGAT
66 ATTGTTTTTCCTTAATACTAGCTTCCATAGTTAAAGGTGTGAATTTTGTATTCGTTTAG-ACGAT
* *
3156639 ACAGCTTTCCATAGACAATGTCATTACT-GACACAACGGATCAACATTATTTATTTAAAAATTGT
130 AC-GCTTTCCATAGACAATGTCATTACTCGACACAACGGATCAACATTATTAATTTAAAAATTAT
* *
3156703 TAAATTGTATCCATTATGAAA-ATTTATCTACTATATGAGC-CTTGAGATTTACACTCACAATTT
194 TAAACTATATCCATTATGAAATA-TTATCTACTATATGA-CTCTTGAGATTTACACTCACAATTT
* * * * * *
3156766 TGTCCTTTTAGAAAATGCCCTTCGACT-GAAGAAATGTGACATTTGCTTAAA-AAGCCACATTCC
257 TCTCATTTAAGAAAATGCCCTTC-AATAGAAGAAATGTGACATTT-CTTAAACAA-CAACAATCC
** * * *
3156829 ACATTCTTGAAAAATTAAAAAAAAAATTAATATGATTTTGAAAATCATTGTTGATATTAATATTG
319 ACACCCTTG-AAAATTAAAAAAAAAATTAATATGATTTAGAAAATCATTGTCGATAATAATATTG
* * * * * * ***
3156894 TT-TTAAAAAAATAAGATAATATATATTTCTCTCTTTTATATA-AAATTATATGGATATTTGTGC
383 TTGCT--AAAAATAAGATAATATACATTTCGCTCCTTTATATATAAA-TAAATGAATATTCACGC
* * *
3156957 ATTA-TCACGAGTC-AAATTTTTTTATTTTTTTATT-TTATTAATAATTTTTTTTT-TACAGAAT
445 ATTACT-ACGAGTCAAAATTTTTTTATTTTGTCATTCCTATTAATAATTTTTTTTTGTA-A-AAT
*
3157018 TTACCGAATTAAAAATGACTAAAGTTAAAAAAAAAAAAACACAAATTAGGGTGACATGTGGATAC
507 TTACC-AAATAAAAA--A--AAAG-------AAAAAAAA-ACAAATTAGGGTGACATGTGGATAC
* *
3157083 TTCCATTGACTTCATATTCTCACAGAATTTATCTAAT-AAAAAACTAAAATCTC-AAAA-AAAAA
559 TTCCATTAACTTCATATTCTCACAGAATTTATCTAATAAAAAAACCAAAATCTCAAAAATAAAAA
* * *
3157145 AAAAAGTGAAAA-GG-AAAAAAA-ACTCATAAAAGTTGCTACATGGACAATTATAATGAATTTAA
624 AAAAAGTGAAAAGGGAAAAAAAACACTCATAAAAGGTGCTACATAGAAAATTATAATGAATTTAA
* * * * *
3157207 AATATTAATTTTTTCTTACAAAATGATTTTACTAAAAAGTGTC-TTAATTAGAAATTTAAAAGTA
689 AATATTAAATTCTTATTACAAAATGATTTTACTAAAAAAT-ACGTTAATTAGAAATTTAAAAGTA
* *
3157271 GTTAATATTATTTTTAGAATCCCGTTAACAAGTGCTTATAAATACCAATTAAAAATAGTT-AATT
753 GTTAATATTATTTTTAAAATCCCGTTAACAAATGCTTATAAATACCAATTAAAAATAGTTAAATT
* * * *
3157335 ACTATTTCATAAATAATGTGTTACAAATAAGTTAGGTAAAGATTTTTA-AGTTATGCTTATTAGG
818 AATATTTCATAAATAATATATTACAAATAAGTTAGGTAAAGATTTTTAGA-TTATGCTTATTAAG
* * * *
3157399 ATATATTGTTTGTTATGATAGCTTGAAGGTTTGCTCACAATTTTATCTTTTGAAAAAAAAGGCA
882 ATATATTGTTTGTTATGATAGCTTAAAGGTTTGCCCACAATTTTATCATTTGAAAAAAAAGACA
* * * * * *
3157463 TTTTAATAGGAAAAATTACTTTTATTTATAAAGTCA-TAGTTTAATTATTGACTATTAAATGTTA
1 TTTCAATAGGAAAAATGACTTTTATTTATAAAGCCACT-GCTCAATTATTGACTATTAAATGTGA
* * * * *
3157527 TATTGTTTTTCCTTAATTCTAGCTTCCATAGTTAAGGGTTTGAATTTTGTATTTGTTTAAGACGA
65 GATTGTTTTTCCTTAATACTAGCTTCCATAGTTAAAGGTGTGAATTTTGTATTCGTTT-AGACGA
* * *
3157592 TACGGTTTTCCATAGTCAGTGTCATTAC
129 TAC-GCTTTCCATAGACAATGTCATTAC
3157620 CATTTATACC
Statistics
Matches: 946, Mismatches: 131, Indels: 64
0.83 0.11 0.06
Matches are distributed among these distances:
949 2 0.00
950 249 0.26
951 44 0.05
952 78 0.08
953 64 0.07
954 250 0.26
955 147 0.16
956 8 0.01
957 4 0.00
959 2 0.00
960 17 0.02
961 4 0.00
964 20 0.02
965 57 0.06
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (945 bp):
TTTCAATAGGAAAAATGACTTTTATTTATAAAGCCACTGCTCAATTATTGACTATTAAATGTGAG
ATTGTTTTTCCTTAATACTAGCTTCCATAGTTAAAGGTGTGAATTTTGTATTCGTTTAGACGATA
CGCTTTCCATAGACAATGTCATTACTCGACACAACGGATCAACATTATTAATTTAAAAATTATTA
AACTATATCCATTATGAAATATTATCTACTATATGACTCTTGAGATTTACACTCACAATTTTCTC
ATTTAAGAAAATGCCCTTCAATAGAAGAAATGTGACATTTCTTAAACAACAACAATCCACACCCT
TGAAAATTAAAAAAAAAATTAATATGATTTAGAAAATCATTGTCGATAATAATATTGTTGCTAAA
AATAAGATAATATACATTTCGCTCCTTTATATATAAATAAATGAATATTCACGCATTACTACGAG
TCAAAATTTTTTTATTTTGTCATTCCTATTAATAATTTTTTTTTGTAAAATTTACCAAATAAAAA
AAAAGAAAAAAAAACAAATTAGGGTGACATGTGGATACTTCCATTAACTTCATATTCTCACAGAA
TTTATCTAATAAAAAAACCAAAATCTCAAAAATAAAAAAAAAAGTGAAAAGGGAAAAAAAACACT
CATAAAAGGTGCTACATAGAAAATTATAATGAATTTAAAATATTAAATTCTTATTACAAAATGAT
TTTACTAAAAAATACGTTAATTAGAAATTTAAAAGTAGTTAATATTATTTTTAAAATCCCGTTAA
CAAATGCTTATAAATACCAATTAAAAATAGTTAAATTAATATTTCATAAATAATATATTACAAAT
AAGTTAGGTAAAGATTTTTAGATTATGCTTATTAAGATATATTGTTTGTTATGATAGCTTAAAGG
TTTGCCCACAATTTTATCATTTGAAAAAAAAGACA
Found at i:3159909 original size:3 final size:3
Alignment explanation
Indices: 3159901--3159951 Score: 84
Period size: 3 Copynumber: 16.3 Consensus size: 3
3159891 TTGATATACA
3159901 TAT TAT TATT TAT CTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3159948 TAT T
1 TAT T
3159952 TATCTATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3159930 original size:26 final size:25
Alignment explanation
Indices: 3159826--3159960 Score: 91
Period size: 26 Copynumber: 5.2 Consensus size: 25
3159816 TCTTAGTTAC
*
3159826 TTATTATTTATTATTACTATCTATTA
1 TTATTATTTATTATTATTAT-TATTA
* * * *
3159852 ATA-TATATATATATTACTT-TCATTT
1 TTATTATTTAT-TATTA-TTATTATTA
* *
3159877 TTATTATTTATCTGTTGA-TA-TACATA
1 TTATTATTTAT-TATT-ATTATTA-TTA
3159903 TTATTATTTATCTATTATTATTATTA
1 TTATTATTTAT-TATTATTATTATTA
3159929 TTATTA-TTATTATTATTATTATTTA
1 TTATTATTTATTATTATTATTA-TTA
3159954 TCTATTA
1 T-TATTA
3159961 ATAGTTTTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
24 11 0.13
25 22 0.26
26 48 0.56
27 4 0.05
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (25 bp):
TTATTATTTATTATTATTATTATTA
Found at i:3159971 original size:41 final size:43
Alignment explanation
Indices: 3159901--3160006 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 43
3159891 TTGATATACA
*
3159901 TATTATTATTTATCTATTATTATTATTA-TTAT-T-ATTATTAT
1 TATTATTATTTATCTATTAATATTATTATTTATCTAATTATT-T
3159942 TATTATTATTTATCTATTAATAGTT-TTATTTATCTAATTATTT
1 TATTATTATTTATCTATTAATA-TTATTATTTATCTAATTATTT
* **
3159985 T-TTTTTGGTTATCTATTAATAT
1 TATTATTATTTATCTATTAATAT
3160007 ATTTATCTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
41 25 0.44
42 23 0.40
43 3 0.05
44 6 0.11
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (43 bp):
TATTATTATTTATCTATTAATATTATTATTTATCTAATTATTT
Found at i:3160225 original size:17 final size:17
Alignment explanation
Indices: 3160203--3160237 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3160193 AGAAGAAAAC
3160203 ACACAGAAAAAAAACAG
1 ACACAGAAAAAAAACAG
* *
3160220 ACACAGAGAAGAAACAG
1 ACACAGAAAAAAAACAG
3160237 A
1 A
3160238 AGCTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.17, G:0.17, T:0.00
Consensus pattern (17 bp):
ACACAGAAAAAAAACAG
Found at i:3160402 original size:17 final size:16
Alignment explanation
Indices: 3160376--3160453 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 16
3160366 TTGTTTAATA
3160376 TTTTTATTTTTATTAT
1 TTTTTATTTTTATTAT
3160392 TTTTTATTTTTTATTAT
1 TTTTTA-TTTTTATTAT
* *
3160409 TATATTAGGATTGTTTAATA-
1 T-T-TT--TATT-TTTATTAT
3160429 TTTTTATTTTTATT-T
1 TTTTTATTTTTATTAT
*
3160444 ATTTTATTTT
1 TTTTTATTTT
3160454 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
15 14 0.28
16 9 0.18
17 11 0.22
18 3 0.06
19 3 0.06
20 3 0.06
21 7 0.14
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTTATTTTTATTAT
Found at i:3160406 original size:53 final size:52
Alignment explanation
Indices: 3160337--3160453 Score: 200
Period size: 53 Copynumber: 2.2 Consensus size: 52
3160327 TTTTTTTTGT
*
3160337 TTTA-TTTATTTATTATTATTATATTAGGATTGTTTAATATTTTTATTTTTA
1 TTTATTTTATTTTTTATTATTATATTAGGATTGTTTAATATTTTTATTTTTA
*
3160388 TTATTTTTTATTTTTTATTATTATATTAGGATTGTTTAATATTTTTATTTTTA
1 TT-TATTTTATTTTTTATTATTATATTAGGATTGTTTAATATTTTTATTTTTA
3160441 TTTATTTTATTTT
1 TTTATTTTATTTT
3160454 CTTTAAATAA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 2 0.03
52 11 0.18
53 48 0.79
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (52 bp):
TTTATTTTATTTTTTATTATTATATTAGGATTGTTTAATATTTTTATTTTTA
Done.