Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 40 of 335
Found at i:14695939 original size:20 final size:20
Alignment explanation
Indices: 14695914--14695951 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14695904 TACAAGTAGG
14695914 TATGAAGCTGCCAACACAAA
1 TATGAAGCTGCCAACACAAA
14695934 TATGAAGCTGCCAACACA
1 TATGAAGCTGCCAACACA
14695952 TATACTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (20 bp):
TATGAAGCTGCCAACACAAA
Found at i:14701679 original size:18 final size:17
Alignment explanation
Indices: 14701656--14701708 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
14701646 AAAAAAAATG
*
14701656 ATAAAAAAAGTACAAAAA
1 ATAAAAAAAG-AAAAAAA
* *
14701674 ATAAAATACGAAAAAAA
1 ATAAAAAAAGAAAAAAA
*
14701691 ATAAAAATA-AAAAAAA
1 ATAAAAAAAGAAAAAAA
14701707 AT
1 AT
14701709 TCTGTGGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 9 0.31
17 12 0.41
18 8 0.28
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (17 bp):
ATAAAAAAAGAAAAAAA
Found at i:14701703 original size:16 final size:16
Alignment explanation
Indices: 14701669--14701708 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
14701659 AAAAAAGTAC
14701669 AAAAAATAAAATACGAA
1 AAAAAATAAAATAC-AA
14701686 AAAAAATAAAAATA-AA
1 AAAAAAT-AAAATACAA
14701702 AAAAAAT
1 AAAAAAT
14701709 TCTGTGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.41
17 7 0.32
18 6 0.27
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAATACAA
Found at i:14713366 original size:30 final size:30
Alignment explanation
Indices: 14713330--14713398 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
14713320 CTAGCCTTTG
* *
14713330 CCACCACCAACTTCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAACCACACTTGCT
14713360 CCACCACCAACTCCACTAACCACACTTGCT
1 CCACCACCAACTCCACTAACCACACTTGCT
14713390 CCACCACCA
1 CCACCACCA
14713399 CTTGTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.29, C:0.51, G:0.04, T:0.16
Consensus pattern (30 bp):
CCACCACCAACTCCACTAACCACACTTGCT
Found at i:14714060 original size:22 final size:23
Alignment explanation
Indices: 14714030--14714096 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
14714020 TTTCTACATG
*
14714030 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
14714052 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
14714077 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
14714097 TTTTATATCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:14716099 original size:16 final size:16
Alignment explanation
Indices: 14716080--14716115 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14716070 CCTTTCCCCC
14716080 CTCTCCTTCCTCCCTT
1 CTCTCCTTCCTCCCTT
* *
14716096 CTCTCTTTTCTCCCTT
1 CTCTCCTTCCTCCCTT
14716112 CTCT
1 CTCT
14716116 TTCTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CTCTCCTTCCTCCCTT
Found at i:14716609 original size:3 final size:3
Alignment explanation
Indices: 14716580--14716622 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
14716570 AATGTCCTTG
* * * *
14716580 TTA TTT TTA TAA TTA GTA TTG TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14716623 CGTTGTTACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14717184 original size:33 final size:36
Alignment explanation
Indices: 14717130--14717209 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 36
14717120 TGAACATTGA
*
14717130 AATTATGTA-TACATATATATATA--TATATATT-TT
1 AATTATTTATTACATATATATATACTTA-ATATTATT
*
14717163 AATTATTTATTAC-TATGTATATACTTCAATATTATT
1 AATTATTTATTACATATATATATACTT-AATATTATT
14717199 AATTATTTATT
1 AATTATTTATT
14717210 TTATCACTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 17 0.43
34 3 0.08
35 6 0.15
36 14 0.35
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.54
Consensus pattern (36 bp):
AATTATTTATTACATATATATATACTTAATATTATT
Found at i:14722862 original size:13 final size:13
Alignment explanation
Indices: 14722844--14722868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14722834 CAAGAGATAA
14722844 TTATTTAATTAAC
1 TTATTTAATTAAC
14722857 TTATTTAATTAA
1 TTATTTAATTAA
14722869 TTTTGATGTT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATTTAATTAAC
Found at i:14723869 original size:25 final size:25
Alignment explanation
Indices: 14723841--14723892 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
14723831 TTTGGCTTGA
**
14723841 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
14723866 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
14723891 CA
1 CA
14723893 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:14727965 original size:53 final size:53
Alignment explanation
Indices: 14727824--14727974 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
14727814 ACAAGTGTGC
* **
14727824 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
14727877 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
14727930 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
14727975 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:14735481 original size:53 final size:53
Alignment explanation
Indices: 14735340--14735490 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
14735330 ACAAGTGTGC
* **
14735340 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
14735393 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
14735446 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
14735491 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:14737243 original size:40 final size:40
Alignment explanation
Indices: 14737194--14737304 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
14737184 TGAGTTACCA
* * *
14737194 TAGTAAATCAGGAACAAATCCTATCCACTTTATATAT-TTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-ATATCTTC
* * *
14737234 TAGTGAATCAGGAATAAATCATATTCACTTTAATTTCTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
14737274 TAGTGAATCAGGAATAAATCCTATTCACTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTT
14737305 TAATTCTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
39 3 0.05
40 60 0.95
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (40 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
Found at i:14738197 original size:17 final size:15
Alignment explanation
Indices: 14738169--14738202 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
14738159 CCCCAATTTC
14738169 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
14738184 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
14738201 TC
1 TC
14738203 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:14738428 original size:8 final size:8
Alignment explanation
Indices: 14738415--14738445 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
14738405 TTTAATTAAT
14738415 ATAATATA
1 ATAATATA
14738423 ATAATATA
1 ATAATATA
14738431 ATAATATA
1 ATAATATA
14738439 ATAATAT
1 ATAATAT
14738446 TTACTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:14742503 original size:6 final size:6
Alignment explanation
Indices: 14742492--14742520 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14742482 ATCTGATGCA
14742492 CCTGCC CCTGCC CCTGCC CCTGCC CCTGC
1 CCTGCC CCTGCC CCTGCC CCTGCC CCTGC
14742521 TGCATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.66, G:0.17, T:0.17
Consensus pattern (6 bp):
CCTGCC
Found at i:14747328 original size:23 final size:25
Alignment explanation
Indices: 14747302--14747348 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14747292 TATCATTCAT
*
14747302 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
14747325 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
14747349 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:14747669 original size:46 final size:46
Alignment explanation
Indices: 14747609--14747873 Score: 323
Period size: 46 Copynumber: 5.9 Consensus size: 46
14747599 TTTGACGTGA
* * * * * *
14747609 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
** * * *
14747655 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
14747701 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
* *
14747747 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
14747793 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
14747831 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
14747874 GAGAGCACAC
Statistics
Matches: 194, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 32 0.16
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 148 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
Found at i:14747840 original size:38 final size:38
Alignment explanation
Indices: 14747789--14747863 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
14747779 ATTTCATATT
14747789 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
14747827 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
14747864 TTTCATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
Found at i:14752891 original size:16 final size:17
Alignment explanation
Indices: 14752860--14752892 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14752850 ATTAAAAAAT
*
14752860 AATAAATTATATTTTTG
1 AATAAAATATATTTTTG
14752877 AATAAAATA-ATTTTTG
1 AATAAAATATATTTTTG
14752893 CTTCAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAAAATATATTTTTG
Found at i:14754386 original size:12 final size:13
Alignment explanation
Indices: 14754368--14754399 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
14754358 TCGATATCTC
14754368 AATTTCAATTCAT
1 AATTTCAATTCAT
14754381 -ATTTCAATTCAT
1 AATTTCAATTCAT
14754393 AATTTCA
1 AATTTCA
14754400 CTTTCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:14754854 original size:44 final size:44
Alignment explanation
Indices: 14754764--14754855 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
14754754 CCGAAGTAAC
* * *
14754764 AGTAACAGTACGACACACAAGGTGCCTCGTCGACTTAAAGTTGA
1 AGTAACAGTACGACACACAAGGTGCCTCATCGACTCAAAGTCGA
* *
14754808 AGTAACAGTACGACA-ATTATA-GTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACA-CA-AGGTGCCTCATCGACTCAAAGTCGA
14754852 AGTA
1 AGTA
14754856 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.02
44 39 0.95
45 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAGGTGCCTCATCGACTCAAAGTCGA
Found at i:14756354 original size:23 final size:24
Alignment explanation
Indices: 14756298--14756356 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
14756288 AAATAAATTA
* *
14756298 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
14756322 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
14756346 TTTTATTACAA
1 TTTTATTACAA
14756357 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:14756498 original size:3 final size:3
Alignment explanation
Indices: 14756490--14756526 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14756480 ATTTATTTAA
14756490 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14756527 TAGTTATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14757845 original size:9 final size:9
Alignment explanation
Indices: 14757833--14757864 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
14757823 ATTTTATATT
14757833 ATTTTTGTA
1 ATTTTTGTA
14757842 A-TTTTGTA
1 ATTTTTGTA
14757850 ATTTTTGTA
1 ATTTTTGTA
14757859 ATTTTT
1 ATTTTT
14757865 TCATTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (9 bp):
ATTTTTGTA
Found at i:14772022 original size:61 final size:60
Alignment explanation
Indices: 14771912--14772028 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 60
14771902 CTCTTAAAAA
***
14771912 TTAAATTTATTAAATTTTTAGAATTTAAATTAAAATGATAAATTTTGTAAACATTAATAG
1 TTAAATTTATTAAATTTTTAGAATTTAAATTAAAATGATAAAACATGTAAACATTAATAG
* * * *
14771972 TTAAATTTGTTAAATTTTTTA-TATTTAAAATTAAATTTATAAAACATGTAAACATTA
1 TTAAATTTATTAAA-TTTTTAGAATTT-AAATTAAAATGATAAAACATGTAAACATTA
14772029 GAAAACTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 17 0.35
61 31 0.65
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (60 bp):
TTAAATTTATTAAATTTTTAGAATTTAAATTAAAATGATAAAACATGTAAACATTAATAG
Found at i:14772706 original size:25 final size:25
Alignment explanation
Indices: 14772677--14772738 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
14772667 TTTAAAAAAA
* *
14772677 TAAATACATCAAATTATTTTTATAT
1 TAAATAAATAAAATTATTTTTATAT
14772702 TAAATAAATAAAATTATTTTTATAT
1 TAAATAAATAAAATTATTTTTATAT
14772727 TAAA-AATATAAA
1 TAAATAA-ATAAA
14772739 CTTAAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAATAAATAAAATTATTTTTATAT
Found at i:14772837 original size:29 final size:29
Alignment explanation
Indices: 14772782--14772851 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
14772772 TAAAATCTCA
* * *
14772782 TATATATATATAATATACAAAATTAAAATT
1 TATATATA-ATTATATACAAAACTAAAAAT
**
14772812 TATATATAATTATATATTAAACTAAAAAT
1 TATATATAATTATATACAAAACTAAAAAT
*
14772841 CATATATAATT
1 TATATATAATT
14772852 TTAAGATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
TATATATAATTATATACAAAACTAAAAAT
Found at i:14773735 original size:104 final size:103
Alignment explanation
Indices: 14773537--14773741 Score: 297
Period size: 104 Copynumber: 2.0 Consensus size: 103
14773527 TCATAAAAAA
* ** * *
14773537 CGAAGTAGTAATACTTCGTTGACAAATAATATTGGTCCATAAAAAAAATCTATTAAAAGTTGGAA
1 CGAAGTAGTAATACTTCGTTGACAAACAATATTGACCCATAAAAAAAACCTATCAAAAGTTGGAA
*
14773602 TTATGGAAACAACTTATTTCTACTACTCCATCTCCTAG
66 TCATGGAAACAACTTATTTCTACTACTCCATCTCCTAG
*
14773640 CGAAGTAGTAATACTTCGTTTACAAACAATA-TGAACCCATAAAAAAAAACCTATCAAAAGTTGG
1 CGAAGTAGTAATACTTCGTTGACAAACAATATTG-ACCCAT-AAAAAAAACCTATCAAAAGTTGG
*
14773704 AATCAT-GAGAACAACTTATTTTTACTACTCCATCTCCT
64 AATCATGGA-AACAACTTATTTCTACTACTCCATCTCCT
14773742 CTAATTTAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
102 2 0.02
103 35 0.38
104 54 0.59
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (103 bp):
CGAAGTAGTAATACTTCGTTGACAAACAATATTGACCCATAAAAAAAACCTATCAAAAGTTGGAA
TCATGGAAACAACTTATTTCTACTACTCCATCTCCTAG
Found at i:14777762 original size:29 final size:29
Alignment explanation
Indices: 14777732--14777793 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
14777722 TGTTATATAT
*
14777732 TTTTTATATTTA-AAATTTAGTTTTTTTA
1 TTTTTATATTTAGAAATTTAATTTTTTTA
* *
14777760 TTTTTATTTTTAGAAATTTAATTTTTCT-
1 TTTTTATATTTAGAAATTTAATTTTTTTA
14777788 TTTTTA
1 TTTTTA
14777794 CTTCTCAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (29 bp):
TTTTTATATTTAGAAATTTAATTTTTTTA
Found at i:14779959 original size:37 final size:37
Alignment explanation
Indices: 14779918--14779996 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
14779908 AATACCAGTG
14779918 TAAGTTAACTTGGGAAACTTAACAGAAGAAAATAATT
1 TAAGTTAACTTGGGAAACTTAACAGAAGAAAATAATT
14779955 TAAGTTAACTTGGGAAACTTAACAGAAGAAAATAATT
1 TAAGTTAACTTGGGAAACTTAACAGAAGAAAATAATT
14779992 TAAGT
1 TAAGT
14779997 GTCAACACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (37 bp):
TAAGTTAACTTGGGAAACTTAACAGAAGAAAATAATT
Found at i:14781144 original size:134 final size:134
Alignment explanation
Indices: 14780986--14781267 Score: 384
Period size: 134 Copynumber: 2.1 Consensus size: 134
14780976 GAATATTGCT
* * * * * * * *
14780986 TTCGTTTTAAATAATTTTTTTAAAATATATGAATGAATTTTTGAAGGGATACTCGATCATTTTAA
1 TTCGTTTTAAAGAATTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCATTTTAA
14781051 GCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAATTT
66 GCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAATTT
*
14781116 CGCC
131 CACC
* * * * *
14781120 TTCGTTTTAAAGAATTCTTTTAAAAGGCATGAGGGAAATCTTGAAGGGACATTCGATTATTTTGA
1 TTCGTTTTAAAGAATTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCATTTTAA
* * * * * *
14781185 GCAAACGCGAAATTGCCACCCAACACGTTAAGGCACTGTTCCGCGGATTGCCAAATATCGGATTT
66 GCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAATTT
14781250 CACC
131 CACC
14781254 TTCGTTTTAAAGAA
1 TTCGTTTTAAAGAA
14781268 AATTGTTTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
134 128 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (134 bp):
TTCGTTTTAAAGAATTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCATTTTAA
GCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAATTT
CACC
Found at i:14781986 original size:18 final size:18
Alignment explanation
Indices: 14781963--14782007 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
14781953 AAAAGGAAAG
14781963 AAAAAAAATTATATGTAC
1 AAAAAAAATTATATGTAC
*
14781981 AAAAAAAACTATATGTAC
1 AAAAAAAATTATATGTAC
*
14781999 AAAATAAAT
1 AAAAAAAAT
14782008 AATTTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAAAAAATTATATGTAC
Found at i:14784362 original size:44 final size:45
Alignment explanation
Indices: 14784294--14784874 Score: 776
Period size: 44 Copynumber: 13.2 Consensus size: 45
14784284 CGGGAACACC
* * * * * *
14784294 AATCTGT-TATTTTCGATCTACTCTCTGCTAATACAGAGATGTCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * **
14784338 AATCTGTC-ATCTTCAATCTGCTCTCTGTCAGCACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * *
14784382 AATCTGTC-ATCTTCGATCTGCTCTCCGCTACTACAGAGATGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
*
14784426 AATCTGT-TATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
14784470 AATCTGT-TATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
*
14784514 AATCTG-CTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
14784558 AATCTG-CTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
14784602 AAT-T-TACTATCTTCGATCTGCTCTTCGCCAACACAGAGACGCCA
1 AATCTGT-CTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
14784646 AATCTG-CTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
14784690 AATCT-ACTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
14784734 AATCTG-CTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * *
14784778 AATCTG-CTATCTTCGATTTGCTCTCCTCCACTACAGAGATGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * *
14784822 AATCTGT-TATCTTCGATTTGCTCTCCGCTACTACAGAGACGCCA
1 AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
14784866 AATCTGTCT
1 AATCTGTCT
14784875 GGTCTTGCAG
Statistics
Matches: 484, Mismatches: 42, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.00
44 481 0.99
45 2 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (45 bp):
AATCTGTCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
Found at i:14785254 original size:131 final size:130
Alignment explanation
Indices: 14785051--14785853 Score: 803
Period size: 131 Copynumber: 6.1 Consensus size: 130
14785041 TCGAGAAGAT
* * * * *
14785051 AAGACCTACAATCTTCAGCCCAATTCACTACAACCTTAGGGAGCTAGGACTTGCTTAAATCTGCT
1 AAGATCTACAATCCTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGACTTGCTTAAATCTGCT
* * *** * *
14785116 TCGCTGCATCTTCAGGAAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAGA
66 TCACTGCAACTTCAGGAAGCC-AGATTCGCCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAGA
14785181 C
130 C
* * * *
14785182 GAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTACT
1 AAGATCTACAATCCTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGACTTGCTTAAATCTGCT
* * * * * * *
14785247 TTACTGCAACATGAGGAAGCCTAGATTCGCCGTATTCGATCTGCCCCACTGTAA-TCTCAAGGA-
66 TCACTGCAACTTCAGGAAGCC-AGATTCGCCGTCTTCGATCTGCCTCACTGCAACT-TCAGGGAG
14785310 AGC
129 A-C
* * *
14785313 AAGATCTATAATCTTCAGCCTACTCCGCTACAACCTTAGGGAGCTAGGA--TGCTTAAATCTGCT
1 AAGATCTACAATCCTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGACTTGCTTAAATCTGCT
* * * *** * * *
14785376 TCGCTGCATCTTCAGGAAGCCAAAATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAGG
66 TCACTGCAACTTCAGGAAGCC-AGATTCGCCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAGA
14785441 C
130 C
* ** * * *
14785442 GAGATCTAGGATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATATGCT
1 AAGATCTACAATCCTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGACTTGCTTAAATCTGCT
* * * *
14785507 TCACTACAACATCAAGAAGCCTAGATTCGCCGTCTTCGATCTGCC-CTACTGTAATCTT-AGGGA
66 TCACTGCAACTTCAGGAAGCC-AGATTCGCCGTCTTCGATCTGCCTC-ACTGCAA-CTTCAGGGA
*
14785570 AAC
128 GAC
* *
14785573 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGA-TGGTGGCTTAAATCT
1 AAGATCTACAATCCTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGACT--T-GCTTAAATCT
* * **
14785637 GCTTCACTGCAACTTTAGGAAGCTCAGATTCGCTGTCTTCGATCTGTTTCACTGCAACTTCAGGG
63 GCTTCACTGCAACTTCAGGAAGC-CAGATTCGCCGTCTTCGATCTGCCTCACTGCAACTTC----
14785702 AGGCGAGATC
123 AGG-GAGA-C
* * * *
14785712 TACGATCTACGATCCTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG-TTGGTGGCTTAAATC
1 -AAGATCTACAATCCTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGACT--T-GCTTAAATC
* * *
14785776 TGCTTCACTGCAACTTCAGGAAGCTCAGATTCGCCGTCTTCGATCTGCTTCACTTCAATTTCAGG
62 TGCTTCACTGCAACTTCAGGAAGC-CAGATTCGCCGTCTTCGATCTGCCTCACTGCAACTTCAGG
*
14785841 GAAAC
126 GAGAC
14785846 AAGATCTA
1 AAGATCTA
14785854 AAATTTTAGC
Statistics
Matches: 551, Mismatches: 99, Indels: 42
0.80 0.14 0.06
Matches are distributed among these distances:
129 101 0.18
130 5 0.01
131 247 0.45
132 7 0.01
133 61 0.11
134 3 0.01
135 3 0.01
136 3 0.01
137 3 0.01
138 3 0.01
139 1 0.00
140 114 0.21
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (130 bp):
AAGATCTACAATCCTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGACTTGCTTAAATCTGCT
TCACTGCAACTTCAGGAAGCCAGATTCGCCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAGAC
Found at i:14785528 original size:260 final size:261
Alignment explanation
Indices: 14785051--14785853 Score: 1060
Period size: 260 Copynumber: 3.0 Consensus size: 261
14785041 TCGAGAAGAT
* * * * * *
14785051 AAGACCTACAATCTTCAGCCCAATTCACTACAACCTTAGGGAGCTAGGACTTGCTTAAATCTGCT
1 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGA-GTGCTTAAATCTGCT
*
14785116 TCGCTGCATCTTCAGGAAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAGA
65 TCGCTGCATCTTCAGGAAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAGG
** *
14785181 CGAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTAC
130 CGAGATCTAGGATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGC
* * *
14785246 TTTACTGCAACATGAGGAAGCCTAGATTCGCCGTATTCGATCTGCCCCACTGTAATCTCAAGGAA
195 TTCACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTGTAATCTCAAGGAA
*
14785311 GC
260 AC
*
14785313 AAGATCTATAATCTTCAGCCTACTCCGCTACAACCTTAGGGAGCTAGGA-TGCTTAAATCTGCTT
1 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGAGTGCTTAAATCTGCTT
*
14785377 CGCTGCATCTTCAGGAAGCCAAAATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAGGC
66 CGCTGCATCTTCAGGAAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAGGC
*
14785442 GAGATCTAGGATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATATGCT
131 GAGATCTAGGATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
* * * * *
14785507 TCACTACAACATCAAGAAGCCTAGATTCGCCGTCTTCGATCTGCCCTACTGTAATCTTAGGGAAA
196 TCACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTGTAATCTCAAGGAAA
14785572 C
261 C
14785573 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGATGGTGGCTTAAATCTG
1 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGA--GT-GCTTAAATCTG
* * * ** * * **
14785638 CTTCACTGCAACTTTAGGAAGCTC-AGA-TTCGCTGTCTTCGATCTGTTTCACTGCAACTTCAGG
63 CTTCGCTGCATCTTCAGGAAGC-CAAGATTTATC-GTCTTTGATTTGCCTCACTGCAACTTCAGG
* *
14785701 GAGGCGAGATCTACGATCTACGATCCTCAGCCTACTCCACTACAACTTTAGGGAGCTAGG-TTGG
126 GAGGCGAGATCTA-G------GATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACT--
* **
14785765 TGGCTTAAATCTGCTTCACTGCAACTTCAGGAAG-CTCAGATTCGCCGTCTTCGATCTGCTTCAC
182 T-GCTTAAATCTGCTTCACTGCAACATCAGGAAGCCT-AGATTCGCCGTCTTCGATCTGCCCCAC
* *
14785829 T-TCAATTTCAGGGAAAC
245 TGT-AATCTCAAGGAAAC
14785846 AAGATCTA
1 AAGATCTA
14785854 AAATTTTAGC
Statistics
Matches: 480, Mismatches: 43, Indels: 25
0.88 0.08 0.05
Matches are distributed among these distances:
260 244 0.51
262 43 0.09
263 4 0.01
264 71 0.15
265 2 0.00
270 1 0.00
271 38 0.08
272 4 0.01
273 73 0.15
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (261 bp):
AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGAGTGCTTAAATCTGCTT
CGCTGCATCTTCAGGAAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAGGC
GAGATCTAGGATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
TCACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTGTAATCTCAAGGAAA
C
Found at i:14791658 original size:134 final size:135
Alignment explanation
Indices: 14791500--14791784 Score: 365
Period size: 134 Copynumber: 2.1 Consensus size: 135
14791490 CCGAATATTG
* * * * * * * *
14791500 CTTTCGTTTTAAATAATTTTTTTTAAAATATATGAATGAATTTTTGAAGGGATACTCGATCATTT
1 CTTT-GTTTTAAAGAATTTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCATTT
14791565 TAAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAA
65 TAAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAA
*
14791630 TTTCGC
130 TTTCAC
* * * *
14791636 CTTTGTTTTAAAGAA-TTCTTTTAAAAGGCATGAGGGAAATCTTGAAGGGACATTCGATTATTTT
1 CTTTGTTTTAAAGAATTTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCATTTT
* * * * * * *
14791700 GAGCAAACGCGAAATTGCCACCCAACACGTTAAGGCACTGTTCCGCGGATTGCCAAATATCGGAT
66 AAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAAT
14791765 TTCAC
131 TTCAC
*
14791770 CTTCGTTTTAAAGAA
1 CTTTGTTTTAAAGAA
14791785 AATTGTTTTA
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
134 114 0.89
135 10 0.08
136 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (135 bp):
CTTTGTTTTAAAGAATTTCTTTTAAAAGACATGAAGGAAATCTTGAAGGGACACTCGATCATTTT
AAGCAAACGCGAAATTGCAACCCAACACGTTAAGGCACTATCCCGCGAATTGCAAAATATCGAAT
TTCAC
Found at i:14792221 original size:2 final size:2
Alignment explanation
Indices: 14792214--14792256 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14792204 CTAAGGCTAG
14792214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14792256 A
1 A
14792257 AATGAAGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14792535 original size:18 final size:18
Alignment explanation
Indices: 14792512--14792551 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
14792502 AAGGAGAGAA
14792512 AAAAAAAACTATATGTAC
1 AAAAAAAACTATATGTAC
14792530 AAAAAAAACTATATGTAC
1 AAAAAAAACTATATGTAC
14792548 AAAA
1 AAAA
14792552 TACATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAAAAAACTATATGTAC
Found at i:14794141 original size:23 final size:21
Alignment explanation
Indices: 14794094--14794143 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
14794084 TGCGATAGAT
*
14794094 AAATCAAAGAAAACAGAAATG
1 AAATCAAAGAAAACAGAAATC
14794115 AAATCGAAAGAAAA-ATGAGAATC
1 AAATC-AAAGAAAACA-GA-AATC
14794138 AAATCA
1 AAATCA
14794144 CCTTGTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 11 0.44
23 8 0.32
ACGTcount: A:0.64, C:0.10, G:0.14, T:0.12
Consensus pattern (21 bp):
AAATCAAAGAAAACAGAAATC
Found at i:14795095 original size:3 final size:3
Alignment explanation
Indices: 14795068--14795129 Score: 90
Period size: 3 Copynumber: 21.0 Consensus size: 3
14795058 TTCCATGTGG
* * *
14795068 TAA TAA AAA TAA AAA TAA -AA AAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14795115 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
14795130 CAAAGTAGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:14796185 original size:3 final size:3
Alignment explanation
Indices: 14796177--14796242 Score: 50
Period size: 3 Copynumber: 23.3 Consensus size: 3
14796167 TGTTATCAAT
* ** * *
14796177 TTA TTA TTA TAA TTA TTA TTA TGG TT- TT- TTA TT- TAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
14796222 TTA TTA ATA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
14796243 GAAATAAAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
2 7 0.14
3 42 0.86
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14796513 original size:24 final size:23
Alignment explanation
Indices: 14796486--14796558 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
14796476 TATGTTTTTG
14796486 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
* *
14796510 TTATTATTATAGTTTTATATTAAA
1 TTATTA-AATAGTATTATATTAAA
*
14796534 TTATTAAATTATTATTATTATTAAA
1 TTATTAAA-TAGTATTA-TATTAAA
14796559 ATAAATTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 1 0.03
24 23 0.57
25 16 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:14799241 original size:34 final size:33
Alignment explanation
Indices: 14799162--14799243 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 33
14799152 AGAAAGTGGA
* * *
14799162 AAAGTGAATTTGAATTTAATGAGAATTGAATTG
1 AAAGTGAATTTGAATTGAAAGAAAATTGAATTG
*
14799195 AATTGTGAATTTGAATTGAAAGTAAAATTGACATTG
1 AA-AGTGAATTTGAATTGAAAG-AAAATTGA-ATTG
14799231 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
14799244 ATGTGAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 2 0.05
34 23 0.56
35 10 0.24
36 6 0.15
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (33 bp):
AAAGTGAATTTGAATTGAAAGAAAATTGAATTG
Found at i:14800039 original size:23 final size:25
Alignment explanation
Indices: 14800013--14800059 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14800003 TATCATTCAT
*
14800013 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
14800036 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
14800060 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:14800380 original size:46 final size:47
Alignment explanation
Indices: 14800320--14800470 Score: 191
Period size: 46 Copynumber: 3.3 Consensus size: 47
14800310 TTTGACGTGA
* * * * *
14800320 TGCCATAGTGTCTTTTAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
*
14800366 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
* * * *
14800412 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
14800458 TGCCATGGTATCT
1 TGCCATGGTATCT
14800471 CAGGTTGCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 5 0.05
46 87 0.95
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
Found at i:14800475 original size:18 final size:18
Alignment explanation
Indices: 14800452--14800488 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14800442 ACATCTCATA
14800452 TCAGGTTGCCATGGTATC
1 TCAGGTTGCCATGGTATC
14800470 TCAGGTTGCCATGGTATC
1 TCAGGTTGCCATGGTATC
14800488 T
1 T
14800489 TTCAACCATG
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:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (18 bp):
TCAGGTTGCCATGGTATC
Found at i:14800487 original size:64 final size:64
Alignment explanation
Indices: 14800410--14800534 Score: 241
Period size: 64 Copynumber: 2.0 Consensus size: 64
14800400 TTCATGTCAC
14800410 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
*
14800474 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCT
14800535 TTCAACCATG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (64 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
Found at i:14800522 original size:46 final size:46
Alignment explanation
Indices: 14800470--14800565 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
14800460 CCATGGTATC
14800470 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
14800516 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
14800562 TCAG
1 TCAG
14800566 AGAGCACACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (46 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
Found at i:14800561 original size:110 final size:110
Alignment explanation
Indices: 14800364--14800565 Score: 350
Period size: 110 Copynumber: 1.8 Consensus size: 110
14800354 TTTCTGTCAT
** * *
14800364 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
14800429 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
66 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
*
14800474 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
*
14800539 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTTACACATCTCATATCAG
14800566 AGAGCACACT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (110 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTCAG
Found at i:14805258 original size:17 final size:18
Alignment explanation
Indices: 14805232--14805272 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
14805222 ACATGTGGAA
*
14805232 AAAAATAATAGAA-G-AT
1 AAAAATAATAAAATGTAT
14805248 AAAAATCAATAAAATGTAT
1 AAAAAT-AATAAAATGTAT
14805267 AAAAAT
1 AAAAAT
14805273 TATTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 6 0.29
18 1 0.05
19 8 0.38
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.22
Consensus pattern (18 bp):
AAAAATAATAAAATGTAT
Found at i:14805279 original size:19 final size:18
Alignment explanation
Indices: 14805257--14805410 Score: 86
Period size: 19 Copynumber: 8.3 Consensus size: 18
14805247 TAAAAATCAA
14805257 TAAAATGTATAAAAATTAT
1 TAAAATGTA-AAAAATTAT
* * *
14805276 TAAATTTTAATAAAAATAT
1 TAAAATGTAA-AAAATTAT
*
14805295 TAAAACTAGAAAAAAATTTAT
1 TAAAA-T-GTAAAAAA-TTAT
14805316 TAAAAT-TAAAAAA-TA-
1 TAAAATGTAAAAAATTAT
*
14805331 -AAAATCGTAAAAAAATAT
1 TAAAAT-GTAAAAAATTAT
* **
14805349 AAAAATTGTAAAATTTTAT
1 TAAAA-TGTAAAAAATTAT
*
14805368 AAAAATCGTAAAAAATTA-
1 TAAAAT-GTAAAAAATTAT
*
14805386 TAAAATATAGAAAAAATTA-
1 TAAAATGT--AAAAAATTAT
14805405 TAAAAT
1 TAAAAT
14805411 TTTATAAAGC
Statistics
Matches: 107, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
14 5 0.05
16 9 0.08
17 3 0.03
18 13 0.12
19 60 0.56
20 7 0.07
21 10 0.09
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
TAAAATGTAAAAAATTAT
Found at i:14805389 original size:10 final size:10
Alignment explanation
Indices: 14805338--14805409 Score: 51
Period size: 10 Copynumber: 7.5 Consensus size: 10
14805328 ATAAAAATCG
*
14805338 TAAAAAAATA
1 TAAAAAATTA
*
14805348 T-AAAAATTG
1 TAAAAAATTA
**
14805357 TAAAATTTTA
1 TAAAAAATTA
**
14805367 T-AAAAATCG
1 TAAAAAATTA
14805376 TAAAAAATTA
1 TAAAAAATTA
*
14805386 TAAAATA-TA
1 TAAAAAATTA
*
14805395 GAAAAAATTA
1 TAAAAAATTA
14805405 TAAAA
1 TAAAA
14805410 TTTTATAAAG
Statistics
Matches: 44, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
9 19 0.43
10 25 0.57
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:14805406 original size:38 final size:38
Alignment explanation
Indices: 14805328--14805478 Score: 117
Period size: 38 Copynumber: 3.7 Consensus size: 38
14805318 AAATTAAAAA
* **
14805328 ATAAAAATCGTAAAAAAATATAAAAATTGTAAAATTTT
1 ATAAAAATCGTAAAAAAATATAAAAATAGTAAAAAATT
*
14805366 ATAAAAATCGTAAAAAATTATAAAATATAG-AAAAAATT
1 ATAAAAATCGTAAAAAAATATAAAA-ATAGTAAAAAATT
* *
14805404 ATAAAATTTTATAAAGCTGTAAGAAAATTATAGAAAAT-GTAAAAAAAT
1 ATAAAA----AT----C-GTAA-AAAAATATA-AAAATAGTAAAAAATT
*
14805452 ATAAAATTCGTAAAAAAATATAAAAAT
1 ATAAAAATCGTAAAAAAATATAAAAAT
14805479 TATCGTATCA
Statistics
Matches: 93, Mismatches: 7, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
37 5 0.05
38 44 0.47
39 7 0.08
40 1 0.01
42 2 0.02
44 1 0.01
46 1 0.01
47 5 0.05
48 24 0.26
49 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (38 bp):
ATAAAAATCGTAAAAAAATATAAAAATAGTAAAAAATT
Found at i:14805448 original size:48 final size:48
Alignment explanation
Indices: 14805349--14805459 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 48
14805339 AAAAAAATAT
*
14805349 AAAAATTGTAAAATTTTATAAAAATCGTAAAAAATTATAAAATATAGA
1 AAAAATTATAAAATTTTATAAAAATCGTAAAAAATTATAAAATATAGA
**
14805397 AAAAATTATAAAATTTTATAAAGCT-GTAAGAAAATTATAGAAA-AT-GTA
1 AAAAATTATAAAATTTTATAAAAATCGTAA-AAAATTATA-AAATATAG-A
*
14805445 AAAAAATATAAAATT
1 AAAAATTATAAAATT
14805460 CGTAAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
47 5 0.09
48 48 0.86
49 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (48 bp):
AAAAATTATAAAATTTTATAAAAATCGTAAAAAATTATAAAATATAGA
Found at i:14805450 original size:20 final size:18
Alignment explanation
Indices: 14805421--14805478 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
14805411 TTTATAAAGC
*
14805421 TGTAAGAAAATTATAGAAAA
1 TGTAA-AAAAATATA-AAAA
*
14805441 TGTAAAAAAATATAAAAT
1 TGTAAAAAAATATAAAAA
14805459 TCGTAAAAAAATATAAAAA
1 T-GTAAAAAAATATAAAAA
14805478 T
1 T
14805479 TATCGTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 25 0.74
20 5 0.15
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.26
Consensus pattern (18 bp):
TGTAAAAAAATATAAAAA
Found at i:14805660 original size:20 final size:20
Alignment explanation
Indices: 14805635--14805675 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14805625 GTTAGAGGGC
14805635 ATTTTTTGATG-TATTTTATA
1 ATTTTTTGATGAT-TTTTATA
*
14805655 ATTTTTTTATGATTTTTATA
1 ATTTTTTGATGATTTTTATA
14805675 A
1 A
14805676 AATTTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
ATTTTTTGATGATTTTTATA
Found at i:14805661 original size:10 final size:10
Alignment explanation
Indices: 14805648--14805720 Score: 55
Period size: 9 Copynumber: 7.5 Consensus size: 10
14805638 TTTTGATGTA
14805648 TTTTATAATTT
1 TTTTATAA-TT
*
14805659 TTTTATGA-T
1 TTTTATAATT
**
14805668 TTTTATAAAA
1 TTTTATAATT
14805678 TTTTAT-ATAT
1 TTTTATAAT-T
* *
14805688 TTCTA-CATT
1 TTTTATAATT
14805697 TTTTATAATT
1 TTTTATAATT
14805707 TTTTAT-ATT
1 TTTTATAATT
14805716 TTTTA
1 TTTTA
14805721 CTAAAATTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
9 22 0.44
10 21 0.42
11 7 0.14
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:14805689 original size:20 final size:20
Alignment explanation
Indices: 14805648--14805689 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
14805638 TTTTGATGTA
* *
14805648 TTTTATAATTTTTTTATGAT
1 TTTTATAAATTTTATATGAT
14805668 TTTTATAAAATTTTATAT-AT
1 TTTTAT-AAATTTTATATGAT
14805688 TT
1 TT
14805690 CTACATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATAAATTTTATATGAT
Found at i:14805718 original size:9 final size:9
Alignment explanation
Indices: 14805678--14805720 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
14805668 TTTTATAAAA
14805678 TTTTATATAT
1 TTTTATAT-T
* *
14805688 TTCTACATT
1 TTTTATATT
14805697 TTTTATAATT
1 TTTTAT-ATT
14805707 TTTTATATT
1 TTTTATATT
14805716 TTTTA
1 TTTTA
14805721 CTAAAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:14814149 original size:21 final size:23
Alignment explanation
Indices: 14814100--14814147 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
14814090 ATATTTTCAA
*
14814100 AAAATATATAATAATAAAATTTT
1 AAAATATATAATAATAAAATCTT
14814123 AAAATATATAA-AA-AAAATACTT
1 AAAATATATAATAATAAAAT-CTT
14814145 AAA
1 AAA
14814148 TAACTCTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 11 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATATATAATAATAAAATCTT
Found at i:14815187 original size:24 final size:24
Alignment explanation
Indices: 14815157--14815206 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14815147 AAACAAGAAG
14815157 TAGTTTTAAACTAAACTTTCTTGC
1 TAGTTTTAAACTAAACTTTCTTGC
14815181 TAGTTTTAAACTAAACTTTCTTGC
1 TAGTTTTAAACTAAACTTTCTTGC
14815205 TA
1 TA
14815207 ACATAAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (24 bp):
TAGTTTTAAACTAAACTTTCTTGC
Found at i:14815957 original size:15 final size:15
Alignment explanation
Indices: 14815939--14815984 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
14815929 AGTTAGAGTT
14815939 AGTTAAAACATAACC
1 AGTTAAAACATAACC
14815954 AGTTAAAACATAACC
1 AGTTAAAACATAACC
*
14815969 AGGTAAAACATAACC
1 AGTTAAAACATAACC
14815984 A
1 A
14815985 CTCCTCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.54, C:0.20, G:0.09, T:0.17
Consensus pattern (15 bp):
AGTTAAAACATAACC
Found at i:14818721 original size:24 final size:24
Alignment explanation
Indices: 14818689--14818736 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
14818679 ACAAGAAGTT
*
14818689 GTTTTAAACTAAACTTTCTTGCTA
1 GTTTGAAACTAAACTTTCTTGCTA
14818713 GTTTGAAACTAAACTTTCTTGCTA
1 GTTTGAAACTAAACTTTCTTGCTA
14818737 ACATAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (24 bp):
GTTTGAAACTAAACTTTCTTGCTA
Found at i:14822550 original size:27 final size:25
Alignment explanation
Indices: 14822510--14822621 Score: 76
Period size: 23 Copynumber: 4.6 Consensus size: 25
14822500 AAATTAATAT
* *
14822510 GAAAAAAATGTAAATTAAAATGGAAA
1 GAAAATAATTTAAATTAAAATGG-AA
*
14822536 GAAAGATAATTTAAA-TGAAAT-G-A
1 GAAA-ATAATTTAAATTAAAATGGAA
* *
14822559 GAAAA-AAATTAAATTTAAATGGAA
1 GAAAATAATTTAAATTAAAATGGAA
*
14822583 -AAAATAATTTAAA-TGAAATGAGAA
1 GAAAATAATTTAAATTAAAATG-GAA
14822607 -AAAATTATATTTAAA
1 GAAAA-TA-ATTTAAA
14822622 AGGAAAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
21 7 0.10
22 6 0.08
23 16 0.23
24 15 0.21
25 3 0.04
26 16 0.23
27 8 0.11
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (25 bp):
GAAAATAATTTAAATTAAAATGGAA
Found at i:14822564 original size:47 final size:45
Alignment explanation
Indices: 14822508--14822650 Score: 184
Period size: 47 Copynumber: 3.1 Consensus size: 45
14822498 AAAAATTAAT
14822508 ATGA-AAAAAATGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAA
1 ATGAGAAAAAAT-TAAATTAAAATGGAAA-AAA-ATAATTTAAATGAA
*
14822555 ATGAGAAAAAAATTAAATTTAAATGG-AAAAAATAATTTAAATGAA
1 ATGAG-AAAAAATTAAATTAAAATGGAAAAAAATAATTTAAATGAA
*
14822600 ATGAGAAAAAATTATATTTAAAA-GGAAAAAAAAATAATTTAAATGAA
1 ATGAGAAAAAATTA-AATTAAAATGG--AAAAAAATAATTTAAATGAA
14822647 ATGA
1 ATGA
14822651 AATGGAAAAT
Statistics
Matches: 87, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
44 11 0.13
45 25 0.29
46 3 0.03
47 29 0.33
48 12 0.14
49 7 0.08
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (45 bp):
ATGAGAAAAAATTAAATTAAAATGGAAAAAAATAATTTAAATGAA
Found at i:14822639 original size:21 final size:23
Alignment explanation
Indices: 14822580--14822647 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 23
14822570 AATTTAAATG
*
14822580 GAAAAAATAATTTAAATGAAATGA
1 GAAAAAATAATTTAAAAGAAA-GA
*
14822604 GAAAAAATTATATTTAAAAGGAA-A
1 GAAAAAA-TA-ATTTAAAAGAAAGA
*
14822628 -AAAAAATAATTTAAATGAAA
1 GAAAAAATAATTTAAAAGAAA
14822648 TGAAATGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.26
22 2 0.05
23 6 0.16
24 8 0.21
25 2 0.05
26 10 0.26
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (23 bp):
GAAAAAATAATTTAAAAGAAAGA
Found at i:14822666 original size:6 final size:5
Alignment explanation
Indices: 14822640--14822951 Score: 64
Period size: 5 Copynumber: 57.6 Consensus size: 5
14822630 AAAATAATTT
* * *
14822640 AAATG AAATG AAATGG AAAATGG AAATGG AAATG AAATAC AAATAC AAATAC
1 AAATG AAATG AAAT-G -AAAT-G AAAT-G AAATG AAAT-G AAAT-G AAAT-G
* * * * *
14822692 AAATG AAATG GAATAG AATATG ACTATG AAATA AAATG TAATTTG TAATG
1 AAATG AAATG AAAT-G AA-ATG A-AATG AAATG AAATG -AA-ATG AAATG
* *
14822742 AATAAG AAGTG AAATG AAATG TTAAATG AATATG AAATG AAATG ATAAT-
1 AA-ATG AAATG AAATG AAATG --AAATG AA-ATG AAATG AAATG A-AATG
* * * *
14822791 -TATG AAATG GAATG AAAGTTT AAATG AAAAT- AAATTG TAAATTT AAATG
1 AAATG AAATG AAATG AAA--TG AAATG -AAATG AAA-TG -AAA-TG AAATG
** * * **
14822840 AAAAC AAA-- AACTA AAATG AAAAA AAATTG AAATGAG AAAT- AAAT-
1 AAATG AAATG AAATG AAATG AAATG AAA-TG AAAT--G AAATG AAATG
* * * *
14822884 AAATTT AAATGG AAA-A AAATT AAATT AAATGG AAATGG AAATGG AAATGG
1 AAA-TG AAAT-G AAATG AAATG AAATG AAAT-G AAAT-G AAAT-G AAAT-G
14822934 AAATG AAATG AAATG AAA
1 AAATG AAATG AAATG AAA
14822952 AAAAAATTTT
Statistics
Matches: 239, Mismatches: 37, Indels: 62
0.71 0.11 0.18
Matches are distributed among these distances:
3 4 0.02
4 13 0.05
5 105 0.44
6 88 0.37
7 29 0.12
ACGTcount: A:0.57, C:0.02, G:0.17, T:0.24
Consensus pattern (5 bp):
AAATG
Found at i:14822667 original size:13 final size:12
Alignment explanation
Indices: 14822645--14822677 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14822635 AATTTAAATG
14822645 AAATGAAATGGA
1 AAATGAAATGGA
14822657 AAATGGAAATGG-
1 AAAT-GAAATGGA
14822669 AAATGAAAT
1 AAATGAAAT
14822678 ACAAATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 8 0.40
13 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (12 bp):
AAATGAAATGGA
Found at i:14822742 original size:28 final size:27
Alignment explanation
Indices: 14822692--14822791 Score: 83
Period size: 28 Copynumber: 3.6 Consensus size: 27
14822682 ATACAAATAC
* ** *
14822692 AAATGAAATGGAATAGAATATGACTATG
1 AAATGAAATGTAATTTAA-ATGAATATG
* * *
14822720 AAATAAAATGTAATTTGTAATGAATAAG
1 AAATGAAATGTAATTT-AAATGAATATG
* *
14822748 AAGTGAAATGAAATGTTAAATGAATATG
1 AAATGAAATGTAAT-TTAAATGAATATG
14822776 AAATGAAATGATAATT
1 AAATGAAATG-TAATT
14822792 ATGAAATGGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
28 49 0.89
29 6 0.11
ACGTcount: A:0.52, C:0.01, G:0.18, T:0.29
Consensus pattern (27 bp):
AAATGAAATGTAATTTAAATGAATATG
Found at i:14822777 original size:23 final size:22
Alignment explanation
Indices: 14822751--14822842 Score: 82
Period size: 23 Copynumber: 4.0 Consensus size: 22
14822741 GAATAAGAAG
14822751 TGAAATGAAATGTTAAATGAATA
1 TGAAATGAAATGTTAAATGAA-A
*
14822774 TGAAATGAAATGATAATTATGAAA
1 TGAAATGAAATGTTAA--ATGAAA
*
14822798 TGGAATGAAA-GTTTAAATGAAAA
1 TGAAATGAAATG-TTAAATG-AAA
14822821 T-AAATTGTAAAT-TTAAATGAAA
1 TGAAA-TG-AAATGTTAAATGAAA
14822843 ACAAAAACTA
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
22 8 0.14
23 29 0.50
24 16 0.28
25 5 0.09
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.30
Consensus pattern (22 bp):
TGAAATGAAATGTTAAATGAAA
Found at i:14822854 original size:23 final size:23
Alignment explanation
Indices: 14822809--14822854 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14822799 GGAATGAAAG
* ***
14822809 TTTAAATGAAAATAAATTGTAAA
1 TTTAAATGAAAACAAAAACTAAA
14822832 TTTAAATGAAAACAAAAACTAAA
1 TTTAAATGAAAACAAAAACTAAA
14822855 ATGAAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (23 bp):
TTTAAATGAAAACAAAAACTAAA
Found at i:14822903 original size:20 final size:20
Alignment explanation
Indices: 14822858--14822918 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
14822848 AACTAAAATG
*
14822858 AAAAA-AAATTGAAATGAGAA
1 AAAAATAAATTTAAATG-GAA
*
14822878 ATAAATAAATTTAAATGGAA
1 AAAAATAAATTTAAATGGAA
14822898 AAAAATTAAA-TTAAATGGAA
1 AAAAA-TAAATTTAAATGGAA
14822918 A
1 A
14822919 TGGAAATGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (20 bp):
AAAAATAAATTTAAATGGAA
Found at i:14822927 original size:12 final size:12
Alignment explanation
Indices: 14822910--14822948 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
14822900 AAATTAAATT
14822910 AAATGGAAATGG
1 AAATGGAAATGG
14822922 AAATGGAAATGG
1 AAATGGAAATGG
14822934 AAAT-GAAAT-G
1 AAATGGAAATGG
14822944 AAATG
1 AAATG
14822949 AAAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 5 0.19
11 5 0.19
12 16 0.62
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (12 bp):
AAATGGAAATGG
Found at i:14822984 original size:6 final size:6
Alignment explanation
Indices: 14822973--14822997 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14822963 AAAGGATAGG
14822973 GCTTGT GCTTGT GCTTGT GCTTGT G
1 GCTTGT GCTTGT GCTTGT GCTTGT G
14822998 TCAGGCCTAC
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:0.00, C:0.16, G:0.36, T:0.48
Consensus pattern (6 bp):
GCTTGT
Found at i:14830288 original size:22 final size:22
Alignment explanation
Indices: 14830226--14830318 Score: 105
Period size: 22 Copynumber: 4.1 Consensus size: 22
14830216 TTACAACTAT
*
14830226 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAATGTGC
* *
14830248 TATACAGAGAGCACGAATGTGC
1 TAAACAGAGAGCACTAATGTGC
*
14830270 TAAACAGAGAGCACTAATGTTCC
1 TAAACAGAGAGCACTAATG-TGC
* *
14830293 AGTAATCGGAGAGCACTAATGTGC
1 --TAAACAGAGAGCACTAATGTGC
14830317 TA
1 TA
14830319 TTTATAAGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
22 38 0.64
23 2 0.03
24 2 0.03
25 17 0.29
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (22 bp):
TAAACAGAGAGCACTAATGTGC
Found at i:14831265 original size:5 final size:5
Alignment explanation
Indices: 14831245--14831287 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
14831235 TTACCTATTT
*
14831245 ATATA ATAT- ATATA ATTTA ATATA ATATA ATAT- ATAATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATAT
14831288 TCTTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 25 0.76
6 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATA
Found at i:14832864 original size:16 final size:17
Alignment explanation
Indices: 14832833--14832865 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14832823 TTCATAAGTA
14832833 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
14832850 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
14832866 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:14833220 original size:46 final size:46
Alignment explanation
Indices: 14833145--14833556 Score: 524
Period size: 46 Copynumber: 9.0 Consensus size: 46
14833135 TTATCTTTGA
* * * * * *
14833145 CATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
14833191 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * ** *
14833237 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCGGC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
14833283 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * *
14833329 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCA-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT-CATGT
*
14833375 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC-TCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT-GT
* ** *
14833421 CATGTTGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * ** *
14833467 CATGTTGTCATGGTATCTTTCAATCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* **
14833513 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
14833557 TTCAGAGAGC
Statistics
Matches: 327, Mismatches: 34, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
45 5 0.02
46 319 0.98
47 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:14833487 original size:25 final size:25
Alignment explanation
Indices: 14833459--14833534 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
14833449 GTCTTACACA
14833459 TTTCATATCATGTTGTCATGGTATC
1 TTTCATATCATGTTGTCATGGTATC
*
14833484 TTTCA-ATCATG--GTC-T--TACAC
1 TTTCATATCATGTTGTCATGGTA-TC
* *
14833504 ATTTCATATCAGGTTGCCATGGTATC
1 -TTTCATATCATGTTGTCATGGTATC
14833530 TTTCA
1 TTTCA
14833535 ACCATGGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 6 0.15
22 8 0.21
24 8 0.21
25 11 0.28
26 1 0.03
27 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (25 bp):
TTTCATATCATGTTGTCATGGTATC
Found at i:14835200 original size:19 final size:21
Alignment explanation
Indices: 14835172--14835211 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
14835162 CACACCATAA
14835172 TTTTCCC-TTTTCT-TCTTTC
1 TTTTCCCTTTTTCTCTCTTTC
*
14835191 TTTTCTCTTTTTCTCTCTTTC
1 TTTTCCCTTTTTCTCTCTTTC
14835212 CTTCCCGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCCCTTTTTCTCTCTTTC
Found at i:14835458 original size:20 final size:21
Alignment explanation
Indices: 14835435--14835482 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
14835425 TATAATTATT
*
14835435 TAATTAATAAATAT-CTTTTA
1 TAATTAATAAATATCCATTTA
14835455 TAATTAATAAATATCCATTTA
1 TAATTAATAAATATCCATTTA
14835476 TAATTAA
1 TAATTAA
14835483 ATACTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTAATAAATATCCATTTA
Found at i:14836573 original size:24 final size:25
Alignment explanation
Indices: 14836541--14836587 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14836531 GGAGCTACCC
14836541 ATTATTGGCTCGCATGAGCTTCCTA
1 ATTATTGGCTCGCATGAGCTTCCTA
**
14836566 ATTA-TGGCTCTTATGAGCTTCC
1 ATTATTGGCTCGCATGAGCTTCC
14836588 CGTTATACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
ATTATTGGCTCGCATGAGCTTCCTA
Found at i:14839084 original size:13 final size:13
Alignment explanation
Indices: 14839068--14839100 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14839058 TTTAATTAAA
*
14839068 TTAGTTAATTAGT
1 TTAGATAATTAGT
14839081 TTAGATAATTAGT
1 TTAGATAATTAGT
14839094 TTA-ATAA
1 TTAGATAA
14839101 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:14840690 original size:23 final size:23
Alignment explanation
Indices: 14840664--14840712 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
14840654 TTAAAATATT
14840664 TAATAAAAAATATATAATTCGAA
1 TAATAAAAAATATATAATTCGAA
14840687 TAATAAAAAATATATAATTCGAA
1 TAATAAAAAATATATAATTCGAA
14840710 TAA
1 TAA
14840713 GTAATAGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
TAATAAAAAATATATAATTCGAA
Found at i:14840951 original size:89 final size:90
Alignment explanation
Indices: 14840728--14841138 Score: 345
Period size: 90 Copynumber: 4.6 Consensus size: 90
14840718 AGTAGATGAC
* * * **
14840728 AAATTAAATTTACAGACACAATAAAATACAAACATTCTACA-ATATTAATACAAAAAAATATAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTA-AGAAATTAATACACGAAAATATAAA
* * ** * *
14840792 ATTTAAA-CAAAAATAATACAC-ACT
65 AATCAAACCTTAAATCATAAACAACT
* * ** * * * * * * * *
14840816 AAATTAAATTTAAACACCCAACAAACTATAAACAGAT-AAATAAAATTAATACACGAAAATTTTA
1 AAATTAAATTTACAGATACAAAAAAATACAAACA-TTCTAA-GAAATTAATACACGAAAATATAA
* * * *
14840880 AATTCCAA-C-TACAT-AT-AACATGGATT
64 AAATCAAACCTTAAATCATAAACA---ACT
*
14840906 AAATTAAATTTACAGATACAAAAAAATATAAACATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAA
* *
14840971 ATGAAACCTTAAATCCTAAACAACT
66 ATCAAACCTTAAATCATAAACAACT
* *
14840996 ATATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATAT-AAA
* * *
14841061 AATGAAACATTAAATCCTAAACAACT
65 AATCAAACCTTAAATCATAAACAACT
* * *
14841087 ACATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAAGAAA-TAATACA
1 AAATTAAATTTACAGATACAAAAAAATACAAACATTCT-AAGAAATTAATACA
14841139 ATTATTTTGA
Statistics
Matches: 267, Mismatches: 42, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
86 2 0.01
87 3 0.01
88 32 0.12
89 51 0.19
90 93 0.35
91 75 0.28
92 7 0.03
93 4 0.01
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (90 bp):
AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAA
ATCAAACCTTAAATCATAAACAACT
Found at i:14841002 original size:90 final size:91
Alignment explanation
Indices: 14840908--14841138 Score: 394
Period size: 91 Copynumber: 2.5 Consensus size: 91
14840898 CATGGATTAA
* *
14840908 ATTAAATTTACAGATACAAAAAAATATAAACATTCTAAGAAATTAATACACGAAAATAT-AAAAA
1 ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAAAA
* *
14840972 TGAAACCTTAAATCCTAAACAACTAT
66 TGAAACATTAAATCCTAAACAACTAC
*
14840998 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAA
1 ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAAAA
14841063 TGAAACATTAAATCCTAAACAACTAC
66 TGAAACATTAAATCCTAAACAACTAC
14841089 ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATATAAAAAAATAAAAACATTCT-AAGAAATTAATACA
14841139 ATTATTTTGA
Statistics
Matches: 134, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
90 57 0.43
91 71 0.53
92 6 0.04
ACGTcount: A:0.58, C:0.12, G:0.04, T:0.25
Consensus pattern (91 bp):
ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAAAA
TGAAACATTAAATCCTAAACAACTAC
Found at i:14841397 original size:17 final size:17
Alignment explanation
Indices: 14841342--14841398 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
14841332 AATGAATATG
*
14841342 AAATGAAATGATAATTAT
1 AAATGGAATGA-AATTAT
14841360 GAAATGGAATGAAAGTT-T
1 -AAATGGAATGAAA-TTAT
14841378 AAATGAGAAT-AAATTAT
1 AAATG-GAATGAAATTAT
14841395 AAAT
1 AAAT
14841399 TTAAATGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 2 0.06
17 13 0.38
18 7 0.21
19 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (17 bp):
AAATGGAATGAAATTAT
Found at i:14841424 original size:18 final size:17
Alignment explanation
Indices: 14841401--14841470 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 17
14841391 TTATAAATTT
14841401 AAATGAAAACAAAAACTG
1 AAATGAAAA-AAAAACTG
* *
14841419 AAATGAGAAAAAAATTG
1 AAATGAAAAAAAAACTG
* *
14841436 AAATGAGAGATAAATAAATTT
1 AAATGA-A-A-AAA-AAACTG
14841457 AAATGAAAAAAAAA
1 AAATGAAAAAAAAA
14841471 ATTTAAATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 16 0.36
18 11 0.25
19 2 0.05
20 4 0.09
21 11 0.25
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.17
Consensus pattern (17 bp):
AAATGAAAAAAAAACTG
Found at i:14841489 original size:56 final size:57
Alignment explanation
Indices: 14841359--14841503 Score: 156
Period size: 56 Copynumber: 2.6 Consensus size: 57
14841349 ATGATAATTA
* * * *
14841359 TGAAATGGAATGAAAGTTTAAATGAGAATAAATTATAAATTTAAATGAAAACAAAAAC
1 TGAAATGAAATGAAAATTGAAATGAGAATAAA-TATAAATTTAAATGAAAAAAAAAAC
* *
14841417 TGAAATGAGAA-AAAAATTGAAATGAGAGAT-AA-ATAAATTTAAATGAAAAAAAAAAT
1 TGAAATGA-AATGAAAATTGAAATGAGA-ATAAATATAAATTTAAATGAAAAAAAAAAC
* *
14841473 TTAAATGAAATGAAAATGGAAAT-A-AATAAAT
1 TGAAATGAAATGAAAATTGAAATGAGAATAAAT
14841504 TTACATGGCC
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
53 2 0.03
54 3 0.04
55 3 0.04
56 39 0.53
58 22 0.30
59 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.14, T:0.24
Consensus pattern (57 bp):
TGAAATGAAATGAAAATTGAAATGAGAATAAATATAAATTTAAATGAAAAAAAAAAC
Found at i:14841495 original size:23 final size:18
Alignment explanation
Indices: 14841395--14841482 Score: 88
Period size: 18 Copynumber: 4.8 Consensus size: 18
14841385 AATAAATTAT
*
14841395 AAATTTAAATGAAAACAA
1 AAATTTAAATGAAAAAAA
* * *
14841413 AAACTGAAATG-AGAAAA
1 AAATTTAAATGAAAAAAA
* *
14841430 AAATTGAAATGAGAGATAAAT
1 AAATTTAAATGA-A-A-AAAA
14841451 AAATTTAAATGAAAAAAA
1 AAATTTAAATGAAAAAAA
14841469 AAATTTAAATGAAA
1 AAATTTAAATGAAA
14841483 TGAAAATGGA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
17 14 0.25
18 26 0.46
19 2 0.04
20 1 0.02
21 14 0.25
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.22
Consensus pattern (18 bp):
AAATTTAAATGAAAAAAA
Found at i:14844818 original size:16 final size:15
Alignment explanation
Indices: 14844775--14844819 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
14844765 ATATCGGTTG
*
14844775 TTCTAAACATAGTTA
1 TTCTAAACATAATTA
*
14844790 TTTTGAAACATAATTA
1 TTCT-AAACATAATTA
14844806 TTCTAAACAATAAT
1 TTCTAAAC-ATAAT
14844820 GATTTCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (15 bp):
TTCTAAACATAATTA
Found at i:14845167 original size:2 final size:2
Alignment explanation
Indices: 14845160--14845194 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14845150 GTCTCATTTG
*
14845160 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14845195 ATAAGGAGAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:14851014 original size:2 final size:2
Alignment explanation
Indices: 14851003--14851046 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
14850993 TTAGCTGGAT
*
14851003 TA TA -A TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14851044 TA T
1 TA T
14851047 CAGTTGATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14853336 original size:19 final size:18
Alignment explanation
Indices: 14853287--14853403 Score: 59
Period size: 18 Copynumber: 6.5 Consensus size: 18
14853277 GAATTTTAAA
14853287 TATATATTTTTTAATATT
1 TATATATTTTTTAATATT
* * *
14853305 TGTAGCATTTTTTAATTTT
1 TATA-TATTTTTTAATATT
14853324 TATATATTATTTTTAA-ATT
1 TATATA-T-TTTTTAATATT
* * *
14853343 T-TAAATTTTATAATAAAT
1 TATATATTTTTTAAT-ATT
*
14853361 T-CAT-TTTTTTAATTTATT
1 TATATATTTTTTAA--TATT
14853379 TA-AT-TTTTTT-ATATT
1 TATATATTTTTTAATATT
14853394 ATATATATTT
1 -TATATATTT
14853404 ATATTTTTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
15 4 0.05
16 8 0.11
17 11 0.15
18 25 0.33
19 20 0.27
20 7 0.09
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TATATATTTTTTAATATT
Found at i:14853353 original size:20 final size:20
Alignment explanation
Indices: 14853313--14853353 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14853303 TTTGTAGCAT
* *
14853313 TTTTTAATTTTTATATATTA
1 TTTTTAAATTTTAAATATTA
*
14853333 TTTTTAAATTTTAAATTTTA
1 TTTTTAAATTTTAAATATTA
14853353 T
1 T
14853354 AATAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTAAATTTTAAATATTA
Found at i:14859982 original size:14 final size:13
Alignment explanation
Indices: 14859944--14859994 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 13
14859934 TAATAGTTTT
14859944 AAATATTTTAATTA
1 AAATATTTT-ATTA
*
14859958 ATAAAATTTTATTA
1 A-AATATTTTATTA
*
14859972 AAATA-TAT-TTA
1 AAATATTTTATTA
14859983 AAATATTTTATT
1 AAATATTTTATT
14859995 GAAAGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 8 0.27
12 4 0.13
13 5 0.17
14 6 0.20
15 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATATTTTATTA
Found at i:14873071 original size:5 final size:5
Alignment explanation
Indices: 14873058--14873087 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
14873048 ATGAACTGAT
*
14873058 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
14873088 CTTTTAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:14888747 original size:19 final size:19
Alignment explanation
Indices: 14888708--14888745 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14888698 GGTTAATTAG
*
14888708 AATTTAATTAAGTGAATTT
1 AATTTAATTAAGGGAATTT
14888727 AATTTAATTAAGGGTAATT
1 AATTTAATTAAGGG-AATT
14888746 AAGTAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (19 bp):
AATTTAATTAAGGGAATTT
Found at i:14888894 original size:3 final size:3
Alignment explanation
Indices: 14888888--14888928 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
14888878 ATGTTTAGTA
14888888 TAT TAT TA- TAT TAT TA- TAT TAT TA- TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14888929 ATAATAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 8 0.24
3 26 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:14888899 original size:8 final size:8
Alignment explanation
Indices: 14888886--14888930 Score: 90
Period size: 8 Copynumber: 5.6 Consensus size: 8
14888876 TTATGTTTAG
14888886 TATATTAT
1 TATATTAT
14888894 TATATTAT
1 TATATTAT
14888902 TATATTAT
1 TATATTAT
14888910 TATATTAT
1 TATATTAT
14888918 TATATTAT
1 TATATTAT
14888926 TATAT
1 TATAT
14888931 AATAAAGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:14889011 original size:5 final size:5
Alignment explanation
Indices: 14888953--14889003 Score: 95
Period size: 5 Copynumber: 10.4 Consensus size: 5
14888943 TTATGTTTTA
14888953 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
14889002 AT
1 AT
14889004 AAATTAAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 41 0.91
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:14890291 original size:15 final size:15
Alignment explanation
Indices: 14890271--14890327 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
14890261 CGATGAATTT
14890271 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
14890286 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
14890301 ATTGAATTTATATTG
1 ATTGAATTTATATTG
14890316 ATTGAA-TTATAT
1 ATTGAATTTATAT
14890328 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:14890755 original size:21 final size:21
Alignment explanation
Indices: 14890711--14890784 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
14890701 AGGCACTTTA
14890711 TGTGTCGTATTTCAGGCA-CTCG
1 TGTGTCGTA--TCAGGCACCTCG
14890733 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
14890754 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
14890775 TGTGTCGTAT
1 TGTGTCGTAT
14890785 ACTGATCAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 7 0.16
21 29 0.64
22 9 0.20
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:14895382 original size:5 final size:5
Alignment explanation
Indices: 14895372--14895421 Score: 86
Period size: 5 Copynumber: 10.4 Consensus size: 5
14895362 TTATGTTTTA
14895372 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT ATTAT ATTAT A-TAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
14895420 AT
1 AT
14895422 AAACTAAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.19
5 35 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:14896709 original size:15 final size:15
Alignment explanation
Indices: 14896689--14896745 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
14896679 CGATGAATTT
14896689 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
14896704 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
14896719 ATTGAATTTATATTG
1 ATTGAATTTATATTG
14896734 ATTGAA-TTATAT
1 ATTGAATTTATAT
14896746 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:14897156 original size:23 final size:23
Alignment explanation
Indices: 14897129--14897203 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
14897119 CAGGACTTTA
14897129 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
14897152 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
14897173 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
14897194 TGTGTCGTAT
1 TGTGTCGTAT
14897204 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:14898891 original size:18 final size:20
Alignment explanation
Indices: 14898865--14898901 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
14898855 TGCATGTGTT
14898865 ATATGTGAT-T-TTTAAATG
1 ATATGTGATATATTTAAATG
*
14898883 ATATTTGATATATTTAAAT
1 ATATGTGATATATTTAAAT
14898902 TTTAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (20 bp):
ATATGTGATATATTTAAATG
Found at i:14902513 original size:2 final size:2
Alignment explanation
Indices: 14902506--14902540 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14902496 TTATGACATA
14902506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14902541 AGTTAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14905268 original size:35 final size:35
Alignment explanation
Indices: 14905224--14905340 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 35
14905214 TCCTCATTGA
*
14905224 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
** * **
14905259 AATGTCATACCTACTTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
* *
14905294 AATACCATACCTACGTTTCACAACTCAATATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
**
14905329 GGTACCATACCT
1 AATACCATACCT
14905341 TCGTTTGACA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 3 0.04
35 64 0.96
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:14908300 original size:30 final size:29
Alignment explanation
Indices: 14908264--14908324 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
14908254 GATTAATTAC
* * *
14908264 TTTTATATGAATAATAAACTATTACAAAAT
1 TTTTATAT-AATAAAAAACAAATACAAAAT
14908294 TTTTATATAATAAAAAACAAATACAAAAT
1 TTTTATATAATAAAAAACAAATACAAAAT
14908323 TT
1 TT
14908325 ATGTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTTATATAATAAAAAACAAATACAAAAT
Found at i:14908621 original size:21 final size:21
Alignment explanation
Indices: 14908571--14908610 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14908561 GCTCTTATTT
*
14908571 TAATCTCATTGTTATAATAAC
1 TAATCTCATTGATATAATAAC
*
14908592 TAATTTCATTGATATAATA
1 TAATCTCATTGATATAATA
14908611 TTCAATCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (21 bp):
TAATCTCATTGATATAATAAC
Found at i:14908792 original size:63 final size:63
Alignment explanation
Indices: 14908689--14908818 Score: 208
Period size: 63 Copynumber: 2.1 Consensus size: 63
14908679 TTAAAATATC
** *
14908689 AATG-GCGATGATATCGAAAATCACATTGGCAGACTCAATGTCGAGATAGGGGTTTGGATTCA
1 AATGCGCGATGATATCGAAAATCACATTAACAGACTCAATGTCGAGATAGGGGTTTAGATTCA
* *
14908751 AATGCGCGATGATATCGAAAGTCACATTAACAGGCTCAATGTCGAGATAGGGGTTTAGATTCA
1 AATGCGCGATGATATCGAAAATCACATTAACAGACTCAATGTCGAGATAGGGGTTTAGATTCA
14908814 AATGC
1 AATGC
14908819 AGTGATAGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
62 4 0.06
63 58 0.94
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (63 bp):
AATGCGCGATGATATCGAAAATCACATTAACAGACTCAATGTCGAGATAGGGGTTTAGATTCA
Found at i:14915091 original size:19 final size:17
Alignment explanation
Indices: 14915040--14915096 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 17
14915030 AATGTTTAAG
14915040 GATTTATTTAATATATTA
1 GATTTATTTAA-ATATTA
*
14915058 GCCATTTTTTTAAATATTA
1 G--ATTTATTTAAATATTA
14915077 TGATTTATTTGAAATCATTA
1 -GATTTATTT-AAAT-ATTA
14915097 AAGGAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.25
19 10 0.31
20 14 0.44
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (17 bp):
GATTTATTTAAATATTA
Found at i:14917134 original size:19 final size:20
Alignment explanation
Indices: 14917091--14917134 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
14917081 TAATTTAGTC
14917091 CTTA-TTTCCATAAAATTTCA
1 CTTATTTTCCAT-AAATTTCA
14917111 C--ATTTTCCAT-AATTTCA
1 CTTATTTTCCATAAATTTCA
14917128 CTTATTT
1 CTTATTT
14917135 AATACTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
17 8 0.38
18 1 0.05
19 11 0.52
20 1 0.05
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (20 bp):
CTTATTTTCCATAAATTTCA
Found at i:14922708 original size:2 final size:2
Alignment explanation
Indices: 14922703--14922737 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14922693 GTGTGCAGAA
14922703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14922738 AATTGTCTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14940844 original size:2 final size:2
Alignment explanation
Indices: 14940837--14940865 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14940827 TTTGGATGAG
14940837 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14940866 TGCTTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14951084 original size:13 final size:14
Alignment explanation
Indices: 14951063--14951091 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14951053 TGAAAAATGG
14951063 ATTAGAAAATATTT
1 ATTAGAAAATATTT
14951077 ATTA-AAAATATTT
1 ATTAGAAAATATTT
14951090 AT
1 AT
14951092 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:14952634 original size:2 final size:2
Alignment explanation
Indices: 14952622--14952652 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14952612 TTTAATTGAA
14952622 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14952653 GATTTATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14953157 original size:13 final size:14
Alignment explanation
Indices: 14953134--14953169 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14953124 GCTATTGGAA
14953134 TGAAA-TGAGAAAT
1 TGAAATTGAGAAAT
14953147 T-AAATTGAG-AAT
1 TGAAATTGAGAAAT
14953159 TGAAATTGAGA
1 TGAAATTGAGA
14953170 TATGAGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (14 bp):
TGAAATTGAGAAAT
Done.