Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008167.1 Hibiscus syriacus cultivar Beakdansim tig00110748_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1661898
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 5
Found at i:5938 original size:49 final size:49
Alignment explanation
Indices: 5866--6024 Score: 237
Period size: 49 Copynumber: 3.2 Consensus size: 49
5856 CCAAAATAAA
* * *
5866 TGCATAACGGTGCATTTTGGCATAAAGGGTTCCACTAAAGAAAGTTAAG
1 TGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGTTAAG
* * *
5915 TGCATAACGGTGCATTTTGGCATAAAAGGTGCAACTAATGAAAATTAAA
1 TGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGTTAAG
* **
5964 TGCATAACGATGCATTTCAGCATAAAAGGTGCCACTAATGAAAGTTAAG
1 TGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGTTAAG
6013 TGCATAACGGTG
1 TGCATAACGGTG
6025 TCATAAAAGG
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 97 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (49 bp):
TGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGTTAAG
Found at i:9125 original size:24 final size:25
Alignment explanation
Indices: 9098--9156 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
9088 TTCTTCTACT
9098 TTATTTTT-TTCTTATAATT-TTTCA
1 TTATTTTTATT-TTATAATTATTTCA
*
9122 TTATTTTTATTTTATTATTACTTTCA
1 TTATTTTTATTTTATAATTA-TTTCA
9148 TTATTTTTA
1 TTATTTTTA
9157 ACCCCCCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 15 0.48
25 2 0.06
26 14 0.45
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (25 bp):
TTATTTTTATTTTATAATTATTTCA
Found at i:13712 original size:39 final size:39
Alignment explanation
Indices: 13617--13712 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
13607 ACTTACCTTG
* *
13617 TGCACAAAGCAAAGGAGACTGAGTTAAGGACTTACTCGG
1 TGCACAAAGCAAAGGAGCCTGAGTTAAGGACTTACTCGA
* * *
13656 TGCACAAAGCAGAGGAGCCTGA-TGTAAGGATTTA-TCCTA
1 TGCACAAAGCAAAGGAGCCTGAGT-TAAGGACTTACT-CGA
*
13695 TGCACAGAGCAAAGGAGC
1 TGCACAAAGCAAAGGAGC
13713 TTTCGGTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.04
39 46 0.96
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (39 bp):
TGCACAAAGCAAAGGAGCCTGAGTTAAGGACTTACTCGA
Found at i:18171 original size:21 final size:20
Alignment explanation
Indices: 18147--18198 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
18137 AAATACCTCG
18147 GTATCGATACTGACCCTCTAA
1 GTATCGATACTGACCC-CTAA
* * ** *
18168 GTATTGATATTGGTCCCTGA
1 GTATCGATACTGACCCCTAA
18188 GTATCGATACT
1 GTATCGATACT
18199 CCTTGAAGGG
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
GTATCGATACTGACCCCTAA
Found at i:21459 original size:45 final size:45
Alignment explanation
Indices: 21369--21500 Score: 160
Period size: 45 Copynumber: 2.9 Consensus size: 45
21359 GGTAATCATG
* * * *
21369 AAAATAAGCTCATGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTAACGAGCTTATGGAATAAATGGTAAGTATTTTGGT
*
21413 AAAATAAGCTAACGAGCTTATGAAATAAATGGTAAGTATTTTGGT
1 AAAATAAGCTAACGAGCTTATGGAATAAATGGTAAGTATTTTGGT
* * *
21458 AAAATAAGC-ATACAAGCTTATGGGATAAATGTTAAGTGATTTT
1 AAAATAAGCTA-ACGAGCTTATGGAATAAATGGTAAGT-ATTTT
21501 ATCTTATTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
44 24 0.32
45 47 0.62
46 5 0.07
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (45 bp):
AAAATAAGCTAACGAGCTTATGGAATAAATGGTAAGTATTTTGGT
Found at i:35425 original size:45 final size:45
Alignment explanation
Indices: 35337--35461 Score: 171
Period size: 45 Copynumber: 2.8 Consensus size: 45
35327 GGTAATCATC
* * *
35337 AAAATAAGTTTATGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* * *
35381 AAAATAAGCTTACGAGTTTGTGGAATAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
35426 AAAATAAGCTTACAAGCTTATGGGATAAATGGTAAG
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
35462 AGATTTTATC
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
44 22 0.31
45 48 0.69
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:37673 original size:98 final size:98
Alignment explanation
Indices: 37490--37687 Score: 288
Period size: 98 Copynumber: 2.0 Consensus size: 98
37480 TCGTCAAAAG
* * *** *
37490 AGTAGGTTTATCATGAGCACTCTCTACTAACACCATATGAAGTGGGGTCTGTCACAAAGGTAGGA
1 AGTAAGTTTATCAGGAGCACTCTCTACTAACACCATATGAAGTGGGGTCCACCACAAAGGCAGGA
*
37555 ACACACTTAATCTAAAGTGAAATTCACCCCGTC
66 ACACACTGAATCTAAAGTGAAATTCACCCCGTC
* *
37588 AGTAAGTTTCTCAGGAGCACTCTCTACTAACATCATATGAAGTGGGGTCCACCACAAAGGCAGGA
1 AGTAAGTTTATCAGGAGCACTCTCTACTAACACCATATGAAGTGGGGTCCACCACAAAGGCAGGA
* * *
37653 GCCCACTGAATCTAAAGTGAAATTCACTCCGTC
66 ACACACTGAATCTAAAGTGAAATTCACCCCGTC
37686 AG
1 AG
37688 GTAAATATAC
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (98 bp):
AGTAAGTTTATCAGGAGCACTCTCTACTAACACCATATGAAGTGGGGTCCACCACAAAGGCAGGA
ACACACTGAATCTAAAGTGAAATTCACCCCGTC
Found at i:37808 original size:21 final size:22
Alignment explanation
Indices: 37784--37830 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
37774 AAAGATCTAT
*
37784 ATAATC-TCAAAGTCCGAATTC-
1 ATAATCAT-AAAGTCCGAAGTCG
37805 ATAA-CATAAAGTCCGAAGTCG
1 ATAATCATAAAGTCCGAAGTCG
37826 ATAAT
1 ATAAT
37831 AAACATGCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (22 bp):
ATAATCATAAAGTCCGAAGTCG
Found at i:43219 original size:54 final size:55
Alignment explanation
Indices: 43161--43560 Score: 483
Period size: 54 Copynumber: 7.4 Consensus size: 55
43151 CATACGATCC
* * **
43161 TTCATAAACATACT-ATGAATTTCTTAG-ATTGCACACTTAGTGTCGAAACAATTA
1 TTCATCAACATA-TGATGAATTTCGTAGAATTGCACACTTAGTGTCGAAACGGTTA
* * * * *
43215 TTCATCAACATATGATGAATTCCATA-AATTGTACACTTAGTCCTCAAAACGGTTA
1 TTCATCAACATATGATGAATTTCGTAGAATTGCACACTTAGT-GTCGAAACGGTTA
* ** *
43270 TTCATCAACATATGATGAATTCCGT-GAATTGCACACTTAGTGTCGAAATAGTTG
1 TTCATCAACATATGATGAATTTCGTAGAATTGCACACTTAGTGTCGAAACGGTTA
* **
43324 TTCATCAACATATGATGAATTCCG-AGAATTGCACACTTAGTGTCGAAATAGTTA
1 TTCATCAACATATGATGAATTTCGTAGAATTGCACACTTAGTGTCGAAACGGTTA
* *
43378 TTCATCAACATATGATGAATTTCGT-GAATTGTACACTTAGTGTCGAAATGGTTA
1 TTCATCAACATATGATGAATTTCGTAGAATTGCACACTTAGTGTCGAAACGGTTA
* *
43432 TTCATCAACATATGATGAATTTCGTA-AATTGCACACTTAGTGTTGAAACGGTAA
1 TTCATCAACATATGATGAATTTCGTAGAATTGCACACTTAGTGTCGAAACGGTTA
* * * * * *
43486 TTCATCAACGTATGATGAATTCCG-AGAATTGCACACTTAGTGCCAAAACGATTT
1 TTCATCAACATATGATGAATTTCGTAGAATTGCACACTTAGTGTCGAAACGGTTA
*
43540 TTCATCAACATATGATTAATT
1 TTCATCAACATATGATGAATT
43561 ATGTGAATTG
Statistics
Matches: 305, Mismatches: 33, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
53 2 0.01
54 256 0.84
55 47 0.15
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (55 bp):
TTCATCAACATATGATGAATTTCGTAGAATTGCACACTTAGTGTCGAAACGGTTA
Found at i:43507 original size:162 final size:162
Alignment explanation
Indices: 43188--43570 Score: 538
Period size: 162 Copynumber: 2.4 Consensus size: 162
43178 AATTTCTTAG
* * * *
43188 ATTGCACACTTAGTGTCGAAACAATTATTCATCAACATATGATGAATTCCATAAATTGTACACTT
1 ATTGCACACTTAGTGTCGAAA-AGTTATTCATCAACATATGATGAATTTCGTGAATTGTACACTT
*
43253 AGTCCTCAAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAA
65 AGTCCTCAAAACGGTTATTCATCAACATATGATGAATTCCGTAAATTGCACACTTAGTGTCGAAA
* **
43318 TAGTTGTTCATCAACATATGATGAATTCCGAGA
130 CAGTAATTCATCAACATATGATGAATTCCGAGA
43351 ATTGCACACTTAGTGTCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAATTGTACACTT
1 ATTGCACACTTAGTGTCGAAA-AGTTATTCATCAACATATGATGAATTTCGTGAATTGTACACTT
* * * * *
43416 AGT-GTCGAAATGGTTATTCATCAACATATGATGAATTTCGTAAATTGCACACTTAGTGTTGAAA
65 AGTCCTCAAAACGGTTATTCATCAACATATGATGAATTCCGTAAATTGCACACTTAGTGTCGAAA
* *
43480 CGGTAATTCATCAACGTATGATGAATTCCGAGA
130 CAGTAATTCATCAACATATGATGAATTCCGAGA
* * *
43513 ATTGCACACTTAGTG-CCAAAACGATTTTTCATCAACATATGATTAATTAT-GTGAATTG
1 ATTGCACACTTAGTGTCGAAAA-G-TTATTCATCAACATATGATGAATT-TCGTGAATTG
43571 CTGGTAATCA
Statistics
Matches: 198, Mismatches: 19, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
160 1 0.01
161 5 0.03
162 128 0.65
163 64 0.32
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (162 bp):
ATTGCACACTTAGTGTCGAAAAGTTATTCATCAACATATGATGAATTTCGTGAATTGTACACTTA
GTCCTCAAAACGGTTATTCATCAACATATGATGAATTCCGTAAATTGCACACTTAGTGTCGAAAC
AGTAATTCATCAACATATGATGAATTCCGAGA
Found at i:48344 original size:13 final size:13
Alignment explanation
Indices: 48326--48351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48316 TTCTAATAGG
48326 TGCTGCTACTAAT
1 TGCTGCTACTAAT
48339 TGCTGCTACTAAT
1 TGCTGCTACTAAT
48352 CTCTCAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TGCTGCTACTAAT
Found at i:49422 original size:54 final size:54
Alignment explanation
Indices: 49364--49864 Score: 673
Period size: 54 Copynumber: 9.3 Consensus size: 54
49354 TTCTTTGCAA
* * * * * * * * *
49364 TGCACACGTAGTGCCCATATGGTCATTCATAAACATATTATGAATTTTGTGGAT
1 TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAAT
* *
49418 TGCACACTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAAT
** * *
49472 TAAACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTCCATGAAT
1 TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAAT
* ** *
49526 TGCACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAAT
* *
49580 TGCACACTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTTTGTGAAT
1 TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAAT
* * * * *
49634 TGCACACTTAATGCCAAAATGGTTATTCATCAACATTTCATGAATTTCGTGAAT
1 TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAAT
*
49688 TGCACACTTAGTGTCGAAACT-GTTATTCATCAACATATGATGAATTTCGTGAAT
1 TGCACACTTAGTGCCGAAA-TAGTTATTCATCAACATATGATGAATTTCGTGAAT
* * * *
49742 TGCACACTTAGTGCCAAAATGGTTATTCATCAGCATATGATGAATTTCATGAAT
1 TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAAT
* *
49796 TACACACTTAGTGTCGAAATAGTTATTCATCAACATATGATGAA-TTCTGTGAAT
1 TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTC-GTGAAT
49850 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
49865 TGTTTGGTAA
Statistics
Matches: 395, Mismatches: 49, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
53 4 0.01
54 390 0.99
55 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAATAGTTATTCATCAACATATGATGAATTTCGTGAAT
Found at i:50235 original size:22 final size:19
Alignment explanation
Indices: 50207--50260 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 19
50197 TACCCCTACC
50207 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACT-CTAT--T
50229 ATGGTATCGATACTCTATT
1 ATGGTATCGATACTCTATT
*
50248 ACGGTATCGATAC
1 ATGGTATCGATAC
50261 CATTTTTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 13 0.42
21 4 0.13
22 14 0.45
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (19 bp):
ATGGTATCGATACTCTATT
Found at i:50253 original size:19 final size:21
Alignment explanation
Indices: 50209--50260 Score: 72
Period size: 19 Copynumber: 2.5 Consensus size: 21
50199 CCCCTACCAT
*
50209 GGTATCGATACTACTATACTAT
1 GGTATCGATACTACTATA-TAC
50231 GGTATCGATACT-CTAT-TAC
1 GGTATCGATACTACTATATAC
50250 GGTATCGATAC
1 GGTATCGATAC
50261 CATTTTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
21 4 0.14
22 12 0.41
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
GGTATCGATACTACTATATAC
Found at i:51313 original size:39 final size:39
Alignment explanation
Indices: 51263--51339 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
51253 AAAAATAAAA
51263 TAAAATACTAATAATTAATCCTAATCGTAATATAACTCG
1 TAAAATACTAATAATTAATCCTAATCGTAATATAACTCG
*
51302 TAAAGTACTAATAATTAATCCTAATCGTAATATAACTC
1 TAAAATACTAATAATTAATCCTAATCGTAATATAACTC
51340 ACACTCTCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (39 bp):
TAAAATACTAATAATTAATCCTAATCGTAATATAACTCG
Found at i:53276 original size:81 final size:81
Alignment explanation
Indices: 53177--53342 Score: 226
Period size: 81 Copynumber: 2.0 Consensus size: 81
53167 GTGACACAAA
* ** * * *
53177 TGGATTTAGTGTTTTAGGATTGTCCAATGGGTTAATAGTTTGGTGTATGCTTT-CTATGTCTGGT
1 TGGATTTAGTATTTTAGGAGAGTCCAATAGGTTAATAGTTTGGTGTATG-TTTCCAATGTCAGGT
53241 GTGGTAGTGGTGTTAGG
65 GTGGTAGTGGTGTTAGG
* * * *
53258 TGGATTTGGTATTTTAGGAGAGTCTAATAGGTTAATGGTTTGGTGTATGTTTCCAATGTCAGGTT
1 TGGATTTAGTATTTTAGGAGAGTCCAATAGGTTAATAGTTTGGTGTATGTTTCCAATGTCAGGTG
53323 TGGTAGTGGTGTTAGG
66 TGGTAGTGGTGTTAGG
53339 TGGA
1 TGGA
53343 ATAAGTTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 3 0.04
81 71 0.96
ACGTcount: A:0.18, C:0.05, G:0.34, T:0.43
Consensus pattern (81 bp):
TGGATTTAGTATTTTAGGAGAGTCCAATAGGTTAATAGTTTGGTGTATGTTTCCAATGTCAGGTG
TGGTAGTGGTGTTAGG
Found at i:53377 original size:81 final size:80
Alignment explanation
Indices: 53202--53407 Score: 209
Period size: 81 Copynumber: 2.5 Consensus size: 80
53192 AGGATTGTCC
* * * * **
53202 AATGGGTTAATAGTTTGGTGTATGCTTTCTATGTCTGGTGTGGTAGTGGTGTTAGGTGGATTTGG
1 AATGGGTTAATGGTTTGGTGTATG-TTTCAATGTCAGGTGTGGTAGTGGTGTTAGGTGGAATAAG
*
53267 TATTTTAGGAGAGTCT
65 TATTTTAGGAGAATCT
* *
53283 AATAGGTTAATGGTTTGGTGTATGTTTCCAATGTCAGGTTTGGTAGTGGTGTTAGGTGGAATAAG
1 AATGGGTTAATGGTTTGGTGTATGTTT-CAATGTCAGGTGTGGTAGTGGTGTTAGGTGGAATAAG
* **
53348 TTTTTTTTGAGAATC-
65 TATTTTAGGAGAATCT
* * * *
53363 CATCGGGTTTATGG-TTAGTGTAAGTTTTCAATGTCAGGTGGTGGT
1 AAT-GGGTTAATGGTTTGGTGTATG-TTTCAATGTCAGGT-GTGGT
53408 GTTAGGTGTT
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
80 24 0.23
81 79 0.77
ACGTcount: A:0.19, C:0.06, G:0.33, T:0.42
Consensus pattern (80 bp):
AATGGGTTAATGGTTTGGTGTATGTTTCAATGTCAGGTGTGGTAGTGGTGTTAGGTGGAATAAGT
ATTTTAGGAGAATCT
Found at i:57297 original size:159 final size:162
Alignment explanation
Indices: 56993--57428 Score: 621
Period size: 159 Copynumber: 2.7 Consensus size: 162
56983 GTATATATGT
* * *
56993 ATGCTCCTC-AGC-TTGTGCTCAGGCCCTTATTTGGTATGCTGGTGGGTGTATGGTTCTGGGGAA
1 ATGCTCCTCTA-CTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAA
* ** *
57056 CCTACACATTCTGGTGTGTTCAGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTTACGGAAG
65 CCTATACATTCTGGTGTGTTTGGTTGGAGGGATTACTATGGTTTTTGAAAAATGTTTTACGGAAG
* *
57121 GGTGTTGTTGGAAGAAGTT-A-T-CGTTATTGC
130 GGTGTTGCTGGAAGAAGTTCATTACGTTACTGC
* * *
57151 ATGCTCCTCTACTTTGTGCTCAGGGCCTTACTTGATGTACTGGTGGGTGTATAGTTCTGGGGAAC
1 ATGCTCCTCTACTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAAC
* ** * *
57216 CTATACATTTTGGTGTGTTTGGTTAAAGGGATTACTATGGTTTTTGAAAAATGTTTTATGGGAGG
66 CTATACATTCTGGTGTGTTTGGTTGGAGGGATTACTATGGTTTTTGAAAAATGTTTTACGGAAGG
*
57281 GTGTTGCTGGAGGAAGTTACCATTACCGTTACTGC
131 GTGTTGCTGGAAGAAGTT--CATTA-CGTTACTGC
* *
57316 AGGCTCCTCTACTTTGTGCTCAAGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAAC
1 ATGCTCCTCTACTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAAC
57381 CTATACATTCTGGTGTGTTTGGTTGGAGGGATTACTATGGTTTTTGAA
66 CTATACATTCTGGTGTGTTTGGTTGGAGGGATTACTATGGTTTTTGAA
57429 TAAAAATATT
Statistics
Matches: 244, Mismatches: 26, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
158 10 0.04
159 119 0.49
162 1 0.00
163 1 0.00
165 113 0.46
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (162 bp):
ATGCTCCTCTACTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAAC
CTATACATTCTGGTGTGTTTGGTTGGAGGGATTACTATGGTTTTTGAAAAATGTTTTACGGAAGG
GTGTTGCTGGAAGAAGTTCATTACGTTACTGC
Found at i:60649 original size:24 final size:23
Alignment explanation
Indices: 60588--60650 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
60578 GACCGGATTC
*
60588 TGTTTTGATTTCTGATCGAATTA
1 TGTTTTGATTTCTGATCAAATTA
* ** *
60611 TGTTATGATAGCTGACTTAAATTA
1 TGTTTTGATTTCTGA-TCAAATTA
60635 TGTTTTGATTTCTGAT
1 TGTTTTGATTTCTGAT
60651 ATCTCCATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (23 bp):
TGTTTTGATTTCTGATCAAATTA
Found at i:61000 original size:165 final size:165
Alignment explanation
Indices: 60708--61487 Score: 1177
Period size: 165 Copynumber: 4.7 Consensus size: 165
60698 GAAGTATATA
* *
60708 TGCAGGCTCCTCGGC-TTGTGCTCAGGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGAG
1 TGCAGGCTCCTCTGCTTTGTGCTCA-GGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGG
* * * * * * *
60772 GAACCGACACATTCTGGTGTGTTCAGTTGGATGGACTACTATGATTTTTTATAAATTTTTTATGG
65 GAACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTTATGG
*
60837 GAGGGTGTAGTTGGAGAAAGTTACCGTTACCGTTAC
130 GAGGGTGTAGTTGGAGAAAGTTACCGTTACAGTTAC
*
60873 TGTAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGG
1 TGCAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGG
60938 AACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTTATGGG
66 AACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTTATGGG
* * *
61003 AGGGTGTTGTTGGAGGAAGTTACCTTTACAGTTAC
131 AGGGTGTAGTTGGAGAAAGTTACCGTTACAGTTAC
* * * * *
61038 TGCAGGCACCTCTACTTTATGCTCAAGGCTTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGG
1 TGCAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGG
* * * *
61103 AA-CTGACACATTCTGGTGTGTTCGGTTGGATGGACTACTATGATTTTTTATAAATGTTTTATGG
66 AACCT-ACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTTATGG
* * * *
61167 GAGGGTATAGTTAGAGAAAGCTACCGTTACCGTTAC
130 GAGGGTGTAGTTGGAGAAAGTTACCGTTACAGTTAC
*
61203 TGTAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGG
1 TGCAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGG
61268 AACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTTATGGG
66 AACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTTATGGG
* * *
61333 AGGGTGTTGTTGGAGGAAGTTACCTTTACAGTTAC
131 AGGGTGTAGTTGGAGAAAGTTACCGTTACAGTTAC
* * * * * *
61368 TGCAGACTCCTCTACTTTATGCTCAAGGCTTTACTTGGTGTACTGGTGGGTGTATGGTTCTGGGG
1 TGCAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGG
*
61433 AACCTACACATTCTGGTGTGTTCAGTTGGAGGGATTACTATGGTTTTTGAATAAA
66 AACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTG-ATAAA
61488 AATATGTTTT
Statistics
Matches: 555, Mismatches: 56, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
164 2 0.00
165 537 0.97
166 16 0.03
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.37
Consensus pattern (165 bp):
TGCAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGG
AACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTTATGGG
AGGGTGTAGTTGGAGAAAGTTACCGTTACAGTTAC
Found at i:61309 original size:330 final size:330
Alignment explanation
Indices: 60738--61480 Score: 1353
Period size: 330 Copynumber: 2.3 Consensus size: 330
60728 CTCAGGGGCC
* *
60738 TTACTTGGTGTGCTGGTGGGTGTATGGTTCTGAGGAACCGACACATTCTGGTGTGTTCAGTTGGA
1 TTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAACTGACACATTCTGGTGTGTTCAGTTGGA
* * * *
60803 TGGACTACTATGATTTTTTATAAATTTTTTATGGGAGGGTGTAGTTGGAGAAAGTTACCGTTACC
66 TGGACTACTATGATTTTTTATAAATGTTTTATGGGAGGGTATAGTTAGAGAAAGCTACCGTTACC
60868 GTTACTGTAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTC
131 GTTACTGTAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTC
60933 TGGGGAACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTT
196 TGGGGAACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTT
*
60998 ATGGGAGGGTGTTGTTGGAGGAAGTTACCTTTACAGTTACTGCAGGCACCTCTACTTTATGCTCA
261 ATGGGAGGGTGTTGTTGGAGGAAGTTACCTTTACAGTTACTGCAGACACCTCTACTTTATGCTCA
61063 AGGCT
326 AGGCT
*
61068 TTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAACTGACACATTCTGGTGTGTTCGGTTGGA
1 TTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAACTGACACATTCTGGTGTGTTCAGTTGGA
61133 TGGACTACTATGATTTTTTATAAATGTTTTATGGGAGGGTATAGTTAGAGAAAGCTACCGTTACC
66 TGGACTACTATGATTTTTTATAAATGTTTTATGGGAGGGTATAGTTAGAGAAAGCTACCGTTACC
61198 GTTACTGTAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTC
131 GTTACTGTAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTC
61263 TGGGGAACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTT
196 TGGGGAACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTT
*
61328 ATGGGAGGGTGTTGTTGGAGGAAGTTACCTTTACAGTTACTGCAGACTCCTCTACTTTATGCTCA
261 ATGGGAGGGTGTTGTTGGAGGAAGTTACCTTTACAGTTACTGCAGACACCTCTACTTTATGCTCA
61393 AGGCT
326 AGGCT
*
61398 TTACTTGGTGTACTGGTGGGTGTATGGTTCTGGGGAACCT-ACACATTCTGGTGTGTTCAGTTGG
1 TTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAA-CTGACACATTCTGGTGTGTTCAGTTGG
* * *
61462 AGGGATTACTATGGTTTTT
65 ATGGACTACTATGATTTTT
61481 GAATAAAAAT
Statistics
Matches: 398, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
330 396 0.99
331 2 0.01
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.37
Consensus pattern (330 bp):
TTACTTGGTGTGCTGGTGGGTGTATGGTTCTGGGGAACTGACACATTCTGGTGTGTTCAGTTGGA
TGGACTACTATGATTTTTTATAAATGTTTTATGGGAGGGTATAGTTAGAGAAAGCTACCGTTACC
GTTACTGTAGGCTCCTCTGCTTTGTGCTCAGGGCCTTACTTGGTGTGCTGGTGGGTGTATGGTTC
TGGGGAACCTACACATTCTGGTGTGTTCGGTTGGAGGGATTACTATGGTTTTTGATAAATGTTTT
ATGGGAGGGTGTTGTTGGAGGAAGTTACCTTTACAGTTACTGCAGACACCTCTACTTTATGCTCA
AGGCT
Found at i:63464 original size:3 final size:3
Alignment explanation
Indices: 63458--63486 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
63448 TGATGTGAAA
63458 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
63487 CATTGGCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63581 original size:29 final size:30
Alignment explanation
Indices: 63549--63613 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
63539 TAAAACTTAG
* *
63549 ACTAAATTTGAAAAA-AATAATA-TTTAGGT
1 ACTAAATAT-AAAAAGAATAATATTTTAGGC
*
63578 ACTAAA-ATAAAAAGACTAATATTTTAGGC
1 ACTAAATATAAAAAGAATAATATTTTAGGC
63607 ACTAAAT
1 ACTAAAT
63614 GTATAGCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.17
28 7 0.23
29 18 0.60
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (30 bp):
ACTAAATATAAAAAGAATAATATTTTAGGC
Found at i:68270 original size:16 final size:17
Alignment explanation
Indices: 68228--68274 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
68218 CTAGATTAAG
*
68228 TCTATTTTATG-TGATT
1 TCTATATTATGATGATT
68244 TCATATCATTATGAT-ATT
1 TC-TAT-ATTATGATGATT
68262 TCTATATTATGAT
1 TCTATATTATGAT
68275 TTATATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.37
17 6 0.22
18 10 0.37
19 1 0.04
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (17 bp):
TCTATATTATGATGATT
Found at i:70716 original size:14 final size:14
Alignment explanation
Indices: 70691--70724 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
70681 TCTCTAATTA
70691 TTAATT-TTGTTAT
1 TTAATTATTGTTAT
70704 TTAATTATTGTTAT
1 TTAATTATTGTTAT
*
70718 ATAATTA
1 TTAATTA
70725 CAATCTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (14 bp):
TTAATTATTGTTAT
Found at i:71712 original size:18 final size:19
Alignment explanation
Indices: 71689--71724 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
71679 TTTTATATTT
*
71689 AATATTATGT-TTTAGTTG
1 AATATTATATATTTAGTTG
71707 AATATTATATATTTAGTT
1 AATATTATATATTTAGTT
71725 TTTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (19 bp):
AATATTATATATTTAGTTG
Found at i:71721 original size:19 final size:18
Alignment explanation
Indices: 71689--71740 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 18
71679 TTTTATATTT
*
71689 AATATTATGTTTTAGTTG
1 AATATTATATTTTAGTTG
*
71707 AATATTATATATTTAGTTTT
1 AATATTATAT-TTTAG-TTG
*
71727 TATATTATATTTTA
1 AATATTATATTTTA
71741 AATGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.31
19 9 0.31
20 11 0.38
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (18 bp):
AATATTATATTTTAGTTG
Found at i:72438 original size:22 final size:22
Alignment explanation
Indices: 72410--72453 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
72400 CATAGGGTTC
72410 ATGGTATATTATTATGCTCTTA
1 ATGGTATATTATTATGCTCTTA
72432 ATGGTATATTATTATGCTCTTA
1 ATGGTATATTATTATGCTCTTA
72454 TTATGTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (22 bp):
ATGGTATATTATTATGCTCTTA
Found at i:77813 original size:21 final size:21
Alignment explanation
Indices: 77787--77892 Score: 108
Period size: 21 Copynumber: 5.0 Consensus size: 21
77777 GAAGCCCGAT
*
77787 GCACCTGTCATTGTTCAAGAG
1 GCACCTGTCATCGTTCAAGAG
*
77808 GCACCT-CCTATCGTTCAAGAG
1 GCACCTGTC-ATCGTTCAAGAG
* *
77829 GCCCCTATCATCGTTCAAGAG
1 GCACCTGTCATCGTTCAAGAG
** *
77850 GC-CCATCCCACCGTTCAAGAG
1 GCACC-TGTCATCGTTCAAGAG
*
77871 GCCCCTGTCATCGTTCAAGAG
1 GCACCTGTCATCGTTCAAGAG
77892 G
1 G
77893 TCCCTCCCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
20 3 0.04
21 65 0.92
22 3 0.04
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.23
Consensus pattern (21 bp):
GCACCTGTCATCGTTCAAGAG
Found at i:77846 original size:42 final size:42
Alignment explanation
Indices: 77794--77912 Score: 161
Period size: 42 Copynumber: 2.8 Consensus size: 42
77784 GATGCACCTG
* * *
77794 TCATTGTTCAAGAGGCACC-TCCTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGC-CCATCCCACCGTTCAAGAGGCCCCTA
*
77836 TCATCGTTCAAGAGGCCCATCCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCATCCCACCGTTCAAGAGGCCCCTA
*
77878 TCATCGTTCAAGAGGTCCC-TCCCACCATTCAAGAG
1 TCATCGTTCAAGAGG-CCCATCCCACCGTTCAAGAG
77913 CCCGATTCAC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
41 2 0.03
42 65 0.93
43 3 0.04
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCATCCCACCGTTCAAGAGGCCCCTA
Found at i:77908 original size:21 final size:20
Alignment explanation
Indices: 77799--77912 Score: 102
Period size: 21 Copynumber: 5.5 Consensus size: 20
77789 ACCTGTCATT
* *
77799 GTTCAAGAGGCACCTCCTATC
1 GTTCAAGAGGC-CCTCCCACC
** *
77820 GTTCAAGAGGCCCCTATCATC
1 GTTCAAGAGG-CCCTCCCACC
77841 GTTCAAGAGGCCCATCCCACC
1 GTTCAAGAGGCCC-TCCCACC
** *
77862 GTTCAAGAGGCCCCTGTCATC
1 GTTCAAGAGG-CCCTCCCACC
77883 GTTCAAGAGGTCCCTCCCACC
1 GTTCAAGAGG-CCCTCCCACC
*
77904 ATTCAAGAG
1 GTTCAAGAG
77913 CCCGATTCAC
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.04
21 69 0.91
22 4 0.05
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (20 bp):
GTTCAAGAGGCCCTCCCACC
Found at i:79314 original size:64 final size:65
Alignment explanation
Indices: 79204--79362 Score: 284
Period size: 64 Copynumber: 2.4 Consensus size: 65
79194 TTAATTGAAT
79204 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA-TTTTTTGCTT
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTT
79268 G
65 G
* *
79269 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTG
79334 TTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
79363 GTTTATTCAA
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
64 47 0.52
65 44 0.48
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.51
Consensus pattern (65 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTG
Found at i:82167 original size:25 final size:24
Alignment explanation
Indices: 82132--82186 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
82122 CTGAAACATC
*
82132 ATCAAAATCCGAGATTTTGACCAAG
1 ATCAAAATCCG-GATATTGACCAAG
* *
82157 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGATATTGACCAAG
82181 ATCAAA
1 ATCAAA
82187 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAG
Found at i:83148 original size:19 final size:20
Alignment explanation
Indices: 83133--83233 Score: 125
Period size: 20 Copynumber: 5.0 Consensus size: 20
83123 TTTCGAAATT
*
83133 AAATTCATGTTGCGAATTCG
1 AAATTCATGTTGCGAATTTG
* *
83153 AAAATCAAGTTGCGAATTTG
1 AAATTCATGTTGCGAATTTG
*
83173 AAAATCGA-GTTGCGAATTTG
1 AAATTC-ATGTTGCGAATTTG
*
83193 AAATTCA-GTTACGAATTTG
1 AAATTCATGTTGCGAATTTG
83212 AAATTCAGTGTTGCGAATTTG
1 AAATTCA-TGTTGCGAATTTG
83233 A
1 A
83234 CTTCTTTGTT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
19 19 0.26
20 40 0.56
21 13 0.18
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
AAATTCATGTTGCGAATTTG
Found at i:83284 original size:20 final size:21
Alignment explanation
Indices: 83241--83285 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
83231 TGACTTCTTT
* *
83241 GTTGCGATTTTCTAAATTCGC
1 GTTGCGATTTACTAAATTCAC
*
83262 GTTGCGATTTAC-AAATTTAC
1 GTTGCGATTTACTAAATTCAC
83282 GTTG
1 GTTG
83286 TGAATTTCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (21 bp):
GTTGCGATTTACTAAATTCAC
Found at i:83368 original size:20 final size:20
Alignment explanation
Indices: 83340--83395 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
83330 ATTAACATAT
*
83340 TCGCATTGCGAATTTGGAAA
1 TCGCGTTGCGAATTTGGAAA
* * *
83360 -CTGGGTTGCGAAATTGGAGA
1 TC-GCGTTGCGAATTTGGAAA
83380 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
83396 TTGGTCATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.30
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGGAAA
Found at i:84538 original size:43 final size:42
Alignment explanation
Indices: 84482--84714 Score: 234
Period size: 43 Copynumber: 5.4 Consensus size: 42
84472 TTTTTTAACA
* * *
84482 AAAAACACAGCAATAGGTGTTGTTATTTAGCGGCGTTTGTCAC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TCAC
* * *
84525 AAAAACGCCGCAATAGGTTTTGATTTTTAGCGGCGTTTTCCC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
* *
84567 TACAAACGCCGCAGTAGGTGTTGATATTTAGCGGCGTTTTC-C
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
* * * **
84609 ATACAAACGCCACAGTAGGTGTTGATATTTTGCGGCGTTTTTTC
1 A-A-AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
* * *
84653 AATAAACGCCGCAATAGGTGATGATGTTTAGCGGCGTTTCTCCC
1 AA-AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TCAC
* * *
84697 ACAAACGTCGCAGTAGGT
1 AAAAACGCCGCAATAGGT
84715 TTTTAGATTA
Statistics
Matches: 160, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 4 0.03
43 150 0.94
44 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC
Found at i:84598 original size:86 final size:84
Alignment explanation
Indices: 84491--84717 Score: 267
Period size: 86 Copynumber: 2.6 Consensus size: 84
84481 AAAAAACACA
* *
84491 GCAATAGGTGTTGTTATTTAGCGGCGTTTGTCACAAAAACGCCGCAATAGGTTTTGAT-TTTTAG
1 GCAATAGGTGTTGATATTTAGCGGCGTTT-TC-CAAAAACGCCGCAGTAGGTTTTGATATTTT-G
*
84555 CGGCGTTTTCCCTACAAACGCC
63 CGGCGTTTTCCCAACAAACGCC
* * *
84577 GCAGTAGGTGTTGATATTTAGCGGCGTTTTCCATACAAACGCCACAGTAGGTGTTGATATTTTGC
1 GCAATAGGTGTTGATATTTAGCGGCGTTTTCCA-A-AAACGCCGCAGTAGGTTTTGATATTTTGC
** *
84642 GGCGTTTTTTCAATAAACGCC
64 GGCGTTTTCCCAACAAACGCC
* * * *
84663 GCAATAGGTGATGATGTTTAGCGGCGTTTCTCCCACAAACGTCGCAGTAGGTTTT
1 GCAATAGGTGTTGATATTTAGCGGCGTTT-T-CCAAAAACGCCGCAGTAGGTTTT
84718 TAGATTAAGA
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
84 2 0.02
85 3 0.03
86 107 0.89
87 5 0.04
88 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (84 bp):
GCAATAGGTGTTGATATTTAGCGGCGTTTTCCAAAAACGCCGCAGTAGGTTTTGATATTTTGCGG
CGTTTTCCCAACAAACGCC
Found at i:84733 original size:129 final size:129
Alignment explanation
Indices: 84495--84734 Score: 322
Period size: 129 Copynumber: 1.9 Consensus size: 129
84485 AACACAGCAA
* ** *
84495 TAGGTGTTGTTATTTAGCGGCGTTTGTCACAAAAACGCCGCAATAGGTTTTGATTTTTAGCGGCG
1 TAGGTGTTGATATTTAGCGGCGTTTGTCACAAAAACGCCGCAATAGGTGATGATGTTTAGCGGCG
* * *
84560 TTTTCCCTACAAACGCCGCAGTAGGTGTTGATATTTAGCGGCGTTTTCCATACAAACGCCACAG
66 TTTTCCCTACAAACGCCGCAGTAGGTGTTGAGATTAAGAGGCGTTTTCCATACAAACGCCACAG
* * *
84624 TAGGTGTTGATATTTTGCGGCGTTTTTTCA-ATAAACGCCGCAATAGGTGATGATGTTTAGCGGC
1 TAGGTGTTGATATTTAGCGGCG-TTTGTCACAAAAACGCCGCAATAGGTGATGATGTTTAGCGGC
* * * *
84688 GTTTCTCCC-ACAAACGTCGCAGTAGGTTTTTAGATTAAGATGCGTTT
65 GTTT-TCCCTACAAACGCCGCAGTAGGTGTTGAGATTAAGAGGCGTTT
84735 ATATCGAAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
129 85 0.89
130 10 0.11
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (129 bp):
TAGGTGTTGATATTTAGCGGCGTTTGTCACAAAAACGCCGCAATAGGTGATGATGTTTAGCGGCG
TTTTCCCTACAAACGCCGCAGTAGGTGTTGAGATTAAGAGGCGTTTTCCATACAAACGCCACAG
Found at i:87461 original size:43 final size:44
Alignment explanation
Indices: 87384--87496 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 44
87374 TTGGACAATC
** * *
87384 GCGGCGTTTA-TATTAAAAACGTCGCT-AATGTACATAACTATG
1 GCGGCGTTTATTAACAAAAACGCCACTAAATGTACATAACTATG
* * *
87426 GCGGCGTTTATTACCAAAAACGCCACTAAAT-TACATTACTATT
1 GCGGCGTTTATTAACAAAAACGCCACTAAATGTACATAACTATG
* *
87469 GCAGC-ATT-TTAACAAAAACGCCACTAAA
1 GCGGCGTTTATTAACAAAAACGCCACTAAA
87497 GTATGAGTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 19 0.32
42 12 0.20
43 26 0.43
44 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (44 bp):
GCGGCGTTTATTAACAAAAACGCCACTAAATGTACATAACTATG
Found at i:87533 original size:41 final size:41
Alignment explanation
Indices: 87484--87578 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
87474 ATTTTAACAA
87484 AAACGCCACTAAAGTATG-AGTCTATAGCGGCGTTTTCATAC
1 AAACGCCACTAAAGTA-GAAGTCTATAGCGGCGTTTTCATAC
* *
87525 GAATGCCACTAAAGTAGAAGTCTATAGCGGCGTTTTCATAC
1 AAACGCCACTAAAGTAGAAGTCTATAGCGGCGTTTTCATAC
87566 AAACGCCACTAAA
1 AAACGCCACTAAA
87579 ATACAAATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.02
41 48 0.98
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (41 bp):
AAACGCCACTAAAGTAGAAGTCTATAGCGGCGTTTTCATAC
Found at i:90547 original size:32 final size:33
Alignment explanation
Indices: 90497--90575 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 33
90487 ATTTAAAATA
90497 TTAATTAT-TAA-ATTATATTTATTG-ATAATT
1 TTAATTATATAATATTATATTTATTGTATAATT
*
90527 TTAATTATATAATATTATATTTCTTGTTATAATT
1 TTAATTATATAATATTATATTTATTG-TATAATT
*
90561 AT-ATTATTATAATAT
1 TTAATTA-TATAATAT
90576 CTAATATCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 8 0.19
31 3 0.07
32 12 0.29
33 4 0.10
34 15 0.36
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (33 bp):
TTAATTATATAATATTATATTTATTGTATAATT
Found at i:90744 original size:18 final size:19
Alignment explanation
Indices: 90721--90756 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
90711 TACTTTTTAA
90721 TATTTTAATAA-TAATTAT
1 TATTTTAATAAGTAATTAT
90739 TATTTTAATAAGTAATTA
1 TATTTTAATAAGTAATTA
90757 ATATAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TATTTTAATAAGTAATTAT
Found at i:90843 original size:32 final size:32
Alignment explanation
Indices: 90799--90859 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
90789 AATAATTAAT
90799 ATAATTTATAATAATTTAATTTAATAAAATATG
1 ATAATTTATAATAATTTAATTT-ATAAAATATG
* *
90832 ATAATTT-TAATATTTTTATTTATAAAAT
1 ATAATTTATAATAATTTAATTTATAAAAT
90860 TGTAGATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 7 0.27
32 12 0.46
33 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (32 bp):
ATAATTTATAATAATTTAATTTATAAAATATG
Found at i:90947 original size:25 final size:24
Alignment explanation
Indices: 90903--90968 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
90893 TAAATATTGT
90903 TAAATAA-ATTATTATATTATTTTAA
1 TAAATAATATTATTATATTA--TTAA
* *
90928 -AAATAGTATTATTATTTTATTAA
1 TAAATAATATTATTATATTATTAA
90951 TAAATAATATTATT-TATT
1 TAAATAATATTATTATATT
90969 GTATATTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 7 0.20
24 17 0.49
25 11 0.31
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TAAATAATATTATTATATTATTAA
Found at i:96893 original size:43 final size:43
Alignment explanation
Indices: 96840--97081 Score: 279
Period size: 43 Copynumber: 5.6 Consensus size: 43
96830 AATGTAATTA
* *
96840 GCGGCATTTGTATCCAAAAACGCCGCTATAGGTCT-GACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTCGACCTTTT
* *
96883 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGATCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
* * * * * * *
96926 ACAGCGTTTGTTCCAAAAATGCCGCTATAGATATCAATCTTTC
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
* * * *
96969 ACGACGTTTGTTCCAAAAACGTCGCTATAGATCTCTACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
*
97012 GCGGCGTTTGTTCCAAAAACGTCGCTATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
* * * **
97055 GCGGTGTTTTTTTCTCAAACGCCGCTA
1 GCGGCGTTTGTTCCAAAAACGCCGCTA
97082 ACTTTAGCTA
Statistics
Matches: 172, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 21 0.12
43 151 0.88
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
Found at i:100243 original size:3 final size:3
Alignment explanation
Indices: 100235--100309 Score: 91
Period size: 3 Copynumber: 25.3 Consensus size: 3
100225 TGGCTTATTT
* *
100235 ATA ATA ATA ATA ATT TTA ATA ATA ATA ATA ATAA ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* *
100280 ATA ATA ATA A-A ATA ATA ATA TTA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
100310 AAAATGGATA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 4 0.07
3 54 0.89
4 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100795 original size:113 final size:113
Alignment explanation
Indices: 100648--101419 Score: 1006
Period size: 113 Copynumber: 6.8 Consensus size: 113
100638 TAGAGTCATG
* * *
100648 CAAAAGGTCGAATAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
100713 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
* *
100761 CAAAAGGTTTGAACAAATT-TTCTGATTATAAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAGG-TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
100824 ATTATGAACTTCCTATGGAAAAGTTGATTCATCGAATGATGAATTCAAA
65 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
*
100873 CAAAAAGTTTGAACAAATTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTC
1 C-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
100937 ATTATGAACTTCCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
65 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
* * *
100986 CAAAAGGTTTGAACAAATTGTTCTTATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTATTCTC
1 CAAAAGG-TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
101050 ATTATGAAC-TTCATCTGGAAAAGTTAATCCATTGAGTGATGAATTCAAA
65 ATTATGAACTTTC-TCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
* * * *
101099 CAAAAAGTTGAACAAAATCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * * ** *
101164 TTATGAACTCTAC-CTGGCAATGCTGATCTATC-AAGTCATGGATTTGAG
66 TTATGAACT-TTCTCTGGAAAAGTTGATCCATCGAA-TGATGAATTCAAA
* *
101212 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * **
101277 TTATGAACTTTCTCTGGCAATGCTAATCAATCGGGTGATGAATT-AAA
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
* * *
101324 GAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
101389 ATTATGAACTCTAC-CTGG-AATGTTGATCCAT
65 ATTATGAACT-TTCTCTGGAAAAGTTGATCCAT
101420 TGAGTAATGG
Statistics
Matches: 583, Mismatches: 63, Indels: 27
0.87 0.09 0.04
Matches are distributed among these distances:
112 131 0.22
113 440 0.75
114 10 0.02
115 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
Found at i:101332 original size:339 final size:337
Alignment explanation
Indices: 100649--101436 Score: 1029
Period size: 338 Copynumber: 2.3 Consensus size: 337
100639 AGAGTCATGC
* * *
100649 AAAAGGTCGAATAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
100714 TATGAACTTTC-TCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAAGGTTTGAACAAA
66 TATGAAC-TTCATCTGGAAAAGTTGATCCATTGAGTGATGAATTCAAACAAAAAGTTTGAACAAA
* * *
100778 TTTTCTGATTATAAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTATGGA
130 TCTTCTCATTATAAACTTCTTCTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTTCC-ATGGA
* * * *
100843 AAAGTTGATTCATCGAATGATGAATTCAAACAAAAAGTTTGAACAAATTCTTCTCATTATGAACT
194 AAAGCTGATTCATCGAATCATGAATTCAAACAAAAAGGTTAAACAAATTCTTCTCATTATGAACT
* * *
100908 TCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGTTGATCCATCGAA
259 TCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCTAATCAATCGAA
*
100973 TGATGAATTCAAAC
324 TGATGAATTCAAAA
* * *
100987 AAAAGGTTTGAACAAATTGTTCTTATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTATTCTCA
1 AAAAGG-TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
101051 TTATGAACTTCATCTGGAAAAGTTAATCCATTGAGTGATGAATTCAAACAAAAAG-TTGAACAAA
65 TTATGAACTTCATCTGGAAAAGTTGATCCATTGAGTGATGAATTCAAACAAAAAGTTTGAAC-AA
* *
101115 ATCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACC-T
129 ATCTTCTCATTATAAACTTCTTC-TCCTTCTTCAGACGAGTTCTTCTCATTATGAACT-T-CCAT
* * * ** * *
101179 GGCAATGCTGA-TCTATC-AAGTCATGGATTTGAGC-AAAAGGTTAAACAAGTTCTTCTCATTAT
191 GGAAAAGCTGATTC-ATCGAA-TCATGAATTCAAACAAAAAGGTTAAACAAATTCTTCTCATTAT
* * *
101241 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAATGCTAATCA
254 GAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCTAATCA
**
101306 ATCGGGTGATGAATT-AAAGA
318 ATCGAATGATGAATTCAAA-A
* *
101326 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
101391 TATGAAC-TCTACCTGG-AATGTTGATCCATTGAGTAATGGATTCAAA
66 TATGAACTTC-ATCTGGAAAAGTTGATCCATTGAGTGATGAATTCAAA
101437 TCTTTGCTAA
Statistics
Matches: 393, Mismatches: 45, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
337 9 0.02
338 196 0.50
339 185 0.47
340 1 0.00
341 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (337 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTCATCTGGAAAAGTTGATCCATTGAGTGATGAATTCAAACAAAAAGTTTGAACAAAT
CTTCTCATTATAAACTTCTTCTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTTCCATGGAAA
AGCTGATTCATCGAATCATGAATTCAAACAAAAAGGTTAAACAAATTCTTCTCATTATGAACTTC
TTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCTAATCAATCGAATG
ATGAATTCAAAA
Found at i:101846 original size:22 final size:22
Alignment explanation
Indices: 101789--101846 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
101779 AATAAAGCTT
* *
101789 TCATATTTGAAAAGAGAATATA
1 TCATCTTTGAAGAGAGAATATA
*
101811 TCATCTTT-AGAGAGAGAATCTA
1 TCATCTTTGA-AGAGAGAATATA
101833 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
101847 TGTAAATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATATA
Found at i:103334 original size:75 final size:70
Alignment explanation
Indices: 103170--103343 Score: 197
Period size: 70 Copynumber: 2.4 Consensus size: 70
103160 CATAATGATG
* *
103170 TGGGCCTTCAGCATGCCCCAACATTTGCTGATATGAATATTCAAAATGTTATTCCAATTTCTGAT
1 TGGGCTTTCAGCATGCCCCAACATTTGCTGATATGAATATTCAAAATGTTATTCCAATTTATGAT
103235 TAAAA
66 TAAAA
* * * * *
103240 TGGGCTTTCAACATGCCCCAGCATTTGTTGATGTGAATATTCAAAATGCGTCAATATTCCTGA-T
1 TGGGCTTTCAGCATGCCCCAACATTTGCTGATATGAATATTCAAAAT--GT---TATTCC-AATT
*
103304 TATGATTGAAA
60 TATGATTAAAA
* *
103315 TGGGTTTTCAGCATACCCCAACATTTGCT
1 TGGGCTTTCAGCATGCCCCAACATTTGCT
103344 TCTTGTTGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
70 42 0.49
72 2 0.02
75 40 0.47
76 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (70 bp):
TGGGCTTTCAGCATGCCCCAACATTTGCTGATATGAATATTCAAAATGTTATTCCAATTTATGAT
TAAAA
Found at i:109480 original size:14 final size:14
Alignment explanation
Indices: 109461--109499 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
109451 GCAAAGATTC
109461 CAAATGTAAATATG
1 CAAATGTAAATATG
*
109475 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
109489 TAAATGTAAAT
1 CAAATGTAAAT
109500 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:109831 original size:43 final size:44
Alignment explanation
Indices: 109747--109833 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 44
109737 ATGTGCATCA
* * *
109747 AACAAAACTTTTACATGCAGGGGACAACTTTTAGTCATAACTTC
1 AACAAAACTTTTACATACAGGGGACAACTTTCACTCATAACTTC
* * * *
109791 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATACAGGGGACAACTTTCACTCATAACTTC
109834 TCTAAAGCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 28 0.78
44 8 0.22
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (44 bp):
AACAAAACTTTTACATACAGGGGACAACTTTCACTCATAACTTC
Found at i:112130 original size:23 final size:23
Alignment explanation
Indices: 112071--112130 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 23
112061 TAACTAAAAT
*
112071 AAATGAAATTAAAATTATAATATAA
1 AAAT-AAA-TAAAACTATAATATAA
112096 AAA-ACAATAAAACTATAATA-AA
1 AAATA-AATAAAACTATAATATAA
112118 AAATAAATGAAAA
1 AAATAAAT-AAAA
112131 TATTGAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
22 8 0.26
23 18 0.58
24 2 0.06
25 3 0.10
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (23 bp):
AAATAAATAAAACTATAATATAA
Found at i:113340 original size:3 final size:3
Alignment explanation
Indices: 113332--113406 Score: 91
Period size: 3 Copynumber: 25.3 Consensus size: 3
113322 TGGCCTGTTT
* *
113332 ATA ATA ATA ATA ATT TTA ATA ATA ATA ATA ATAA ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* *
113377 ATA ATA ATA A-A ATA ATA ATA TTA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
113407 AAAATTGGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 4 0.07
3 54 0.89
4 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:119885 original size:35 final size:35
Alignment explanation
Indices: 119845--119959 Score: 121
Period size: 35 Copynumber: 3.2 Consensus size: 35
119835 GTACAAGTTA
119845 GCCACCAAATATGAAATTCACATGTTCAAAGTTTG
1 GCCACCAAATATGAAATTCACATGTTCAAAGTTTG
* * *
119880 GCCACCAACCA-AAGAATTTTCTA-ATGTGT-ACAAG-TTA
1 GCCACCAA--ATATGAA-ATTC-ACATGT-TCA-AAGTTTG
119917 GCCACCAAATATGAAATTCACATGTTCAAAGTTTG
1 GCCACCAAATATGAAATTCACATGTTCAAAGTTTG
119952 GCCACCAA
1 GCCACCAA
119960 CCAAGATGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
34 5 0.08
35 27 0.42
36 8 0.12
37 19 0.30
38 5 0.08
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (35 bp):
GCCACCAAATATGAAATTCACATGTTCAAAGTTTG
Found at i:119911 original size:72 final size:72
Alignment explanation
Indices: 119794--119977 Score: 316
Period size: 72 Copynumber: 2.5 Consensus size: 72
119784 CAAGAACAAT
119794 ATGTTCAAAGTTTGGCCA-CATACCAAAGAATTTTCCAATGTGTACAAGTTAGCCACCAAATATG
1 ATGTTCAAAGTTTGGCCACCA-ACCAAAGAATTTTCCAATGTGTACAAGTTAGCCACCAAATATG
119858 AAATTCAC
65 AAATTCAC
*
119866 ATGTTCAAAGTTTGGCCACCAACCAAAGAATTTTCTAATGTGTACAAGTTAGCCACCAAATATGA
1 ATGTTCAAAGTTTGGCCACCAACCAAAGAATTTTCCAATGTGTACAAGTTAGCCACCAAATATGA
119931 AATTCAC
66 AATTCAC
*
119938 ATGTTCAAAGTTTGGCCACCAACCAAGATGAAATTTCCAA
1 ATGTTCAAAGTTTGGCCACCAACCAA-A-GAATTTTCCAA
119978 CTTGTCAACT
Statistics
Matches: 106, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
72 94 0.89
73 3 0.03
74 9 0.08
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (72 bp):
ATGTTCAAAGTTTGGCCACCAACCAAAGAATTTTCCAATGTGTACAAGTTAGCCACCAAATATGA
AATTCAC
Found at i:119922 original size:37 final size:36
Alignment explanation
Indices: 119815--119924 Score: 104
Period size: 37 Copynumber: 3.0 Consensus size: 36
119805 TTGGCCACAT
119815 ACCAAAGAATTTTCCAATGTGTACAAGTTAGCCACCA
1 ACCAAAGAATTTT-CAATGTGTACAAGTTAGCCACCA
* * *
119852 A--ATATGAA-ATTCACATGT-T-CAAAGTTTGGCCACCA
1 ACCA-AAGAATTTTCA-ATGTGTAC-AAG-TTAGCCACCA
119887 ACCAAAGAATTTTCTAATGTGTACAAGTTAGCCACCA
1 ACCAAAGAATTTTC-AATGTGTACAAGTTAGCCACCA
119924 A
1 A
119925 ATATGAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
33 1 0.02
34 6 0.11
35 17 0.30
36 8 0.14
37 19 0.33
38 5 0.09
39 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (36 bp):
ACCAAAGAATTTTCAATGTGTACAAGTTAGCCACCA
Found at i:126214 original size:42 final size:42
Alignment explanation
Indices: 126108--126429 Score: 430
Period size: 42 Copynumber: 7.8 Consensus size: 42
126098 TGACCAACAA
**
126108 AATCGCAACGCGATATC--AAAATCGCAACGCGAT-TTAGAA-
1 AATCGCAACGCGAT-TCAGAAAATCGCAACGCGATCTTCCAAG
* * ** * *
126147 AAGCGCAACGTTGA-AAAGAAGATCGCAACACGATCTTCCAAG
1 AATCGCAACG-CGATTCAGAAAATCGCAACGCGATCTTCCAAG
* *
126189 AATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAG
*
126231 AATCGCAACGCGATTCAGAAAATCGCAACGCGA--TT-CAGAA
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCA-AG
126271 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAG
*
126313 AATCGCAACGCGATTAAGAAAATCGCAACGCGA--TTCCAAG
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAG
126353 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAG
*
126395 AATCGCAACGCGATTCGGAAAATCGCAACGCGATC
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATC
126430 CAGAAAATCG
Statistics
Matches: 248, Mismatches: 23, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
39 11 0.04
40 91 0.37
41 6 0.02
42 138 0.56
43 2 0.01
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (42 bp):
AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAG
Found at i:126275 original size:82 final size:82
Alignment explanation
Indices: 126189--126448 Score: 450
Period size: 82 Copynumber: 3.2 Consensus size: 82
126179 ATCTTCCAAG
* *
126189 AATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAAT
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAAT
126254 CGCAACGCGATTCAGAA
66 CGCAACGCGATTCAGAA
*
126271 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAAT
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAAT
*
126336 CGCAACGCGATTCCA-AG
66 CGCAACGCGATT-CAGAA
*
126353 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCGGAAAAT
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAAT
*
126418 CGCAACGCGATCCAGAA
66 CGCAACGCGATTCAGAA
126435 AATCGCAACGCGAT
1 AATCGCAACGCGAT
126449 CTTCCAAGAA
Statistics
Matches: 168, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
81 2 0.01
82 164 0.98
83 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (82 bp):
AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAAT
CGCAACGCGATTCAGAA
Found at i:126343 original size:62 final size:60
Alignment explanation
Indices: 126106--126448 Score: 333
Period size: 62 Copynumber: 5.6 Consensus size: 60
126096 AATGACCAAC
* * * * **
126106 AAAATCGCAACGCGATATC-AAAATCGCAACGCGATTTAGAAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACGCGATTTCAAAAATCGCAACGCGATTCAGAAAATCGCAACG-CGATTCAG
* * * * *
126165 AAGATCGCAACACGATCTTCCAAGAATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGAT-TT-CAAAAATCGCAACGCGATTCAGAAAATCGCAACGCGA--TT-CAG
*
126229 AGAATCGCAACGCGA-TTCAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTCA-AAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAG
* *
126289 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGAT-TT-CAAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATT-CAG
* * *
126351 AGAATCGCAACGCGA-TTCAGAAAATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATTCGG
1 AAAATCGCAACGCGATTTCA-AAAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATTCAG
*
126413 AAAATCGCAACGCGA-TCCAGAAAATCGCAACGCGAT
1 AAAATCGCAACGCGATTTCA-AAAATCGCAACGCGAT
126449 CTTCCAAGAA
Statistics
Matches: 239, Mismatches: 27, Indels: 35
0.79 0.09 0.12
Matches are distributed among these distances:
59 18 0.08
60 34 0.14
61 6 0.03
62 163 0.68
63 5 0.02
64 12 0.05
65 1 0.00
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (60 bp):
AAAATCGCAACGCGATTTCAAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAG
Found at i:126449 original size:20 final size:20
Alignment explanation
Indices: 126106--126448 Score: 342
Period size: 20 Copynumber: 16.8 Consensus size: 20
126096 AATGACCAAC
126106 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
126125 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* * **
126145 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
* *
126165 AAGATCGCAACACGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * *
126187 AGAATCGCAATGCGATTCAT
1 AAAATCGCAACGCGATTCAG
126207 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
126229 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
126249 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
126269 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
126289 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
126311 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
126331 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
126351 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
126371 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
126393 AGAATCGCAACGCGATTCGG
1 AAAATCGCAACGCGATTCAG
*
126413 AAAATCGCAACGCGATCCAG
1 AAAATCGCAACGCGATTCAG
126433 AAAATCGCAACGCGAT
1 AAAATCGCAACGCGAT
126449 CTTCCAAGAA
Statistics
Matches: 272, Mismatches: 30, Indels: 43
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.00
19 26 0.10
20 176 0.65
21 3 0.01
22 59 0.22
23 7 0.03
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:126553 original size:6 final size:6
Alignment explanation
Indices: 126542--126589 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
126532 AGAATCGCAA
126542 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
1 CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT CGTGGT
126590 AATACGTGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
CGTGGT
Found at i:126744 original size:20 final size:20
Alignment explanation
Indices: 126685--127120 Score: 390
Period size: 20 Copynumber: 21.2 Consensus size: 20
126675 GAATTTACTC
*
126685 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
126705 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
*
126727 ATTTTCTGAATTGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
126747 ATTTTCCGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
126767 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
*
126789 ATTTACTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
126809 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
126829 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
*
126851 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
126871 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
126891 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
126911 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
126933 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
126953 ATTTTATGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
126973 ATTTTCTGAATCGCGTTTGCG
1 ATTTTCTGAATCGCG-TTGCG
*
126994 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
* *
127016 ATTTTATGAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
127036 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
* * *
127058 ATCTTCT--TTCAACGTTGCG
1 ATTTTCTGAATC-GCGTTGCG
* *
127077 CTTTTCTAAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
127097 -GTTT-TGATATCGCGTTGCG
1 ATTTTCTGA-ATCGCGTTGCG
127116 ATTTT
1 ATTTT
127121 GTTGGTCATT
Statistics
Matches: 344, Mismatches: 40, Indels: 64
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.01
19 28 0.08
20 179 0.52
21 44 0.13
22 83 0.24
23 6 0.02
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.39
Consensus pattern (20 bp):
ATTTTCTGAATCGCGTTGCG
Found at i:126762 original size:62 final size:62
Alignment explanation
Indices: 126693--127018 Score: 407
Period size: 62 Copynumber: 5.2 Consensus size: 62
126683 TCATTTTCTT
* *
126693 AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATTGCGTTGCGATTTTCCG
1 AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTTCGG
* **
126755 AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTACTGAATCGCGTTGCGATTTTCTT
1 AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTTCGG
*
126817 AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTT-GG
1 AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT-TTCGG
*** * *
126879 AATCGCGTTGCGATT-TTCTTA-ATCGCGTTGCGATTCTT-GGAAGATCGCGTTGCGATTTTCTG
1 AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATTTTCGG
*
126941 AATCGCGTTGCGATT-TT--ATGAATCGCGTTGCGATTTTCTGAATCGCGTTTGCGATTCTT-GG
1 AATCGCGTTGCGATTCTTGGAAG-ATCGCGTTGCGATTTTCTGAATCGCG-TTGCGATT-TTCGG
127002 AAGATCGCGTTGCGATT
1 -A-ATCGCGTTGCGATT
127019 TTATGAATCG
Statistics
Matches: 234, Mismatches: 18, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
60 20 0.09
61 20 0.09
62 178 0.76
63 16 0.07
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (62 bp):
AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTTTCGG
Found at i:126864 original size:82 final size:83
Alignment explanation
Indices: 126685--127064 Score: 494
Period size: 82 Copynumber: 4.6 Consensus size: 83
126675 GAATTTACTC
* *
126685 ATTTTCTTAATCGCGTTGCGA-TTCTTGGAAGATCGCGTTGCGATTTTCTGAATTGCGTTGCGAT
1 ATTTTCTGAATCGCGTTGCGATTTCTTGG-A-ATCGCGTTGCGATTTTCTGAATCGCGTTGCGAT
*
126749 T-TTCCG-A-ATCGCGTTGCG
64 TCTT-GGAAGATCGCGTTGCG
* *
126767 ATTCTT-GGAAGATCGCGTTGCGATTTAC-T-GAATCGCGTTGCGATTTTCTTAATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGATTT-CTTGGAATCGCGTTGCGATTTTCTGAATCGCGTTGCG
126829 ATTCTTGGAAGATCGCGTTGCG
62 ATTCTTGGAAGATCGCGTTGCG
* *
126851 ATTTTCTTAATCGCGTTGCGA-TTCTTGGAATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTC
1 ATTTTCTGAATCGCGTTGCGATTTCTTGGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTC
126915 TTGGAAGATCGCGTTGCG
66 TTGGAAGATCGCGTTGCG
126933 ATTTTCTGAATCGCGTTGCGATTT-TAT-GAATCGCGTTGCGATTTTCTGAATCGCGTTTGCGAT
1 ATTTTCTGAATCGCGTTGCGATTTCT-TGGAATCGCGTTGCGATTTTCTGAATCGCG-TTGCGAT
126996 TCTTGGAAGATCGCGTTGCG
64 TCTTGGAAGATCGCGTTGCG
* * *
127016 ATTTTATGAATCGCATTGCGA-TTCTTGGAAGATCGCGTTGCGATCTTCT
1 ATTTTCTGAATCGCGTTGCGATTTCTTGG-A-ATCGCGTTGCGATTTTCT
127065 TTCAACGTTG
Statistics
Matches: 268, Mismatches: 12, Indels: 33
0.86 0.04 0.11
Matches are distributed among these distances:
80 1 0.00
81 3 0.01
82 154 0.57
83 61 0.23
84 28 0.10
85 20 0.07
86 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (83 bp):
ATTTTCTGAATCGCGTTGCGATTTCTTGGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTC
TTGGAAGATCGCGTTGCG
Found at i:131854 original size:25 final size:24
Alignment explanation
Indices: 131826--131882 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
131816 CGATACTCAT
* *
131826 AATCCGACGCTTG-AAAAGGTTCCC
1 AATCCGACACTGGAAAAAGG-TCCC
*
131850 AAATCCAACACTGGAAAAAGGTCCC
1 -AATCCGACACTGGAAAAAGGTCCC
131875 AATCCGAC
1 AATCCGAC
131883 TCAAAAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 7 0.26
25 14 0.52
26 6 0.22
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.16
Consensus pattern (24 bp):
AATCCGACACTGGAAAAAGGTCCC
Found at i:133136 original size:32 final size:32
Alignment explanation
Indices: 133100--133175 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 32
133090 GTGCTCTTGT
*
133100 ATTCAAATAATGCATACCAAAGTCAGTGATGC
1 ATTCAGATAATGCATACCAAAGTCAGTGATGC
* * * *
133132 ATTCAGATAATGCTTAGCAGAGTCAGTGTTGC
1 ATTCAGATAATGCATACCAAAGTCAGTGATGC
133164 ATTCAGATAATG
1 ATTCAGATAATG
133176 AACAAAAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (32 bp):
ATTCAGATAATGCATACCAAAGTCAGTGATGC
Found at i:143906 original size:1 final size:1
Alignment explanation
Indices: 143902--143954 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
143892 AAAAAATCAG
* * * * * *
143902 AAAAAAGAAAAGAAAAAAAAAAAAAAAAGAAAAAGAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
143955 GAAAGCCAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:143909 original size:22 final size:20
Alignment explanation
Indices: 143868--143948 Score: 76
Period size: 22 Copynumber: 3.9 Consensus size: 20
143858 TCAACAAGAA
* *
143868 AAGAAAAGAAAA-AAAGAAG
1 AAGAAAAAAAAAGAAAAAAG
143887 AAGAAAAAAAATCAGAAAAAAG
1 AAGAAAAAAAA--AGAAAAAAG
*
143909 AAAAGAAAAAAAAAAAAAAAAG
1 --AAGAAAAAAAAAGAAAAAAG
143931 AA-AAAGAAAAAAGAAAAA
1 AAGAAA-AAAAAAGAAAAA
143949 GAAAAAGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
19 13 0.25
20 13 0.25
21 1 0.02
22 14 0.27
24 11 0.21
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.01
Consensus pattern (20 bp):
AAGAAAAAAAAAGAAAAAAG
Found at i:143918 original size:6 final size:6
Alignment explanation
Indices: 143866--143958 Score: 93
Period size: 6 Copynumber: 15.3 Consensus size: 6
143856 CTTCAACAAG
* * *
143866 AAAAGA AAAGAAA AAAAGA AGAAGA AAAA-A AATCAGA AAAA-A GAAAAGA
1 AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA AA-AAGA AAAAGA -AAAAGA
*
143915 AAAA-A AAAAAA AAAAGA AAAAGAA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA AA
143959 GCCAAGGAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
5 9 0.12
6 49 0.67
7 15 0.21
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:146785 original size:2 final size:2
Alignment explanation
Indices: 146778--146816 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
146768 GTTATTTTCT
*
146778 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
146817 GTTATTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:148383 original size:21 final size:20
Alignment explanation
Indices: 148359--148420 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
148349 AAGAAAAGGC
148359 AAAAAGAAAAAAAAATCAGAA-
1 AAAAAGAAAAAAAAA--AGAAT
148380 AAAAAGAAAAGAAAAAAGAAT
1 AAAAAGAAAA-AAAAAAGAAT
*
148401 AAAAAGTCAAAAAAAAAGAA
1 AAAAAG-AAAAAAAAAAGAA
148421 AGCCAAGGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 25 0.68
22 8 0.22
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.05
Consensus pattern (20 bp):
AAAAAGAAAAAAAAAAGAAT
Found at i:148405 original size:33 final size:34
Alignment explanation
Indices: 148340--148421 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 34
148330 AATTGGAGTA
*
148340 CAAAAAGAAAAGAAAAGGCAAAAAGAAAAAAAAAT
1 CAAAAA-AAAAGAAAAGGAAAAAAGAAAAAAAAAT
* * *
148375 CAGAAAAAAAGAAAA-GAAAAAAGAATAAAAAGT
1 CAAAAAAAAAGAAAAGGAAAAAAGAAAAAAAAAT
148408 CAAAAAAAAAGAAA
1 CAAAAAAAAAGAAA
148422 GCCAAGGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 28 0.67
34 9 0.21
35 5 0.12
ACGTcount: A:0.78, C:0.05, G:0.13, T:0.04
Consensus pattern (34 bp):
CAAAAAAAAAGAAAAGGAAAAAAGAAAAAAAAAT
Found at i:155301 original size:24 final size:24
Alignment explanation
Indices: 155251--155301 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
155241 TAATGCTTGT
* * *
155251 AAAGGGACCTAAATTTGATGTTGG
1 AAAGGGACCTAAATATGATGCTAG
*
155275 AAAGGGTCCTAAATATGATGCTAG
1 AAAGGGACCTAAATATGATGCTAG
155299 AAA
1 AAA
155302 ATGGTATCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (24 bp):
AAAGGGACCTAAATATGATGCTAG
Found at i:155801 original size:955 final size:952
Alignment explanation
Indices: 153918--156026 Score: 2537
Period size: 955 Copynumber: 2.2 Consensus size: 952
153908 CTGACAAGTG
* *
153918 GTACAATAAGAGCAAT-ATGAGTGTCACTACTTAGTAATGAACTTGATTCAGATGTTGGGCTAGC
1 GTACAATAAGAGCAATCA-GAGTGTCACTACTTAATAATGAACTCGATTCAGATGTTGGGCTAGC
* * *
153982 AAGTAATACATCTAGTGAACAAACAGAATCAATAACTTTCGTAAAATCATGAAATG-CGTAGAGA
65 AAGTAATACATCTAGTGAAC-AACAGAATCAATAAATATCATAAAATCATGAAA-GACGTAGAGA
* * * * * * *
154046 TTTCTTTACAGACAGAAATGACTAAAACACCCTTAAGTAACAAATGAAGAGAATATAGCATCCTA
128 TTTCTTTAGAGACAGAAATGACTAAAACACCCTTAAGTAACAAATGAACAAAATAGAGAAGCTTA
* * * ** *
154111 ATAAACTAATAGCAGTAACAAACTAATAAACCCTTGTATAATGTTTAAGATAAGAGAACGATGAG
193 ATAAACTAACAACAGTAACAAACTAATAAACCCTTGCATAACATTTAAGATAAGAGAACGATGAA
* *
154176 ATTACAACTGGTAAAGGGATGACCCCACCTTAATGTGTCGAATCTGGAAGAACAATAGCGATAAT
258 ATTACAACTAGTAAAGGGATGACCCCACCTTAATGTGTCGAATCTGGAAGAACAATAGCAATAAT
** * **
154241 GGTAGAACAATATCAATATTAAACAAAAAGTATTGTTACTCATAATCCGATGCTAAAAAAAGGTT
323 GGTAGAACAATATCAATATTAAACAAAAAGTATCATTACTCATAATCCAATGCTAAAAAAAGGGA
* *
154306 CCAAATTGATGCTGGAAAAGGGTACTAAATCTGACGCTAGAAAAGGGTATCGATACAGAAATAGG
388 CCAAATTGATGCTGGAAAAGGGTACTAAATATGACGCTAGAAAAGGGTATCGATACAAAAATAGG
*
154371 AATATCAATATTATCTTCTAGTATCAACACTAAGGTACTTGGTATCAATACTAGGCCACCTTTTA
453 AATATCAATATTATCTTCTAGTATCAACACTAAGGTACTTGGTATCAATACTAGCCCACCTTTTA
* * *
154436 GCAAACAAAAGCTATTTTTGGTACCGATACTCATAGGGCTATCAAACATGACTCTAGGGTATCGA
518 GCAAACAAAAACCATTTTTGGTACCGATACTCATAGGGCTATCAAACATGACCCTAGGGTATCGA
* ** * * *
154501 TACTACAAGTAAAGTATCGATACTACCCATTTTTTATTGTTATATTTGACCTTGTTAAGGCCCAC
583 TACTACAAGTAAAGTATCGATACTACCCACTTTGGATGGTTAGATTTGACCTCGTTAAGGCCCAC
* *
154566 AAGAGCTAAAGATGATTCGCAATGGTGGAACTTAGTCTGTGAGAGACACAAATGAACAAAAGGGC
648 AAGAGCTAAAGATGATCCGCAACGGTGGAACTTAGTCTGTGAGAGACACAAATGAACAAAAGGGC
* * * **
154631 ATAAAAACACTTGTAGAAATGGGTTACAATTGATGTAACTATACGAAGTGTAATATGTCAAAGTA
713 ATAAAAACACTCGTAGAAATAGGTTACAACTGATGTAACTATACGAAGTGTAATACATCAAAGTA
* * * * * * * *
154696 TCTTTAGTCGAGATATTATCTAATAATTAAAAATGATATTGTCGTAGAGGAATTATCGACAAGCG
778 TCTTTAGTCAAGAAAGTATCGAATAATTAAAAATGAGATTGTCGCAGAGGAATTACCAACAAGCG
* ** * * *
154761 GTATGATAAGTAAGTCAGATTAAGTAGTAGTAAAAGTTATGTACTTTAGGAACAATAGTGAACCG
843 ATACCATAAGTAAGTCAGATTAAGTAGTAGCAAAAGTCATGTACTTGAGGAACAATAGTGAACCG
* * *
154826 AGAACATATAAGTTGTCCCTCCAATTCAAGAGGTATTGAGGAGAA
908 AGAACATATAAATAGTCCCTCCAATTCAAGAGGTATTGAGAAGAA
* * ** *
154871 GTACAATAGGAACAATCAGAGTGTCGTTACTTAATAATGAACTCGTTTCAGATGTTGGGCTAGCA
1 GTACAATAAGAGCAATCAGAGTGTCACTACTTAATAATGAACTCGATTCAGATGTTGGGCTAGCA
* * * * * * *
154936 AGTAATACATCTAGTGAACAATATAATCGATAAATGTCTTAAACTCAGGAACA-ACGTAGAGATT
66 AGTAATACATCTAGTGAACAACAGAATCAATAAATATCATAAAATCATGAA-AGACGTAGAGATT
* *
155000 TCTTTAGAGACAAAAATGACTAAAACACCCTTAAGTAACAAATGAACAAAATAGAAAAGCTTAAT
130 TCTTTAGAGACAGAAATGACTAAAACACCCTTAAGTAACAAATGAACAAAATAGAGAAGCTTAAT
* * * *
155065 AAACTAACAACATTAATATACTAATAAACCCTTGCATAACATTTTAGATAAGAGAACGAATGAAA
195 AAACTAACAACAGTAACAAACTAATAAACCCTTGCATAACATTTAAGATAAGAGAACG-ATGAAA
* * ** * * * *
155130 TTACAACTAGTGATGGGATGACTTCACCTTAGTGTGTC-TATACTGGAAGAACAATATCAATAGT
259 TTACAACTAGTAAAGGGATGACCCCACCTTAATGTGTCGAAT-CTGGAAGAACAATAGCAATAAT
* ** * ***
155194 GGTAGAATAATATTGATATTAAA-AGAACAA-TATCATTACTCATAATCTAATGCT-TGTAAAGG
323 GGTAGAACAATATCAATATTAAACA-AA-AAGTATCATTACTCATAATCCAATGCTAAAAAAAGG
* * * * *
155256 GACCTAAATTTGATGTTGG-AAAGGGTCCTAAATATGATGCTAGAAAATGGTATCGATGCTAAAA
386 GACC-AAA-TTGATGCTGGAAAAGGGTACTAAATATGACGCTAGAAAAGGGTATCGATAC-AAAA
* ** * * *
155320 ATAGGAGTATTGATATT-TTTCTCTAGTATCAATACTTAGGGTACTTGGTATCAATACT-GACCC
448 ATAGGAATATCAATATTATCT-TCTAGTATCAACAC-TAAGGTACTTGGTATCAATACTAG-CCC
* * * * * * * * * *
155383 ACTTTTTAGCATATAAAAACCATTTTTGGTACTGATACTCATAGGGGTATGATACTTGGCCCTAT
510 ACCTTTTAGCAAACAAAAACCATTTTTGGTACCGATACTCATAGGGCTATCAAACATGACCCTAG
* *
155448 GGTATCGGTACTACAAGTAGAGTATCGATACTACCCACTTTGGATGGTTAGATTTGACCTCGTTA
575 GGTATCGATACTACAAGTAAAGTATCGATACTACCCACTTTGGATGGTTAGATTTGACCTCGTTA
* *
155513 AGGCCCATAAGAGCTAAAGATGATCCGTAACGGTGGAACTTAGTCCT-TGA-AGGACACAAATGA
640 AGGCCCACAAGAGCTAAAGATGATCCGCAACGGTGGAACTTAGT-CTGTGAGA-GACACAAATGA
* * * * * *
155576 CCAAGAGGGCCTAAAAACACTCGTAGGAGTAGGTTACAACTGAAT-TAACTATACTAAGTGTAAT
703 ACAAAAGGGCATAAAAACACTCGTAGAAATAGGTTACAACTG-ATGTAACTATACGAAGTGTAAT
* * * * * * *
155640 ACATCCAATTATCTTTAGTTAAGAAAGTATCGAATAATTAAAATTGAGGGTTGTTGCAGA-GTAT
767 ACATCAAAGTATCTTTAGTCAAGAAAGTATCGAATAATTAAAAATGA-GATTGTCGCAGAGGAAT
*
155704 GTACCAACAAGCGATACCATAAGTAAGTCAGATTAAGTAGTAGCGAAAGTCATGTACTTCGA-GA
831 -TACCAACAAGCGATACCATAAGTAAGTCAGATTAAGTAGTAGCAAAAGTCATGTACTT-GAGGA
* * ** *
155768 ACATTAGTGAA-TGAGAATGTATAAATAGTCCCTCCAATTCAAGGGGTATTGAGAAGAA
894 ACAATAGTGAACCGAGAACATATAAATAGTCCCTCCAATTCAAGAGGTATTGAGAAGAA
* *
155826 GTACAATAAGAGCAATCAAAGTGTCACTAC-TAAGTAATGAACTCGATTCAGATGTTGGGCTTGC
1 GTACAATAAGAGCAATCAGAGTGTCACTACTTAA-TAATGAACTCGATTCAGATGTTGGGCTAGC
* * *
155890 ATA-TAATACAATC-AGTGAACAACAGAATCAAAAAATATCATAAAATCATGAAAGACATATAGA
65 A-AGTAATAC-ATCTAGTGAACAACAGAATCAATAAATATCATAAAATCATGAAAGACGTAGAGA
* * * * * *
155953 TTTCTTTAGAGATAGAATTGACTAAAACACCCTTAAGTAATAAAAGACCAAAATAGAGTAGCTTA
128 TTTCTTTAGAGACAGAAATGACTAAAACACCCTTAAGTAACAAATGAACAAAATAGAGAAGCTTA
156018 ATAAACTAA
193 ATAAACTAA
156027 TGAAGGGATT
Statistics
Matches: 972, Mismatches: 161, Indels: 44
0.83 0.14 0.04
Matches are distributed among these distances:
952 149 0.15
953 214 0.22
954 48 0.05
955 482 0.50
956 78 0.08
957 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (952 bp):
GTACAATAAGAGCAATCAGAGTGTCACTACTTAATAATGAACTCGATTCAGATGTTGGGCTAGCA
AGTAATACATCTAGTGAACAACAGAATCAATAAATATCATAAAATCATGAAAGACGTAGAGATTT
CTTTAGAGACAGAAATGACTAAAACACCCTTAAGTAACAAATGAACAAAATAGAGAAGCTTAATA
AACTAACAACAGTAACAAACTAATAAACCCTTGCATAACATTTAAGATAAGAGAACGATGAAATT
ACAACTAGTAAAGGGATGACCCCACCTTAATGTGTCGAATCTGGAAGAACAATAGCAATAATGGT
AGAACAATATCAATATTAAACAAAAAGTATCATTACTCATAATCCAATGCTAAAAAAAGGGACCA
AATTGATGCTGGAAAAGGGTACTAAATATGACGCTAGAAAAGGGTATCGATACAAAAATAGGAAT
ATCAATATTATCTTCTAGTATCAACACTAAGGTACTTGGTATCAATACTAGCCCACCTTTTAGCA
AACAAAAACCATTTTTGGTACCGATACTCATAGGGCTATCAAACATGACCCTAGGGTATCGATAC
TACAAGTAAAGTATCGATACTACCCACTTTGGATGGTTAGATTTGACCTCGTTAAGGCCCACAAG
AGCTAAAGATGATCCGCAACGGTGGAACTTAGTCTGTGAGAGACACAAATGAACAAAAGGGCATA
AAAACACTCGTAGAAATAGGTTACAACTGATGTAACTATACGAAGTGTAATACATCAAAGTATCT
TTAGTCAAGAAAGTATCGAATAATTAAAAATGAGATTGTCGCAGAGGAATTACCAACAAGCGATA
CCATAAGTAAGTCAGATTAAGTAGTAGCAAAAGTCATGTACTTGAGGAACAATAGTGAACCGAGA
ACATATAAATAGTCCCTCCAATTCAAGAGGTATTGAGAAGAA
Found at i:156498 original size:32 final size:32
Alignment explanation
Indices: 156462--156567 Score: 122
Period size: 32 Copynumber: 3.3 Consensus size: 32
156452 TACATCCAAT
* *
156462 TAATGCATAACAGAGTCAGTGTTGTGTTTAGA
1 TAATGCATAACAGAGTCAGTGTTGTATTCAGA
** * *
156494 TAATGCATAGTAGAATCAGTGTTGCATTCAGA
1 TAATGCATAACAGAGTCAGTGTTGTATTCAGA
* * *
156526 TAATGCATAACATAGTTAGTGTTGTATTCAAA
1 TAATGCATAACAGAGTCAGTGTTGTATTCAGA
*
156558 TATTGCATAA
1 TAATGCATAA
156568 TAATGTTATT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (32 bp):
TAATGCATAACAGAGTCAGTGTTGTATTCAGA
Found at i:156581 original size:32 final size:32
Alignment explanation
Indices: 156511--156585 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
156501 TAGTAGAATC
* *
156511 AGTGTTGCATTCAGATAATGCATAACATAGTT
1 AGTGTTGCATTCAAATAATGCATAAAATAGTT
* *
156543 AGTGTTGTATTCAAATATTGCATAATAAT-GTT
1 AGTGTTGCATTCAAATAATGCATAA-AATAGTT
*
156575 ATTGTTGCATT
1 AGTGTTGCATT
156586 TAGGGAATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (32 bp):
AGTGTTGCATTCAAATAATGCATAAAATAGTT
Found at i:159947 original size:28 final size:28
Alignment explanation
Indices: 159898--159965 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
159888 GTTCGACTCT
* * *
159898 TTGCTCGTTAAGCTCGTTGCTCGCC-CAG
1 TTGCTCGTTAAGCTCATCGCTCACCTC-G
* *
159926 TTTCTCGTTAAGCTTATCGCTCACCTCG
1 TTGCTCGTTAAGCTCATCGCTCACCTCG
159954 TTGCTCGTTAAG
1 TTGCTCGTTAAG
159966 TTCACCGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.13, C:0.29, G:0.21, T:0.37
Consensus pattern (28 bp):
TTGCTCGTTAAGCTCATCGCTCACCTCG
Found at i:163633 original size:55 final size:55
Alignment explanation
Indices: 163574--163897 Score: 340
Period size: 55 Copynumber: 5.9 Consensus size: 55
163564 AAAACGTATC
* * *
163574 TGCTCCCTATTCTTTCAGAGAGTATAGGACTC-AATCAATCTTCTAAAAATGGGTT
1 TGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAA-CAATCTTCTAAAAACGGGTT
* * * **
163629 TGCTCCCTATTGC-TTCAGGGAATAT-GGAACTCGAACAATCATCTGCAAACGGGTT
1 TGCTCCCTATT-CTTTCAGGGAGTATAAG-ACTCGAACAATCTTCTAAAAACGGGTT
163684 TGCTCCCTATTGC-TTCAGGGAGTAT-AGAACTCGAACAATCTTCTAAAAACGGGTT
1 TGCTCCCTATT-CTTTCAGGGAGTATAAG-ACTCGAACAATCTTCTAAAAACGGGTT
* * * *
163739 CGCTCCCTATTCTCTCAGAGAGTATAAGACTCGAACAATCTTCTGAAAAA-GTGTT
1 TGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCT-AAAAACGGGTT
* * * ** *
163794 CGCTCCCTATTCTCTCAGGGAGTATAAGACTCGAACGATCTTC-AACAAACATGTC
1 TGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCTAA-AAACGGGTT
*
163849 TGCTCCCTATTCTCTT-AGGGAGTATAAGAATCGAACAATCTTCATAAAA
1 TGCTCCCTATTCT-TTCAGGGAGTATAAGACTCGAACAATCTTC-TAAAA
163898 TGTTTCTACT
Statistics
Matches: 235, Mismatches: 23, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
53 2 0.01
54 6 0.03
55 212 0.90
56 13 0.06
57 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (55 bp):
TGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCTAAAAACGGGTT
Found at i:163803 original size:165 final size:166
Alignment explanation
Indices: 163575--163897 Score: 417
Period size: 165 Copynumber: 2.0 Consensus size: 166
163565 AAACGTATCT
* * *
163575 GCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCAATCTTCTAAAAATGGGTTTGCTCCCTATT
1 GCTCCCTATTCTCTCAGAGAGTATAAGACTCAATCAATCTTCTAAAAATGGGTTCGCTCCCTATT
* ** * *
163640 GCT-TCAGGGAATAT-GGAACTCGAACAATCATCTGCAAACGGGTTTGCTCCCTATTGCT-TCAG
66 -CTCTCAGGGAATATAAG-ACTCGAACAATCATCAACAAACAGGTCTGCTCCCTATT-CTCTCAG
163702 GGAGTAT-AGAACTCGAACAATCTTC-TAAAAACGGGTTC
128 GGAGTATAAGAA-TCGAACAATCTTCATAAAAACGGGTTC
*
163740 GCTCCCTATTCTCTCAGAGAGTATAAGACTCGAA-CAATCTTCTGAAAAA-GTGTTCGCTCCCTA
1 GCTCCCTATTCTCTCAGAGAGTATAAGACTC-AATCAATCTTCT-AAAAATGGGTTCGCTCCCTA
* * * * *
163803 TTCTCTCAGGGAGTATAAGACTCGAACGATCTTCAACAAACATGTCTGCTCCCTATTCTCTTAGG
64 TTCTCTCAGGGAATATAAGACTCGAACAATCATCAACAAACAGGTCTGCTCCCTATTCTCTCAGG
163868 GAGTATAAGAATCGAACAATCTTCATAAAA
129 GAGTATAAGAATCGAACAATCTTCATAAAA
163898 TGTTTCTACT
Statistics
Matches: 137, Mismatches: 14, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
164 4 0.03
165 116 0.85
166 17 0.12
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (166 bp):
GCTCCCTATTCTCTCAGAGAGTATAAGACTCAATCAATCTTCTAAAAATGGGTTCGCTCCCTATT
CTCTCAGGGAATATAAGACTCGAACAATCATCAACAAACAGGTCTGCTCCCTATTCTCTCAGGGA
GTATAAGAATCGAACAATCTTCATAAAAACGGGTTC
Found at i:163989 original size:36 final size:36
Alignment explanation
Indices: 163942--164204 Score: 370
Period size: 36 Copynumber: 7.3 Consensus size: 36
163932 GACTCAATGT
163942 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* *
163978 TGATTTACTTCACTACTCTTCCGTGAAGGCTTCAA-T
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTT-AAGA
*
164014 TGATTTGTTTCACTACTCGTT-CGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTC-TTCCGTGAAGGCTTAAGA
**
164050 TGATTTGCTTCACTACTCTTCTATGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* *
164086 TGATTTGCTTCACTACTTTTCTGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
164122 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* * * * *
164158 TTGATTTACTTCACTACTCTTTCATAAAGGTTTAAGA
1 -TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
164195 TGATTT-CTTC
1 TGATTTGCTTC
164205 GAAGGTCGAA
Statistics
Matches: 205, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
35 8 0.04
36 162 0.79
37 35 0.17
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (36 bp):
TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
Found at i:177564 original size:22 final size:22
Alignment explanation
Indices: 177536--177627 Score: 107
Period size: 22 Copynumber: 4.2 Consensus size: 22
177526 TTTGTCAAAT
*
177536 TCAATGGTCAGACTGGTTAAAG
1 TCAATGGTTAGACTGGTTAAAG
177558 TCAATGGTTAGACAT-GTTAAAG
1 TCAATGGTTAGAC-TGGTTAAAG
* *
177580 TCAACGGTTAGACCGGTTAAAG
1 TCAATGGTTAGACTGGTTAAAG
* *
177602 TCATTGGTTAGA-TCGGTCAAAG
1 TCAATGGTTAGACT-GGTTAAAG
177624 TCAA
1 TCAA
177628 CAGTCAGACT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
22 58 0.98
23 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (22 bp):
TCAATGGTTAGACTGGTTAAAG
Found at i:177624 original size:44 final size:44
Alignment explanation
Indices: 177529--177636 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
177519 ACTTTTTTTT
* * * *
177529 GTCAAATTCAATGGTCAGACTGGTTAAAGTCAATGGTTAGACAT
1 GTCAAAGTCAACGGTCAGACCGGTTAAAGTCAATGGTTAGACAG
* * *
177573 GTTAAAGTCAACGGTTAGACCGGTTAAAGTCATTGGTTAGATC-G
1 GTCAAAGTCAACGGTCAGACCGGTTAAAGTCAATGGTTAGA-CAG
*
177617 GTCAAAGTCAACAGTCAGAC
1 GTCAAAGTCAACGGTCAGAC
177637 TGGTCAATGG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 52 0.98
45 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (44 bp):
GTCAAAGTCAACGGTCAGACCGGTTAAAGTCAATGGTTAGACAG
Found at i:177670 original size:19 final size:19
Alignment explanation
Indices: 177646--177698 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
177636 CTGGTCAATG
177646 GTCAACGGGTCAGGTTAAA
1 GTCAACGGGTCAGGTTAAA
* * *
177665 GTCAACGAGTC-GGTCATA
1 GTCAACGGGTCAGGTTAAA
**
177683 GTCAATTGGTCAGGTT
1 GTCAACGGGTCAGGTT
177699 GACTTGACTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (19 bp):
GTCAACGGGTCAGGTTAAA
Found at i:181936 original size:20 final size:20
Alignment explanation
Indices: 181907--181944 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
181897 AAGTCAACGT
*
181907 TTCGGGTCGGGTTGACTCTG
1 TTCGGATCGGGTTGACTCTG
181927 TTCGGATCGGGTTGACTC
1 TTCGGATCGGGTTGACTC
181945 GATTCAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.21, G:0.37, T:0.34
Consensus pattern (20 bp):
TTCGGATCGGGTTGACTCTG
Found at i:183892 original size:17 final size:17
Alignment explanation
Indices: 183870--183922 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
183860 TGAATAAAGT
183870 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
183887 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
* *
183904 TATTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
183921 TA
1 TA
183923 ACTCTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:185406 original size:54 final size:54
Alignment explanation
Indices: 185324--185875 Score: 757
Period size: 54 Copynumber: 10.2 Consensus size: 54
185314 ATTGGTACTT
* * * *
185324 AGTGTGTAACCCACGAAATTCATAATAAGTTTATGAACAACCGTATCGACACTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* *
185378 AGTGTGCAACCCACAAAATTTATAATAAGCTTATGAACGACCGTATCGGCACTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* * * **
185432 AGTGTGCAACCCATATAATTAATAATAAGTTTATGAACGACCGTATCAACACTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* * *
185486 AGTGTGCAACCCACAGAATTAATAATAAGTTTATGAACGACTGTATCGGCACTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* *
185540 ACTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCATTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* * * *
185594 AGTGTGCAACCCAC-GAATCCATAATAAGTTTATGAATGACCGTATGGGCACTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* * * *
185647 ACTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
*
185701 AGTGTGCAACCCA-AGAAATTCATAATAAGTTTATGAACGACCGTATCGGCAGTA
1 AGTGTGCAACCCACA-AAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* * * * *
185755 AGTGTTCAACCTACGAAATTCATAATAACTTTATGAACGACCGTATCGGCAGTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
* * * * *
185809 AGTGTGCAACCTACGAAATTCATAATAACTTTATGAACGATCGTATGGGCACTA
1 AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
*
185863 AGTGTGAAACCCA
1 AGTGTGCAACCCA
185876 TGAAGTTAAG
Statistics
Matches: 446, Mismatches: 49, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
53 47 0.11
54 399 0.89
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (54 bp):
AGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCGGCACTA
Found at i:185830 original size:269 final size:270
Alignment explanation
Indices: 185324--185875 Score: 786
Period size: 269 Copynumber: 2.0 Consensus size: 270
185314 ATTGGTACTT
* * * *
185324 AGTGTGTAACCCACGAAATTCATAATAAGTTTATGAACAACCGTATCGACACTAAGTGTGCAACC
1 AGTGTGAAACCCACGAAATCCATAATAAGTTTATGAACAACCGTATCGACACTAACTATGCAACC
* * *
185389 CACAAAATTTATAATAAGCTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCATATAATTAA
66 CACAAAATTCATAATAAGCTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATAAAATTAA
*
185454 TAATAAGTTTATGAACGACCGTATCAACACTAAGTGTGCAACCCACAGAATTAATAATAAGTTTA
131 TAATAAGTTTATGAACGACCGTATCAACACTAAGTGTGCAACCCACAGAATTAATAATAACTTTA
* *
185519 TGAACGACTGTATCGGCACTAACTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCGT
196 TGAACGACCGTATCGGCACTAACTGTGCAACCCACAAAATTCATAATAACTTTATGAACGACCGT
*
185584 ATCGGCATTA
261 ATCGGCACTA
* ** * *
185594 AGTGTGCAACCCACG-AATCCATAATAAGTTTATGAATGACCGTATGGGCACTAACTATGCAACC
1 AGTGTGAAACCCACGAAATCCATAATAAGTTTATGAACAACCGTATCGACACTAACTATGCAACC
* * *
185658 CACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCA-AGAAATTC
66 CACAAAATTCATAATAAGCTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATA-AAATTA
** * * * *
185722 ATAATAAGTTTATGAACGACCGTATCGGCAGTAAGTGTTCAACCTAC-GAAATTCATAATAACTT
130 ATAATAAGTTTATGAACGACCGTATCAACACTAAGTGTGCAACCCACAG-AATTAATAATAACTT
* * * * *
185786 TATGAACGACCGTATCGGCAGTAAGTGTGCAACCTACGAAATTCATAATAACTTTATGAACGATC
194 TATGAACGACCGTATCGGCACTAACTGTGCAACCCACAAAATTCATAATAACTTTATGAACGACC
*
185851 GTATGGGCACTA
259 GTATCGGCACTA
185863 AGTGTGAAACCCA
1 AGTGTGAAACCCA
185876 TGAAGTTAAG
Statistics
Matches: 249, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
268 2 0.01
269 233 0.94
270 14 0.06
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (270 bp):
AGTGTGAAACCCACGAAATCCATAATAAGTTTATGAACAACCGTATCGACACTAACTATGCAACC
CACAAAATTCATAATAAGCTTATGAACGACCGTATCGACACTAAGTGTGCAACCCATAAAATTAA
TAATAAGTTTATGAACGACCGTATCAACACTAAGTGTGCAACCCACAGAATTAATAATAACTTTA
TGAACGACCGTATCGGCACTAACTGTGCAACCCACAAAATTCATAATAACTTTATGAACGACCGT
ATCGGCACTA
Found at i:190124 original size:111 final size:112
Alignment explanation
Indices: 189991--190218 Score: 341
Period size: 112 Copynumber: 2.0 Consensus size: 112
189981 GTTATAGGTG
* * * * * * *
189991 CATTTTGACATACTTTGTGTATGATAG-TATCGATCAATTTTGTTTAATTCATAATGATGCATTT
1 CATTTCGACATACTTCGTGTATGAAAGTTATCGATCAATTTTGCTTAATGCATAACGATACATTT
* * *
190055 TCGACATAAAAGGTTCCACCCATGGTATTCATAATGAGGTGAATTAT
66 TCGACATAAAAGGTGCCACCCATGGTATTCATAATAAGGTGAATTAC
*
190102 CATTTCGACATACTTCGTGTATGAAAGTTATCGATCGATTTTGCTTAATGCATAACGATACATTT
1 CATTTCGACATACTTCGTGTATGAAAGTTATCGATCAATTTTGCTTAATGCATAACGATACATTT
*
190167 TCGGCATAAAAGGTGCCACCCATGGTATTCATAATAAGGTGAATTAC
66 TCGACATAAAAGGTGCCACCCATGGTATTCATAATAAGGTGAATTAC
190214 CATTT
1 CATTT
190219 TGGAACTTCG
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
111 24 0.23
112 80 0.77
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (112 bp):
CATTTCGACATACTTCGTGTATGAAAGTTATCGATCAATTTTGCTTAATGCATAACGATACATTT
TCGACATAAAAGGTGCCACCCATGGTATTCATAATAAGGTGAATTAC
Found at i:194250 original size:24 final size:22
Alignment explanation
Indices: 194197--194253 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 22
194187 AAAAATTATC
194197 TTTTATATATATATATATATAT
1 TTTTATATATATATATATATAT
194219 TTACTTATATATATATATATATGAT
1 TT--TTATATATATATATATAT-AT
194244 GTTTTATATA
1 -TTTTATATA
194254 AAGTTCGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.06
24 25 0.81
25 2 0.06
26 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTATATATATATATATATAT
Found at i:194253 original size:2 final size:2
Alignment explanation
Indices: 194200--194240 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
194190 AATTATCTTT
*
194200 TA TA TA TA TA TA TA TA TA TT TA CT- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T
194241 GATGTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.94
3 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:201806 original size:14 final size:14
Alignment explanation
Indices: 201784--201883 Score: 57
Period size: 15 Copynumber: 6.9 Consensus size: 14
201774 AGCGAGGAAA
*
201784 AGAAGAAGAAAAAG
1 AGAAAAAGAAAAAG
201798 AGAAAAAG-AAAAG
1 AGAAAAAGAAAAAG
*
201811 ATTG-GAAAGAAAATAG
1 A--GAAAAAGAAAA-AG
201827 A-AAAAGGAGAAAAAGG
1 AGAAAA--AGAAAAA-G
* *
201843 AGAAAAAGGAAATG
1 AGAAAAAGAAAAAG
201857 A-AAAATAGGAAAAAG
1 AGAAAA-A-GAAAAAG
201872 A-AAAAAGAAAAA
1 AGAAAAAGAAAAA
201884 AGTGAGAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
13 16 0.24
14 17 0.25
15 20 0.29
16 11 0.16
17 4 0.06
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (14 bp):
AGAAAAAGAAAAAG
Found at i:201808 original size:35 final size:35
Alignment explanation
Indices: 201753--201882 Score: 108
Period size: 35 Copynumber: 3.6 Consensus size: 35
201743 GTAAAAATAT
* * *
201753 ATAGAAAGAAGA-AAAGAGAAAAGCGAGGAAAAGAAG
1 ATAGAAA-AAGAGAAAAAGAAAAGAGAGG-AAAGAAA
**
201789 A-AGAAAAAGAGAAAAAGAAAAGATTGGAAAGAAA
1 ATAGAAAAAGAGAAAAAGAAAAGAGAGGAAAGAAA
201823 ATAGAAAAAGGAGAAAAAGGAGAAA-A-AGGAAATGAAAA
1 ATAGAAAAA-GAGAAAAA-GA-AAAGAGAGGAAA-G-AAA
201861 ATAGGAAAAAGA-AAAAAGAAAA
1 ATA-GAAAAAGAGAAAAAGAAAA
201883 AAGTGAGAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
34 11 0.14
35 27 0.34
36 16 0.20
37 9 0.11
38 11 0.14
39 6 0.08
ACGTcount: A:0.69, C:0.01, G:0.25, T:0.05
Consensus pattern (35 bp):
ATAGAAAAAGAGAAAAAGAAAAGAGAGGAAAGAAA
Found at i:201837 original size:9 final size:9
Alignment explanation
Indices: 201825--201852 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
201815 GAAAGAAAAT
201825 AGAAAAAGG
1 AGAAAAAGG
201834 AGAAAAAGG
1 AGAAAAAGG
201843 AGAAAAAGG
1 AGAAAAAGG
201852 A
1 A
201853 AATGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
AGAAAAAGG
Found at i:201884 original size:7 final size:7
Alignment explanation
Indices: 201816--201885 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
201806 AAAAGATTGG
201816 AAAGAAA
1 AAAGAAA
*
201823 ATAGAAA
1 AAAGAAA
201830 AAGGAGAAA
1 AA--AGAAA
*
201839 AAGGAGAA
1 AAAGA-AA
*
201847 AAAG-GA
1 AAAGAAA
*
201853 AATGAAA
1 AAAGAAA
*
201860 AATAGGAA
1 AA-AGAAA
201868 AAAGAAA
1 AAAGAAA
201875 AAAGAAA
1 AAAGAAA
201882 AAAG
1 AAAG
201886 TGAGAAAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
6 4 0.08
7 27 0.56
8 10 0.21
9 7 0.15
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:201899 original size:36 final size:35
Alignment explanation
Indices: 201764--201899 Score: 102
Period size: 37 Copynumber: 3.7 Consensus size: 35
201754 TAGAAAGAAG
* *
201764 AAAAGAGAAAAGCGAGGAAAAGAAGA-AGAAAAAGAGA
1 AAAAGAAAAAAGTGA-GAAAA-AA-ATAGAAAAAGAGA
* *
201801 AAAAGAAAAGATTG-GAAAGAAAATAGAAAAAGGAGA
1 AAAAGAAAAAAGTGAGAAA-AAAATAGAAAAA-GAGA
201837 AAAAGGAGAAAAAG-GA-AATGAAAAATAGGAAAAAGA-A
1 AAAA-GA-AAAAAGTGAGAA--AAAAATA-GAAAAAGAGA
201874 AAAAGAAAAAAGTGAGAAAATAAATA
1 AAAAGAAAAAAGTGAGAAAA-AAATA
201900 AAGTCTTTCA
Statistics
Matches: 81, Mismatches: 6, Indels: 25
0.72 0.05 0.22
Matches are distributed among these distances:
34 1 0.01
35 21 0.26
36 18 0.22
37 22 0.27
38 12 0.15
39 7 0.09
ACGTcount: A:0.69, C:0.01, G:0.24, T:0.06
Consensus pattern (35 bp):
AAAAGAAAAAAGTGAGAAAAAAATAGAAAAAGAGA
Found at i:207664 original size:34 final size:34
Alignment explanation
Indices: 207619--207704 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
207609 TTAGTTTGTG
* *
207619 CAATAAAATAAAATGTTTGTAA-GATAGTA-AGAA
1 CAATAAAATAAAAAGTTAGTAATGATAGTATA-AA
*
207652 CAATAAAAATAAAAAGTTAGTAATGTTAGTATAAA
1 CAAT-AAAATAAAAAGTTAGTAATGATAGTATAAA
207687 CAATAAAAT-AAAAGTTAG
1 CAATAAAATAAAAAGTTAG
207705 AATATTAGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 13 0.28
34 21 0.45
35 12 0.26
36 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.27
Consensus pattern (34 bp):
CAATAAAATAAAAAGTTAGTAATGATAGTATAAA
Found at i:207689 original size:35 final size:34
Alignment explanation
Indices: 207619--207780 Score: 133
Period size: 32 Copynumber: 4.9 Consensus size: 34
207609 TTAGTTTGTG
* * *
207619 CAATAAAATAAAATGTTTGTAA-GATAGTAAGAA
1 CAATAAAATAAAAAGTTAGTAATGTTAGTAAGAA
207652 CAATAAAAATAAAAAGTTAGTAATGTTAGTATA-AA
1 CAAT-AAAATAAAAAGTTAGTAATGTTAGTA-AGAA
* **
207687 CAATAAAAT-AAAAGTTAG-AATATTAGTTCGAA
1 CAATAAAATAAAAAGTTAGTAATGTTAGTAAGAA
* ** * **
207719 CGATAAAAT-AATTGTTAG-AGTGTTAGTTCGAA
1 CAATAAAATAAAAAGTTAGTAATGTTAGTAAGAA
*
207751 CAATAAAAT-AAAGGTTAG-AATGTTAGTAAG
1 CAATAAAATAAAAAGTTAGTAATGTTAGTAAG
207781 TTAATTACTA
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
32 61 0.56
33 13 0.12
34 21 0.19
35 12 0.11
36 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (34 bp):
CAATAAAATAAAAAGTTAGTAATGTTAGTAAGAA
Found at i:207725 original size:32 final size:32
Alignment explanation
Indices: 207649--207777 Score: 152
Period size: 32 Copynumber: 3.9 Consensus size: 32
207639 AAGATAGTAA
207649 GAACAATAAAAATAAAAAGTTAGTAATGTTAGTAT-
1 GAACAAT-AAAAT-AAAAGTTAG-AATGTTAGT-TC
* *
207684 AAACAATAAAATAAAAGTTAGAATATTAGTTC
1 GAACAATAAAATAAAAGTTAGAATGTTAGTTC
* ** *
207716 GAACGATAAAATAATTGTTAGAGTGTTAGTTC
1 GAACAATAAAATAAAAGTTAGAATGTTAGTTC
*
207748 GAACAATAAAATAAAGGTTAGAATGTTAGT
1 GAACAATAAAATAAAAGTTAGAATGTTAGT
207778 AAGTTAATTA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
31 1 0.01
32 60 0.74
33 9 0.11
34 5 0.06
35 6 0.07
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (32 bp):
GAACAATAAAATAAAAGTTAGAATGTTAGTTC
Found at i:209511 original size:43 final size:42
Alignment explanation
Indices: 209464--209616 Score: 164
Period size: 43 Copynumber: 3.6 Consensus size: 42
209454 AAAAAAATGC
*
209464 CGCAATAGGTATTGATATTTAGCGGCATTTGTGTGATAAACAT
1 CGCAATAGGTGTTGATATTTAGCGGCATTTGT-TGATAAACAT
* * * **
209507 CGCAATAGGTGTTGATATTTAGTGGCATTTGTCAGAAAAATGT
1 CGCAATAGGTGTTGATATTTAGCGGCATTTGT-TGATAAACAT
* * * * *
209550 CGTAATAGGTTTTGATATTTAGCGGCGTTT-TTCATAAAAACAC
1 CGCAATAGGTGTTGATATTTAGCGGCATTTGTTGAT--AAACAT
209593 CGCAATAGGTGTTGATATTTAGCG
1 CGCAATAGGTGTTGATATTTAGCG
209617 CAAACACTGT
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 87 0.98
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (42 bp):
CGCAATAGGTGTTGATATTTAGCGGCATTTGTTGATAAACAT
Found at i:209601 original size:86 final size:86
Alignment explanation
Indices: 209456--209614 Score: 232
Period size: 86 Copynumber: 1.8 Consensus size: 86
209446 TTTTGTTAAA
* *
209456 AAAAATGCCGCAATAGGTATTGATATTTAGCGGCATTTGTGTGATAAACATCGCAATAGGTGTTG
1 AAAAATGCCGCAATAGGTATTGATATTTAGCGGCATTTGTGTCATAAACACCGCAATAGGTGTTG
209521 ATATTTAGTGGCATTTGTCAG
66 ATATTTAGTGGCATTTGTCAG
* * * *
209542 AAAAATGTCGTAATAGGTTTTGATATTTAGCGGCGTTT-T-TCATAAAAACACCGCAATAGGTGT
1 AAAAATGCCGCAATAGGTATTGATATTTAGCGGCATTTGTGTCAT--AAACACCGCAATAGGTGT
209605 TGATATTTAG
64 TGATATTTAG
209615 CGCAAACACT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
84 3 0.05
85 1 0.02
86 61 0.94
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (86 bp):
AAAAATGCCGCAATAGGTATTGATATTTAGCGGCATTTGTGTCATAAACACCGCAATAGGTGTTG
ATATTTAGTGGCATTTGTCAG
Found at i:209631 original size:31 final size:31
Alignment explanation
Indices: 209587--209647 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
209577 TTTTTCATAA
209587 AAACACCGCAATAGGTGT-TGATATTTAGCGC
1 AAACACCGCAATAGGT-TATGATATTTAGCGC
* * *
209618 AAACACTGTAATAGGTTATGATGTTTAGCG
1 AAACACCGCAATAGGTTATGATATTTAGCG
209648 ACGTTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (31 bp):
AAACACCGCAATAGGTTATGATATTTAGCGC
Found at i:209724 original size:42 final size:43
Alignment explanation
Indices: 209627--209791 Score: 190
Period size: 43 Copynumber: 3.9 Consensus size: 43
209617 CAAACACTGT
* * *
209627 AATAGGTTATGATGTTTAGCGACGTTTTTCTCTAAAACGTCGC
1 AATAGGTTTTGATGTTTTGCGACGTTTTTCTCAAAAACGTCGC
* * * * *
209670 AGTAGGTGTTGATGTTTTGCGGCG-TTTCCCCAAAAACGTCGC
1 AATAGGTTTTGATGTTTTGCGACGTTTTTCTCAAAAACGTCGC
* *
209712 AATAGGTTTTGATGTTTTGCGACGTTTTTCTCATAAACGCCGC
1 AATAGGTTTTGATGTTTTGCGACGTTTTTCTCAAAAACGTCGC
* * *
209755 AGTAGGTATTGATGTTTTACGACGTTTTTGCT-AAAAA
1 AATAGGTTTTGATGTTTTGCGACGTTTTT-CTCAAAAA
209792 TGCCAGTAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
42 36 0.36
43 63 0.62
44 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (43 bp):
AATAGGTTTTGATGTTTTGCGACGTTTTTCTCAAAAACGTCGC
Found at i:210227 original size:23 final size:21
Alignment explanation
Indices: 210197--210284 Score: 113
Period size: 21 Copynumber: 4.2 Consensus size: 21
210187 GCTGATATGT
*
210197 TGCTTCTCTCTGTGCTACCGC
1 TGCTTCTCTCTGTGCTGCCGC
**
210218 TGCTTCTCTCTGTGCTGCCAT
1 TGCTTCTCTCTGTGCTGCCGC
*
210239 TGCTTCTCTCTGTGTTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
* * *
210260 TGCTTCTTTCTCTGCTTCCGC
1 TGCTTCTCTCTGTGCTGCCGC
210281 TGCT
1 TGCT
210285 GCGTCTACTG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.02, C:0.35, G:0.19, T:0.43
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTGCCGC
Found at i:213968 original size:3 final size:3
Alignment explanation
Indices: 213960--214080 Score: 165
Period size: 3 Copynumber: 40.7 Consensus size: 3
213950 TTTTTATCCA
* *
213960 TAT TAT TAT TAT TAT TAT TAT TAAT TAT TAA TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* *
214006 TAT CAT TAT TAA TAT TAT TAT TAT TAT TAT T-T T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
214052 TAT TAT TAT TAT TTT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
214081 AATATATTAA
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
2 4 0.04
3 99 0.93
4 3 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:214603 original size:23 final size:23
Alignment explanation
Indices: 214572--214615 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
214562 ACGAGACAGA
*
214572 GAGACAGAAAAAAGAAAAAAAGG
1 GAGAAAGAAAAAAGAAAAAAAGG
**
214595 GAGAAAGAAACCAGAAAAAAA
1 GAGAAAGAAAAAAGAAAAAAA
214616 AAAACAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (23 bp):
GAGAAAGAAAAAAGAAAAAAAGG
Found at i:226886 original size:1 final size:1
Alignment explanation
Indices: 226880--226909 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
226870 ATGCTTGAAG
226880 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
226910 GGGGGTCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:228137 original size:52 final size:52
Alignment explanation
Indices: 228059--228303 Score: 472
Period size: 52 Copynumber: 4.7 Consensus size: 52
228049 GAATATGCCA
*
228059 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGTTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
228111 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
228163 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
228215 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGTTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
228267 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
228304 TGGACAGAAT
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 191 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:229134 original size:113 final size:113
Alignment explanation
Indices: 228966--229833 Score: 1414
Period size: 113 Copynumber: 7.7 Consensus size: 113
228956 TGCAAGGTAG
228966 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * * *
229031 AACTTTTTGTTTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
*
229079 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *** * *
229144 AACCTTTTACCTGAATCCATCAGTTGATGGATCAACATTACCAGAGAA
66 AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
229192 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
229257 AACTTTTTGTTTAAATTCATCAGTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
229305 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
229370 AATTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
66 AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
* * *
229418 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
229483 AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
66 AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
* *
229531 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
229596 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
66 AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
* *
229644 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
** * *
229709 AACTTTTTGTTTAAATTCATCTTTTGATGGATCAACATTGCTAGAGAA
66 AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
* *
229757 AGTTCATGAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
229822 CAAC-CTTTGTTT
65 CAACTTTTTGTTT
229834 GATATTATCT
Statistics
Matches: 714, Mismatches: 40, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
113 656 0.92
114 58 0.08
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTTGTTTAAATTCATCAGTTGATGGATCAACATTACCAGAGAA
Found at i:230130 original size:3 final size:3
Alignment explanation
Indices: 230122--230226 Score: 160
Period size: 3 Copynumber: 35.7 Consensus size: 3
230112 TTTTTATCCA
* * *
230122 TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
230170 TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT T-T TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
230216 TAT TAT TAT TA
1 TAT TAT TAT TA
230227 ATATATTAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 4 0.04
3 88 0.96
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:230743 original size:24 final size:24
Alignment explanation
Indices: 230711--230757 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
230701 ACGAGACAGA
*
230711 GAGACAGAAAAAAGAAAAAAAAAG
1 GAGAAAGAAAAAAGAAAAAAAAAG
**
230735 GAGAAAGAAACCAGAAAAAAAAA
1 GAGAAAGAAAAAAGAAAAAAAAA
230758 AAACAGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.74, C:0.06, G:0.19, T:0.00
Consensus pattern (24 bp):
GAGAAAGAAAAAAGAAAAAAAAAG
Found at i:238365 original size:41 final size:44
Alignment explanation
Indices: 238305--238392 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 44
238295 ACGTTTATAC
* *
238305 AAACAAATGCCACAATTGATT-ACACTATTGTGGCGTTTGT-TA
1 AAACAAATGCCACAATTGATTAACACTATAGTGGCATTTGTCTA
* *
238347 AAAC-AATGCTACTATTGATTAACACTATAGTGGCATTTGTCTA
1 AAACAAATGCCACAATTGATTAACACTATAGTGGCATTTGTCTA
238390 AAA
1 AAA
238393 ACGCCACTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 14 0.35
42 21 0.52
43 5 0.12
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (44 bp):
AAACAAATGCCACAATTGATTAACACTATAGTGGCATTTGTCTA
Found at i:238402 original size:41 final size:41
Alignment explanation
Indices: 238313--238403 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
238303 ACAAACAAAT
* * * *
238313 GCCACAATTGATTACACTATTGTGGCGTTTGTTAAAACAAT
1 GCCACTATTGATTACACTATAGTGGCATTTGTTAAAACAAC
*
238354 GCTACTATTGATTAACACTATAGTGGCATTTGTCT-AAA-AAC
1 GCCACTATTGATT-ACACTATAGTGGCATTTGT-TAAAACAAC
238395 GCCACTATT
1 GCCACTATT
238404 TAGTATCACT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
41 21 0.50
42 20 0.48
43 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (41 bp):
GCCACTATTGATTACACTATAGTGGCATTTGTTAAAACAAC
Found at i:238477 original size:42 final size:41
Alignment explanation
Indices: 238431--238560 Score: 142
Period size: 42 Copynumber: 3.1 Consensus size: 41
238421 TGTTTTAGGA
*
238431 ATAAACGCCACTATATGTGTAATCTATTACGACGTTTGTGGT
1 ATAAACACCACTATATGT-TAATCTATTACGACGTTTGTGGT
*
238473 ATAAACACCGCTA-AT-TTATCGATCTATTACGACGTTT-TGGCT
1 ATAAACACCACTATATGTTA---ATCTATTACGACGTTTGTGG-T
** *
238515 A-AAACACCACTATATGTTAATCTATTGTGGCGTTTGTGGT
1 ATAAACACCACTATATGTTAATCTATTACGACGTTTGTGGT
238555 ATAAAC
1 ATAAAC
238561 GCCGCTAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
39 2 0.03
40 16 0.22
41 22 0.30
42 31 0.42
43 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (41 bp):
ATAAACACCACTATATGTTAATCTATTACGACGTTTGTGGT
Found at i:238551 original size:82 final size:83
Alignment explanation
Indices: 238433--238585 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 83
238423 TTTTAGGAAT
* *
238433 AAACGCCACTATATGTGTAATCTATTACGACGTTTGTGGTATAAACACCGCTAATTTATCGA-TC
1 AAACACCACTATATGTGTAATCTATTACGACGTTTGTGGTATAAACACCGCTAATTTA-CCACTC
238497 TATTACGACGTTTTGGCTA
65 TATTACGACGTTTTGGCTA
** * *
238516 AAACACCACTATATGT-TAATCTATTGTGGCGTTTGTGGTATAAACGCCGCTAATTTACCACTCT
1 AAACACCACTATATGTGTAATCTATTACGACGTTTGTGGTATAAACACCGCTAATTTACCACTCT
238580 ATTACG
66 ATTACG
238586 GTGTTTGTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 2 0.03
82 46 0.73
83 15 0.24
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (83 bp):
AAACACCACTATATGTGTAATCTATTACGACGTTTGTGGTATAAACACCGCTAATTTACCACTCT
ATTACGACGTTTTGGCTA
Found at i:239292 original size:3 final size:3
Alignment explanation
Indices: 239284--239314 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
239274 GGGTTCTACT
239284 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
239315 GCTTTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:246529 original size:37 final size:38
Alignment explanation
Indices: 246488--246584 Score: 117
Period size: 39 Copynumber: 2.6 Consensus size: 38
246478 ACTAAGTATC
* * * *
246488 GTCTCGCTAGAGGCAATTTTTCTTAAAAAGC-AATTTT
1 GTCTCGCTTGAGACAATTTTTCTAAAAAAACAAATTTT
* *
246525 GTCTCGCTTGAGATAGTTTTCTCTAAAAAAACAAATTTT
1 GTCTCGCTTGAGACAATTTT-TCTAAAAAAACAAATTTT
246564 GTCTCGCTTGAGAC-ATTTTTC
1 GTCTCGCTTGAGACAATTTTTC
246585 CTTTGAGATG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 18 0.36
38 13 0.26
39 19 0.38
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (38 bp):
GTCTCGCTTGAGACAATTTTTCTAAAAAAACAAATTTT
Found at i:246872 original size:66 final size:67
Alignment explanation
Indices: 246798--246998 Score: 287
Period size: 67 Copynumber: 3.0 Consensus size: 67
246788 AACAAAATTG
*
246798 ATAAAACCTTTGAGATTGTTTCTCTTGAAAC-AAGTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
1 ATAAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
246862 AC
66 AC
* * * * * *
246864 ATAAAACCTTTGAGATTATTTCTCTTGAAACGATTTTTGTCTCTCTCGAGAAAGTTTGTCTTGAA
1 ATAAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
246929 AC
66 AC
* * * * *
246931 ATAAAAACATTGAGATTGTTTCCCTTGAAACAAATTTTATCTCACTTGAGACAGTTTCTCTTGAA
1 ATAAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
246996 AC
66 AC
246998 A
1 A
246999 AATTATCCCT
Statistics
Matches: 117, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
66 30 0.26
67 87 0.74
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (67 bp):
ATAAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
AC
Found at i:247552 original size:138 final size:137
Alignment explanation
Indices: 247001--247589 Score: 549
Period size: 138 Copynumber: 4.3 Consensus size: 137
246991 TTGAAACAAA
* ** * *
247001 TTATCCCTAAAGATGGCCAGACATCCTCATCACGTA-AGAATGATGCCATCCACTGACCAGATCT
1 TTATCCCTAAAGATGGCCAGACGTCCTCATCACGTAGA-AACAATGTCATCCAATGACCAGATCT
* * * * * *
247065 CCTCATCACGTAAGAGCCGCGTCATTCACATATA-ACCAGACTTCCTCATCACGTAGGAACCGTG
65 CCTCATCACGTAGGAGCAGTGTCA--CCCTTAGATACCAGACTTCCTCATCACGTAGGAACCGTG
*
247129 TTATCTCAAT
128 TTATCTCCAT
* * * * * ** *
247139 TTATCCCTAAAGATGACCAGATGTCCTTATCACGTAGGAACAGTGTCATCCACCGATCAGATCTC
1 TTATCCCTAAAGATGGCCAGACGTCCTCATCACGTAGAAACAATGTCATCCAATGACCAGATCTC
* * * * * * **
247204 CTTATCACATAGGAGTAGTGTCACCCTTAGATAACCATATTTCCTCATCACATAGGAATAGTGTT
66 CTCATCACGTAGGAGCAGTGTCACCCTTAGAT-ACCAGACTTCCTCATCACGTAGGAACCGTGTT
* *
247269 GTCTCTCAAA
130 ATCTC-C-AT
* * * * * * * *
247279 TTATCCCTAACGATGGCTAGATGTCGTCATCATGTAGGAACAGTGTCATCCATAT-ACCATATCT
1 TTATCCCTAAAGATGGCCAGACGTCCTCATCACGTAGAAACAATGTCATCCA-ATGACCAGATCT
* * * * **
247343 CTTCATCACGTAGGAGCAGGGTCATCCTTAGATAGCCAGACTTTCTCATTGCGTAGGAACCGTGT
65 CCTCATCACGTAGGAGCAGTGTCACCCTTAGATA-CCAGACTTCCTCATCACGTAGGAACCGTGT
247408 TATCTCCAT
129 TATCTCCAT
*
247417 TTATCCCTAAAGATGGCCAGACGTCCTCATCATGTAGAAACAATGTCATCCAATGACCAGATCTC
1 TTATCCCTAAAGATGGCCAGACGTCCTCATCACGTAGAAACAATGTCATCCAATGACCAGATCTC
* * * * *
247482 CTCATCACGTAGGAGCAGTGTCGCCCTTTAGATACAAGATTTTCTCATCACGTAGGAACCGCGTT
66 CTCATCACGTAGGAGCAGTGTCACCC-TTAGATACCAGACTTCCTCATCACGTAGGAACCGTGTT
* *
247547 GTCTCCAA
130 ATCTCCAT
* * * *
247555 AT-TCACCTAAA-ACGGCCAGACCTCTTCATCACGTA
1 TTATC-CCTAAAGATGGCCAGACGTCCTCATCACGTA
247590 TGAGCAGTGT
Statistics
Matches: 364, Mismatches: 77, Indels: 21
0.79 0.17 0.05
Matches are distributed among these distances:
136 5 0.01
137 24 0.07
138 218 0.60
139 9 0.02
140 108 0.30
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (137 bp):
TTATCCCTAAAGATGGCCAGACGTCCTCATCACGTAGAAACAATGTCATCCAATGACCAGATCTC
CTCATCACGTAGGAGCAGTGTCACCCTTAGATACCAGACTTCCTCATCACGTAGGAACCGTGTTA
TCTCCAT
Done.