Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 341 of 344
Found at i:110720851 original size:120 final size:120
Alignment explanation
Indices: 110720708--110720929 Score: 354
Period size: 120 Copynumber: 1.9 Consensus size: 120
110720698 ATGGTCACTA
* *
110720708 GCACAAATGTCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCC
* * *
110720773 CGGAATTAGTAACTCGCACCAATGCCTTCGGGACTTGGCCCGGAATTAGTAACTC
66 CGGAATTAATAACTAGCACAAATGCCTTCGGGACTTGGCCCGGAATTAGTAACTC
* * *
110720828 GCACAATTGCCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
110720893 CGGAATTAATCACTAGCACAAATGTCTTCGGGACTTG
66 CGGAATTAATAACTAGCACAAATGCCTTCGGGACTTG
110720930 ACCCCGTTAG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
120 92 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCC
CGGAATTAATAACTAGCACAAATGCCTTCGGGACTTGGCCCGGAATTAGTAACTC
Found at i:110727477 original size:11 final size:11
Alignment explanation
Indices: 110727461--110727487 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
110727451 TGGTTTAATT
110727461 AAAAAAATTTA
1 AAAAAAATTTA
110727472 AAAAAAATTTA
1 AAAAAAATTTA
110727483 AAAAA
1 AAAAA
110727488 TCTTATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAAATTTA
Found at i:110734613 original size:168 final size:168
Alignment explanation
Indices: 110734330--110734643 Score: 531
Period size: 168 Copynumber: 1.9 Consensus size: 168
110734320 GGAGTAAAAT
* *
110734330 GAGTACATGAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTTGATATTCAATT
1 GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTCGATATTCAATT
* * *
110734395 ATTCCTAGTTATGTCAACAACATGATGTGTTATTACTAAGATATAAGGTATGTGGGTGACCAATG
66 ATTCCTAGCTATGTCAACAACATGATGTGCTATTACTAAGATACAAGGTATGTGGGTGACCAATG
110734460 ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
131 ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
* *
110734498 GAGTACATAAATAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTCGATATTTAATT
1 GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTCGATATTCAATT
* *
110734563 ATTCCTAGCTATGTTAAC-ACAATGATGTGCTATTATTAAGATACAAGGTATGTGGGTGACCAAT
66 ATTCCTAGCTATGTCAACAAC-ATGATGTGCTATTACTAAGATACAAGGTATGTGGGTGACCAAT
110734627 GATAAGTGTCTTGTCAG
130 GATAAGTGTCTTGTCAG
110734644 GTTAGGTTGT
Statistics
Matches: 136, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 2 0.01
168 134 0.99
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (168 bp):
GAGTACATAAAGAGGTTAGCCCCTTACACGTGGTGCATTCTGATTGGCCAACTCGATATTCAATT
ATTCCTAGCTATGTCAACAACATGATGTGCTATTACTAAGATACAAGGTATGTGGGTGACCAATG
ATAAGTGTCTTGTCAGAGTGGTTAGGTTGTCATCGTAG
Found at i:110744045 original size:22 final size:22
Alignment explanation
Indices: 110744020--110744061 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
110744010 TTAATATACT
*
110744020 ATTAGAATACCTTAAATATTTA
1 ATTACAATACCTTAAATATTTA
**
110744042 ATTACAATATTTTAAATATT
1 ATTACAATACCTTAAATATT
110744062 GAAATCAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTACAATACCTTAAATATTTA
Found at i:110749782 original size:11 final size:12
Alignment explanation
Indices: 110749760--110749796 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
110749750 ATTTCTCCAA
*
110749760 TTTATTTTAATT
1 TTTAATTTAATT
110749772 TTTAA-TTAA-T
1 TTTAATTTAATT
110749782 TTTAATTTAATT
1 TTTAATTTAATT
110749794 TTT
1 TTT
110749797 GAAATGAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 6 0.27
11 8 0.36
12 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTAATTTAATT
Found at i:110750611 original size:18 final size:17
Alignment explanation
Indices: 110750579--110750613 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
110750569 AACCTAAATT
*
110750579 TTTTTATAAAAAAATAA
1 TTTTTAAAAAAAAATAA
110750596 TTTTTAAAAAATAAATAA
1 TTTTTAAAAAA-AAATAA
110750614 GCTTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTTTAAAAAAAAATAA
Found at i:110760991 original size:49 final size:49
Alignment explanation
Indices: 110760919--110761032 Score: 185
Period size: 49 Copynumber: 2.3 Consensus size: 49
110760909 CTACTCTTGC
*
110760919 GTTGGATCCGTATAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGAA
1 GTTGGATCCGTCTAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGAA
* * *
110760968 GTTGGATCCATCTAAAGATTCAAATGAAGAGTCTAAGCAAATCTTAGGA
1 GTTGGATCCGTCTAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGAA
110761017 GTTGGAT-CGTCTAAAG
1 GTTGGATCCGTCTAAAG
110761033 GATAAGCCGA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
48 8 0.13
49 52 0.87
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (49 bp):
GTTGGATCCGTCTAAAGATTCAAATAAAGAGTCTAAGCAAATCTTAGAA
Found at i:110764956 original size:6 final size:6
Alignment explanation
Indices: 110764945--110764972 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
110764935 GTAAAACATA
110764945 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
110764973 AAAGTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:110773522 original size:39 final size:40
Alignment explanation
Indices: 110773436--110773526 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 40
110773426 CTTACGTATT
*
110773436 TTTAA-ATATATATATGTCTTATTGTTATCATATAAGTGC
1 TTTAATATATATATATGTCATATTGTTATCATATAAGTGC
*
110773475 TTGT-ATATATATATATGTACATATT-TTA-CATATAACTTG-
1 TT-TAATATATATATATGT-CATATTGTTATCATATAA-GTGC
110773514 TTTAATATATATA
1 TTTAATATATATA
110773527 CGTATACTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
38 1 0.02
39 21 0.47
40 18 0.40
41 5 0.11
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (40 bp):
TTTAATATATATATATGTCATATTGTTATCATATAAGTGC
Found at i:110784158 original size:3 final size:3
Alignment explanation
Indices: 110784150--110784226 Score: 84
Period size: 3 Copynumber: 25.0 Consensus size: 3
110784140 TGGGTAAAAT
* *
110784150 ATA ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATA ATA ATA AGGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* *
110784196 ATAA ATA ATA ATG ATA ATA GTA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
110784227 TAAGTAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 2 0.03
3 56 0.88
4 3 0.05
5 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:110784710 original size:3 final size:3
Alignment explanation
Indices: 110784696--110784785 Score: 74
Period size: 3 Copynumber: 28.3 Consensus size: 3
110784686 AAGTATAAAT
* * *
110784696 ATA ATG ATA ATA ATA ATA ATG ATA ATA ATG ATAA ATA TATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -AT-A ATA ATA
* *
110784744 ATA ATA ATA ATA A-A ATA GAGCA ACAA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA -A-TA A-TA ATA ATA ATA ATA ATA A
110784786 CACATTACTA
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
2 2 0.03
3 57 0.80
4 10 0.14
5 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:110784739 original size:8 final size:7
Alignment explanation
Indices: 110784677--110784757 Score: 50
Period size: 6 Copynumber: 11.9 Consensus size: 7
110784667 ATTCGAATAA
110784677 AATAAAT
1 AATAAAT
*
110784684 -ATAAGT
1 AATAAAT
110784690 -ATAAAT
1 AATAAAT
110784696 -ATAATGAT
1 AATAA--AT
110784704 AAT-AAT
1 AATAAAT
110784710 AATAATGAT
1 AATAA--AT
110784719 AAT-AAT
1 AATAAAT
*
110784725 GATAAAT
1 AATAAAT
110784732 ATATAAAT
1 A-ATAAAT
110784740 AAT-AAT
1 AATAAAT
110784746 AAT-AAT
1 AATAAAT
110784752 AATAAA
1 AATAAA
110784758 ATAGAGCAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
6 35 0.57
7 8 0.13
8 11 0.18
9 7 0.11
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (7 bp):
AATAAAT
Found at i:110784915 original size:9 final size:9
Alignment explanation
Indices: 110784901--110784953 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
110784891 TATTAGCAAA
*
110784901 ATAATAACG
1 ATAATAATG
*
110784910 ATAATAATA
1 ATAATAATG
110784919 ATAATAATG
1 ATAATAATG
* *
110784928 TTAATAAAG
1 ATAATAATG
*
110784937 ATACAAAATG
1 ATA-ATAATG
110784947 ATAATAA
1 ATAATAA
110784954 GTAAGATGCA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
9 27 0.79
10 7 0.21
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (9 bp):
ATAATAATG
Found at i:110785079 original size:14 final size:14
Alignment explanation
Indices: 110785062--110785113 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
110785052 ATAATAATAG
110785062 AAATATAAATAGAT
1 AAATATAAATAGAT
110785076 AAATA-AAATTAGAT
1 AAATATAAA-TAGAT
110785090 AAA-ATAAATATAGATT
1 AAATAT-AA-ATAGA-T
110785106 AAATATAA
1 AAATATAA
110785114 TAGTAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 4 0.12
14 13 0.41
15 6 0.19
16 7 0.22
17 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
AAATATAAATAGAT
Found at i:110785116 original size:14 final size:14
Alignment explanation
Indices: 110785062--110785116 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
110785052 ATAATAATAG
110785062 AAATATAAATAGA-T
1 AAATA-AAATAGATT
*
110785076 AAATAAAATTAGATA
1 AAATAAAA-TAGATT
110785091 AAATAAATATAGATT
1 AAATAAA-ATAGATT
*
110785106 AAATATAATAG
1 AAATAAAATAG
110785117 TAATAATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 13 0.37
15 18 0.51
16 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAATAAAATAGATT
Found at i:110785292 original size:23 final size:21
Alignment explanation
Indices: 110785196--110785296 Score: 60
Period size: 23 Copynumber: 4.5 Consensus size: 21
110785186 AATAATAAGG
* *
110785196 AAAATAAT-AACAATAGTACA
1 AAAATAATAAAGAATAGTAAA
* * *
110785216 ATAATAATAAAGTAGTAATGAAA
1 AAAATAATAAAG-AATAGT-AAA
* *
110785239 ATAAAAAATAACTATAATAGTAAA
1 A-AAATAATAA--AGAATAGTAAA
*
110785263 AATATAATAAAGAATAGTAAA
1 AAAATAATAAAGAATAGTAAA
110785284 GGAAAATAATAAA
1 --AAAATAATAAA
110785297 ATTAACTAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
20 7 0.12
21 12 0.20
22 4 0.07
23 20 0.34
24 11 0.19
25 4 0.07
26 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAATAATAAAGAATAGTAAA
Found at i:110790167 original size:21 final size:21
Alignment explanation
Indices: 110790143--110790185 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
110790133 ACATTTTCTA
*
110790143 AAGTTAAAAGTCAAAATCATT
1 AAGTTAAAAGGCAAAATCATT
110790164 AAGTTAAAAGGCAAAATCATT
1 AAGTTAAAAGGCAAAATCATT
110790185 A
1 A
110790186 TATTGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAATCATT
Found at i:110807971 original size:43 final size:43
Alignment explanation
Indices: 110807924--110808010 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
110807914 AAATGCTCGA
110807924 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
1 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
110807967 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
1 GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
110808010 G
1 G
110808011 TTTGGGGCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (43 bp):
GATAGACTCTTACAAGCTCAGCAACGAATGAAGAACACTTATG
Found at i:110810206 original size:44 final size:44
Alignment explanation
Indices: 110810138--110810228 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
110810128 TGATAAATGA
*
110810138 ATTGATAGGTTGATCATGCATTTAGTCTCAAACACATTTTACCT
1 ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
*
110810182 ATTGATAGGTAGATCATGCGTTTAGTCTCAAACACATTTTACCT
1 ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
110810226 ATT
1 ATT
110810229 ACACATGCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (44 bp):
ATTGATAGGTAGATCATGCATTTAGTCTCAAACACATTTTACCT
Found at i:110813133 original size:46 final size:46
Alignment explanation
Indices: 110813066--110813156 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
110813056 CTTTCTTTTA
*
110813066 AAGTAAAACAATTATTAAATCAATTTACATGCTAAATCAAATTATG
1 AAGTAAAACAATTATTAAATCAATTCACATGCTAAATCAAATTATG
*
110813112 AAGTAAAACAATTATTAAATCAATTCACATGTTAAATCAAATTAT
1 AAGTAAAACAATTATTAAATCAATTCACATGCTAAATCAAATTAT
110813157 CTAATCTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (46 bp):
AAGTAAAACAATTATTAAATCAATTCACATGCTAAATCAAATTATG
Found at i:110815247 original size:29 final size:30
Alignment explanation
Indices: 110815214--110815292 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
110815204 ACAAAACGAT
**
110815214 AACATAAATGACTAAAATGTAACAT-TTCA
1 AACATAAATGACTAAAATGTAACATAGGCA
* * * *
110815243 AACATAAGTAACTAAAATATAATATGAGGCA
1 AACATAAATGACTAAAATGTAACAT-AGGCA
*
110815274 AACAAAAATGACTAAAATG
1 AACATAAATGACTAAAATG
110815293 CATTTAAAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 21 0.55
31 17 0.45
ACGTcount: A:0.56, C:0.11, G:0.10, T:0.23
Consensus pattern (30 bp):
AACATAAATGACTAAAATGTAACATAGGCA
Found at i:110815697 original size:15 final size:14
Alignment explanation
Indices: 110815670--110815697 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
110815660 ATTTTAAGTA
110815670 ACTTTAGTTTTTTT
1 ACTTTAGTTTTTTT
110815684 ACTTTAGTTTTTTT
1 ACTTTAGTTTTTTT
110815698 GTTGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (14 bp):
ACTTTAGTTTTTTT
Found at i:110815762 original size:12 final size:12
Alignment explanation
Indices: 110815745--110815783 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
110815735 GTTATTAATA
110815745 TAATTTAGTTCT
1 TAATTTAGTTCT
110815757 TAATTTAGTTC-
1 TAATTTAGTTCT
110815768 TAATTT-GTT-T
1 TAATTTAGTTCT
110815778 TAATTT
1 TAATTT
110815784 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:110815902 original size:19 final size:19
Alignment explanation
Indices: 110815861--110815906 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
110815851 TCCCATTTTT
110815861 TATTT-TTTTTTGTTTTAA
1 TATTTGTTTTTTGTTTTAA
110815879 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTT-TGTTTTAA
110815899 -ATTTGTTT
1 TATTTGTTT
110815907 GATTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.19
19 13 0.50
20 8 0.31
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (19 bp):
TATTTGTTTTTTGTTTTAA
Found at i:110815916 original size:25 final size:25
Alignment explanation
Indices: 110815881--110815936 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
110815871 TGTTTTAATA
*
110815881 TTTG-TTT-TTATGTTTT-AAATTT
1 TTTGATTTATTATATTTTAAAATTT
110815903 GTTTGATTTATTATATTTTAAAATTT
1 -TTTGATTTATTATATTTTAAAATTT
110815929 TTT-ATTTA
1 TTTGATTTA
110815937 ATAAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.14
24 8 0.28
25 11 0.38
26 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (25 bp):
TTTGATTTATTATATTTTAAAATTT
Found at i:110816144 original size:6 final size:7
Alignment explanation
Indices: 110816128--110816155 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
110816118 CACACCTCTA
110816128 CCCCGAC
1 CCCCGAC
110816135 CCCCGAC
1 CCCCGAC
110816142 CCCCGAC
1 CCCCGAC
110816149 CCCCGAC
1 CCCCGAC
110816156 TCTGCCCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.71, G:0.14, T:0.00
Consensus pattern (7 bp):
CCCCGAC
Found at i:110833866 original size:33 final size:33
Alignment explanation
Indices: 110833829--110833893 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
110833819 AAAATTATAC
*
110833829 AAAACATTAAATT-GTAAATTGAAATAAATTTTG
1 AAAACATT-AATTAGTAAATTAAAATAAATTTTG
* *
110833862 AAAACATTAATTATTAATTTAAAATAAATTTT
1 AAAACATTAATTAGTAAATTAAAATAAATTTT
110833894 AATGCAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (33 bp):
AAAACATTAATTAGTAAATTAAAATAAATTTTG
Found at i:110835689 original size:9 final size:9
Alignment explanation
Indices: 110835675--110835741 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
110835665 ATAAGTATAA
*
110835675 AATTAACAG
1 AATTAACCG
110835684 AATTAACCG
1 AATTAACCG
*
110835693 AATTAATCG
1 AATTAACCG
110835702 AATTAACCG
1 AATTAACCG
*
110835711 AATTACCCG
1 AATTAACCG
110835720 AATTAACC-
1 AATTAACCG
*
110835728 AATTAACTG
1 AATTAACCG
110835737 AATTA
1 AATTA
110835742 TTTGTATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
8 7 0.14
9 44 0.86
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:110837173 original size:6 final size:6
Alignment explanation
Indices: 110837155--110837185 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
110837145 TATGAGGAGC
*
110837155 ATGAGG ATAAGG ATGAGG ATGAGG ATGAGG A
1 ATGAGG ATGAGG ATGAGG ATGAGG ATGAGG A
110837186 GGACAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.16
Consensus pattern (6 bp):
ATGAGG
Found at i:110841789 original size:2 final size:2
Alignment explanation
Indices: 110841782--110841816 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
110841772 TTATTTAAAA
*
110841782 AT AT AT AT AT AT AT AT AT AT AT AG 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
110841817 AGAATATCCT
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:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:110850413 original size:16 final size:16
Alignment explanation
Indices: 110850392--110850422 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110850382 TAATTTCTAA
110850392 ATTGTTTTGTATATTG
1 ATTGTTTTGTATATTG
*
110850408 ATTGTTTTTTATATT
1 ATTGTTTTGTATATT
110850423 ATTTCATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (16 bp):
ATTGTTTTGTATATTG
Found at i:110853912 original size:15 final size:16
Alignment explanation
Indices: 110853894--110853932 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
110853884 AAGATATTTT
110853894 AACAAATAAAATTA-A
1 AACAAATAAAATTAGA
* *
110853909 AACAAATGAAATTAGC
1 AACAAATAAAATTAGA
110853925 AACAAATA
1 AACAAATA
110853933 TGGTGGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (16 bp):
AACAAATAAAATTAGA
Found at i:110859675 original size:16 final size:15
Alignment explanation
Indices: 110859639--110859677 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
110859629 AAGATATTTT
110859639 AACAAATAAAGTTAA
1 AACAAATAAAGTTAA
110859654 AACAAATGAAA-TTAA
1 AACAAAT-AAAGTTAA
110859669 CAACAAATA
1 -AACAAATA
110859678 CGGTGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (15 bp):
AACAAATAAAGTTAA
Found at i:110862957 original size:15 final size:16
Alignment explanation
Indices: 110862937--110862966 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
110862927 TATAATACAT
110862937 TAAATACG-TGAAAAA
1 TAAATACGATGAAAAA
110862952 TAAATACGATGAAAA
1 TAAATACGATGAAAA
110862967 CACTGTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (16 bp):
TAAATACGATGAAAAA
Found at i:110867180 original size:13 final size:13
Alignment explanation
Indices: 110867162--110867192 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
110867152 TTTTTAGTTC
*
110867162 AATTTGGTACCTA
1 AATTTGGTAACTA
110867175 AATTTGGTAACTA
1 AATTTGGTAACTA
110867188 AATTT
1 AATTT
110867193 TTTGTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (13 bp):
AATTTGGTAACTA
Found at i:110871567 original size:15 final size:16
Alignment explanation
Indices: 110871547--110871576 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
110871537 TATAATACGT
110871547 TAAATACG-TGAAAAA
1 TAAATACGATGAAAAA
110871562 TAAATACGATGAAAA
1 TAAATACGATGAAAA
110871577 CACTGTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (16 bp):
TAAATACGATGAAAAA
Found at i:110881231 original size:18 final size:18
Alignment explanation
Indices: 110881208--110881245 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
110881198 ATATTTTTCA
110881208 AATTCAGATATC-AAAATG
1 AATTCAGATA-CAAAAATG
*
110881226 AATTCAGGTACAAAAATG
1 AATTCAGATACAAAAATG
110881244 AA
1 AA
110881246 CCTTGTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (18 bp):
AATTCAGATACAAAAATG
Found at i:110904495 original size:13 final size:15
Alignment explanation
Indices: 110904472--110904503 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
110904462 CACAATTCAC
110904472 TTTCTTTTCTT-TTT
1 TTTCTTTTCTTCTTT
110904486 TTTC-TTTCTTCTTT
1 TTTCTTTTCTTCTTT
110904500 TTTC
1 TTTC
110904504 CGAGACATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCTTTTCTTCTTT
Found at i:110910685 original size:27 final size:27
Alignment explanation
Indices: 110910647--110910699 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
110910637 GGTCCATAGT
* *
110910647 AGGAGGATTTGTTAGCTTGTTAGTAGG
1 AGGAGGAGTTGTTAGCTTATTAGTAGG
110910674 AGGAGGAGTTGTTAGCTTATTAGTAG
1 AGGAGGAGTTGTTAGCTTATTAGTAG
110910700 CAATTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.36, T:0.36
Consensus pattern (27 bp):
AGGAGGAGTTGTTAGCTTATTAGTAGG
Found at i:110920489 original size:42 final size:42
Alignment explanation
Indices: 110920430--110920514 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
110920420 AAAAGGGAAG
*
110920430 TAGGGTCGAATCCTCAGGGACCGGATTATATGAATGATTGTC
1 TAGGGTCGAATCCTCAGGGACCGGATTATACGAATGATTGTC
*
110920472 TAGGGTCGAATCCTCAGGGACCGGATTATACGAATGCTTGTC
1 TAGGGTCGAATCCTCAGGGACCGGATTATACGAATGATTGTC
110920514 T
1 T
110920515 CTCGAAATCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
TAGGGTCGAATCCTCAGGGACCGGATTATACGAATGATTGTC
Found at i:110923587 original size:9 final size:9
Alignment explanation
Indices: 110923573--110923597 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
110923563 TAACTAATTC
110923573 TATTTTATT
1 TATTTTATT
110923582 TATTTTATT
1 TATTTTATT
110923591 TATTTTA
1 TATTTTA
110923598 ATATTATATT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTTTATT
Found at i:110923817 original size:15 final size:15
Alignment explanation
Indices: 110923791--110923841 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
110923781 ATAACTTAAA
*
110923791 TTTAGTACTTAATTT
1 TTTAATACTTAATTT
*
110923806 TTTAATATTTAATTT
1 TTTAATACTTAATTT
* *
110923821 TTTGACACTTAATTT
1 TTTAATACTTAATTT
110923836 TTTAAT
1 TTTAAT
110923842 TTATCAAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (15 bp):
TTTAATACTTAATTT
Found at i:110927124 original size:13 final size:14
Alignment explanation
Indices: 110927106--110927136 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
110927096 TGGCTCACCC
110927106 ATATTATT-TTTTT
1 ATATTATTATTTTT
110927119 ATATTATTATTTTT
1 ATATTATTATTTTT
110927133 ATAT
1 ATAT
110927137 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATATTATTATTTTT
Found at i:110927128 original size:16 final size:16
Alignment explanation
Indices: 110927107--110927137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110927097 GGCTCACCCA
*
110927107 TATTATTTTTTTATAT
1 TATTATTTTTATATAT
110927123 TATTATTTTTATATA
1 TATTATTTTTATATA
110927138 AAAATAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTTTTATATAT
Found at i:110932201 original size:11 final size:11
Alignment explanation
Indices: 110932185--110932216 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
110932175 GAAATTTAAT
110932185 AATGGAAGAAG
1 AATGGAAGAAG
110932196 AATGGAAGAAG
1 AATGGAAGAAG
110932207 AATGGAAGAA
1 AATGGAAGAA
110932217 TTTGGATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.34, T:0.09
Consensus pattern (11 bp):
AATGGAAGAAG
Found at i:110937549 original size:36 final size:36
Alignment explanation
Indices: 110937508--110937619 Score: 179
Period size: 36 Copynumber: 3.1 Consensus size: 36
110937498 GATGTAAAAA
* *
110937508 ATGGTACTACGAATGAAGTGGTTTCATTTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
* *
110937544 CTGGTACAACGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
*
110937580 ATGGTACTATGAACGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
110937616 ATGG
1 ATGG
110937620 GGGTAATAGG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (36 bp):
ATGGTACTACGAACGAAGTGGTTTCATCTGATGTTG
Found at i:110937827 original size:285 final size:285
Alignment explanation
Indices: 110937306--110937828 Score: 780
Period size: 285 Copynumber: 1.8 Consensus size: 285
110937296 TGATGCTACA
* *
110937306 AACGCAGTGGTTGCATCTGATGTTGGTGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
1 AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
* * * * *
110937371 TGTTGGGACTGATGATTCGAGTACAGCGAAACAGGAATCTCAAGGATGCTCTGGTTATGATTCTC
66 TCTTGAGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTC
* **
110937436 AAAAGGATTCTTTTGATAATATTTCTGTGGGAAGTGAAGAGTCGCCTACTAAAGAACCTCAAGAT
131 AAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAGAT
* * * **
110937501 GTAAAAAATGGTACTACGAATGAAGTGGTTTCATTTGATGTTGCTGGTACAACGAACGAAGTGGT
196 ATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGCTGGTACAACGAACGAAGTGGT
110937566 TTCATCTGATGTTGATGGTACTATG
261 TTCATCTGATGTTGATGGTACTATG
* * *
110937591 AACGAAGTGGTTTCATCTGATGTTGATGGGGGTAATAGGATGACTTCAGACATC-AGAACCGTGC
1 AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGAC-TCAAGAACCATGC
110937655 CTCTTGAGACTGATGACTT-GAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTC
65 CTCTTGAGACTGATGA-TTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTC
* * * * * *
110937719 TCCAAAGGATTCTTTTGATACTATTTCTGTGAGAAGTGAAGAGTTGCAGGCTAAGGAACCTCAGG
129 TCAAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAG
* *
110937784 ATATAAAAGATGATAATACGAATGATGTGGTTTCACCTGATGTTG
194 ATATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTG
110937829 ATGGGTTTAA
Statistics
Matches: 210, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
285 206 0.98
286 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (285 bp):
AACGAAGTGGTTGCATCTGATGTTGATGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCC
TCTTGAGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTC
AAAAGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGACTAAAGAACCTCAAGAT
ATAAAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGCTGGTACAACGAACGAAGTGGT
TTCATCTGATGTTGATGGTACTATG
Found at i:110960235 original size:67 final size:68
Alignment explanation
Indices: 110960124--110960256 Score: 153
Period size: 67 Copynumber: 2.0 Consensus size: 68
110960114 TTATTTTTGG
* * * ** * *
110960124 TTAAAATATGCTCCAAGTCCTTATGCTTTTTGTACATTTAGAATTAGTTC-TTTACTTTTTGAAT
1 TTAAAATATGATCCAAGTCCCTATGATTTTCATACATTTAGAATTAGTTCATCTACTTTTCGAAT
110960188 TGA
66 TGA
* * *
110960191 TTAAAATATGATCCAAGTCCCTAT-ATTCTTCATATATTTGGAATTATTTCATCTACTTTTCGAA
1 TTAAAATATGATCCAAGTCCCTATGATT-TTCATACATTTAGAATTAGTTCATCTACTTTTCGAA
110960255 TT
65 TT
110960257 TAAAAATTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
66 2 0.04
67 39 0.72
68 13 0.24
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.47
Consensus pattern (68 bp):
TTAAAATATGATCCAAGTCCCTATGATTTTCATACATTTAGAATTAGTTCATCTACTTTTCGAAT
TGA
Found at i:110966080 original size:22 final size:19
Alignment explanation
Indices: 110966028--110966082 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
110966018 TAAGTTTTTA
110966028 ATTT-TAATTTTAA-AAAT
1 ATTTATAATTTTAATAAAT
*
110966045 ATTTATAATATTAATAAAT
1 ATTTATAATTTTAATAAAT
110966064 AATATTATAATTTTTAATA
1 -AT-TTATAA-TTTTAATA
110966083 TTATTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 4 0.13
18 8 0.26
19 4 0.13
20 2 0.06
21 6 0.19
22 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTATAATTTTAATAAAT
Found at i:110966262 original size:15 final size:15
Alignment explanation
Indices: 110966244--110966301 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 15
110966234 TATTTATATT
110966244 AATATTTTAATAATA
1 AATATTTTAATAATA
110966259 AATATATACTATAA-ATATA
1 AATAT-T--T-TAATA-ATA
*
110966278 AATATATTAATAATA
1 AATATTTTAATAATA
110966293 AATATTTTA
1 AATATTTTA
110966302 TACCGTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
15 19 0.54
16 3 0.09
18 2 0.06
19 11 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:110967204 original size:32 final size:31
Alignment explanation
Indices: 110967161--110967224 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
110967151 AACATTTCAA
* *
110967161 TTTTTTAAAAAAAGTTGATGATTAAATTTAAT
1 TTTTTTAAAAAAA-TTGAAGACTAAATTTAAT
* *
110967193 TTTTTTTAAAAAATTGAAGGCTAAATTTAAT
1 TTTTTTAAAAAAATTGAAGACTAAATTTAAT
110967224 T
1 T
110967225 AAAAATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (31 bp):
TTTTTTAAAAAAATTGAAGACTAAATTTAAT
Found at i:110971253 original size:13 final size:14
Alignment explanation
Indices: 110971237--110971272 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
110971227 CAATCTCATA
110971237 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
110971250 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
110971263 TCTC-ATTTCA
1 TCTCAATTTCA
110971273 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:110971262 original size:18 final size:19
Alignment explanation
Indices: 110971224--110971264 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
110971214 TGGTTCATGT
110971224 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
110971243 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
110971261 TTTC
1 TTTC
110971265 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:110971399 original size:23 final size:23
Alignment explanation
Indices: 110971369--110971426 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
110971359 GTGGATTGCT
110971369 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
110971392 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
110971415 CCCAAACACACC
1 CCCAAACACACC
110971427 CGGAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.47, C:0.43, G:0.03, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:110971945 original size:15 final size:15
Alignment explanation
Indices: 110971925--110971971 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
110971915 TATAATATAT
110971925 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
110971940 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
110971955 TTCAATCAATATAAA
1 TTCAATCAATATAAA
110971970 TT
1 TT
110971972 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:110972945 original size:31 final size:32
Alignment explanation
Indices: 110972887--110972950 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
110972877 CATATATTTG
*
110972887 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
110972919 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
110972950 T
1 T
110972951 TATTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:110973449 original size:14 final size:13
Alignment explanation
Indices: 110973421--110973445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110973411 GATTAACTTC
110973421 ATAAATATTTTTA
1 ATAAATATTTTTA
110973434 ATAAATATTTTT
1 ATAAATATTTTT
110973446 TAATCCATTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAAATATTTTTA
Found at i:110975481 original size:12 final size:14
Alignment explanation
Indices: 110975452--110975488 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
110975442 TCAAGATAGG
110975452 AAAATTGACACTAA
1 AAAATTGACACTAA
*
110975466 AAAATTGACATTAA
1 AAAATTGACACTAA
110975480 AAAATTGAC
1 AAAATTGAC
110975489 CTTTCTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (14 bp):
AAAATTGACACTAA
Found at i:110976755 original size:14 final size:16
Alignment explanation
Indices: 110976724--110976755 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
110976714 TAGAAAAGAT
110976724 TCAAATATTTATTATG
1 TCAAATATTTATTATG
110976740 TCAAA-ATTTA-TATG
1 TCAAATATTTATTATG
110976754 TC
1 TC
110976756 TATAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 5 0.31
16 5 0.31
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
TCAAATATTTATTATG
Found at i:110988769 original size:19 final size:20
Alignment explanation
Indices: 110988742--110988792 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
110988732 CGTCTATTAA
*
110988742 TTTATAATTTTAT-ATTTTT
1 TTTAAAATTTTATAATTTTT
**
110988761 TTTAAAATTAAATAATTTTT
1 TTTAAAATTTTATAATTTTT
110988781 TTTAAAATTTTA
1 TTTAAAATTTTA
110988793 GAGAATTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAAAATTTTATAATTTTT
Found at i:110990044 original size:4 final size:4
Alignment explanation
Indices: 110990037--110990062 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
110990027 AAAAAATAAT
110990037 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
110990063 AAAATAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:111000965 original size:36 final size:36
Alignment explanation
Indices: 111000918--111000991 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
111000908 TAATTCAAAA
111000918 TTCAGGTTTAAAATGTGCTAACAATTAGACCTGAAT
1 TTCAGGTTTAAAATGTGCTAACAATTAGACCTGAAT
*
111000954 TTCAGGTTTAAAATGTGCTAACAATTAGACTTGAAT
1 TTCAGGTTTAAAATGTGCTAACAATTAGACCTGAAT
111000990 TT
1 TT
111000992 TAAAATTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (36 bp):
TTCAGGTTTAAAATGTGCTAACAATTAGACCTGAAT
Found at i:111007420 original size:27 final size:28
Alignment explanation
Indices: 111007390--111007442 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
111007380 AATTGTGAAT
111007390 ATTTA-TACAAAATC-TAAAAAAATTAAA
1 ATTTATTA-AAAATCATAAAAAAATTAAA
*
111007417 ATTTATTAAAAATCATAAATAAATTA
1 ATTTATTAAAAATCATAAAAAAATTA
111007443 TAACAACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (28 bp):
ATTTATTAAAAATCATAAAAAAATTAAA
Found at i:111008825 original size:30 final size:31
Alignment explanation
Indices: 111008791--111008854 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
111008781 ATCACCTTAC
111008791 AAATAC-AACCGAAGCAAAACAAAACCAACA
1 AAATACAAACCGAAGCAAAACAAAACCAACA
* *
111008821 AAATACAAACTGAGGCAAAACAAAACCAACA
1 AAATACAAACCGAAGCAAAACAAAACCAACA
111008852 AAA
1 AAA
111008855 AGAAAATGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.64, C:0.23, G:0.08, T:0.05
Consensus pattern (31 bp):
AAATACAAACCGAAGCAAAACAAAACCAACA
Found at i:111012794 original size:42 final size:43
Alignment explanation
Indices: 111012735--111012815 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 43
111012725 TTTATAATGC
** *
111012735 CACACCGCCTGGACACACGGTTATGTCCT-TGCCCGTGTGGCT
1 CACACCGCCTGGACACACGCCTATGCCCTCTGCCCGTGTGGCT
* *
111012777 CACACGGCCTGGGCACACGCCTATGCCCTCTGCCCGTGT
1 CACACCGCCTGGACACACGCCTATGCCCTCTGCCCGTGT
111012816 AGTTCTAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 24 0.73
43 9 0.27
ACGTcount: A:0.14, C:0.40, G:0.26, T:0.21
Consensus pattern (43 bp):
CACACCGCCTGGACACACGCCTATGCCCTCTGCCCGTGTGGCT
Found at i:111017296 original size:27 final size:26
Alignment explanation
Indices: 111017257--111017669 Score: 173
Period size: 27 Copynumber: 16.6 Consensus size: 26
111017247 CATTGAAATT
111017257 AAATTAAATTTAAATGAAATGAGAACAA
1 AAATTAAA-TTAAATGAAATGAGAA-AA
111017285 AAATTAAATT--A--AAATGA-AAACA
1 AAATTAAATTAAATGAAATGAGAAA-A
*
111017307 AAGA-TAATTTAAATGAAATGAG-AAA
1 AA-ATTAAATTAAATGAAATGAGAAAA
* *
111017332 AAA-T-AATT---TTAAATG-TAAAA
1 AAATTAAATTAAATGAAATGAGAAAA
*
111017352 AAATATAATTTAAATGAAATGAGAAAA
1 AAAT-TAAATTAAATGAAATGAGAAAA
111017379 AAATTAAATTTAAATGAAATGAGAAAA
1 AAATTAAA-TTAAATGAAATGAGAAAA
* *
111017406 AAATTAAATT--A--AAATGCATACAA
1 AAATTAAATTAAATGAAATG-AGAAAA
* * *
111017429 AGA-TAATTTAAATGAAATGAGGAAA
1 AAATTAAATTAAATGAAATGAGAAAA
* * *
111017454 AAATTAATTTTAAATGTAA--A-ATAA
1 AAATTAA-ATTAAATGAAATGAGAAAA
* *
111017478 AGA-TAATTTAAATGAAATGAGAAGAA
1 AAATTAAATTAAATGAAATGAGAA-AA
*
111017504 AAA-TAAATT---T-AAATG-TAAAA
1 AAATTAAATTAAATGAAATGAGAAAA
*
111017524 AAATAATAATATAAATGAAATGAG-AAA
1 AAATTA-AAT-TAAATGAAATGAGAAAA
111017551 AAATTAAATT---T-AAAT--GAAAA
1 AAATTAAATTAAATGAAATGAGAAAA
* *
111017571 AAATATAATTTAAATGAAATG-GAAATGG
1 AAAT-TAAATTAAATGAAATGAGAAA--A
* * *
111017599 AAATGGAAATGGAAATGGAAATGA-AATA
1 AAAT-TAAAT-TAAAT-GAAATGAGAAAA
* *
111017627 AAATGAAATTCAAATGAAATGA-AATAG
1 AAATTAAATT-AAATGAAATGAGAA-AA
111017654 AAATTCAAATTAAATG
1 AAATT-AAATTAAATG
111017670 GAACTGAAAT
Statistics
Matches: 295, Mismatches: 40, Indels: 101
0.68 0.09 0.23
Matches are distributed among these distances:
19 1 0.00
20 24 0.08
21 13 0.04
22 40 0.14
23 24 0.08
24 11 0.04
25 16 0.05
26 53 0.18
27 77 0.26
28 24 0.08
29 4 0.01
30 8 0.03
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.26
Consensus pattern (26 bp):
AAATTAAATTAAATGAAATGAGAAAA
Found at i:111017360 original size:46 final size:48
Alignment explanation
Indices: 111017263--111017397 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 48
111017253 AATTAAATTA
*
111017263 AATTTAAATGAAATGAGAACAAAAATTAAATTAAAATGAAAACAAAGAT
1 AATTTAAATGAAATGAGAA-AAAAATTAAATTTAAATGAAAACAAAGAT
* *
111017312 AATTTAAATGAAATGAG-AAAAAA-TAATTTTAAATGTAAAA-AAATAT
1 AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATG-AAAACAAAGAT
111017358 AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAA
1 AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAA
111017398 TGAGAAAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
46 32 0.41
47 18 0.23
48 12 0.15
49 17 0.22
ACGTcount: A:0.62, C:0.01, G:0.10, T:0.27
Consensus pattern (48 bp):
AATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAAACAAAGAT
Found at i:111017467 original size:49 final size:46
Alignment explanation
Indices: 111017368--111017595 Score: 271
Period size: 49 Copynumber: 4.8 Consensus size: 46
111017358 AATTTAAATG
*
111017368 AAATGAGAAAAAA-ATTAAATTTAAATGAAATGAGAAAAAAATTAAATTA
1 AAATGA-AAAAAAGA-T-AATTTAAATGAAATGAG-AAAAAATTAAATTT
* * *
111017417 AAATGCATACAAAGATAATTTAAATGAAATGAGGAAAAAATTAATTTT
1 AAATG-AAAAAAAGATAATTTAAATGAAATGA-GAAAAAATTAAATTT
*
111017465 AAATGTAAAATAAAGATAATTTAAATGAAATGAGAAGAAAAATAAATTT
1 AAATG-AAAA-AAAGATAATTTAAATGAAATGAGAA-AAAATTAAATTT
* *
111017514 AAATGTAAAAAAATAATAATATAAATGAAATGAGAAAAAATTAAATTT
1 AAATG-AAAAAAA-GATAATTTAAATGAAATGAGAAAAAATTAAATTT
*
111017562 AAATGAAAAAAATATAATTTAAATGAAATG-GAAA
1 AAATGAAAAAAAGATAATTTAAATGAAATGAGAAA
111017596 TGGAAATGGA
Statistics
Matches: 159, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
45 4 0.03
46 16 0.10
47 7 0.04
48 57 0.36
49 73 0.46
50 2 0.01
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.26
Consensus pattern (46 bp):
AAATGAAAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTT
Found at i:111017490 original size:97 final size:94
Alignment explanation
Indices: 111017368--111017595 Score: 291
Period size: 97 Copynumber: 2.4 Consensus size: 94
111017358 AATTTAAATG
* * *
111017368 AAATGAGAAAAAA-ATTAAATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGCATACAAA-G
1 AAATGA-AAAAAAGA-T-AATTTAAATGAAATGAGAAAAAAA-TAAATTAAAATGCAAAAAAATA
* *
111017431 ATAATTTAAATGAAATGAGGAAAAAATTAATTTT
62 ATAATATAAATGAAATGA-GAAAAAATTAAATTT
* *
111017465 AAATGTAAAATAAAGATAATTTAAATGAAATGAGAAGAAAAATAAATTTAAATGTAAAAAAATAA
1 AAATG-AAAA-AAAGATAATTTAAATGAAATGAGAA-AAAAATAAATTAAAATGCAAAAAAATAA
111017530 TAATATAAATGAAATGAGAAAAAATTAAATTT
63 TAATATAAATGAAATGAGAAAAAATTAAATTT
*
111017562 AAATGAAAAAAATATAATTTAAATGAAATG-GAAA
1 AAATGAAAAAAAGATAATTTAAATGAAATGAGAAA
111017596 TGGAAATGGA
Statistics
Matches: 118, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
93 1 0.01
94 3 0.03
95 20 0.17
96 4 0.03
97 62 0.53
98 27 0.23
99 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.26
Consensus pattern (94 bp):
AAATGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAATAAATTAAAATGCAAAAAAATAATAA
TATAAATGAAATGAGAAAAAATTAAATTT
Found at i:111017527 original size:20 final size:21
Alignment explanation
Indices: 111017451--111017586 Score: 82
Period size: 22 Copynumber: 5.9 Consensus size: 21
111017441 TGAAATGAGG
111017451 AAAAAAT-TAATTTTAAATGTA
1 AAAAAATATAA-TTTAAATGTA
*
111017472 AAATAAAGATAATTTAAATGAAATGA
1 AAA-AAATATAATTTAAATG---T-A
111017498 GAAGAAAA-ATAAATTTAAATGTA
1 -AA-AAAATAT-AATTTAAATGTA
*
111017521 AAAAAATAATAATATAAATGAAATGA
1 AAAAAAT-ATAATTTAAATG---T-A
111017547 GAAAAAAT-TAAATTTAAATG-A
1 -AAAAAATAT-AATTTAAATGTA
111017568 AAAAAATATAATTTAAATG
1 AAAAAATATAATTTAAATG
111017587 AAATGGAAAT
Statistics
Matches: 94, Mismatches: 3, Indels: 37
0.70 0.02 0.28
Matches are distributed among these distances:
20 17 0.18
21 9 0.10
22 22 0.23
23 6 0.06
24 1 0.01
25 3 0.03
26 13 0.14
27 22 0.23
28 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (21 bp):
AAAAAATATAATTTAAATGTA
Found at i:111017587 original size:20 final size:20
Alignment explanation
Indices: 111017502--111017589 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
111017492 AAATGAGAAG
111017502 AAAAATA-AATTTAAATGTAA
1 AAAAATATAATTTAAATG-AA
111017522 AAAAATAATAATATAAATGAAATGAGA
1 AAAAAT-ATAAT-T---T-AAATGA-A
111017549 AAAAAT-TAAATTTAAATGAA
1 AAAAATAT-AATTTAAATGAA
111017569 AAAAATATAATTTAAATGAA
1 AAAAATATAATTTAAATGAA
111017589 A
1 A
111017590 TGGAAATGGA
Statistics
Matches: 58, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
20 26 0.45
21 8 0.14
22 4 0.07
23 1 0.02
25 2 0.03
26 5 0.09
27 12 0.21
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAAATATAATTTAAATGAA
Found at i:111017596 original size:11 final size:11
Alignment explanation
Indices: 111017582--111017744 Score: 109
Period size: 11 Copynumber: 14.5 Consensus size: 11
111017572 AATATAATTT
111017582 AAATGAAATGG
1 AAATGAAATGG
111017593 AAATGGAAATGG
1 AAAT-GAAATGG
111017605 AAATGGAAATGG
1 AAAT-GAAATGG
*
111017617 AAATGAAAT-A
1 AAATGAAATGG
**
111017627 AAATGAAATTC
1 AAATGAAATGG
111017638 AAATGAAAT-G
1 AAATGAAATGG
**
111017648 AAATAGAAATTC
1 AAAT-GAAATGG
*
111017660 AAATTAAATGG
1 AAATGAAATGG
* *
111017671 AACTGAAATAG
1 AAATGAAATGG
*
111017682 AAATGAAATGA
1 AAATGAAATGG
**
111017693 AAAAAATTAAT-G
1 AAATGA--AATGG
*
111017705 AAATGAAATGAT
1 AAATGAAATG-G
*
111017717 AAATGAAATATG
1 AAATGAAAT-GG
111017729 AATATGAAAT-G
1 AA-ATGAAATGG
111017740 AAATG
1 AAATG
111017745 TAATTTGTAA
Statistics
Matches: 121, Mismatches: 21, Indels: 21
0.74 0.13 0.13
Matches are distributed among these distances:
10 19 0.16
11 50 0.41
12 42 0.35
13 10 0.08
ACGTcount: A:0.58, C:0.02, G:0.18, T:0.22
Consensus pattern (11 bp):
AAATGAAATGG
Found at i:111017630 original size:5 final size:5
Alignment explanation
Indices: 111017582--111017801 Score: 129
Period size: 5 Copynumber: 40.2 Consensus size: 5
111017572 AATATAATTT
*
111017582 AAATG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG AAATA AAATG
1 AAATG AAAT-G AAAT-G AAAT-G AAAT-G AAAT-G AAATG AAATG AAATG
* * * *
111017632 AAATTC AAATG AAATG AAATAG AAATTC AAATT AAATGG AACTG AAATAG
1 AAA-TG AAATG AAATG AAAT-G AAA-TG AAATG AAAT-G AAATG AAAT-G
* *
111017682 AAATG AAATG AAA-A AAAT- TAATG AAATG AAATG ATAAATG AAATATG
1 AAATG AAATG AAATG AAATG AAATG AAATG AAATG --AAATG -AA-ATG
* * * *
111017729 AATATG AAATG AAATG TAATTTG TAATG AATATC AAACG AAATG AAATGTG
1 AA-ATG AAATG AAATG -AA-ATG AAATG AA-ATG AAATG AAATG AAA--TG
*
111017780 AAATG AATATA AAATG AAATG A
1 AAATG AA-ATG AAATG AAATG A
111017802 TGATTATGAA
Statistics
Matches: 175, Mismatches: 23, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
4 6 0.03
5 84 0.48
6 69 0.39
7 16 0.09
ACGTcount: A:0.56, C:0.02, G:0.18, T:0.24
Consensus pattern (5 bp):
AAATG
Found at i:111017770 original size:28 final size:28
Alignment explanation
Indices: 111017726--111017801 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
111017716 TAAATGAAAT
* * * *
111017726 ATGAATATGAAATGAAATGTAATTTGTA
1 ATGAATATAAAATGAAATGAAATGTGAA
* *
111017754 ATGAATATCAAACGAAATGAAATGTGAA
1 ATGAATATAAAATGAAATGAAATGTGAA
111017782 ATGAATATAAAATGAAATGA
1 ATGAATATAAAATGAAATGA
111017802 TGATTATGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (28 bp):
ATGAATATAAAATGAAATGAAATGTGAA
Found at i:111017873 original size:18 final size:18
Alignment explanation
Indices: 111017842--111017937 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 18
111017832 AAAATAAATT
111017842 ATAAAT-TT-AAATGAAA
1 ATAAATATTGAAATGAAA
*
111017858 ACAAATATTGAAATGAAAA
1 ATAAATATTGAAATG-AAA
*
111017877 TATAAATTTTGAAATGAGAA
1 -ATAAATATTGAAATGA-AA
* *
111017897 ATAATTAAATTTAAATGGAAA
1 ATAA--ATATTGAAAT-GAAA
111017918 A-AAATATTGAAATGAAA
1 ATAAATATTGAAATGAAA
111017935 ATA
1 ATA
111017938 TAAATGTAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
16 5 0.08
17 7 0.11
18 14 0.22
19 8 0.13
20 17 0.27
21 10 0.16
22 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.29
Consensus pattern (18 bp):
ATAAATATTGAAATGAAA
Found at i:111027204 original size:16 final size:16
Alignment explanation
Indices: 111027180--111027217 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
111027170 TTTGGTTCGC
* *
111027180 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
111027196 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
111027212 TGTAAT
1 TGTAAT
111027218 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:111027247 original size:45 final size:44
Alignment explanation
Indices: 111027196--111027290 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
111027186 GGATTAGAGG
* *
111027196 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
111027241 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
111027285 TGTAAT
1 TGTAAT
111027291 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:111027473 original size:18 final size:17
Alignment explanation
Indices: 111027452--111027486 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
111027442 TTATTATTTA
*
111027452 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
111027470 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
111027487 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:111027480 original size:28 final size:27
Alignment explanation
Indices: 111027410--111027482 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
111027400 TTTATTATCA
*
111027410 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
111027438 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
111027465 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
111027483 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:111027620 original size:18 final size:17
Alignment explanation
Indices: 111027599--111027633 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
111027589 TTATTATTAA
*
111027599 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
111027617 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
111027634 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:111027645 original size:147 final size:149
Alignment explanation
Indices: 111027371--111027645 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
111027361 ATGATTATTG
*
111027371 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
111027436 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
111027501 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
111027520 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
111027583 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
111027646 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:111027742 original size:18 final size:17
Alignment explanation
Indices: 111027719--111027753 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
111027709 TTATTTTTAA
111027719 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
111027737 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
111027754 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:111027800 original size:59 final size:57
Alignment explanation
Indices: 111027617--111027800 Score: 151
Period size: 59 Copynumber: 3.1 Consensus size: 57
111027607 TAATTAAAAT
111027617 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAACCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT-AATTTACTCAAA-CATA
* * ** * * * * *
111027676 ATAT-ATGATACTGTAAAATAT-AAAATAACATAATTATTTTTAAATATAATATAATTAAA-AT-
1 ATATAAT-TTA--ATAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATAATTTACTCAAACATA
111027737 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT-AATTTACTCAAA-CATA
111027796 ATATA
1 ATATA
111027801 TGATACTATA
Statistics
Matches: 93, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
55 4 0.04
56 9 0.10
57 6 0.06
58 8 0.09
59 22 0.24
61 17 0.18
62 8 0.09
63 6 0.06
64 9 0.10
65 4 0.04
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (57 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAATTTACTCAAACATA
Found at i:111027868 original size:18 final size:17
Alignment explanation
Indices: 111027829--111027860 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
111027819 TTTTAAATAA
111027829 TTAATATTAAATATATT
1 TTAATATTAAATATATT
111027846 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
111027861 GATTTAATAA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:111027885 original size:120 final size:120
Alignment explanation
Indices: 111027582--111027874 Score: 464
Period size: 120 Copynumber: 2.4 Consensus size: 120
111027572 ATCATATTTA
111027582 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
111027647 TATTCTTATATAAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATAAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* * *
111027702 AACATAATTATTTTTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
111027767 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATAAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
111027823 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
111027875 TAAAATAATT
Statistics
Matches: 158, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 3 0.02
120 152 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATAAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:111027985 original size:91 final size:91
Alignment explanation
Indices: 111027890--111028097 Score: 258
Period size: 91 Copynumber: 2.3 Consensus size: 91
111027880 TAATTATAAC
* * * *
111027890 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
111027954 TAATATAAAATTTCATAAAATTCTTGA
65 TAATATAAAATTTCATAAAATTCTTAA
* * *
111027981 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* * * *
111028046 GATATATAATTTCATGAAATTGTTAA
66 AATATAAAATTTCATAAAATTCTTAA
*
111028072 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
111028098 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 79 0.77
92 22 0.22
93 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATAAAATTTCATAAAATTCTTAA
Found at i:111028334 original size:35 final size:35
Alignment explanation
Indices: 111028288--111028358 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
111028278 TAAACTAAAG
111028288 AAAACGATCATTTGAGTTGGATGGTCGGGAATTTT
1 AAAACGATCATTTGAGTTGGATGGTCGGGAATTTT
111028323 AAAACGATCATTTGAGTTGGATGGTCGGGAATTTT
1 AAAACGATCATTTGAGTTGGATGGTCGGGAATTTT
111028358 A
1 A
111028359 CTCAATGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (35 bp):
AAAACGATCATTTGAGTTGGATGGTCGGGAATTTT
Found at i:111028663 original size:12 final size:12
Alignment explanation
Indices: 111028648--111028677 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
111028638 AATACAAACA
111028648 ACAGAAGCTGCT
1 ACAGAAGCTGCT
111028660 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
111028672 AAAGAA
1 ACAGAA
111028678 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:111028955 original size:14 final size:14
Alignment explanation
Indices: 111028936--111028966 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
111028926 AAAATATTAA
111028936 CAACAAATAGTTCC
1 CAACAAATAGTTCC
111028950 CAACAAATAGTTCC
1 CAACAAATAGTTCC
111028964 CAA
1 CAA
111028967 TTGCCAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (14 bp):
CAACAAATAGTTCC
Found at i:111040479 original size:25 final size:23
Alignment explanation
Indices: 111040442--111040503 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 23
111040432 ATAAAAAGAT
**
111040442 TTTAAAATTATAATAAATCAAATAA
1 TTTAAAAACATAA-AAA-CAAATAA
111040467 TTTAAAAACATAAAAACAAAT-A
1 TTTAAAAACATAAAAACAAATAA
111040489 -TTAAATAA-ATAAAAA
1 TTTAAA-AACATAAAAA
111040504 ATGATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 12 0.35
22 3 0.09
23 5 0.15
24 3 0.09
25 11 0.32
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (23 bp):
TTTAAAAACATAAAAACAAATAA
Found at i:111042304 original size:81 final size:81
Alignment explanation
Indices: 111042166--111042318 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
111042156 ATCGAAGTTC
* * *
111042166 AGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAATCTGGAACCAGACCAACCTACAGGC
1 AGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAATCTGGAACCAGAACAACCAACAGAC
111042231 GCAACAGCACAAGATA
66 GCAACAGCACAAGATA
** * **
111042247 AGAGAAAAATCCTGTTATTTGGCAAGGAGTGC-GGCTATTTTCTGGAACCAGAACAACCAACAGA
1 AGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGG-TATAATCTGGAACCAGAACAACCAACAGA
111042311 CGCAACAG
65 CGCAACAG
111042319 GAGAAGTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.03
81 61 0.97
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.18
Consensus pattern (81 bp):
AGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAATCTGGAACCAGAACAACCAACAGAC
GCAACAGCACAAGATA
Found at i:111043052 original size:12 final size:12
Alignment explanation
Indices: 111043035--111043066 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
111043025 AGCTTGATTG
111043035 TTAAGTTTTTTT
1 TTAAGTTTTTTT
111043047 TTAAGTTTTTTT
1 TTAAGTTTTTTT
*
111043059 TAAAGTTT
1 TTAAGTTT
111043067 AGTTAGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (12 bp):
TTAAGTTTTTTT
Found at i:111044955 original size:23 final size:23
Alignment explanation
Indices: 111044925--111044970 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
111044915 AGTAGCACGG
111044925 ATCAGTAAAGAAAGTTGTTGGGA
1 ATCAGTAAAGAAAGTTGTTGGGA
111044948 ATCAGTAAAGAAAGTTGTTGGGA
1 ATCAGTAAAGAAAGTTGTTGGGA
111044971 TTTTGGTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.30, T:0.26
Consensus pattern (23 bp):
ATCAGTAAAGAAAGTTGTTGGGA
Found at i:111063665 original size:29 final size:30
Alignment explanation
Indices: 111063614--111063677 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
111063604 AGTCTATATA
* *
111063614 TTTATAATTTTTAAAGGATTAAATTA-AAT
1 TTTATAATTTTTAAAGGACTAAAATATAAT
*
111063643 TTTATTATTTTT-AAGGAGCTAAAATATAAT
1 TTTATAATTTTTAAAGGA-CTAAAATATAAT
111063673 TTTAT
1 TTTAT
111063678 CTTTACTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.17
29 17 0.57
30 8 0.27
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.50
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGACTAAAATATAAT
Found at i:111064732 original size:3 final size:3
Alignment explanation
Indices: 111064724--111064770 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
111064714 GGGCAAAACA
*
111064724 AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
111064771 ATGGACACAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:111066603 original size:11 final size:11
Alignment explanation
Indices: 111066589--111066615 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
111066579 TTAACAAACG
111066589 TAACACAATGA
1 TAACACAATGA
111066600 TAACACAATGA
1 TAACACAATGA
111066611 TAACA
1 TAACA
111066616 GGAGACGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.07, T:0.19
Consensus pattern (11 bp):
TAACACAATGA
Found at i:111073795 original size:31 final size:31
Alignment explanation
Indices: 111073757--111073905 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
111073747 ATAAATGACA
*
111073757 AGTGAAAAGTGGTAGCTTCGGCTACCTGAGC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
111073788 AGTGAAAAGTAGTAGCTTCTGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
111073819 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
111073850 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
111073881 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
111073906 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:111073916 original size:7 final size:7
Alignment explanation
Indices: 111073904--111073946 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
111073894 AGCTTCGGCT
111073904 ACAAGTG
1 ACAAGTG
111073911 ACAAGTG
1 ACAAGTG
111073918 ACAAGTG
1 ACAAGTG
111073925 ACAAGTG
1 ACAAGTG
111073932 ACAAGTG
1 ACAAGTG
111073939 ACAAGTG
1 ACAAGTG
111073946 A
1 A
111073947 TTTCCGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:111074059 original size:49 final size:44
Alignment explanation
Indices: 111073955--111074161 Score: 199
Period size: 42 Copynumber: 4.6 Consensus size: 44
111073945 GATTTCCGTA
* * * *
111073955 TAAGATCATATCTGGGATATGGCATCAGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATC---GATATATGTGATTACGTG
111074001 TAAGACCATAGCTGGGCTATGGCATCGATATGTCATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCG--A--T-ATATGTGATTACGTG
* *
111074050 TAAGACCATAGCTGGGCTATGGCATCGATATA--TGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGTGATTACGTG
** *
111074092 TAAGACCATAGCTGGGCTATGGCATC-AT-TATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGTGATTACGTG
* **
111074134 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
111074162 GAAGACGAAG
Statistics
Matches: 142, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 66 0.46
43 2 0.01
44 3 0.02
45 2 0.01
46 23 0.16
47 1 0.01
48 10 0.07
49 31 0.22
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGTGATTACGTG
Found at i:111076018 original size:14 final size:13
Alignment explanation
Indices: 111075990--111076014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111075980 TTAACGTTAA
111075990 AAAATGGGGAATG
1 AAAATGGGGAATG
111076003 AAAATGGGGAAT
1 AAAATGGGGAAT
111076015 TGAAGAGCTA
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:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (13 bp):
AAAATGGGGAATG
Found at i:111077862 original size:5 final size:5
Alignment explanation
Indices: 111077854--111077881 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
111077844 AATGACAAGA
111077854 ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATA
111077882 AGATTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:111078224 original size:7 final size:7
Alignment explanation
Indices: 111078214--111078279 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 7
111078204 AAACCCTTAC
111078214 AAACCCA
1 AAACCCA
111078221 AAACCCA
1 AAACCCA
* *
111078228 ATACACA
1 AAACCCA
*
111078235 GAAGCCCA
1 -AAACCCA
*
111078243 AACCCCTTA
1 AAACCC--A
111078252 CAAACCCA
1 -AAACCCA
111078260 AAACCCA
1 AAACCCA
111078267 AAACCCCA
1 AAA-CCCA
111078275 AAACC
1 AAACC
111078280 TTAATCAGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
7 29 0.62
8 12 0.26
9 1 0.02
10 5 0.11
ACGTcount: A:0.50, C:0.42, G:0.03, T:0.05
Consensus pattern (7 bp):
AAACCCA
Found at i:111079390 original size:3 final size:3
Alignment explanation
Indices: 111079382--111079415 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
111079372 TGTATTTTCA
*
111079382 TAT TAT TAT TAT TAT TAT TAT ATAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
111079416 ATGCATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:111079412 original size:13 final size:13
Alignment explanation
Indices: 111079382--111079417 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
111079372 TGTATTTTCA
111079382 TATTATTAT-TAT
1 TATTATTATATAT
111079394 TATTATTATATAT
1 TATTATTATATAT
*
111079407 TTTTATTATAT
1 TATTATTATAT
111079418 GCATATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATTATATAT
Found at i:111083880 original size:12 final size:12
Alignment explanation
Indices: 111083863--111083921 Score: 62
Period size: 12 Copynumber: 5.6 Consensus size: 12
111083853 GACATTCATC
111083863 CATTCATATACT
1 CATTCATATACT
111083875 CATTC--AT-C-
1 CATTCATATACT
111083883 CATTCATATACT
1 CATTCATATACT
111083895 CATTC--AT-C-
1 CATTCATATACT
111083903 CATTCATATACT
1 CATTCATATACT
111083915 CATTCAT
1 CATTCAT
111083922 CCATTCATCG
Statistics
Matches: 39, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
8 10 0.26
9 2 0.05
10 8 0.21
11 2 0.05
12 17 0.44
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.41
Consensus pattern (12 bp):
CATTCATATACT
Found at i:111083880 original size:20 final size:20
Alignment explanation
Indices: 111083855--111083929 Score: 150
Period size: 20 Copynumber: 3.8 Consensus size: 20
111083845 ATTCTTTGGA
111083855 CATTCATCCATTCATATACT
1 CATTCATCCATTCATATACT
111083875 CATTCATCCATTCATATACT
1 CATTCATCCATTCATATACT
111083895 CATTCATCCATTCATATACT
1 CATTCATCCATTCATATACT
111083915 CATTCATCCATTCAT
1 CATTCATCCATTCAT
111083930 CGCGTGTACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (20 bp):
CATTCATCCATTCATATACT
Found at i:111097418 original size:21 final size:22
Alignment explanation
Indices: 111097383--111097423 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
111097373 TAACAACTTA
111097383 ATTTAAAAATAAAAAATTTATG
1 ATTTAAAAATAAAAAATTTATG
*
111097405 ATTT-AAAATTAAAAATTTA
1 ATTTAAAAATAAAAAATTTA
111097424 ATCTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTTAAAAATAAAAAATTTATG
Found at i:111110119 original size:13 final size:13
Alignment explanation
Indices: 111110101--111110132 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
111110091 TATTAAAAAA
111110101 AGTTCCGCCAGCG
1 AGTTCCGCCAGCG
111110114 AGTTCCGCCAGCG
1 AGTTCCGCCAGCG
111110127 AGTTCC
1 AGTTCC
111110133 AAGCAACAAT
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:0.16, C:0.38, G:0.28, T:0.19
Consensus pattern (13 bp):
AGTTCCGCCAGCG
Found at i:111111478 original size:34 final size:34
Alignment explanation
Indices: 111111435--111111502 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
111111425 GTCTCCCAAA
111111435 ATGAAAATTTCTCTATATAGACTCTTCAATTTTT
1 ATGAAAATTTCTCTATATAGACTCTTCAATTTTT
111111469 ATGAAAATTTCTCTATATAGACTCTTCAATTTTT
1 ATGAAAATTTCTCTATATAGACTCTTCAATTTTT
111111503 CCGTCATGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (34 bp):
ATGAAAATTTCTCTATATAGACTCTTCAATTTTT
Found at i:111114717 original size:18 final size:18
Alignment explanation
Indices: 111114694--111114729 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
111114684 ACCTTGATGG
111114694 CGGACCGCTGTTCGAACC
1 CGGACCGCTGTTCGAACC
*
111114712 CGGACCGCTGTTTGAACC
1 CGGACCGCTGTTCGAACC
111114730 GGCTCGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (18 bp):
CGGACCGCTGTTCGAACC
Found at i:111117479 original size:5 final size:6
Alignment explanation
Indices: 111117462--111117486 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
111117452 AGATACTCAG
111117462 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
111117487 GCCAAACACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:111123012 original size:32 final size:32
Alignment explanation
Indices: 111122971--111123036 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
111122961 AGGAATAAGC
111122971 ACAAATTAAGTCTCACGAATTTATAGAATTGA
1 ACAAATTAAGTCTCACGAATTTATAGAATTGA
111123003 ACAAATTAAGTCTCACGAATTTATAGAATTGA
1 ACAAATTAAGTCTCACGAATTTATAGAATTGA
111123035 AC
1 AC
111123037 TTCAATAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (32 bp):
ACAAATTAAGTCTCACGAATTTATAGAATTGA
Found at i:111124712 original size:17 final size:18
Alignment explanation
Indices: 111124671--111124713 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
111124661 ATTATTTACT
111124671 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
111124689 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
111124706 TATTATAT
1 TATTATAT
111124714 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:111127659 original size:16 final size:17
Alignment explanation
Indices: 111127622--111127663 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
111127612 ATTTTTTTTC
111127622 TTAATTTAAAAAATATA
1 TTAATTTAAAAAATATA
111127639 TTAATTTAAAAAATATA
1 TTAATTTAAAAAATATA
111127656 -TAATTTAA
1 TTAATTTAA
111127664 CCGACAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTTAAAAAATATA
Found at i:111131885 original size:21 final size:21
Alignment explanation
Indices: 111131859--111131903 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
111131849 AAAATTGTTG
111131859 ATATATCATA-AAAT-ATTAGAA
1 ATATATCA-ACAAATGATT-GAA
111131880 ATATATCAACAAATGATTGAA
1 ATATATCAACAAATGATTGAA
111131901 ATA
1 ATA
111131904 ACAATAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.05
21 18 0.82
22 3 0.14
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (21 bp):
ATATATCAACAAATGATTGAA
Found at i:111133427 original size:81 final size:80
Alignment explanation
Indices: 111133279--111133433 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 80
111133269 TTGGTGTTTT
* * * * *
111133279 AATGAAATTTGACTTTTAGTTATGATTATTGATTTTGGGTTATTTTGTTTCTTCAAAGTTTAATT
1 AATGAAATTCGACTTTTAGTTATGATTATCGACTTTGAGTTATTTTGTTTCTT-AAAGTCTAATT
111133344 TTTATGAATTTGAATA
65 TTTATGAATTTGAATA
* * *
111133360 AATGAAATTCGATTTTTAGTTATGATTATCGAACTTTGAGTTATTTTAGTTAT-TT-GAGTCTAG
1 AATGAAATTCGACTTTTAGTTATGATTATCG-ACTTTGAGTTATTTT-GTT-TCTTAAAGTCTAA
111133423 TTTTTATGAAT
63 TTTTTATGAAT
111133434 GAATTTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 44 0.70
82 13 0.21
83 5 0.08
84 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.52
Consensus pattern (80 bp):
AATGAAATTCGACTTTTAGTTATGATTATCGACTTTGAGTTATTTTGTTTCTTAAAGTCTAATTT
TTATGAATTTGAATA
Found at i:111136408 original size:16 final size:16
Alignment explanation
Indices: 111136384--111136414 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111136374 TCAAGCAATT
*
111136384 CAAATTTGAAATAACC
1 CAAAATTGAAATAACC
111136400 CAAAATTGAAATAAC
1 CAAAATTGAAATAAC
111136415 TAAAACCCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.23
Consensus pattern (16 bp):
CAAAATTGAAATAACC
Found at i:111139852 original size:21 final size:21
Alignment explanation
Indices: 111139828--111139895 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
111139818 GGTGAGAATT
111139828 TTTTAAGCATGCTCAAACACA
1 TTTTAAGCATGCTCAAACACA
* *
111139849 TTTTAATGCA-G--AAGAACGTCGA
1 TTTTAA-GCATGCTCA-AAC-AC-A
111139871 -TTTAAGCATGCTCAAACACA
1 TTTTAAGCATGCTCAAACACA
111139891 TTTTA
1 TTTTA
111139896 TCTTTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 1 0.03
20 7 0.20
21 19 0.54
22 7 0.20
23 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (21 bp):
TTTTAAGCATGCTCAAACACA
Found at i:111141267 original size:21 final size:21
Alignment explanation
Indices: 111141246--111141285 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
111141236 TGATTTTGAT
111141246 TTTAGAGTTAG-GATTCAAGA
1 TTTAGAGTTAGAGATTCAAGA
*
111141266 TTTAGAGTTTGAGATTCAAG
1 TTTAGAGTTAGAGATTCAAG
111141286 GTTAAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.38
Consensus pattern (21 bp):
TTTAGAGTTAGAGATTCAAGA
Found at i:111141294 original size:28 final size:29
Alignment explanation
Indices: 111141262--111141321 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
111141252 GTTAGGATTC
111141262 AAGATTTAGAGTTT-GAGATTCAAGGTT-A
1 AAGATTTAGAGTTTGGA-ATTCAAGGTTCA
* *
111141290 AAGATTTTGGGTTTGGAATTCAAGGTTCA
1 AAGATTTAGAGTTTGGAATTCAAGGTTCA
111141319 AAG
1 AAG
111141322 TAAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (29 bp):
AAGATTTAGAGTTTGGAATTCAAGGTTCA
Done.