Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 126 of 335
Found at i:37908295 original size:29 final size:29
Alignment explanation
Indices: 37908214--37908311 Score: 99
Period size: 29 Copynumber: 3.2 Consensus size: 29
37908204 TAGTATATTT
* * *
37908214 ATAATAATAGGAAACAATAATGATAAAAGA
1 ATAATAATA-GAAACAATAGTAATAAAATA
* *
37908244 A-AATAATAGTAATAATGGAAGTAATAAAATA
1 ATAATAATAGAAACAAT---AGTAATAAAATA
37908275 ATAATAATAGAAACAATAGTAATAAAAGTA
1 ATAATAATAGAAACAATAGTAATAAAA-TA
37908305 ATAATAA
1 ATAATAA
37908312 AATAGAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
28 6 0.11
29 17 0.30
30 10 0.18
31 10 0.18
32 13 0.23
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.23
Consensus pattern (29 bp):
ATAATAATAGAAACAATAGTAATAAAATA
Found at i:37908310 original size:41 final size:42
Alignment explanation
Indices: 37908229--37908315 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 42
37908219 AATAGGAAAC
* * *
37908229 AATAATGATAAAAGAAAATAATAGTAATAATGGAAGTAATAA
1 AATAATAATAAAAGAAAACAATAGTAATAAAGGAAGTAATAA
* *
37908271 AATAATAATAATAG-AAACAATAGTAATAAAAGTAA-TAATAA
1 AATAATAATAAAAGAAAACAATAGTAAT-AAAGGAAGTAATAA
37908312 AATA
1 AATA
37908316 GAAATAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 22 0.56
42 17 0.44
ACGTcount: A:0.64, C:0.01, G:0.10, T:0.24
Consensus pattern (42 bp):
AATAATAATAAAAGAAAACAATAGTAATAAAGGAAGTAATAA
Found at i:37908423 original size:14 final size:14
Alignment explanation
Indices: 37908406--37908455 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
37908396 TTAATAAAAA
37908406 TAATAATAATAGGT
1 TAATAATAATAGGT
37908420 TAATAATAATA-G-
1 TAATAATAATAGGT
37908432 TAATAA-AA-AGGT
1 TAATAATAATAGGT
*
37908444 AAAATAATAATA
1 -TAATAATAATA
37908456 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
10 1 0.03
11 3 0.10
12 6 0.20
13 6 0.20
14 13 0.43
15 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (14 bp):
TAATAATAATAGGT
Found at i:37908546 original size:21 final size:21
Alignment explanation
Indices: 37908500--37908552 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
37908490 ATAATAAAAA
*
37908500 AGAA-AATAGTAATAGTATAT
1 AGAATAATAGTAAAAGTATAT
37908520 AGAATAATAGTAAAAGTA-AT
1 AGAATAATAGTAAAAGTATAT
*
37908540 --AATAATATTAAAA
1 AGAATAATAGTAAAA
37908553 ATAACACACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 12 0.40
20 6 0.20
21 12 0.40
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (21 bp):
AGAATAATAGTAAAAGTATAT
Found at i:37908880 original size:25 final size:24
Alignment explanation
Indices: 37908829--37908880 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
37908819 ATCTCGTGTA
** *
37908829 TTTCTTGTATTGAAAGTCTCTCTT
1 TTTCTTGTATTGAAACCCTCTCCT
*
37908853 TTTCTTGTATTCGAATCCCTCTCCT
1 TTTCTTGTATT-GAAACCCTCTCCT
37908878 TTT
1 TTT
37908881 TTCTTCACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.13, C:0.23, G:0.10, T:0.54
Consensus pattern (24 bp):
TTTCTTGTATTGAAACCCTCTCCT
Found at i:37913186 original size:20 final size:20
Alignment explanation
Indices: 37913149--37913188 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
37913139 CATAATTTTT
**
37913149 TATATTTAAAATGTAATTTA
1 TATATTTAAAATAAAATTTA
*
37913169 TATATTTAAATTAAAATTTA
1 TATATTTAAAATAAAATTTA
37913189 CTAATAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TATATTTAAAATAAAATTTA
Found at i:37914354 original size:94 final size:96
Alignment explanation
Indices: 37914176--37914358 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 96
37914166 GCACCTGCAT
* * *
37914176 TTTTCGTGTAAAAATTTCGATTCCAGAAAAGAGAAAAAAGATACATTTTTACCCAAAAGAATAGG
1 TTTTCGTGTAAAAATTTCAATTCCAGAAAAGAGAAAAAAGACACATTTATACCCAAAAGAATAGG
*
37914241 TTAGAGAAAGTAGTGTCAAATATAAGTCATA
66 TTAGAGAAAGCAGTGTCAAATATAAGTCATA
*
37914272 TTTTC-TGTAAAAATTTCAATTCCAGAAAGAGGGAAAAAA-ACACATTTAT-CCCAAAAGAATAG
1 TTTTCGTGTAAAAATTTCAATTCCAGAAA-AGAGAAAAAAGACACATTTATACCCAAAAGAATAG
37914334 GTTAGAGAAAGCAGAT-TCAAATATA
65 GTTAGAGAAAGCAG-TGTCAAATATA
37914359 TTAGAGGGAT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
94 35 0.44
95 31 0.39
96 14 0.17
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (96 bp):
TTTTCGTGTAAAAATTTCAATTCCAGAAAAGAGAAAAAAGACACATTTATACCCAAAAGAATAGG
TTAGAGAAAGCAGTGTCAAATATAAGTCATA
Found at i:37917150 original size:6 final size:6
Alignment explanation
Indices: 37917139--37917173 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
37917129 CTTTTCTCGG
* *
37917139 TCCCTA TCCCTA TCCTTA TCTCTA TCCCTA TCCCT
1 TCCCTA TCCCTA TCCCTA TCCCTA TCCCTA TCCCT
37917174 GTGGCGATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.14, C:0.46, G:0.00, T:0.40
Consensus pattern (6 bp):
TCCCTA
Found at i:37917160 original size:24 final size:24
Alignment explanation
Indices: 37917126--37917173 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37917116 CACGATCACG
* *
37917126 ATCCTTTTCTCGGTCCCTATCCCT
1 ATCCTTATCTCGATCCCTATCCCT
*
37917150 ATCCTTATCTCTATCCCTATCCCT
1 ATCCTTATCTCGATCCCTATCCCT
37917174 GTGGCGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.42, G:0.04, T:0.42
Consensus pattern (24 bp):
ATCCTTATCTCGATCCCTATCCCT
Found at i:37919478 original size:20 final size:19
Alignment explanation
Indices: 37919431--37919478 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
37919421 ATTTGGTTAA
37919431 AATTAAA-ACATATAATTT
1 AATTAAATACATATAATTT
* *
37919449 ATAATAAATACTATGTAATTT
1 A-ATTAAATAC-ATATAATTT
37919470 AATTAAATA
1 AATTAAATA
37919479 TTTAATAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 5 0.21
20 9 0.38
21 9 0.38
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTAAATACATATAATTT
Found at i:37919605 original size:21 final size:21
Alignment explanation
Indices: 37919582--37919621 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37919572 TTGAAAACAA
37919582 AAAATA-TA-TATCTAAAAATT
1 AAAATATTATTAT-TAAAAATT
37919602 AAAATATTATTATTAAAAAT
1 AAAATATTATTATTAAAAAT
37919622 AACTTCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATATTATTATTAAAAATT
Found at i:37937177 original size:28 final size:28
Alignment explanation
Indices: 37937138--37937259 Score: 108
Period size: 28 Copynumber: 4.5 Consensus size: 28
37937128 AGTTTCTCAA
*
37937138 TAGATAGCCCTTGCAGACTTTCCCTTAT
1 TAGATAGTCCTTGCAGACTTTCCCTTAT
* *
37937166 TAAATAGTCCTTGCATG-CTTTCCC-AAT
1 TAGATAGTCCTTGCA-GACTTTCCCTTAT
* * * *
37937193 T-GATAATCCTTACGGACTTTCCCTCAT
1 TAGATAGTCCTTGCAGACTTTCCCTTAT
* ** *
37937220 TAGATAGTCTTTGC-GGGTTTCCCATAT
1 TAGATAGTCCTTGCAGACTTTCCCTTAT
37937247 TAGATAGTCCTTG
1 TAGATAGTCCTTG
37937260 TGAAGTTCTC
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.01
26 16 0.22
27 27 0.36
28 29 0.39
29 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (28 bp):
TAGATAGTCCTTGCAGACTTTCCCTTAT
Found at i:37938379 original size:3 final size:3
Alignment explanation
Indices: 37938371--37938424 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
37938361 ATATGATTCG
37938371 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37938419 TAT TAT
1 TAT TAT
37938425 GATATTACTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37939838 original size:13 final size:13
Alignment explanation
Indices: 37939812--37939845 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
37939802 CTCAACAAAT
*
37939812 AATT-AAAAAGAA
1 AATTCAAAAAAAA
37939824 AATTCAAAAAAAA
1 AATTCAAAAAAAA
37939837 AATTCAAAA
1 AATTCAAAA
37939846 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AATTCAAAAAAAA
Found at i:37939967 original size:23 final size:23
Alignment explanation
Indices: 37939915--37939967 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
37939905 AATTCTAAAC
*
37939915 AAATTCTAAAGAATATATAAAAA
1 AAATTTTAAAGAATATATAAAAA
*
37939938 AAGTTTTAAA-AAT-TATAAAATA
1 AAATTTTAAAGAATATATAAAA-A
37939960 ATAATTTT
1 A-AATTTT
37939968 TGGGACCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 13 0.52
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AAATTTTAAAGAATATATAAAAA
Found at i:37940697 original size:2 final size:2
Alignment explanation
Indices: 37940690--37940718 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
37940680 TTCTATTATT
37940690 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37940719 ATGTTAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37941331 original size:3 final size:3
Alignment explanation
Indices: 37941323--37941353 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37941313 TATTAGGATT
37941323 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37941354 ACAATAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37942749 original size:21 final size:22
Alignment explanation
Indices: 37942725--37942766 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
37942715 TAAAAAAAAC
37942725 TTAAATTTAGCTCAA-CAATTA
1 TTAAATTTAGCTCAATCAATTA
* *
37942746 TTAATTTTAGCTTAATCAATT
1 TTAAATTTAGCTCAATCAATT
37942767 GATACTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (22 bp):
TTAAATTTAGCTCAATCAATTA
Found at i:37946088 original size:42 final size:42
Alignment explanation
Indices: 37946041--37946124 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
37946031 TCATTGAGCT
37946041 AAGCATGATTCAACTTGAAATATATATTGTGGTTGGAACTAA
1 AAGCATGATTCAACTTGAAATATATATTGTGGTTGGAACTAA
37946083 AAGCATGATTCAACTTGAAATATATATTGTGGTTGGAACTAA
1 AAGCATGATTCAACTTGAAATATATATTGTGGTTGGAACTAA
37946125 TCTGATTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (42 bp):
AAGCATGATTCAACTTGAAATATATATTGTGGTTGGAACTAA
Found at i:37946233 original size:25 final size:25
Alignment explanation
Indices: 37946181--37946229 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37946171 AAATCTAGTT
37946181 TTTAATATTTATATATTTTTATTAA
1 TTTAATATTTATATATTTTTATTAA
*
37946206 TTTAATCTTTAT-T-TTTTTAATTAA
1 TTTAATATTTATATATTTTT-ATTAA
37946230 ATTTGACTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 6 0.27
25 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTAATATTTATATATTTTTATTAA
Found at i:37946595 original size:15 final size:16
Alignment explanation
Indices: 37946571--37946611 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
37946561 GTTGAGAACC
*
37946571 AAATTTAATTAA-AAA
1 AAATTAAATTAACAAA
37946586 AAATTAAATTAACAAA
1 AAATTAAATTAACAAA
37946602 AAATATAAAT
1 AAAT-TAAAT
37946612 ATTAAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 7 0.30
17 5 0.22
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTAAATTAACAAA
Found at i:37947735 original size:9 final size:9
Alignment explanation
Indices: 37947722--37947811 Score: 65
Period size: 9 Copynumber: 9.6 Consensus size: 9
37947712 TTTCAAATAT
37947722 TAAAAATTA
1 TAAAAATTA
* *
37947731 GAAAAAATA
1 TAAAAATTA
*
37947740 TAAAAATCA
1 TAAAAATTA
*
37947749 TAAAAAATA
1 TAAAAATTA
37947758 TAAAAAATTGTA
1 T-AAAAA-T-TA
*
37947770 AAAAAATTA
1 TAAAAATTA
37947779 T-AAAATATA
1 TAAAAAT-TA
*
37947788 TAGAAATATA
1 TAAAAAT-TA
*
37947798 AAAAAATTA
1 TAAAAATTA
37947807 TAAAA
1 TAAAA
37947812 TTTTATAAAG
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
8 5 0.08
9 32 0.52
10 18 0.29
11 5 0.08
12 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (9 bp):
TAAAAATTA
Found at i:37947740 original size:19 final size:19
Alignment explanation
Indices: 37947716--37947784 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
37947706 ATAAAATTTC
37947716 AAATATTAAAAATTAGAAA
1 AAATATTAAAAATTAGAAA
* *
37947735 AAATA-TAAAAATCATAAA
1 AAATATTAAAAATTAGAAA
*
37947753 AAATATAAAAAATT-GTAAA
1 AAATATTAAAAATTAG-AAA
37947772 AAA-ATTATAAAAT
1 AAATATTA-AAAAT
37947785 ATATAGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (19 bp):
AAATATTAAAAATTAGAAA
Found at i:37947763 original size:28 final size:28
Alignment explanation
Indices: 37947723--37947811 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
37947713 TTCAAATATT
* *
37947723 AAAAAT-TAGAAAAAATATAAAAATCATA
1 AAAAATATA-AAAAAATAAAAAAATTATA
*
37947751 AAAAATATAAAAAATTGTAAAAAAATTATA
1 AAAAATATAAAAAA--ATAAAAAAATTATA
* * *
37947781 AAATATATAGAAATATAAAAAAATTATA
1 AAAAATATAAAAAAATAAAAAAATTATA
37947809 AAA
1 AAA
37947812 TTTTATAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 27 0.53
29 2 0.04
30 22 0.43
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (28 bp):
AAAAATATAAAAAAATAAAAAAATTATA
Found at i:37947784 original size:38 final size:36
Alignment explanation
Indices: 37947716--37947811 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 36
37947706 ATAAAATTTC
*
37947716 AAATATTAAAAATTAGAAAAAATATAAAAATCATAAA
1 AAATATAAAAAATTAGAAAAAATAT-AAAATCATAAA
*
37947753 AAATATAAAAAATT-GTAAAAAAATTATAAAAT-ATATAG
1 AAATATAAAAAATTAG--AAAAAA-TATAAAATCATA-AA
*
37947791 AAATATAAAAAAATTATAAAA
1 AAATAT-AAAAAATTAGAAAA
37947812 TTTTATAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
36 1 0.02
37 16 0.32
38 22 0.44
39 11 0.22
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (36 bp):
AAATATAAAAAATTAGAAAAAATATAAAATCATAAA
Found at i:37948081 original size:37 final size:37
Alignment explanation
Indices: 37948013--37948083 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
37948003 GTCATTAATT
**
37948013 TTTTTTAAGATTTTTATAAAATTTTACAATTTTTTTA
1 TTTTTTAAGATTTTTATAAAAAATTACAATTTTTTTA
*
37948050 TTTTTTATGATTTTTATAAAAAATT-CTAATTTTT
1 TTTTTTAAGATTTTTATAAAAAATTAC-AATTTTT
37948084 AATAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (37 bp):
TTTTTTAAGATTTTTATAAAAAATTACAATTTTTTTA
Found at i:37953585 original size:17 final size:18
Alignment explanation
Indices: 37953565--37953646 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 18
37953555 TCATTCCAAT
37953565 TAACAGTTCATACT-ACA
1 TAACAGTTCATACTAACA
*
37953582 TAACAGTTTATA--ACACA
1 TAACAGTTCATACTA-ACA
*
37953599 TAACAGTTCATA-TCACA
1 TAACAGTTCATACTAACA
* ** *
37953616 TAATAGTTC-TTGTAAAA
1 TAACAGTTCATACTAACA
37953633 TAACAGTTCATACT
1 TAACAGTTCATACT
37953647 CTATCATAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
16 1 0.02
17 47 0.94
18 2 0.04
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.33
Consensus pattern (18 bp):
TAACAGTTCATACTAACA
Found at i:37953603 original size:34 final size:35
Alignment explanation
Indices: 37953565--37953656 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 35
37953555 TCATTCCAAT
37953565 TAACAGTTCATACT-ACATAACAG-T-TTATAACACA
1 TAACAGTTCATACTCACATAACAGTTCTTATAA-A-A
* *
37953599 TAACAGTTCATA-TCACATAATAGTTCTTGTAAAA
1 TAACAGTTCATACTCACATAACAGTTCTTATAAAA
37953633 TAACAGTTCATACTCTATCATAAC
1 TAACAGTTCATACTC-A-CATAAC
37953657 TCATATATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
33 1 0.02
34 33 0.67
35 4 0.08
36 6 0.12
37 5 0.10
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.33
Consensus pattern (35 bp):
TAACAGTTCATACTCACATAACAGTTCTTATAAAA
Found at i:37954716 original size:15 final size:15
Alignment explanation
Indices: 37954696--37954726 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37954686 TAATGACAAT
37954696 AACAAATTAAATGAA
1 AACAAATTAAATGAA
37954711 AACAAATTAAATGAA
1 AACAAATTAAATGAA
37954726 A
1 A
37954727 TAGAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (15 bp):
AACAAATTAAATGAA
Found at i:37960692 original size:13 final size:14
Alignment explanation
Indices: 37960675--37960715 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
37960665 ATGGGGGTAG
37960675 GATTCTGTATATCT
1 GATTCTGTATATCT
*
37960689 -ATTCTGTTTATCT
1 GATTCTGTATATCT
37960702 GATTCTG-ATATCT
1 GATTCTGTATATCT
37960715 G
1 G
37960716 TATCTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:37961502 original size:41 final size:41
Alignment explanation
Indices: 37961453--37961533 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
37961443 TACTTTTAGG
37961453 TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTTT
1 TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTTT
37961494 TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTT
1 TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTT
37961534 ACTCTCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
TCCCCGTAGACTCGTAATAGGGGTTGTAAGAGTTACTTTTT
Found at i:37961753 original size:49 final size:49
Alignment explanation
Indices: 37961696--37961801 Score: 149
Period size: 49 Copynumber: 2.1 Consensus size: 49
37961686 TCTAGAAGGG
* * * * *
37961696 ATAAATAGTGATAAGAATGTAGATAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAATGTAGAAAATGGAAGACCAAGTTTAGAAATGC
*
37961745 ATAAATAGTGATAAGAGTGTAGAAAATGGAAGACCAAGTTTAGAAATGC
1 ATAAATAGTGATAAGAATGTAGAAAATGGAAGACCAAGTTTAGAAATGC
37961794 ATAGAATA
1 ATA-AATA
37961802 ATTTATTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
49 46 0.92
50 4 0.08
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAATGTAGAAAATGGAAGACCAAGTTTAGAAATGC
Found at i:37962289 original size:36 final size:32
Alignment explanation
Indices: 37962207--37962278 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
37962197 GCATTTCAAA
* *
37962207 ACCCATATA-CATATATATTATATAAAACAAG
1 ACCCATATAGTATATAAATTATATAAAACAAG
37962238 ACCCATATATGTATATAAATTATATATATAATCAAG
1 ACCCATATA-GTATATAAATTATATA-A-AA-CAAG
37962274 ACCCA
1 ACCCA
37962279 CTCATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 9 0.26
33 13 0.38
34 1 0.03
35 2 0.06
36 9 0.26
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.31
Consensus pattern (32 bp):
ACCCATATAGTATATAAATTATATAAAACAAG
Found at i:37962298 original size:36 final size:36
Alignment explanation
Indices: 37962211--37962299 Score: 94
Period size: 35 Copynumber: 2.5 Consensus size: 36
37962201 TTCAAAACCC
*
37962211 ATATACATATATAT-TATATAAAACAAGACCCATAT
1 ATATATATATATATATATATAAAACAAGACCCATAT
* * *
37962246 ATGTATATAAAT-TATATATATAATCAAGACCCACTCAT
1 ATATATATATATATATATATA-AAACAAGACCCA-T-AT
37962284 ATATAT-TATATATATA
1 ATATATATATATATATA
37962300 ACAAACCCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
34 1 0.02
35 15 0.35
36 11 0.26
37 5 0.12
38 11 0.26
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (36 bp):
ATATATATATATATATATATAAAACAAGACCCATAT
Found at i:37965000 original size:17 final size:18
Alignment explanation
Indices: 37964978--37965012 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37964968 TGATTTGGAT
*
37964978 CGTGTGGG-CTACACGGG
1 CGTGTGGGTCCACACGGG
37964995 CGTGTGGGTCCACACGGG
1 CGTGTGGGTCCACACGGG
37965013 GAGTTCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
CGTGTGGGTCCACACGGG
Found at i:37969381 original size:22 final size:23
Alignment explanation
Indices: 37969356--37969401 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
37969346 CAACCAAATC
37969356 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
37969378 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
37969401 A
1 A
37969402 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:37969407 original size:23 final size:23
Alignment explanation
Indices: 37969363--37969407 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
37969353 ATCAATTCAA
*
37969363 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
37969386 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
37969408 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:37974792 original size:18 final size:18
Alignment explanation
Indices: 37974771--37974831 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
37974761 AATCGGTTAA
*
37974771 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
* *
37974789 TCAGTATTAGTCGTTTAT
1 TCAGTAATAGTCATTTAT
* * *
37974807 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
37974825 TCAGTAA
1 TCAGTAA
37974832 CAGATAGTCT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:37974794 original size:36 final size:36
Alignment explanation
Indices: 37974754--37974831 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 36
37974744 AGTCAGTCAA
* * *
37974754 CAGTAATAATCGGTTAATCAGTAATATTCATTTATT
1 CAGTAATAATCGGTTAATCAGTAACAGTCAATTATT
* * * * *
37974790 CAGTATTAGTCGTTTATTCTGTAACAGTCAATTATT
1 CAGTAATAATCGGTTAATCAGTAACAGTCAATTATT
37974826 CAGTAA
1 CAGTAA
37974832 CAGATAGTCT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (36 bp):
CAGTAATAATCGGTTAATCAGTAACAGTCAATTATT
Found at i:37982811 original size:19 final size:19
Alignment explanation
Indices: 37982789--37982827 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37982779 TAAAATAGTT
37982789 ACTTAACCATTAAATTGAA
1 ACTTAACCATTAAATTGAA
37982808 ACTTAACCATTAAATTGAA
1 ACTTAACCATTAAATTGAA
37982827 A
1 A
37982828 TGAGATAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (19 bp):
ACTTAACCATTAAATTGAA
Found at i:37983330 original size:9 final size:9
Alignment explanation
Indices: 37983316--37983340 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37983306 GTATAAGGAC
37983316 TAAAATGAA
1 TAAAATGAA
37983325 TAAAATGAA
1 TAAAATGAA
37983334 TAAAATG
1 TAAAATG
37983341 TAAAATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
TAAAATGAA
Found at i:37984003 original size:64 final size:64
Alignment explanation
Indices: 37983837--37984033 Score: 245
Period size: 64 Copynumber: 3.1 Consensus size: 64
37983827 TACGGGTGTA
* * * ** * * * *
37983837 TACTTTGGTTAAATTTTGATAATGCACTAAGTGCCAGAATGACAAGATAGTGCT-AAGTGCATAT
1 TACTTCGGTTATATTTTGATGATGCACTAAGTGATAGAATGATATGATAGTGTTGAA-CGCATAT
*
37983901 TACTTCGGTTATATTTTGATGATGCACTAAGTGTTAGAATGATATGATAGTGTTGAACGCATAT
1 TACTTCGGTTATATTTTGATGATGCACTAAGTGATAGAATGATATGATAGTGTTGAACGCATAT
* * *
37983965 TACTTCGGTTATATTCTGATGATGCACTAAGTGATAGAATAATATGATAGCGTTG-ACTGCATAT
1 TACTTCGGTTATATTTTGATGATGCACTAAGTGATAGAATGATATGATAGTGTTGAAC-GCATAT
37984029 TACTT
1 TACTT
37984034 TGGACTTTCC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.02
64 114 0.97
65 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (64 bp):
TACTTCGGTTATATTTTGATGATGCACTAAGTGATAGAATGATATGATAGTGTTGAACGCATAT
Found at i:37992794 original size:3 final size:3
Alignment explanation
Indices: 37992778--37992832 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
37992768 AACTATATAT
37992778 TTA TTA TT- TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37992824 TTA TTA TTA
1 TTA TTA TTA
37992833 ACTGGTTTGC
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 4 0.08
3 47 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:37993197 original size:40 final size:42
Alignment explanation
Indices: 37993144--37993403 Score: 192
Period size: 41 Copynumber: 6.3 Consensus size: 42
37993134 TTTTAAAATT
*
37993144 CAGAGCAATAGCGGCGTTTTA-AAAAAAATGCCGCTAAAA-A
1 CAGAGCAATAGCGGCGTTTTAGAAAAAAACGCCGCTAAAAGA
* * *
37993184 CAGAGCAACAGCGGCGTTTTAGTAAAAAACGCCGCTAAAAGC
1 CAGAGCAATAGCGGCGTTTTAGAAAAAAACGCCGCTAAAAGA
* * * ** **
37993226 CAGAGCATTAGCGGCGCTTTCG-GTAAAACGCCGCTAAAATC
1 CAGAGCAATAGCGGCGTTTTAGAAAAAAACGCCGCTAAAAGA
* * * * *
37993267 CAGAGCATTAGCGGCGCTTTCG-ATAAAACGCCGCTAAAAGC
1 CAGAGCAATAGCGGCGTTTTAGAAAAAAACGCCGCTAAAAGA
* * *** * *
37993308 CAGAGCATTAGC-GCTGCTTT-GGGTATAACGCCGCTAAAAGC
1 CAGAGCAATAGCGGC-GTTTTAGAAAAAAACGCCGCTAAAAGA
* * * ** *
37993349 CAGAGCATTAGCGGCGCTTTCG-GTAAAACGCCGCTAAAAGC
1 CAGAGCAATAGCGGCGTTTTAGAAAAAAACGCCGCTAAAAGA
*
37993390 CAGAGCATTAGCGG
1 CAGAGCAATAGCGG
37993404 TGCTTTCGGT
Statistics
Matches: 198, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
40 23 0.12
41 154 0.78
42 21 0.11
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (42 bp):
CAGAGCAATAGCGGCGTTTTAGAAAAAAACGCCGCTAAAAGA
Found at i:37993231 original size:82 final size:82
Alignment explanation
Indices: 37993144--37993428 Score: 335
Period size: 82 Copynumber: 3.5 Consensus size: 82
37993134 TTTTAAAATT
* * *** * * **
37993144 CAGAGCAATAGCGGCGTTTTAAAAAAAATGCCGCTAAAA-ACAGAGCAACAGCGGCGTTTTAGTA
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGTTTTAGT-
37993208 AAAAACGCCGCTAAAAGC
65 AAAAACGCCGCTAAAAGC
* * * *
37993226 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAATCCAGAGCATTAGCGGCGCTTTCG-A
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGTTTTAGTA
37993290 TAAAACGCCGCTAAAAGC
66 -AAAACGCCGCTAAAAGC
* * **
37993308 CAGAGCATTAGC-GCTGCTTTGGGTATAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGG
1 CAGAGCATTAGCGGC-GCTTTAGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCG-TTTTAG
37993372 T-AAAACGCCGCTAAAAGC
64 TAAAAACGCCGCTAAAAGC
* *
37993390 CAGAGCATTAGCGGTGCTTTCGGTAAAACGCCGCTAAAA
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAA
37993429 ATCTCATAAC
Statistics
Matches: 176, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
81 3 0.02
82 151 0.86
83 22 0.12
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (82 bp):
CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGTTTTAGTA
AAAACGCCGCTAAAAGC
Found at i:37993254 original size:41 final size:41
Alignment explanation
Indices: 37993209--37993428 Score: 379
Period size: 41 Copynumber: 5.4 Consensus size: 41
37993199 GTTTTAGTAA
37993209 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
* *
37993250 AAAACGCCGCTAAAATCCAGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
*
37993291 AAAACGCCGCTAAAAGCCAGAGCATTAGC-GCTGCTTTGGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGC-GCTTTCGGT
*
37993332 ATAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
*
37993373 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGTGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
37993414 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
37993429 ATCTCATAAC
Statistics
Matches: 168, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 2 0.01
41 164 0.98
42 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
Found at i:37994444 original size:15 final size:15
Alignment explanation
Indices: 37994424--37994455 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37994414 TTTAATTTAG
*
37994424 AAGATAAATGTATAT
1 AAGATAAATATATAT
37994439 AAGATAAATATATAT
1 AAGATAAATATATAT
37994454 AA
1 AA
37994456 AATATTATTT
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:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:37994494 original size:24 final size:24
Alignment explanation
Indices: 37994427--37994494 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
37994417 AATTTAGAAG
* *
37994427 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
37994452 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
37994476 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
37994495 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:37998867 original size:289 final size:290
Alignment explanation
Indices: 37998348--37999054 Score: 1407
Period size: 289 Copynumber: 2.4 Consensus size: 290
37998338 CCAACCTTGT
37998348 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
37998413 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
37998478 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
37998543 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAAATACTA-T
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAAATACTATT
37998607 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
37998637 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
37998702 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
37998767 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
37998832 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAAATACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAAATACTATT
37998897 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
37998927 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
37998992 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
37999055 TCTGTTTTAT
Statistics
Matches: 417, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
289 258 0.62
290 159 0.38
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (290 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATT
TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAAATACTATT
TTTTTATATTAATAATGTTTGATTTTAATA
Found at i:37999308 original size:15 final size:15
Alignment explanation
Indices: 37999265--37999319 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
37999255 ACGACATGTT
*
37999265 TATTACTTAATTAAAA
1 TATTATTTAATT-AAA
37999281 TAATT-TTT-A-TAAA
1 T-ATTATTTAATTAAA
37999294 TATTATTTAATTAAA
1 TATTATTTAATTAAA
37999309 TATTATTTAAT
1 TATTATTTAAT
37999320 CCCGCTACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.21
14 2 0.06
15 16 0.47
16 3 0.09
17 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATTTAATTAAA
Found at i:37999437 original size:9 final size:9
Alignment explanation
Indices: 37999425--37999693 Score: 195
Period size: 9 Copynumber: 29.4 Consensus size: 9
37999415 ATTTGATATC
*
37999425 ATAATTTAT
1 ATAACTTAT
*
37999434 ATAACTTAC
1 ATAACTTAT
*
37999443 A-AACTTAC
1 ATAACTTAT
37999451 ATAACTTAT
1 ATAACTTAT
37999460 ATAACTTAT
1 ATAACTTAT
*
37999469 ATAACTTAC
1 ATAACTTAT
37999478 ATAACTTAT
1 ATAACTTAT
*
37999487 ATAACATAT
1 ATAACTTAT
*
37999496 ATAACTTAC
1 ATAACTTAT
37999505 ATAACTTAT
1 ATAACTTAT
* *
37999514 ATAACATAC
1 ATAACTTAT
37999523 ATAACTTAT
1 ATAACTTAT
37999532 ATAACTTAT
1 ATAACTTAT
*
37999541 ATAACTTAG
1 ATAACTTAT
*
37999550 ATAA-ATAT
1 ATAACTTAT
*
37999558 ATAACTTAC
1 ATAACTTAT
*
37999567 ATAACTTAC
1 ATAACTTAT
37999576 ATAATACTTAAAT
1 AT-A-ACTT--AT
**
37999589 ATATTTTATAT
1 ATA-ACT-TAT
* *
37999600 CATAATTTAC
1 -ATAACTTAT
*
37999610 ATAACTTAC
1 ATAACTTAT
37999619 ATAACTTAT
1 ATAACTTAT
*
37999628 ATAACTTAG
1 ATAACTTAT
*
37999637 ATAA-ATAT
1 ATAACTTAT
* *
37999645 ATAATTTAC
1 ATAACTTAT
*
37999654 ATAA-ATAT
1 ATAACTTAT
* *
37999662 ATATCATAT
1 ATAACTTAT
* *
37999671 CATAAATTAC
1 -ATAACTTAT
*
37999681 ATAACTTAC
1 ATAACTTAT
37999690 ATAA
1 ATAA
37999694 TACTTAAATA
Statistics
Matches: 211, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
8 25 0.12
9 160 0.76
10 8 0.04
11 8 0.04
12 6 0.03
13 4 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (9 bp):
ATAACTTAT
Found at i:37999467 original size:18 final size:18
Alignment explanation
Indices: 37999424--37999693 Score: 216
Period size: 18 Copynumber: 15.3 Consensus size: 18
37999414 TATTTGATAT
*
37999424 CATAATTTATATAACTTA
1 CATAACTTATATAACTTA
*
37999442 CA-AACTTACATAACTTA
1 CATAACTTATATAACTTA
*
37999459 TATAACTTATATAACTTA
1 CATAACTTATATAACTTA
*
37999477 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
* *
37999495 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
* * *
37999513 TATAACATACATAACTTA
1 CATAACTTATATAACTTA
*
37999531 TATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* *
37999549 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
*
37999566 CATAACTTACATAATACTTA
1 CATAACTTATAT-A-ACTTA
* *
37999586 AATATA-TTTTAT-A--T-
1 CATA-ACTTATATAACTTA
* *
37999600 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
37999618 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
37999636 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
37999653 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
37999670 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
37999689 CATAA
1 CATAA
37999694 TACTTAAATA
Statistics
Matches: 204, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
13 1 0.00
14 7 0.03
15 2 0.01
17 54 0.26
18 118 0.58
19 9 0.04
20 12 0.06
21 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:37999482 original size:27 final size:27
Alignment explanation
Indices: 37999424--37999640 Score: 231
Period size: 27 Copynumber: 7.9 Consensus size: 27
37999414 TATTTGATAT
*
37999424 CATAATTTATATAACTTACA-AACTTA
1 CATAACTTATATAACTTACATAACTTA
*
37999450 CATAACTTATATAACTTATATAACTTA
1 CATAACTTATATAACTTACATAACTTA
* *
37999477 CATAACTTATATAACATATATAACTTA
1 CATAACTTATATAACTTACATAACTTA
*
37999504 CATAACTTATATAACATACATAACTTA
1 CATAACTTATATAACTTACATAACTTA
* * *
37999531 TATAACTTATATAACTTAGATAA-ATA
1 CATAACTTATATAACTTACATAACTTA
* *
37999557 TATAACTTACATAACTTACATAATACTTA
1 CATAACTTATATAACTTACAT-A-ACTTA
* * *
37999586 AATATATTTTATATCATAATTTACATAACTTA
1 CATA-A--CT-TAT-ATAACTTACATAACTTA
*
37999618 CATAACTTATATAACTTAGATAA
1 CATAACTTATATAACTTACATAA
37999641 ATATATAATT
Statistics
Matches: 163, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
26 39 0.24
27 90 0.55
28 4 0.02
29 6 0.04
30 1 0.01
31 1 0.01
32 9 0.06
33 3 0.02
34 10 0.06
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.39
Consensus pattern (27 bp):
CATAACTTATATAACTTACATAACTTA
Found at i:37999681 original size:114 final size:114
Alignment explanation
Indices: 37999496--37999717 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
37999486 TATAACATAT
* * *
37999496 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
37999561 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
37999610 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
37999673 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
37999718 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:37999741 original size:43 final size:45
Alignment explanation
Indices: 37999645--37999743 Score: 125
Period size: 43 Copynumber: 2.3 Consensus size: 45
37999635 AGATAAATAT
* *
37999645 ATAATTTACATAAATATATATCATATCATAAATTACATAACTTAC
1 ATAATTTACTTAAATATATATCATATCATAAATAACATAACTTAC
* **
37999690 ATAA--TACTTAAATATATATCATATCATACATAAC-TAGTTTAC
1 ATAATTTACTTAAATATATATCATATCATAAATAACATAACTTAC
37999732 A-AATTTACTTAA
1 ATAATTTACTTAA
37999744 CTTACATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.04
42 7 0.15
43 34 0.72
45 4 0.09
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (45 bp):
ATAATTTACTTAAATATATATCATATCATAAATAACATAACTTAC
Found at i:38003953 original size:21 final size:21
Alignment explanation
Indices: 38003928--38003968 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38003918 ATAAACATAA
* *
38003928 AGAAATAAAAAGCAAAAAAAG
1 AGAAAAAAAAAACAAAAAAAG
*
38003949 AGAAAAAAAAAATAAAAAAA
1 AGAAAAAAAAAACAAAAAAA
38003969 TTACCTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (21 bp):
AGAAAAAAAAAACAAAAAAAG
Found at i:38008751 original size:31 final size:31
Alignment explanation
Indices: 38008705--38008771 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
38008695 TGGTTGTATT
* *
38008705 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
38008736 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
38008767 TTTTA
1 TTTTA
38008772 ATGCAGGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:38008870 original size:43 final size:43
Alignment explanation
Indices: 38008846--38009183 Score: 568
Period size: 43 Copynumber: 7.8 Consensus size: 43
38008836 GTAAAAAAAG
* * *
38008846 CGCCGCTAAAAGCCTTAACGTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
38008889 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
38008932 CGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
38008976 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
38009019 CGCCGCTAAAAGCCTTGACCTTTAGCGGTGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
38009062 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
38009105 CGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
38009149 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
38009184 TTCAATAATT
Statistics
Matches: 282, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
43 198 0.70
44 84 0.30
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
Found at i:38008968 original size:87 final size:86
Alignment explanation
Indices: 38008846--38009183 Score: 586
Period size: 87 Copynumber: 3.9 Consensus size: 86
38008836 GTAAAAAAAG
* * *
38008846 CGCCGCTAAAAGCCTTAACGTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACGTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
38008911 TAGCGGCGCTTTTACCACAAA
66 TAGCGGCGCTTTTACCACAAA
38008932 CGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
*
38008997 TTAGCGGCACTTTTACCACAAA
65 TTAGCGGCGCTTTTACCACAAA
* *
38009019 CGCCGCTAAAAGCCTTGACCTTTAGCGGTGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
*
38009084 TAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTACCACAAA
38009105 CGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
*
38009170 TTAGCGGCGTTTTT
65 TTAGCGGCGCTTTT
38009184 TTCAATAATT
Statistics
Matches: 239, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
86 89 0.37
87 150 0.63
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTACCACAAA
Found at i:38009056 original size:130 final size:129
Alignment explanation
Indices: 38008846--38009183 Score: 595
Period size: 130 Copynumber: 2.6 Consensus size: 129
38008836 GTAAAAAAAG
* * *
38008846 CGCCGCTAAAAGCCTTAACGTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACGTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
38008911 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTACCACAAACGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
38008976 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
*
38009041 TAGCGGTGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
38009105 CGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
*
38009170 TTAGCGGCGTTTTT
65 TTAGCGGCGCTTTT
38009184 TTCAATAATT
Statistics
Matches: 197, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
129 43 0.22
130 154 0.78
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (129 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:38009112 original size:173 final size:173
Alignment explanation
Indices: 38008846--38009177 Score: 610
Period size: 173 Copynumber: 1.9 Consensus size: 173
38008836 GTAAAAAAAG
* * *
38008846 CGCCGCTAAAAGCCTTAACGTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACGTT
1 CGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
38008911 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
38008976 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTTTACCACAAA
131 CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTTTACCACAAA
* *
38009019 CGCCGCTAAAAGCCTTGACCTTTAGCGGTGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
*
38009084 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
38009149 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
131 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
38009178 GTTTTTTTCA
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 153 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (173 bp):
CGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
CGCCGCTAAAAGCCTTGACCTTTAGCGGCACTTTTACCACAAA
Found at i:38009402 original size:64 final size:64
Alignment explanation
Indices: 38009316--38009448 Score: 185
Period size: 64 Copynumber: 2.1 Consensus size: 64
38009306 TACGGGTATA
* ** *
38009316 TACTTCGGTTAAATTCCAATGATGCACTAAGTGTTAAAATGATATGATAGTGCTAAGCACATAT
1 TACTTCGGTTAAATTCCAATGATACACTAAGTGCCAAAATGATATGATAGGGCTAAGCACATAT
* * * * *
38009380 TACTTCGGTTATATTTCGATGATACACTAAGTGCCAGAATGATATGATAGGGCTAAGCGCATAT
1 TACTTCGGTTAAATTCCAATGATACACTAAGTGCCAAAATGATATGATAGGGCTAAGCACATAT
38009444 TACTT
1 TACTT
38009449 TGGACTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (64 bp):
TACTTCGGTTAAATTCCAATGATACACTAAGTGCCAAAATGATATGATAGGGCTAAGCACATAT
Found at i:38013453 original size:24 final size:24
Alignment explanation
Indices: 38013413--38013474 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
38013403 AAGCTACATG
*
38013413 ATATAT-ATATAAAAAAAAATCAAA
1 ATATATAATAT-ATAAAAAATCAAA
** *
38013437 ATATATAATATATAAAAGTTTAAA
1 ATATATAATATATAAAAAATCAAA
*
38013461 ATAAATAATATATA
1 ATATATAATATATA
38013475 CATAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 28 0.88
25 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
ATATATAATATATAAAAAATCAAA
Found at i:38013527 original size:57 final size:53
Alignment explanation
Indices: 38013415--38013518 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 53
38013405 GCTACATGAT
* * *
38013415 ATATATATAAAAAAAAATCAAAATATATAATATATAAAAGTTTAAAATAAATA
1 ATATATACAAAAAAAAATCAAAATAAATAATATATAAAAATTTAAAATAAATA
*
38013468 ATATATACATAAAAAAAT-AAAATAAATAATATATGAAATAATTTAAAATAA
1 ATATATACAAAAAAAAATCAAAATAAATAATATAT-AAA-AATTTAAAATAA
38013519 TATGTAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
52 15 0.33
53 19 0.42
54 11 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (53 bp):
ATATATACAAAAAAAAATCAAAATAAATAATATATAAAAATTTAAAATAAATA
Found at i:38023383 original size:14 final size:15
Alignment explanation
Indices: 38023351--38023407 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
38023341 TCACAGTTTG
38023351 ATTCTCAATTTTCTT
1 ATTCTCAATTTTCTT
*
38023366 ATTCTCGATTTT-TT
1 ATTCTCAATTTTCTT
* * *
38023380 ATTCTTAATTGTC-A
1 ATTCTCAATTTTCTT
*
38023394 ATTCTCGATTTTCT
1 ATTCTCAATTTTCT
38023408 AATCTAAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.19, C:0.18, G:0.05, T:0.58
Consensus pattern (15 bp):
ATTCTCAATTTTCTT
Found at i:38023423 original size:28 final size:28
Alignment explanation
Indices: 38023366--38023425 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
38023356 CAATTTTCTT
* * * **
38023366 ATTCTCGATTTTTTATTCTTAATTGTCA
1 ATTCTCGATTTTCTAATCTAAATTCCCA
38023394 ATTCTCGATTTTCTAATCTAAATTCCCA
1 ATTCTCGATTTTCTAATCTAAATTCCCA
38023422 ATTC
1 ATTC
38023426 CAAAGTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (28 bp):
ATTCTCGATTTTCTAATCTAAATTCCCA
Found at i:38023608 original size:52 final size:52
Alignment explanation
Indices: 38023546--38023652 Score: 146
Period size: 52 Copynumber: 2.1 Consensus size: 52
38023536 ACAAATGGTA
* * **
38023546 AGAAAATATTAT-TTAATTATTT-ATTTTTAATCCGTTAATTATTATGATGTTT
1 AGAAAATATTATCAT-ATTATTTAATTTTAAAT-AATTAATTATTATGATGTTT
38023598 AGAAAATATTATCATATTATTTAATTTTAAATAATTAATTATTATGATGTTT
1 AGAAAATATTATCATATTATTTAATTTTAAATAATTAATTATTATGATGTTT
38023650 AGA
1 AGA
38023653 TTAATAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 40 0.82
53 9 0.18
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.50
Consensus pattern (52 bp):
AGAAAATATTATCATATTATTTAATTTTAAATAATTAATTATTATGATGTTT
Found at i:38023828 original size:21 final size:23
Alignment explanation
Indices: 38023790--38023835 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
38023780 TAAAATTTTT
38023790 AATTTATTTTTA-AATTTTAAAG
1 AATTTATTTTTATAATTTTAAAG
**
38023812 AATTT-TTTTTATTTTTTTAAAG
1 AATTTATTTTTATAATTTTAAAG
38023834 AA
1 AA
38023836 AGAAAGAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
AATTTATTTTTATAATTTTAAAG
Found at i:38028946 original size:16 final size:16
Alignment explanation
Indices: 38028925--38028959 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
38028915 ATCTATTAAG
38028925 TAATTTACAA-TTAAAT
1 TAATTTA-AATTTAAAT
38028941 TAATTTAAATTTAAAT
1 TAATTTAAATTTAAAT
38028957 TAA
1 TAA
38028960 ATATCATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATTTAAATTTAAAT
Found at i:38030508 original size:19 final size:19
Alignment explanation
Indices: 38030480--38030534 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
38030470 ATTACAAAAT
*
38030480 AATTTCAAAATAATTTTTAA
1 AATTTCAAAAT-ATTTATAA
38030500 AATTT-AAAATATTTATAA
1 AATTTCAAAATATTTATAA
* *
38030518 AAATTCCAAA-ATTTATA
1 AATTTCAAAATATTTATA
38030535 TTTTGGGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 18 0.58
19 8 0.26
20 5 0.16
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTCAAAATATTTATAA
Found at i:38030518 original size:18 final size:20
Alignment explanation
Indices: 38030480--38030529 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
38030470 ATTACAAAAT
*
38030480 AATTTCAAAATAATTTTTAA
1 AATTTCAAAATAATTTATAA
38030500 AATTT-AAAAT-ATTTATAAA
1 AATTTCAAAATAATTTAT-AA
*
38030519 AATTCCAAAAT
1 AATTTCAAAAT
38030530 TTATATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 10 0.38
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTCAAAATAATTTATAA
Found at i:38031080 original size:28 final size:29
Alignment explanation
Indices: 38031034--38031091 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
38031024 GAAGTAGAAG
38031034 AGAATGGAAAATTAAAAAATAAAA-AAAA
1 AGAATGGAAAATTAAAAAATAAAAGAAAA
*
38031062 AGAA-GGAAAGTTATAAAAATAAAAGAAAA
1 AGAATGGAAAATTA-AAAAATAAAAGAAAA
38031091 A
1 A
38031092 AATTGAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.30
28 14 0.52
29 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (29 bp):
AGAATGGAAAATTAAAAAATAAAAGAAAA
Found at i:38036066 original size:311 final size:311
Alignment explanation
Indices: 38035503--38036125 Score: 1192
Period size: 311 Copynumber: 2.0 Consensus size: 311
38035493 TTCCTACAAG
38035503 CCTCCAAATATCCAGAATGGGTGGCTAACATAGTCCCGGTACCAAAGAAAGACGGCAAAGTACGA
1 CCTCCAAATATCCAGAATGGGTGGCTAACATAGTCCCGGTACCAAAGAAAGACGGCAAAGTACGA
38035568 ATGTGCGTGAATTATCGTGACCTGAATCGAGCAAGTCCTAAAGATAATTTTCCCTTACCACACAT
66 ATGTGCGTGAATTATCGTGACCTGAATCGAGCAAGTCCTAAAGATAATTTTCCCTTACCACACAT
*
38035633 TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTTTCGGGGT
131 TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
38035698 ATAATCAGATCAAGATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATGTAGGGAACA
196 ATAATCAGATCAAGATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATGTAGGGAACA
38035763 TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
261 TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
* * * *
38035814 CCTCCAAATATCTAGAATGGGTGGCTAACATAGTCCCGGTACTAAAGAAAGACTGTAAAGTACGA
1 CCTCCAAATATCCAGAATGGGTGGCTAACATAGTCCCGGTACCAAAGAAAGACGGCAAAGTACGA
*
38035879 ATGTGCGTGAATTATCGTGACCTGAATCGAGCAAGTCCTAAAGTTAATTTTCCCTTACCACACAT
66 ATGTGCGTGAATTATCGTGACCTGAATCGAGCAAGTCCTAAAGATAATTTTCCCTTACCACACAT
38035944 TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
131 TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
38036009 ATAATCAGATCAAGATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATGTAGGGAACA
196 ATAATCAGATCAAGATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATGTAGGGAACA
38036074 TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
261 TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
38036125 C
1 C
38036126 AGAGGGCTAT
Statistics
Matches: 306, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
311 306 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (311 bp):
CCTCCAAATATCCAGAATGGGTGGCTAACATAGTCCCGGTACCAAAGAAAGACGGCAAAGTACGA
ATGTGCGTGAATTATCGTGACCTGAATCGAGCAAGTCCTAAAGATAATTTTCCCTTACCACACAT
TGATACGTTGGTGGATAACACAATAAAACATTCATTGTTTTCCTTCATGGATGGATTCTCGGGGT
ATAATCAGATCAAGATGGCCCCTGAGGATATGGAGAAAACTACCTTCGTAACAATGTAGGGAACA
TTCTATTACAAGGTGATGCCATTTGGGTTAAAGAATACTGGGGCAACATAT
Found at i:38038671 original size:19 final size:18
Alignment explanation
Indices: 38038630--38038668 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
38038620 TCGTGTTGAG
*
38038630 AAAGATTCTTTCAATACA
1 AAAGATTCTCTCAATACA
38038648 AAAGATTCTCTCAATACA
1 AAAGATTCTCTCAATACA
38038666 AAA
1 AAA
38038669 AGACATACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAGATTCTCTCAATACA
Found at i:38039859 original size:73 final size:73
Alignment explanation
Indices: 38039707--38039938 Score: 263
Period size: 73 Copynumber: 3.1 Consensus size: 73
38039697 GAATTTTTGT
38039707 TTTTCAAAAAATCAACTT-ATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTT
1 TTTTC-AAAAATCAA-TTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTT
* **
38039770 TCGATTTCTG
64 TCAATTAATG
* * * * *
38039780 TTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTT
1 -TTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTT
38039845 TCAATTAATG
64 TCAATTAATG
* * * *
38039855 -TTTCAAAAATTAACTCATATTGCGAGAGCTGAGTTGACCCTCAGGACACACGCTGAGGTATTTT
1 TTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTT
**
38039919 CAATTCCTG
65 CAATTAATG
38039928 TTTTCTAAAAA
1 TTTTC-AAAAA
38039939 AAAAGAAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
72 2 0.02
73 96 0.72
74 9 0.07
75 26 0.20
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (73 bp):
TTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTC
AATTAATG
Found at i:38040008 original size:87 final size:89
Alignment explanation
Indices: 38039866--38040027 Score: 224
Period size: 87 Copynumber: 1.8 Consensus size: 89
38039856 TTCAAAAATT
*
38039866 AACTCATATTGCGAGAGCTGAGTTGACCCTCAGGACACACGCTGAGGTATTTTCAATTCCTG-TT
1 AACTCATATTGCGAGAGCTGAGTTGACCCTCAGGACACACGCCGAGGTATTTTCAATTCCTGCTT
38039930 TTCTAAAAAAAAAGAAAAAAAAGTC
66 TTC-AAAAAAAAAGAAAAAAAAGTC
* * ** *
38039955 AACTCGTATTGCGAGAGGC-GAGTTGAGCCTC-GG-GGCACGCCGAGGTATTTTCAATTTCTGCT
1 AACTCATATTGCGAGA-GCTGAGTTGACCCTCAGGACACACGCCGAGGTATTTTCAATTCCTGCT
38040017 TTTCAAAAAAA
65 TTTCAAAAAAA
38040028 TTAACTCATA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
87 30 0.46
88 7 0.11
89 26 0.40
90 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
AACTCATATTGCGAGAGCTGAGTTGACCCTCAGGACACACGCCGAGGTATTTTCAATTCCTGCTT
TTCAAAAAAAAAGAAAAAAAAGTC
Found at i:38040053 original size:75 final size:76
Alignment explanation
Indices: 38039945--38040097 Score: 209
Period size: 75 Copynumber: 2.0 Consensus size: 76
38039935 AAAAAAAAGA
* * * **
38039945 AAAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAT
1 AAAAAAAGTCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGCACACGCCGAGGTATTTTCAAT
*
38040010 TTCTGCTTTTC
66 TTCTACTTTTC
* * *
38040021 AAAAAAA-TTAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAAT
1 AAAAAAAGTCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGCACACGCCGAGGTATTTTCAAT
*
38040085 TTCTATTTTTC
66 TTCTACTTTTC
38040096 AA
1 AA
38040098 TTTATATTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 60 0.90
76 7 0.10
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (76 bp):
AAAAAAAGTCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGCACACGCCGAGGTATTTTCAAT
TTCTACTTTTC
Found at i:38040096 original size:14 final size:14
Alignment explanation
Indices: 38040077--38040111 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
38040067 CGCTGAGGTA
*
38040077 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
38040091 TTTTCAATTTATAT
1 TTTTCAATTTATAT
38040105 TTTTCAA
1 TTTTCAA
38040112 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:38040109 original size:89 final size:88
Alignment explanation
Indices: 38040002--38040324 Score: 271
Period size: 88 Copynumber: 3.7 Consensus size: 88
38039992 CGCCGAGGTA
* ** *
38040002 TTTTCAATTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACA
1 TTTTCAATTTATATTTTTC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACA
*
38040067 CGCTGAGGTATTTTCAATTTCTAT
65 CGCTGAGGTATTTTCAATTTCTGT
* * * *
38040091 TTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGTCATA
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG-CACA
* ** *
38040155 TG-TCGAGGTATTTTCAAAATCTGC
65 CGCT-GAGGTATTTTCAATTTCTGT
* * ** * * * ** *
38040179 TTTTCAAATTA-AGTTTAAAAAAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACAC
* *
38040243 GTGCTGAGCTATTTTCAATTTTTGT
66 --GCTGAGGTATTTTCAATTTCTGT
* * * * * * *
38040268 TTTT-AATGTCTGTTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAG
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG
38040325 GATCACATGC
Statistics
Matches: 183, Mismatches: 44, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
87 46 0.25
88 97 0.53
89 39 0.21
90 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGCACAC
GCTGAGGTATTTTCAATTTCTGT
Found at i:38040121 original size:162 final size:163
Alignment explanation
Indices: 38039780--38040186 Score: 461
Period size: 162 Copynumber: 2.5 Consensus size: 163
38039770 TCGATTTCTG
* * *
38039780 TTTTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCCGAGGTATTT
** *
38039845 TCAATTAATG--TTTC--AAAAATTAACTCATATTGCGAGAGCTGAGTTGACCCTCAGGACACAC
64 TCAATTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGATGAGTTGACCCTCAGGACACAC
38039906 GCTGAGGTATTTTCAATTCCTGTTTTCTAAAAAAA
129 GCTGAGGTATTTTCAATTCCTGTTTTCTAAAAAAA
****** * * *
38039941 AAGAAAAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
1 TTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
*
38040006 CAATTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCA-G-CACACG
65 CAATTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGATGAGTTGACCCTCAGGACACACG
* * ** *
38040069 CTGAGGTATTTTCAATTTCTATTTT-TCAATTTATA
130 CTGAGGTATTTTCAATTCCTGTTTTCT-AA-AAAAA
* * *
38040104 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-GGTCATATGTCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC--ACGCCGAGGTATTT
**
38040168 TCAAAATCTGCTTTTCAAA
64 TCAATTTCTGCTTTTCAAA
38040187 TTAAGTTTAA
Statistics
Matches: 202, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
160 20 0.10
161 9 0.04
162 99 0.49
163 37 0.18
164 37 0.18
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (163 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTC
AATTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGATGAGTTGACCCTCAGGACACACGC
TGAGGTATTTTCAATTCCTGTTTTCTAAAAAAA
Found at i:38040585 original size:44 final size:44
Alignment explanation
Indices: 38040516--38040611 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
38040506 TATCTTCCTG
38040516 AAGATACAGCAGAAAAGCAGATCACAACAAATTTTATATCCCTA
1 AAGATACAGCAGAAAAGCAGATCACAACAAATTTTATATCCCTA
* * * *
38040560 AAGATATAGCAGAAGAGCA-ACTCACAACGAATTTTATATCCCTG
1 AAGATACAGCAGAAAAGCAGA-TCACAACAAATTTTATATCCCTA
38040604 AAGATACA
1 AAGATACA
38040612 AGTAGACTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.02
44 45 0.98
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.21
Consensus pattern (44 bp):
AAGATACAGCAGAAAAGCAGATCACAACAAATTTTATATCCCTA
Found at i:38042034 original size:3 final size:3
Alignment explanation
Indices: 38042026--38042076 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
38042016 TCCCCTATAA
38042026 ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38042073 ATT A
1 ATT A
38042077 GTATATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:38042291 original size:23 final size:25
Alignment explanation
Indices: 38042237--38042291 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
38042227 CATATACTAT
*
38042237 TATGTATACATTTTAATGTTATTAG
1 TATGTATACATTTTAATGCTATTAG
* *
38042262 T-TATATACCTTTT-ATGCTATT-G
1 TATGTATACATTTTAATGCTATTAG
38042284 TATGTATA
1 TATGTATA
38042292 TTCTTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 12 0.48
24 10 0.40
25 1 0.04
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (25 bp):
TATGTATACATTTTAATGCTATTAG
Found at i:38042521 original size:26 final size:26
Alignment explanation
Indices: 38042448--38042531 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 26
38042438 TTACTAGTTA
**
38042448 TATATATTTCTTATA-CAT-TTCCATG
1 TATATATTT-TTATACCATATTATATG
* *
38042473 TACATATTTTTATACCAT-CT-TATG
1 TATATATTTTTATACCATATTATATG
*
38042497 TATATATTTTTAAATACTATATTATATG
1 TATATATTTTT--ATACCATATTATATG
38042525 TATATAT
1 TATATAT
38042532 ATATATATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 18 0.38
25 12 0.25
26 6 0.12
27 1 0.02
28 11 0.23
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (26 bp):
TATATATTTTTATACCATATTATATG
Found at i:38042703 original size:2 final size:2
Alignment explanation
Indices: 38042654--38042692 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
38042644 ATATTGTATT
38042654 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38042693 CAGGTATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38044075 original size:21 final size:21
Alignment explanation
Indices: 38044045--38044084 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38044035 GGCTTAATTT
* *
38044045 AATTTGATTTAATTTGACTTG
1 AATTTCATTTAATTCGACTTG
*
38044066 AATTTCATTTTATTCGACT
1 AATTTCATTTAATTCGACT
38044085 CGATTTAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (21 bp):
AATTTCATTTAATTCGACTTG
Found at i:38049442 original size:29 final size:31
Alignment explanation
Indices: 38049379--38049457 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 31
38049369 TGAAACCCTT
* *
38049379 ATTTGAACATTTTTAAAAAGATTTAAAGTTT
1 ATTTGAACATTTTTAAAAAGATTTAAACTTC
* *
38049410 ATTTGATCA-TTTT-AAAAGATTTGAACTTC
1 ATTTGAACATTTTTAAAAAGATTTAAACTTC
*
38049439 ATTTTAACAGTTTTGTAAA
1 ATTTGAACA-TTTT-TAAA
38049458 GATTAAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.53
30 4 0.11
31 11 0.29
32 1 0.03
33 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (31 bp):
ATTTGAACATTTTTAAAAAGATTTAAACTTC
Found at i:38052046 original size:24 final size:22
Alignment explanation
Indices: 38052003--38052049 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
38051993 TTTTAAAAAT
* *
38052003 ATTTTTAATTAATATGTTTAAA
1 ATTTTAAATTAATATATTTAAA
38052025 ATTTTAAATTAAATTATATTTAAA
1 ATTTTAAATT-AA-TATATTTAAA
38052049 A
1 A
38052050 AAATGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 2 0.10
24 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTAAATTAATATATTTAAA
Found at i:38055191 original size:28 final size:28
Alignment explanation
Indices: 38055159--38055242 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
38055149 AACTGTGATC
38055159 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
38055187 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
38055209 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
38055237 ACGTGT
1 ACGTGT
38055243 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:38055222 original size:50 final size:49
Alignment explanation
Indices: 38055111--38055286 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 49
38055101 TGAGGTCGCA
* * * * * *
38055111 TGTGTAGTATTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
38055162 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
***
38055212 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
38055261 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
38055287 TGCGTACTAG
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 31 0.28
50 46 0.42
51 32 0.29
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:38057664 original size:10 final size:10
Alignment explanation
Indices: 38057651--38057701 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
38057641 AGCTCACTTG
*
38057651 AGCTTGTTTC
1 AGCTCGTTTC
*
38057661 AGCTCGTTTG
1 AGCTCGTTTC
38057671 AGCTCGATTT-
1 AGCTCG-TTTC
*
38057681 AGCTTCTTTTC
1 AGC-TCGTTTC
38057692 AGCTCGTTTC
1 AGCTCGTTTC
38057702 TTTTTCTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:38066984 original size:50 final size:50
Alignment explanation
Indices: 38066909--38067011 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
38066899 AAACTGGGAA
38066909 TTACTTCAAGTTGATTTACTTTAAGCTAGGGTCAAAATCAATGTTTAAAT
1 TTACTTCAAGTTGATTTACTTTAAGCTAGGGTCAAAATCAATGTTTAAAT
38066959 TTACTTCAAGTTGATTTACTTTAAGCTAGGGTCAAAATCAATGTTTAAAT
1 TTACTTCAAGTTGATTTACTTTAAGCTAGGGTCAAAATCAATGTTTAAAT
38067009 TTA
1 TTA
38067012 TCATAACTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (50 bp):
TTACTTCAAGTTGATTTACTTTAAGCTAGGGTCAAAATCAATGTTTAAAT
Found at i:38069772 original size:23 final size:21
Alignment explanation
Indices: 38069752--38069791 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38069742 ACCGAAAGAC
38069752 TGCTAGAAACAGAGAGAAAAG
1 TGCTAGAAACAGAGAGAAAAG
* *
38069773 TGGTAGAAATAGAGAGAAA
1 TGCTAGAAACAGAGAGAAA
38069792 CGTTGATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.30, T:0.12
Consensus pattern (21 bp):
TGCTAGAAACAGAGAGAAAAG
Found at i:38070869 original size:21 final size:23
Alignment explanation
Indices: 38070845--38070897 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
38070835 TAGATTTAAA
38070845 AATTTTAATTTTAATTGA-A-TT
1 AATTTTAATTTTAATTGAGATTT
* *
38070866 AATTTTAAATTTAGTTGAGATTT
1 AATTTTAATTTTAATTGAGATTT
*
38070889 AATTATAAT
1 AATTTTAAT
38070898 CTAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 16 0.62
22 1 0.04
23 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (23 bp):
AATTTTAATTTTAATTGAGATTT
Found at i:38072984 original size:13 final size:14
Alignment explanation
Indices: 38072966--38072994 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38072956 CTATCGTAAT
38072966 AATATTT-TATAAA
1 AATATTTATATAAA
38072979 AATATTTATATAAA
1 AATATTTATATAAA
38072993 AA
1 AA
38072995 CAGGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATTTATATAAA
Found at i:38073853 original size:10 final size:10
Alignment explanation
Indices: 38073838--38073864 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38073828 ATACTCACTA
38073838 TCTTTTAGCT
1 TCTTTTAGCT
38073848 TCTTTTAGCT
1 TCTTTTAGCT
38073858 TCTTTTA
1 TCTTTTA
38073865 TCGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.07, T:0.63
Consensus pattern (10 bp):
TCTTTTAGCT
Found at i:38077713 original size:4 final size:4
Alignment explanation
Indices: 38077704--38077750 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
38077694 TCTTTTTTTC
*
38077704 TCTT TCTT TCTT T-TT TCTT CTCTT CCTGT TCTT TCTT TCTT T-TT TCT
1 TCTT TCTT TCTT TCTT TCTT -TCTT TCT-T TCTT TCTT TCTT TCTT TCT
38077751 CACTTTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 6 0.16
4 24 0.65
5 7 0.19
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (4 bp):
TCTT
Found at i:38077716 original size:18 final size:19
Alignment explanation
Indices: 38077692--38077743 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
38077682 ACTAATTCAC
*
38077692 GTTCTTTTTTTCTCTTTCT
1 GTTCTTTTTTTCTCTTCCT
38077711 -TTCTTTTTTCTTCTCTTCCT
1 GTTC-TTTTT-TTCTCTTCCT
*
38077731 GTTCTTTCTTTCT
1 GTTCTTTTTTTCT
38077744 TTTTTCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 3 0.11
19 9 0.32
20 13 0.46
21 3 0.11
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (19 bp):
GTTCTTTTTTTCTCTTCCT
Found at i:38077762 original size:29 final size:28
Alignment explanation
Indices: 38077695--38077762 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
38077685 AATTCACGTT
*
38077695 CTTTTTT-TCTCTTTCTTTCTTTTTTCTT
1 CTTTTTTGT-TCTTTCTTTCTTTTTTCTA
**
38077723 CTCTTCCTGTTCTTTCTTTCTTTTTTCTCA
1 CT-TTTTTGTTCTTTCTTTCTTTTTTCT-A
38077753 CTTTTTTGTT
1 CTTTTTTGTT
38077763 TCTAAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.06
29 27 0.84
30 3 0.09
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (28 bp):
CTTTTTTGTTCTTTCTTTCTTTTTTCTA
Found at i:38079687 original size:70 final size:70
Alignment explanation
Indices: 38079613--38079844 Score: 196
Period size: 70 Copynumber: 3.1 Consensus size: 70
38079603 TTACATGTCC
*
38079613 GTGTGGTAGGTCGTATGGCAGGTTATGTAGGTCACACAACCATGTGGTTGGCCTTGTAGGTTACA
1 GTGTGATAGGTCGTATGGCAGGTTATGTAGGTCACACAACCATGTGGTTGGCCTTGTAGGTTACA
38079678 CGATT
66 CGATT
* * * * * * ** **
38079683 GTGTGATAGGCCGTGTGGCAGATTGTATGGGTCACAGGACTGTGTGGTAAGTTGTGTGGCAAACC
1 GTGTGATAGGTCGTATGGCAGGTTATGTAGGTCACACAAC--CAT-GT--G--GT-TGG----CC
* * * *
38079748 GTATAGGTTACATG-TCC
54 TTGTAGGTTACACGAT-T
*
38079765 GTGTGGTAGGTCGTATGGCAGGTTATGTAGGTCACACAACCATGTGGTTGGCCTTGTAGGTTACA
1 GTGTGATAGGTCGTATGGCAGGTTATGTAGGTCACACAACCATGTGGTTGGCCTTGTAGGTTACA
38079830 CGATT
66 CGATT
38079835 GTGTGATAGG
1 GTGTGATAGG
38079845 CCGTGTGTGT
Statistics
Matches: 117, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
70 53 0.45
71 1 0.01
72 1 0.01
73 2 0.02
74 3 0.03
75 3 0.03
77 3 0.03
78 3 0.03
79 2 0.02
80 1 0.01
81 1 0.01
82 44 0.38
ACGTcount: A:0.20, C:0.15, G:0.34, T:0.31
Consensus pattern (70 bp):
GTGTGATAGGTCGTATGGCAGGTTATGTAGGTCACACAACCATGTGGTTGGCCTTGTAGGTTACA
CGATT
Found at i:38079736 original size:152 final size:152
Alignment explanation
Indices: 38079523--38079851 Score: 624
Period size: 152 Copynumber: 2.2 Consensus size: 152
38079513 TATTGATGTC
* *
38079523 ACACGATCGTGTG-TCAGGCCGTGTGGCAGATTGTGTGGGTCACAGGACTGTGTGGTAAGTTGTG
1 ACACGATTGTGTGAT-AGGCCGTGTGGCAGATTGTATGGGTCACAGGACTGTGTGGTAAGTTGTG
38079587 TGGCAAACCGTATAGGTTACATGTCCGTGTGGTAGGTCGTATGGCAGGTTATGTAGGTCACACAA
65 TGGCAAACCGTATAGGTTACATGTCCGTGTGGTAGGTCGTATGGCAGGTTATGTAGGTCACACAA
38079652 CCATGTGGTTGGCCTTGTAGGTT
130 CCATGTGGTTGGCCTTGTAGGTT
38079675 ACACGATTGTGTGATAGGCCGTGTGGCAGATTGTATGGGTCACAGGACTGTGTGGTAAGTTGTGT
1 ACACGATTGTGTGATAGGCCGTGTGGCAGATTGTATGGGTCACAGGACTGTGTGGTAAGTTGTGT
38079740 GGCAAACCGTATAGGTTACATGTCCGTGTGGTAGGTCGTATGGCAGGTTATGTAGGTCACACAAC
66 GGCAAACCGTATAGGTTACATGTCCGTGTGGTAGGTCGTATGGCAGGTTATGTAGGTCACACAAC
38079805 CATGTGGTTGGCCTTGTAGGTT
131 CATGTGGTTGGCCTTGTAGGTT
38079827 ACACGATTGTGTGATAGGCCGTGTG
1 ACACGATTGTGTGATAGGCCGTGTG
38079852 TGTGAATCTG
Statistics
Matches: 174, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
152 173 0.99
153 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.35, T:0.30
Consensus pattern (152 bp):
ACACGATTGTGTGATAGGCCGTGTGGCAGATTGTATGGGTCACAGGACTGTGTGGTAAGTTGTGT
GGCAAACCGTATAGGTTACATGTCCGTGTGGTAGGTCGTATGGCAGGTTATGTAGGTCACACAAC
CATGTGGTTGGCCTTGTAGGTT
Found at i:38084533 original size:12 final size:12
Alignment explanation
Indices: 38084516--38084551 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
38084506 TCATGACTGA
38084516 CATTCATGCATT
1 CATTCATGCATT
*
38084528 CATTCATGCATC
1 CATTCATGCATT
*
38084540 CATTCATTCATT
1 CATTCATGCATT
38084552 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:38084545 original size:16 final size:17
Alignment explanation
Indices: 38084524--38084555 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38084514 GACATTCATG
38084524 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
38084540 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
38084556 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:38093107 original size:72 final size:71
Alignment explanation
Indices: 38093031--38093167 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 71
38093021 AAATCAACTC
* * * *
38093031 ATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTATTTTAATT
1 ATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT-TTTCAATT
38093096 TCAATTT
65 TCAATTT
*
38093103 ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTT
1 ATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTT
38093168 ACGTTGTTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
71 8 0.13
72 52 0.87
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (71 bp):
ATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTT
CAATTT
Found at i:38093273 original size:140 final size:140
Alignment explanation
Indices: 38093103--38093444 Score: 621
Period size: 140 Copynumber: 2.4 Consensus size: 140
38093093 ATTTCAATTT
38093103 ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTT
1 ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTT
* * *
38093168 ACGTTGTTCAAGAATCGACTTATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
66 ACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
38093233 AAATCAGCTC
131 AAATCAGCTC
38093243 ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTT
1 ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTT
*
38093308 ACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTTTACTTTTTCA
66 ACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
38093373 AAATCAGCTC
131 AAATCAGCTC
* * *
38093383 ATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
38093445 AATCAACTCA
Statistics
Matches: 195, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 195 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (140 bp):
ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTT
ACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCA
AAATCAGCTC
Found at i:38093581 original size:190 final size:190
Alignment explanation
Indices: 38093325--38093877 Score: 952
Period size: 190 Copynumber: 2.9 Consensus size: 190
38093315 TCAAGAATCA
* * * * *
38093325 ACTCATATTGCGAGAAGTGGGTTGAA-CCTTTTAATTTTTACTTTTTC---AAAATCAGCTCATA
1 ACTCATGTTGCGAGAGGTGAGTT-AAGCCTTTTAATTTCTA-TTTTTCAAAAAAATCAACTCATA
* *
38093386 TTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATCAA
64 TTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATCAA
38093451 CTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAAGCTGAGGTACTTTTAGTTTTAAATTG
129 CTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAAGCTGAGGTACTTTTAGTTTTAAATTG
38093513 ACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATT
1 ACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATT
38093578 GCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATCAACT
66 GCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATCAACT
38093643 CATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAAGCTGAGGTACTTTTAGTTTTAAATTG
131 CATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAAGCTGAGGTACTTTTAGTTTTAAATTG
38093703 ACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATT
1 ACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATT
38093768 GCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAAC
66 GCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTC-AAAATCAAC
* *
38093833 TCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
130 TCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCA-A-GCTGAGGT
38093878 GTTTTCAACT
Statistics
Matches: 349, Mismatches: 9, Indels: 9
0.95 0.02 0.02
Matches are distributed among these distances:
187 8 0.02
188 33 0.09
190 258 0.74
191 41 0.12
192 1 0.00
193 8 0.02
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (190 bp):
ACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTATTTTTCAAAAAAATCAACTCATATT
GCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATCAACT
CATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAAGCTGAGGTACTTTTAGTTTTAAATTG
Found at i:38094175 original size:76 final size:75
Alignment explanation
Indices: 38093731--38094276 Score: 737
Period size: 75 Copynumber: 7.3 Consensus size: 75
38093721 GAGTTAAGCC
* *
38093731 TTTT-AATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
38093795 CGCTGAGGTA
66 CGCTGAGGTA
* *
38093805 ATTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
38093867 CACGCTGAGGTG
64 CACGCTGAGGTA
*
38093879 TTTTCAACTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
38093944 CGCTGAGGTA
66 CGCTGAGGTA
* * ** *
38093954 ATTTCAATTTCTG-TTGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
38094018 ATGCTGAGGTA
65 ACGCTGAGGTA
* * * ** *
38094029 TTTTCAATTTCAGTTTTTCAAAAAAATCAATTCATATTGTGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
38094094 TGCTGAGATA
66 CGCTGAGGTA
38094104 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
38094169 ACGCTGAGGTA
65 ACGCTGAGGTA
* * * * *
38094180 ATTTCAATTTCTG-TTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
38094244 CACG-TCAAGGTA
64 CACGCT-GAGGTA
*
38094256 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
38094277 TTTCTGCCTT
Statistics
Matches: 422, Mismatches: 37, Indels: 23
0.88 0.08 0.05
Matches are distributed among these distances:
72 41 0.10
74 75 0.18
75 174 0.41
76 86 0.20
77 46 0.11
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:38094353 original size:95 final size:95
Alignment explanation
Indices: 38094198--38094371 Score: 217
Period size: 95 Copynumber: 1.8 Consensus size: 95
38094188 TTCTGTTGTC
* * *
38094198 AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGTCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCAAGCTATTTTCAA
*
38094263 TTTCCGTTTTTCAATTTCTGCCTTTCAAAA
66 TTTCCGTCTTTCAATTTCTGCCTTTCAAAA
* * * * * *
38094293 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGATCACGCG-CTGAGCTATTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGTC-AAGCTATTTTC
*
38094356 AATTTCTGTCTTTCAA
64 AATTTCCGTCTTTCAA
38094372 AAAAATCAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
94 3 0.05
95 63 0.95
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (95 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCAAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTGCCTTTCAAAA
Found at i:38094411 original size:172 final size:168
Alignment explanation
Indices: 38094104--38094533 Score: 643
Period size: 172 Copynumber: 2.6 Consensus size: 168
38094094 TGCTGAGATA
** * *
38094104 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGAT
* * * *
38094168 CA--CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTT
65 CACGCGCTGAGCTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTT
* *
38094231 GAGCCTCAGGTCACACGTCAAGGTATTTTCAATTTCCGT
130 GAGCCTCAGATCACACGCCAAGGTATTTTCAATTTCCGT
38094270 TTTTCAATTTCTGCCTTTCAAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
1 TTTTCAATTTCTGCCTTTC---AAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
* * *
38094335 ATCACGCGCTGAGCTATTTTTAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
63 ATCACGCGCTGAGCTATTTTCAATTTCTGT-TGTCAAAAAAATCAACTCATATTGCGAGAGGCGA
* *
38094400 GTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTTCGT
127 GTTGAGCCTCAGATCACACGCCAAGGTATTTTCAATTTCCGT
*
38094442 TTTTCAATTTCTGCCTTTC-AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATC
38094506 ACGCGCTGAGCTATTTTCAATTTCTGTT
66 ACGCGCTGAGCTATTTTCAATTTCTGTT
38094534 TTTAATGTCT
Statistics
Matches: 240, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
166 17 0.07
167 1 0.00
168 73 0.30
169 41 0.17
171 21 0.09
172 87 0.36
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (168 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATC
ACGCGCTGAGCTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTG
AGCCTCAGATCACACGCCAAGGTATTTTCAATTTCCGT
Found at i:38094448 original size:77 final size:77
Alignment explanation
Indices: 38094270--38094437 Score: 228
Period size: 77 Copynumber: 2.1 Consensus size: 77
38094260 CAATTTCCGT
* * **
38094270 TTTTCAATTTCTGCCTTTCAAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
1 TTTTCAATTTCTGTCTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
38094335 ATCACGCGCTGAGCTA
62 ATCACACGCCGAGCTA
*
38094351 TTTTTAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
38094416 CACGCCGAGGTA
66 CACGCCGAGCTA
38094428 TTTTCAATTT
1 TTTTCAATTT
38094438 TCGTTTTTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
77 61 0.78
81 17 0.22
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGCCGAGCTA
Found at i:38094465 original size:91 final size:90
Alignment explanation
Indices: 38094351--38094604 Score: 282
Period size: 91 Copynumber: 2.8 Consensus size: 90
38094341 CGCTGAGCTA
*
38094351 TTTTTAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTTAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
38094416 CACGCCGAGGTATTTTCAATTT-TCG
66 CACGCCGAGCTATTTTCAATTTCT-G
* ** *
38094441 TTTTTCAATTTCTGCCTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTT-AATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* *
38094506 ACGCGCTGAGCTATTTTCAATTTCTG
65 ACACGCCGAGCTATTTTCAATTTCTG
* ** * * * * * **
38094532 TTTTTAATGTCTG--TTTTTAGAGAGTCAATTCATATTGCGAAAAATGAGTTGAG-CTCAGGATC
1 TTTTTAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATC
*
38094594 ACATGCCGAGC
65 ACACGCCGAGC
38094605 AGAGAATAAA
Statistics
Matches: 136, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
87 2 0.01
88 41 0.30
90 12 0.09
91 80 0.59
92 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (90 bp):
TTTTTAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGCCGAGCTATTTTCAATTTCTG
Found at i:38095230 original size:32 final size:31
Alignment explanation
Indices: 38095194--38095288 Score: 145
Period size: 32 Copynumber: 3.0 Consensus size: 31
38095184 AGCCCCCCAA
38095194 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAA-AAAAAG
*
38095226 AAAAACCTAACCCAAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAAAAAAAG
*
38095257 AAAAACCTAACCAAAAAATAAAAATAAAAAAA
1 AAAAACCTAACCCAAAAA-AAAAA-AAAAAAA
38095289 CCTAGCCACC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
31 23 0.40
32 29 0.50
33 6 0.10
ACGTcount: A:0.76, C:0.15, G:0.04, T:0.05
Consensus pattern (31 bp):
AAAAACCTAACCCAAAAAAAAAAAAAAAAAG
Found at i:38095246 original size:31 final size:31
Alignment explanation
Indices: 38095194--38095286 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
38095184 AGCCCCCCAA
38095194 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAG
1 AAAAACCTAACCC-AAAAAAAAAAAGAAAAAG
38095226 AAAAACCTAACCC-AAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAG-AAAAAG
*
38095257 AAAAACCTAA-CCAAAAAATAAAAATAAAAA
1 AAAAACCTAACCCAAAAAA-AAAAAGAAAAA
38095287 AACCTAGCCA
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
30 13 0.23
31 26 0.46
32 18 0.32
ACGTcount: A:0.75, C:0.15, G:0.04, T:0.05
Consensus pattern (31 bp):
AAAAACCTAACCCAAAAAAAAAAAGAAAAAG
Found at i:38096059 original size:3 final size:3
Alignment explanation
Indices: 38096017--38096045 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38096007 TTATTGTAGA
38096017 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
38096046 CATACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:38097389 original size:692 final size:692
Alignment explanation
Indices: 38096066--38097410 Score: 2609
Period size: 692 Copynumber: 1.9 Consensus size: 692
38096056 TTATATGCAT
38096066 ATATATATATGTATTTTTATGTACATATTATTATTTTATATTATTATTACCAAATATATCATTTT
1 ATATATATATGTATTTTTATGTACATATTATTATTTTATATTATTATTACCAAATATATCATTTT
* *
38096131 TCCTATTTTATTATTAGTACATGATTTGTTTTTATTTTGTAAATATCATTATTATTGTTATTCTA
66 TCCTATTTTATAATTAGTACATGATTTGTTTTTATTTTGTAAATATCATTATTATTGTCATTCTA
38096196 ATATTCTAGTATTCCATGTTAATATTTTTCATTAATGATATCATTTTTTTGCGTCCTTTATCTAT
131 ATATTCTAGTATTCCATGTTAATATTTTTCATTAATGATATCATTTTTTTGCGTCCTTTATCTAT
*
38096261 TTTTAATTTCTCACTTTAGGAATATTTTTTCTCATGTTTTAATTAATTTCAAAAATAAGGCAATG
196 TTTTAATTTCTCACTATAGGAATATTTTTTCTCATGTTTTAATTAATTTCAAAAATAAGGCAATG
* *
38096326 TACCGATTTAATATTAAGCCATCGATTTCATTGCTATGTTGGGTGAAATTCGTCGGCTTGTGTTA
261 TACCGATTTAATATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCATCGGCTTGTGTTA
38096391 AAAAACGGGACACCCTTTCTAAAAAAAAAATCGAAAATTCAATCGGATCACGATTAAATATTATA
326 AAAAACGGGACACCCTTTCTAAAAAAAAAATCGAAAATTCAATCGGATCACGATTAAATATTATA
38096456 TTGAACTCGTATTTTTGAAAATCAAGTCAACACATGTTTATGAGATACCAATTTTGGGCGTCGCG
391 TTGAACTCGTATTTTTGAAAATCAAGTCAACACATGTTTATGAGATACCAATTTTGGGCGTCGCG
38096521 AGGGTGCTAATACCTTCCTCGCGCGTAACTGACTCCCGAACCCCAAATTTTCTCTGGACTTTCAC
456 AGGGTGCTAATACCTTCCTCGCGCGTAACTGACTCCCGAACCCCAAATTTTCTCTGGACTTTCAC
*
38096586 GTAGACCTAAATTTGGCCTTCCTTTTGTTTTAAAATAATTTTATTAGGTGTCCGATCACACCTAT
521 ATAGACCTAAATTTGGCCTTCCTTTTGTTTTAAAATAATTTTATTAGGTGTCCGATCACACCTAT
*
38096651 AAAAAAGGATCGGTGGCGACTCCCTTTGCTAATAAAATCGAAAGTTGGTTTTCAAATTTTTAATA
586 AAAAAAGGATCGGTGGCGACTCCCTTTGCTAATAAAATCGAAAGTTGGTTTTCAAATGTTTAATA
38096716 AATTGATCAAGCAAAACTAAAATTTTTTTTTACGTCGCTACA
651 AATTGATCAAGCAAAACTAAAATTTTTTTTTACGTCGCTACA
38096758 ATATATATATGTATTTTTATGTACATATTATTATTTTATATTATTATTACCAAATATATCATTTT
1 ATATATATATGTATTTTTATGTACATATTATTATTTTATATTATTATTACCAAATATATCATTTT
38096823 TCCTATTTTATAATTAGTACATGATTTGTTTTTATTTTGTAAATATCATTATTATTGTCATTCTA
66 TCCTATTTTATAATTAGTACATGATTTGTTTTTATTTTGTAAATATCATTATTATTGTCATTCTA
*
38096888 ATATTCTAGTATTCCATGTTAATATTTTTCATTAATTATATCATTTTTTTGCGTCCTTTATCTAT
131 ATATTCTAGTATTCCATGTTAATATTTTTCATTAATGATATCATTTTTTTGCGTCCTTTATCTAT
38096953 TTTTAATTTCTCACTATAGGAATATTTTTTCTCATGTTTTAATTAATTTCAAAAATAAGGCAATG
196 TTTTAATTTCTCACTATAGGAATATTTTTTCTCATGTTTTAATTAATTTCAAAAATAAGGCAATG
38097018 TACCGATTTAATATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCATCGGCTTGTGTTA
261 TACCGATTTAATATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCATCGGCTTGTGTTA
38097083 AAAAACGGGACACCCTTTCTAAAAAAAAAATCGAAAATTCAATCGGATCACGATTAAATATTATA
326 AAAAACGGGACACCCTTTCTAAAAAAAAAATCGAAAATTCAATCGGATCACGATTAAATATTATA
38097148 TTGAACTCGTATTTTTGAAAATCAAGTCAACACATGTTTATGAGATACCAATTTTGGGCGTCGCG
391 TTGAACTCGTATTTTTGAAAATCAAGTCAACACATGTTTATGAGATACCAATTTTGGGCGTCGCG
38097213 AGGGTGCTAATACCTTCCTCGCGCGTAACTGACTCCCGAACCCCAAATTTTCTCTGGACTTTCAC
456 AGGGTGCTAATACCTTCCTCGCGCGTAACTGACTCCCGAACCCCAAATTTTCTCTGGACTTTCAC
38097278 ATAGACCTAAATTTGGCCTTCCTTTTGTTTTAAAATAATTTTATTAGGTGTCCGATCACACCTAT
521 ATAGACCTAAATTTGGCCTTCCTTTTGTTTTAAAATAATTTTATTAGGTGTCCGATCACACCTAT
*
38097343 AAAAAAGGATCGGTGGCGACTCTCTTTGCTAATAAAATCGAAAGTTGGTTTTCAAATGTTTAATA
586 AAAAAAGGATCGGTGGCGACTCCCTTTGCTAATAAAATCGAAAGTTGGTTTTCAAATGTTTAATA
38097408 AAT
651 AAT
38097411 CGCCACAATT
Statistics
Matches: 644, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
692 644 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (692 bp):
ATATATATATGTATTTTTATGTACATATTATTATTTTATATTATTATTACCAAATATATCATTTT
TCCTATTTTATAATTAGTACATGATTTGTTTTTATTTTGTAAATATCATTATTATTGTCATTCTA
ATATTCTAGTATTCCATGTTAATATTTTTCATTAATGATATCATTTTTTTGCGTCCTTTATCTAT
TTTTAATTTCTCACTATAGGAATATTTTTTCTCATGTTTTAATTAATTTCAAAAATAAGGCAATG
TACCGATTTAATATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCATCGGCTTGTGTTA
AAAAACGGGACACCCTTTCTAAAAAAAAAATCGAAAATTCAATCGGATCACGATTAAATATTATA
TTGAACTCGTATTTTTGAAAATCAAGTCAACACATGTTTATGAGATACCAATTTTGGGCGTCGCG
AGGGTGCTAATACCTTCCTCGCGCGTAACTGACTCCCGAACCCCAAATTTTCTCTGGACTTTCAC
ATAGACCTAAATTTGGCCTTCCTTTTGTTTTAAAATAATTTTATTAGGTGTCCGATCACACCTAT
AAAAAAGGATCGGTGGCGACTCCCTTTGCTAATAAAATCGAAAGTTGGTTTTCAAATGTTTAATA
AATTGATCAAGCAAAACTAAAATTTTTTTTTACGTCGCTACA
Found at i:38100098 original size:21 final size:21
Alignment explanation
Indices: 38100055--38100099 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
38100045 TTAATTTGAT
* *
38100055 TATATTTTGTAGTTTTTTGTA
1 TATATTTTGTAATTTTATGTA
38100076 TATATATTTGTAATTTTAT-TA
1 TATAT-TTTGTAATTTTATGTA
38100097 TAT
1 TAT
38100100 TATGATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (21 bp):
TATATTTTGTAATTTTATGTA
Found at i:38100830 original size:19 final size:20
Alignment explanation
Indices: 38100779--38100830 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
38100769 CTAGCAGTTA
*
38100779 CAAATCAAGCAATGAAAATCT
1 CAAAT-AAGCCATGAAAATCT
*
38100800 CAAATAATCCATGAAAATC-
1 CAAATAAGCCATGAAAATCT
*
38100819 CAAATAGGCCAT
1 CAAATAAGCCAT
38100831 TATTACAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 10 0.37
20 12 0.44
21 5 0.19
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (20 bp):
CAAATAAGCCATGAAAATCT
Found at i:38104211 original size:21 final size:20
Alignment explanation
Indices: 38104174--38104226 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
38104164 ATCAGCTCAC
*
38104174 TTGAGCTCATTTCAGCTTGT
1 TTGAGCTCATTTCAGCTCGT
* *
38104194 TTGAGCTTGATTTTAGCTCGT
1 TTGAGC-TCATTTCAGCTCGT
* *
38104215 TTCAGCCCATTT
1 TTGAGCTCATTT
38104227 ATTTTTTCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (20 bp):
TTGAGCTCATTTCAGCTCGT
Found at i:38104470 original size:13 final size:13
Alignment explanation
Indices: 38104452--38104476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38104442 TAGTTGTGTT
38104452 TTATTTAATTATG
1 TTATTTAATTATG
38104465 TTATTTAATTAT
1 TTATTTAATTAT
38104477 ATAGGTTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTATTTAATTATG
Found at i:38106578 original size:16 final size:17
Alignment explanation
Indices: 38106532--38106585 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
38106522 TGTTCGGATA
38106532 TATATTTATAATTT-TAT
1 TATA-TTATAATTTATAT
* *
38106549 TATATTGTGA-TTATAT
1 TATATTATAATTTATAT
38106565 TATATTAT-ATTTATACT
1 TATATTATAATTTATA-T
38106582 TATA
1 TATA
38106586 ATCTCTCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.10
16 19 0.61
17 9 0.29
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (17 bp):
TATATTATAATTTATAT
Done.