Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012591.1 Kokia drynarioides strain JFW-HI SEQ_127600, 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: 196747
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Warning! 10 characters in sequence are not A, C, G, or T
Found at i:4315 original size:23 final size:23
Alignment explanation
Indices: 4284--4387 Score: 111
Period size: 23 Copynumber: 4.4 Consensus size: 23
4274 AATGCTGGGC
*
4284 AACAAAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* * *
4307 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACACAGTGCTA
*
4330 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACACAGTGCT-A
* *
4354 TAACAGAGAGCAGGAGAC-GTGCTA
1 -AACAGAGAGCA-CACACAGTGCTA
4378 AACAGAGAGC
1 AACAGAGAGC
4388 GCACTAGTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 47 0.70
24 2 0.03
25 15 0.22
26 3 0.04
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:4376 original size:71 final size:69
Alignment explanation
Indices: 4237--4386 Score: 169
Period size: 71 Copynumber: 2.1 Consensus size: 69
4227 TATACGGAAC
* * **
4237 AAACAGAGAGTACCAAAGTACTAACAGAGATCACATAAATGCTGGGCAACAAAGAGCACACACAG
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACACAAATGCTGAACAACAAAGAGCACACACAG
4302 TGCT
66 TGCT
* * * * *
4306 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACACAGTGCT-AATAACAGAGAGCAGGAG
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACACA-AATGCTGAACAACAAAGAGCA-CAC
4370 AC-GTGCT
62 ACAGTGCT
4377 AAACAGAGAG
1 AAACAGAGAG
4387 CGCACTAGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
69 13 0.19
70 11 0.16
71 36 0.53
72 8 0.12
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (69 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACACAAATGCTGAACAACAAAGAGCACACACAG
TGCT
Found at i:8385 original size:16 final size:16
Alignment explanation
Indices: 8364--8395 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8354 AGTAATTTTT
*
8364 ATGTTAAAGGATTAAA
1 ATGTTAAAGGAATAAA
8380 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
8396 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:11236 original size:2 final size:2
Alignment explanation
Indices: 11229--11254 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11219 AATAATTTTG
11229 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
11255 GACTACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14817 original size:21 final size:21
Alignment explanation
Indices: 14768--14823 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
14758 CTTGAGTTTG
*
14768 TTGTATCTGTAGAAGTAATAA
1 TTGTATCGGTAGAAGTAATAA
* * * *
14789 TTGCATCGGTAGTAGTCATAT
1 TTGTATCGGTAGAAGTAATAA
*
14810 TTGTATCGATAGAA
1 TTGTATCGGTAGAA
14824 CTTTCTCAAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
TTGTATCGGTAGAAGTAATAA
Found at i:15604 original size:22 final size:22
Alignment explanation
Indices: 15579--15624 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15569 AGAAGGGCAA
15579 TTGCTCTATTAGT-ATTTAGGAT
1 TTGCTCTATT-GTAATTTAGGAT
* *
15601 TTGCTCTGTTGTAATTTAGTAT
1 TTGCTCTATTGTAATTTAGGAT
15623 TT
1 TT
15625 TAAGTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (22 bp):
TTGCTCTATTGTAATTTAGGAT
Found at i:16816 original size:14 final size:14
Alignment explanation
Indices: 16797--16823 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16787 TAACAAAACG
16797 GAAATGAAAATAAA
1 GAAATGAAAATAAA
16811 GAAATGAAAATAA
1 GAAATGAAAATAA
16824 CTAAAAGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (14 bp):
GAAATGAAAATAAA
Found at i:21165 original size:17 final size:18
Alignment explanation
Indices: 21132--21177 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
21122 TATAACAGTA
*
21132 TATTTTT-TCTGCTTTTC
1 TATTTTTCTTTGCTTTTC
21149 TATTTTTCTTTGC-TTTC
1 TATTTTTCTTTGCTTTTC
*
21166 TTTTTCTTCTTT
1 TATTT-TTCTTT
21178 TTTTTATACG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (18 bp):
TATTTTTCTTTGCTTTTC
Found at i:21748 original size:17 final size:16
Alignment explanation
Indices: 21726--21757 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
21716 TACAAATAAG
21726 AATGCAAATGCAACTAT
1 AATGCAAATG-AACTAT
21743 AATGCAAATGAACTA
1 AATGCAAATGAACTA
21758 ACAAGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (16 bp):
AATGCAAATGAACTAT
Found at i:21778 original size:17 final size:17
Alignment explanation
Indices: 21758--21800 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
21748 AAATGAACTA
*
21758 ACAAGTAAAATGCAACG
1 ACAACTAAAATGCAACG
*
21775 ACAACTAAAATGCAATG
1 ACAACTAAAATGCAACG
*
21792 ACAATTAAA
1 ACAACTAAA
21801 TGAGATACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (17 bp):
ACAACTAAAATGCAACG
Found at i:33400 original size:19 final size:19
Alignment explanation
Indices: 33376--33412 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
33366 AATTTAGGAG
33376 ACTTCTACCGGTACTTGAC
1 ACTTCTACCGGTACTTGAC
33395 ACTTCTACCGGTACTTGA
1 ACTTCTACCGGTACTTGA
33413 TGGTCAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (19 bp):
ACTTCTACCGGTACTTGAC
Found at i:33571 original size:21 final size:20
Alignment explanation
Indices: 33526--33577 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
33516 TGTGCTAGTT
*
33526 CTACCGATACAAATATGATTT
1 CTACCGATACAAATATGA-TA
33547 CTACCGATACAAATCATGCA-A
1 CTACCGATACAAAT-ATG-ATA
33568 CTACCGATAC
1 CTACCGATAC
33578 CAAAAACTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 24 0.86
22 3 0.11
23 1 0.04
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (20 bp):
CTACCGATACAAATATGATA
Found at i:35346 original size:21 final size:20
Alignment explanation
Indices: 35322--35362 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35312 TATTGAGACT
*
35322 TTATTATTAAGTTTTAATTAA
1 TTATTATTAA-TCTTAATTAA
*
35343 TTATTTTTAATCTTAATTAA
1 TTATTATTAATCTTAATTAA
35363 ATTTATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATTATTAATCTTAATTAA
Found at i:35371 original size:20 final size:21
Alignment explanation
Indices: 35335--35384 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
35325 TTATTAAGTT
*
35335 TTAATT-AATTATTTTTA-ATC
1 TTAATTAAATTATATTTACA-C
35355 TTAATTAAATT-TATTTACAC
1 TTAATTAAATTATATTTACAC
35375 TTAATATAAA
1 TTAAT-TAAA
35385 CCATGTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATTAAATTATATTTACAC
Found at i:42090 original size:17 final size:17
Alignment explanation
Indices: 42068--42100 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42058 CACTAACTAA
*
42068 TATTCATTTGGTTATTT
1 TATTCATTTAGTTATTT
42085 TATTCATTTAGTTATT
1 TATTCATTTAGTTATT
42101 CTAATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.64
Consensus pattern (17 bp):
TATTCATTTAGTTATTT
Found at i:49304 original size:20 final size:21
Alignment explanation
Indices: 49268--49317 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
49258 TCATTAAGCT
*
49268 TTAATT-AATCATTTTTA-ATC
1 TTAATTAAATCATATTTACA-C
49288 TTAATTAAATC-TATTTACAC
1 TTAATTAAATCATATTTACAC
49308 TTAATATAAA
1 TTAAT-TAAA
49318 CCATGTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATTAAATCATATTTACAC
Found at i:54159 original size:24 final size:24
Alignment explanation
Indices: 54111--54157 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
54101 AAGAGTTAAT
54111 TTGTCGATGCAAATATAAAATAAA
1 TTGTCGATGCAAATATAAAATAAA
*
54135 TTGTCAGA-GCAAAT-TAAGATAAA
1 TTGTC-GATGCAAATATAAAATAAA
54158 ATAAATAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 11 0.52
25 2 0.10
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.28
Consensus pattern (24 bp):
TTGTCGATGCAAATATAAAATAAA
Found at i:64578 original size:42 final size:42
Alignment explanation
Indices: 64531--64630 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
64521 AAATGATTAT
*
64531 TTTCAATCGATTGTTTTCGA-TTTAAAATCG-ATTGTTTTGTTG
1 TTTCAATTGATTGTTTTC-ACTTTAAAAT-GAATTGTTTTGTTG
* *
64573 TTTCAATTGATTTTTTTCACTTTACAATGAATTGTTTTGTTG
1 TTTCAATTGATTGTTTTCACTTTAAAATGAATTGTTTTGTTG
* *
64615 TGTCAATTGAGTGTTT
1 TTTCAATTGATTGTTT
64631 AGCTTTTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.21, C:0.09, G:0.16, T:0.54
Consensus pattern (42 bp):
TTTCAATTGATTGTTTTCACTTTAAAATGAATTGTTTTGTTG
Found at i:64584 original size:21 final size:21
Alignment explanation
Indices: 64560--64650 Score: 64
Period size: 20 Copynumber: 4.4 Consensus size: 21
64550 ATTTAAAATC
64560 GATTGTTTTGTTGTTTCAATT
1 GATTGTTTTGTTGTTTCAATT
**
64581 GATT-TTTT-TCACTTTACAA-T
1 GATTGTTTTGT-TGTTT-CAATT
*
64601 GAATTGTTTTGTTGTGTCAATT
1 G-ATTGTTTTGTTGTTTCAATT
* * * *
64623 GAGTGTTTAGCT-TTTCAATC
1 GATTGTTTTGTTGTTTCAATT
64643 GATTGTTT
1 GATTGTTT
64651 CGCTATCTAC
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
19 1 0.02
20 22 0.42
21 21 0.40
22 8 0.15
23 1 0.02
ACGTcount: A:0.19, C:0.09, G:0.18, T:0.55
Consensus pattern (21 bp):
GATTGTTTTGTTGTTTCAATT
Found at i:68275 original size:18 final size:18
Alignment explanation
Indices: 68252--68288 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
68242 TTGGGGATTG
68252 AAGTGACCTATACTTCGA
1 AAGTGACCTATACTTCGA
68270 AAGTGACCTATACTTCGA
1 AAGTGACCTATACTTCGA
68288 A
1 A
68289 TGTTATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (18 bp):
AAGTGACCTATACTTCGA
Found at i:69330 original size:21 final size:20
Alignment explanation
Indices: 69300--69360 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
69290 CATGAAATGA
69300 TTCTTTTCAATCGATTGTTT
1 TTCTTTTCAATCGATTGTTT
* *
69320 TGT-TGTTTCAATTGATTATTT
1 T-TCT-TTTCAATCGATTGTTT
*
69341 TTCTTTTTAATCGATTGTTT
1 TTCTTTTCAATCGATTGTTT
69361 CGCTGTGTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.16, C:0.10, G:0.11, T:0.62
Consensus pattern (20 bp):
TTCTTTTCAATCGATTGTTT
Found at i:82550 original size:13 final size:14
Alignment explanation
Indices: 82532--82561 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
82522 GTCATTGCAA
82532 TTTTTGC-TTTTAT
1 TTTTTGCTTTTTAT
82545 TTTTTGCTTTTTAT
1 TTTTTGCTTTTTAT
82559 TTT
1 TTT
82562 CATTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (14 bp):
TTTTTGCTTTTTAT
Found at i:90605 original size:30 final size:30
Alignment explanation
Indices: 90542--90606 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
90532 ACTTATTTTA
**
90542 TTGTTAATTTTGTTATTATTTTAGAAGTTT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
*
90572 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
90602 TTGTT
1 TTGTT
90607 TGTTAAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.02, G:0.15, T:0.62
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAGCAT
Found at i:96755 original size:19 final size:19
Alignment explanation
Indices: 96731--96768 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
96721 TAAATAGGGA
96731 AATGTATTAATAATCAAAT
1 AATGTATTAATAATCAAAT
96750 AATGTATTAATAATCAAAT
1 AATGTATTAATAATCAAAT
96769 CTTTAAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
AATGTATTAATAATCAAAT
Found at i:97041 original size:60 final size:61
Alignment explanation
Indices: 96947--97068 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 61
96937 ATTTGATACG
* ** * * *
96947 TTTTCTTAATTTGGTATTTAAATTTTTTTTGACCCAATTTGATATCTAAACTTA-ACATTTT
1 TTTTCTTAATTTGATACCTAAACTTTTTTGGACCCAATTTGATACCTAAACTTAGA-ATTTT
*
97008 TTTTC-TAATTTGATACCTAAACTTTTTTGGACCCAATTTGGTACCTAAACTTAGAATTTT
1 TTTTCTTAATTTGATACCTAAACTTTTTTGGACCCAATTTGATACCTAAACTTAGAATTTT
97068 T
1 T
97069 CCTAATTTGG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 47 0.89
61 6 0.11
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (61 bp):
TTTTCTTAATTTGATACCTAAACTTTTTTGGACCCAATTTGATACCTAAACTTAGAATTTT
Found at i:97094 original size:60 final size:58
Alignment explanation
Indices: 96947--97094 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 58
96937 ATTTGATACG
* ** *
96947 TTTTCTTAATTTGGTATTTAAATTTTTTTTGACCCAATTTGATATCTAAACTTAACATTT
1 TTTTCCTAATTTGGTACAT-AATTTTTTTTGACCCAATTTGATACCTAAACTTAACA-TT
* * * * * *
97007 TTTTTCTAATTTGATACCTAAACTTTTTTGGACCCAATTTGGTACCTAAACTTAGA-A-T
1 TTTTCCTAATTTGGTACAT-AATTTTTTTTGACCCAATTTGATACCTAAACTTA-ACATT
97065 TTTTCCTAATTTGGTACATAAGTTTTTTTT
1 TTTTCCTAATTTGGTACATAA-TTTTTTTT
97095 ACATTCAATT
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
57 2 0.03
58 23 0.32
60 46 0.64
61 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.51
Consensus pattern (58 bp):
TTTTCCTAATTTGGTACATAATTTTTTTTGACCCAATTTGATACCTAAACTTAACATT
Found at i:98006 original size:17 final size:17
Alignment explanation
Indices: 97986--98023 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
97976 TCAATTTTGC
97986 TTTTTT-ATTTGTTAATT
1 TTTTTTAATTT-TTAATT
98003 TTTTTTAATTTTTAATT
1 TTTTTTAATTTTTAATT
98020 TTTT
1 TTTT
98024 GCTTATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTTAATTTTTAATT
Found at i:99573 original size:23 final size:23
Alignment explanation
Indices: 99546--99620 Score: 84
Period size: 23 Copynumber: 3.2 Consensus size: 23
99536 TGTTATATAT
99546 AATAAGGAGAAAGAAAGATAATA
1 AATAAGGAGAAAGAAAGATAATA
*
99569 AATAA--A-AAAGTAAAAATTATATA
1 AATAAGGAGAAAG-AAAGA-TA-ATA
99592 TAATAAGGAGAAAGAAAGATAATA
1 -AATAAGGAGAAAGAAAGATAATA
99616 AATAA
1 AATAA
99621 AAAAGTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
20 4 0.09
21 5 0.12
22 2 0.05
23 13 0.30
24 8 0.19
25 2 0.05
26 5 0.12
27 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.19
Consensus pattern (23 bp):
AATAAGGAGAAAGAAAGATAATA
Found at i:99597 original size:47 final size:47
Alignment explanation
Indices: 99538--99631 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
99528 AAGTTTTATG
99538 TTATATATAATAAGGAGAAAGAAAGATAATAAATAAAAAAGTAAAAA
1 TTATATATAATAAGGAGAAAGAAAGATAATAAATAAAAAAGTAAAAA
99585 TTATATATAATAAGGAGAAAGAAAGATAATAAATAAAAAAGTAAAAA
1 TTATATATAATAAGGAGAAAGAAAGATAATAAATAAAAAAGTAAAAA
99632 AAATTATCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (47 bp):
TTATATATAATAAGGAGAAAGAAAGATAATAAATAAAAAAGTAAAAA
Found at i:102882 original size:20 final size:20
Alignment explanation
Indices: 102857--102909 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
102847 AAGCCATTGT
102857 TGGTTTTCGTTTGCCTTTCC
1 TGGTTTTCGTTTGCCTTTCC
102877 TGGTTTTCGTTTGCCTTTCC
1 TGGTTTTCGTTTGCCTTTCC
102897 TGGTTTTCGTTTG
1 TGGTTTTCGTTTG
102910 GGACGGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.00, C:0.21, G:0.23, T:0.57
Consensus pattern (20 bp):
TGGTTTTCGTTTGCCTTTCC
Found at i:114179 original size:31 final size:29
Alignment explanation
Indices: 114131--114188 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
114121 ATCGAATGCG
*
114131 TAAAATTGATAACTAAATTTATTAAAATTT
1 TAAAATTGATAACTAAA-TTAATAAAATTT
* *
114161 TAAAGATTTATAATTAAATTAATAAAAT
1 TAAA-ATTGATAACTAAATTAATAAAAT
114189 CTATAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (29 bp):
TAAAATTGATAACTAAATTAATAAAATTT
Found at i:119044 original size:41 final size:42
Alignment explanation
Indices: 118997--119079 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 42
118987 AAAAAGCCAA
118997 GAAGTTCAAAGTTAAAATTAAGG-TTTTTTATAAAAATGATC
1 GAAGTTCAAAGTTAAAATTAAGGTTTTTTTATAAAAATGATC
119038 GAAGTTCAAAGTTAAAATTAAGGTTTTTTTATAAAAATGATC
1 GAAGTTCAAAGTTAAAATTAAGGTTTTTTTATAAAAATGATC
119080 AGAAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 23 0.56
42 18 0.44
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.37
Consensus pattern (42 bp):
GAAGTTCAAAGTTAAAATTAAGGTTTTTTTATAAAAATGATC
Found at i:119618 original size:111 final size:114
Alignment explanation
Indices: 119401--119619 Score: 277
Period size: 111 Copynumber: 2.0 Consensus size: 114
119391 TTTTTGGGGT
* *
119401 TTTTTCAACTAATGGTCGATACCTAAAAAAATACGAATAAAAAATAATTTTTTGGGTGTTTAATA
1 TTTTTCAACTAATGGTCGACACCTAAAAAAACACGAATAAAAAATAATTTTTTGGGTGTTTAATA
**
119466 ACCAATGGCCGACACCACCTTTCCCAGCACCCGAAAATTTTTTTCCCAC
66 ACCAATGGCCGACACCACCTTTCCCAAAACCCGAAAATTTTTTTCCCAC
* * * * *
119515 TTTTTCAACTAATGGTTGACACC-CACAAAACACGAATAAAAAAT-ATTTTTT-TGTGTTT-GTC
1 TTTTTCAACTAATGGTCGACACCTAAAAAAACACGAATAAAAAATAATTTTTTGGGTGTTTAAT-
* * * *
119576 AATCAATGGTCGACACCATCTTTCCCAAAACCC-AAATTTTTTTT
65 AACCAATGGCCGACACCACCTTTCCCAAAACCCGAAAATTTTTTT
119620 ACTGGTTTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
110 11 0.12
111 34 0.37
112 7 0.08
113 18 0.20
114 21 0.23
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (114 bp):
TTTTTCAACTAATGGTCGACACCTAAAAAAACACGAATAAAAAATAATTTTTTGGGTGTTTAATA
ACCAATGGCCGACACCACCTTTCCCAAAACCCGAAAATTTTTTTCCCAC
Found at i:119694 original size:59 final size:59
Alignment explanation
Indices: 119608--119749 Score: 191
Period size: 59 Copynumber: 2.4 Consensus size: 59
119598 TCCCAAAACC
*
119608 CAAA-TTTTTTTTACTGG-TTTAATCCCTATTGATAGTCGACACCACCTTTTTCTAGTACT
1 CAAATTTTTTTTTACTGGTTTTAA-CCCTATTAATAGTCGACACCACCTTTTTC-AGTACT
* * * *
119667 C-GATTTTTTTTTGCTGGTTTTAACCCTATTAATGGTCGACACCACCTTTTTCAGTAGT
1 CAAATTTTTTTTTACTGGTTTTAACCCTATTAATAGTCGACACCACCTTTTTCAGTACT
*
119725 CAAATTTTTTTTTTCTGGTTTTAAC
1 CAAATTTTTTTTTACTGGTTTTAAC
119750 TCTAGTAGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
58 7 0.10
59 61 0.84
60 5 0.07
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (59 bp):
CAAATTTTTTTTTACTGGTTTTAACCCTATTAATAGTCGACACCACCTTTTTCAGTACT
Found at i:122094 original size:32 final size:32
Alignment explanation
Indices: 122053--122117 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
122043 CAAATATCAT
122053 TTCCTTACAGAATAATCAAATCAGTTTAAAGA
1 TTCCTTACAGAATAATCAAATCAGTTTAAAGA
122085 TTCCTTACAGAATAATCAAATCAGTTTAAAGA
1 TTCCTTACAGAATAATCAAATCAGTTTAAAGA
122117 T
1 T
122118 GAAAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.32
Consensus pattern (32 bp):
TTCCTTACAGAATAATCAAATCAGTTTAAAGA
Found at i:122240 original size:24 final size:24
Alignment explanation
Indices: 122209--122255 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
122199 ACTGGCAACT
122209 TTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
122233 TTAGCTCTTACGAGCCTAGAATG
1 TTAGCTCTTACGAGCCCAGAATG
122256 ATTAACCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:127666 original size:13 final size:13
Alignment explanation
Indices: 127648--127672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127638 TGTCCACGAA
127648 TATACATACAAAT
1 TATACATACAAAT
127661 TATACATACAAA
1 TATACATACAAA
127673 ATGTTGTAAA
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
TATACATACAAAT
Found at i:127769 original size:52 final size:52
Alignment explanation
Indices: 127708--127809 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
127698 AAATTATACA
* *
127708 AGTTTAAAATGAAATGAAATTAAATTCAAAATTATAATACAAGTTCAAATTT
1 AGTTTAAAATGAAATGAAATTAAATTCAAAATCAAAATACAAGTTCAAATTT
* * *
127760 AGTTTAAAATGAAATTAAATTAAATTGAAAATCAAAATACAAGTTTAAAT
1 AGTTTAAAATGAAATGAAATTAAATTCAAAATCAAAATACAAGTTCAAAT
127810 GAAATTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (52 bp):
AGTTTAAAATGAAATGAAATTAAATTCAAAATCAAAATACAAGTTCAAATTT
Found at i:127837 original size:27 final size:27
Alignment explanation
Indices: 127800--127874 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
127790 ATCAAAATAC
127800 AAGTTTAAATGAAATTCAAATGAACTT
1 AAGTTTAAATGAAATTCAAATGAACTT
**
127827 AAGTTTAAATGAAATTGGAATGAACTT
1 AAGTTTAAATGAAATTCAAATGAACTT
* * *
127854 AAGTTGAAATTAAATTTAAAT
1 AAGTTTAAATGAAATTCAAAT
127875 TTAAGTTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (27 bp):
AAGTTTAAATGAAATTCAAATGAACTT
Found at i:127924 original size:27 final size:27
Alignment explanation
Indices: 127795--127986 Score: 85
Period size: 27 Copynumber: 7.1 Consensus size: 27
127785 TGAAAATCAA
* * *
127795 AATACAAGTTTAAATGAAATTCAAATG
1 AATACAAGTTGAAATGAAATTGAAATT
* * * *
127822 AACT-TAAGTTTAAATGAAATTGGAATG
1 AA-TACAAGTTGAAATGAAATTGAAATT
* * *
127849 AACT-TAAGTTGAAATTAAATTTAAATT
1 AA-TACAAGTTGAAATGAAATTGAAATT
* ** *
127876 --T--AAGTTGAAATTATGTT-TAATT
1 AATACAAGTTGAAATGAAATTGAAATT
127898 AATACAAGTTGAAATGAAATTGAAATT
1 AATACAAGTTGAAATGAAATTGAAATT
* * * *
127925 AAATTA-AATTTTAAGTTGAAATTAAGTTTAATT
1 -AA-TACAAGTTGAA-ATGAAATT--G--AAATT
127958 AATACAAGTTGAAATGAAATTGAAATT
1 AATACAAGTTGAAATGAAATTGAAATT
127985 AA
1 AA
127987 ATTTAAATTT
Statistics
Matches: 128, Mismatches: 23, Indels: 28
0.72 0.13 0.16
Matches are distributed among these distances:
22 4 0.03
23 14 0.11
24 2 0.02
26 13 0.10
27 54 0.42
28 9 0.07
29 10 0.08
31 10 0.08
32 8 0.06
33 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (27 bp):
AATACAAGTTGAAATGAAATTGAAATT
Found at i:127924 original size:60 final size:60
Alignment explanation
Indices: 127857--128015 Score: 277
Period size: 60 Copynumber: 2.6 Consensus size: 60
127847 TGAACTTAAG
*
127857 TTGAAATTAAATTTAAATTTAAGTTGAAATTATGTTTAATTAATACAAGTTGAAATGAAA
1 TTGAAATTAAATTTAAATTTAAGTTGAAATTAAGTTTAATTAATACAAGTTGAAATGAAA
127917 TTGAAATTAAA-TTAAATTTTAAGTTGAAATTAAGTTTAATTAATACAAGTTGAAATGAAA
1 TTGAAATTAAATTTAAA-TTTAAGTTGAAATTAAGTTTAATTAATACAAGTTGAAATGAAA
127977 TTGAAATTAAATTTAAATTTAAGTTGAAATTGAA-TTTAA
1 TTGAAATTAAATTTAAATTTAAGTTGAAATT-AAGTTTAA
128016 GTTGAAATGA
Statistics
Matches: 95, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
59 5 0.05
60 83 0.87
61 7 0.07
ACGTcount: A:0.47, C:0.01, G:0.11, T:0.40
Consensus pattern (60 bp):
TTGAAATTAAATTTAAATTTAAGTTGAAATTAAGTTTAATTAATACAAGTTGAAATGAAA
Found at i:127951 original size:11 final size:11
Alignment explanation
Indices: 127847--128007 Score: 72
Period size: 11 Copynumber: 13.6 Consensus size: 11
127837 GAAATTGGAA
*
127847 TGAACTTAAGT
1 TGAAATTAAGT
*
127858 TGAAATTAAAT
1 TGAAATTAAGT
*
127869 TTAAATTTAAGT
1 TGAAA-TTAAGT
*
127881 TGAAATTATGTT
1 TGAAATTAAG-T
* *
127893 TAATTAATACAAGT
1 TGA--AAT-TAAGT
* *
127907 TGAAATGAAAT
1 TGAAATTAAGT
*
127918 TGAAATTAAAT
1 TGAAATTAAGT
127929 T-AAATTTTAAGT
1 TGAAA--TTAAGT
127941 TGAAATTAAGTT
1 TGAAATTAAG-T
* *
127953 TAATTAATACAAGT
1 TGA--AAT-TAAGT
* *
127967 TGAAATGAAAT
1 TGAAATTAAGT
*
127978 TGAAATTAAAT
1 TGAAATTAAGT
*
127989 TTAAATTTAAGT
1 TGAAA-TTAAGT
128001 TGAAATT
1 TGAAATT
128008 GAATTTAAGT
Statistics
Matches: 114, Mismatches: 23, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
10 3 0.03
11 55 0.48
12 36 0.32
13 3 0.03
14 12 0.11
15 5 0.04
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (11 bp):
TGAAATTAAGT
Found at i:127983 original size:6 final size:6
Alignment explanation
Indices: 127966--128023 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
127956 TTAATACAAG
* * *
127966 TTGAAA -TGAAA TTGAAA TT-AAA TTTAAA TTTAAG TTGAAA TTG-AA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
* *
128011 TTTAAG TTGAAA T
1 TTGAAA TTGAAA T
128024 GATTTCCATG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
5 14 0.33
6 28 0.67
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (6 bp):
TTGAAA
Found at i:136496 original size:13 final size:14
Alignment explanation
Indices: 136467--136496 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
136457 TTCAATACAT
136467 TGACATTTAACCTC
1 TGACATTTAACCTC
136481 TGACATTTAA-CTC
1 TGACATTTAACCTC
136494 TGA
1 TGA
136497 TGACGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:137673 original size:10 final size:11
Alignment explanation
Indices: 137617--137811 Score: 69
Period size: 11 Copynumber: 17.2 Consensus size: 11
137607 AAAAAAATAC
*
137617 AAGTTGAAATG
1 AAGTTGAAATT
*
137628 AAATTGAAATT
1 AAGTTGAAATT
* *
137639 AAATTTAAAATT
1 -AAGTTGAAATT
137651 AAGTTGAAATT
1 AAGTTGAAATT
* *
137662 AAGTTTAATTAATAC
1 AAG-TTGA--AAT-T
137677 AAGTTGAAATT
1 AAGTTGAAATT
* *
137688 AAATTTAAATTT
1 AAGTTGAAA-TT
**
137700 AA-ACGAAATT
1 AAGTTGAAATT
* * *
137710 AAATTTAAGTTT
1 AAGTTGAA-ATT
*
137722 AA-TT--AATAC
1 AAGTTGAAAT-T
137731 AAGTTGAAATT
1 AAGTTGAAATT
*
137742 -AGATTTAAATTT
1 AAG-TTGAAA-TT
137754 AAGTTGAAATT
1 AAGTTGAAATT
*
137765 AAGTTTAAATTT
1 AAGTTGAAA-TT
137777 AAGTTGAAATT
1 AAGTTGAAATT
* *
137788 AAATTTAAATT
1 AAGTTGAAATT
*
137799 GAA-ATGAAATT
1 -AAGTTGAAATT
137810 AA
1 AA
137812 ATTTGAGTTG
Statistics
Matches: 137, Mismatches: 30, Indels: 35
0.68 0.15 0.17
Matches are distributed among these distances:
8 1 0.01
9 3 0.02
10 10 0.07
11 67 0.49
12 45 0.33
13 2 0.01
14 6 0.04
15 3 0.02
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (11 bp):
AAGTTGAAATT
Found at i:137697 original size:6 final size:6
Alignment explanation
Indices: 137686--137815 Score: 60
Period size: 6 Copynumber: 22.3 Consensus size: 6
137676 CAAGTTGAAA
** *
137686 TTAAAT TTAAAT TTAAA- CGAAA- TTAAAT TTAAGT TT-AAT TAATACAAGT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T--TA-AA-T
* * * * * *
137735 TGAAA- TTAGAT TTAAAT TTAAGT TGAAA- TTAAGT TTAAAT TTAAGT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
137781 TGAAA- TTAAAT TTAAAT TGAAA- TGAAA- TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT
137816 GAGTTGAAAT
Statistics
Matches: 92, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
5 28 0.30
6 56 0.61
7 3 0.03
8 1 0.01
9 2 0.02
10 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:137758 original size:23 final size:23
Alignment explanation
Indices: 137731--137815 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
137721 TAATTAATAC
*
137731 AAGTTGAAATTAGATTTAAATTT
1 AAGTTGAAATTAAATTTAAATTT
*
137754 AAGTTGAAATTAAGTTTAAATTT
1 AAGTTGAAATTAAATTTAAATTT
*
137777 AAGTTGAAATTAAATTTAAATTG
1 AAGTTGAAATTAAATTTAAATTT
*
137800 AA-ATGAAATTAAATTT
1 AAGTTGAAATTAAATTT
137816 GAGTTGAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 13 0.23
23 44 0.77
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (23 bp):
AAGTTGAAATTAAATTTAAATTT
Found at i:137771 original size:17 final size:17
Alignment explanation
Indices: 137769--137847 Score: 79
Period size: 17 Copynumber: 4.4 Consensus size: 17
137759 GAAATTAAGT
137769 TTAAATTTAAGTTGAAA
1 TTAAATTTAAGTTGAAA
*
137786 TTAAATTTAAATTGAAATGAAA
1 TTAAATTT-AA--G--TTGAAA
*
137808 TTAAATTTGAGTTGAAA
1 TTAAATTTAAGTTGAAA
*
137825 TT-AAGTTAAGTTGAAA
1 TTAAATTTAAGTTGAAA
137841 TTAAATT
1 TTAAATT
137848 AAAATGAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
16 14 0.28
17 18 0.36
18 2 0.04
19 1 0.02
20 1 0.02
21 1 0.02
22 13 0.26
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAGTTGAAA
Found at i:137813 original size:16 final size:16
Alignment explanation
Indices: 137775--137863 Score: 72
Period size: 16 Copynumber: 5.4 Consensus size: 16
137765 AAGTTTAAAT
* *
137775 TTAAGTTGAAATTAAA
1 TTAAATTGAAATGAAA
137791 TTTAAATTGAAATGAAA
1 -TTAAATTGAAATGAAA
**
137808 TTAAATTTGAGTTGAAA
1 TTAAA-TTGAAATGAAA
* *
137825 TTAAGTT-AAGTTGAAA
1 TTAAATTGAA-ATGAAA
*
137841 TTAAATTAAAATGAAA
1 TTAAATTGAAATGAAA
*
137857 TTGAATT
1 TTAAATT
137864 TTAAAATTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
15 1 0.02
16 30 0.50
17 29 0.48
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.38
Consensus pattern (16 bp):
TTAAATTGAAATGAAA
Found at i:137861 original size:6 final size:6
Alignment explanation
Indices: 137734--137861 Score: 60
Period size: 6 Copynumber: 22.8 Consensus size: 6
137724 TTAATACAAG
* * * * * * * *
137734 TTGAAA TT-AGA TTTAAA TTTAAG TTGAAA TT-AAG TTTAAA TTTAAG
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
* *
137780 TTGAAA TT-AAA TTTAAA TTGAAA -TGAAA TT-AAA TTTG-AG TTGAAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA -TTGAAA TTGAAA
* * *
137825 TT-AAG TT-AAG TTGAAA TT-AAA TT-AAA ATGAAA TTGAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
137862 TTTTAAAATT
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
5 42 0.44
6 54 0.56
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (6 bp):
TTGAAA
Found at i:137879 original size:13 final size:13
Alignment explanation
Indices: 137863--137909 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
137853 GAAATTGAAT
137863 TTTAAAATTAAAG
1 TTTAAAATTAAAG
137876 TTTAATAATATAAAG
1 TTTAA-AAT-TAAAG
*
137891 TTTAAAATTAAAA
1 TTTAAAATTAAAG
137904 TTTAAA
1 TTTAAA
137910 TAAAAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 15 0.48
14 6 0.19
15 10 0.32
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
TTTAAAATTAAAG
Found at i:137898 original size:28 final size:27
Alignment explanation
Indices: 137863--137921 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
137853 GAAATTGAAT
*
137863 TTTAAAATTAAAGTTT-AATAATATAAAG
1 TTTAAAATTAAAATTTAAATAA-A-AAAG
137891 TTTAAAATTAAAATTTAAATAAAAAAG
1 TTTAAAATTAAAATTTAAATAAAAAAG
137918 TTTA
1 TTTA
137922 TTGGGTCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 8 0.28
28 16 0.55
29 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (27 bp):
TTTAAAATTAAAATTTAAATAAAAAAG
Found at i:138169 original size:24 final size:23
Alignment explanation
Indices: 138129--138179 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
138119 CCCAACAGCT
*
138129 ATAAAAAAGTAAATAAATAACTA
1 ATAAAAAAGTAAATAAATAAATA
* *
138152 ATAAAAAACTTAATTAAATAAATA
1 ATAAAAAA-GTAAATAAATAAATA
138176 ATAA
1 ATAA
138180 GTAAATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (23 bp):
ATAAAAAAGTAAATAAATAAATA
Found at i:138219 original size:18 final size:18
Alignment explanation
Indices: 138193--138247 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 18
138183 AATGTATAAA
*
138193 AATTAATTAAAAACTTTT
1 AATTTATTAAAAACTTTT
*
138211 AATTTATTAAATAATATTTTT
1 AATTTATT-AA-AA-ACTTTT
138232 AATTTA--AAAAACTTTT
1 AATTTATTAAAAACTTTT
138248 TAAATAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
18 9 0.29
19 2 0.06
20 2 0.06
21 11 0.35
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTATTAAAAACTTTT
Found at i:138323 original size:41 final size:39
Alignment explanation
Indices: 138226--138327 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 39
138216 ATTAAATAAT
138226 ATTTTTAATT-TAAAAAACTTTTTAAATAATATTTATTAA
1 ATTTTTAATTAT-AAAAACTTTTTAAATAATATTTATTAA
* *
138265 ACTATTTTTATTTTAAAAACTTTTTAAATAATATTT-TTCAA
1 A-T-TTTTAATTATAAAAACTTTTTAAATAATATTTATT-AA
138306 ATTTTATAATTAATAAAAACTT
1 ATTTT-TAATT-ATAAAAACTT
138328 AATTAAAAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
39 4 0.07
40 8 0.15
41 41 0.76
42 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (39 bp):
ATTTTTAATTATAAAAACTTTTTAAATAATATTTATTAA
Found at i:142291 original size:19 final size:20
Alignment explanation
Indices: 142267--142315 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
142257 ATCTTTAATT
142267 TATAATTATT-ATTTTTCAA
1 TATAATTATTAATTTTTCAA
*
142286 TATAATT-TTAATTTTTCGA
1 TATAATTATTAATTTTTCAA
142305 TAATAATTATT
1 T-ATAATTATT
142316 TGTTCACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 16 0.62
20 6 0.23
21 2 0.08
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (20 bp):
TATAATTATTAATTTTTCAA
Found at i:143354 original size:113 final size:113
Alignment explanation
Indices: 143154--143357 Score: 268
Period size: 113 Copynumber: 1.8 Consensus size: 113
143144 ATTTCACTAC
* * * ** *
143154 TGGGAAAGATGGTGTCGACCATTGGTTGCCAAACACCAAATTTTTTATTTATTTATTCGTGTTTT
1 TGGGAAAGATGGTGTCGACAATTGGTTGCCAAACACAAAAATAATAATTTATTTATTCGTGTTTT
*
143219 ATGATTGCCTGCCATTACTTGAAAAAGTGAGAAATTTTTTTCGGGAGT
66 ATGAGTGCCTGCCATTACTTGAAAAAGTGAGAAATTTTTTTCGGGAGT
* * *
143267 TGGGAAAGGTGGTGTTGACAATTGGTTGCCAAACACAAAAAATAATAATTT-TTTATTTGTGTTT
1 TGGGAAAGATGGTGTCGACAATTGGTTGCCAAACAC-AAAAATAATAATTTATTTATTCGTGTTT
* *
143331 TATGGGTGCC-GACCATTAGTTGAAAAA
65 TATGAGTGCCTG-CCATTACTTGAAAAA
143358 CTGAAAAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
112 1 0.01
113 67 0.87
114 9 0.12
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (113 bp):
TGGGAAAGATGGTGTCGACAATTGGTTGCCAAACACAAAAATAATAATTTATTTATTCGTGTTTT
ATGAGTGCCTGCCATTACTTGAAAAAGTGAGAAATTTTTTTCGGGAGT
Found at i:144501 original size:135 final size:135
Alignment explanation
Indices: 144259--144529 Score: 452
Period size: 135 Copynumber: 2.0 Consensus size: 135
144249 AAGTTGGATC
* * ** *
144259 ATCATATGTGACAACTGAAATTCAAAAGTAATTGATTTCTCTTGGAGGACTTACTAAACGAGATG
1 ATCATATGTGACAACTAAAATTCAAAAGTAATCGATTTCTCCAGGAGGACTTACTAAACAAGATG
*
144324 GTTAGATATGATTTAGTTTTGACTCAATAGGTAAAGTTTGGGTGAAAAAGGTAACAAATGGCTTT
66 GTTAGATATGATTTAGTTTTGACTCAATAGGTAAAGTTTGGGTGAAAAAGGCAACAAATGGCTTT
144389 CATTT
131 CATTT
* *
144394 ATCATATGTGACAACTAAAATTCAGAAGTAATCGATTTGTCCAGGAGGACTTACTAAACAAGATG
1 ATCATATGTGACAACTAAAATTCAAAAGTAATCGATTTCTCCAGGAGGACTTACTAAACAAGATG
* *
144459 GTTAGATATGATTTAGTTTTGATTCAATAGGTAAAGTTTGGGTGAAGAAGGCAACAAATGGCTTT
66 GTTAGATATGATTTAGTTTTGACTCAATAGGTAAAGTTTGGGTGAAAAAGGCAACAAATGGCTTT
144524 CATTT
131 CATTT
144529 A
1 A
144530 GCGATTACAA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 126 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (135 bp):
ATCATATGTGACAACTAAAATTCAAAAGTAATCGATTTCTCCAGGAGGACTTACTAAACAAGATG
GTTAGATATGATTTAGTTTTGACTCAATAGGTAAAGTTTGGGTGAAAAAGGCAACAAATGGCTTT
CATTT
Found at i:146393 original size:17 final size:17
Alignment explanation
Indices: 146371--146428 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
146361 GTTTGTGACC
*
146371 CGAACCTGACTTGATTG
1 CGAACCCGACTTGATTG
**
146388 CGAACCCGAC-CCATTG
1 CGAACCCGACTTGATTG
146404 ACCGAAACCCGACTTGATTG
1 --CG-AACCCGACTTGATTG
146424 CGAAC
1 CGAAC
146429 TTGACCCGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
16 4 0.12
17 12 0.38
18 4 0.12
19 8 0.25
20 4 0.12
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.19
Consensus pattern (17 bp):
CGAACCCGACTTGATTG
Found at i:146418 original size:36 final size:36
Alignment explanation
Indices: 146373--146442 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
146363 TTGTGACCCG
*
146373 AACCTGACTTGATTGCGAACCCGACCCATTGACCGA
1 AACCCGACTTGATTGCGAACCCGACCCATTGACCGA
** *
146409 AACCCGACTTGATTGCGAACTTGACCCGTTGACC
1 AACCCGACTTGATTGCGAACCCGACCCATTGACC
146443 ATTGACCCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
AACCCGACTTGATTGCGAACCCGACCCATTGACCGA
Found at i:146427 original size:18 final size:18
Alignment explanation
Indices: 146373--146427 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 18
146363 TTGTGACCCG
*
146373 AACCTGACTTGATTGCG-
1 AACCCGACTTGATTGCGA
**
146390 AACCCGAC-CCATTGACCGA
1 AACCCGACTTGATTG--CGA
146409 AACCCGACTTGATTGCGA
1 AACCCGACTTGATTGCGA
146427 A
1 A
146428 CTTGACCCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 6 0.21
19 8 0.28
20 4 0.14
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
AACCCGACTTGATTGCGA
Found at i:148999 original size:51 final size:52
Alignment explanation
Indices: 148848--149083 Score: 314
Period size: 52 Copynumber: 4.6 Consensus size: 52
148838 TTTCACTTTG
* * * ** * ** *
148848 TTCATATACTCACGGTGACACATAGCCACCGGACCT-TATAATTCACAAGGGA
1 TTCATATACTCACGATGACACTTAGTCATAGGACCTCT-TAATCCGTAAAGGA
* *
148900 TTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCTGTAAAGGA
1 TTCATATACTCACGATGACACTTAGTCATAGGACCTCTTAATCCGTAAAGGA
*
148952 TTCATATACTCACGATG-CACTTAATCATAGGACCTCTTAATCCGTAAAGGA
1 TTCATATACTCACGATGACACTTAGTCATAGGACCTCTTAATCCGTAAAGGA
* *
149003 TTCATATACTCACGATGACACTTAGTCATAGAACTTCTTAATCCGTAAAGGA
1 TTCATATACTCACGATGACACTTAGTCATAGGACCTCTTAATCCGTAAAGGA
*
149055 TTCATATACTCATGATGACACTTAGTCAT
1 TTCATATACTCACGATGACACTTAGTCAT
149084 CGAACCTTTT
Statistics
Matches: 166, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
51 48 0.29
52 117 0.70
53 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (52 bp):
TTCATATACTCACGATGACACTTAGTCATAGGACCTCTTAATCCGTAAAGGA
Found at i:149028 original size:103 final size:104
Alignment explanation
Indices: 148897--149083 Score: 313
Period size: 103 Copynumber: 1.8 Consensus size: 104
148887 AATTCACAAG
* * *
148897 GGATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCTGTAAAGGATTCATATACT
1 GGATTCATATACTCACGATGACACTTAGTCATAGAACCTCTTAATCCGTAAAGGATTCATATACT
148962 CACGATG-CACTTAATCATAGGACCTCTTAATCCGTAAA
66 CACGATGACACTTAATCATAGGACCTCTTAATCCGTAAA
*
149000 GGATTCATATACTCACGATGACACTTAGTCATAGAACTTCTTAATCCGTAAAGGATTCATATACT
1 GGATTCATATACTCACGATGACACTTAGTCATAGAACCTCTTAATCCGTAAAGGATTCATATACT
* *
149065 CATGATGACACTTAGTCAT
66 CACGATGACACTTAATCAT
149084 CGAACCTTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 67 0.87
104 10 0.13
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (104 bp):
GGATTCATATACTCACGATGACACTTAGTCATAGAACCTCTTAATCCGTAAAGGATTCATATACT
CACGATGACACTTAATCATAGGACCTCTTAATCCGTAAA
Found at i:149931 original size:42 final size:42
Alignment explanation
Indices: 149883--149966 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
149873 ATGATTAAAA
* *
149883 TCATCCAAATTATCTTTTATTTAATCTTTACTTATTTATTTG
1 TCATCCAAATTATCTTTTATGTAATCTTTACTTATTAATTTG
149925 TCATCCAAATTATCTTTTATGTAATCTTTACTTATTAATTTG
1 TCATCCAAATTATCTTTTATGTAATCTTTACTTATTAATTTG
149967 CATTTTAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.14, G:0.04, T:0.55
Consensus pattern (42 bp):
TCATCCAAATTATCTTTTATGTAATCTTTACTTATTAATTTG
Found at i:154167 original size:43 final size:43
Alignment explanation
Indices: 154108--154194 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
154098 CTTCTCTGAA
*
154108 TCTCTTCGATGTTGGCATATAGAAGGTCCTGACAATATTTTTC
1 TCTCTTCGACGTTGGCATATAGAAGGTCCTGACAATATTTTTC
154151 TCTCTTCGACGTTGGCATATAGAAGGTCCTGACAATATTTTTC
1 TCTCTTCGACGTTGGCATATAGAAGGTCCTGACAATATTTTTC
154194 T
1 T
154195 TTCCAGATTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (43 bp):
TCTCTTCGACGTTGGCATATAGAAGGTCCTGACAATATTTTTC
Found at i:156292 original size:52 final size:52
Alignment explanation
Indices: 156245--156453 Score: 321
Period size: 52 Copynumber: 4.0 Consensus size: 52
156235 CCGAACGTTA
* * *
156245 TAATCCACAAGGGATCCATATACTCACGATGACACTTAGTCATC-GAACCTCT
1 TAATCCATAAAGGATTCATATACTCACGATGACACTTAGTCATCAG-ACCTCT
* * * *
156297 TAATCCGTAAAAGATTCATATACACACGATGACACTTAATCATCAGACCTCT
1 TAATCCATAAAGGATTCATATACTCACGATGACACTTAGTCATCAGACCTCT
* *
156349 TAATCCGTAAAGGATTCATATACTCACGATGACACTTAGTCATCAGACTTCT
1 TAATCCATAAAGGATTCATATACTCACGATGACACTTAGTCATCAGACCTCT
156401 TAATCCATAAAGGATTCATATACTCACGATGACACTTAGTCATCAGACCTCT
1 TAATCCATAAAGGATTCATATACTCACGATGACACTTAGTCATCAGACCTCT
156453 T
1 T
156454 CGTTTATGGC
Statistics
Matches: 143, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
52 142 0.99
53 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (52 bp):
TAATCCATAAAGGATTCATATACTCACGATGACACTTAGTCATCAGACCTCT
Found at i:157305 original size:42 final size:42
Alignment explanation
Indices: 157246--157327 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
157236 GAATAAAACA
157246 ATCCAAATTATCTTTTATTTAATCTTTACTTATTTATTTGTC
1 ATCCAAATTATCTTTTATTTAATCTTTACTTATTTATTTGTC
157288 ATCCAAATTATCTTTTATTTAATCTTTACTTATTTATTTG
1 ATCCAAATTATCTTTTATTTAATCTTTACTTATTTATTTG
157328 CATTTTACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.02, T:0.57
Consensus pattern (42 bp):
ATCCAAATTATCTTTTATTTAATCTTTACTTATTTATTTGTC
Found at i:165348 original size:47 final size:47
Alignment explanation
Indices: 165294--165387 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
165284 ATGGTAATAA
* *
165294 CATCAAATCAGCAGGGAACTTACAGTCTCGAATTCTCAGTGGACATT
1 CATCAAATCAGCAGGGAACTTACAGTCCCGAATTCTCAATGGACATT
*
165341 CATCAAATTAGCAGGGAACTTACAGTCCCGAATTCTCAATGGACATT
1 CATCAAATCAGCAGGGAACTTACAGTCCCGAATTCTCAATGGACATT
165388 TACAACATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (47 bp):
CATCAAATCAGCAGGGAACTTACAGTCCCGAATTCTCAATGGACATT
Found at i:168246 original size:52 final size:52
Alignment explanation
Indices: 168058--168254 Score: 227
Period size: 52 Copynumber: 3.8 Consensus size: 52
168048 ATTTCACTTT
* * * **
168058 ATTCATATACTCACGATGACACATAGCCA-CTAGACCT-TATAATCCACAGGGG
1 ATTCATATACTCACGATGACACATAGTCATC-GGACCTCT-TAATCCATAAAGG
* * * *
168110 ATTCATATACTCACGATGACACAAAGTCATCCGACCCTATTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGA-CCTCTTAATCCATAAAGG
* *
168163 ATTCATATACTCACGATGACACTTATTCATCGGACCTCTTAATCCATAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAATCCATAAAGG
* * *
168215 ATTTATATACTCACGATGACACTTAGTCATCGAACCTCTT
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCTT
168255 CGTTTATGGC
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
52 82 0.65
53 43 0.34
54 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAATCCATAAAGG
Found at i:180523 original size:22 final size:22
Alignment explanation
Indices: 180495--180603 Score: 130
Period size: 22 Copynumber: 4.9 Consensus size: 22
180485 GCAATAGTAG
*
180495 GCACACAAAGTGCTAAACAGAA
1 GCACACACAGTGCTAAACAGAA
* *
180517 GCACACACAGTGCTGAACAAAA
1 GCACACACAGTGCTAAACAGAA
* *
180539 GCACACACAGTGCTGAACAGAG
1 GCACACACAGTGCTAAACAGAA
*
180561 GCACACACAGTGCTAAACAGAGG
1 GCACACACAGTGCTAAACAGA-A
*
180584 GCACGAAAC-GTGCTAAACAG
1 GCAC-ACACAGTGCTAAACAG
180604 TAGGCGTGCA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
22 59 0.76
23 16 0.21
24 3 0.04
ACGTcount: A:0.42, C:0.26, G:0.23, T:0.09
Consensus pattern (22 bp):
GCACACACAGTGCTAAACAGAA
Found at i:181175 original size:36 final size:36
Alignment explanation
Indices: 181128--181201 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
181118 TCTGACCTTG
181128 TTATACAAAAACTGGTATATTTCAAAATATAAAATT
1 TTATACAAAAACTGGTATATTTCAAAATATAAAATT
181164 TTATACAAAAACTGGTATATTTCAAAATATAAAATT
1 TTATACAAAAACTGGTATATTTCAAAATATAAAATT
181200 TT
1 TT
181202 TTTTCTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (36 bp):
TTATACAAAAACTGGTATATTTCAAAATATAAAATT
Found at i:183531 original size:79 final size:80
Alignment explanation
Indices: 183334--183532 Score: 231
Period size: 79 Copynumber: 2.5 Consensus size: 80
183324 TGGCAAACAA
* * *
183334 TGCCTAGCGGATAAACCACAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACTAATAACCGTCA
1 TGCCTAGAGGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGAATTAACCAACTAATAACCGTCA
* * *
183399 ATTCCTGGCATCGAG
66 AATCCTAGCACCGAG
* ** ** * *
183414 TGCCTAGCA-GATAAACTGCAATTGTGAGCCCAAATCTAGTTGAATTAACTAAC-AATATCCGTC
1 TGCCTAG-AGGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGAATTAACCAACTAATAACCGTC
*
183477 AAATCCTAGCACCTAG
65 AAATCCTAGCACCGAG
**
183493 TGCCTAGAGGATAAACCGCAAAAGTGAGCTTAGCTCTAGT
1 TGCCTAGAGGATAAACCGCAAAAGTGAGCCCAGCTCTAGT
183533 CAGTTAAATT
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
78 1 0.01
79 52 0.54
80 43 0.45
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (80 bp):
TGCCTAGAGGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGAATTAACCAACTAATAACCGTCA
AATCCTAGCACCGAG
Found at i:191150 original size:79 final size:78
Alignment explanation
Indices: 191013--191218 Score: 261
Period size: 79 Copynumber: 2.6 Consensus size: 78
191003 GATAATCTTG
* * * *
191013 GCACCTAGTGCCTAGCGGATAAATCGTAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACGAAT
1 GCACCTAGTGCCTAGCGGATAAACCGCAAAAGTGAGCCCAACTCTAGTTCGATTAACCAAC-AAT
* *
191078 AACCGTCAATTCCT
65 AACAGTCAAATCCT
** *
191092 AGCACC-AGTGCCTAGCGGATAAACCGCAATTGTGAGCCCAACACTAGTTCGATTAACCAACAAT
1 -GCACCTAGTGCCTAGCGGATAAACCGCAAAAGTGAGCCCAACTCTAGTTCGATTAACCAACAAT
*
191156 ATCAGTCAAATCCT
65 AACAGTCAAATCCT
** *
191170 GACACCTAGTGCCTAGTAGATAAACCGCAAAAGTTAGCCCAACTCTAGT
1 G-CACCTAGTGCCTAGCGGATAAACCGCAAAAGTGAGCCCAACTCTAGT
191219 CAGTTAAATT
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
77 1 0.01
78 18 0.17
79 84 0.78
80 5 0.05
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (78 bp):
GCACCTAGTGCCTAGCGGATAAACCGCAAAAGTGAGCCCAACTCTAGTTCGATTAACCAACAATA
ACAGTCAAATCCT
Done.