Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003504.1 Hibiscus syriacus cultivar Beakdansim tig00007406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 232423
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:169472 original size:16 final size:16
Alignment explanation
Indices: 169448--169488 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
169438 TATAAAAGTA
169448 ATAAA-AAATAATATT
1 ATAAATAAATAATATT
169463 ATAAATAAATAATATT
1 ATAAATAAATAATATT
169479 -TAAAATAAAT
1 AT-AAATAAAT
169489 TTAAAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAATAAATAATATT
Found at i:170792 original size:3 final size:3
Alignment explanation
Indices: 170786--170859 Score: 82
Period size: 3 Copynumber: 25.3 Consensus size: 3
170776 ATAATATATT
* *
170786 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
170829 TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
170860 TTAAGTAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
2 6 0.10
3 50 0.85
4 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:170806 original size:9 final size:9
Alignment explanation
Indices: 170776--170839 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
170766 GGGCTTTGTA
170776 ATAATATAT
1 ATAATATAT
*
170785 TTAATAATAAT
1 ATAAT-AT-AT
170796 ATAATATAT
1 ATAATATAT
170805 ATAATATAAT
1 ATAATAT-AT
*
170815 AATAATATTT
1 -ATAATATAT
170825 ATAATA-AT
1 ATAATATAT
170833 AATAATA
1 -ATAATA
170840 ATAATTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.54
10 7 0.15
11 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:170855 original size:12 final size:12
Alignment explanation
Indices: 170774--170856 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
170764 TTGGGCTTTG
170774 TAATAATATATT-
1 TAATAATA-ATTA
170786 TAATAATAA-TA
1 TAATAATAATTA
*
170797 TAATATATATAATA
1 TAATA-ATA-ATTA
170811 TAATAATAA-TA
1 TAATAATAATTA
* *
170822 TTTATAATAATAA
1 -TAATAATAATTA
*
170835 TAATAATAATTT
1 TAATAATAATTA
170847 TAATAATAAT
1 TAATAATAAT
170857 AATTTAAGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.02
11 8 0.13
12 39 0.65
13 5 0.08
14 7 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:170861 original size:15 final size:15
Alignment explanation
Indices: 170774--170860 Score: 79
Period size: 15 Copynumber: 5.7 Consensus size: 15
170764 TTGGGCTTTG
170774 TAATAATATATT-TAA
1 TAATAATA-ATTATAA
*
170789 TAATAATATAATATATA
1 TAATAATA-ATTATA-A
*
170806 TAAT-ATAATAATAA
1 TAATAATAATTATAA
* * *
170820 TATTTATAATAATAA
1 TAATAATAATTATAA
*
170835 TAATAATAATTTTAA
1 TAATAATAATTATAA
170850 TAATAATAATT
1 TAATAATAATT
170861 TAAGTAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
14 4 0.07
15 47 0.77
16 5 0.08
17 5 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATAATTATAA
Found at i:171104 original size:76 final size:76
Alignment explanation
Indices: 171013--171650 Score: 1150
Period size: 76 Copynumber: 8.4 Consensus size: 76
171003 GAGGTCTTAA
* *
171013 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAACTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
171078 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
171089 AAACATCATGCACTGCAGGACTTACAGTTGACCCTAAGACTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
171154 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
171165 AAACACCATGCACTGTAGGACTTAGAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
171230 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
171241 AAACATCATGCACTGTAGGACTTACAGATGACTCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
171306 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
171317 AAACATCATGCATTGCAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAACCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
171382 AGGCTTTTTGG
66 AGGCTTTTTGG
*
171393 AAATATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
171458 AGGCTTTTTGG
66 AGGCTTTTTGG
171469 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
171534 AGGCTTTTTGG
66 AGGCTTTTTGG
*
171545 AAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
171610 AGGCTTTTTGG
66 AGGCTTTTTGG
171621 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
171651 TGGGAAATAG
Statistics
Matches: 538, Mismatches: 24, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 538 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:171903 original size:185 final size:185
Alignment explanation
Indices: 171591--171961 Score: 724
Period size: 185 Copynumber: 2.0 Consensus size: 185
171581 AGGCTTTGAA
171591 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
*
171656 AATAGTTTACTAAGTAAACAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
66 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
*
171721 AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAGTAAC
131 AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAAC
171776 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
171841 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
66 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
171906 AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAAC
131 AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAAC
171961 A
1 A
171962 TGTTGATTGG
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 184 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (185 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
AAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAAC
Found at i:172474 original size:22 final size:22
Alignment explanation
Indices: 172449--172501 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
172439 TAAAGATTTT
172449 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
172471 ATCTTTAAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
172493 ATCTTTGAA
1 ATCTTTGAA
172502 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:172952 original size:54 final size:54
Alignment explanation
Indices: 172869--173301 Score: 722
Period size: 54 Copynumber: 8.0 Consensus size: 54
172859 AGAATAACAG
*** *
172869 GTTCGTAAAAACATTTGACAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGT-AAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
*
172924 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
* *
172978 GTTCGTAAAACATTTGACAACACATTCATCATTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
*
173032 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
*
173086 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
* *
173140 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTATGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
*
173194 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
* * *
173248 GTTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTAAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
173302 TTCTCAATCA
Statistics
Matches: 357, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
54 351 0.98
55 6 0.02
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
Found at i:174471 original size:110 final size:110
Alignment explanation
Indices: 174276--174473 Score: 290
Period size: 110 Copynumber: 1.8 Consensus size: 110
174266 TTAATTTGAG
* * * *
174276 CCTTTAAAATGCCCCAAAATTTGCTGATACAGATGCTAAAAGTATGCTTAGTCATTACTTCTTGT
1 CCTTTAAAATGCCCCAAAATTTGCTGATACAGATGCTAAAAGTATGCTCAGACATTACTTCTCGC
*
174341 TGAGATGAGCCTTCAAAATGCCCCACATGGATCTGTCTGAAGGAA
66 TGAGATGAGCCTCCAAAATGCCCCACATGGATCTGTCTGAAGGAA
* * * * *
174386 CCTTTAAAATGCCCCAACATTTGCTGATACAGATGTTAAAAGTGTTCTCA-ACATTATTTCTCGC
1 CCTTTAAAATGCCCCAAAATTTGCTGATACAGATGCTAAAAGTATGCTCAGACATTACTTCTCGC
174450 TGAGATGAGCCTCCAAGAATGCCC
66 TGAGATGAGCCTCCAA-AATGCCC
174474 AAATATTCAT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 25 0.32
110 52 0.68
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (110 bp):
CCTTTAAAATGCCCCAAAATTTGCTGATACAGATGCTAAAAGTATGCTCAGACATTACTTCTCGC
TGAGATGAGCCTCCAAAATGCCCCACATGGATCTGTCTGAAGGAA
Found at i:175647 original size:114 final size:114
Alignment explanation
Indices: 175447--175666 Score: 377
Period size: 114 Copynumber: 1.9 Consensus size: 114
175437 GATCATGCAG
* * *
175447 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTATCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
* *
175512 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTATGAGCAAA
*
175561 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
175626 ACACTTCCAGAAGATGTTATTGGATCTCCTTATTCCTACTA
66 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTA
175667 CGAGAACGTG
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 99 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTATGAGCAAA
Found at i:180647 original size:36 final size:36
Alignment explanation
Indices: 180607--180692 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
180597 CATAAATGTC
* * *
180607 AAAAA-TAAAAATGCAAAATGTGCAATTCAAAGATAT
1 AAAAAGTAAAAATACAAAATG-GAAATACAAAGATAT
* *
180643 AAAAAGTAAGAATACAAAATGGAAATACAAAGATGT
1 AAAAAGTAAAAATACAAAATGGAAATACAAAGATAT
*
180679 AAAAAGTAAGAATA
1 AAAAAGTAAAAATA
180693 AGAATGTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 31 0.70
37 13 0.30
ACGTcount: A:0.62, C:0.06, G:0.14, T:0.19
Consensus pattern (36 bp):
AAAAAGTAAAAATACAAAATGGAAATACAAAGATAT
Found at i:182753 original size:16 final size:15
Alignment explanation
Indices: 182713--182753 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
182703 ATTCTTGAAT
182713 ATAAT-AAAATAATA
1 ATAATAAAAATAATA
182727 ATATATAAAAATAATA
1 ATA-ATAAAAATAATA
182743 AGTAATAAAAA
1 A-TAATAAAAA
182754 ATTTGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 2 0.08
16 17 0.71
17 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
ATAATAAAAATAATA
Found at i:183403 original size:21 final size:22
Alignment explanation
Indices: 183379--183423 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
183369 AAACATTTTC
183379 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
183400 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
183422 TT
1 TT
183424 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:183710 original size:24 final size:25
Alignment explanation
Indices: 183672--183718 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
183662 TTTATGTGAC
183672 TAATATAAAAATAATAATATAAAAG
1 TAATATAAAAATAATAATATAAAAG
*
183697 TAATA-AAAAATAATATTATAAA
1 TAATATAAAAATAATAATATAAA
183719 TAAATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (25 bp):
TAATATAAAAATAATAATATAAAAG
Found at i:183723 original size:16 final size:16
Alignment explanation
Indices: 183699--183739 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
183689 TATAAAAGTA
183699 ATAAA-AAATAATATT
1 ATAAATAAATAATATT
183714 ATAAATAAATAATATT
1 ATAAATAAATAATATT
183730 -TAAAATAAAT
1 AT-AAATAAAT
183740 TTAAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAATAAATAATATT
Found at i:184535 original size:21 final size:22
Alignment explanation
Indices: 184509--184552 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
184499 TCTTCTTTTA
*
184509 TTTGGTTGTTGTT-TTTGCTTG
1 TTTGGTGGTTGTTGTTTGCTTG
184530 TTTGGTGGTTGTTGGTTTGCTTG
1 TTTGGTGGTTGTT-GTTTGCTTG
184553 GCCTCTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.00, C:0.05, G:0.34, T:0.61
Consensus pattern (22 bp):
TTTGGTGGTTGTTGTTTGCTTG
Found at i:185051 original size:3 final size:3
Alignment explanation
Indices: 185045--185124 Score: 94
Period size: 3 Copynumber: 27.3 Consensus size: 3
185035 ATAATATATT
* *
185045 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
185088 TAA TAA TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
185125 TTAAGTAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
2 6 0.09
3 56 0.86
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:185053 original size:15 final size:14
Alignment explanation
Indices: 185033--185128 Score: 96
Period size: 15 Copynumber: 7.0 Consensus size: 14
185023 TTGGGCTTTG
185033 TAATAATATATTTAA
1 TAATAATA-ATTTAA
185048 TAATAAT-A--TAA
1 TAATAATAATTTAA
*
185059 T-ATATATAATATAA
1 TAATA-ATAATTTAA
185073 TAATAAT-ATTT-A
1 TAATAATAATTTAA
*
185085 TAATAATAATAATAA
1 TAATAATAAT-TTAA
185100 TAATAATAATTTTAA
1 TAATAATAA-TTTAA
185115 TAATAATAATTTAA
1 TAATAATAATTTAA
185129 GTAAAATGAA
Statistics
Matches: 69, Mismatches: 3, Indels: 19
0.76 0.03 0.21
Matches are distributed among these distances:
10 3 0.04
11 6 0.09
12 9 0.13
13 6 0.09
14 12 0.17
15 32 0.46
16 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATAATAATTTAA
Found at i:185060 original size:20 final size:21
Alignment explanation
Indices: 185033--185128 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
185023 TTGGGCTTTG
185033 TAATAATATATTTAATAATAA
1 TAATAATATATTTAATAATAA
*
185054 T-ATAATATATATAAT-ATAA
1 TAATAATATATTTAATAATAA
185073 TAATAATAT-TTATAATAATAA
1 TAATAATATATT-TAATAATAA
* **
185094 TAATAATA-ATAATAATTTTAA
1 TAATAATATAT-TTAATAATAA
185115 TAATAATA-ATTTAA
1 TAATAATATATTTAA
185129 GTAAAATGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.09
20 27 0.42
21 31 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATAATATATTTAATAATAA
Found at i:185065 original size:9 final size:9
Alignment explanation
Indices: 185035--185107 Score: 60
Period size: 9 Copynumber: 7.7 Consensus size: 9
185025 GGGCTTTGTA
185035 ATAATATAT
1 ATAATATAT
*
185044 TTAATAATAAT
1 ATAAT-AT-AT
185055 ATAATATAT
1 ATAATATAT
185064 ATAATATAAT
1 ATAATAT-AT
*
185074 AATAATATTT
1 -ATAATATAT
185084 ATAATA-AT
1 ATAATATAT
185092 AATAATA-AT
1 -ATAATATAT
185101 AATAATA
1 -ATAATA
185108 ATTTTAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
8 1 0.02
9 34 0.62
10 7 0.13
11 13 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATAATATAT
Found at i:185120 original size:12 final size:12
Alignment explanation
Indices: 185033--185121 Score: 52
Period size: 12 Copynumber: 7.8 Consensus size: 12
185023 TTGGGCTTTG
185033 TAATAAT-ATATT
1 TAATAATAAT-TT
*
185045 TAATAATAA-TA
1 TAATAATAATTT
* *
185056 TAATATATATAATA
1 TAATA-ATA-ATTT
185070 TAATAATAATATT
1 TAATAATAAT-TT
185083 T-ATAATAA---
1 TAATAATAATTT
185091 TAATAATAA---
1 TAATAATAATTT
185100 TAATAATAATTT
1 TAATAATAATTT
185112 TAATAATAAT
1 TAATAATAAT
185122 AATTTAAGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
8 1 0.02
9 16 0.25
11 6 0.09
12 28 0.43
13 7 0.11
14 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:185576 original size:14 final size:14
Alignment explanation
Indices: 185539--185586 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
185529 ATGTAATGAT
*
185539 AAAAAATGAAA-TA
1 AAAAAATGAAAGGA
185552 AAATAAA-GAAAGGA
1 AAA-AAATGAAAGGA
185566 AAAAAATGAAAGGA
1 AAAAAATGAAAGGA
185580 AACAAAA
1 AA-AAAA
185587 AAAGTTAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.33
14 16 0.53
15 4 0.13
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (14 bp):
AAAAAATGAAAGGA
Found at i:185590 original size:27 final size:27
Alignment explanation
Indices: 185539--185590 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
185529 ATGTAATGAT
* * *
185539 AAAAAATGAAATAAAATAAAGAAAGGA
1 AAAAAATGAAAGAAAACAAAAAAAGGA
*
185566 AAAAAATGAAAGGAAACAAAAAAAG
1 AAAAAATGAAAGAAAACAAAAAAAG
185591 TTAGTGAGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (27 bp):
AAAAAATGAAAGAAAACAAAAAAAGGA
Found at i:186568 original size:6 final size:6
Alignment explanation
Indices: 186557--186592 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
186547 CTTAATTGCG
186557 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
186593 TACAGATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:187878 original size:16 final size:16
Alignment explanation
Indices: 187857--187898 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
187847 AAAAATAAAT
187857 AAATAAAAT-AAAGAAG
1 AAATAAAATGAAA-AAG
187873 AAAT-AAATGGAAAAAG
1 AAATAAAAT-GAAAAAG
187889 AAATAAAATG
1 AAATAAAATG
187899 TAATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
16 12 0.52
17 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATAAAATGAAAAAG
Found at i:188084 original size:37 final size:38
Alignment explanation
Indices: 188077--188274 Score: 239
Period size: 38 Copynumber: 5.3 Consensus size: 38
188067 ATAATATATA
*
188077 TTTTTTCAAAAATATTTTT-AAAACTATATATTATATA
1 TTTTTTCAAAAATGTTTTTAAAAACTATATATTATATA
*
188114 TATTTTTTAAAAATGTTTTT-AAAACTATATATTATATA
1 T-TTTTTCAAAAATGTTTTTAAAAACTATATATTATATA
* *
188152 TGTTTTT-AAAAATGTTTTCAAAAACTATGTATTATATA
1 T-TTTTTCAAAAATGTTTTTAAAAACTATATATTATATA
**
188190 GGTTTTC-AAAATG-TTTTAAAAACTATATATTATATA
1 TTTTTTCAAAAATGTTTTTAAAAACTATATATTATATA
*
188226 CGTTTTT--AAAATGTTTTTAAAAACTATATATTATATA
1 -TTTTTTCAAAAATGTTTTTAAAAACTATATATTATATA
**
188263 AGTTTTCAAAAA
1 TTTTTTCAAAAA
188275 CTATATATTA
Statistics
Matches: 142, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
36 31 0.22
37 50 0.35
38 61 0.43
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (38 bp):
TTTTTTCAAAAATGTTTTTAAAAACTATATATTATATA
Found at i:188133 original size:38 final size:38
Alignment explanation
Indices: 188063--188274 Score: 256
Period size: 37 Copynumber: 5.7 Consensus size: 38
188053 ATTTTCAAAA
* * *
188063 ATATATAATATATATTTTTTCAAAAATATTTTTAAAACT
1 ATATATTATATATAGTTTTT-AAAAATGTTTTTAAAACT
*
188102 ATATATTATATATATTTTTTAAAAATGTTTTTAAAACT
1 ATATATTATATATAGTTTTTAAAAATGTTTTTAAAACT
*
188140 ATATATTATATAT-GTTTTTAAAAATGTTTTCAAAAACT
1 ATATATTATATATAGTTTTTAAAAATGTTTT-TAAAACT
* * * *
188178 ATGTA-T-TATATAGGTTTTCAAAATGTTTTAAAAACT
1 ATATATTATATATAGTTTTTAAAAATGTTTTTAAAACT
*
188214 ATATATTATATA-CGTTTTT-AAAATGTTTTTAAAAACT
1 ATATATTATATATAGTTTTTAAAAATGTTTTT-AAAACT
*
188251 ATATATTATATA-AGTTTTCAAAAA
1 ATATATTATATATAGTTTTTAAAAA
188275 CTATATATTA
Statistics
Matches: 154, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
36 26 0.17
37 61 0.40
38 48 0.31
39 19 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (38 bp):
ATATATTATATATAGTTTTTAAAAATGTTTTTAAAACT
Found at i:188150 original size:36 final size:36
Alignment explanation
Indices: 188022--188262 Score: 249
Period size: 37 Copynumber: 6.6 Consensus size: 36
188012 CCAAAATGTT
* * * *
188022 TTTTTAAAACTATATA--ATGTA--TTTCAAAACTA
1 TTTTTAAAACTATATATTATATATTTTTTAAAAATG
* * * *
188054 TTTTCAAAAATATATAATATATATTTTTTCAAAAATA
1 TTTTTAAAACTATATATTATATATTTTTT-AAAAATG
188091 TTTTTAAAACTATATATTATATATATTTTTTAAAAATG
1 TTTTTAAAACTATATA-T-TATATATTTTTTAAAAATG
188129 TTTTTAAAACTATATATTATATATGTTTTTAAAAATG
1 TTTTTAAAACTATATATTATATAT-TTTTTAAAAATG
* * ** *
188166 TTTTCAAAAACTATGTATTATATAGGTTTTCAAAATG
1 TTTT-TAAAACTATATATTATATATTTTTTAAAAATG
* *
188203 TTTTAAAAACTATATATTATATACGTTTTT-AAAATG
1 TTTTTAAAACTATATATTATATA-TTTTTTAAAAATG
188239 TTTTTAAAAACTATATATTATATA
1 TTTTT-AAAACTATATATTATATA
188263 AGTTTTCAAA
Statistics
Matches: 181, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
32 14 0.08
34 4 0.02
36 38 0.21
37 74 0.41
38 39 0.22
39 12 0.07
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTTTAAAACTATATATTATATATTTTTTAAAAATG
Found at i:188290 original size:28 final size:27
Alignment explanation
Indices: 188238--188304 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 27
188228 TTTTTAAAAT
*
188238 GTTTTTAAAAACTATATATTATATA-A
1 GTTTTCAAAAACTATATATTATATATA
188264 GTTTTCAAAAACTATATATTATGTATATA
1 GTTTTCAAAAACTATATATTA--TATATA
188293 -TATTTCAAAAAC
1 GT-TTTCAAAAAC
188305 CGATTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 20 0.56
28 5 0.14
29 11 0.31
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (27 bp):
GTTTTCAAAAACTATATATTATATATA
Found at i:189394 original size:17 final size:16
Alignment explanation
Indices: 189368--189401 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
189358 ATATAAAAAA
*
189368 ATAAATATAGGATAAAT
1 ATAAAAATA-GATAAAT
189385 ATAAAAATAGATAAAT
1 ATAAAAATAGATAAAT
189401 A
1 A
189402 AATGAGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
ATAAAAATAGATAAAT
Found at i:189434 original size:20 final size:20
Alignment explanation
Indices: 189410--189461 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
189400 TAAATGAGTA
189410 AATATATAAAAAAGTAAAAG
1 AATATATAAAAAAGTAAAAG
* * * *
189430 CATATATATATAAGTAAAAT
1 AATATATAAAAAAGTAAAAG
189450 AATA-ATAAAAAA
1 AATATATAAAAAA
189462 AAAGAAAATC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AATATATAAAAAAGTAAAAG
Found at i:189521 original size:2 final size:2
Alignment explanation
Indices: 189514--189556 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
189504 GAAATATAAA
189514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
189556 A
1 A
189557 ATAACACTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:190038 original size:35 final size:37
Alignment explanation
Indices: 189968--190067 Score: 114
Period size: 35 Copynumber: 2.8 Consensus size: 37
189958 GTGCTTGTGG
* * * * *
189968 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTATTTTTAAGAGTTTGAATCCTAGCAAAATTCT
*
190005 ATCCTA-TTTTAAGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTTAAGAGTTTGAATCCTAGCAAAATTCT
* *
190040 ATCTTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTTAAGAGTTTGAATCCTAG
190068 TAGGACGAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
35 21 0.40
36 15 0.28
37 17 0.32
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAAGAGTTTGAATCCTAGCAAAATTCT
Found at i:190830 original size:106 final size:104
Alignment explanation
Indices: 190528--191253 Score: 699
Period size: 109 Copynumber: 6.9 Consensus size: 104
190518 AATATTGTTC
* * * * * *
190528 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAAT-TGAAAATGTTTGTTGACA
** ** * *
190593 GTCAGCCGTCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
190634 CGAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AA-CG-AAAT-CTTGTTGACAAT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
190695 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
190734 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTG-AAAATGTTTGTTGACA
190799 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * ** * *
190840 CGAGTGGCACGATATCCTCCG-TCGTGGAGTT-AAAATCGCGGATGAAACTGAAAAGTTGTTCGT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-TCTGAAATTGAAAA--TGTTTGT
190903 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
59 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * * *
190949 CGGGTAGCACGATATCC-TCTG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTATTTGT
1 CGAGT--C-CAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAATT--GAAAATGTTTGT
*
191012 TGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
59 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * **
191058 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCCGAAA-T-----TGCTTGTCGACAGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
* * * *
191117 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
191156 TGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAAT-TATTGTTGAGA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-TTGAAAATGT-TTGTTGACA
191220 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
64 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
191254 CTCTAGCTAA
Statistics
Matches: 519, Mismatches: 74, Indels: 55
0.80 0.11 0.08
Matches are distributed among these distances:
98 84 0.16
100 82 0.16
101 5 0.01
102 1 0.00
103 1 0.00
104 1 0.00
105 43 0.08
106 116 0.22
107 8 0.02
108 11 0.02
109 158 0.30
110 5 0.01
111 4 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (104 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAAAATGTTTGTTGACAAC
CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:191061 original size:218 final size:206
Alignment explanation
Indices: 190528--191253 Score: 736
Period size: 206 Copynumber: 3.5 Consensus size: 206
190518 AATATTGTTC
* * * *
190528 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTATTTGTTGACA
** * * * *
190593 GTCAGCCGTCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGA
66 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCTAATATCCTCCGCTGTGA
* * ** *
190658 AGATGAAATTGACTCTGAACGAAATCTTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAAC
131 AGATAAAATCGACGATGAACGAAATCTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
190723 TTGTGTTGTCT
196 TTGTGTTGTCT
* * * * *
190734 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTATTTGTTGACA
*
190799 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGC-ACGATATCCTCCG-T
66 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGT--CTA--ATATCCTCCGCT
* * *
190862 CGTGGAGTTAAAATCG-CGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTT
127 -GTGAAGATAAAATCGAC-GATG-AAC-G-AAA--TCTT-GTTGACAACCAGCCGTCCCTTCGTT
190926 GTGAAGTTGAACTTGTGTTGTCT
184 GTGAAGTTGAACTTGTGTTGTCT
* * *
190949 CGGGTAGCACGATATCC-TCTGTCGTG-G-AGTTGAAATCGGCTCTGGAATTGGGAAATTATTTG
1 CGAGT--C-CAATATCCTTC-G-C-TGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTATTTG
* *
191011 TTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCG
60 TTGACAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCTAATATCCTCCG
* * * * * * * ** * *
191076 CTGTGAAGTTGAGATTG--GCT--CCGAAATTGCTTGTCGACAGTCAGCCGCCCCTTCGCTGTGA
125 CTGTGAAGATAAAATCGACGATGAACGAAA-T-CTTGTTGACAACCAGCCGTCCCTTCGTTGTGA
* *
191137 AGTTGAGCTTGTGCTGTCT
188 AGTTGAACTTGTGTTGTCT
* * * * * * * *
191156 TGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTAGGAAATTA-TTGTTGAGA
1 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTATTTGTTGACA
*
191220 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
66 ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGT
191254 CTCTAGCTAA
Statistics
Matches: 439, Mismatches: 57, Indels: 51
0.80 0.10 0.09
Matches are distributed among these distances:
202 2 0.00
203 43 0.10
204 34 0.08
205 3 0.01
206 96 0.22
207 48 0.11
208 8 0.02
209 23 0.05
210 4 0.01
211 1 0.00
212 3 0.01
213 2 0.00
214 3 0.01
215 71 0.16
216 2 0.00
217 4 0.01
218 88 0.20
219 2 0.00
220 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (206 bp):
CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGGAATTGGGAAATTATTTGTTGACA
ACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCTAATATCCTCCGCTGTGA
AGATAAAATCGACGATGAACGAAATCTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
TTGTGTTGTCT
Found at i:191910 original size:67 final size:67
Alignment explanation
Indices: 191830--191988 Score: 223
Period size: 67 Copynumber: 2.4 Consensus size: 67
191820 GAAACGGAAT
*
191830 TTTGTTTTAAGGGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCATGGGAGAC
1 TTTGTTTTAAGGGA-A-ACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
191893 AAAA
64 AAAA
* * *
191897 TTTGTTTTGAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAGCTGTCTCAAGGGAGACAA
1 TTTGTTTTAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
191962 AA
66 AA
* **
191964 TTTGTTTCAAGGGAAATTATCTCAA
1 TTTGTTTTAAGGGAAACAATCTCAA
191989 GAGAGACGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 77 0.94
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (67 bp):
TTTGTTTTAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
AA
Found at i:191987 original size:36 final size:36
Alignment explanation
Indices: 191863--192337 Score: 237
Period size: 36 Copynumber: 13.9 Consensus size: 36
191853 AAAGATTTTG
* * *
191863 TGTTTCAAGAGAAACTGTCTCATGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** ** **
191899 TGTTTTGAGGGAAACAATCTCAA-AG-G----TTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
191929 GTGTTTCAAGAGAAGCTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
191966 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
192002 CATTTCAAAGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
*
192030 ATGTTTC-AGGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGG-GAAACTGTCTCAAGAGAGACAAAA-TT
*
192068 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
192104 CATTTCAAGGGAAA-TGTTTCCA-A-TG-----TTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
192132 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
192170 TGTTTCAAGGGAAACTATCCCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * *
192206 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* *
192233 TAGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATTT
1 T-GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
*
192270 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
192306 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
192338 TGGTGAGCAC
Statistics
Matches: 318, Mismatches: 77, Indels: 88
0.66 0.16 0.18
Matches are distributed among these distances:
27 1 0.00
28 20 0.06
29 25 0.08
30 11 0.03
31 18 0.06
32 3 0.01
33 4 0.01
34 4 0.01
35 10 0.03
36 150 0.47
37 65 0.20
38 7 0.02
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:192105 original size:102 final size:102
Alignment explanation
Indices: 191930--192319 Score: 642
Period size: 102 Copynumber: 3.9 Consensus size: 102
191920 AAAGGTTTTG
* *
191930 TGTTTCAAGAGAAGCTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAATTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* *
191994 ACGAAATTCATTTCAAAGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
192031 TGTTTCAGGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
192096 ACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
192133 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGTTTCAAGGGAAACTATCCCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
192198 ACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
192235 -GTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* **
192298 ACAAAGTTTGTTTCAAGGGAAA
66 ACAAAATTCATTTCAAGGGAAA
192320 CTGTCTCAAG
Statistics
Matches: 271, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
100 51 0.19
101 60 0.22
102 160 0.59
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:193868 original size:20 final size:21
Alignment explanation
Indices: 193845--193893 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
193835 CCTTTTTATT
*
193845 TTGTTCTTTCTTTTTTG-TTC
1 TTGTTCTTTCCTTTTTGCTTC
*
193865 TTGTTTTTTCCTTTTTGCTTC
1 TTGTTCTTTCCTTTTTGCTTC
193886 TT-TTCTTT
1 TTGTTCTTT
193894 TTTCTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (21 bp):
TTGTTCTTTCCTTTTTGCTTC
Found at i:193911 original size:22 final size:23
Alignment explanation
Indices: 193868--193910 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
193858 TTTGTTCTTG
*
193868 TTTTTTCCTTTTTGCTTCTTTTC
1 TTTTTTCCTTTTTGCCTCTTTTC
193891 TTTTTT-CTTTTTGCC-CTTTT
1 TTTTTTCCTTTTTGCCTCTTTT
193911 TGTTCTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTTTTCCTTTTTGCCTCTTTTC
Found at i:197100 original size:16 final size:18
Alignment explanation
Indices: 197068--197102 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
197058 ATATAAAAAC
197068 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
197086 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
197102 A
1 A
197103 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:197227 original size:2 final size:2
Alignment explanation
Indices: 197214--197248 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
197204 AAAATAGGAA
*
197214 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
197249 ATAACACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:197732 original size:35 final size:37
Alignment explanation
Indices: 197662--197761 Score: 109
Period size: 35 Copynumber: 2.8 Consensus size: 37
197652 GTGCTTGTAG
* *
197662 ATCCTATCTTTAGGAGTTT-AA-CACATAGCAAAATTCT
1 ATCCTATTTTTAAGAGTTTGAATC-C-TAGCAAAATTCT
*
197699 ATCCTA-TTTTAAGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTTAAGAGTTTGAATCCTAGCAAAATTCT
* *
197734 ATCTTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTTAAGAGTTTGAATCCTAG
197762 TAGGACGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
35 18 0.33
36 18 0.33
37 18 0.33
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAAGAGTTTGAATCCTAGCAAAATTCT
Found at i:197750 original size:36 final size:36
Alignment explanation
Indices: 197662--197761 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 36
197652 GTGCTTGTAG
*
197662 ATCCTATCTTTAGGAGTTT-AA-CACATAGCAAAATTCT
1 ATCCTAT-TTTAAGAGTTTGAATC-C-TAGCAAAATTCT
*
197699 ATCCTATTTTAAGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAAGAGTTTGAATCCTAGCAAAATTCT
* *
197734 ATCTTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTA-TTTTAAGAGTTTGAATCCTAG
197762 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
35 18 0.33
36 18 0.33
37 19 0.35
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAAGAGTTTGAATCCTAGCAAAATTCT
Found at i:201871 original size:15 final size:15
Alignment explanation
Indices: 201851--201885 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
201841 AAAATATTTT
201851 TTTATTATAATATAA
1 TTTATTATAATATAA
*
201866 TTTATTATGATATAA
1 TTTATTATAATATAA
201881 TTTAT
1 TTTAT
201886 GTTTAACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTTATTATAATATAA
Found at i:205345 original size:2 final size:2
Alignment explanation
Indices: 205338--205383 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
205328 AGAAAAACAA
205338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
205380 AT AT
1 AT AT
205384 TAACAGTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:205677 original size:13 final size:13
Alignment explanation
Indices: 205656--205685 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
205646 CGTGTTTTAT
205656 ATGCCTACACATA
1 ATGCCTACACATA
*
205669 ATGCTTACACATA
1 ATGCCTACACATA
205682 ATGC
1 ATGC
205686 AACAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (13 bp):
ATGCCTACACATA
Found at i:206948 original size:13 final size:13
Alignment explanation
Indices: 206930--206962 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
206920 ATAATAATAT
206930 TATTATTATTTAA
1 TATTATTATTTAA
206943 TATTATTATTTAA
1 TATTATTATTTAA
*
206956 TAATATT
1 TATTATT
206963 TTTTCGACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATTATTTAA
Found at i:206959 original size:16 final size:15
Alignment explanation
Indices: 206921--206962 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
206911 ATAGTAGTAA
206921 TAATAATATTATTAT
1 TAATAATATTATTAT
*
206936 TATTTAATATTATTATT
1 TA-ATAATATTATTA-T
206953 TAATAATATT
1 TAATAATATT
206963 TTTTCGACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 18 0.78
17 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATAATATTATTAT
Found at i:207292 original size:90 final size:90
Alignment explanation
Indices: 207124--207363 Score: 387
Period size: 90 Copynumber: 2.7 Consensus size: 90
207114 AATGAAAATG
* * *
207124 TTGAAAGCATCTTGC-CTGAAGGTCTTATGG-TTGCCCGAAGGACTTAAAAAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATTGCCCGAAGGACTT-AAAAATAAAGAAACCCC
207187 CGAAGGCTCAGTTTCTTAA-ATCTCAT
65 CGAAGGCTCAGTTTC-TAAGATCTCAT
207213 TTGAAAACATCCTGCACTGAAGGTCTTATGGATTGCCCGAAGGACTTAAAAATAAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATTGCCCGAAGGACTTAAAAATAAAGAAACCCCC
207278 GAAGGCTCAGTTTCTAAGATCTCAT
66 GAAGGCTCAGTTTCTAAGATCTCAT
* * *
207303 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAATGACTTAAAAATTAAGAAAC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATTGCCCGAAGGACTTAAAAATAAAGAAAC
207364 TCTTGAAAAT
Statistics
Matches: 142, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
89 16 0.11
90 111 0.78
91 15 0.11
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (90 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGATTGCCCGAAGGACTTAAAAATAAAGAAACCCCC
GAAGGCTCAGTTTCTAAGATCTCAT
Found at i:207453 original size:12 final size:12
Alignment explanation
Indices: 207436--207478 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
207426 CCTCAAGTGT
207436 TCATCAAATTTG
1 TCATCAAATTTG
207448 TCATCAAATTTG
1 TCATCAAATTTG
207460 TCATCAAATTTG
1 TCATCAAATTTG
207472 TCATCAA
1 TCATCAA
207479 GGAACCCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.40
Consensus pattern (12 bp):
TCATCAAATTTG
Found at i:207651 original size:55 final size:54
Alignment explanation
Indices: 207555--207901 Score: 258
Period size: 55 Copynumber: 7.0 Consensus size: 54
207545 TTTCTCAAGC
* * * *
207555 TTGTCCTCAAAGAACCCCTACATATCATGATGGTCCTTCAAGCTTGTCATCAAAT
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCATC-AAT
**
207610 TTGTCATCAAGGAACCCCTACATATCACGACAGTCCCTCAA----G----C--T
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCATCAAT
* * **
207654 TT-TCATCAAGAAACTCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAAT
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCATC-AAT
*
207708 TTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAA----G----C--T
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCATCAAT
* * * **
207752 TT-TCATCAAGAAACCTCTACATATCATGATGGTTTCTCAAGCTTGTC--C---
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCATCAAT
*
207800 ---TCA--AA-GAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCATCAAAT
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCATC-AAT
*
207849 TTGTCATCAAGGAACCCCTACATATCACGACT-GTCCCTCAAGCTTTTCATCAA
1 TTGTCATCAAGGAACCCCTACATATCACGA-TGGTCCCTCAAGCTTGTCATCAA
207902 GAAACCCCTA
Statistics
Matches: 230, Mismatches: 31, Indels: 63
0.71 0.10 0.19
Matches are distributed among these distances:
43 95 0.41
44 8 0.03
45 1 0.00
46 3 0.01
47 4 0.02
49 1 0.00
51 3 0.01
52 3 0.01
54 7 0.03
55 104 0.45
56 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (54 bp):
TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTGTCATCAAT
Found at i:207652 original size:98 final size:98
Alignment explanation
Indices: 207515--207804 Score: 422
Period size: 98 Copynumber: 3.0 Consensus size: 98
207505 CTCAAGCTTT
* * ** * *
207515 TCATCAAGAAACCTCTACATATCACGATGGTTTCTCAAGCTTGTCCTCAA-AGAACCCCTACATA
1 TCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGA-AACCCCTACATA
*
207579 TCATGATGG-TCCTTCAAGCTTGTCATCAAATTTG
65 TCATGATGGTTTC-TCAAGCTTGTCATCAAATTTG
** *
207613 TCATCAAGGAACCCCTACATATCACGACAGTCCCTCAAGCTTTTCATCAAGAAACTCCTACATAT
1 TCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATAT
*
207678 CACGATGGTTTCTCAAGCTTGTCATCAAATTTG
66 CATGATGGTTTCTCAAGCTTGTCATCAAATTTG
* *
207711 TCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTTTCATCAAGAAACCTCTACATAT
1 TCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATAT
*
207776 CATGATGGTTTCTCAAGCTTGTCCTCAAA
66 CATGATGGTTTCTCAAGCTTGTCATCAAA
207805 GAACCCCTAC
Statistics
Matches: 172, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
98 169 0.98
99 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (98 bp):
TCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATAT
CATGATGGTTTCTCAAGCTTGTCATCAAATTTG
Found at i:207876 original size:239 final size:239
Alignment explanation
Indices: 207457--207933 Score: 909
Period size: 239 Copynumber: 2.0 Consensus size: 239
207447 GTCATCAAAT
207457 TTGTCATCAAATTTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTTTCATCAA
1 TTGTCATCAAATTTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTTTCATCAA
*
207522 GAAACCTCTACATATCACGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCATGATG
66 GAAACCTCTACATATCACGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCACGATG
207587 GTCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACAGTCCCTCAAG
131 GTCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACAGTCCCTCAAG
*
207652 CTTTTCATCAAGAAACTCCTACATATCACGATGGTTTCTCAAGC
196 CTTTTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAGC
207696 TTGTCATCAAATTTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTTTCATCAA
1 TTGTCATCAAATTTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTTTCATCAA
*
207761 GAAACCTCTACATATCATGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCACGATG
66 GAAACCTCTACATATCACGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCACGATG
*
207826 GTCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACTGTCCCTCAAG
131 GTCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACAGTCCCTCAAG
*
207891 CTTTTCATCAAGAAACCCCTACATATCACGATTGTTTCTCAAG
196 CTTTTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAG
207934 ATTTTCTTCA
Statistics
Matches: 233, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
239 233 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (239 bp):
TTGTCATCAAATTTGTCATCAAGGAACCCCTACATATTACGATGGTCCCTCAAGCTTTTCATCAA
GAAACCTCTACATATCACGATGGTTTCTCAAGCTTGTCCTCAAAGAACCCCTACATATCACGATG
GTCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACAGTCCCTCAAG
CTTTTCATCAAGAAACCCCTACATATCACGATGGTTTCTCAAGC
Found at i:207928 original size:141 final size:141
Alignment explanation
Indices: 207613--207954 Score: 483
Period size: 141 Copynumber: 2.4 Consensus size: 141
207603 ATCAAATTTG
* * ** * *
207613 TCATCAAGGAACCCCTACATATCACGACAGTCCCTCAAGCTTTTCATCAAGAAACTCCTACATAT
1 TCATCAAGAAACCCCTACATATCACGATAGTTTCTCAAGCTTGTCATCAAGAAACCCCTACATAT
* *
207678 CACGATGGTTTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATTACGATGGTC
66 CACGATGGTCTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGATGGTC
207743 CCTCAAGCTTT
131 CCTCAAGCTTT
* * * *
207754 TCATCAAGAAACCTCTACATATCATGATGGTTTCTCAAGCTTGTCCTCAA-AGAACCCCTACATA
1 TCATCAAGAAACCCCTACATATCACGATAGTTTCTCAAGCTTGTCATCAAGA-AACCCCTACATA
207818 TCACGATGGTC-CTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACT-
65 TCACGATGGTCTC-TCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGA-TG
207881 GTCCCTCAAGCTTT
128 GTCCCTCAAGCTTT
* * * * *
207895 TCATCAAGAAACCCCTACATATCACGATTGTTTCTCAAGATTTTCTTCAATAAACCCCTA
1 TCATCAAGAAACCCCTACATATCACGATAGTTTCTCAAGCTTGTCATCAAGAAACCCCTA
207955 AAAATCATGC
Statistics
Matches: 179, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
140 2 0.01
141 175 0.98
142 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (141 bp):
TCATCAAGAAACCCCTACATATCACGATAGTTTCTCAAGCTTGTCATCAAGAAACCCCTACATAT
CACGATGGTCTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGATGGTC
CCTCAAGCTTT
Found at i:208027 original size:39 final size:39
Alignment explanation
Indices: 207975--208051 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
207965 TTAGTTTATA
*
207975 AAAATATTGTGTTTCGAGCGAAACTATCTCAAGCGAGAT
1 AAAATATTGTGTTTCAAGCGAAACTATCTCAAGCGAGAT
* * * * * *
208014 AAAATCTTTTGTTTCAAGTGAAATTGTCTCAAGGGAGA
1 AAAATATTGTGTTTCAAGCGAAACTATCTCAAGCGAGA
208052 CTGTCTCAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (39 bp):
AAAATATTGTGTTTCAAGCGAAACTATCTCAAGCGAGAT
Found at i:208083 original size:21 final size:21
Alignment explanation
Indices: 208057--208250 Score: 94
Period size: 21 Copynumber: 10.4 Consensus size: 21
208047 GGAGACTGTC
*
208057 TCAAGGGGGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
208078 TCAAGGG-G----AA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
*
208093 TCAAGGGAGATAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
*
208114 TCAATGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* * *
208135 TCAA---AG--GAAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
208150 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* ** *
208171 TTAA-GG-G---AAA-CCGTC
1 TCAAGGGAGACAAAATTTGTT
208186 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
*
208207 TCAA-GG-G--AAAA--TGTC
1 TCAAGGGAGACAAAATTTGTT
*
208222 TCAAGGGAGACTAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
208243 TCAAGGGA
1 TCAAGGGA
208251 AACTATCTCA
Statistics
Matches: 126, Mismatches: 23, Indels: 48
0.64 0.12 0.24
Matches are distributed among these distances:
15 29 0.23
16 13 0.10
17 6 0.05
18 4 0.03
19 5 0.04
20 13 0.10
21 56 0.44
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:208084 original size:36 final size:36
Alignment explanation
Indices: 208037--208124 Score: 124
Period size: 36 Copynumber: 2.4 Consensus size: 36
208027 TCAAGTGAAA
* *
208037 TTGTCTCAAGGGAGACTGTCTCAAGGGGGACAAAAT
1 TTGTTTCAAGGGAGACTGTCTCAAGGGAGACAAAAT
*
208073 TTGTTTCAAGGG-GAACTGTCTCAAGGGAGATAAAAT
1 TTGTTTCAAGGGAG-ACTGTCTCAAGGGAGACAAAAT
*
208109 TTGTTTCAATGGAGAC
1 TTGTTTCAAGGGAGAC
208125 AAAATTTGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
35 1 0.02
36 44 0.96
37 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (36 bp):
TTGTTTCAAGGGAGACTGTCTCAAGGGAGACAAAAT
Found at i:208162 original size:93 final size:93
Alignment explanation
Indices: 208037--208210 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
208027 TCAAGTGAAA
* * * * *
208037 TTGTCTCAAGGGAGACTGTCTCAAGGGGGACAAAATTTGTTTCAAGGGGAACTGTCTCAAGGGAG
1 TTGTCTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAG
*
208102 ATAAAATTTGTTTCAATGGAGACAAAAT
66 ACAAAATTTGTTTCAATGGAGACAAAAT
* *
208130 TTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACCGTCTCAAGGGAG
1 TTGTCTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAG
208195 ACAAAATTTGTTTCAA
66 ACAAAATTTGTTTCAA
208211 GGGAAAATGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (93 bp):
TTGTCTCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAG
ACAAAATTTGTTTCAATGGAGACAAAAT
Found at i:208166 original size:36 final size:36
Alignment explanation
Indices: 208114--208313 Score: 247
Period size: 36 Copynumber: 5.4 Consensus size: 36
208104 AAAATTTGTT
* *
208114 TCAATGGAGACAAAATTTGTTTCAAAGGAAACTGTC
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
* *
208150 TCAAGGGAGACAAAATTTGTTTTAAGGGAAACCGTC
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
*
208186 TCAAGGGAGACAAAATTTGTTTCAAGGGAAAATGTC
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
* *
208222 TCAAGGGAGACTAAATTTGTTTCAAGGGAAACTATC
1 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
* * * *
208258 TCAAGTGAGATAAAATCTTTCTGTTTCGAGGGAAACTATC
1 TCAAGGGAGACAAAA---TT-TGTTTCAAGGGAAACTGTC
* *
208298 TCAAGCGAGATAAAAT
1 TCAAGGGAGACAAAAT
208314 CTTCTGCTTC
Statistics
Matches: 145, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
36 110 0.76
37 1 0.01
39 2 0.01
40 32 0.22
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (36 bp):
TCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
Found at i:208250 original size:93 final size:90
Alignment explanation
Indices: 208021--208237 Score: 239
Period size: 93 Copynumber: 2.4 Consensus size: 90
208011 GATAAAATCT
* * *
208021 TTTGTTTCAAGTGAAATTGTCTCAAGGGAGAC---TGTCTCAAGGGGGACAAAATTTGTTTCAAG
1 TTTGTTTCAAGGGAAAATGTCTCAAGGGAGACAAATGTCTCAAGGGAGACAAAATTTGTTTCAAG
* * *
208083 GGGAACTGTCTCAAGGGAGATAAAA
66 GGAAACCGTCTCAAGGGAGACAAAA
* * *
208108 TTTGTTTCAATGGAGACAAAATTTGTTTCAA-AG-GA-AACTGTCTCAAGGGAGACAAAATTTGT
1 TTTGTTTCAA-GG-G--AAAA--TGTCTCAAGGGAGACAAATGTCTCAAGGGAGACAAAATTTGT
*
208170 TTTAAGGGAAACCGTCTCAAGGGAGACAAAA
60 TTCAAGGGAAACCGTCTCAAGGGAGACAAAA
208201 TTTGTTTCAAGGGAAAATGTCTCAAGGGAGACTAAAT
1 TTTGTTTCAAGGGAAAATGTCTCAAGGGAGAC-AAAT
208238 TTGTTTCAAG
Statistics
Matches: 105, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
87 17 0.16
88 2 0.02
89 7 0.07
91 9 0.09
92 3 0.03
93 67 0.64
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (90 bp):
TTTGTTTCAAGGGAAAATGTCTCAAGGGAGACAAATGTCTCAAGGGAGACAAAATTTGTTTCAAG
GGAAACCGTCTCAAGGGAGACAAAA
Found at i:208290 original size:40 final size:40
Alignment explanation
Indices: 208239--208355 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 40
208229 AGACTAAATT
* *
208239 TGTTTCAAGGGAAACTATCTCAAGTGAGATAAAATCTTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTTC
208279 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATC-TTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTTC
* * * *
208318 TGCTTCGAGGGAATCTTTCTCAAGCGAGATAGAATCTT
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTT
208356 CTTTAAAAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
39 35 0.50
40 35 0.50
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (40 bp):
TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTTC
Found at i:208459 original size:78 final size:76
Alignment explanation
Indices: 208360--208645 Score: 305
Period size: 73 Copynumber: 3.8 Consensus size: 76
208350 AATCTTCTTT
* * *
208360 AAAAACAATATTGAGTGAAATGAAATGCCTTCTTTCGAGTAAAAAATCGTCTCAAGTGAGACAAA
1 AAAAAAAATCTTGAGTGAAATGAAATGCCTTCTTTCGAGTAAAAAAT-GTCTCAAGCGAGACAAA
208425 TCTTGTTTTAAG
65 TCTTGTTTTAAG
* *
208437 AAAAAAAAATCTTGAGTGAAATG-AAT-CTTCTTATTTCGAGTAAAAAATGTATCAAGCGAGACA
1 -AAAAAAAATCTTGAGTGAAATGAAATGC--CTTCTTTCGAGTAAAAAATGTCTCAAGCGAGACA
**
208500 AAAGTTGTTTTAAG
63 AATCTTGTTTTAAG
* * * * * * *
208514 -AAAAACA-CGT-AGTGAAATGAAATGTCTTGTTTTGAATAAAACATGTCTCAAGCGAGACAAAT
1 AAAAAAAATCTTGAGTGAAATGAAATGCCTTCTTTCGAGTAAAAAATGTCTCAAGCGAGACAAAT
*
208576 CTTGTTTTGAG
66 CTTGTTTTAAG
* * * * * *
208587 AAAAATAATCTTGAGTCAAATGAAATGTCTTCTTTCAAGTAAAACA-GTCTCAAGTGAGA
1 AAAAAAAATCTTGAGTGAAATGAAATGCCTTCTTTCGAGTAAAAAATGTCTCAAGCGAGA
208646 TAACTTTGTT
Statistics
Matches: 174, Mismatches: 27, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
73 49 0.28
74 10 0.06
75 20 0.11
76 29 0.17
77 28 0.16
78 38 0.22
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (76 bp):
AAAAAAAATCTTGAGTGAAATGAAATGCCTTCTTTCGAGTAAAAAATGTCTCAAGCGAGACAAAT
CTTGTTTTAAG
Found at i:208869 original size:34 final size:34
Alignment explanation
Indices: 208824--208908 Score: 125
Period size: 34 Copynumber: 2.5 Consensus size: 34
208814 TCAGAGAAAT
*
208824 ATTGTCCCAAGCGAGACGAAATTTATTTTGAGAA
1 ATTGTCTCAAGCGAGACGAAATTTATTTTGAGAA
* *
208858 ATTGTCTCAAGCAAGACGAAATTTGTTTTGAGAA
1 ATTGTCTCAAGCGAGACGAAATTTATTTTGAGAA
* *
208892 ATTATCTCAAGTGAGAC
1 ATTGTCTCAAGCGAGAC
208909 AATTTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (34 bp):
ATTGTCTCAAGCGAGACGAAATTTATTTTGAGAA
Found at i:209047 original size:32 final size:32
Alignment explanation
Indices: 209011--209142 Score: 192
Period size: 32 Copynumber: 4.1 Consensus size: 32
209001 AGGGTATTGA
* *
209011 ATGCCCCAATATTCGATATTGAATCTCCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
*
209043 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
* * *
209075 ATGCCCCAATATTTGATGTTGAATATTCAAAA
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
* *
209107 ATGCCCCAATATTTTATGTTGAATCTTCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
209139 ATGC
1 ATGC
209143 ACTTTATTGT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 90 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (32 bp):
ATGCCCCAATATTTGATGTTGAATCTCCAAAG
Found at i:209568 original size:32 final size:32
Alignment explanation
Indices: 209485--209572 Score: 131
Period size: 35 Copynumber: 2.7 Consensus size: 32
209475 GTTCAGGTTA
*
209485 TTGTGTTTGGTCAATGGTTTGAATGTCTCAGG
1 TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
209517 TTGCTATTTTTGGTCAATGGTTTGAATGTCTCAGG
1 TTG---TTTTTGGTCAATGGTTTGAATGTCTCAGG
*
209552 TTGTTTTTGGTTAATGGTTTG
1 TTGTTTTTGGTCAATGGTTTG
209573 GCCTTCTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
32 20 0.39
35 31 0.61
ACGTcount: A:0.15, C:0.08, G:0.28, T:0.49
Consensus pattern (32 bp):
TTGTTTTTGGTCAATGGTTTGAATGTCTCAGG
Found at i:209801 original size:55 final size:55
Alignment explanation
Indices: 209740--209927 Score: 186
Period size: 55 Copynumber: 3.6 Consensus size: 55
209730 ATTCGAGCCG
* *
209740 CCTACATATCATGATGGTTTCTCAAGATTGTCATCAAATTTTTCATCAAGGAACC
1 CCTACATATCACGATGGTTCCTCAAGATTGTCATCAAATTTTTCATCAAGGAACC
* *
209795 CCTACATATCACGATGGTCCCTC-A-A--G----C--A--TTTCATCAAGAAACC
1 CCTACATATCACGATGGTTCCTCAAGATTGTCATCAAATTTTTCATCAAGGAACC
* *
209838 CCTACATATCACGATGG-TCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACC
1 CCTACATATCACGATGGTTCC-TCAAGATTGTCATCAAATTTTTCATCAAGGAACC
* * * *
209893 CCTACATATCACGACGGTCCCTCAAGCTTTTCATC
1 CCTACATATCACGATGGTTCCTCAAGATTGTCATC
209928 GAGAAGCCCC
Statistics
Matches: 108, Mismatches: 11, Indels: 28
0.73 0.07 0.19
Matches are distributed among these distances:
42 2 0.02
43 33 0.31
44 1 0.01
45 1 0.01
47 2 0.02
51 2 0.02
53 2 0.02
54 1 0.01
55 62 0.57
56 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (55 bp):
CCTACATATCACGATGGTTCCTCAAGATTGTCATCAAATTTTTCATCAAGGAACC
Found at i:209841 original size:43 final size:43
Alignment explanation
Indices: 209780--209981 Score: 188
Period size: 43 Copynumber: 4.4 Consensus size: 43
209770 TCATCAAATT
*
209780 TTTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCA
1 TTTCATCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCA
*
209823 TTTCATCAAGAAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCATCAAA
1 TTTCATCAAGAAACCCCTACATATCACGATGGTCCCTCAA----G----C--A
* * *
209876 TTTGTCATCAAGGAACCCCTACATATCACGACGGTCCCTCAAGCT
1 -TT-TCATCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCA
* * ** *
209921 TTTCATCGAGAAGCCCCTACATATCACGATGGTTTCTCAAGCT
1 TTTCATCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCA
* *
209964 TTTCTTTAAGAAACCCCT
1 TTTCATCAAGAAACCCCT
209982 GAAAATCAGG
Statistics
Matches: 131, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
43 87 0.66
44 2 0.02
47 2 0.02
51 2 0.02
53 1 0.01
54 2 0.02
55 35 0.27
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (43 bp):
TTTCATCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCA
Found at i:209962 original size:98 final size:98
Alignment explanation
Indices: 209735--209964 Score: 363
Period size: 98 Copynumber: 2.3 Consensus size: 98
209725 TTTATATTCG
* * *
209735 AGCCGCCTACATATCATGATGGTTTCTCAAGATTGTCATCAAATTTTTCATCAAGGAACCCCTAC
1 AGCC-CCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTAC
*
209800 ATATCACGATGGTCCCTCAAGCATTTCATCAAGA
65 ATATCACGACGGTCCCTCAAGCATTTCATCAAGA
* *
209834 AACCCCTACATATCACGATGG-TCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTAC
1 AGCCCCTACATATCACGATGGTTTC-TCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTAC
* *
209898 ATATCACGACGGTCCCTCAAGCTTTTCATCGAGA
65 ATATCACGACGGTCCCTCAAGCATTTCATCAAGA
209932 AGCCCCTACATATCACGATGGTTTCTCAAGCTT
1 AGCCCCTACATATCACGATGGTTTCTCAAGCTT
209965 TTCTTTAAGA
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
97 2 0.02
98 112 0.94
99 5 0.04
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (98 bp):
AGCCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACA
TATCACGACGGTCCCTCAAGCATTTCATCAAGA
Found at i:210084 original size:15 final size:15
Alignment explanation
Indices: 210064--210094 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
210054 TTCAAGTGAA
*
210064 ATTGTCTCGAGGGAG
1 ATTGTCTCAAGGGAG
210079 ATTGTCTCAAGGGAG
1 ATTGTCTCAAGGGAG
210094 A
1 A
210095 CAAAATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (15 bp):
ATTGTCTCAAGGGAG
Found at i:210121 original size:36 final size:36
Alignment explanation
Indices: 210081--210292 Score: 347
Period size: 36 Copynumber: 5.9 Consensus size: 36
210071 CGAGGGAGAT
*
210081 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGGAAC
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
* *
210117 TGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAAT
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
210153 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGG-AAC
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
*
210188 TGTCTCAAGGGAGACAAAATTTGTTTCAAAGGAAAC
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
*
210224 TGTCTCAAGGGAGACAAAAAATT-TTTCAAGGGAAAC
1 TGTCTCAAGGGAGAC-AAAATTTGTTTCAAGGGAAAC
*
210260 CGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
210293 GACTAAATTT
Statistics
Matches: 163, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
35 39 0.24
36 118 0.72
37 6 0.04
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (36 bp):
TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
Found at i:210204 original size:107 final size:107
Alignment explanation
Indices: 210081--210292 Score: 354
Period size: 107 Copynumber: 2.0 Consensus size: 107
210071 CGAGGGAGAT
* * *
210081 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGGAACTGTCTCAAGGAAGAC-AAAATTTGTTTCA
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGAAGACAAAAAATT-TTTCA
**
210145 AGGGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAC
65 AGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAC
*
210188 TGTCTCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGGAGACAAAAAATTTTTCAA
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGAAGACAAAAAATTTTTCAA
210253 GGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
66 GGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
210293 GACTAAATTT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 92 0.94
108 6 0.06
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (107 bp):
TGTCTCAAGGGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGGAAGACAAAAAATTTTTCAA
GGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAC
Found at i:210318 original size:21 final size:21
Alignment explanation
Indices: 210264--210318 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
210254 GGAAACCGTC
*
210264 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACTAAATTTGTT
210285 TCAAGGGAGACTAAATTTGTT
1 TCAAGGGAGACTAAATTTGTT
*
210306 TCAAGGGAAACTA
1 TCAAGGGAGACTA
210319 TCTTAAGCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (21 bp):
TCAAGGGAGACTAAATTTGTT
Found at i:210336 original size:57 final size:57
Alignment explanation
Indices: 210228--210336 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
210218 GGAAACTGTC
* *
210228 TCAAGGGAGACAAAAAATTTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAAAATTTTTCAAGGGAAACCATCTCAAGCGAGACAAAATTTGTT
* * * * *
210285 TCAAGGGAGAC-TAAATTTGTTTCAAGGGAAACTATCTTAAGCGAGATAAAAT
1 TCAAGGGAGACAAAAAATT-TTTCAAGGGAAACCATCTCAAGCGAGACAAAAT
210337 CTTTCTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 5 0.11
57 39 0.89
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (57 bp):
TCAAGGGAGACAAAAAATTTTTCAAGGGAAACCATCTCAAGCGAGACAAAATTTGTT
Found at i:210353 original size:40 final size:40
Alignment explanation
Indices: 210302--210418 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 40
210292 AGACTAAATT
* *
210302 TGTTTCAAGGGAAACTATCTTAAGCGAGATAAAATCTTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTTC
*
210342 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAT-ATTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTTC
* * *
210381 TGCTTCGAGGGAAACTTTATCAAGCGAGATAAAATCTT
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTT
210419 CTTTAAAAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.51
40 34 0.49
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (40 bp):
TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTTC
Found at i:210674 original size:76 final size:76
Alignment explanation
Indices: 210423--210711 Score: 361
Period size: 77 Copynumber: 3.8 Consensus size: 76
210413 AATCTTCTTT
* * *
210423 AAAAACAATCTTGAGTGAAATGAAATGCCTTCTTTCGAGTAAAAAATCATCTCAAGCGAGACAAA
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTATTTCGAGTAAAAAAT-GTCTCAAGCGAGACAAA
210488 TCTTGTTTTAAG
65 TCTTGTTTTAAG
*
210500 AAAAACAATCTTGAGTGAAATG-AATCTTCTTATTTCGAGTAAAAAAATGTCTCAAGCGAGACGA
1 AAAAACAATCTTGAGTGAAATGAAAT-GTCTTATTTCGAGT-AAAAAATGTCTCAAGCGAGAC-A
*
210564 AA-GTTGTTTTAAG
63 AATCTTGTTTTAAG
* * * **
210577 AAAAACAA-CTTGTAGTGAAATGAAATGTCTTGTTTTGAATAAAACCTGTCTCAAGCGAGACAAA
1 AAAAACAATCTTG-AGTGAAATGAAATGTCTTATTTCGAGTAAAAAATGTCTCAAGCGAGACAAA
*
210641 TCTTGTTTTGAG
65 TCTTGTTTTAAG
* * * * *
210653 AAAAACAATCTTGAGTCAAATGAAATGTCTTCTTTCAAGTAAAACA-GTCTCAAGTGAGA
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTATTTCGAGTAAAAAATGTCTCAAGCGAGA
210712 TGACTTTGTT
Statistics
Matches: 185, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
75 15 0.08
76 70 0.38
77 87 0.47
78 13 0.07
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (76 bp):
AAAAACAATCTTGAGTGAAATGAAATGTCTTATTTCGAGTAAAAAATGTCTCAAGCGAGACAAAT
CTTGTTTTAAG
Found at i:210932 original size:34 final size:34
Alignment explanation
Indices: 210889--211040 Score: 232
Period size: 34 Copynumber: 4.5 Consensus size: 34
210879 TCAGAGAAAC
*
210889 ATTGTCTCAAGCGAGACGAAATTTGTTTTGTGAA
1 ATTGTCTCAAGCGAGACGAAATTTGTTTTGAGAA
*
210923 ATTGTCTCAAGCAAGACGAAATTTGTTTTGAGAA
1 ATTGTCTCAAGCGAGACGAAATTTGTTTTGAGAA
* *
210957 ATTGTCTCAAGCAATACGAAATTTGTTTTGAGAA
1 ATTGTCTCAAGCGAGACGAAATTTGTTTTGAGAA
* *
210991 ATTGTCTCAAGTGAGACAAAATTTGTTTTGAGAA
1 ATTGTCTCAAGCGAGACGAAATTTGTTTTGAGAA
* *
211025 ATTATCTCAAGTGAGA
1 ATTGTCTCAAGCGAGA
211041 TAAAAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 110 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (34 bp):
ATTGTCTCAAGCGAGACGAAATTTGTTTTGAGAA
Found at i:211187 original size:32 final size:32
Alignment explanation
Indices: 211151--211280 Score: 206
Period size: 32 Copynumber: 4.1 Consensus size: 32
211141 AGGATATTGA
* *
211151 ATGCCCCAATATTCGATATTGAATCTCCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
*
211183 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
*
211215 ATGCCCCAATATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
* *
211247 ATTCCCCAATATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
211279 AT
1 AT
211281 ACCCTTTATT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 92 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (32 bp):
ATGCCCCAATATTTGATGTTGAATCTCCAAAG
Found at i:211705 original size:32 final size:32
Alignment explanation
Indices: 211624--211711 Score: 104
Period size: 35 Copynumber: 2.7 Consensus size: 32
211614 GTTCAGGTTA
* * * *
211624 TTGTGTTTGGTCAATGGTTTCAATGTCTCGGG
1 TTGTTTTTGGTTAATGGTTTGAATGTCTCAGG
*
211656 TTGCTATTTTTGTTTAATGGTTTGAATGTCTCAGG
1 TTG---TTTTTGGTTAATGGTTTGAATGTCTCAGG
211691 TTGTTTTTGGTTAATGGTTTG
1 TTGTTTTTGGTTAATGGTTTG
211712 GCCTTCTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
32 20 0.43
35 27 0.57
ACGTcount: A:0.14, C:0.08, G:0.27, T:0.51
Consensus pattern (32 bp):
TTGTTTTTGGTTAATGGTTTGAATGTCTCAGG
Found at i:215223 original size:15 final size:15
Alignment explanation
Indices: 215203--215232 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
215193 CGTGCAAAAC
215203 CGAGTTGAGTTAAAT
1 CGAGTTGAGTTAAAT
215218 CGAGTTGAGTTAAAT
1 CGAGTTGAGTTAAAT
215233 TATAGGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (15 bp):
CGAGTTGAGTTAAAT
Found at i:215451 original size:22 final size:21
Alignment explanation
Indices: 215422--215463 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
215412 TTTATATATA
215422 ATTAATATAAAAAATATAAAT
1 ATTAATATAAAAAATATAAAT
**
215443 ATTATATATAATTAATATAAA
1 ATTA-ATATAAAAAATATAAA
215464 AAATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTAATATAAAAAATATAAAT
Found at i:215451 original size:31 final size:32
Alignment explanation
Indices: 215413--215484 Score: 128
Period size: 31 Copynumber: 2.3 Consensus size: 32
215403 CGAAAATATT
215413 TTATATATAATTAATATAAAAAATAT-AAATA
1 TTATATATAATTAATATAAAAAATATAAAATA
215444 TTATATATAATTAATATAAAAAATATAAAATA
1 TTATATATAATTAATATAAAAAATATAAAATA
*
215476 TCATATATA
1 TTATATATA
215485 TATATATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 26 0.67
32 13 0.33
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (32 bp):
TTATATATAATTAATATAAAAAATATAAAATA
Found at i:215483 original size:2 final size:2
Alignment explanation
Indices: 215473--215502 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
215463 AAAATATAAA
215473 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
215503 ATCGGGGCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:215573 original size:12 final size:13
Alignment explanation
Indices: 215551--215582 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
215541 CCGAACCCGA
215551 CCCGAAAAAAATC
1 CCCGAAAAAAATC
215564 CCCGAAAAAAATC
1 CCCGAAAAAAATC
215577 CCCGAA
1 CCCGAA
215583 CCCGAACCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.34, G:0.09, T:0.06
Consensus pattern (13 bp):
CCCGAAAAAAATC
Found at i:218112 original size:37 final size:37
Alignment explanation
Indices: 218036--218112 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
218026 TTTTTATATT
*
218036 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
218073 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
218110 TTT
1 TTT
218113 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:222277 original size:30 final size:30
Alignment explanation
Indices: 222243--222300 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
222233 TTAAAAGTAT
222243 GACCCTAATAACAAATATTGAAAAAATTGG
1 GACCCTAATAACAAATATTGAAAAAATTGG
* *
222273 GACCCTAATAATAAGTATTGAAAAAATT
1 GACCCTAATAACAAATATTGAAAAAATT
222301 AAGTCTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (30 bp):
GACCCTAATAACAAATATTGAAAAAATTGG
Found at i:226422 original size:18 final size:17
Alignment explanation
Indices: 226377--226424 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
226367 TCCTAAAAAA
*
226377 ATAAAATAATAATAAAT
1 ATAAAATAATATTAAAT
* *
226394 ATTATATTAATATTAATAT
1 A-TAAAATAATATTAA-AT
226413 ATAAAATAATAT
1 ATAAAATAATAT
226425 ACCTATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.04
18 20 0.83
19 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAATAATATTAAAT
Found at i:226490 original size:2 final size:2
Alignment explanation
Indices: 226483--226556 Score: 134
Period size: 2 Copynumber: 38.0 Consensus size: 2
226473 ATTTATTTCA
226483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
226525 AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
226557 TTTTCATTCA
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 68 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:226697 original size:14 final size:14
Alignment explanation
Indices: 226651--226723 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 14
226641 TTCAAAATGC
226651 ATATATATATATATA
1 ATATATAT-TATATA
* * *
226666 TATATATATCAAAAA
1 -ATATATATTATATA
226681 ATATATATTATATA
1 ATATATATTATATA
*
226695 ATAT-T-TTTTA-A
1 ATATATATTATATA
* *
226706 ATCTATATTACATA
1 ATATATATTATATA
226720 ATAT
1 ATAT
226724 TAAAATAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
11 4 0.09
12 5 0.12
13 4 0.09
14 19 0.44
15 3 0.07
16 8 0.19
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTATATA
Found at i:229974 original size:71 final size:71
Alignment explanation
Indices: 229836--230068 Score: 218
Period size: 71 Copynumber: 3.3 Consensus size: 71
229826 CAAGATAAAA
* * * * * * * * * *
229836 TCAAGTGAGATGCAGTTTTATTTCGAGAGATACTGTCTCGAAGTGAGATGAAAAAATTTC-AGGG
1 TCAAGTGAGATGAAATTTTCTTTCAAGAAAAATTGTCTC-AAGTAAGACG-AAAATTTTCAAGGG
229900 AAAATATC
64 AAAATATC
* * * * *
229908 TCAAGCGAGATGAAATTTTCTTTTAAGAGAACATT-TCTCAAGTAAGATGAAACTTTTCAAGGGA
1 TCAAGTGAGATGAAATTTTCTTTCAAGA-AAAATTGTCTCAAGTAAGACGAAAATTTTCAAGGGA
*
229972 AAATAAC
65 AAATATC
* * * * *
229979 TCAAGTGAGATGAAATTTTGTTTCGAGAAAAATTGTCTCGAGTGAGACGAAAATTTTAAAGGGAA
1 TCAAGTGAGATGAAATTTTCTTTCAAGAAAAATTGTCTCAAGTAAGACGAAAATTTTCAAGGGAA
230044 AATATC
66 AATATC
* *
230050 TCATGTGAGATGTAATTTT
1 TCAAGTGAGATGAAATTTT
230069 TGTTTTAAAG
Statistics
Matches: 132, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
70 12 0.09
71 91 0.69
72 26 0.20
73 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (71 bp):
TCAAGTGAGATGAAATTTTCTTTCAAGAAAAATTGTCTCAAGTAAGACGAAAATTTTCAAGGGAA
AATATC
Found at i:229990 original size:34 final size:33
Alignment explanation
Indices: 229871--230068 Score: 121
Period size: 34 Copynumber: 5.6 Consensus size: 33
229861 AGAGATACTG
*
229871 TCTCGAAGTGAGATGAAAAAATTTC-AGGGAAAATA
1 TCTC-AAGTGAGATG--AAATTTTCAAGGGAAAATA
* * * *
229906 TCTCAAGCGAGATGAAATTTTCTTTTAAGAGAACATT
1 TCTCAAGTGAGATGAAATTTTC----AAGGGAAAATA
*
229943 TCTCAAGTAAGATGAAACTTTTCAAGGGAAAATA
1 TCTCAAGTGAGATGAAA-TTTTCAAGGGAAAATA
* * * *
229977 ACTCAAGTGAGATGAAATTTTGTTTCGA-GAAAAATTG
1 TCTCAAGTGAGATGAAA---T-TTTCAAGGGAAAA-TA
* * *
230014 TCTCGAGTGAGACGAAAATTTTAAAGGGAAAATA
1 TCTCAAGTGAGATG-AAATTTTCAAGGGAAAATA
* *
230048 TCTCATGTGAGATGTAATTTT
1 TCTCAAGTGAGATGAAATTTT
230069 TGTTTTAAAG
Statistics
Matches: 124, Mismatches: 27, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
32 7 0.06
33 6 0.05
34 48 0.39
35 10 0.08
36 6 0.05
37 39 0.31
38 8 0.06
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (33 bp):
TCTCAAGTGAGATGAAATTTTCAAGGGAAAATA
Found at i:230085 original size:71 final size:69
Alignment explanation
Indices: 229869--230104 Score: 253
Period size: 71 Copynumber: 3.3 Consensus size: 69
229859 CGAGAGATAC
* * * *
229869 TGTCTCGAAGTGAGATGAAAAAATTTCAGGGAAAATATCTCAAGCGAGATGAAATTTTCTTTTAA
1 TGTCTC-AAGTGAGATG-AAAATTTTAAGGGAAAATATCTCAAGTGAGATGAAATTTTGTTTTAA
229934 GAGAACAT
64 -AGAA-AT
* * * *
229942 T-TCTCAAGTAAGATGAAACTTTTCAAGGGAAAATAACTCAAGTGAGATGAAATTTTGTTTCGAG
1 TGTCTCAAGTGAGATGAAAATTTT-AAGGGAAAATATCTCAAGTGAGATGAAATTTTGTTT-TA-
230006 AA-AAAT
63 AAGAAAT
* * * *
230012 TGTCTCGAGTGAGACGAAAATTTTAAAGGGAAAATATCTCATGTGAGATGTAATTTTTGTTTTAA
1 TGTCTCAAGTGAGATGAAAATTTT-AAGGGAAAATATCTCAAGTGAGATG-AAATTTTGTTTTAA
*
230077 AGAGAT
64 AGAAAT
230083 TGTCTCAAGTGAGAT-AAAATTT
1 TGTCTCAAGTGAGATGAAAATTT
230105 GTTTTTTTGA
Statistics
Matches: 137, Mismatches: 20, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
70 18 0.13
71 101 0.74
72 16 0.12
73 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (69 bp):
TGTCTCAAGTGAGATGAAAATTTTAAGGGAAAATATCTCAAGTGAGATGAAATTTTGTTTTAAAG
AAAT
Found at i:231028 original size:12 final size:12
Alignment explanation
Indices: 231011--231053 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
231001 GGATGAAGAT
231011 GATGAAGACGAA
1 GATGAAGACGAA
* *
231023 GATGAAGATGGA
1 GATGAAGACGAA
231035 GATGATAG-CGAA
1 GATGA-AGACGAA
231047 GATGAAG
1 GATGAAG
231054 GTGAGAGCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.44, C:0.05, G:0.37, T:0.14
Consensus pattern (12 bp):
GATGAAGACGAA
Done.