Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 33 of 93
Found at i:13044333 original size:2 final size:2
Alignment explanation
Indices: 13044326--13044363 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13044316 TGATACTTTA
13044326 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
13044364 TTTAAATGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13048285 original size:20 final size:21
Alignment explanation
Indices: 13048248--13048287 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13048238 TTTGAAAAAC
*
13048248 TTTTAAAAAAAGGTAATTTTTT
1 TTTTAAAAAAA-GAAATTTTTT
13048270 TTTTAAAAAAA-AAATTTT
1 TTTTAAAAAAAGAAATTTT
13048288 GAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAAAGAAATTTTTT
Found at i:13048292 original size:15 final size:15
Alignment explanation
Indices: 13048269--13048298 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13048259 GGTAATTTTT
*
13048269 TTTTTAAAAAAAAAA
1 TTTTGAAAAAAAAAA
13048284 TTTTGAAAAAAAAAA
1 TTTTGAAAAAAAAAA
13048299 GCTTCAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
TTTTGAAAAAAAAAA
Found at i:13048479 original size:15 final size:15
Alignment explanation
Indices: 13048459--13048488 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13048449 AAATTATAAC
13048459 CTTATAAAAAAAAAA
1 CTTATAAAAAAAAAA
13048474 CTTATAAAAAAAAAA
1 CTTATAAAAAAAAAA
13048489 TTTTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
CTTATAAAAAAAAAA
Found at i:13050554 original size:2 final size:2
Alignment explanation
Indices: 13050549--13050575 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13050539 TTTTTTTTAC
13050549 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 T
13050576 GAGGAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13058465 original size:17 final size:17
Alignment explanation
Indices: 13058443--13058477 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13058433 AGGAAGCAAG
13058443 AGAGAGAAAGAGGGAGA
1 AGAGAGAAAGAGGGAGA
**
13058460 AGAGAGAGGGAGGGAGA
1 AGAGAGAAAGAGGGAGA
13058477 A
1 A
13058478 AATAATATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (17 bp):
AGAGAGAAAGAGGGAGA
Found at i:13066183 original size:25 final size:27
Alignment explanation
Indices: 13066155--13066210 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
13066145 CCATTTTGTT
* *
13066155 TTTTATT-TTAAATA-ATAGTTTTTCA
1 TTTTATTAGTAAATATATAGTTTTTAA
*
13066180 TTTT-TTAGTAAATATATATTTTTTAA
1 TTTTATTAGTAAATATATAGTTTTTAA
13066206 TTTTA
1 TTTTA
13066211 CTTATCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 2 0.08
25 10 0.40
26 13 0.52
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (27 bp):
TTTTATTAGTAAATATATAGTTTTTAA
Found at i:13070102 original size:17 final size:18
Alignment explanation
Indices: 13070049--13070102 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 18
13070039 CGATCTTATC
13070049 AATATCCAATTCTTTATAA
1 AATA-CCAATTCTTTATAA
* *
13070068 AATA--TATT-TTTTTAA
1 AATACCAATTCTTTATAA
*
13070083 AAAACCAATTCTTTATAA
1 AATACCAATTCTTTATAA
13070101 AA
1 AA
13070103 CAATTAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 7
0.69 0.13 0.18
Matches are distributed among these distances:
15 9 0.33
16 3 0.11
17 3 0.11
18 8 0.30
19 4 0.15
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
AATACCAATTCTTTATAA
Found at i:13071912 original size:40 final size:40
Alignment explanation
Indices: 13071836--13071914 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
13071826 TTGGCTATTT
* * *
13071836 TTCACCTTAGTGGGGTTTTTAACCTTGCTAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
13071876 TTCACCTTAGTGGGGTTTTCAACCTCGCCACA-ATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCA-AGATTGGTG
13071915 TCTTTCATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
Found at i:13081387 original size:52 final size:52
Alignment explanation
Indices: 13081284--13081387 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
13081274 AGTTAGAGAA
* * * **
13081284 AAACCTGGTCAGCTTGTATACTAAGTCAGGTATACGTTGTAGCCAGTAGTAC
1 AAACATGGTCAGCATGAATACTAAGTCAGGTATACGTTGTAGCCAACAGTAC
13081336 AAACATGGTCAGCATGAATACTAAGTCAGGTATACGTTGTAGCCAACAGTAC
1 AAACATGGTCAGCATGAATACTAAGTCAGGTATACGTTGTAGCCAACAGTAC
13081388 TTAGTTAGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (52 bp):
AAACATGGTCAGCATGAATACTAAGTCAGGTATACGTTGTAGCCAACAGTAC
Found at i:13090474 original size:15 final size:16
Alignment explanation
Indices: 13090456--13090493 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
13090446 GTTTTCGAGT
13090456 TTGTTGTT-ATTGTTG
1 TTGTTGTTCATTGTTG
*
13090471 TTGTT-TTCATTTTTG
1 TTGTTGTTCATTGTTG
13090486 TTGTTGTT
1 TTGTTGTT
13090494 TGCGTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 16 0.80
16 2 0.10
ACGTcount: A:0.05, C:0.03, G:0.21, T:0.71
Consensus pattern (16 bp):
TTGTTGTTCATTGTTG
Found at i:13090474 original size:27 final size:24
Alignment explanation
Indices: 13090444--13090493 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
13090434 TTTTTGTATA
13090444 TTGTTTTCGAGTTTGTTGTTATTGTTG
1 TTGTTTTC-A-TTT-TTGTTATTGTTG
*
13090471 TTGTTTTCATTTTTGTTGTTGTT
1 TTGTTTTCATTTTTGTTATTGTT
13090494 TGCGTATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 3 0.14
26 1 0.05
27 8 0.36
ACGTcount: A:0.06, C:0.04, G:0.22, T:0.68
Consensus pattern (24 bp):
TTGTTTTCATTTTTGTTATTGTTG
Found at i:13107379 original size:2 final size:2
Alignment explanation
Indices: 13107368--13107410 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
13107358 TANTAAAGAA
13107368 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13107408 AT A
1 AT A
13107411 AACACTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:13109919 original size:59 final size:59
Alignment explanation
Indices: 13109847--13110015 Score: 218
Period size: 59 Copynumber: 2.9 Consensus size: 59
13109837 TAATAAAAAA
* * *
13109847 TCATAAATCCGTTTATTCCCTGAATAAAATGTGACATCATTTAATAATTATGGTTTTGG
1 TCATAAATTCGTTTATTCCCTGAATAAAATGTGACATCATTTAATAATTATAGTTATGG
13109906 TCATAAATTCGTTTATTCCCTGAATAAAATGTGACATCATTTAATAATTATAGTTATGG
1 TCATAAATTCGTTTATTCCCTGAATAAAATGTGACATCATTTAATAATTATAGTTATGG
* * ** *
13109965 TCATGAA-TC-TATCCATTCCCTGAAGT-AAATGCAATATCATTTAATAATTAT
1 TCATAAATTCGT-T-TATTCCCTGAA-TAAAATGTGACATCATTTAATAATTAT
13110016 TATCATGGAA
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
57 1 0.01
58 3 0.03
59 94 0.95
60 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (59 bp):
TCATAAATTCGTTTATTCCCTGAATAAAATGTGACATCATTTAATAATTATAGTTATGG
Found at i:13110114 original size:26 final size:26
Alignment explanation
Indices: 13110069--13110176 Score: 103
Period size: 26 Copynumber: 4.2 Consensus size: 26
13110059 TTAATTCTAA
*
13110069 AGATAATTTTACCACAAGAAGTAGAT
1 AGATAATTTTACCACAAGAAATAGAT
* ** *
13110095 GGATAATTTTGTCACCAGAAATAGAT
1 AGATAATTTTACCACAAGAAATAGAT
* *
13110121 AGATAATTTTACCACCAA-AAGTGGAT
1 AGATAATTTTACCA-CAAGAAATAGAT
* *
13110147 AGAT-ATTTTACTACAAGAAATGGAT
1 AGATAATTTTACCACAAGAAATAGAT
*
13110172 GGATA
1 AGATA
13110177 CCTTAATCCA
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
24 3 0.05
25 18 0.28
26 42 0.65
27 2 0.03
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.29
Consensus pattern (26 bp):
AGATAATTTTACCACAAGAAATAGAT
Found at i:13110277 original size:28 final size:29
Alignment explanation
Indices: 13110205--13110286 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 29
13110195 CCAGAAGTAG
** *
13110205 ATAACCCATTAAGAAGTGGATTAATACTT
1 ATAACCCACCAAGAAGTGGATGAATACTT
* *
13110234 GTAACCCACCAA-AAGTGGATGAATTCTT
1 ATAACCCACCAAGAAGTGGATGAATACTT
** *
13110262 ATAACTTA-CAAGAAGTGGATAAATA
1 ATAACCCACCAAGAAGTGGATGAATA
13110287 AAATAGATAG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
27 3 0.07
28 30 0.71
29 9 0.21
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (29 bp):
ATAACCCACCAAGAAGTGGATGAATACTT
Found at i:13114215 original size:78 final size:78
Alignment explanation
Indices: 13114076--13114278 Score: 318
Period size: 78 Copynumber: 2.6 Consensus size: 78
13114066 TTAAATATAC
* * * *
13114076 ATATTGGCACCATTATACCTTTATGTATAATAGGAATGCCACATACCCACTTATCACATGGA-CT
1 ATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCCCACCTATCACATGGATC-
13114140 TTGATAGTATTTAT
65 TTGATAGTATTTAT
* * *
13114154 TTATTAGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCTCACCTATCACATGGATCT
1 ATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCCCACCTATCACATGGATCT
*
13114219 TGATGGTATTTAT
66 TGATAGTATTTAT
13114232 ATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCC
1 ATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCC
13114279 ATAACTTGTG
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 112 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (78 bp):
ATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCCCACCTATCACATGGATCT
TGATAGTATTTAT
Found at i:13114892 original size:14 final size:16
Alignment explanation
Indices: 13114862--13114895 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
13114852 AAGACGAGCC
13114862 TTTTTTAAAGACTTTA
1 TTTTTTAAAGACTTTA
13114878 TTTTTT-AAGAC-TTA
1 TTTTTTAAAGACTTTA
13114892 TTTT
1 TTTT
13114896 ACCCCCACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 5 0.28
16 6 0.33
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTTTTAAAGACTTTA
Found at i:13119756 original size:15 final size:15
Alignment explanation
Indices: 13119738--13119785 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
13119728 AAGTAGAGGT
13119738 AGAAGAAGAAGAAAA
1 AGAAGAAGAAGAAAA
13119753 AGAAGAAGAAGGAAAA
1 AGAAGAAGAA-GAAAA
13119769 A-AAGAA-AAGAAAA
1 AGAAGAAGAAGAAAA
13119782 AGAA
1 AGAA
13119786 ATGTCTGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.19
14 4 0.13
15 15 0.48
16 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAAGAAAA
Found at i:13127702 original size:2 final size:2
Alignment explanation
Indices: 13127697--13127733 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
13127687 TCTCTCTCTC
13127697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13127734 ATTAAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13127823 original size:13 final size:14
Alignment explanation
Indices: 13127786--13127827 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
13127776 GATTTAGTTC
* *
13127786 TCTTTTCTTCTTAT
1 TCTTTTCTTGTTTT
13127800 TC-TTTCTTGTTTT
1 TCTTTTCTTGTTTT
13127813 TCTTTTC-TGTTTT
1 TCTTTTCTTGTTTT
13127826 TC
1 TC
13127828 CTTCGATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.02, C:0.19, G:0.05, T:0.74
Consensus pattern (14 bp):
TCTTTTCTTGTTTT
Found at i:13127996 original size:40 final size:40
Alignment explanation
Indices: 13127940--13128022 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
13127930 GCATGGCATC
* * *
13127940 GAGTAGTTTTATAACTCCTTGACCACCAGCTTTCAATGGT
1 GAGTAGTTTAACAACTCCTTCACCACCAGCTTTCAATGGT
13127980 GAGTAGTTTAACAACTCCTTCACCACCAGCTTTCAATGGT
1 GAGTAGTTTAACAACTCCTTCACCACCAGCTTTCAATGGT
13128020 GAG
1 GAG
13128023 AATTATGCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (40 bp):
GAGTAGTTTAACAACTCCTTCACCACCAGCTTTCAATGGT
Found at i:13129905 original size:23 final size:24
Alignment explanation
Indices: 13129878--13129922 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
13129868 ATTTTTATTA
13129878 ATTAATGTATAAATT-AATAATTT
1 ATTAATGTATAAATTAAATAATTT
*
13129901 ATTAATTTATAAATTAAATAAT
1 ATTAATGTATAAATTAAATAAT
13129923 ATTTCGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTAATGTATAAATTAAATAATTT
Found at i:13131000 original size:28 final size:28
Alignment explanation
Indices: 13130968--13131033 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
13130958 TTTCAAATGT
13130968 CCAAAGTATAAACCATC-TCATGGCAAAA
1 CCAAAGTATAAACCA-CGTCATGGCAAAA
* ** *
13130996 CCAAAGTACAAGTCACGTCATGGCAAAT
1 CCAAAGTATAAACCACGTCATGGCAAAA
13131024 CCAAAGTATA
1 CCAAAGTATA
13131034 GCATTTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.44, C:0.24, G:0.14, T:0.18
Consensus pattern (28 bp):
CCAAAGTATAAACCACGTCATGGCAAAA
Found at i:13131459 original size:42 final size:42
Alignment explanation
Indices: 13131372--13131460 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
13131362 TTCCTAAGCA
* * **
13131372 TAATCACATTTCCAAATGTTTCCAAAGTATGCTTCTCAAGTG
1 TAATCAAATTTCCAAATATTTCCAAAGTATGCTTCTCAAACG
* *
13131414 TAATCAAATTTCCAAATATTTTCAAAGTTTTGCTTCT-AAACG
1 TAATCAAATTTCCAAATATTTCCAAAG-TATGCTTCTCAAACG
13131456 TAATC
1 TAATC
13131461 CACTCTTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
42 32 0.80
43 8 0.20
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (42 bp):
TAATCAAATTTCCAAATATTTCCAAAGTATGCTTCTCAAACG
Found at i:13131707 original size:21 final size:21
Alignment explanation
Indices: 13131678--13131717 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13131668 AAAATAGTAC
* *
13131678 TCAAGGTATCGATAGTTTTGT
1 TCAAAGTATCGATACTTTTGT
*
13131699 TCAAAGTATTGATACTTTT
1 TCAAAGTATCGATACTTTT
13131718 TCCAAACAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (21 bp):
TCAAAGTATCGATACTTTTGT
Found at i:13132143 original size:12 final size:12
Alignment explanation
Indices: 13132126--13132171 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
13132116 TCCATCCACA
13132126 ATAAAAAAATAT
1 ATAAAAAAATAT
13132138 ATAAAAAAA-AT
1 ATAAAAAAATAT
*
13132149 CA-AAGAAAATAT
1 -ATAAAAAAATAT
*
13132161 AAAAAAAAATA
1 ATAAAAAAATA
13132172 CACAATGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (12 bp):
ATAAAAAAATAT
Found at i:13133267 original size:12 final size:13
Alignment explanation
Indices: 13133248--13133279 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
13133238 ATATAAAAAA
13133248 ATATAAAAATAAC
1 ATATAAAAATAAC
13133261 A-ATAAAAATAAC
1 ATATAAAAATAAC
13133273 ATATAAA
1 ATATAAA
13133280 TGAATGAAGT
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:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (13 bp):
ATATAAAAATAAC
Found at i:13133619 original size:7 final size:7
Alignment explanation
Indices: 13133609--13133659 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
13133599 TAGAAAATAT
13133609 AATAAAA
1 AATAAAA
13133616 AATAAAA
1 AATAAAA
*
13133623 TATAATAA
1 AATAA-AA
13133631 TAA-AAAA
1 -AATAAAA
13133638 TAATAATAA
1 -AATAA-AA
13133647 AATAAAA
1 AATAAAA
13133654 AATAAA
1 AATAAA
13133660 CTTCAAAAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 24 0.63
8 11 0.29
9 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AATAAAA
Found at i:13133634 original size:13 final size:13
Alignment explanation
Indices: 13133616--13133659 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
13133606 TATAATAAAA
13133616 AATAAAATATAAT
1 AATAAAATATAAT
*
13133629 AATAAAAAATAAT
1 AATAAAATATAAT
*
13133642 AATAAAATA-AAA
1 AATAAAATATAAT
13133654 AATAAA
1 AATAAA
13133660 CTTCAAAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAATATAAT
Found at i:13137501 original size:41 final size:41
Alignment explanation
Indices: 13137456--13137538 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
13137446 TTTGAGTAGA
13137456 TCTTCCACTTCTCACTTTACATGATTTTTAATAAAATGATT
1 TCTTCCACTTCTCACTTTACATGATTTTTAATAAAATGATT
*
13137497 TCTTCCACTTCTCATTTTACATGATTTTTAATAAAATGATT
1 TCTTCCACTTCTCACTTTACATGATTTTTAATAAAATGATT
13137538 T
1 T
13137539 TTATTGTACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (41 bp):
TCTTCCACTTCTCACTTTACATGATTTTTAATAAAATGATT
Found at i:13141960 original size:38 final size:36
Alignment explanation
Indices: 13141906--13143062 Score: 741
Period size: 38 Copynumber: 30.2 Consensus size: 36
13141896 TAGTTTCAAG
* * **
13141906 ATTTTTAAAGTTATGTTACCTCAGCTTTGAGGAGCCAC
1 ATTTTTAAAG-TCTGTTGCCTCAGCTTTGAGGAG-TTC
* **
13141944 ATTTTTAAAGTCATGTTGCCTTAGCTTTGAGGAGCCAC
1 ATTTTTAAAGTC-TGTTGCCTCAGCTTTGAGGAG-TTC
* * * *
13141982 ATTTTTAAAGTCACGTTGCCTCAACTTTAAGGAATTC
1 ATTTTTAAAGTC-TGTTGCCTCAGCTTTGAGGAGTTC
*
13142019 ATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTT
1 ATTTTT-AAAGTC-TGTTGCCTCAGCTTTGAGGAGTTC
* *
13142057 ATTTTAAAAGTCTCGTTGCCTCAGGTTTGAGGAGTTC
1 ATTTTTAAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* *
13142094 ATTTTTAAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTT
1 ATTTTT-AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* *
13142132 A-ATTTAGAAGTTTCGTTGCCTCAGCTTTGAGGAGTTC
1 ATTTTTA-AAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* *
13142169 ATTTTTAAAGGTCTCGTTGCCTCGGTTTTGAGGAGTTC
1 ATTTTTAAA-GTCT-GTTGCCTCAGCTTTGAGGAGTTC
* *
13142207 ATTTTTAAAAGTTTTGTTGCCTCAGCTTTAAGGAGTTC
1 ATTTTT-AAAG-TCTGTTGCCTCAGCTTTGAGGAGTTC
* * * *
13142245 A-TTTTAGAAGTTTCATTACCTCAGCTTTGAGGAGTTT
1 ATTTTTA-AAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
13142282 ATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTC
1 ATTTTT-AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
*
13142320 ATTTTTAAAAGTCTCATTGCCTCAGCTTTGAGGAGTTC
1 ATTTTT-AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* * **
13142358 A--TTTAGAAGTTTCATTGCCTCAATTTTGAGGAGTTC
1 ATTTTTA-AAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* **
13142394 ATTTTTAAAAGTCTCGTTGCCTCAACTTTGAGGAGCCAC
1 ATTTTT-AAAGTCT-GTTGCCTCAGCTTTGAGGAG-TTC
* *
13142433 ATTTTTAAAGTTATGTTGCCTCAGCTTTGGGGAGTTTC
1 ATTTTTAAAG-TCTGTTGCCTCAGCTTTGAGGAG-TTC
* * * ** *
13142471 ATTTTTAAAGTTTCATTACCTCAATTTTGAGGAGTTT
1 ATTTTTAAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
** * * * * *
13142508 ATTTAAAAAAAAAAAAGTTCCGTCGCCTCA--TTCGAGGAATTG
1 ATTT-------TTAAAG-TCTGTTGCCTCAGCTTTGAGGAGTTC
* * *
13142550 ATTTTTAAAGTTTCATTGCCTCTA-TTTTGAGGAGTTC
1 ATTTTTAAAGTCT-GTTGCCTC-AGCTTTGAGGAGTTC
* * **
13142587 ATTTTAAAAAGTCTCATTGCCTCAATTTTGAGG-GTTC
1 ATTTT-TAAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
*
13142624 ATTTTATAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTC
1 ATTTT-TAAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* *
13142662 ATTTTTAAAAGTTTCATTGCCTCAGCTTTGAGGAGTTC
1 ATTTTT-AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
*
13142700 ATTTTTAAAAAATCTCGTTGCCTCAGCTTTGAGGAGTTC
1 ATTTTT--AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* ** *
13142739 ATTTTTAAAAGTCTCGTTGTCTCAATTTTGAAGAGTTC
1 ATTTTT-AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
** * *
13142777 ATTTAAAAAAAAAAAAGGGTTTCGTTGCCTAAGCTTTGAGGAGTTC
1 ATTT-------TTAAA--GTCT-GTTGCCTCAGCTTTGAGGAGTTC
* * ** * *
13142823 ATTTTTAAAGTTTCATTGCCTCAATTTTAAGGAGTTT
1 ATTTTTAAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* *
13142860 ATTTTTTAAAAAAAAAGTCTCGTTGCCTCAGTTTTGAGAAGTTC
1 A-TTTTT------AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
*
13142904 ATTTTTAAAAGTCTCGTTGCCTCAGCTTTTAGGAGTTC
1 ATTTTT-AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* * *
13142942 ATTTTTAAAAGTCTCGTTGCCTCAGCTTTAAAGAG-CC
1 ATTTTT-AAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
* * *
13142979 ATATTTTTAAAGT-TGTTGCCTCAACTTTGGGGAGTTTT
1 --ATTTTTAAAGTCTGTTGCCTCAGCTTTGAGGAG-TTC
* * * ** *
13143017 ATTTTTAAAATTTCATTGCCTCAATTTTGAGGAGTTT
1 ATTTTTAAAGTCT-GTTGCCTCAGCTTTGAGGAGTTC
13143054 ATTTTTAAA
1 ATTTTTAAA
13143063 AAAAAAGAAA
Statistics
Matches: 924, Mismatches: 137, Indels: 117
0.78 0.12 0.10
Matches are distributed among these distances:
34 1 0.00
35 11 0.01
36 64 0.07
37 194 0.21
38 510 0.55
39 60 0.06
42 13 0.01
43 5 0.01
44 39 0.04
45 1 0.00
46 26 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (36 bp):
ATTTTTAAAGTCTGTTGCCTCAGCTTTGAGGAGTTC
Found at i:13142074 original size:75 final size:75
Alignment explanation
Indices: 13141924--13143063 Score: 857
Period size: 75 Copynumber: 14.9 Consensus size: 75
13141914 AGTTATGTTA
* ** * * ** *
13141924 CCTCAGCTTTGAGGAGCCACATTTTT-AAAGTCATGTTGCCTTAGCTTTGAGGAGCCACATTTTT
1 CCTCAACTTTGAGGAG-TTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAG-TTCATTTTA
*
13141988 AAAGTCACGTTG
64 AAAGTCTCGTTG
* * *
13142000 CCTCAACTTTAAGGAATTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTTATTTTAAA
1 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTCATTTTAAA
13142065 AGTCTCGTTG
66 AGTCTCGTTG
** * * * * *
13142075 CCTCAGGTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTTAATTTAGA
1 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTCATTTTAAA
*
13142140 AGTTTCGTTG
66 AGTCTCGTTG
* * * * *
13142150 CCTCAGCTTTGAGGAGTTCATTTTTAAAGGTCTCGTTGCCTCGGTTTTGAGGAGTTCATTTTTAA
1 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTCA-TTTTAA
* *
13142215 AAGTTTTGTTG
65 AAGTCTCGTTG
* * * * * *
13142226 CCTCAGCTTTAAGGAGTTCA-TTTTAGAAGT-TTCATTACCTCAGCTTTGAGGAGTTTATTTTTA
1 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTT-GTTGCCTCAGCTTTGAGGAGTTCA-TTTTA
13142289 AAAGTCTCGTTG
64 AAAGTCTCGTTG
* ** *
13142301 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCATTGCCTCAGCTTTGAGGAGTTCA-TTTAGA
1 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTCATTTTAAA
* *
13142365 AGTTTCATTG
66 AGTCTCGTTG
* * * ** *
13142375 CCTCAATTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAACTTTGAGGAGCCACATTTTTA
1 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAG-TTCATTTTAA
*
13142440 AAGT-TATGTTG
65 AAGTCT-CGTTG
* * * * ** *
13142451 CCTCAGCTTTGGGGAGTTTCATTTTT-AAAGT-TTCATTACCTCAATTTTGAGGAGTTTATTTAA
1 CCTCAACTTTGAGGAG-TTCATTTTTAAAAGTCTT-GTTGCCTCAGCTTTGAGGAGTTCATTT--
* *
13142514 AAAAAAAAAAGT-TCCGTCG
62 -----TAAAAGTCT-CGTTG
* * * * *
13142533 CCTC-A-TTCGAGGAATTGATTTTT-AAAGT-TTCATTGCCTCTA-TTTTGAGGAGTTCATTTTA
1 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTT-GTTGCCTC-AGCTTTGAGGAGTTCATTTT-
*
13142593 AAAAGTCTCATTG
63 AAAAGTCTCGTTG
*
13142606 CCTCAATTTTGAGG-GTTCA-TTTTATAAAGT-TTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
1 CCTCAACTTTGAGGAGTTCATTTTTA-AAAGTCTT-GTTGCCTCAGCTTTGAGGAGTTCA-TTTT
* *
13142668 AAAAGTTTCATTG
63 AAAAGTCTCGTTG
* * *
13142681 CCTCAGCTTTGAGGAGTTCATTTTTAAAAAATCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
1 CCTCAACTTTGAGGAGTTCATTTTT-AAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTCA-TTTTA
13142746 AAAGTCTCGTTG
64 AAAGTCTCGTTG
* * * ** *
13142758 TCTCAATTTTGAAGAGTTCATTTAAAAAAAAAAAAGGGT-TTCGTTGCCTAAGCTTTGAGGAGTT
1 CCTCAACTTTGAGGAGTTCATTT------TTAAAA--GTCTT-GTTGCCTCAGCTTTGAGGAGTT
* * *
13142822 CATTTTTAAAGTTTCATTG
57 CATTTTAAAAGTCTCGTTG
* * * * * *
13142841 CCTCAATTTTAAGGAGTTTATTTTTTAAAAAAAAAGTCTCGTTGCCTCAGTTTTGAGAAGTTCAT
1 CCTCAACTTTGAGGAGTTCA-TTTTT-----AAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTCA-
13142906 TTTTAAAAGTCTCGTTG
59 TTTTAAAAGTCTCGTTG
* * * * * * *
13142923 CCTCAGCTTTTAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTTTAAAGAG-CCATATTTTT
1 CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTC--ATTTTA
13142987 AAAGT-T-GTTG
64 AAAGTCTCGTTG
* * * ** *
13142997 CCTCAACTTTGGGGAGTTTTATTTTTAAAA-T-TTCATTGCCTCAATTTTGAGGAGTTTATTTTT
1 CCTCAACTTTGAGGAG-TTCATTTTTAAAAGTCTT-GTTGCCTCAGCTTTGAGGAGTTCA-TTTT
13143060 AAAA
63 AAAA
13143064 AAAAAGAAAG
Statistics
Matches: 869, Mismatches: 142, Indels: 108
0.78 0.13 0.10
Matches are distributed among these distances:
73 19 0.02
74 110 0.13
75 285 0.33
76 191 0.22
77 78 0.09
78 2 0.00
79 39 0.04
80 7 0.01
81 28 0.03
82 48 0.06
83 35 0.04
84 27 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (75 bp):
CCTCAACTTTGAGGAGTTCATTTTTAAAAGTCTTGTTGCCTCAGCTTTGAGGAGTTCATTTTAAA
AGTCTCGTTG
Found at i:13142105 original size:113 final size:114
Alignment explanation
Indices: 13141924--13143063 Score: 1032
Period size: 113 Copynumber: 9.9 Consensus size: 114
13141914 AGTTATGTTA
** * **
13141924 CCTCAGCTTTGAGGAGCCACATTTTT-AAAGTCAT-GTTGCCTTAGCTTTGAGGAGCCACATTTT
1 CCTCAGCTTTGAGGAG-TTCATTTTTAAAAGTC-TCGTTGCCTCAGCTTTGAGGAG-TTCATTTT
* * * * *
13141987 T-AAAGTCACGTTGCCTCAACTTTAAGGAATTCATTTTTAAAAGTCTT-GTTG
63 TAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGT-TTCATTG
* *
13142038 CCTCAGCTTTGAGGAGTTTA-TTTTAAAAGTCTCGTTGCCTCAGGTTTGAGGAGTTCATTTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
* * * * *
13142102 AAGTCTCGTTGCCTCAGTTTTGAGGAGTTTA-ATTTAGAAGTTTCGTTG
66 AAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTG
* * *
13142150 CCTCAGCTTTGAGGAGTTCATTTTTAAAGGTCTCGTTGCCTCGGTTTTGAGGAGTTCATTTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
* * * * *
13142215 AAGTTTTGTTGCCTCAGCTTTAAGGAGTTCA-TTTTAGAAGTTTCATTA
66 AAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTG
*
13142263 CCTCAGCTTTGAGGAGTTTATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
* *
13142328 AAGTCTCATTGCCTCAGCTTTGAGGAGTTCA--TTTAGAAGTTTCATTG
66 AAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTG
** * **
13142375 CCTCAATTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAACTTTGAGGAGCCACATTTTT-
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAG-TTCATTTTTA
* * *
13142439 AAAGT-TATGTTGCCTCAGCTTTGGGGAGTTTCATTTTT-AAAGTTTCATTA
65 AAAGTCT-CGTTGCCTCAGCTTTGAGGAG-TTCATTTTTAAAAGTTTCATTG
** * ** * * * *
13142489 CCTCAATTTTGAGGAGTTTATTTAAAAAAAAAAAAGT-TCCGTCGCCTCA--TTCGAGGAATTGA
1 CCTCAGCTTTGAGGAGTTCATTT------TTAAAAGTCT-CGTTGCCTCAGCTTTGAGGAGTTCA
* * * * *
13142551 TTTTT-AAAGTTTCATTGCCTCTA-TTTTGAGGAGTTCATTTTAAAAAGTCTCATTG
59 TTTTTAAAAGTCTCGTTGCCTC-AGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTG
** *
13142606 CCTCAATTTTGAGG-GTTCA-TTTTATAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
1 CCTCAGCTTTGAGGAGTTCATTTTTA-AAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTA
* * * * *
13142669 AAAGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAAATCTCGTTG
65 AAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT-AAAAGTTTCATTG
* ** *
13142720 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGTCTCAATTTTGAAGAGTTCATTTAAAA
1 CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTT----
** * *
13142785 AAAAAAAAGGGTTTCGTTGCCTAAGCTTTGAGGAGTTCATTTTT-AAAGTTTCATTG
62 --TTAAAA--GTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTG
** * * * *
13142841 CCTCAATTTTAAGGAGTTTATTTTTTAAAAAAAAAGTCTCGTTGCCTCAGTTTTGAGAAGTTCAT
1 CCTCAGCTTTGAGGAGTTCA-TTTTT-----AAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCAT
* * *
13142906 TTTTAAAAGTCTCGTTGCCTCAGCTTTTAGGAGTTCATTTTTAAAAGTCTCGTTG
60 TTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTG
* * * * * * *
13142961 CCTCAGCTTTAAAGAG-CCATATTTTTAAAGT-T-GTTGCCTCAACTTTGGGGAGTTTTATTTTT
1 CCTCAGCTTTGAGGAGTTCAT-TTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAG-TTCATTTTT
* * ** *
13143023 AAAA-TTTCATTGCCTCAATTTTGAGGAGTTTATTTTTAAAA
64 AAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAA
13143064 AAAAAGAAAG
Statistics
Matches: 860, Mismatches: 120, Indels: 94
0.80 0.11 0.09
Matches are distributed among these distances:
109 1 0.00
110 14 0.02
111 4 0.00
112 194 0.23
113 277 0.32
114 76 0.09
115 40 0.05
116 17 0.02
117 50 0.06
118 10 0.01
119 37 0.04
120 38 0.04
121 33 0.04
122 5 0.01
123 32 0.04
127 32 0.04
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (114 bp):
CCTCAGCTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAA
AAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTG
Found at i:13143082 original size:17 final size:18
Alignment explanation
Indices: 13143060--13143097 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
13143050 GTTTATTTTT
*
13143060 AAAAAAA-AAGAAAGA-A
1 AAAAAAAGAAAAAAGAGA
13143076 AAAAAAAGAAAAAAGAGA
1 AAAAAAAGAAAAAAGAGA
13143094 AAAA
1 AAAA
13143098 GGTTTCGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAGAGA
Found at i:13143083 original size:10 final size:11
Alignment explanation
Indices: 13143063--13143091 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
13143053 TATTTTTAAA
13143063 AAAAAAGAAAG
1 AAAAAAGAAAG
13143074 AAAAAA-AAAG
1 AAAAAAGAAAG
13143084 AAAAAAGA
1 AAAAAAGA
13143092 GAAAAAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:13143096 original size:14 final size:14
Alignment explanation
Indices: 13143060--13143086 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13143050 GTTTATTTTT
13143060 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
13143074 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
13143087 AAAGAGAAAA
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:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:13143172 original size:38 final size:38
Alignment explanation
Indices: 13143099--13143274 Score: 180
Period size: 38 Copynumber: 4.7 Consensus size: 38
13143089 AGAGAAAAAG
13143099 GTTTCGTTGCCTCCA-CTTTGAGGAG-TTCATTTTTAAA
1 GTTTCGTTGCCT-CAGCTTTGAGGAGTTTCATTTTTAAA
** * *
13143136 GTTAT-GTTGTTTTAGCTTTGGGGAGTTTCATTTTTAAA
1 GTT-TCGTTGCCTCAGCTTTGAGGAGTTTCATTTTTAAA
* *
13143174 GTTTCGTTGCCTCAGTTTTGAGGAGTTTCATTTTCAAA
1 GTTTCGTTGCCTCAGCTTTGAGGAGTTTCATTTTTAAA
** * ** *
13143212 GTTTTATAGCCTCAATTTTGAAGAG-TTCATTTTTAAA
1 GTTTCGTTGCCTCAGCTTTGAGGAGTTTCATTTTTAAA
* *
13143249 GTTTCGTTGCCTCAACCTTGAGGAGT
1 GTTTCGTTGCCTCAGCTTTGAGGAGT
13143275 CTAATTTAAA
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
36 1 0.01
37 48 0.43
38 63 0.56
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (38 bp):
GTTTCGTTGCCTCAGCTTTGAGGAGTTTCATTTTTAAA
Found at i:13143293 original size:1 final size:1
Alignment explanation
Indices: 13143282--13143350 Score: 75
Period size: 1 Copynumber: 69.0 Consensus size: 1
13143272 AGTCTAATTT
* * * * * * *
13143282 AAAACAAAAAAAAAAAAAAAACAAAAAAAAACAAAAAAACATAAAAAAAAAAACAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13143347 AAAA
1 AAAA
13143351 GAACTTTGGT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.90, C:0.09, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:13143516 original size:23 final size:24
Alignment explanation
Indices: 13143488--13143532 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13143478 AATAAACAAC
*
13143488 AAATAA-AAAAATGATAAAAAATG
1 AAATAATAAAAATAATAAAAAATG
13143511 AAATAATAAAAATAATAAAAAA
1 AAATAATAAAAATAATAAAAAA
13143533 GAAGAAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (24 bp):
AAATAATAAAAATAATAAAAAATG
Found at i:13145258 original size:21 final size:21
Alignment explanation
Indices: 13145234--13145299 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
13145224 AATTTTAAAT
* *
13145234 AAATAGAAAATATAATGAAAA
1 AAATAAAAAATATAATAAAAA
13145255 AAATAAAAAATATAATAAAAA
1 AAATAAAAAATATAATAAAAA
* *
13145276 AAACAATAAAATA-AAAAAAAA
1 AAATAA-AAAATATAATAAAAA
13145297 AAA
1 AAA
13145300 CTTCAAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 34 0.85
22 6 0.15
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (21 bp):
AAATAAAAAATATAATAAAAA
Found at i:13145274 original size:20 final size:20
Alignment explanation
Indices: 13145229--13145277 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
13145219 TTTTTAATTT
* *
13145229 TAAATAAATAGAAAATATAA
1 TAAAAAAATAAAAAATATAA
13145249 TGAAAAAAATAAAAAATATAA
1 T-AAAAAAATAAAAAATATAA
13145270 TAAAAAAA
1 TAAAAAAA
13145278 ACAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (20 bp):
TAAAAAAATAAAAAATATAA
Found at i:13145283 original size:17 final size:17
Alignment explanation
Indices: 13145253--13145298 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
13145243 ATATAATGAA
*
13145253 AAAAATAAAAAATATAAT
1 AAAAA-AAAAAATAAAAT
*
13145271 AAAAAAAACAATAAAAT
1 AAAAAAAAAAATAAAAT
13145288 AAAAAAAAAAA
1 AAAAAAAAAAA
13145299 ACTTCAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (17 bp):
AAAAAAAAAAATAAAAT
Found at i:13152247 original size:35 final size:34
Alignment explanation
Indices: 13152169--13152263 Score: 93
Period size: 35 Copynumber: 2.7 Consensus size: 34
13152159 GTTGGTCTTT
* * *
13152169 TTTCAACAAACATGACTCTTCTTTTATTTTCCTG
1 TTTCAACAGACATGACTTTTCTTTTATTTTCCTA
* *
13152203 TATCCAACAGACATGACTTTTATTTTATTTT-CTAA
1 T-TTCAACAGACATGACTTTTCTTTTATTTTCCT-A
* *
13152238 TTTCTAACAGTCATAACTTTTCTTTT
1 TTTC-AACAGACATGACTTTTCTTTT
13152264 TACTCCAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
34 5 0.10
35 44 0.90
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.48
Consensus pattern (34 bp):
TTTCAACAGACATGACTTTTCTTTTATTTTCCTA
Found at i:13159406 original size:25 final size:24
Alignment explanation
Indices: 13159378--13159424 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
13159368 TATTTATTAT
13159378 TTTTATCTGACTATATATTTTTTTA
1 TTTTATCTGACTATAT-TTTTTTTA
* *
13159403 TTTTATTTTACTATATTTTTTT
1 TTTTATCTGACTATATTTTTTT
13159425 GTATGTAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTATCTGACTATATTTTTTTTA
Found at i:13160198 original size:3 final size:3
Alignment explanation
Indices: 13160190--13160224 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
13160180 AAATATACAT
* *
13160190 TTA TTA TTA TTA TTA CTA TTA TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13160225 TAGTACTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13162124 original size:18 final size:17
Alignment explanation
Indices: 13162101--13162142 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
13162091 TTATATTTAA
13162101 ATAAAATAACATAATAAT
1 ATAAAATAACATAAT-AT
*
13162119 ATAAAATAATATAATAT
1 ATAAAATAACATAATAT
13162136 A-AAAATA
1 ATAAAATA
13162143 TATATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.26
17 3 0.13
18 14 0.61
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATAACATAATAT
Found at i:13162125 original size:23 final size:23
Alignment explanation
Indices: 13162099--13162144 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13162089 GATTATATTT
*
13162099 AAATAAAATAACATAATAATATA
1 AAATAAAATAACATAAAAATATA
* *
13162122 AAATAATATAATATAAAAATATA
1 AAATAAAATAACATAAAAATATA
13162145 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATAAAATAACATAAAAATATA
Found at i:13162145 original size:15 final size:16
Alignment explanation
Indices: 13162103--13162155 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 16
13162093 ATATTTAAAT
*
13162103 AAAATAACATAATAATA
1 AAAATAATATAAT-ATA
13162120 TAAAATAATATAATATA
1 -AAAATAATATAATATA
*
13162137 AAAAT-ATAT-ATTTA
1 AAAATAATATAATATA
13162151 AAAAT
1 AAAAT
13162156 TATTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 9 0.27
15 4 0.12
16 5 0.15
17 3 0.09
18 12 0.36
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATAATATAATATA
Found at i:13162186 original size:51 final size:52
Alignment explanation
Indices: 13162131--13162239 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 52
13162121 AAAATAATAT
13162131 AATATA-AAAATATATATTTAAAAATTATTATTATTACACGTTATA-TTAAAA
1 AATATATAAAATAT-TATTTAAAAATTATTATTATTACACGTTATATTTAAAA
* * * * *
13162182 AATATATTACATGTTATTTAAAAGTTATTATTATTATACGTTATATTTTAAAA
1 AATATATAAAATATTATTTAAAAATTATTATTATTACACGTTATA-TTTAAAA
13162235 AATAT
1 AATAT
13162240 TATATGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
51 35 0.70
52 4 0.08
53 11 0.22
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (52 bp):
AATATATAAAATATTATTTAAAAATTATTATTATTACACGTTATATTTAAAA
Found at i:13162213 original size:24 final size:25
Alignment explanation
Indices: 13162157--13162242 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 25
13162147 TTTAAAAATT
13162157 ATTATTATTACACGTTATATTAAAA
1 ATTATTATTACACGTTATATTAAAA
* *
13162182 AATA-TATTACATGTTAT-TTAAAA
1 ATTATTATTACACGTTATATTAAAA
*
13162205 GTTATTATTATTATACGTTATATTTTAAAA
1 ---ATTATTATTACACGTTATA--TTAAAA
*
13162235 AATATTAT
1 ATTATTAT
13162243 ATGTGATGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
23 6 0.12
24 12 0.25
25 3 0.06
26 3 0.06
27 18 0.38
30 6 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (25 bp):
ATTATTATTACACGTTATATTAAAA
Found at i:13162292 original size:24 final size:23
Alignment explanation
Indices: 13162256--13162311 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
13162246 TGATGTTTAT
*
13162256 TATGTCATGTTAAAAAAAATATTA
1 TATGTCATATT-AAAAAAATATTA
*
13162280 TATGTGATATTAAAAAAATATTA
1 TATGTCATATTAAAAAAATATTA
*
13162303 T-TATCATAT
1 TATGTCATAT
13162312 ATTTTGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.21
23 13 0.46
24 9 0.32
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (23 bp):
TATGTCATATTAAAAAAATATTA
Found at i:13162304 original size:26 final size:25
Alignment explanation
Indices: 13162256--13162415 Score: 96
Period size: 26 Copynumber: 6.2 Consensus size: 25
13162246 TGATGTTTAT
*
13162256 TATGTCATGTTAAAAAAA-A-TATTA
1 TATGT-ATATTAAAAAAATATTATTA
13162280 TATGTGATATTAAAAAAATATTATTA
1 TATGT-ATATTAAAAAAATATTATTA
* * * *
13162306 TCATATATTTTGTTAAAAATAATTTTATTG
1 T-ATGTA---TATTAAAAA-AATATTATTA
* *
13162336 TACGTTATATTTAAAAAATATTATTA
1 TATG-TATATTAAAAAAATATTATTA
* *
13162362 TATATAATATTTTAAAAAA-ATTA-TA
1 TATGT-ATA-TTAAAAAAATATTATTA
*
13162387 TAT-TATTTTAAAAAAATATTATTA
1 TATGTATATTAAAAAAATATTATTA
*
13162411 CATGT
1 TATGT
13162416 CATGTTTATA
Statistics
Matches: 106, Mismatches: 17, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
22 8 0.08
23 6 0.06
24 21 0.20
25 8 0.08
26 24 0.23
27 19 0.18
29 9 0.08
30 11 0.10
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (25 bp):
TATGTATATTAAAAAAATATTATTA
Found at i:13162386 original size:21 final size:21
Alignment explanation
Indices: 13162362--13162403 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13162352 AATATTATTA
13162362 TATATAATATTTTAAAAAAAT
1 TATATAATATTTTAAAAAAAT
*
13162383 TATATATTATTTTAAAAAAAT
1 TATATAATATTTTAAAAAAAT
13162404 ATTATTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATAATATTTTAAAAAAAT
Found at i:13162800 original size:39 final size:39
Alignment explanation
Indices: 13162756--13162832 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
13162746 ATGGCAATAG
13162756 TGGTAAAATAAAAAAGAGATGGTGAGAGTGATGGATGAT
1 TGGTAAAATAAAAAAGAGATGGTGAGAGTGATGGATGAT
13162795 TGGTAAAATAAAAAAGAGATGGTGAGAGTGATGGATGA
1 TGGTAAAATAAAAAAGAGATGGTGAGAGTGATGGATGA
13162833 CGAGGGAGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (39 bp):
TGGTAAAATAAAAAAGAGATGGTGAGAGTGATGGATGAT
Found at i:13171108 original size:2 final size:2
Alignment explanation
Indices: 13171101--13171136 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13171091 TCTATGCAAC
13171101 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
13171137 GTATGTATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13175501 original size:2 final size:2
Alignment explanation
Indices: 13175494--13175528 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
13175484 TNCCAAGTTT
*
13175494 AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG -G AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13175529 TACTGGCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13175562 original size:103 final size:102
Alignment explanation
Indices: 13175382--13175587 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 102
13175372 CGTCCTCTTT
13175382 TCCAAGTTTAGAGAGAGAGAGAGAGAGAGAGAGGAGGAGGAGAGTACTGGCAACTGGGGAGGGTC
1 TCCAAGTTTAGAGAGAGAGAGAGAGAGAGAGAGGAGGAGGAGAGTACTGGCAACTGGGGAGGGTC
13175447 TGGGCCTAGTCTCCCCTCCTACTCTGCTCTGCAAAAA
66 TGGGCCTAGTCTCCCCTCCTACTCTGCTCTGCAAAAA
13175484 TNCCAAGTTTAGAGAGAGAGAGAGAGAGAGAGA-GAGGGAGGAGAGTACTGGCAACTGGGGAGGG
1 T-CCAAGTTTAGAGAGAGAGAGAGAGAGAGAGAGGA-GGAGGAGAGTACTGGCAACTGGGGAGGG
13175548 TCTGGGCCTAGTCTCCCCTCCTACTCTGCTCTGCAAAAA
64 TCTGGGCCTAGTCTCCCCTCCTACTCTGCTCTGCAAAAA
13175587 T
1 T
13175588 ACTACGTACA
Statistics
Matches: 102, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
102 3 0.03
103 99 0.97
ACGTcount: A:0.28, C:0.19, G:0.34, T:0.18
Consensus pattern (102 bp):
TCCAAGTTTAGAGAGAGAGAGAGAGAGAGAGAGGAGGAGGAGAGTACTGGCAACTGGGGAGGGTC
TGGGCCTAGTCTCCCCTCCTACTCTGCTCTGCAAAAA
Found at i:13175856 original size:25 final size:28
Alignment explanation
Indices: 13175828--13175886 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 28
13175818 TTTTATTATT
*
13175828 TTAATTTTTTATA-AT-TTCTTTTC-AA
1 TTAATATTTTATAGATATTCTTTTCAAA
*
13175853 TTAATATTTTATAGATATTTTTTTCAAA
1 TTAATATTTTATAGATATTCTTTTCAAA
13175881 TTAATA
1 TTAATA
13175887 ACATATAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 12 0.41
26 2 0.07
27 7 0.24
28 8 0.28
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (28 bp):
TTAATATTTTATAGATATTCTTTTCAAA
Found at i:13182632 original size:2 final size:2
Alignment explanation
Indices: 13182620--13182669 Score: 82
Period size: 2 Copynumber: 24.5 Consensus size: 2
13182610 CACAGTCACC
*
13182620 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
13182663 TA TA TA T
1 TA TA TA T
13182670 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13182932 original size:2 final size:2
Alignment explanation
Indices: 13182925--13182976 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
13182915 NNNNNNNNNN
*
13182925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
13182967 AT AT CT AT AT
1 AT AT AT AT AT
13182977 GTGCTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13211146 original size:39 final size:39
Alignment explanation
Indices: 13211064--13211146 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
13211054 TTGTGAAAGG
* * *
13211064 CTTTTATTGAAATGGTGTGCATCATTTGTCTGCTTATGG
1 CTTTTATTGAAACGGTGTGCATCATCTGTCTGCTTATGC
* * *
13211103 CTTTTATTGAAACGGTGTGTA-CTATCTGTCTGTTTGTGC
1 CTTTTATTGAAACGGTGTGCATC-ATCTGTCTGCTTATGC
13211142 CTTTT
1 CTTTT
13211147 TTTTTTCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
38 1 0.03
39 36 0.97
ACGTcount: A:0.16, C:0.14, G:0.22, T:0.48
Consensus pattern (39 bp):
CTTTTATTGAAACGGTGTGCATCATCTGTCTGCTTATGC
Found at i:13233631 original size:51 final size:51
Alignment explanation
Indices: 13233555--13233657 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
13233545 TTGCTACTAC
*
13233555 CTCAAGCTTTTTTTGGTGCCATGAGACCATGCTCAATAAATTTGCCATAAG
1 CTCAAGCTGTTTTTGGTGCCATGAGACCATGCTCAATAAATTTGCCATAAG
* *
13233606 CTCAAGCTGTTTTTGGTGCCATGAGACTATGCTTAATAAATTTGCCATAAG
1 CTCAAGCTGTTTTTGGTGCCATGAGACCATGCTCAATAAATTTGCCATAAG
13233657 C
1 C
13233658 CAACCTAACT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (51 bp):
CTCAAGCTGTTTTTGGTGCCATGAGACCATGCTCAATAAATTTGCCATAAG
Found at i:13234690 original size:21 final size:21
Alignment explanation
Indices: 13234645--13234690 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13234635 TTCATGTAAT
*
13234645 TCATGACAAAGACAAATGCCT
1 TCATGACAAAGACAAATGCCA
**
13234666 TCATGACAAAGACTGATGCCA
1 TCATGACAAAGACAAATGCCA
13234687 TCAT
1 TCAT
13234691 TCAAAGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (21 bp):
TCATGACAAAGACAAATGCCA
Found at i:13241022 original size:38 final size:40
Alignment explanation
Indices: 13240933--13241038 Score: 144
Period size: 38 Copynumber: 2.7 Consensus size: 40
13240923 CACACCCGGC
*
13240933 TCATGTACATCCCCCCACATCGTGCACATAGCCGGCGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
* ** *
13240973 TCATGTGCATCCCCCCACATCGTGCACA-A-TTAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
*
13241011 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
13241039 CGGGCACTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 31 0.53
39 1 0.02
40 27 0.46
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.21
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
Found at i:13241215 original size:64 final size:63
Alignment explanation
Indices: 13241113--13241239 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 63
13241103 GTGCACACAC
13241113 ACAGTTATAGTCATCATACACAAAATCAACTATCATGCACAACATATATATATATATATATAT
1 ACAGTTATAGTCATCATACACAAAATCAACTATCATGCACAACATATATATATATATATATAT
*
13241176 ANCAGTTATAGTCATCATACACAATATCAACTATCATGCACAACATATATATATATATATATAT
1 A-CAGTTATAGTCATCATACACAAAATCAACTATCATGCACAACATATATATATATATATATAT
13241240 CATCATACTG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 1 0.02
64 61 0.98
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.32
Consensus pattern (63 bp):
ACAGTTATAGTCATCATACACAAAATCAACTATCATGCACAACATATATATATATATATATAT
Found at i:13256518 original size:964 final size:965
Alignment explanation
Indices: 13254923--13256820 Score: 3379
Period size: 964 Copynumber: 2.0 Consensus size: 965
13254913 CAAATTTTTG
**
13254923 ATAAAAATACCTCTCTCAATTAATTTACTATATGTTTATGTGAATTAAATTTAAAAAAGATTCAT
1 ATAAAAATACCTCTCTCAATTAATTTACTATATGTTTATGCAAATTAAATTTAAAAAAGATTCAT
*
13254988 TAAGTTCGTGCTCTAATTTAAGCTACGTATGGCTTATAAGTATATGTCTATCTTATATGCAAATC
66 TAAGTTCGTGCTCTAATTTAAGCTACGTATGGCTTATAAGTATATGTCTATCTTATAAGCAAATC
13255053 AAACTACCTAATCAACAAAGTGCATTCGATCATATGCTATTCTATTCAAGGTCTACCTAAATCTC
131 AAACTACCTAATCAACAAAGTGCATTCGATCATATGCTATTCTATTCAAGGTCTACCTAAATCTC
* * *
13255118 CTTTGTCAAGCTTTAACGTAGGTTTCCAATTCAATCTAATTGGTGATCAGGCAATTAGAAGCATT
196 CTTTGTCAAACTTTAACCTAGGTTTCCAATTCAATCTAATTGGTGATCAAGCAATTAGAAGCATT
*
13255183 AAGAACCAAATAAAATAAACAATTTAAATCTATCAAACATAAGAAAAAGAGAGATAAAAAAATCA
261 AAGAACCAAATAAAATAAACAATTTAAATCCATCAAACATAAGAAAAAGAGAGATAAAAAAATCA
*
13255248 GACTACATATTGAGTTCAATCATAATCTTAGATTAATGAATTAGTTTGCCATCAAGTCACACATC
326 GACTACATATTAAGTTCAATCATAATCTTAGATTAATGAATTAGTTTGCCATCAAGTCACACATC
*
13255313 ATCATCAAATTAAAGTTAATCATCAAAAACAAAACCAAGAAAATAAGAGAATAAGAAAAGATAGA
391 ATCATCAAATTAAAGTTAATCATCAAAAACAAAACCAAGAAAATAAGAGAATAAAAAAAGATAGA
13255378 AAAACTCAAGAATTGTATTCTCGATCTCCAAATCTCCTTGAATCTTTCAAATTCTTCTCAACTTC
456 AAAACTCAAGAATTGTATTCTCGATCTCCAAATCTCCTTGAATCTTTCAAATTCTTCTCAACTTC
* * * *
13255443 AATGACTTTGTGGCTTGACTATCAGCTGCCAATCTGGTGTTTCGTTTTCTCCTTTAAAAGTCATC
521 AATGACTATATGACTTGACTATCAGCTGCCAATCTGATGTTTCGTTTTCTCCTTTAAAAGTCATC
13255508 CGAAAGGTTGTTTTTATAGGATTTTGAAGTTAAGCCAAGTTAGGTGAAAAAAGAAGTCAATTTCA
586 CGAAAGGTTGTTTTTATAGGATTTTGAAGTTAAGCCAAGTTAGGTGAAAAAAGAAGTCAATTTCA
*
13255573 GCTGAGATTTCC-TAGTCAGACTATGTGGGCCGTAACATTGCCCAATTAATTAACAGAAATCGTA
651 GCTGAGATTTCCTTA-TCAGACTATGTGGGCCGCAACATTGCCCAATTAATTAACAGAAATCGTA
* * *
13255637 ATTGTTCTATATTGAGTTTTAAGTTGATTGGAATTCTATATCTTATTTGATTAGGATTCTTGTTT
715 ATTGCTCTATATTGAGTTTGAAGTTGACTGGAATTCTATATCTTATTTGATTAGGATTCTTGTTT
13255702 GTGTACAACATTGAGTAGTTGTATGGTTTTAAACTTCTTATTCCACATCGAGTCCTAATCACTTT
780 GTGTACAACATTGAGTAGTTGTATGGTTTTAAACTTCTTATTCCACATCGAGTCCTAATCACTTT
*
13255767 CTACTTTGGACTTTTATACTACAAAAGTGGATCTTTAGGCTTTAGAATTGC-TAGTGCTTTGAGA
845 CTACTTTGGACTTTTATACTACAAAAGTGGATCTTTAGGCTTTAGAATTACATAGTGCTTTGAGA
13255831 GGTCTAGAGAGGGAACAACTTGTCAAGCTTCATATTAAGTTCGTGTCGAGTTTCTC
910 GGTCTAGAGAGGGAACAACTTGTCAAGCTTCATATTAAGTTCGTGTCGAGTTTCTC
13255887 ATAAAAATACCTCTCTCAATTAATTTACTATATGTTTATGCAAATTAAATTTAAAAAAGATTCAT
1 ATAAAAATACCTCTCTCAATTAATTTACTATATGTTTATGCAAATTAAATTTAAAAAAGATTCAT
* *
13255952 TAAGTTTGTGCTCTAATTTAGGCTACGTATGGCTTATAAGTATATGTCTATCTTATAAGCAAATC
66 TAAGTTCGTGCTCTAATTTAAGCTACGTATGGCTTATAAGTATATGTCTATCTTATAAGCAAATC
*
13256017 AAACTACCTAATCAACAAAGTGTATTCGATCATATGCTATTCTATTCAAGGTCTACCTAAATCTC
131 AAACTACCTAATCAACAAAGTGCATTCGATCATATGCTATTCTATTCAAGGTCTACCTAAATCTC
*
13256082 CTTTGTCAAACTTTAACCTATGTTTCCAATTCAATCTAATTGGTGATCAAGCAATTAGAAGCATT
196 CTTTGTCAAACTTTAACCTAGGTTTCCAATTCAATCTAATTGGTGATCAAGCAATTAGAAGCATT
*
13256147 AAGAACCAAATAAAATAAACAATTTAAATCCATCAAACATAAGAAAAAGAGAGATAAATAAATCA
261 AAGAACCAAATAAAATAAACAATTTAAATCCATCAAACATAAGAAAAAGAGAGATAAAAAAATCA
*
13256212 GATTACATATTAAGTTCAATCATAATCTTAGATTAATGAATTAGTTTGCCATCAAGTCACACATC
326 GACTACATATTAAGTTCAATCATAATCTTAGATTAATGAATTAGTTTGCCATCAAGTCACACATC
13256277 ATCATCAAATTAAAGTTAATCATCAAAAACAAAACCAAGAAAATAAGAGAATAAAAAAAGATAGA
391 ATCATCAAATTAAAGTTAATCATCAAAAACAAAACCAAGAAAATAAGAGAATAAAAAAAGATAGA
* * *
13256342 AAAACTCAAGGATTGTATTCTTGATCTCCAAATCTCCTTGAATCTTTCAAATTCTTCTCAGCTTC
456 AAAACTCAAGAATTGTATTCTCGATCTCCAAATCTCCTTGAATCTTTCAAATTCTTCTCAACTTC
13256407 AATGACTATATGACTTGACTATCAGCTGCCAATCTGATGTTTCGTTTTCTCCTTTAAAAGTCATC
521 AATGACTATATGACTTGACTATCAGCTGCCAATCTGATGTTTCGTTTTCTCCTTTAAAAGTCATC
*
13256472 CGAAAGGTTGTTTTTATAAGG-TTTTGAAGTTAAGCCAAGTTAGGTGAAGAAAGAAGTCAATTTC
586 CGAAAGGTTGTTTTTAT-AGGATTTTGAAGTTAAGCCAAGTTAGGTGAAAAAAGAAGTCAATTTC
* *
13256536 AGCTGAGATTTCCTTATCAGACTATGTGGGCCGCAACCTTGCCCAATTAATTAACAGAATTCGTA
650 AGCTGAGATTTCCTTATCAGACTATGTGGGCCGCAACATTGCCCAATTAATTAACAGAAATCGTA
* * * *
13256601 ATTGCTCTATGTTGAGTTTGAGGTTGACTGGAATTCTATATTTTATTTTATTAGGATTCTTGTTT
715 ATTGCTCTATATTGAGTTTGAAGTTGACTGGAATTCTATATCTTATTTGATTAGGATTCTTGTTT
*
13256666 GTGTACAACATTGAGTAGTTGTATGGTTTTAAACTTCTTATTCCACATCGAGTCGTAATCACTTT
780 GTGTACAACATTGAGTAGTTGTATGGTTTTAAACTTCTTATTCCACATCGAGTCCTAATCACTTT
* * *
13256731 CTACTTTGGACTTTTATATTATAAAAGTGTATCTTTAGGCTTTAGAATTACAAGTAGTGCTTTGA
845 CTACTTTGGACTTTTATACTACAAAAGTGGATCTTTAGGCTTTAGAATTAC-A-TAGTGCTTTGA
* *
13256796 GAGTTCTAGAGAGGGAACATCTTGT
908 GAGGTCTAGAGAGGGAACAACTTGT
13256821 AACTCTGTCT
Statistics
Matches: 889, Mismatches: 40, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
964 850 0.96
965 5 0.01
967 34 0.04
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (965 bp):
ATAAAAATACCTCTCTCAATTAATTTACTATATGTTTATGCAAATTAAATTTAAAAAAGATTCAT
TAAGTTCGTGCTCTAATTTAAGCTACGTATGGCTTATAAGTATATGTCTATCTTATAAGCAAATC
AAACTACCTAATCAACAAAGTGCATTCGATCATATGCTATTCTATTCAAGGTCTACCTAAATCTC
CTTTGTCAAACTTTAACCTAGGTTTCCAATTCAATCTAATTGGTGATCAAGCAATTAGAAGCATT
AAGAACCAAATAAAATAAACAATTTAAATCCATCAAACATAAGAAAAAGAGAGATAAAAAAATCA
GACTACATATTAAGTTCAATCATAATCTTAGATTAATGAATTAGTTTGCCATCAAGTCACACATC
ATCATCAAATTAAAGTTAATCATCAAAAACAAAACCAAGAAAATAAGAGAATAAAAAAAGATAGA
AAAACTCAAGAATTGTATTCTCGATCTCCAAATCTCCTTGAATCTTTCAAATTCTTCTCAACTTC
AATGACTATATGACTTGACTATCAGCTGCCAATCTGATGTTTCGTTTTCTCCTTTAAAAGTCATC
CGAAAGGTTGTTTTTATAGGATTTTGAAGTTAAGCCAAGTTAGGTGAAAAAAGAAGTCAATTTCA
GCTGAGATTTCCTTATCAGACTATGTGGGCCGCAACATTGCCCAATTAATTAACAGAAATCGTAA
TTGCTCTATATTGAGTTTGAAGTTGACTGGAATTCTATATCTTATTTGATTAGGATTCTTGTTTG
TGTACAACATTGAGTAGTTGTATGGTTTTAAACTTCTTATTCCACATCGAGTCCTAATCACTTTC
TACTTTGGACTTTTATACTACAAAAGTGGATCTTTAGGCTTTAGAATTACATAGTGCTTTGAGAG
GTCTAGAGAGGGAACAACTTGTCAAGCTTCATATTAAGTTCGTGTCGAGTTTCTC
Found at i:13260301 original size:17 final size:18
Alignment explanation
Indices: 13260279--13260316 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
13260269 TTTTGACATC
13260279 TAATAATATCCAAAAT-T
1 TAATAATATCCAAAATAT
*
13260296 TAATAATATTCAAAATAT
1 TAATAATATCCAAAATAT
13260314 TAA
1 TAA
13260317 ATTCAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATATCCAAAATAT
Found at i:13260645 original size:2 final size:2
Alignment explanation
Indices: 13260638--13260736 Score: 87
Period size: 2 Copynumber: 50.5 Consensus size: 2
13260628 ACATACATGG
* * *
13260638 AT AT AT AT AT A- AT AT AT AT AT AT AT -T AT AT AT AT AA AG AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * ** * *
13260678 AG GT -T AT GG AA AT NT AGT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
13260720 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
13260737 AAAGAGTTTG
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
1 3 0.04
2 77 0.94
3 2 0.02
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Found at i:13261717 original size:86 final size:86
Alignment explanation
Indices: 13261593--13261757 Score: 244
Period size: 86 Copynumber: 1.9 Consensus size: 86
13261583 AAACATGGCA
* * * *
13261593 TGTAACTTGATCTCTATCTTTGTATTTTATTAGAACATAAACTCTTGGAGTTAAACACCT-TAAA
1 TGTAACTTGATCTCTATCTTTGCATTTAATAAGAACATAAACTCTTGGAATTAAACA-CTATAAA
* *
13261657 TATGGCATGTAACAATATGGGG
65 TATGGAATCTAACAATATGGGG
13261679 TGTAACTTGATCTCTATCTTTGCATTTCAATAAG-ACATAAACTCTTGGAATTAAACACTATAAA
1 TGTAACTTGATCTCTATCTTTGCATTT-AATAAGAACATAAACTCTTGGAATTAAACACTATAAA
13261743 TATGGAATCTAACAA
65 TATGGAATCTAACAA
13261758 CTTTTTTTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 2 0.03
86 65 0.92
87 4 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (86 bp):
TGTAACTTGATCTCTATCTTTGCATTTAATAAGAACATAAACTCTTGGAATTAAACACTATAAAT
ATGGAATCTAACAATATGGGG
Found at i:13262407 original size:32 final size:30
Alignment explanation
Indices: 13262329--13262409 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
13262319 TTTGATGACA
13262329 TGACACCTACATGATGACGGGGCATGCCACG
1 TGACA-CTACATGATGACGGGGCATGCCACG
* * * * *
13262360 TGACTTCGACGTGATGATGTGGCAGTGCCACG
1 TGAC-ACTACATGATGACGGGGCA-TGCCACG
13262392 TGACACTACTATGATGAC
1 TGACACTAC-ATGATGAC
13262410 ATGTCAATGT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
31 21 0.55
32 17 0.45
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (30 bp):
TGACACTACATGATGACGGGGCATGCCACG
Found at i:13264030 original size:31 final size:30
Alignment explanation
Indices: 13263944--13264023 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
13263934 ATGTTAGCAT
13263944 TGCCATGTCATCATAGTAGTGCCACGTGGCA
1 TGCCATGTCATCAT-GTAGTGCCACGTGGCA
* * * *
13263975 TGCTATCTTATCA-CTACGATGCCACGTGGCA
1 TGCCATGTCATCATGTA-G-TGCCACGTGGCA
13264006 TGCCATGTCATCATGTAG
1 TGCCATGTCATCATGTAG
13264024 CCGCCACATC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
29 2 0.05
30 1 0.03
31 33 0.87
32 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (30 bp):
TGCCATGTCATCATGTAGTGCCACGTGGCA
Found at i:13265683 original size:67 final size:67
Alignment explanation
Indices: 13265595--13265730 Score: 195
Period size: 67 Copynumber: 2.0 Consensus size: 67
13265585 AAGCTTTTGC
* * *
13265595 AATGGCTTTTAACAGGTTCAGCTACAACCTTTAACAATGGTTTTTCAAG-GTATCAACCAAAATC
1 AATGGCTTTTAACAGGCTCAGCCACAACCTTTAACAATGGTTTTTCAAGAG-ATCAACCAAAACC
13265659 CAA
65 CAA
* *
13265662 AATGGCTTTTTAA-AGGCTCAGCCACAACCTTTAACAATGGTTTTTCACGAGATCAACTAAAACC
1 AATGGC-TTTTAACAGGCTCAGCCACAACCTTTAACAATGGTTTTTCAAGAGATCAACCAAAACC
13265726 CAA
65 CAA
13265729 AA
1 AA
13265731 CTAACTTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
67 55 0.89
68 7 0.11
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (67 bp):
AATGGCTTTTAACAGGCTCAGCCACAACCTTTAACAATGGTTTTTCAAGAGATCAACCAAAACCC
AA
Found at i:13265701 original size:35 final size:34
Alignment explanation
Indices: 13265594--13265706 Score: 99
Period size: 35 Copynumber: 3.3 Consensus size: 34
13265584 TAAGCTTTTG
* * *
13265594 CAATGGCTTTTAACAGGTTCAGCTACAACCTTTAA
1 CAATGGTTTTTAA-AGGATCAGCCACAACCTTTAA
* * *
13265629 CAATGGTTTTTCAAGGTATCAACCAAAATCC---AA
1 CAATGGTTTTTAAAGG-ATCAGCCACAA-CCTTTAA
*
13265662 -AATGGCTTTTTAAAGGCTCAGCCACAACCTTTAA
1 CAATGG-TTTTTAAAGGATCAGCCACAACCTTTAA
13265696 CAATGGTTTTT
1 CAATGGTTTTT
13265707 CACGAGATCA
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
31 2 0.03
32 13 0.21
33 11 0.18
34 10 0.16
35 23 0.38
36 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (34 bp):
CAATGGTTTTTAAAGGATCAGCCACAACCTTTAA
Found at i:13266236 original size:73 final size:72
Alignment explanation
Indices: 13266114--13266374 Score: 240
Period size: 73 Copynumber: 3.6 Consensus size: 72
13266104 CAGACAGACT
* * * *
13266114 GCTCTTAGTCAACTAACTATGCTTCTTAGTCAATTAAGTCATCTCTGTCTCTAAACCCGATTTCT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTC-TCTTTGTCTCTAAACCCGATTTCT
*
13266179 GGCAGTGA
65 GGCAGTAA
* * * *
13266187 GCTCTTAGTCGACTAACAATAG-TTGTTAGTCGATTAAGTCGTCTTTGTCTTTAAACCCAATTTT
1 GCTCTTAGTCGACTAACAAT-GCTTCTTAGTCGATTAAGTC-TCTTTGTCTCTAAACCCGATTTC
*
13266251 TGGTAGTAA
64 TGGCAGTAA
* * * * **
13266260 GCT-TTTGGCTGACTAACAATGCTTCTTAATCGATTAAGT-TCTTTCTGTCTCGTAATCTAGATT
1 GCTCTTAGTC-GACTAACAATGCTTCTTAGTCGATTAAGTCTC-TT-TGTCTC-TAAACCCGATT
13266323 TCTGGCAGTAA
62 TCTGGCAGTAA
* ** * * *
13266334 GCTCTTAGTTGACTAATGATACTTCTTAGTTGACTAAGTCT
1 GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCT
13266375 TCTCTATTTC
Statistics
Matches: 149, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
71 2 0.01
72 7 0.05
73 93 0.62
74 43 0.29
75 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.39
Consensus pattern (72 bp):
GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCTCTTTGTCTCTAAACCCGATTTCTG
GCAGTAA
Found at i:13275341 original size:19 final size:19
Alignment explanation
Indices: 13275317--13275354 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13275307 ACTTCTAAAC
13275317 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13275336 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13275355 AGTCAAATGG
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:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13278453 original size:15 final size:14
Alignment explanation
Indices: 13278433--13278465 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
13278423 ATGTTTTCTT
13278433 ATTTTATTTGATTTA
1 ATTTTATTTGA-TTA
13278448 ATTTTATTTGATTA
1 ATTTTATTTGATTA
13278462 ATTT
1 ATTT
13278466 GATAATTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (14 bp):
ATTTTATTTGATTA
Found at i:13279000 original size:33 final size:33
Alignment explanation
Indices: 13278958--13279023 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
13278948 AAAAATCTTT
*
13278958 CAATATTGTTGCTAAACATTAAGAAAATGGTAG
1 CAATATTGTTGCTAAACATGAAGAAAATGGTAG
*
13278991 CAATCTTGTTGCTAAACATGAAGAAAATGGTAG
1 CAATATTGTTGCTAAACATGAAGAAAATGGTAG
13279024 TCAACTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (33 bp):
CAATATTGTTGCTAAACATGAAGAAAATGGTAG
Found at i:13284466 original size:20 final size:20
Alignment explanation
Indices: 13284440--13284485 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
13284430 CATCTTACCT
*
13284440 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTTCCTTGAA
13284461 TTTTCACACTTTTTCCTTGAA
1 TTTT-ACACTTTTTCCTTGAA
13284482 TTTT
1 TTTT
13284486 TCCACCTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.15, C:0.20, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTTACACTTTTTCCTTGAA
Found at i:13284487 original size:22 final size:22
Alignment explanation
Indices: 13284445--13284485 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
13284435 TACCTTTTTT
13284445 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTTCCTTGAATTTTCA
13284467 CACTT-TTTCCTTGAATTTT
1 CACTTGTTTCCTTGAATTTT
13284486 TCCACCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.17, C:0.22, G:0.07, T:0.54
Consensus pattern (22 bp):
CACTTGTTTCCTTGAATTTTCA
Found at i:13285360 original size:20 final size:22
Alignment explanation
Indices: 13285318--13285377 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
13285308 ATTACACAAA
*
13285318 CAAATATATATAACAAAATTAAT
1 CAAATA-ATATAATAAAATTAAT
13285341 CAAGA-AATA-AATAAAA-TAAT
1 CAA-ATAATATAATAAAATTAAT
13285361 CAAATAATATAATAAAA
1 CAAATAATATAATAAAA
13285378 ATGAAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
21 13 0.39
22 3 0.09
23 4 0.12
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.25
Consensus pattern (22 bp):
CAAATAATATAATAAAATTAAT
Found at i:13285850 original size:175 final size:175
Alignment explanation
Indices: 13285558--13285892 Score: 499
Period size: 175 Copynumber: 1.9 Consensus size: 175
13285548 GTCGGTGGAA
* * * ** **
13285558 GGAAGAGTTATTTTGGGTTTTAGGTGACCGAGCTTCAAGGCACCGGTGGTTGGGAAGGTGAGTGA
1 GGAAGAGATATTTAGGGTTTTAGGTGACCGAGCTTCAAGCCACCGGTGGAGGGGAAGGTGACAGA
* * * * *
13285623 GAAAGACAAAGTGGTCAGCGGAGGGAAAAGTTTAGAGAGAAGTGAAAGGGTGGTCGCGGCTAGAG
66 AAAAGACAAAGCGGCCAACGGAGGGAAAAGTTTAGAGAGAAGTGAAAGGGTGGTCGCGGCTAGAA
13285688 AGAGAAAGGGAAAGAAAAAAATGAAGGGAGGGATTGCCGGCGAAG
131 AGAGAAAGGGAAAGAAAAAAATGAAGGGAGGGATTGCCGGCGAAG
* *
13285733 GGAAGAGATATTTAGGGTTTTGGGTGACCGAGCTTCAAGCCACCTGTGGAGGGGAAGGTGACAGA
1 GGAAGAGATATTTAGGGTTTTAGGTGACCGAGCTTCAAGCCACCGGTGGAGGGGAAGGTGACAGA
* * * *
13285798 AAAAGAGAAAGCGGCCAACGGAGGGAAAAGTTTAGAGAGAAGTGAGAGGGTGGTTGCGGCTATAA
66 AAAAGACAAAGCGGCCAACGGAGGGAAAAGTTTAGAGAGAAGTGAAAGGGTGGTCGCGGCTAGAA
*
13285863 AGAGAAAGGGAAAGAAGAAAATGAAGGGAG
131 AGAGAAAGGGAAAGAAAAAAATGAAGGGAG
13285893 AGGAGAAAAG
Statistics
Matches: 141, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
175 141 1.00
ACGTcount: A:0.35, C:0.09, G:0.40, T:0.16
Consensus pattern (175 bp):
GGAAGAGATATTTAGGGTTTTAGGTGACCGAGCTTCAAGCCACCGGTGGAGGGGAAGGTGACAGA
AAAAGACAAAGCGGCCAACGGAGGGAAAAGTTTAGAGAGAAGTGAAAGGGTGGTCGCGGCTAGAA
AGAGAAAGGGAAAGAAAAAAATGAAGGGAGGGATTGCCGGCGAAG
Found at i:13286604 original size:21 final size:20
Alignment explanation
Indices: 13286549--13286610 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
13286539 TATAAAATTA
*
13286549 AAAATAATAAACAAGTAAAAT
1 AAAA-AATAAAAAAGTAAAAT
* **
13286570 AAAAATATATAAAAGTATGAT
1 AAAAA-ATAAAAAAGTAAAAT
13286591 AATAAAATAAAAAAAGTAAA
1 AA-AAAAT-AAAAAAGTAAA
13286611 TATTTGTCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 1 0.03
21 19 0.61
22 11 0.35
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (20 bp):
AAAAAATAAAAAAGTAAAAT
Found at i:13287813 original size:31 final size:31
Alignment explanation
Indices: 13287778--13287836 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
13287768 AAAATTTTTG
13287778 TTGGTAATAACTTTTTCCAACAGAATTTCCA
1 TTGGTAATAACTTTTTCCAACAGAATTTCCA
*
13287809 TTGGTAATAACTTTTTCCAACGGAATTT
1 TTGGTAATAACTTTTTCCAACAGAATTT
13287837 TAGTTGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (31 bp):
TTGGTAATAACTTTTTCCAACAGAATTTCCA
Found at i:13288019 original size:82 final size:86
Alignment explanation
Indices: 13287883--13288063 Score: 246
Period size: 85 Copynumber: 2.1 Consensus size: 86
13287873 CTCCTAGAAC
* *
13287883 TTTTCGACGGATTTTCAACAGAAAATTTTCCGTTGGAAATTCGGTCGAACATGGTGGTCTCC-TT
1 TTTTCAACGGATTTTCAACAGAAAATTTTCCGTTGAAAATTCGGTCGAACATGGTGGTCTCCTTT
*
13287947 TTTTTTTGCTCCCCAAAAATT
66 TTTTTTTGCTCCCCAAAAATA
*
13287968 TTTTCAACGGATTTTCAACA-AAAA-TTT-CGTTGAAAATTCTGTCAGAA-ATGGTGGTCTCCTT
1 TTTTCAACGGATTTTCAACAGAAAATTTTCCGTTGAAAATTCGGTC-GAACATGGTGGTCTCC--
*
13288029 TTTTTTTTTTGCTCGCCAAAAATA
63 TTTTTTTTTTGCTCCCCAAAAATA
*
13288053 TTTCCAACGGA
1 TTTTCAACGGA
13288064 AATTCTATTG
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
82 26 0.30
83 6 0.07
84 4 0.05
85 50 0.58
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (86 bp):
TTTTCAACGGATTTTCAACAGAAAATTTTCCGTTGAAAATTCGGTCGAACATGGTGGTCTCCTTT
TTTTTTTGCTCCCCAAAAATA
Found at i:13288145 original size:13 final size:14
Alignment explanation
Indices: 13288123--13288156 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13288113 TTTTTCCAAC
*
13288123 GGAATTTTTTCATT
1 GGAAATTTTTCATT
*
13288137 GGAAATTTTTCGTT
1 GGAAATTTTTCATT
13288151 GGAAAT
1 GGAAAT
13288157 CAGTTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (14 bp):
GGAAATTTTTCATT
Found at i:13288458 original size:34 final size:34
Alignment explanation
Indices: 13288357--13288460 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
13288347 ACAAGTTCAG
*
13288357 CCACAACCTTTAACAATGATTTTTCACGGGATCAA
1 CCACAACATTTAACAATGATTTTTCAC-GGATCAA
* *** * * *
13288392 CTA-AA-ACCCAA-AATGACTTTTTAAAGGCTCAA
1 CCACAACATTTAACAATGA-TTTTTCACGGATCAA
13288424 CCACAACATTTAACAATGATTTTTCACGGATCAA
1 CCACAACATTTAACAATGATTTTTCACGGATCAA
13288458 CCA
1 CCA
13288461 AAACCCAAAA
Statistics
Matches: 50, Mismatches: 15, Indels: 9
0.68 0.20 0.12
Matches are distributed among these distances:
32 13 0.26
33 10 0.20
34 20 0.40
35 7 0.14
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (34 bp):
CCACAACATTTAACAATGATTTTTCACGGATCAA
Found at i:13288478 original size:67 final size:66
Alignment explanation
Indices: 13288357--13288486 Score: 199
Period size: 67 Copynumber: 2.0 Consensus size: 66
13288347 ACAAGTTCAG
* * * *
13288357 CCACAACCTTTAACAATGATTTTTCACGGGATCAACTAAAACCCAAAATGACTTTTTAAAGGCTC
1 CCACAACATTTAACAATGATTTTTCACGGGATCAACCAAAACCCAAAATAACTTTCT-AAGGCTC
13288422 AA
65 AA
13288424 CCACAACATTTAACAATGATTTTTCAC-GGATCAACCAAAACCCAAAACTAACTTTCTAAGGCT
1 CCACAACATTTAACAATGATTTTTCACGGGATCAACCAAAACCCAAAA-TAACTTTCTAAGGCT
13288487 AAATTAGAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
66 25 0.43
67 33 0.57
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.26
Consensus pattern (66 bp):
CCACAACATTTAACAATGATTTTTCACGGGATCAACCAAAACCCAAAATAACTTTCTAAGGCTCA
A
Found at i:13288972 original size:73 final size:71
Alignment explanation
Indices: 13288853--13289129 Score: 297
Period size: 73 Copynumber: 3.8 Consensus size: 71
13288843 TAAACAGAAT
* * *
13288853 GCTCTTAGTCAACTAACTATGCTTCTTAGTCGATTAAGTCATCTCTGTCTCTAAACTCAGTTTCT
1 GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTC-TCTCTGTCTCTAAACTCAGTTTCT
*
13288918 GGCAGTGA
65 GGTAGT-A
* * * *
13288926 GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTCGTCTCTGTCTCTGAACCCAATTTTT
1 GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTC-TCTCTGTCTCTAAACTCAGTTTCT
*
13288991 TGTAGTAA
65 GGTAGT-A
* * * *
13288999 GCTCTT-GGCTGACTAACAATGCTTCTTAGTCGATTAAGCTCTTTCTGTCTCATAATC-CAGATT
1 GCTCTTAGTC-GACTAACAATACTTCTTAGTCGATTAAG-TCTCTCTGTCTC-TAAACTCAG-TT
13289062 TCTGGTAGTA
62 TCTGGTAGTA
* * * *
13289072 CGCTCTTAGTTGACTAACGATACTTCTTAGTCGACTAAGTCTTCTCTGTTTCTAAACT
1 -GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTC-TCTCTGTCTCTAAACT
13289130 GGCCATCTCC
Statistics
Matches: 169, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
72 2 0.01
73 113 0.67
74 53 0.31
75 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (71 bp):
GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTCTCTCTGTCTCTAAACTCAGTTTCTG
GTAGTA
Found at i:13301671 original size:28 final size:29
Alignment explanation
Indices: 13301630--13301689 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
13301620 GTCTATGGGC
*
13301630 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
13301658 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
13301688 AA
1 AA
13301690 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:13315391 original size:60 final size:59
Alignment explanation
Indices: 13315251--13315731 Score: 477
Period size: 60 Copynumber: 8.0 Consensus size: 59
13315241 CCTCGGTGAA
* * * *
13315251 TTAAATCGAACCTGTT-TAGAGATAAGTCGAGCCTAGGTCAAGTTTAGGAATTTCAATTT
1 TTAAATCGAACCTGTTGT-GAGATAGGTCGAGCTTAGATCAAGTTTAGAAATTTCAATTT
* * * *
13315310 TTAAATCGAATCTGTTTTGAGATAGGTCGAGCTTAGATTAAGTTTACAAATTTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCTTAGATCAAGTTTAGAAA-TTTCAATTT
* * *
13315370 TTAAATCGAACCTGTTGTGAGATAGGTCAAGCTTAGCTCAAGTTTAGGAATTTCAATTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCTTAGATCAAGTTTAGAAATTTCAATTT
* * * * *
13315429 TTAAATCGAACCTATTTTTGAGATAGGTCGAGCTTAGATTAAGTTTAGGAATTTC-GTTT
1 TTAAATCGAACCT-GTTGTGAGATAGGTCGAGCTTAGATCAAGTTTAGAAATTTCAATTT
* * * * * *
13315488 TTAAAATCGAACATATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTT
1 TT-AAATCGAACCTGTTGTGAGATAGGTCGAGCTTAGATCAAGTTTAGAAATTTCAATTT
* * * *
13315548 TTAAATCAAACCTGTTGTGAGATAGGTCAAG-TCTAGATTAAGTTT-GAGAATTTTAATTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCT-TAGATCAAGTTTAGA-AATTTCAA-TTT
* * * * * * *
13315608 TTAAATCGAACTTGTTCTAATATGGGTCAAGCCTAGATCAAGTTTAGAAATTTCAATTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCTTAGATCAAGTTTAGAAATTTCAA-TTT
* * * * *
13315668 GCTTAAATCGGGAACCTATTTTGAGATAGGTCGTGCTTAAATCAAGCTTAGAAATTTC-ATTT
1 --TTAAATC--GAACCTGTTGTGAGATAGGTCGAGCTTAGATCAAGTTTAGAAATTTCAATTT
13315730 TT
1 TT
13315732 CGAACCTAGG
Statistics
Matches: 354, Mismatches: 54, Indels: 27
0.81 0.12 0.06
Matches are distributed among these distances:
58 2 0.01
59 147 0.42
60 156 0.44
61 2 0.01
62 10 0.03
63 1 0.00
64 36 0.10
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (59 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCTTAGATCAAGTTTAGAAATTTCAATTT
Found at i:13315495 original size:119 final size:118
Alignment explanation
Indices: 13315251--13315731 Score: 531
Period size: 119 Copynumber: 4.0 Consensus size: 118
13315241 CCTCGGTGAA
* * * *
13315251 TTAAATCGAACCTGTT-TAGAGATAAGTCGAGCCTAGGTCAAGTTTAGGAATTTCAATTTTTAAA
1 TTAAATCGAACCTGTTGT-GAGATAGGTCAAGCCTAGATCAAGTTTAGAAATTTCAATTTTTAAA
* *
13315315 TCGAATCTGTTTTGAGATAGGTCGAGCTTAGATTAAGTTTACAAATTTTCAATTT
65 TCGAACCTGTTTTGAGATAGGTCGAGCTTAGATTAAGTTTAGAAATTTTC-ATTT
* * *
13315370 TTAAATCGAACCTGTTGTGAGATAGGTCAAGCTTAGCTCAAGTTTAGGAATTTCAATTTTTAAAT
1 TTAAATCGAACCTGTTGTGAGATAGGTCAAGCCTAGATCAAGTTTAGAAATTTCAATTTTTAAAT
* * *
13315435 CGAACCTATTTTTGAGATAGGTCGAGCTTAGATTAAGTTTAGGAA-TTTCGTTT
66 CGAACCT-GTTTTGAGATAGGTCGAGCTTAGATTAAGTTTAGAAATTTTCATTT
* * * * * *
13315488 TTAAAATCGAACATATTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTTAAA
1 TT-AAATCGAACCTGTTGTGAGATAGGTCAAGCCTAGATCAAGTTTAGAAATTTCAATTTTTAAA
* * * *
13315553 TCAAACCTGTTGTGAGATAGGTCAAG-TCTAGATTAAGTTT-GAGAATTTTAATTTT
65 TCGAACCTGTTTTGAGATAGGTCGAGCT-TAGATTAAGTTTAGA-AATTTTCA-TTT
* * * * *
13315608 TTAAATCGAACTTGTTCTAATATGGGTCAAGCCTAGATCAAGTTTAGAAATTTCAATTTTGCTTA
1 TTAAATCGAACCTGTTGTGAGATAGGTCAAGCCTAGATCAAGTTTAGAAATTTCAA-TTT--TTA
* * * * *
13315673 AATCGGGAACCTATTTTGAGATAGGTCGTGCTTAAATCAAGCTTAGAAA-TTTCATTT
63 AATC--GAACCTGTTTTGAGATAGGTCGAGCTTAGATTAAGTTTAGAAATTTTCATTT
13315730 TT
1 TT
13315732 CGAACCTAGG
Statistics
Matches: 304, Mismatches: 44, Indels: 25
0.82 0.12 0.07
Matches are distributed among these distances:
117 2 0.01
118 34 0.11
119 176 0.58
120 43 0.14
122 12 0.04
123 4 0.01
124 30 0.10
125 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (118 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCAAGCCTAGATCAAGTTTAGAAATTTCAATTTTTAAAT
CGAACCTGTTTTGAGATAGGTCGAGCTTAGATTAAGTTTAGAAATTTTCATTT
Found at i:13315939 original size:6 final size:6
Alignment explanation
Indices: 13315928--13315978 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
13315918 AATTAACCAA
* *
13315928 AAAAAT AAAAAT AAATAAT AATAGAAT -ATAGT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAA-AAT AA-A-AAT AAAAAT AAAAAT AAAAAT AAAAAT
13315978 A
1 A
13315979 TTTAAAACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
5 2 0.05
6 25 0.68
7 6 0.16
8 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:13315985 original size:22 final size:23
Alignment explanation
Indices: 13315933--13315979 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 23
13315923 ACCAAAAAAA
13315933 TAAAAATAAATAATAATAGAATATAG
1 TAAAAATAAA-AATAA-A-AATATAG
13315959 TAAAAATAAAAATAAAAATAT
1 TAAAAATAAAAATAAAAATAT
13315980 TTAAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 1 0.05
25 5 0.24
26 10 0.48
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAAATAAAAATAAAAATATAG
Found at i:13320254 original size:18 final size:18
Alignment explanation
Indices: 13320227--13320262 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13320217 TTTTATGACT
13320227 ACTTAATCAAAGGTAAGA
1 ACTTAATCAAAGGTAAGA
*
13320245 ACTTATTCAAAGGTAAGA
1 ACTTAATCAAAGGTAAGA
13320263 GAGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (18 bp):
ACTTAATCAAAGGTAAGA
Found at i:13325016 original size:30 final size:30
Alignment explanation
Indices: 13324982--13325045 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
13324972 AGTTGCAATA
*
13324982 ATTTATTTAACTTAAAATAAAAATATAAAG
1 ATTTATTTAACTCAAAATAAAAATATAAAG
* * *
13325012 ATTTATTTAACTCAAAATAGAAGTATAATG
1 ATTTATTTAACTCAAAATAAAAATATAAAG
13325042 ATTT
1 ATTT
13325046 GATTGAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (30 bp):
ATTTATTTAACTCAAAATAAAAATATAAAG
Found at i:13331109 original size:39 final size:40
Alignment explanation
Indices: 13331037--13331113 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
13331027 TTGTGGTCAT
* * *
13331037 TGTTCACTTTAGTGTGGTTTTCTAACCTCGTCAAAATTAA
1 TGTTCACCTTAGTGAGGTTTTCTAAACTCGTCAAAATTAA
*
13331077 TGTTCACCTTAGTGAGG-TTTCTAAACTTGTCAAAATT
1 TGTTCACCTTAGTGAGGTTTTCTAAACTCGTCAAAATT
13331114 GGTGTATTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 18 0.55
40 15 0.45
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (40 bp):
TGTTCACCTTAGTGAGGTTTTCTAAACTCGTCAAAATTAA
Found at i:13342347 original size:23 final size:24
Alignment explanation
Indices: 13342298--13342347 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
13342288 ATACTTAAAT
* * * *
13342298 TATCAAAAAATATTAATTCAAATA
1 TATCAAAAAATATAAAATAAAAGA
13342322 TATCAAAAAAT-TAAAATAAAAGA
1 TATCAAAAAATATAAAATAAAAGA
13342345 TAT
1 TAT
13342348 AATTTGACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (24 bp):
TATCAAAAAATATAAAATAAAAGA
Found at i:13352736 original size:2 final size:2
Alignment explanation
Indices: 13352717--13352754 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
13352707 GGAAGACAAA
* *
13352717 AT AT AA AT AT AT AA 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
13352755 TTAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:13355920 original size:26 final size:27
Alignment explanation
Indices: 13355889--13355939 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
13355879 TTTTTTTTTT
*
13355889 AATATTAATAATTTATAA-TTAATTAA
1 AATATTAATAATTAATAATTTAATTAA
13355915 AATATTAATAATTAATAATTTAATT
1 AATATTAATAATTAATAATTTAATT
13355940 TAATTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AATATTAATAATTAATAATTTAATTAA
Found at i:13355928 original size:15 final size:15
Alignment explanation
Indices: 13355886--13355951 Score: 59
Period size: 13 Copynumber: 4.4 Consensus size: 15
13355876 TTATTTTTTT
13355886 TTTAAT-ATTAATAA
1 TTTAATAATTAATAA
13355900 TTT-ATAATTAATTAAAA
1 TTTAATAATTAA-T--AA
13355917 TATTAATAATTAATAA
1 T-TTAATAATTAATAA
*
13355933 TTTAAT--TTAATTA
1 TTTAATAATTAATAA
13355946 TTTAAT
1 TTTAAT
13355952 TTGAAATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
13 14 0.31
14 8 0.18
15 6 0.13
16 3 0.07
17 3 0.07
18 3 0.07
19 8 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAATAATTAATAA
Found at i:13355930 original size:7 final size:7
Alignment explanation
Indices: 13355887--13355934 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
13355877 TATTTTTTTT
13355887 TTAAT-A
1 TTAATAA
13355893 TTAATAA
1 TTAATAA
*
13355900 TTTATAA
1 TTAATAA
13355907 TTAATTAA
1 TTAA-TAA
13355915 --AAT-A
1 TTAATAA
13355919 TTAATAA
1 TTAATAA
13355926 TTAATAA
1 TTAATAA
13355933 TT
1 TT
13355935 TAATTTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
4 1 0.03
5 1 0.03
6 10 0.29
7 20 0.57
8 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTAATAA
Found at i:13364627 original size:34 final size:34
Alignment explanation
Indices: 13364584--13364664 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
13364574 ATATAAAAGT
**
13364584 CAAAGTTTTAGCACCAAATGCTACACGTCAAAAC
1 CAAAGTTTTAGCACCAAATGCTACACACCAAAAC
* *
13364618 CAAAGTTTTAGCACCATATGCTACACACCAAGAC
1 CAAAGTTTTAGCACCAAATGCTACACACCAAAAC
*
13364652 CAAAGCTTTAGCA
1 CAAAGTTTTAGCA
13364665 TAAGATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (34 bp):
CAAAGTTTTAGCACCAAATGCTACACACCAAAAC
Found at i:13372669 original size:17 final size:18
Alignment explanation
Indices: 13372633--13372672 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13372623 TATAATTAAC
13372633 TCTTAATATGATAGAAATT
1 TCTTAATATGATA-AAATT
* *
13372652 TCTTAATATGCTAAATTT
1 TCTTAATATGATAAAATT
13372670 TCT
1 TCT
13372673 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (18 bp):
TCTTAATATGATAAAATT
Found at i:13375518 original size:28 final size:28
Alignment explanation
Indices: 13375478--13375545 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
13375468 GAATAATAAA
*
13375478 AAATATTAA-AAATAAATAAATTACA-C
1 AAATATAAATAAATAAATAAATTACATC
13375504 TAAATATAAATAAATAAATAAATTACATC
1 -AAATATAAATAAATAAATAAATTACATC
13375533 AAATATAAATAAA
1 AAATATAAATAAA
13375546 GTTTTAATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 8 0.21
28 29 0.76
29 1 0.03
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (28 bp):
AAATATAAATAAATAAATAAATTACATC
Found at i:13375990 original size:14 final size:14
Alignment explanation
Indices: 13375964--13376020 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
13375954 GTTAATTAAC
13375964 ATAAATTA-A-CAA
1 ATAAATTACATCAA
13375976 ATAAATTACATCAA
1 ATAAATTACATCAA
* *
13375990 ATATAAATAAAT-AA
1 ATA-AATTACATCAA
13376004 ATAAATTACATCAA
1 ATAAATTACATCAA
13376018 ATA
1 ATA
13376021 TAAATAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
12 8 0.22
13 7 0.19
14 16 0.43
15 6 0.16
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAATTACATCAA
Found at i:13375996 original size:28 final size:28
Alignment explanation
Indices: 13375964--13376028 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
13375954 GTTAATTAAC
*
13375964 ATAAATTAACAAATAAATTACATCAAAT
1 ATAAATAAACAAATAAATTACATCAAAT
*
13375992 ATAAATAAATAAATAAATTACATCAAAT
1 ATAAATAAACAAATAAATTACATCAAAT
13376020 ATAAATAAA
1 ATAAATAAA
13376029 GTTTCAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (28 bp):
ATAAATAAACAAATAAATTACATCAAAT
Found at i:13377670 original size:15 final size:14
Alignment explanation
Indices: 13377650--13377690 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
13377640 AAATACAGTC
*
13377650 TTTAACTTAGGAAAT
1 TTTAACTTA-AAAAT
13377665 TTTAACTTAAAAAT
1 TTTAACTTAAAAAT
*
13377679 TATAACTTAAAA
1 TTTAACTTAAAA
13377691 TATTAAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (14 bp):
TTTAACTTAAAAAT
Found at i:13377684 original size:14 final size:14
Alignment explanation
Indices: 13377661--13377695 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
13377651 TTAACTTAGG
*
13377661 AAATTTTAACTTAA
1 AAATTATAACTTAA
13377675 AAATTATAACTTAA
1 AAATTATAACTTAA
13377689 AATATTA
1 AA-ATTA
13377696 AGCAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATTATAACTTAA
Found at i:13379484 original size:39 final size:38
Alignment explanation
Indices: 13379441--13379519 Score: 149
Period size: 39 Copynumber: 2.1 Consensus size: 38
13379431 TAGAAAAAGA
13379441 AAGATAAAAAAAACTTTACTTTATTGTAATTTCACAAT
1 AAGATAAAAAAAACTTTACTTTATTGTAATTTCACAAT
13379479 NAAGATAAAAAAAACTTTACTTTATTGTAATTTCACAAT
1 -AAGATAAAAAAAACTTTACTTTATTGTAATTTCACAAT
13379518 AA
1 AA
13379520 AAAGACAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 2 0.05
39 38 0.95
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.35
Consensus pattern (38 bp):
AAGATAAAAAAAACTTTACTTTATTGTAATTTCACAAT
Found at i:13390994 original size:55 final size:54
Alignment explanation
Indices: 13390944--13391060 Score: 166
Period size: 55 Copynumber: 2.2 Consensus size: 54
13390934 ATAGCATTGT
*
13390944 GTGTAACAACTAAATTTTTCATCATGGCGTGTAACAACTAAATCTTTAGCATGAC
1 GTGTAACAACTAAATTTTTCAACAT-GCGTGTAACAACTAAATCTTTAGCATGAC
* * *
13390999 GTGTAACAATTATATTTTTCAACATGCGTGTAACAACTAAAT-TTTCAACAT-AC
1 GTGTAACAACTAAATTTTTCAACATGCGTGTAACAACTAAATCTTT-AGCATGAC
13391052 GTGTAACAA
1 GTGTAACAA
13391061 TTATATTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
53 14 0.25
54 21 0.37
55 22 0.39
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (54 bp):
GTGTAACAACTAAATTTTTCAACATGCGTGTAACAACTAAATCTTTAGCATGAC
Found at i:13391004 original size:27 final size:28
Alignment explanation
Indices: 13390944--13391060 Score: 152
Period size: 27 Copynumber: 4.3 Consensus size: 28
13390934 ATAGCATTGT
* *
13390944 GTGTAACAACTAAATTTTTCATCATGGC
1 GTGTAACAACTAAATTTTTCAACATGAC
* *
13390972 GTGTAACAACTAAATCTTT-AGCATGAC
1 GTGTAACAACTAAATTTTTCAACATGAC
* *
13390999 GTGTAACAATTATATTTTTCAACATG-C
1 GTGTAACAACTAAATTTTTCAACATGAC
13391026 GTGTAACAACTAAA-TTTTCAACAT-AC
1 GTGTAACAACTAAATTTTTCAACATGAC
13391052 GTGTAACAA
1 GTGTAACAA
13391061 TTATATTTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 20 0.26
27 35 0.45
28 23 0.29
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (28 bp):
GTGTAACAACTAAATTTTTCAACATGAC
Found at i:13391066 original size:53 final size:55
Alignment explanation
Indices: 13390944--13391068 Score: 184
Period size: 53 Copynumber: 2.3 Consensus size: 55
13390934 ATAGCATTGT
* * * *
13390944 GTGTAACAACTAAATTTTTCATCATGGCGTGTAACAACTAAATCTTTAGCATGAC
1 GTGTAACAATTATATTTTTCAACATGGCGTGTAACAACTAAATCTTTAACATGAC
13390999 GTGTAACAATTATATTTTTCAACAT-GCGTGTAACAACTAAAT-TTTCAACAT-AC
1 GTGTAACAATTATATTTTTCAACATGGCGTGTAACAACTAAATCTTT-AACATGAC
13391052 GTGTAACAATTATATTT
1 GTGTAACAATTATATTT
13391069 AATAACTAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
53 22 0.34
54 21 0.32
55 22 0.34
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (55 bp):
GTGTAACAATTATATTTTTCAACATGGCGTGTAACAACTAAATCTTTAACATGAC
Found at i:13391149 original size:28 final size:28
Alignment explanation
Indices: 13391108--13391164 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
13391098 TAACTAAATC
* * *
13391108 TTCAACATAGCGTGTAAGAATTACATTT
1 TTCAACATAACGTGTAACAATTAAATTT
13391136 TTCAACATAACGTGTAACAATTAAATTT
1 TTCAACATAACGTGTAACAATTAAATTT
13391164 T
1 T
13391165 CAATATGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (28 bp):
TTCAACATAACGTGTAACAATTAAATTT
Found at i:13391251 original size:28 final size:27
Alignment explanation
Indices: 13391218--13391289 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
13391208 AATTATTTCT
13391218 AACATGACGTATAATAACTAAATTTTAG
1 AACATGACGT-TAATAACTAAATTTTAG
* **
13391246 AACATGACGTGTAAT-ACTACATTTTTT
1 AACATGACGT-TAATAACTAAATTTTAG
13391273 AACATGACGTTAATAAC
1 AACATGACGTTAATAAC
13391290 ATTTTTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
26 4 0.10
27 21 0.54
28 14 0.36
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (27 bp):
AACATGACGTTAATAACTAAATTTTAG
Found at i:13396437 original size:87 final size:87
Alignment explanation
Indices: 13396290--13396467 Score: 311
Period size: 87 Copynumber: 2.0 Consensus size: 87
13396280 AGGGGTTCAC
*
13396290 AAAGATTGTTACTTTTCAAGCATACAGCAAATCTAAAGAGGAATATATATTTCAGGAAGGGTAGA
1 AAAGATTGTTACTTTTCAAGCATACAGCAAATCTAAAGAGGAATATACATTTCAGGAAGGGTAGA
13396355 ATTACACTATGCAAATGCTTTT
66 ATTACACTATGCAAATGCTTTT
* *
13396377 AAAGATTGTTACTTTTCAAGCATACAGCAAATCTAAAGAGGCATATACATTTCAGTAAGGGTAGA
1 AAAGATTGTTACTTTTCAAGCATACAGCAAATCTAAAGAGGAATATACATTTCAGGAAGGGTAGA
* *
13396442 ATTACAGTGTGCAAATGCTTTT
66 ATTACACTATGCAAATGCTTTT
13396464 AAAG
1 AAAG
13396468 GCAATGGACT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (87 bp):
AAAGATTGTTACTTTTCAAGCATACAGCAAATCTAAAGAGGAATATACATTTCAGGAAGGGTAGA
ATTACACTATGCAAATGCTTTT
Found at i:13397603 original size:16 final size:17
Alignment explanation
Indices: 13397582--13397614 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13397572 ATGCCATCAT
*
13397582 TTGTTTT-TTTTTTATG
1 TTGTTTTGTTTGTTATG
13397598 TTGTTTTGTTTGTTATG
1 TTGTTTTGTTTGTTATG
13397615 CCAAAGATAA
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:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (17 bp):
TTGTTTTGTTTGTTATG
Found at i:13424635 original size:26 final size:25
Alignment explanation
Indices: 13424588--13424640 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
13424578 ACATATTATA
13424588 TTTATTACTTTTATCTAACTATATTT
1 TTTATTACTTTTATCTAACTAT-TTT
* *
13424614 TTTATTTAGTTTTAT-TATCTATTTT
1 TTTA-TTACTTTTATCTAACTATTTT
13424639 TT
1 TT
13424641 ATGTTAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 10 0.42
27 9 0.38
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (25 bp):
TTTATTACTTTTATCTAACTATTTT
Found at i:13429119 original size:15 final size:16
Alignment explanation
Indices: 13429091--13429120 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13429081 AACAATAATG
13429091 AAACAATAAATGCACC
1 AAACAATAAATGCACC
13429107 AAACAAT-AATGCAC
1 AAACAATAAATGCAC
13429121 AAAATGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.23, G:0.07, T:0.13
Consensus pattern (16 bp):
AAACAATAAATGCACC
Found at i:13430202 original size:25 final size:24
Alignment explanation
Indices: 13430153--13430209 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
13430143 ATAAACATGT
* *
13430153 TATATTTTTTATTTAATTTTATTA
1 TATATTTTTTATTTAAGTATATTA
13430177 TATATTTTTTATATCTAAGTAT-TTA
1 TATATTTTTTAT-T-TAAGTATATTA
*
13430202 TCTATTTT
1 TATATTTT
13430210 GCTATATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 12 0.43
25 11 0.39
26 5 0.18
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTTTTTATTTAAGTATATTA
Done.