Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1188
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: 122738
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:46 original size:28 final size:27
Alignment explanation
Indices: 14--73 Score: 102
Period size: 28 Copynumber: 2.2 Consensus size: 27
4 TACTGACATA
14 CATTTAACTCATCGTCAAAGATAGATTT
1 CATTTAACTCATCGTCAAAGATA-ATTT
42 CATTTAACTCATCGTCAAAGATAATTT
1 CATTTAACTCATCGTCAAAGATAATTT
*
69 AATTT
1 CATTT
74 GTTGACCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (27 bp):
CATTTAACTCATCGTCAAAGATAATTT
Found at i:5881 original size:2 final size:2
Alignment explanation
Indices: 5869--5905 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5859 TTATATTGTT
*
5869 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5906 TGTTAATGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7436 original size:481 final size:481
Alignment explanation
Indices: 6455--7899 Score: 2512
Period size: 481 Copynumber: 3.0 Consensus size: 481
6445 GGAACAATAC
* * *
6455 TTTTTAATAAATCTTGATTTTGATATTTTTATTATATATAAATATATATTATACACTGACTAATA
1 TTTTTGATAAATCTTGTTTTTGATATTTTTATTGTATATAAATATATATTATACACTGACTAATA
* * * * * **
6520 TATTTTAAATTGTGTGCTAGTTAACTTATTTTTATAAAATAAGTATTTTAAACGTAACTAAATTG
66 TATTCTAAACTATGTACTAATTAACTTATTTTTATAAAATAAGTATTTTAAATATAACTAAATTG
* *** * * * *
6585 ATCGCATTATATTTGTATGACAAATGATAGAATCGAGAATTAATTATATTAGTGTGTTTATTGCA
131 GTCATGTTATATTTGTATGACAAATGGTAGAATCGAGAATTAGTTATACTAGTGTGTTTATTGCG
* *
6650 TGGTTACTTCCACATGCGATGCATGAAGAGAGATCTGAGAAATTCAGTGGTGTGAATTTAAAAAA
196 TAGTTACCTCCACATGCGATGCATGAAGAGAGATCTGAGAAATTCAGTGGTGTGAATTTAAAAAA
* * *
6715 ATGATAGTAAAATGTGCTCTTTTACTTAGACTACATTGAATTTGGCCAAGTTTTTATAGGAAGAA
261 ATGGTAGTAAAATGTGCTCTTTTA-TTTGACTACATTGAATTTGGCCAAGTTTTTATCGGAAGAA
*
6780 GCTTTGGTTCTTAGGGAATGAGAAACAGATGCTATTATTATGGCTTCGGATAAAAGCTTGGAAGT
325 GCTTTGGTTCTTAGGGAATGAGAAACAGATGCTACTATTATGGCTTCGGATAAAAGCTTGGAAGT
* *
6845 ACTTTGACTTCCTATCCAAAAATTACATTCCCAATAGACTAAACAACTTGTTATATAACCTGTAT
390 ACTTTGACTTCCTATCCAAAAATTACATTCCTAATAGACTAAACAACTTGTTATATAACATGTAT
6910 AGTTTGAATAAGATAGTAAGAGAGTTG
455 AGTTTGAATAAGATAGTAAGAGAGTTG
6937 TTTTTGATAAATCTTGTTTTTGATATTTTTATTGTATATAAATATATATTATACACTGACTAATA
1 TTTTTGATAAATCTTGTTTTTGATATTTTTATTGTATATAAATATATATTATACACTGACTAATA
*
7002 TATTCTAAACTATGTACTAATTAACTTATTTCTATAAAATAAGTATTTTAAATATAACTAAATTG
66 TATTCTAAACTATGTACTAATTAACTTATTTTTATAAAATAAGTATTTTAAATATAACTAAATTG
*
7067 GTCATGTTATCTTTGTATGACAAATGGTAGAATCGAGAATTAGTTATACTAGTGTGTTTATTGCG
131 GTCATGTTATATTTGTATGACAAATGGTAGAATCGAGAATTAGTTATACTAGTGTGTTTATTGCG
* *
7132 TAGTTACCTCCATATGCGATGCATGAAGAGAGATCTGAGAAACTCAGTGGTGTGAATTTAAAAAA
196 TAGTTACCTCCACATGCGATGCATGAAGAGAGATCTGAGAAATTCAGTGGTGTGAATTTAAAAAA
*
7197 ATGGTAGTAAAATGTGCTTTTTTATTTGACTACATTGAATTTGGCCAAGTTTTTATCGGAAGAAG
261 ATGGTAGTAAAATGTGCTCTTTTATTTGACTACATTGAATTTGGCCAAGTTTTTATCGGAAGAAG
* * *
7262 CTTTAGTTCTTATGGAATGAGAAACGGATGCTACTATTATGGCTTCGGATAAAAGCTTGGAAGTA
326 CTTTGGTTCTTAGGGAATGAGAAACAGATGCTACTATTATGGCTTCGGATAAAAGCTTGGAAGTA
7327 CTTTGACTTCCTATCCAAAAATTACATTCCTAATAGACTAAACAACTTGTTATATAACATGTATA
391 CTTTGACTTCCTATCCAAAAATTACATTCCTAATAGACTAAACAACTTGTTATATAACATGTATA
7392 GTTTGAATAAGATAGTAAGAGAGTTG
456 GTTTGAATAAGATAGTAAGAGAGTTG
7418 TTTTTGATAAATCTTGTTTTTGATATTTTTATTGTATATAAATATATATTATACACTGACTAATA
1 TTTTTGATAAATCTTGTTTTTGATATTTTTATTGTATATAAATATATATTATACACTGACTAATA
* *
7483 TATTCTATACTATGTACTAATTAACTTATTTTTATAAAATAAGTATTTTAAATATATCTAAATTG
66 TATTCTAAACTATGTACTAATTAACTTATTTTTATAAAATAAGTATTTTAAATATAACTAAATTG
*
7548 GTCATGTTATTTTTGTATGACAAATGGTAGAATCGAGAATTAGTTATACTAGTGTGTTTATTGCG
131 GTCATGTTATATTTGTATGACAAATGGTAGAATCGAGAATTAGTTATACTAGTGTGTTTATTGCG
*
7613 TAGTTACCTCCACATGCGATGCATGAAGTGAGATCTGAGAAATTCAGTGGTGTGAATTTAAAAAA
196 TAGTTACCTCCACATGCGATGCATGAAGAGAGATCTGAGAAATTCAGTGGTGTGAATTTAAAAAA
* *
7678 ATGGCAGTAAAATGTGCTCTTTTACTTGACTACATTGAATTTGGCCAAGTTTTTATCGGAAGAAG
261 ATGGTAGTAAAATGTGCTCTTTTATTTGACTACATTGAATTTGGCCAAGTTTTTATCGGAAGAAG
7743 CTTTGGTTCTTAGGGAATGAGAAACAGATGCTACTATTATGGCTTCGGATAAAAGCTTGGAAGTA
326 CTTTGGTTCTTAGGGAATGAGAAACAGATGCTACTATTATGGCTTCGGATAAAAGCTTGGAAGTA
*
7808 CTTTGACTTCCTATCCAAAAATTACATTCCTAATAGACTAAACAACTTGTTAAATAACATGTATA
391 CTTTGACTTCCTATCCAAAAATTACATTCCTAATAGACTAAACAACTTGTTATATAACATGTATA
7873 GTTTGAATAAGATAGTAAGAGAGTTG
456 GTTTGAATAAGATAGTAAGAGAGTTG
7899 T
1 T
7900 GTGAGTTTTT
Statistics
Matches: 915, Mismatches: 48, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
481 657 0.72
482 258 0.28
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (481 bp):
TTTTTGATAAATCTTGTTTTTGATATTTTTATTGTATATAAATATATATTATACACTGACTAATA
TATTCTAAACTATGTACTAATTAACTTATTTTTATAAAATAAGTATTTTAAATATAACTAAATTG
GTCATGTTATATTTGTATGACAAATGGTAGAATCGAGAATTAGTTATACTAGTGTGTTTATTGCG
TAGTTACCTCCACATGCGATGCATGAAGAGAGATCTGAGAAATTCAGTGGTGTGAATTTAAAAAA
ATGGTAGTAAAATGTGCTCTTTTATTTGACTACATTGAATTTGGCCAAGTTTTTATCGGAAGAAG
CTTTGGTTCTTAGGGAATGAGAAACAGATGCTACTATTATGGCTTCGGATAAAAGCTTGGAAGTA
CTTTGACTTCCTATCCAAAAATTACATTCCTAATAGACTAAACAACTTGTTATATAACATGTATA
GTTTGAATAAGATAGTAAGAGAGTTG
Found at i:10136 original size:15 final size:14
Alignment explanation
Indices: 10098--10149 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 14
10088 AAAATAATTT
10098 AAAAAAATCAAAAA
1 AAAAAAATCAAAAA
*
10112 TCAAAGAAATCAAAACA
1 --AAAAAAATCAAAA-A
10129 AAAAAAATCAAAGAA
1 AAAAAAATCAAA-AA
10144 AAAAAA
1 AAAAAA
10150 GAGAAAACGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 18 0.56
16 13 0.41
17 1 0.03
ACGTcount: A:0.79, C:0.10, G:0.04, T:0.08
Consensus pattern (14 bp):
AAAAAAATCAAAAA
Found at i:10266 original size:21 final size:21
Alignment explanation
Indices: 10240--10287 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 21
10230 TTCTTTCATG
10240 TTTCATGCATGCATATGTTCA
1 TTTCATGCATGCATATGTTCA
10261 -TT--T-CATGCATATGTTCA
1 TTTCATGCATGCATATGTTCA
10278 TTTCATGCAT
1 TTTCATGCAT
10288 AAATGCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
17 14 0.61
18 3 0.13
20 3 0.13
21 3 0.13
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (21 bp):
TTTCATGCATGCATATGTTCA
Found at i:10267 original size:17 final size:17
Alignment explanation
Indices: 10247--10288 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
10237 ATGTTTCATG
10247 CATGCATATGTTCATTT
1 CATGCATATGTTCATTT
10264 CATGCATATGTTCATTT
1 CATGCATATGTTCATTT
10281 CATGCATA
1 CATGCATA
10289 AATGCATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (17 bp):
CATGCATATGTTCATTT
Found at i:10296 original size:17 final size:17
Alignment explanation
Indices: 10259--10300 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
10249 TGCATATGTT
** *
10259 CATTTCATGCATATGTT
1 CATTTCATGCATAAATG
10276 CATTTCATGCATAAATG
1 CATTTCATGCATAAATG
10293 CATTTCAT
1 CATTTCAT
10301 ATGTTCATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (17 bp):
CATTTCATGCATAAATG
Found at i:10882 original size:16 final size:17
Alignment explanation
Indices: 10861--10894 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10851 GGAGTACTGG
10861 AATAAAAAAAATA-ATA
1 AATAAAAAAAATAGATA
*
10877 AATAAAATAAATAGATA
1 AATAAAAAAAATAGATA
10894 A
1 A
10895 CGTGCAGCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
AATAAAAAAAATAGATA
Found at i:11092 original size:45 final size:45
Alignment explanation
Indices: 11037--11250 Score: 338
Period size: 45 Copynumber: 4.8 Consensus size: 45
11027 CAGCAATGAT
* *
11037 GAAGACAAAGCAACGTGGAACAGCAAAGCAATAATAAAGAAAGTA
1 GAAGACAAAGCAACGTGGAACAGCAAAGCAACAATAAAGAAAGTG
* * *
11082 GAAGATAAAGCAACGTGGAACAGCAAAGTAACAAGAAAGAAAGTG
1 GAAGACAAAGCAACGTGGAACAGCAAAGCAACAATAAAGAAAGTG
* *
11127 GAAGACAAAGCAACGTGGAATAACAAAGCAACAATAAAGAAAGTG
1 GAAGACAAAGCAACGTGGAACAGCAAAGCAACAATAAAGAAAGTG
* *
11172 GAAGACAAAGCAACGTGGAATAACAAAGCAACAATAAAGAAAGTG
1 GAAGACAAAGCAACGTGGAACAGCAAAGCAACAATAAAGAAAGTG
*
11217 GAAGACAAAGCAAAGTGGAACAGCAAAGCAACAA
1 GAAGACAAAGCAACGTGGAACAGCAAAGCAACAA
11251 GCTGAAAAAT
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 156 1.00
ACGTcount: A:0.55, C:0.14, G:0.23, T:0.08
Consensus pattern (45 bp):
GAAGACAAAGCAACGTGGAACAGCAAAGCAACAATAAAGAAAGTG
Found at i:11154 original size:18 final size:18
Alignment explanation
Indices: 11131--11203 Score: 65
Period size: 18 Copynumber: 4.6 Consensus size: 18
11121 AAAGTGGAAG
11131 ACAAAGCAACGTGGAATA
1 ACAAAGCAACGTGGAATA
11149 ACAAAGCAAC----AAT-
1 ACAAAGCAACGTGGAATA
* *
11162 --AAAG-AAAGTGGAA-G
1 ACAAAGCAACGTGGAATA
11176 ACAAAGCAACGTGGAATA
1 ACAAAGCAACGTGGAATA
11194 ACAAAGCAAC
1 ACAAAGCAAC
11204 AATAAAGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
10 2 0.05
11 4 0.09
14 5 0.12
16 4 0.09
17 8 0.19
18 20 0.47
ACGTcount: A:0.55, C:0.16, G:0.21, T:0.08
Consensus pattern (18 bp):
ACAAAGCAACGTGGAATA
Found at i:11181 original size:27 final size:27
Alignment explanation
Indices: 11149--11229 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
11139 ACGTGGAATA
11149 ACAAAGCAACAATAAAGAAAGTGGAAG
1 ACAAAGCAACAATAAAGAAAGTGGAAG
* *
11176 ACAAAGCAAC-GT---GGAA-T---A-
1 ACAAAGCAACAATAAAGAAAGTGGAAG
11194 ACAAAGCAACAATAAAGAAAGTGGAAG
1 ACAAAGCAACAATAAAGAAAGTGGAAG
11221 ACAAAGCAA
1 ACAAAGCAA
11230 AGTGGAACAG
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
18 10 0.24
19 2 0.05
22 4 0.10
23 4 0.10
26 2 0.05
27 19 0.46
ACGTcount: A:0.58, C:0.14, G:0.21, T:0.07
Consensus pattern (27 bp):
ACAAAGCAACAATAAAGAAAGTGGAAG
Found at i:11233 original size:17 final size:18
Alignment explanation
Indices: 11207--11247 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
11197 AAGCAACAAT
*
11207 AAAG-AAAGTGGAAGA-C
1 AAAGCAAAGTGGAACAGC
11223 AAAGCAAAGTGGAACAGC
1 AAAGCAAAGTGGAACAGC
11241 AAAGCAA
1 AAAGCAA
11248 CAAGCTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
18 8 0.36
ACGTcount: A:0.56, C:0.12, G:0.27, T:0.05
Consensus pattern (18 bp):
AAAGCAAAGTGGAACAGC
Found at i:11465 original size:47 final size:47
Alignment explanation
Indices: 11397--11520 Score: 212
Period size: 47 Copynumber: 2.6 Consensus size: 47
11387 AGAAAGGAGG
11397 AGCAGCAGCAACAATCAAAGCAGCAACCAACACTCGAAACCAACACC
1 AGCAGCAGCAACAATCAAAGCAGCAACCAACACTCGAAACCAACACC
*
11444 AGCAGCAGCAACAATCAAAGCAGCAACCAGCACTCGAAACCAACACC
1 AGCAGCAGCAACAATCAAAGCAGCAACCAACACTCGAAACCAACACC
* * *
11491 AGCAGCATCAACAATCGAAGCAACAACCAA
1 AGCAGCAGCAACAATCAAAGCAGCAACCAA
11521 GCAAAACCGA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.47, C:0.35, G:0.14, T:0.05
Consensus pattern (47 bp):
AGCAGCAGCAACAATCAAAGCAGCAACCAACACTCGAAACCAACACC
Found at i:14118 original size:249 final size:249
Alignment explanation
Indices: 13671--14137 Score: 781
Period size: 249 Copynumber: 1.9 Consensus size: 249
13661 CATTCCGACA
* * *
13671 ATGAGGACTTAAACAGTGGTCCACAAATGGATAAGAAAGAACAAGTTGAACCTTGAAGAATTAAA
1 ATGAGGACTTAAACAGTGGTCCACAAATGGATAAAAAAGAACAAGTTAAACCTCGAAGAATTAAA
** * * * *
13736 CGGGCTAAAGTGCTAACTACTTTTGATCGAAATTTTCTAACTTATTTGTTAGAAAATGAATTTTA
66 CACGCTAAAGTACTAACTACTTTTGATCAAAATTTTCCAACTTATTTGTTAGAAAATGAATTTCA
* * * *
13801 AACTTTTAAAGAAGCTACATCATCTCGGGAAGCACCATTCTGGAAAGATACCATTAATAATAAAA
131 AACCTTTAAAGAAGCTACATCATCTCGAGAAGCACCATTCTGGAAAAAGACCATTAATAATAAAA
13866 TAGAATCCATCATACAAAATCATATTTCTAAAAATAAGATTGTGAAGTGAACTC
196 TAGAATCCATCATACAAAATCATATTTCTAAAAATAAGATTGTGAAGTGAACTC
*
13920 ATGATGACTTAAACAGTGGTCCACAAATGGATAAAAAAGAACAAGTTAAACCTCGAAGAATTAAA
1 ATGAGGACTTAAACAGTGGTCCACAAATGGATAAAAAAGAACAAGTTAAACCTCGAAGAATTAAA
13985 CACGCTAAAGTACTAACTACTTTTGATCAAAATTTTCCAACTTATTTGTTAGAAAATGAATTTCA
66 CACGCTAAAGTACTAACTACTTTTGATCAAAATTTTCCAACTTATTTGTTAGAAAATGAATTTCA
* * *
14050 AACCTTTAAAGAAGGTACATCATCTCTAGAAGCACCATTCTGGAAAAAGACCATTAATAATGAAA
131 AACCTTTAAAGAAGCTACATCATCTCGAGAAGCACCATTCTGGAAAAAGACCATTAATAATAAAA
14115 TAGAATCCATCATACAAAATCAT
196 TAGAATCCATCATACAAAATCAT
14138 GCATGGAAAC
Statistics
Matches: 201, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
249 201 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (249 bp):
ATGAGGACTTAAACAGTGGTCCACAAATGGATAAAAAAGAACAAGTTAAACCTCGAAGAATTAAA
CACGCTAAAGTACTAACTACTTTTGATCAAAATTTTCCAACTTATTTGTTAGAAAATGAATTTCA
AACCTTTAAAGAAGCTACATCATCTCGAGAAGCACCATTCTGGAAAAAGACCATTAATAATAAAA
TAGAATCCATCATACAAAATCATATTTCTAAAAATAAGATTGTGAAGTGAACTC
Found at i:14441 original size:118 final size:118
Alignment explanation
Indices: 14233--14471 Score: 392
Period size: 118 Copynumber: 2.0 Consensus size: 118
14223 CAATACAAAA
* * *
14233 GTATAAAGCTCGACTTATTATAAAAGCTTACAAGCAAAAAGAAATACTCAATTACTTTGATACGT
1 GTATAAAGCTCGACTTATTATAAAAGCTTACAAGCAAAAAGAAAGAATCAATTACTTTGATACAT
14298 TTTCACAAGTTATGAGAATAACATCCATTATTGTAGCTCTTAATGATCTCTAG
66 TTTCACAAGTTATGAGAATAACATCCATTATTGTAGCTCTTAATGATCTCTAG
* *
14351 GTATAAAGCTCGATTTATTATAAAAAG-TTACAAG-AAAAAGGAAAGAATCGATTACTTTGATAC
1 GTATAAAGCTCGACTTATTAT-AAAAGCTTACAAGCAAAAA-GAAAGAATCAATTACTTTGATAC
*
14414 ATTTTCACAAGTTATGAGATTAACATCCATTATTGTAGCTCTTAATGATCTCTAG
64 ATTTTCACAAGTTATGAGAATAACATCCATTATTGTAGCTCTTAATGATCTCTAG
14469 GTA
1 GTA
14472 CATCAAATGG
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
117 5 0.04
118 103 0.91
119 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (118 bp):
GTATAAAGCTCGACTTATTATAAAAGCTTACAAGCAAAAAGAAAGAATCAATTACTTTGATACAT
TTTCACAAGTTATGAGAATAACATCCATTATTGTAGCTCTTAATGATCTCTAG
Found at i:17316 original size:17 final size:15
Alignment explanation
Indices: 17287--17344 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
17277 TTTAAAATAT
*
17287 TTAAAAAA-ATTAAA
1 TTAAAAAATTTTAAA
17301 TTAAAAATAATTTTAAA
1 TT-AAAA-AATTTTAAA
17318 TTAAAAAATTTTAAA
1 TTAAAAAATTTTAAA
17333 TTTAATAAAATT
1 -TTAA-AAAATT
17345 AAAATCTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 2 0.05
15 13 0.34
16 10 0.26
17 13 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAAAATTTTAAA
Found at i:18785 original size:15 final size:15
Alignment explanation
Indices: 18758--18796 Score: 69
Period size: 15 Copynumber: 2.5 Consensus size: 15
18748 TATTTGAAAT
18758 TTTGAACATAATATAC
1 TTTGAA-ATAATATAC
18774 TTTGAAATAATATAC
1 TTTGAAATAATATAC
18789 TTTGAAAT
1 TTTGAAAT
18797 GTATCGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (15 bp):
TTTGAAATAATATAC
Found at i:21787 original size:13 final size:12
Alignment explanation
Indices: 21762--21796 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
21752 GAAAATAGAT
21762 TTTTTTAAGATTA
1 TTTTTTAA-ATTA
21775 TTTTGTTAAATTA
1 TTTT-TTAAATTA
21788 TTTTTTAAA
1 TTTTTTAAA
21797 AAAGCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 12 0.57
14 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (12 bp):
TTTTTTAAATTA
Found at i:39184 original size:13 final size:13
Alignment explanation
Indices: 39166--39200 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
39156 AAAAAGAATT
39166 TTTTGTTATTTTA
1 TTTTGTTATTTTA
*
39179 TTTTGTTATTTTT
1 TTTTGTTATTTTA
*
39192 TTTTATTAT
1 TTTTGTTAT
39201 ATATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (13 bp):
TTTTGTTATTTTA
Found at i:40725 original size:31 final size:31
Alignment explanation
Indices: 40679--40744 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
40669 GGAGTTCCAT
* *
40679 TTGCTTGTGTTTCCCATGATTGCATGCTACA
1 TTGCATGTGTCTCCCATGATTGCATGCTACA
* *
40710 TTGCATGTGTCTCCCATGATTTCATGCTATA
1 TTGCATGTGTCTCCCATGATTGCATGCTACA
40741 TTGC
1 TTGC
40745 CTTGTATGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (31 bp):
TTGCATGTGTCTCCCATGATTGCATGCTACA
Found at i:41452 original size:43 final size:43
Alignment explanation
Indices: 41341--41859 Score: 593
Period size: 43 Copynumber: 12.2 Consensus size: 43
41331 TAGATGAAGC
* * * *
41341 AGTCTTTAGGGTCAAAGCCGGCAGACAGACTTAGGGA-AGGAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* *
41383 AGTCTCTAGGGTCAAAGCTGACAGGCAGACTGAGGGATAGAAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* * ** * *
41426 AGTCTCCAGGGTTAAAGTGGATAGGCAGACTGAGGGATAGAAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* * *
41469 AGTCTCCAGGGTCAAAGCCGACAGGTAGACTGAGGGATAGAAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* *
41512 AGTCTCTAGGGCCAAAGCCGACAAGCAGACTGAGGGATAGGAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
** * *
41555 AGTCTCTAGGGTCAAAGTTGACAGGCAAACTAAGGGA-AGGAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* * * *
41597 AGTCTCTAAGGTCAAAGCTGATAGGCAGATTGAGGGATAGGAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
**
41640 AGTCTCTAGGGTCAAAGCCGACAGGCAGACCAAGGGA-AGGAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* * *
41682 AGTCTCTAAGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* * * * * *
41725 AGTCTCCAAGGTCAAAGCCAACAGGAAGACTAAGGGA-A-AAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* * * *
41766 AGTCTTTAGGGTCAAAGCCGACAGTCAGACTAAGGGATAAGAA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
* * *
41809 AGTCT-TCAGGGTCAAAGCTGACAGGTAGACTAAGGGA-AGGAA
1 AGTCTCT-AGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
41851 AGTCTCTAG
1 AGTCTCTAG
41860 AAGTTTAATG
Statistics
Matches: 412, Mismatches: 58, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
41 33 0.08
42 121 0.29
43 258 0.63
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.16
Consensus pattern (43 bp):
AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAA
Found at i:41637 original size:85 final size:85
Alignment explanation
Indices: 41341--41859 Score: 621
Period size: 85 Copynumber: 6.1 Consensus size: 85
41331 TAGATGAAGC
* * * * *
41341 AGTCTTTAGGGTCAAAGCCGGCAGACAGACTTAGGGA-AGGAAAGTCTCTAGGGTCAAAGCTGAC
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGAC
*
41405 AGGCAGACTGAGGGATAGAAA
66 AGGCAGACTAAGGGA-AGAAA
* * ** * * *
41426 AGTCTCCAGGGTTAAAGTGGATAGGCAGACTGAGGGATAGAAAAGTCTCCAGGGTCAAAGCCGAC
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGAC
* *
41491 AGGTAGACTGAGGGATAGAAA
66 AGGCAGACTAAGGGA-AGAAA
* * **
41512 AGTCTCTAGGGCCAAAGCCGACAAGCAGACTGAGGGATAGGAAAGTCTCTAGGGTCAAAGTTGAC
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGAC
* *
41577 AGGCAAACTAAGGGAAGGAA
66 AGGCAGACTAAGGGAAGAAA
* * * *
41597 AGTCTCTAAGGTCAAAGCTGATAGGCAGATTGAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGAC
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGAC
* *
41662 AGGCAGACCAAGGGAAGGAA
66 AGGCAGACTAAGGGAAGAAA
* * * * * *
41682 AGTCTCTAAGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCCAAC
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGAC
*
41747 AGGAAGACTAAGGGAA-AAA
66 AGGCAGACTAAGGGAAGAAA
* * * * *
41766 AGTCTTTAGGGTCAAAGCCGACAGTCAGACTAAGGGATAAGAAAGTCT-TCAGGGTCAAAGCTGA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAAAGTCTCT-AGGGTCAAAGCCGA
* *
41830 CAGGTAGACTAAGGGAAGGAA
65 CAGGCAGACTAAGGGAAGAAA
41851 AGTCTCTAG
1 AGTCTCTAG
41860 AAGTTTAATG
Statistics
Matches: 370, Mismatches: 61, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
84 72 0.19
85 188 0.51
86 110 0.30
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.16
Consensus pattern (85 bp):
AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGAC
AGGCAGACTAAGGGAAGAAA
Found at i:41658 original size:128 final size:128
Alignment explanation
Indices: 41350--41856 Score: 598
Period size: 128 Copynumber: 4.0 Consensus size: 128
41340 CAGTCTTTAG
* * * * *
41350 GGTCAAAGCCGGCA-GACAGACTTAGGGAAGGAAAGTCTCTAGGGTCAAAGCTGACAGGCAGACT
1 GGTCAAAGCCGACAGGA-AGACTGAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACT
* * * * * * * *
41414 GAGGGATAGAAAAGTCTCCAGGGTTAAAG-TGGATAGGCAGACTGAGGGATAGAAAAGTCTCCAG
65 AAGGGATAGGAAAGTCTCTAGGGTCAAAGCT-GACAGGCAGACTAAGGGATAGGAAAGTCTCCAA
* *
41478 GGTCAAAGCCGACAGGTAGACTGAGGGATAGAAAAGTCTCTAGGGCCAAAGCCGACAAGCAGACT
1 GGTCAAAGCCGACAGGAAGACTGAGGGA-AGAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACT
* * * *
41543 GAGGGATAGGAAAGTCTCTAGGGTCAAAGTTGACAGGCAAACTAAGGGA-AGGAAAGTCTCTAA
65 AAGGGATAGGAAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTAAGGGATAGGAAAGTCTCCAA
* * * * * * *
41606 GGTCAAAGCTGATAGGCAGATTGAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACC
1 GGTCAAAGCCGACAGGAAGACTGAGGGA-AGAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACT
* * *
41671 AAGGGA-AGGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTAAGGGATAGGAAAGTCTCCAA
65 AAGGGATAGGAAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTAAGGGATAGGAAAGTCTCCAA
* * *
41734 GGTCAAAGCCAACAGGAAGACTAAGGGAA-AAAAGTCTTTAGGGTCAAAGCCGAC-AGTCAGACT
1 GGTCAAAGCCGACAGGAAGACTGAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGACAAG-CAGACT
* *
41797 AAGGGATAAGAAAGTCT-TCAGGGTCAAAGCTGACAGGTAGACTAAGGGA-AGGAAAGTCTC
65 AAGGGATAGGAAAGTCTCT-AGGGTCAAAGCTGACAGGCAGACTAAGGGATAGGAAAGTCTC
41857 TAGAAGTTTA
Statistics
Matches: 326, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
125 1 0.00
126 46 0.14
127 73 0.22
128 131 0.40
129 74 0.23
130 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.15
Consensus pattern (128 bp):
GGTCAAAGCCGACAGGAAGACTGAGGGAAGAAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTA
AGGGATAGGAAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTAAGGGATAGGAAAGTCTCCAA
Found at i:47747 original size:105 final size:103
Alignment explanation
Indices: 47628--47972 Score: 270
Period size: 105 Copynumber: 3.3 Consensus size: 103
47618 CCGATGAAAT
* *
47628 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTGGGAAATAAAATCGGAATTGGAG
1 AACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTT-GGAAATAAAATCGGAGTTGGAG
*
47693 TATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAA
65 TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * * * * * *
47732 AACCGGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGGGGTTGGAG
1 AA-CGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAG
* * * * * ** *
47797 TATCCCCTCAGAAATAACGG-G--GTTGGAGTATCCCCGATGAT-T
65 TAT-CCC-C-G-ATTAAAGGAGAAATTGGTGT-T--CTGAAAATAA
* *
47839 AACGGGGTTGGAGTGTCCTCGATTGTGAAGAAATTGGTGTTTTTTTTGGAAATAAAATCGGAGTT
1 AACGGGGTTGGAGTATCCTCGATTGTGAA-AAATT-G-G--TATTTTGGAAATAAAATCGGAGTT
* ** * *
47904 GGAGTATCCCCGATTATA-GA-AAATTAATGTTTTGAAAGTAA
61 GGAGTATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* *
47945 AATCGGAGTTGGAATATCCTCGATTGTG
1 AA-CGGGGTTGGAGTATCCTCGATTGTG
47973 GAGAATTGAG
Statistics
Matches: 180, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
104 23 0.13
105 47 0.26
106 29 0.16
107 34 0.19
108 16 0.09
109 1 0.01
110 3 0.02
111 27 0.15
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (103 bp):
AACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGT
ATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
Found at i:47793 original size:51 final size:51
Alignment explanation
Indices: 47633--47803 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
47623 GAAATAACGA
* * *
47633 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTGGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTT-GAAAATAAAATCGG
** * * * * *
47685 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
47738 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
47789 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
47804 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 29 0.30
54 13 0.13
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:47820 original size:28 final size:27
Alignment explanation
Indices: 47786--47852 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 27
47776 AAAATAAAGT
47786 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-CATG-AATAA
* *
47814 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCCATGAATAA
47841 CGGGGTTGGAGT
1 CGGGGTTGGAGT
47853 GTCCTCGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 17 0.47
28 19 0.53
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCCATGAATAA
Found at i:47849 original size:27 final size:28
Alignment explanation
Indices: 47786--47861 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 28
47776 AAAATAAAGT
*
47786 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
47814 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
47841 CGGGGTTGGAGTGTCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
47862 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:50351 original size:13 final size:13
Alignment explanation
Indices: 50333--50358 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50323 ACAAAGATCC
50333 ATGTATCGATACA
1 ATGTATCGATACA
50346 ATGTATCGATACA
1 ATGTATCGATACA
50359 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:50354 original size:33 final size:33
Alignment explanation
Indices: 50312--50378 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
50302 AAAATTTCCA
***
50312 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
50345 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
50378 A
1 A
50379 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:50422 original size:19 final size:18
Alignment explanation
Indices: 50398--50465 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
50388 CAGTAGCTAA
50398 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
50417 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
50432 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
50449 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
50466 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:50438 original size:13 final size:13
Alignment explanation
Indices: 50420--50444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50410 ACAATACTTA
50420 TGTATCGATACAT
1 TGTATCGATACAT
50433 TGTATCGATACA
1 TGTATCGATACA
50445 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:50442 original size:32 final size:32
Alignment explanation
Indices: 50401--50463 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
50391 TAGCTAATTA
*
50401 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
50433 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
50464 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:50545 original size:21 final size:21
Alignment explanation
Indices: 50521--50577 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
50511 CATTTGTAGG
50521 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
50542 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
50563 ATGTATCGATACATT
1 ATGTATCGATACATT
50578 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:50588 original size:1 final size:1
Alignment explanation
Indices: 50582--50627 Score: 65
Period size: 1 Copynumber: 46.0 Consensus size: 1
50572 TACATTTAAA
***
50582 TTTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
50628 CAAACACTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.04, C:0.02, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:50628 original size:18 final size:18
Alignment explanation
Indices: 50582--50630 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
50572 TACATTTAAA
50582 TTTTTTTTTTTTT---TT
1 TTTTTTTTTTTTTCAATT
50597 TTTTTTTTTTTTTCAATT
1 TTTTTTTTTTTTTCAATT
50615 TTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTCAA
50631 ACACTTTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.42
18 18 0.58
ACGTcount: A:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTTTTCAATT
Found at i:59793 original size:13 final size:13
Alignment explanation
Indices: 59761--59798 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
59751 ATGAAAAAGA
59761 ATTTTTTGTTATT
1 ATTTTTTGTTATT
59774 -TTATTTTGTTATT
1 ATT-TTTTGTTATT
*
59787 ATTTTTTATTAT
1 ATTTTTTGTTAT
59799 ATATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (13 bp):
ATTTTTTGTTATT
Found at i:61424 original size:20 final size:21
Alignment explanation
Indices: 61390--61429 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
61380 TTATGCATAA
*
61390 TATTTTTTTACTTTT-ATTTT
1 TATTTTTTAACTTTTGATTTT
*
61410 TATTTTTTAATTTTTGATTT
1 TATTTTTTAACTTTTGATTT
61430 CTACTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (21 bp):
TATTTTTTAACTTTTGATTTT
Found at i:74535 original size:20 final size:20
Alignment explanation
Indices: 74510--74586 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
74500 GTAAAAAGAC
*
74510 AGAATGTATCAATGCATTGA
1 AGAATGTATCAATACATTGA
*
74530 AGAATGTATCGATACATTGA
1 AGAATGTATCAATACATTGA
* * *
74550 TA-CATGTATCGATACATTAA
1 -AGAATGTATCAATACATTGA
* *
74570 AAAATGTATCGATACAT
1 AGAATGTATCAATACAT
74587 CTGGGTACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:75388 original size:28 final size:28
Alignment explanation
Indices: 75359--76476 Score: 499
Period size: 28 Copynumber: 39.5 Consensus size: 28
75349 TGCCACCAAC
*
75359 TTGTGGACTTTGAAAGGATGCCACTGAC
1 TTGTGGACTTTGAAAGGATGCCACTGAG
* * * *
75387 TTGTGGGCTTTGAAAAGA-GCCACTTAC
1 TTGTGGACTTTGAAAGGATGCCACTGAG
* * * * *
75414 TTATGGGCTTTGAAAAGATACCACTGATT
1 TTGTGGACTTTGAAAGGATGCCACTGA-G
* *
75443 TGTGTGGGCTTTGAGAAGGATGCCACTGAC
1 T-TGTGGACTTTGA-AAGGATGCCACTGAG
* * *
75473 TTGTGGGCTTTGAGAAGGATGCCACTAAT
1 TTGTGGACTTTGA-AAGGATGCCACTGAG
* * * *
75502 TTGTGGGCTTTGAAAGGATGCCCCTAAC
1 TTGTGGACTTTGAAAGGATGCCACTGAG
* *
75530 TTGTGGGCTTTGAAAGGATGCCACTGAC
1 TTGTGGACTTTGAAAGGATGCCACTGAG
* * *
75558 TTGTAGG-CTTTGAGAAAGATGCCATTGAC
1 TTGT-GGACTTTGA-AAGGATGCCACTGAG
* *
75587 TTGTAGG-CTTTGAGAAGGATGCCACTAAC
1 TTGT-GGACTTTGA-AAGGATGCCACTGAG
* * *
75616 TTGTGGGCTTTGAAATGGGTTGCCA-TCGACT
1 TTGTGGACTTTGAAA--GGATGCCACT-GA-G
* * *
75647 TGTGTGGGCTTTGAGAAGGATGCCATTGAC
1 T-TGTGGACTTTGA-AAGGATGCCACTGAG
** *
75677 TTGTGGGTTTTGAGAAGGATGCCACTGAC
1 TTGTGGACTTTGA-AAGGATGCCACTGAG
* * *
75706 TTGTAGG-CTTTGAAATGGGTTGCCACCGACT
1 TTGT-GGACTTTGAAA--GGATGCCACTGA-G
* * * *
75737 TGTGTGGGCTTTGAAATGAGTTGCCACCGACT
1 T-TGTGGACTTTGAAA-G-GATGCCACTGA-G
* * * *
75769 TGTGTGGGCTTTCAAATGAGTTGCCACTGACT
1 T-TGTGGACTTTGAAA-G-GATGCCACTGA-G
* * * *
75801 TGTGTGGGCTTTGAAAGGGTACCACTGAC
1 T-TGTGGACTTTGAAAGGATGCCACTGAG
* **
75830 TTGTGGGCTTAAAAAGGATGCCAC-GAAG
1 TTGTGGACTTTGAAAGGATGCCACTG-AG
* * *
75858 TTGTGGAC-TTAAAAGGATGCCACGGAA
1 TTGTGGACTTTGAAAGGATGCCACTGAG
*
75885 TTGTGGAC-TT-AAAAGAGTGCCAC-GAAG
1 TTGTGGACTTTGAAAGGA-TGCCACTG-AG
* *
75912 TTGTGGAC-TTAAAAGGGTGCCA-TGGAG
1 TTGTGGACTTTGAAAGGATGCCACT-GAG
* * * *
75939 TTGTGGACTTTAAAAGAACGCCACAGAG
1 TTGTGGACTTTGAAAGGATGCCACTGAG
*
75967 TTGTGGAC-TTAAAATGGATGCCA-TGAAG
1 TTGTGGACTTTGAAA-GGATGCCACTG-AG
** * * *
75995 TTGTGGACTTAAAAAGG-TGCCTCGGAC
1 TTGTGGACTTTGAAAGGATGCCACTGAG
* *
76022 TTATGGAC-TTAAAAGGATGCCA-TAGAG
1 TTGTGGACTTTGAAAGGATGCCACT-GAG
* ** * *
76049 TTGTGAACTTAAAAACG-TGCCACGGAG
1 TTGTGGACTTTGAAAGGATGCCACTGAG
* * * *
76076 TGGTGGACTTTAAAAGAATGCCACGGAG
1 TTGTGGACTTTGAAAGGATGCCACTGAG
*
76104 TTGTAGAC-TTGAAATGGATGCCA-TAGAG
1 TTGTGGACTTTGAAA-GGATGCCACT-GAG
* * *
76132 TTGTGGAC-TTAAAAGGCTG-C-GTGGAG
1 TTGTGGACTTTGAAAGGATGCCACT-GAG
* * *
76158 TTGTAGAC-TT--AAGAATGCCACGGAG
1 TTGTGGACTTTGAAAGGATGCCACTGAG
* * * *
76183 TTATGGACTTTTAAAAGGGTGCCACAGAG
1 TTGTGGAC-TTTGAAAGGATGCCACTGAG
* *
76212 TTATGGACTTTAAAAGGATGCCAC-GAAG
1 TTGTGGACTTTGAAAGGATGCCACTG-AG
* * *
76240 TTGTGGAC-TTAAAAGGAACGCCACGGAG
1 TTGTGGACTTTGAAAGG-ATGCCACTGAG
* * *
76268 TTATGGAC-TTGAAATAGATGCCACAGAG
1 TTGTGGACTTTGAAA-GGATGCCACTGAG
* * *
76296 TTATGGAC-TTAAAAGGGTGCCA-TGGAG
1 TTGTGGACTTTGAAAGGATGCCACT-GAG
* *
76323 TTGTGGAC-TTAAAAGGATGCCACGGAG
1 TTGTGGACTTTGAAAGGATGCCACTGAG
* * * *
76350 TTATGGACTAT-AAAAGAGTGCCACGGAG
1 TTGTGGACTTTGAAAGGA-TGCCACTGAG
* *
76378 TTATGGACTTTAAAAGGATGCCAC-GAAG
1 TTGTGGACTTTGAAAGGATGCCACTG-AG
* * **
76406 TTATGGAC-TTAAAAGGACACCA-TAGAG
1 TTGTGGACTTTGAAAGGATGCCACT-GAG
* *
76433 TTGTGGACTTTGAAAAGAAATGCCACTGAA
1 TTGTGGACTTTG-AAAG-GATGCCACTGAG
*
76463 TCGTGGACTTTGAA
1 TTGTGGACTTTGAA
76477 GATGTCACTG
Statistics
Matches: 900, Mismatches: 126, Indels: 127
0.78 0.11 0.11
Matches are distributed among these distances:
24 5 0.01
25 10 0.01
26 27 0.03
27 220 0.24
28 301 0.33
29 166 0.18
30 59 0.07
31 28 0.03
32 82 0.09
33 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
TTGTGGACTTTGAAAGGATGCCACTGAG
Found at i:75485 original size:29 final size:28
Alignment explanation
Indices: 75357--75890 Score: 491
Period size: 29 Copynumber: 18.3 Consensus size: 28
75347 GTTGCCACCA
*
75357 ACTTGTGGACTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* *
75385 ACTTGTGGGCTTTGAAAAGA-GCCACTT
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * *
75412 ACTTATGGGCTTTGAAAAGATACCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
*
75440 ATTTGTGTGGGCTTTGAGAAGGATGCCACTG
1 A-CT-TGTGGGCTTTGA-AAGGATGCCACTG
*
75471 ACTTGTGGGCTTTGAGAAGGATGCCACTA
1 ACTTGTGGGCTTTGA-AAGGATGCCACTG
* * *
75500 ATTTGTGGGCTTTGAAAGGATGCCCCTA
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
75528 ACTTGTGGGCTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * *
75556 ACTTGTAGGCTTTGAGAAAGATGCCATTG
1 ACTTGTGGGCTTTGA-AAGGATGCCACTG
* *
75585 ACTTGTAGGCTTTGAGAAGGATGCCACTA
1 ACTTGTGGGCTTTGA-AAGGATGCCACTG
*
75614 ACTTGTGGGCTTTGAAATGGGTTGCCA-TCG
1 ACTTGTGGGCTTTGAAA--GGATGCCACT-G
*
75644 ACTTGTGTGGGCTTTGAGAAGGATGCCATTG
1 AC-T-TGTGGGCTTTGA-AAGGATGCCACTG
*
75675 ACTTGTGGGTTTTGAGAAGGATGCCACTG
1 ACTTGTGGGCTTTGA-AAGGATGCCACTG
* * *
75704 ACTTGTAGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGGGCTTTGAAA--GGATGCCACTG
* *
75734 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
1 AC-T-TGTGGGCTTTGAAA-G-GATGCCACTG
* *
75766 ACTTGTGTGGGCTTTCAAATGAGTTGCCACTG
1 AC-T-TGTGGGCTTTGAAA-G-GATGCCACTG
* *
75798 ACTTGTGTGGGCTTTGAAAGGGTACCACTG
1 AC-T-TGTGGGCTTTGAAAGGATGCCACTG
**
75828 ACTTGTGGGCTTAAAAAGGATGCCAC-G
1 ACTTGTGGGCTTTGAAAGGATGCCACTG
* * * *
75855 AAGTTGTGGAC-TTAAAAGGATGCCACGG
1 -ACTTGTGGGCTTTGAAAGGATGCCACTG
*
75883 AATTGTGG
1 ACTTGTGG
75891 ACTTAAAAGA
Statistics
Matches: 439, Mismatches: 48, Indels: 39
0.83 0.09 0.07
Matches are distributed among these distances:
27 47 0.11
28 107 0.24
29 130 0.30
30 43 0.10
31 26 0.06
32 84 0.19
33 2 0.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (28 bp):
ACTTGTGGGCTTTGAAAGGATGCCACTG
Found at i:75600 original size:143 final size:144
Alignment explanation
Indices: 75343--75853 Score: 494
Period size: 143 Copynumber: 3.5 Consensus size: 144
75333 TTGGGTTTAG
* * * *
75343 AAGGGTTGCCACCAACTTGTGGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGA-GC
1 AAGGGATGCCACCAATTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGC
* * * * * *
75407 CACTTACTTATGGGCTTTGAAAAGATACCACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTGA
66 CACTGACTTGTAGGCTTTGAAAAGATACCACTGATCTGTGTAGGCTTTGAGAAGGATGCCACTAA
75472 CTTGTGGGCTTTGA
131 CTTGTGGGCTTTGA
* * *
75486 GAA-GGATGCCACTAATTTGTGGGCTTTGAAAGGATGCCCCTAACTTGTGGGCTTTGAAAGGATG
1 -AAGGGATGCCACCAATTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* *
75550 CCACTGACTTGTAGGCTTTGAGAAAGATGCCATTGA-CT-TGTAGGCTTTGAGAAGGATGCCACT
65 CCACTGACTTGTAGGCTTTGA-AAAGATACCACTGATCTGTGTAGGCTTTGAGAAGGATGCCACT
75613 AACTTGTGGGCTTTGA
129 AACTTGTGGGCTTTGA
* * * * *
75629 AATGGGTTGCCATCGACTTGTGTGGGCTTTGAGAAGGATGCCATTGACTTGTGGGTTTTGAGAAG
1 AA-GGGATGCCA-CCAATT-TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAG
* * * * *
75694 GATGCCACTGACTTGTAGGCTTTGAAATGGGTTGCCACCGA-CTTGTGTGGGCTTTGA-AATGAG
61 GATGCCACTGACTTGTAGGCTTTGAAA--AGATACCACTGATC-TGTGTAGGCTTTGAGAA-G-G
* ** *
75757 TTGCCACCGACTTGTGTGGGCTTTCA
121 ATGCCACTAAC-T-TGTGGGCTTTGA
* * * * * * **
75783 AATGAGTTGCCACTGACTTGTGTGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTAAAAAGGA
1 AA-GGGATGCCAC-CAATT-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
75848 TGCCAC
63 TGCCAC
75854 GAAGTTGTGG
Statistics
Matches: 312, Mismatches: 38, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
142 2 0.01
143 91 0.29
144 29 0.09
145 16 0.05
146 12 0.04
147 26 0.08
148 28 0.09
149 9 0.03
150 3 0.01
151 12 0.04
152 20 0.06
153 24 0.08
154 40 0.13
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (144 bp):
AAGGGATGCCACCAATTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGC
CACTGACTTGTAGGCTTTGAAAAGATACCACTGATCTGTGTAGGCTTTGAGAAGGATGCCACTAA
CTTGTGGGCTTTGA
Found at i:75658 original size:32 final size:31
Alignment explanation
Indices: 75617--75834 Score: 204
Period size: 32 Copynumber: 7.1 Consensus size: 31
75607 GCCACTAACT
75617 TGTGGGCTTTGAAATGGGTTGCCATCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCA-CGACTTG
* *
75649 TGTGGGCTTTGAGAA--GGATGCCATTGAC-T-
1 TGTGGGCTTTGA-AATGGGTTGCCA-CGACTTG
* *
75678 TGTGGGTTTTGAGAA--GGATGCCACTGAC-T-
1 TGTGGGCTTTGA-AATGGGTTGCCAC-GACTTG
*
75707 TGTAGGCTTTGAAATGGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCA-CGACTTG
*
75739 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCA-CGACTTG
* *
75771 TGTGGGCTTTCAAATGAGTTGCCACTGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCAC-GACTTG
*
75803 TGTGGGCTTTGAAA-GGG-TACCACTGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCAC-GACTTG
75833 TG
1 TG
75835 GGCTTAAAAA
Statistics
Matches: 165, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
28 2 0.01
29 36 0.22
30 25 0.15
31 16 0.10
32 84 0.51
33 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.32
Consensus pattern (31 bp):
TGTGGGCTTTGAAATGGGTTGCCACGACTTG
Found at i:75689 original size:90 final size:89
Alignment explanation
Indices: 75349--75750 Score: 415
Period size: 90 Copynumber: 4.6 Consensus size: 89
75339 TTAGAAGGGT
* * * *
75349 TGCCACCAACTTGTGGACTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGA-AAAGA-GCC
1 TGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCAC-GACTTGTGTGGGCTTTGAGAAGGATGCC
* *
75408 ACTT-ACTTATGGGCTTTGA-AAAGA
65 A-TTGACTTGTGGGCTTTGAGAAGGA
* ** *
75432 TACCACTGATTTGTGTGGGCTTTGAGAA--GGATGCCACTGAC-T-TGTGGGCTTTGAGAAGGAT
1 TGCCACT-AACT-TGTGGGCTTTGA-AATGGGTTGCCAC-GACTTGTGTGGGCTTTGAGAAGGAT
* * *
75493 GCCACTAATTTGTGGGCTTTGA-AAGGA
62 GCCATTGACTTGTGGGCTTTGAGAAGGA
* * * *
75520 TGCCCCTAACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTAGGCTTTGAGAAAGATGCC
1 TGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCAC-GACTTGTGTGGGCTTTGAGAAGGATGCC
*
75581 ATTGACTTGTAGGCTTTGAGAAGGA
65 ATTGACTTGTGGGCTTTGAGAAGGA
75606 TGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCATCGACTTGTGTGGGCTTTGAGAAGGATGCC
1 TGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCA-CGACTTGTGTGGGCTTTGAGAAGGATGCC
*
75671 ATTGACTTGTGGGTTTTGAGAAGGA
65 ATTGACTTGTGGGCTTTGAGAAGGA
* *
75696 TGCCACTGACTTGTAGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGA
1 TGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCA-CGACTTGTGTGGGCTTTGA
75751 AATGAGTTGC
Statistics
Matches: 278, Mismatches: 29, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
83 5 0.02
84 2 0.01
85 62 0.22
86 69 0.25
87 7 0.03
88 36 0.13
89 2 0.01
90 95 0.34
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (89 bp):
TGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACGACTTGTGTGGGCTTTGAGAAGGATGCCA
TTGACTTGTGGGCTTTGAGAAGGA
Found at i:76030 original size:110 final size:108
Alignment explanation
Indices: 75830--76442 Score: 550
Period size: 110 Copynumber: 5.6 Consensus size: 108
75820 TACCACTGAC
* * * * *
75830 TTGTGGGCTTAAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAA-TTGTGGACT
1 TTGTGGACTTTAAAAGAATGCCACG-AGTTATGGACTTAAAAGGATGCCA-TGAAGTTGTGGACT
* *
75894 TAAAA-GAGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCATGGAG
64 TAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAG
* *
75939 TTGTGGACTTTAAAAGAACGCCACAGAGTTGTGGACTTAAAATGGATGCCATGAAGTTGTGGACT
1 TTGTGGACTTTAAAAGAATGCCAC-GAGTTATGGACTTAAAA-GGATGCCATGAAGTTGTGGACT
* * * *
76004 TAAAAAGG-TGCCTCGGACTTATGGACTTAAAAGGATGCCATAGAG
64 T-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAG
* * ** * * * *
76049 TTGTGAAC-TTAAAA-ACGTGCCACGGAGTGGTGGACTTTAAAAGAATGCCACGGAGTTGTAGAC
1 TTGTGGACTTTAAAAGA-ATGCCAC-GAGTTATGGAC-TTAAAAGGATGCCATGAAGTTGTGGAC
* ** * *
76112 TTGAAATGGATGCCATAGAGTTGTGGACTTAAAAGGCTG-CGTGGAG
63 TT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAG
* * * *
76158 TTGTAGAC-TT--AAGAATGCCACGGAGTTATGGACTTTTAAAAGGGTGCCA-CAGAGTTATGGA
1 TTGTGGACTTTAAAAGAATGCCAC-GAGTTATGGAC--TTAAAAGGATGCCATGA-AGTTGTGGA
* * *
76219 CTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGAACGCCACGGAG
62 C-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGG-ATGCCATGGAG
* * * *
76268 TTATGGACTTGAAATAG-ATGCCACAGAGTTATGGACTTAAAAGGGTGCCATGGAGTTGTGGACT
1 TTGTGGACTTTAAA-AGAATGCCAC-GAGTTATGGACTTAAAAGGATGCCATGAAGTTGTGGACT
* *
76332 TAAAAGGATGCCACGGAGTTATGGACTATAAAA-GAGTGCCACGGAG
64 TAAAAGGATGCCACGGAGTTGTGGACT-TAAAAGGA-TGCCATGGAG
* * **
76378 TTATGGACTTTAAAAGGATGCCACGAAGTTATGGACTTAAAAGGACACCAT-AGAGTTGTGGACT
1 TTGTGGACTTTAAAAGAATGCCACG-AGTTATGGACTTAAAAGGATGCCATGA-AGTTGTGGACT
76442 T
64 T
76443 TGAAAAGAAA
Statistics
Matches: 416, Mismatches: 64, Indels: 47
0.79 0.12 0.09
Matches are distributed among these distances:
107 18 0.04
108 52 0.12
109 104 0.25
110 187 0.45
111 33 0.08
112 1 0.00
113 19 0.05
114 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.24
Consensus pattern (108 bp):
TTGTGGACTTTAAAAGAATGCCACGAGTTATGGACTTAAAAGGATGCCATGAAGTTGTGGACTTA
AAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAG
Found at i:77761 original size:22 final size:22
Alignment explanation
Indices: 77736--77812 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
77726 CTGTTGTTCC
*
77736 TTTTTTATTTTGCTTTTGCATTT
1 TTTTTTATTTTGCTTTTGCA-TA
*
77759 TTTTTTATTTTTCTTTT-CATA
1 TTTTTTATTTTGCTTTTGCATA
* *
77780 TTTTATACTTTTGCTTTTG-ATC
1 TTTTTTA-TTTTGCTTTTGCATA
77802 TTTTTT-TTTTG
1 TTTTTTATTTTG
77813 TCATTTTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 5 0.11
21 7 0.15
22 18 0.39
23 16 0.35
ACGTcount: A:0.10, C:0.09, G:0.06, T:0.74
Consensus pattern (22 bp):
TTTTTTATTTTGCTTTTGCATA
Found at i:80226 original size:15 final size:15
Alignment explanation
Indices: 80206--80240 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
80196 GTTTACGGCA
80206 GTGCGTATTGTAGCG
1 GTGCGTATTGTAGCG
*
80221 GTGCGTATTGTAGTG
1 GTGCGTATTGTAGCG
80236 GTGCG
1 GTGCG
80241 GGATGCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.43, T:0.34
Consensus pattern (15 bp):
GTGCGTATTGTAGCG
Found at i:84854 original size:20 final size:19
Alignment explanation
Indices: 84829--84902 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
84819 TTTTAACTAG
*
84829 ATGTATCGATACACTGAAGA
1 ATGTATCGATACATTGAA-A
*
84849 ATGTATCGATACATTGATAC
1 ATGTATCGATACATTGA-AA
*
84869 ATGTATCAATACATTGAAAA
1 ATGTATCGATACATTG-AAA
* *
84889 AGGTATTGATACAT
1 ATGTATCGATACAT
84903 CTAGGTACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACATTGAAA
Found at i:86691 original size:30 final size:29
Alignment explanation
Indices: 86626--86812 Score: 196
Period size: 30 Copynumber: 6.3 Consensus size: 29
86616 GGTACTCTTT
* * * *
86626 TCAAAGTTCACAACTCAGTGGCACTCTTT
1 TCAAAGTCCACGACTCAGTGGCACCCTTC
* * *
86655 TCAAAGTTCATGACTCAATGGCACCCTATC
1 TCAAAGTCCACGACTCAGTGGCACCCT-TC
86685 TCAAAGTCCACGACTCAGTGGCA-CCTATC
1 TCAAAGTCCACGACTCAGTGGCACCCT-TC
* *
86714 TCAAAGTCCATGACTTAGTGGCACCCCTTC
1 TCAAAGTCCACGACTCAGTGGCA-CCCTTC
* **
86744 TCAAAGTCCACGACTTAGTGGTGCCCTTTC
1 TCAAAGTCCACGACTCAGTGGCACCC-TTC
* * *
86774 TCATAGTCCACGACTCGGTGGCACCTTTC
1 TCAAAGTCCACGACTCAGTGGCACCCTTC
86803 TCAAAGTCCA
1 TCAAAGTCCA
86813 AATGAGTTGG
Statistics
Matches: 134, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
29 65 0.49
30 66 0.49
31 3 0.02
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (29 bp):
TCAAAGTCCACGACTCAGTGGCACCCTTC
Found at i:86718 original size:59 final size:57
Alignment explanation
Indices: 86626--86812 Score: 205
Period size: 59 Copynumber: 3.2 Consensus size: 57
86616 GGTACTCTTT
* * * * *
86626 TCAAAGTTCACAACTCAGTGGCACTCTTTTCAAAGTTCATGACTCAATGGCACCCTATC
1 TCAAAGTCCACGACTCAGTGGCAC-CTTCTCAAAGTCCATGACTCAGTGGCACCCT-TC
*
86685 TCAAAGTCCACGACTCAGTGGCACCTATCTCAAAGTCCATGACTTAGTGGCACCCCTTC
1 TCAAAGTCCACGACTCAGTGGCACCT-TCTCAAAGTCCATGACTCAGTGGCA-CCCTTC
* * * * *
86744 TCAAAGTCCACGACTTAGTGGTGC-CCTTTCTCATAGTCCACGACTCGGTGGCACCTTTC
1 TCAAAGTCCACGACTCAGT-G-GCACC-TTCTCAAAGTCCATGACTCAGTGGCACCCTTC
86803 TCAAAGTCCA
1 TCAAAGTCCA
86813 AATGAGTTGG
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
58 2 0.02
59 78 0.70
60 28 0.25
61 3 0.03
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (57 bp):
TCAAAGTCCACGACTCAGTGGCACCTTCTCAAAGTCCATGACTCAGTGGCACCCTTC
Found at i:86810 original size:29 final size:29
Alignment explanation
Indices: 86622--86812 Score: 199
Period size: 29 Copynumber: 6.5 Consensus size: 29
86612 TGGAGGTACT
* *
86622 CTTT-TCAAAGTTCACAACTCAGTGGCAC
1 CTTTCTCAAAGTCCACGACTCAGTGGCAC
* * *
86650 TCTTT-TCAAAGTTCATGACTCAATGGCACC
1 -CTTTCTCAAAGTCCACGACTCAGTGGCA-C
*
86680 CTATCTCAAAGTCCACGACTCAGTGGCAC
1 CTTTCTCAAAGTCCACGACTCAGTGGCAC
* * *
86709 CTATCTCAAAGTCCATGACTTAGTGGCACC
1 CTTTCTCAAAGTCCACGACTCAGTGGCA-C
* *
86739 CCTTCTCAAAGTCCACGACTTAGTGGTGC-C
1 CTTTCTCAAAGTCCACGACTCAGT-G-GCAC
* *
86769 CTTTCTCATAGTCCACGACTCGGTGGCAC
1 CTTTCTCAAAGTCCACGACTCAGTGGCAC
86798 CTTTCTCAAAGTCCA
1 CTTTCTCAAAGTCCA
86813 AATGAGTTGG
Statistics
Matches: 139, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.01
29 70 0.50
30 64 0.46
31 1 0.01
32 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
CTTTCTCAAAGTCCACGACTCAGTGGCAC
Found at i:86945 original size:60 final size:59
Alignment explanation
Indices: 86833--86976 Score: 157
Period size: 60 Copynumber: 2.4 Consensus size: 59
86823 TGACATCTTT
* * * * * * *
86833 CACAAGCAGGTGGCATCATTTCTCAAAGTTCGCATGAGCTGACGGTATCCAAAAAGCCCA
1 CACAAGCTGGTGGTATCTTTTCTTAAAGTTCGCATGAGCTGACAGCA-CCCAAAAGCCCA
* *
86893 CATAAGCTGGTGGTATCTTTTCTTAAAGTTTGCATGAGCT-AGCAGCACCCAAAAGCCCA
1 CACAAGCTGGTGGTATCTTTTCTTAAAGTTCGCATGAGCTGA-CAGCACCCAAAAGCCCA
* *
86952 CACAAGTTGGTGGTAT-TTTTTTTAA
1 CACAAGCTGGTGGTATCTTTTCTTAA
86977 GCCGAATGTT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
58 8 0.11
59 26 0.37
60 37 0.52
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (59 bp):
CACAAGCTGGTGGTATCTTTTCTTAAAGTTCGCATGAGCTGACAGCACCCAAAAGCCCA
Found at i:87243 original size:52 final size:52
Alignment explanation
Indices: 87170--87591 Score: 472
Period size: 52 Copynumber: 8.1 Consensus size: 52
87160 CATCTCTTTC
* * * *
87170 TTAAGCCCAATGTCCCTAGCCTTGAATCAGCACATTGCCACTCGTATCATCT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATCT
* * *
87222 TTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTAGCGCTCTTATCATCT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATCT
* * * ** * *
87274 TTAAGTCTAATATTGCTAGAATTGAATCAGCACATTTGCACCCTTATCATCT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATCT
* ** * * *
87326 TTAAATCCAATGTCATTGGCCTTGAATCAGTACATTTGCAC-CTTTATCATCT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTC-TTATCATCT
** *
87378 TTAAGTCCAATGTCATTAGCCTTGAATCAGCACATTGGCACCCTTATCATCT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATCT
* * * * * *
87430 TTAAATCCAATGTTGTTGGCCTTGAATCAGCACATTGGCACTTTTGTCATCT
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATCT
* * *
87482 TTAAGTCCAATATCGCT-GACCTTGAATCAACATATTGGCACT-TTATCATCT
1 TTAAGTCCAATGTCGCTAG-CCTTGAATCAGCACATTGGCACTCTTATCATCT
* * * * *
87533 TTAAGTCCAATGTTGCTGGCCTTGAATCAACATATTGGCACTCTTATCATCG
1 TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATCT
87585 TTAAGTC
1 TTAAGTC
87592 TGGTGTCGTA
Statistics
Matches: 320, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
51 48 0.15
52 271 0.85
53 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (52 bp):
TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTCTTATCATCT
Found at i:88471 original size:21 final size:21
Alignment explanation
Indices: 88441--88492 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
88431 CTAGAAAAAT
*
88441 TGTATCGATACATACTTATAA
1 TGTATCGATACATACTTACAA
* * *
88462 TGTATTGATACATGCTTGCAA
1 TGTATCGATACATACTTACAA
88483 TGTATCGATA
1 TGTATCGATA
88493 TATTATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATACTTACAA
Found at i:88578 original size:20 final size:20
Alignment explanation
Indices: 88530--88583 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
88520 AGTTTTGACC
* *
88530 TAAATGTAACAATACATTCT
1 TAAATGTATCGATACATTCT
*
88550 TCAATGTATCGATACATTCT
1 TAAATGTATCGATACATTCT
88570 TAAATGTATCGATA
1 TAAATGTATCGATA
88584 TAGATAGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (20 bp):
TAAATGTATCGATACATTCT
Found at i:97774 original size:17 final size:18
Alignment explanation
Indices: 97748--97782 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97738 CATATACTTT
97748 TAAAAAAAAAGA-AAAAA
1 TAAAAAAAAAGAGAAAAA
*
97765 TAAAATAAAAGAGAAAAA
1 TAAAAAAAAAGAGAAAAA
97783 ATAGAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (18 bp):
TAAAAAAAAAGAGAAAAA
Found at i:97779 original size:19 final size:17
Alignment explanation
Indices: 97748--97785 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
97738 CATATACTTT
97748 TAAAAAAAAAGAAAAAA
1 TAAAAAAAAAGAAAAAA
97765 TAAAATAAAAGAGAAAAAA
1 TAAAA-AAAA-AGAAAAAA
97784 TA
1 TA
97786 GAGGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.11
Consensus pattern (17 bp):
TAAAAAAAAAGAAAAAA
Found at i:97834 original size:9 final size:9
Alignment explanation
Indices: 97808--97841 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
97798 AGGTATTATC
97808 TTTCTTTTT
1 TTTCTTTTT
*
97817 TTTAGTTTTT
1 TTT-CTTTTT
97827 TTTCTTTTT
1 TTTCTTTTT
97836 TTTCTT
1 TTTCTT
97842 CATGCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:102304 original size:2 final size:2
Alignment explanation
Indices: 102291--102331 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
102281 TGTAAGCTTT
* *
102291 TC TC TT TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
102332 ATATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
TC
Found at i:102336 original size:2 final size:2
Alignment explanation
Indices: 102331--102401 Score: 97
Period size: 2 Copynumber: 35.5 Consensus size: 2
102321 TCTCTCTCTC
* * * * *
102331 TA TA TA TA TA TA TA TA TA TA TA TA TA TC CA TC TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
102373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
102402 TTGTACATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:103426 original size:18 final size:18
Alignment explanation
Indices: 103387--103428 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
103377 AAAACTAATT
*
103387 AATTTTATATGTATTTAT
1 AATTTTATATGTATTTAA
*
103405 AATTTTATATAT-TATTAA
1 AATTTTATATGTAT-TTAA
103423 AATTTT
1 AATTTT
103429 GATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
AATTTTATATGTATTTAA
Found at i:105412 original size:20 final size:20
Alignment explanation
Indices: 105384--105458 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
105374 TTTTACCCAG
105384 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
105404 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
105424 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
105444 ATGTATCGATACATT
1 ATGTATCGATACATT
105459 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:105444 original size:40 final size:39
Alignment explanation
Indices: 105384--105461 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
105374 TTTTACCCAG
*
105384 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
105424 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
105462 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:112842 original size:10 final size:10
Alignment explanation
Indices: 112827--112855 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
112817 CTAATCCTAA
112827 AAAAAAAAAC
1 AAAAAAAAAC
112837 AAAAAAAAAC
1 AAAAAAAAAC
112847 AAAAAAAAA
1 AAAAAAAAA
112856 ACTTTTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:113968 original size:55 final size:55
Alignment explanation
Indices: 113899--114682 Score: 1141
Period size: 55 Copynumber: 14.3 Consensus size: 55
113889 GTGGCATTTT
* *
113899 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
113954 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACC
* * *
114010 CTTTTAAAGTCCACAATTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGTACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
114065 C-TTTAAAGTCCATAACTTCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACC
* * *
114120 CTTTTAAAGTCCACAACTCTGTGGCATCGTTTTAAGTCCACAACTCCGTGGTA-C
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
114174 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * *
114230 GTTTT-AAGTCCACAACTCCATGGCACCCTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
*
114284 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
114339 CTTTTAAAGTCCACAACTCTGTGGCATCGTTTTAAGTCCACAACTCCGTGGTA-C
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
114393 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACC
* * *
114449 GTTTT-AAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
114503 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
114558 C-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * * *
114613 CTTTT-AAGTTCACAACTTCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCACC
*
114668 CTTTTAAAGCCCACA
1 CTTTTAAAGTCCACA
114683 CAAGTCGGTG
Statistics
Matches: 660, Mismatches: 56, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
54 167 0.25
55 391 0.59
56 102 0.15
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (55 bp):
CTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:113972 original size:28 final size:28
Alignment explanation
Indices: 113867--115567 Score: 1237
Period size: 28 Copynumber: 59.6 Consensus size: 28
113857 AGTACTGTGA
* * *
113867 CCTTTTCAAAGTCCACGACTCAGTGGCATTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCA--C
* * *
113898 TCTTTTAAAGTCCACAACTCTGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
113926 CCTTTT-AAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
113953 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
113981 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114009 CCTTTTAAAGTCCACAATTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114037 CGTTTT-AAGTCCACAACTCCGTGGTAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114064 CC-TTTAAAGTCCATAACTTCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
114091 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114119 CCTTTTAAAGTCCACAACTCTGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114147 CGTTTT-AAGTCCACAACTCCGTGGTA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
114173 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
114201 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114229 CGTTTT-AAGTCCACAACTCCATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
114256 CC-TTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
114283 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
114311 CGTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114338 CCTTTTAAAGTCCACAACTCTGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114366 CGTTTT-AAGTCCACAACTCCGTGGTA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
114392 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
114420 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
114448 CGTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
114475 CC-TTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
114502 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
114530 CGTTTT-AAGTCCACAACTTCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
114557 CC-TTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
*
114584 CCTTTTAAAGTCCACAATTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
114612 CCTTTT-AAGTTCACAACTTCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
114639 CCTTTTTAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
114667 CCTTTTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTTAAAG-TC-CACAACTCCGTGGCAC
* * * *
114697 CCTATTTCGAAGCCCACACAAGTCGGTGGCAAC
1 CCT-TTT-AAAG-TC-CACAACTCCGTGGC-AC
* * *
114730 CCATTTGAAAGCCCACACAAGT-CGATGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCCG-TGGC-AC
* * * *
114762 CCATTTCAAAGCCCACAAATCAGTGGCAC
1 CC-TTTTAAAGTCCACAACTCCGTGGCAC
* * * *
114791 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * **
114819 CCTTTTAAAGCCCACAAGTTGGTGGCAAC
1 CCTTTTAAAGTCCACAACTCCGTGGC-AC
* * * *
114848 CCATTTCAAAGCCCACAAATCAGTGGCAC
1 CC-TTTTAAAGTCCACAACTCCGTGGCAC
* * * *
114877 CCTTTCAAA-CCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
114904 CCTTTTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTTAAAG-TC-CACAACTCCGTGGCAC
* * * *
114934 CATATTTCAAAGCCCATACAAGTCGGTGGCAAC
1 CCT-TTT-AAAGTCC--ACAACTCCGTGGC-AC
* * * * *
114967 CCATTTGAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTTTAAAG-TC-CACAACTCCGTGGCAC
* *
114998 CCTATTTCAAA-TCCCACAAATCAGTGGCAC
1 CCT-TTT-AAAGT-CCACAACTCCGTGGCAC
* * *
115028 CCTTTCAAA-TCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGT-CCACAACTCCGTGGCAC
* * * *
115056 TCTTTTCAAAGCCCACACGAGTCGGTGGCAAC
1 CCTTTT-AAAGTCCACA--ACTCCGTGGC-AC
* * ** *
115088 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
* * * * *
115117 CCTTTCAAAGCCCACGAGTCAGTGGCAAC
1 CCTTTTAAAGTCCACAACTCCGTGGC-AC
* * * * *
115146 ACTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
* * * **
115175 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
115203 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * *
115231 TCTTTTCAAAGCCCACACGAGTCGGTGGCAAC
1 CCTTTT-AAAGTCCACA--ACTCCGTGGC-AC
* * ** *
115263 CCTTTTCAAAGCCCACAAATTAGTGGCAT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
* * * * *
115292 CCTTTCAAAGCCCACGAGTCGGTGGCAAC
1 CCTTTTAAAGTCCACAACTCCGTGGC-AC
* * * **
115321 ACTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
* * * * *
115350 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * *
115378 CCTTTCAAAG-CCTACACGAGTCGGTGGCAAC
1 CCTTTTAAAGTCC-ACA--ACTCCGTGGC-AC
* * ** *
115409 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
* * * * * *
115438 CCTTTCAAAGCCCACGAGTCAGTGGCAA
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * * * *
115466 CATTTTCAAAGCCCACAAGTCAGTGACAT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC
* * * *
115495 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* * * **
115523 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAC
* *
115551 TCTTTTCAAAGCCCACA
1 CCTTTT-AAAGTCCACA
115568 CGAGTTGGTG
Statistics
Matches: 1446, Mismatches: 164, Indels: 122
0.83 0.09 0.07
Matches are distributed among these distances:
26 22 0.02
27 342 0.24
28 611 0.42
29 108 0.07
30 168 0.12
31 47 0.03
32 132 0.09
33 13 0.01
34 3 0.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (28 bp):
CCTTTTAAAGTCCACAACTCCGTGGCAC
Found at i:114099 original size:82 final size:82
Alignment explanation
Indices: 113901--114682 Score: 1129
Period size: 82 Copynumber: 9.5 Consensus size: 82
113891 GGCATTTTCT
* *
113901 TTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTC
*
113965 CACAACTCCGTGGCATCCT
65 CACAACTCCGTGGCA-CCC
* *
113984 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTCCGTGGCATCGTTTTAAGTCC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
*
114049 ACAACTCCGTGGTACCC
66 ACAACTCCGTGGCACCC
* * *
114066 TTTAAAGTCCATAACTTCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTC
* * *
114131 CACAACTCTGTGGCATCG
65 CACAACTCCGTGGCACCC
* * *
114149 TTTTAAGTCCACAACTCCGTGGTA-CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTC
* *
114213 CACAACTCCGTGGCATCG
65 CACAACTCCGTGGCACCC
* * *
114231 TTTTAAGTCCACAACTCCATGGCACCC-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTC
* *
114295 CACAACTCCGTGGCATCG
65 CACAACTCCGTGGCACCC
* * *
114313 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCATCGTTTTAAGTCC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
* *
114378 ACAACTCCGTGGTACCT
66 ACAACTCCGTGGCACCC
*
114395 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
114460 ACAACTCCGTGGCACCC
66 ACAACTCCGTGGCACCC
*
114477 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
*
114542 ACAACTTCGTGGCACCC
66 ACAACTCCGTGGCACCC
* * *
114559 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTCCGTGGCACCCTTTTAAGTTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
* *
114624 ACAACTTCGTGGCATCCT
66 ACAACTCCGTGGCA-CCC
* * * * *
114642 TTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACA
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACA
114683 CAAGTCGGTG
Statistics
Matches: 650, Mismatches: 44, Indels: 10
0.92 0.06 0.01
Matches are distributed among these distances:
82 470 0.72
83 155 0.24
84 25 0.04
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (82 bp):
TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
ACAACTCCGTGGCACCC
Found at i:114255 original size:137 final size:139
Alignment explanation
Indices: 113867--115567 Score: 1193
Period size: 137 Copynumber: 11.9 Consensus size: 139
113857 AGTACTGTGA
* * * * *
113867 CCTTTTCAAAGTCCACGACTCAGTGGCATTTTCTTTTAAAGTCCACAACTCTGTGGCATCCTTTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCA--TCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT
*
113932 -AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCAC
62 AAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
113996 AACTCCGTGGCAC
127 AACTCCGTGGCAC
* * *
114009 CCTTTTAAAGTCCACAATTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGTACCC-TTTAAAG
1 CCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAG
* * *
114073 TCCATAACTTCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACT
66 TCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACT
* *
114138 CTGTGGCAT
131 CCGTGGCAC
* *
114147 CGTTTT-AAGTCCACAACTCCGTGGTA-CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAA
1 CCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAA
* *
114210 GTCCACAACTCCGTGGCATCGTTTT-AAGTCCACAACTCCATGGCACCC-TTTAAAGTCCACAAC
65 GTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAAC
114273 TCCGTGGCAC
130 TCCGTGGCAC
*
114283 CCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAG
1 CCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAG
* * *
114348 TCCACAACTCTGTGGCATCGTTTT-AAGTCCACAACTCCGTGGTA-CCTTTTAAAGTCCACAACT
66 TCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACT
114411 CCGTGGCAC
131 CCGTGGCAC
*
114420 CCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGCACCC-TTTAAAG
1 CCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAG
* * *
114484 TCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTT-AAGTCCACAACT
66 TCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACT
*
114548 TCGTGGCAC
131 CCGTGGCAC
* *
114557 CC-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTCCGTGGCACCCTTTT-AA
1 CCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAA
* * * * * * *
114620 GTTCACAACTTCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACA
65 GTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAG-TC-CACA
* * *
114685 AGTCGGTGGCAA
128 ACTCCGTGGCAC
* * * * * * * *
114697 CCTATTTCGAAGCCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGT-CGATGGCAA
1 CCT-TTT-AAAG-TC-CACAACTCCGTGGC-ATCC-TTT-TAAG-TC-CACAACTCCG-TGGC-A
* * * * * * * * *
114761 CCCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTA
55 CCC-TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTA
* * **
114826 AAGCCCACAAGTTGGTGGCAAC
119 AAGTCCACAACTCCGTGGC-AC
* * * * * * ** * *
114848 CCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAACCCACAAGTCAGTGGCACCCTTTTAAA
1 CC-TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA
* * * * * * * * *
114913 GCCCACACAAGTCGGTGGCAACATATTTCAAAGCCCATACAAGTCGGTGGCAACCCATTTGAAAG
65 G-TC-CACAACTCCGTGGCATCCT-TTT-AAAGTCC--ACAACTCCGTGGC-ACCC-TTTTAAAG
* * * *
114978 CCCACACAAGTCGGTGGCAA
122 -TC-CACAACTCCGTGGCAC
* * * * * * * *
114998 CCTATTTCAAA-TCCCACAAATCAGTGGCACCCTTTCAAATCCCACAAGTCAGTGGCACTCTTTT
1 CCT-TTT-AAAGT-CCACAACTCCGTGGCATCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTT
* * * * * * ** * *
115062 CAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
62 -AAAGTCCACA--ACTCCGTGGC-ATCCTTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAG
* * * *
115127 CCCACGAGTCAGTGGCAAC
122 TCCACAACTCCGTGGC-AC
* * * * * * * ** *
115146 ACTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAA
1 CCTTTT-AAAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCACCCTTTTAA
* * * * * * *
115211 AGCCCACAAGTCAGTGGCA-CTCTTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGC
64 AGTCCACAACTCCGTGGCATC-CTTTT-AAAGTCCACA--ACTCCGTGGC-ACCCTTTT-AAAGT
* ** *
115275 CCACAAATTAGTGGCAT
123 CCACAACTCCGTGGCAC
* * * * * * * * ** *
115292 CCTTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCA
1 CCTTTTAAAGTCCACAACTCCGTGGCATC-CTTTT--AAGTCCACAACTCCGTGGCACCCTTTTA
* * * * * * *
115357 AAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CCTACACGAGTCGGTGGCAACCCTTTTCAAAGC
63 AAGTCCACAACTCCGTGGCATCCTTTTAAAGTCC-ACA--ACTCCGTGGC-ACCCTTTT-AAAGT
* ** *
115421 CCACAAGTTAGTGGCAT
123 CCACAACTCCGTGGCAC
* * * * * * * * * * * * *
115438 CCTTTCAAAGCCCACGAGTCAGTGGCAACATTTTCAAAGCCCACAAGTCAGTGACATCCTTTCAA
1 CCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT--AAGTCCACAACTCCGTGGCACCCTTTTAA
* * * * * * * ** * *
115503 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACA
64 AGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACA
115568 CGAGTTGGTG
Statistics
Matches: 1358, Mismatches: 139, Indels: 124
0.84 0.09 0.08
Matches are distributed among these distances:
136 92 0.07
137 347 0.26
138 139 0.10
139 6 0.00
140 14 0.01
141 25 0.02
142 34 0.03
143 54 0.04
144 15 0.01
145 115 0.08
146 112 0.08
147 150 0.11
148 27 0.02
149 27 0.02
150 30 0.02
151 67 0.05
152 76 0.06
153 25 0.02
154 3 0.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (139 bp):
CCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAG
TCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACT
CCGTGGCAC
Found at i:115219 original size:175 final size:173
Alignment explanation
Indices: 113919--115601 Score: 1116
Period size: 164 Copynumber: 9.8 Consensus size: 173
113909 CCACAACTCT
* * * * * * * * * *
113919 GTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTTT-AAAGTCCACAACTCCGTGGCATC
1 GTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCACC
* * * * * * * *
113982 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTCCGTGGCA-TCGTTTT--A
66 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTTCAA
* * * * * * * *
114044 AGTCCACA-ACTCCGTGG-TACCC-TTT-AAAGTCCATAACTTC
130 AGCCCACACAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
* * * * * * * * * *
114084 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAACTCTGTGGCATC
1 GTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCACC
* * * * * * * * * * *
114148 GTTT-TAAGTCCACAACTCCGTGGTA-CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAA
66 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
* * * * * * * *
114210 GTCCACA-ACTCCGTGGC-ATCGTTTT--AAGTCCACAACTCCA
131 GCCCACACAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGT-TA
* * * * * * * * *
114250 -TGGCACCCTTT-AAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAACTCCGTGGCATC
1 GTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCACC
* * * * * * * * *
114312 GTTT-TAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCA-TCGTTTT--A
66 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTTCAA
* * * * * * **
114373 AGTCCACA-ACTCCGTGG-TA-CCTTTT-AAAGTCCACAACTCC
130 AGCCCACACAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
* * * * * * * * * *
114413 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTT--AAGTCCACAACTCCGTGGCACC
1 GTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCACC
* * * * * * *
114476 CTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-TCGTTTT--A
66 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTTCAA
* * * * **
114537 AGTCCACA-ACTTC-GTGGC-ACCC-TTT-AAAGTCCACAACTCC
130 AGCCCACACA-GTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
* * * * * * ** * *
114577 GTGGCACCCTTTTAAAGTCCACAATTCCGTGGCACCCTTTT--AAGTTCACAACTTC-GTGGCAT
1 GTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAA-GTCAGTGGCAC
** * *
114639 CCTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAAC-CTATT
65 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCT-TT
* * * *
114703 TCGAAGCCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAG-TC
126 TCAAAGCCCACAC-AGTCGGTGGCAACCCTTTTCAAAG-CC-CACAAGTTA
* *
114753 GATGGCAACCCATTTCAAAGCCCACAAATCAGTGGC-ACCCTTTCAAAGCCCACAAGTCAGTGGC
1 G-TGGCAA-CC-TTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGC
* ** * *
114817 ACCCTTTTAAAGCCCACAAGTTGGTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCAC-CCTT
63 ACCCTTTCAAAGCCCACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTT
* **
114881 TCAAA-CCCACA-AGTCAGTGGC-ACCCTTTT-AAAGCCCACACAAGTCG
126 TCAAAGCCCACACAGTCGGTGGCAACCCTTTTCAAAG-CC-CACAAGTTA
* * * * *
114927 GTGGCAACATATTTCAAAGCCCATACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCGG
1 GTGGCAAC--CTTTCAAAGCCC--ACAAGTCAGTGGCAA-CCTTTTCAAAG-CC-CACAAGTCAG
* * * *
114992 TGGCAACCTATTTCAAATCCCACAAATCAGTGGCACCCTTTCAAATCCCACAAGTCAGTGGCACT
59 TGGC-ACC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
115057 CTTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
122 CTTTTCAAAGCCCACAC-AGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
* * *
115110 GTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCAACACTTTTCAAAGCCCACAAGTCAGTGGCAT
1 GTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAAC-CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
115175 CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
65 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
*
115240 AGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAATTA
130 AGCCCACAC-AGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
* * * *
115285 GTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAGTTAGTGGCAC
1 GTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAAC-CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
115350 CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCTACACGAGTCGGTGGCAACCCTTTT
65 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC--CACAAGTCAGTGGC-ACTCTTTT
** * * *
115415 CAAAGCCCACA-AGTTAGTGGC-ATCC-TTTCAAAGCCCACGAGTCA
127 CAAAGCCCACACAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
* * *
115459 GTGGCAACATTTTCAAAGCCCACAAGTCAGTGACATCC-TTTCAAAGCCCACAAGTCAGTGGCAC
1 GTGGCAAC-CTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * ** *
115523 CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGTAACTCTTT
65 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGG-CACTCTTT
115588 TCAAAGCCCACACA
126 TCAAAGCCCACACA
115602 AGTTAGTGGC
Statistics
Matches: 1323, Mismatches: 128, Indels: 124
0.84 0.08 0.08
Matches are distributed among these distances:
163 6 0.00
164 316 0.24
165 163 0.12
166 55 0.04
167 13 0.01
168 5 0.00
170 8 0.01
171 2 0.00
172 10 0.01
173 86 0.07
174 72 0.05
175 254 0.19
176 14 0.01
177 50 0.04
178 36 0.03
179 83 0.06
180 64 0.05
181 42 0.03
182 7 0.01
183 23 0.02
184 10 0.01
185 4 0.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (173 bp):
GTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCACC
CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
GCCCACACAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
Found at i:116203 original size:20 final size:20
Alignment explanation
Indices: 116175--116249 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
116165 TTTTACCCAG
116175 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
116195 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
116215 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
116235 ATGTATCGATGCATT
1 ATGTATCGATACATT
116250 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:116235 original size:40 final size:39
Alignment explanation
Indices: 116175--116252 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
116165 TTTTACCCAG
*
116175 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* * *
116215 ATGTATCGATATATTCTTCAATGTATCGATGCATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
116253 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:122598 original size:19 final size:21
Alignment explanation
Indices: 122574--122619 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
122564 CATAAACAAT
122574 TTTTTTAG-AATTTTT-GATA
1 TTTTTTAGCAATTTTTGGATA
*
122593 TTTTTTAGCATTTTTTGGATA
1 TTTTTTAGCAATTTTTGGATA
122614 TTTTTT
1 TTTTTT
122620 CACTGACGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.33
20 6 0.25
21 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (21 bp):
TTTTTTAGCAATTTTTGGATA
Done.