Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 82 of 145
Found at i:27309260 original size:25 final size:25
Alignment explanation
Indices: 27309232--27309312 Score: 126
Period size: 25 Copynumber: 3.2 Consensus size: 25
27309222 TTTAGCGTGT
27309232 TCTCTGATTATTAGCACGTTGGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
27309257 TCTCTGATTATTAGCACGTTGGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
* * **
27309282 TATCTGATTACTAGCACGTCAGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
27309307 TCTCTG
1 TCTCTG
27309313 TTTAGCACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
TCTCTGATTATTAGCACGTTGGTGC
Found at i:27317735 original size:17 final size:17
Alignment explanation
Indices: 27317713--27317774 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
27317703 TTGAATGTTA
27317713 TGTGATTATATGAGTAT
1 TGTGATTATATGAGTAT
*
27317730 TGTGATATATGCTTGAATGT-T
1 TGTGAT-TAT--ATG-A-GTAT
27317751 ATGTGATTATATGAGTAT
1 -TGTGATTATATGAGTAT
27317769 TGTGAT
1 TGTGAT
27317775 AAATGATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
17 14 0.39
18 5 0.14
19 2 0.06
20 2 0.06
21 5 0.14
22 8 0.22
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (17 bp):
TGTGATTATATGAGTAT
Found at i:27317740 original size:39 final size:39
Alignment explanation
Indices: 27317684--27317794 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
27317674 AACATGTTTT
* *
27317684 TGAGTATTATGACATATGATTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGATTGAATGTTATGTGATTATA
*
27317723 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGATTGAATGTTATGTGATTATA
* *
27317762 TGAGTATTGTGATAAATGATTAAATGTTATGTG
1 TGAGTATTGTGATATATGATTGAATGTTATGTG
27317795 CATATGTGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGATTGAATGTTATGTGATTATA
Found at i:27317810 original size:37 final size:38
Alignment explanation
Indices: 27317684--27317822 Score: 145
Period size: 39 Copynumber: 3.6 Consensus size: 38
27317674 AACATGTTTT
* * * *
27317684 TGAGTATTATGACATATGATTGAATGTTATGTGATTATA
1 TGAGTATTGTGATAAATGATTAAATGTTATGTGA-TATA
* * *
27317723 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATAAATGATTAAATGTTATGTGA-TATA
*
27317762 TGAGTATTGTGATAAATGATTAAATGTTATGTG-CATA
1 TGAGTATTGTGATAAATGATTAAATGTTATGTGATATA
* * * *
27317799 TGTGTAATGTGATAGATGCTTAAA
1 TGAGTATTGTGATAAATGATTAAA
27317823 AGTGAATATG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
37 23 0.26
39 66 0.74
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.42
Consensus pattern (38 bp):
TGAGTATTGTGATAAATGATTAAATGTTATGTGATATA
Found at i:27318682 original size:3 final size:3
Alignment explanation
Indices: 27318674--27318710 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
27318664 TATGCATGTT
27318674 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27318711 AAGACCATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27320161 original size:7 final size:8
Alignment explanation
Indices: 27320149--27320201 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
27320139 AAAACTATAA
27320149 AAAATA-T
1 AAAATATT
27320156 AAAATA-T
1 AAAATATT
27320163 AAAATTATT
1 AAAA-TATT
27320172 CAAAATATT
1 -AAAATATT
*
27320181 AAAAAATT
1 AAAATATT
27320189 AAAATATGT
1 AAAATAT-T
27320198 AAAA
1 AAAA
27320202 ATTCAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
7 11 0.28
8 15 0.38
9 10 0.25
10 4 0.10
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (8 bp):
AAAATATT
Found at i:27320202 original size:10 final size:9
Alignment explanation
Indices: 27320134--27320203 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
27320124 TTGTTCAAAG
27320134 ATTACAAAACT
1 ATTA-AAAA-T
*
27320145 ATAAAAAAT
1 ATTAAAAAT
27320154 A-T-AAAAT
1 ATTAAAAAT
*
27320161 A-TAAAATT
1 ATTAAAAAT
*
27320169 ATTCAAAAT
1 ATTAAAAAT
27320178 ATTAAAAA-
1 ATTAAAAAT
27320186 ATT-AAAAT
1 ATTAAAAAT
27320194 ATGTAAAAAT
1 AT-TAAAAAT
27320204 TCAAAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
7 11 0.23
8 10 0.21
9 15 0.31
10 9 0.19
11 3 0.06
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:27320202 original size:17 final size:16
Alignment explanation
Indices: 27320146--27320202 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
27320136 TACAAAACTA
27320146 TAAAAAATATAAAATA-
1 TAAAAAAT-TAAAATAT
*
27320162 TAAAATTATTCAAAATAT
1 TAAAA-AATT-AAAATAT
27320180 TAAAAAATTAAAATAT
1 TAAAAAATTAAAATAT
27320196 GTAAAAA
1 -TAAAAA
27320203 TTCAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 13 0.37
17 17 0.49
18 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
TAAAAAATTAAAATAT
Found at i:27320206 original size:33 final size:33
Alignment explanation
Indices: 27320138--27320209 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
27320128 TCAAAGATTA
27320138 CAAAACTATAAAAAATATAAAATATAAAATTATT
1 CAAAACTATAAAAAATATAAAATATAAAA-TATT
27320172 CAAAA-TATTAAAAAAT-TAAAATATGTAAAA-ATT
1 CAAAACTA-TAAAAAATATAAAATA--TAAAATATT
27320205 CAAAA
1 CAAAA
27320210 AAATTGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
33 17 0.49
34 13 0.37
35 5 0.14
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (33 bp):
CAAAACTATAAAAAATATAAAATATAAAATATT
Found at i:27320209 original size:17 final size:17
Alignment explanation
Indices: 27320146--27320209 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 17
27320136 TACAAAACTA
27320146 TAAAAAATAT-AAAATA-
1 TAAAAAAT-TCAAAATAT
*
27320162 TAAAATTATTCAAAATAT
1 TAAAA-AATTCAAAATAT
27320180 TAAAAAATT-AAAATAT
1 TAAAAAATTCAAAATAT
27320196 GT-AAAAATTCAAAA
1 -TAAAAAATTCAAAA
27320210 AAATTGTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
16 20 0.49
17 16 0.39
18 5 0.12
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAAAATTCAAAATAT
Found at i:27325424 original size:29 final size:29
Alignment explanation
Indices: 27325369--27325437 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
27325359 TAGGGATAGG
27325369 AAATTTCATTAGGATATCTTAAGTTAATT
1 AAATTTCATTAGGATATCTTAAGTTAATT
* * *
27325398 AAATTCCATTAGGTTAT-TTTAGATTAATT
1 AAATTTCATTAGGATATCTTAAG-TTAATT
27325427 -AATTTCATTAG
1 AAATTTCATTAG
27325438 TTTAATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.40
29 21 0.60
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.46
Consensus pattern (29 bp):
AAATTTCATTAGGATATCTTAAGTTAATT
Found at i:27339303 original size:47 final size:47
Alignment explanation
Indices: 27339246--27339355 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 47
27339236 AAGGAGGACG
* *
27339246 AAGTGACAGTTTATCTACACAAGTGGTGGCTTGTCCACAATATTATA
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATA
* * * *
27339293 AAGTGGCAGTTTATCTGCAAAATTGGTGGCTTGTCCATAATATTATT
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATA
*
27339340 AAGTGGTAGTTTATCT
1 AAGTGGCAGTTTATCT
27339356 TCATTACTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATA
Found at i:27344234 original size:27 final size:27
Alignment explanation
Indices: 27344202--27344349 Score: 172
Period size: 27 Copynumber: 5.5 Consensus size: 27
27344192 ACCCTGATCT
* *
27344202 ACAGCTTGTGTGAGTAACCTAAATATC
1 ACAGCTTGTGTGAGCAATCTAAATATC
*
27344229 ACAGCTTGTGTAAGCAATCTAAA-ATC
1 ACAGCTTGTGTGAGCAATCTAAATATC
* * *
27344255 ACAACTTGTGTGAGTAATCTAAATATT
1 ACAGCTTGTGTGAGCAATCTAAATATC
*
27344282 ACAGCTTGTGTGAGCAATCTAAATATT
1 ACAGCTTGTGTGAGCAATCTAAATATC
* * * * *
27344309 ACAACTTGTGTGATCAATTTAAAGATT
1 ACAGCTTGTGTGAGCAATCTAAATATC
*
27344336 ACAGCTTGTATGAG
1 ACAGCTTGTGTGAG
27344350 TGGATCTAAA
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 23 0.22
27 81 0.78
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (27 bp):
ACAGCTTGTGTGAGCAATCTAAATATC
Found at i:27344304 original size:80 final size:82
Alignment explanation
Indices: 27344201--27344360 Score: 207
Period size: 80 Copynumber: 2.0 Consensus size: 82
27344191 AACCCTGATC
* * *
27344201 TACAGCTTGTGTGAGTAACCTAAATATCACAGCTTGTGTAAGCAATCTAAA-ATCACAACTTGTG
1 TACAGCTTGTGTGAGCAACCTAAATATCACAACTTGTGTAAGCAATCTAAAGATCACAACTTGTA
27344265 TGAGT-AATCTAAATAT
66 TGAGTGAATCTAAATAT
* * * * * * *
27344281 TACAGCTTGTGTGAGCAATCTAAATATTACAACTTGTGTGATCAATTTAAAGATTACAGCTTGTA
1 TACAGCTTGTGTGAGCAACCTAAATATCACAACTTGTGTAAGCAATCTAAAGATCACAACTTGTA
*
27344346 TGAGTGGATCTAAAT
66 TGAGTGAATCTAAAT
27344361 GATACAAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 44 0.66
81 15 0.22
82 8 0.12
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (82 bp):
TACAGCTTGTGTGAGCAACCTAAATATCACAACTTGTGTAAGCAATCTAAAGATCACAACTTGTA
TGAGTGAATCTAAATAT
Found at i:27344337 original size:54 final size:53
Alignment explanation
Indices: 27344206--27344349 Score: 191
Period size: 53 Copynumber: 2.7 Consensus size: 53
27344196 TGATCTACAG
* * * *
27344206 CTTGTGTGAGTAACCTAAATATCACAGCTTGTGTAAGCAATCTAAAATCACAA
1 CTTGTGTGAGTAATCTAAAGATTACAGCTTGTGTGAGCAATCTAAAATCACAA
* *
27344259 CTTGTGTGAGTAATCTAAATATTACAGCTTGTGTGAGCAATCTAAATATTACAA
1 CTTGTGTGAGTAATCTAAAGATTACAGCTTGTGTGAGCAATCTAAA-ATCACAA
* *
27344313 CTTGTGTGA-TCAATTTAAAGATTACAGCTTGTATGAG
1 CTTGTGTGAGT-AATCTAAAGATTACAGCTTGTGTGAG
27344350 TGGATCTAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 44 0.54
54 38 0.46
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (53 bp):
CTTGTGTGAGTAATCTAAAGATTACAGCTTGTGTGAGCAATCTAAAATCACAA
Found at i:27353286 original size:20 final size:20
Alignment explanation
Indices: 27353232--27353287 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
27353222 TAGAAGTGAA
27353232 AAAGGACTAAATTGTAGAAT
1 AAAGGACTAAATTGTAGAAT
* * *
27353252 AAATTG-TTAATTTGTAGCAAT
1 AAA-GGACTAAATTGTAG-AAT
27353273 -AAGGACTAAATTGTA
1 AAAGGACTAAATTGTA
27353288 AAAAATTAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (20 bp):
AAAGGACTAAATTGTAGAAT
Found at i:27358480 original size:35 final size:35
Alignment explanation
Indices: 27358434--27358504 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
27358424 TTGATGTAAG
*
27358434 ATGGGAAAGTGATCGCATATGCGTCTCGTCAACTA
1 ATGGGAAAGTGATCGCATATGCGTCTCGCCAACTA
27358469 ATGGGAAAGTGATCGCATATGCGTCTCGCCAACTA
1 ATGGGAAAGTGATCGCATATGCGTCTCGCCAACTA
27358504 A
1 A
27358505 AAGCACATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (35 bp):
ATGGGAAAGTGATCGCATATGCGTCTCGCCAACTA
Found at i:27360520 original size:2 final size:2
Alignment explanation
Indices: 27360513--27360544 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27360503 GTTAGCCTTG
27360513 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27360545 GTCATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27360808 original size:18 final size:19
Alignment explanation
Indices: 27360778--27360816 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
27360768 ACCTGACCCA
27360778 TGTTGTAATTTTT-AATGT
1 TGTTGTAATTTTTAAATGT
27360796 TGTT-TAATATTTTAAATGT
1 TGTTGTAAT-TTTTAAATGT
27360815 TG
1 TG
27360817 CCATTGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (19 bp):
TGTTGTAATTTTTAAATGT
Found at i:27364922 original size:2 final size:2
Alignment explanation
Indices: 27364915--27364946 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27364905 GTTTAGGGTG
27364915 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27364947 TTCTACTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27366554 original size:20 final size:20
Alignment explanation
Indices: 27366516--27366554 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27366506 TAATGATTAT
*
27366516 ATTTAAATATTTAAAATATA
1 ATTTAAATATTCAAAATATA
* *
27366536 ATTTATATATTCAATATAT
1 ATTTAAATATTCAAAATAT
27366555 CATAATATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTAAATATTCAAAATATA
Found at i:27367137 original size:29 final size:27
Alignment explanation
Indices: 27367103--27367157 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
27367093 TCAAATCTAT
*
27367103 AAATATTATTAAATTTTAATAAAAAATTC
1 AAATATTA--AAAATTTAATAAAAAATTC
*
27367132 AAATATTAAAAATTTATTAAAAAATT
1 AAATATTAAAAATTTAATAAAAAATT
27367158 ANNNNNNNNN
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.67
29 8 0.33
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATATTAAAAATTTAATAAAAAATTC
Found at i:27367247 original size:21 final size:19
Alignment explanation
Indices: 27367218--27367283 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
27367208 TTATAATTTT
27367218 TTAT-AAATTCGTAAGAAAA
1 TTATAAAATTCGTAA-AAAA
27367237 TTATACAAATT-GTAAAGAAA
1 TTATA-AAATTCGTAAA-AAA
*
27367257 -TATAAATTTCGTAAAAAA
1 TTATAAAATTCGTAAAAAA
27367275 TTTATAAAA
1 -TTATAAAA
27367284 ATTATCGCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 7 0.18
19 14 0.36
20 13 0.33
21 5 0.13
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.33
Consensus pattern (19 bp):
TTATAAAATTCGTAAAAAA
Found at i:27367526 original size:19 final size:19
Alignment explanation
Indices: 27367500--27367548 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
27367490 TTAATATTTT
27367500 TTAA-ATTTTTAT-TAAAAA
1 TTAATATTTTT-TCTAAAAA
*
27367518 TTAATATTTTTTCTAAAAT
1 TTAATATTTTTTCTAAAAA
*
27367537 TTATTATTTTTT
1 TTAATATTTTTT
27367549 ATAATCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAATATTTTTTCTAAAAA
Found at i:27367774 original size:88 final size:87
Alignment explanation
Indices: 27367605--27367783 Score: 209
Period size: 88 Copynumber: 2.0 Consensus size: 87
27367595 TTTGAAAAAT
* * * * * **
27367605 TTTGAGTGTCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGGAAAAAGAAAAGCAA
1 TTTGAGGGCCTTTTTAATGCATTTTAAAAGTTCAAGTACCCAATTGAATACAAAAAGAAAAGCAA
* *
27367670 TGGCTTAATTGCTTTTTTTGAAG
66 TGGCTTAAAT-CTTTTTTTAAAG
* *
27367693 TTTGAGGGCCTTTTTAATGCATTTTAAAAGTTCAAGTGCTCAATTGAATACAAAAAGAAAAAAGC
1 TTTGAGGGCCTTTTTAATGCATTTTAAAAGTTCAAGTACCCAATTGAATACAAAAAG--AAAAGC
27367758 AA-GGACTTAAAT-TTTTTTTAAAG
64 AATGG-CTTAAATCTTTTTTTAAAG
27367781 TTT
1 TTT
27367784 TTTACAGCCT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
88 61 0.79
89 2 0.03
90 14 0.18
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTGAGGGCCTTTTTAATGCATTTTAAAAGTTCAAGTACCCAATTGAATACAAAAAGAAAAGCAA
TGGCTTAAATCTTTTTTTAAAG
Found at i:27369268 original size:29 final size:29
Alignment explanation
Indices: 27369234--27369289 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
27369224 CGCTGAAAAT
27369234 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCGGTAAAT-ATTGAAAAAACC
*
27369263 GGCCCATTTCGGTAAATATTGAAAAAA
1 GGCCCATTCCGGTAAATATTGAAAAAA
27369290 AAGGGCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATATTGAAAAAACC
Found at i:27369578 original size:17 final size:18
Alignment explanation
Indices: 27369537--27369586 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
27369527 AACTATTGTT
*
27369537 TTTTCTTGTTGTTTTTTA
1 TTTTCTTGTTGTTTTCTA
* *
27369555 CTCTCTT-TTGTTTTCTA
1 TTTTCTTGTTGTTTTCTA
*
27369572 TTTTCTTGTTATTTT
1 TTTTCTTGTTGTTTT
27369587 TTCACTAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.06, C:0.12, G:0.08, T:0.74
Consensus pattern (18 bp):
TTTTCTTGTTGTTTTCTA
Found at i:27375196 original size:87 final size:90
Alignment explanation
Indices: 27375003--27375169 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 90
27374993 TAGTAGTATG
* * * *
27375003 TATAAATTAGTTCAATGTTTTATTATTTCAATTTAATATTATAGAGTTTTCTTTTATTTTTGTTC
1 TATATATTAATTC-ATGTTTTATTATTTCAATTTAATATTATA-AG-TTTCTTTTATTTTAGCTC
*
27375068 CAAATTTCTATATTACTTTTAATAGTAC
63 CAAATTTCTATAGTACTTTTAATAGTAC
27375096 TATATATTAATTCATGTTTTATTAATTT-AATTTAATATTAT-A-TTT-TTTTATTTTAGCTCCA
1 TATATATTAATTCATGTTTTATT-ATTTCAATTTAATATTATAAGTTTCTTTTATTTTAGCTCCA
*
27375157 AATTTTTATAGTA
65 AATTTCTATAGTA
27375170 TATTTGCTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
87 25 0.37
88 3 0.04
90 1 0.01
92 23 0.34
93 15 0.22
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.56
Consensus pattern (90 bp):
TATATATTAATTCATGTTTTATTATTTCAATTTAATATTATAAGTTTCTTTTATTTTAGCTCCAA
ATTTCTATAGTACTTTTAATAGTAC
Found at i:27377655 original size:9 final size:9
Alignment explanation
Indices: 27377592--27377636 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
27377582 TTCTAACACT
27377592 TATAAAAGA
1 TATAAAAGA
27377601 TATAAAAGA
1 TATAAAAGA
*
27377610 TATAAAACA
1 TATAAAAGA
27377619 CTTATAAAAGA
1 --TATAAAAGA
27377630 TATAAAA
1 TATAAAA
27377637 AGAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 24 0.75
11 8 0.25
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (9 bp):
TATAAAAGA
Found at i:27377958 original size:21 final size:21
Alignment explanation
Indices: 27377916--27377971 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
27377906 AATAGCGGTG
*
27377916 GCGGTGAGATTAGTTACCGTA
1 GCGGTGAGATTAGATACCGTA
* **
27377937 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACCGTA
**
27377958 GCAATGAGATTAGA
1 GCGGTGAGATTAGA
27377972 AACAACAGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACCGTA
Found at i:27378450 original size:20 final size:20
Alignment explanation
Indices: 27378425--27378463 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27378415 GTTTTTACAT
27378425 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
27378445 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
27378464 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:27382079 original size:6 final size:6
Alignment explanation
Indices: 27382068--27382111 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
27382058 TTTGCAACCT
*
27382068 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
27382112 GAAGAAGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:27385877 original size:13 final size:14
Alignment explanation
Indices: 27385849--27385880 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
27385839 AGTCAAAGAA
27385849 GACAAAAAACACTT
1 GACAAAAAACACTT
27385863 GACAAAAAACA-TT
1 GACAAAAAACACTT
27385876 GACAA
1 GACAA
27385881 GTGTTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.59, C:0.19, G:0.09, T:0.12
Consensus pattern (14 bp):
GACAAAAAACACTT
Found at i:27386572 original size:80 final size:81
Alignment explanation
Indices: 27386475--27386642 Score: 259
Period size: 81 Copynumber: 2.1 Consensus size: 81
27386465 CATCGTTTCC
*
27386475 TTGTAAAAAATTTTCCTTTACATCTCTATCT-TTTTTGTAATAAAATCTATTGTCTTCCGCATAT
1 TTGTAAAAAATTTTCCTTTACATCTCTATCTATTTTTATAATAAAATCTATTGTCTTCCGCATAT
27386539 CCTTATCTCCCTGTAA
66 CCTTATCTCCCTGTAA
** * *
27386555 TTGTAAAATTTTTTCCTTTACTTCTCTATCTATTTTTATAATAAAATCTATTGTCTTCCGCATCT
1 TTGTAAAAAATTTTCCTTTACATCTCTATCTATTTTTATAATAAAATCTATTGTCTTCCGCATAT
* *
27386620 CCTTATCTTCGTGTAA
66 CCTTATCTCCCTGTAA
27386636 TTG-AAAA
1 TTGTAAAA
27386643 CTTCACTTGA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 32 0.40
81 48 0.60
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.48
Consensus pattern (81 bp):
TTGTAAAAAATTTTCCTTTACATCTCTATCTATTTTTATAATAAAATCTATTGTCTTCCGCATAT
CCTTATCTCCCTGTAA
Found at i:27393104 original size:12 final size:12
Alignment explanation
Indices: 27393087--27393133 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
27393077 TCACGAACAA
27393087 GCTCGTTTATTG
1 GCTCGTTTATTG
**
27393099 GCTCGTTTATAA
1 GCTCGTTTATTG
*
27393111 GCTTGTTTATTG
1 GCTCGTTTATTG
*
27393123 ACTCGTTTATT
1 GCTCGTTTATT
27393134 TATTAATGAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.51
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:27393118 original size:24 final size:24
Alignment explanation
Indices: 27393085--27393132 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
27393075 GATCACGAAC
*
27393085 AAGCTCGTTTATTGGCTCGTTTAT
1 AAGCTCGTTTATTGACTCGTTTAT
*
27393109 AAGCTTGTTTATTGACTCGTTTAT
1 AAGCTCGTTTATTGACTCGTTTAT
27393133 TTATTAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (24 bp):
AAGCTCGTTTATTGACTCGTTTAT
Found at i:27393351 original size:12 final size:12
Alignment explanation
Indices: 27393336--27393377 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
27393326 GTTCAATTAT
*
27393336 ATGTTCATGAAC
1 ATGTTCGTGAAC
**
27393348 ATGTTCGTTTA-
1 ATGTTCGTGAAC
27393359 ATGTTCGTGAAC
1 ATGTTCGTGAAC
27393371 ATGTTCG
1 ATGTTCG
27393378 ATTAAGTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (12 bp):
ATGTTCGTGAAC
Found at i:27393369 original size:23 final size:23
Alignment explanation
Indices: 27393319--27393399 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
27393309 ACATTTTTCG
* *
27393319 TGAATATGTTCAATTATATGTTCA
1 TGAACATGTTCGATTA-ATGTTCA
* *
27393343 TGAACATGTTCGTTTAATGTTCG
1 TGAACATGTTCGATTAATGTTCA
*
27393366 TGAACATGTTCGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-CA
27393389 TGAACATGTTC
1 TGAACATGTTC
27393400 TTGAACATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.06
23 33 0.67
24 13 0.27
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTCA
Found at i:27396578 original size:39 final size:39
Alignment explanation
Indices: 27396535--27396610 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
27396525 GAGTGCTTAC
** *
27396535 AGGGGCATGAATGTGCTTTAAGGACACCAAAGTGCAAGA
1 AGGGGCACAAATGTGATTTAAGGACACCAAAGTGCAAGA
* *
27396574 AGGGGCACAAATGTGATTTAGGGGCACCAAAGTGCAA
1 AGGGGCACAAATGTGATTTAAGGACACCAAAGTGCAA
27396611 ATAAGGGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.17
Consensus pattern (39 bp):
AGGGGCACAAATGTGATTTAAGGACACCAAAGTGCAAGA
Found at i:27396584 original size:19 final size:19
Alignment explanation
Indices: 27396559--27396630 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
27396549 GCTTTAAGGA
27396559 CACCAAAGTGCAAGAAGGGG
1 CACCAAAGTGCAA-AAGGGG
**
27396579 CA-CAAATGTG-ATTTAGGGG
1 CACCAAA-GTGCA-AAAGGGG
*
27396598 CACCAAAGTGCAAATAAGGG
1 CACCAAAGTGCAAA-AGGGG
27396618 CACCAAAGTGCAA
1 CACCAAAGTGCAA
27396631 TTCAGAGGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
19 15 0.36
20 27 0.64
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.12
Consensus pattern (19 bp):
CACCAAAGTGCAAAAGGGG
Found at i:27396619 original size:39 final size:39
Alignment explanation
Indices: 27396544--27396620 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
27396534 CAGGGGCATG
* *
27396544 AATGTGCTTTAAGGACACCAAAGTGCAAGAAGGGGCACA
1 AATGTGATTTAAGGACACCAAAGTGCAAGAAAGGGCACA
* *
27396583 AATGTGATTTAGGGGCACCAAAGTGCAA-ATAAGGGCAC
1 AATGTGATTTAAGGACACCAAAGTGCAAGA-AAGGGCAC
27396621 CAAAGTGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.17
Consensus pattern (39 bp):
AATGTGATTTAAGGACACCAAAGTGCAAGAAAGGGCACA
Found at i:27406681 original size:18 final size:18
Alignment explanation
Indices: 27406658--27406692 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27406648 ACGATGTGCC
27406658 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
27406676 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
27406693 CCTGTTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:27420583 original size:15 final size:15
Alignment explanation
Indices: 27420563--27420620 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
27420553 TAAACATGTT
27420563 TAATTAAATAATTTA
1 TAATTAAATAATTTA
* *
27420578 TAATTAATTAATTTT
1 TAATTAAATAATTTA
* * *
27420593 TAAATAAAGATATATA
1 TAATTAAATA-ATTTA
27420609 TATATTAAATAA
1 TA-ATTAAATAA
27420621 AAATAGGACA
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
15 20 0.62
16 6 0.19
17 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TAATTAAATAATTTA
Found at i:27421085 original size:24 final size:24
Alignment explanation
Indices: 27421058--27421106 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27421048 TTGTGAAAAA
27421058 TGTTAATAAAGAATTCATATCCAT
1 TGTTAATAAAGAATTCATATCCAT
*
27421082 TGTTAATAAAGAATTCATATTCAT
1 TGTTAATAAAGAATTCATATCCAT
27421106 T
1 T
27421107 AAATGGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (24 bp):
TGTTAATAAAGAATTCATATCCAT
Found at i:27425569 original size:33 final size:34
Alignment explanation
Indices: 27425530--27425596 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
27425520 CCCTAATGCT
* *
27425530 TACTGATACTG-GAATGGGCTT-GGCCTAAACTGA
1 TACTGATACTGAAAAT-GGCTTAGGCCCAAACTGA
27425563 TACTGATACTGAAAATGGCTTAGGCCCAAACTGA
1 TACTGATACTGAAAATGGCTTAGGCCCAAACTGA
27425597 GATTATCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 16 0.53
34 14 0.47
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (34 bp):
TACTGATACTGAAAATGGCTTAGGCCCAAACTGA
Found at i:27444702 original size:21 final size:21
Alignment explanation
Indices: 27444676--27444716 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27444666 ACCGCCAAAC
* *
27444676 CACCATTAAACCACCTTCGAT
1 CACCATCAAACCACCATCGAT
27444697 CACCATCAAACCACCATCGA
1 CACCATCAAACCACCATCGA
27444717 CCGCCAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.41, G:0.05, T:0.17
Consensus pattern (21 bp):
CACCATCAAACCACCATCGAT
Found at i:27444714 original size:11 final size:11
Alignment explanation
Indices: 27444636--27444714 Score: 52
Period size: 11 Copynumber: 7.1 Consensus size: 11
27444626 AGGTCGCCAC
* *
27444636 CAAACTACCGT
1 CAAACCACCAT
27444647 CAAACCACCAT
1 CAAACCACCAT
* **
27444658 CACTAGCCACCGC
1 CA--AACCACCAT
27444671 CAAACCACCAT
1 CAAACCACCAT
* *
27444682 TAAACCACCTT
1 CAAACCACCAT
* *
27444693 C-GATCACCAT
1 CAAACCACCAT
27444703 CAAACCACCAT
1 CAAACCACCAT
27444714 C
1 C
27444715 GACCGCCAAT
Statistics
Matches: 49, Mismatches: 16, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
10 7 0.14
11 34 0.69
13 8 0.16
ACGTcount: A:0.37, C:0.44, G:0.05, T:0.14
Consensus pattern (11 bp):
CAAACCACCAT
Found at i:27446143 original size:33 final size:29
Alignment explanation
Indices: 27446117--27446198 Score: 132
Period size: 28 Copynumber: 2.9 Consensus size: 29
27446107 GTAACAGTAC
27446117 AGTGTGGGCCTTAGCCCAATATAGTAACA
1 AGTGTGGGCCTTAGCCCAATATAGTAACA
*
27446146 AG-GTAGGCCTTAGCCCAATATAGTAACA
1 AGTGTGGGCCTTAGCCCAATATAGTAACA
*
27446174 A-TGTGGGCCTTAGCCCAATACAGTA
1 AGTGTGGGCCTTAGCCCAATATAGTA
27446199 TTGGTACATT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 47 0.96
29 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (29 bp):
AGTGTGGGCCTTAGCCCAATATAGTAACA
Found at i:27446582 original size:27 final size:27
Alignment explanation
Indices: 27446561--27446892 Score: 312
Period size: 27 Copynumber: 12.3 Consensus size: 27
27446551 AGGGGTATAA
*
27446561 CAGTTATTTTACCCTATGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* * *
27446588 C-GATTATTTTACCTTATAGGGGTAATT
1 CAG-TCATTTTACCCTATGGGGGTAATT
* *
27446615 CGGTCATTTTACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* *
27446642 CAGTCATTTTACCTTTTGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
*
27446669 CGGTCATTTTACCCTATGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* * *
27446696 CGGTCATTTTACCCTCTGGGGGTAGTT
1 CAGTCATTTTACCCTATGGGGGTAATT
* * * *
27446723 CAGTTATTTTGCCCTCTAGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* *
27446750 C-GATCATTTTATCCTGTGGGGGTAATT
1 CAG-TCATTTTACCCTATGGGGGTAATT
* * * *
27446777 CGGTCATTTTACACTGTAGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* * *
27446804 TAGTCTTTTTACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* * * *
27446831 CAGTCATTTTATCTTGTGAGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* *
27446858 C-GATGATTTTACCCTGT-GGGGTAATT
1 CAG-TCATTTTACCCTATGGGGGTAATT
**
27446884 TGGTCATTT
1 CAGTCATTT
27446893 ATTTACCTCT
Statistics
Matches: 256, Mismatches: 43, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
26 16 0.06
27 238 0.93
28 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTAATT
Found at i:27446628 original size:54 final size:54
Alignment explanation
Indices: 27446566--27446892 Score: 372
Period size: 54 Copynumber: 6.1 Consensus size: 54
27446556 TATAACAGTT
* * * * *
27446566 ATTTTACCCTATGGGGGTAATTCGATTATTTTACCTTATAGGGGTAATTCGGTC
1 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGGTC
* *
27446620 ATTTTACCCTGTGGGGGTAATTC-AGTCATTTTACCTTTTGGGGGTAATTCGGTC
1 ATTTTACCCTGTGGGGGTAATTCGA-TCATTTTACCCTGTGGGGGTAATTCGGTC
* * * * * *
27446674 ATTTTACCCTATGGGGGTAATTCGGTCATTTTACCCTCTGGGGGTAGTTCAGTT
1 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGGTC
* * * *
27446728 ATTTTGCCCTCTAGGGGTAATTCGATCATTTTATCCTGTGGGGGTAATTCGGTC
1 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGGTC
* * * * *
27446782 ATTTTACACTGTAGGGGTAATT-TAGTCTTTTTACCCTGTGGGGGTAATTCAGTC
1 ATTTTACCCTGTGGGGGTAATTCGA-TCATTTTACCCTGTGGGGGTAATTCGGTC
* * * * *
27446836 ATTTTATCTTGTGAGGGTAATTCGATGATTTTACCCTGT-GGGGTAATTTGGTC
1 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGGTC
27446889 ATTT
1 ATTT
27446893 ATTTACCTCT
Statistics
Matches: 232, Mismatches: 37, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
53 18 0.08
54 213 0.92
55 1 0.00
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.41
Consensus pattern (54 bp):
ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGGTC
Found at i:27446678 original size:81 final size:81
Alignment explanation
Indices: 27446561--27446892 Score: 391
Period size: 81 Copynumber: 4.1 Consensus size: 81
27446551 AGGGGTATAA
* * *
27446561 CAGTTATTTTACCCTATGGGGGTAATTCGATTATTTTACCTTATAGGGGTAATTCGGTCATTTTA
1 CAGTCATTTTACCCTATGGGGGTAATTCGATCATTTTACCTTATGGGGGTAATTCGGTCATTTTA
27446626 CCCTGTGGGGGTAATT
66 CCCTGTGGGGGTAATT
* * * *
27446642 CAGTCATTTTACCTTTTGGGGGTAATTCGGTCATTTTACCCTATGGGGGTAATTCGGTCATTTTA
1 CAGTCATTTTACCCTATGGGGGTAATTCGATCATTTTACCTTATGGGGGTAATTCGGTCATTTTA
* *
27446707 CCCTCTGGGGGTAGTT
66 CCCTGTGGGGGTAATT
* * * * *
27446723 CAGTTATTTTGCCCTCTAGGGGTAATTCGATCATTTTATCC-TGTGGGGGTAATTCGGTCATTTT
1 CAGTCATTTTACCCTATGGGGGTAATTCGATCATTTTA-CCTTATGGGGGTAATTCGGTCATTTT
* *
27446787 ACACTGTAGGGGTAATT
65 ACCCTGTGGGGGTAATT
* * * * * * * *
27446804 TAGTCTTTTTACCCTGTGGGGGTAATTC-AGTCATTTTATCTTGTGAGGGTAATTCGATGATTTT
1 CAGTCATTTTACCCTATGGGGGTAATTCGA-TCATTTTACCTTATGGGGGTAATTCGGTCATTTT
27446868 ACCCTGT-GGGGTAATT
65 ACCCTGTGGGGGTAATT
**
27446884 TGGTCATTT
1 CAGTCATTT
27446893 ATTTACCTCT
Statistics
Matches: 215, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 18 0.08
81 195 0.91
82 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.41
Consensus pattern (81 bp):
CAGTCATTTTACCCTATGGGGGTAATTCGATCATTTTACCTTATGGGGGTAATTCGGTCATTTTA
CCCTGTGGGGGTAATT
Found at i:27466437 original size:29 final size:29
Alignment explanation
Indices: 27466264--27466427 Score: 170
Period size: 29 Copynumber: 5.7 Consensus size: 29
27466254 AGGATGTTTT
*
27466264 TTTGTGGCTATCTCTGTTAAAAAGATGCC
1 TTTGTGGCTATCTCTGTTAAAAGGATGCC
* ** * * * * **
27466293 TTTGTAGAGATCTTTGTT-TATGAAT-TA
1 TTTGTGGCTATCTCTGTTAAAAGGATGCC
* * *
27466320 TTGGTGGCTATCCCTGTTAGAAGGATGCC
1 TTTGTGGCTATCTCTGTTAAAAGGATGCC
*
27466349 TTTATGGCTATCTCTGTTAAAAGGATGCC
1 TTTGTGGCTATCTCTGTTAAAAGGATGCC
*
27466378 TTTGTGACTATCTCTGTTAAAAGGATGCC
1 TTTGTGGCTATCTCTGTTAAAAGGATGCC
*
27466407 TTTGTGGCCATCTCTGTTAAA
1 TTTGTGGCTATCTCTGTTAAA
27466428 GGAATTCCTT
Statistics
Matches: 104, Mismatches: 29, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
27 12 0.12
28 7 0.07
29 85 0.82
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.40
Consensus pattern (29 bp):
TTTGTGGCTATCTCTGTTAAAAGGATGCC
Found at i:27468922 original size:17 final size:15
Alignment explanation
Indices: 27468891--27468938 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
27468881 GAGTTGAAAC
27468891 ATGATATATGAATTG
1 ATGATATATGAATTG
27468906 ATGATATATTGAGATTG
1 ATGATATA-TGA-ATTG
*
27468923 ATAGA-ATGTGAATTG
1 AT-GATATATGAATTG
27468938 A
1 A
27468939 ACTATATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 13 0.45
16 6 0.21
17 8 0.28
18 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (15 bp):
ATGATATATGAATTG
Found at i:27477487 original size:33 final size:33
Alignment explanation
Indices: 27477440--27477514 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
27477430 TATTTATTTT
* * *
27477440 ATAACATATTTAAATAATTTAATATAACGATAC
1 ATAAAATATTTAAATAATTTAATAGAACAATAC
* *
27477473 ATAAAATATTTAAATAATTTAATAGAATAATAT
1 ATAAAATATTTAAATAATTTAATAGAACAATAC
27477506 ATAAAATAT
1 ATAAAATAT
27477515 AAATTAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (33 bp):
ATAAAATATTTAAATAATTTAATAGAACAATAC
Found at i:27478330 original size:12 final size:12
Alignment explanation
Indices: 27478309--27478342 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
27478299 TATATTTTTT
*
27478309 AAAATTATATAA
1 AAAATAATATAA
27478321 AAAATAATATAA
1 AAAATAATATAA
*
27478333 AAATTAATAT
1 AAAATAATAT
27478343 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:27490904 original size:40 final size:43
Alignment explanation
Indices: 27490857--27490972 Score: 150
Period size: 45 Copynumber: 2.7 Consensus size: 43
27490847 TTTTTGTCCT
*
27490857 GATGTGGTTGCTTTCACA-TTGCTTCCTTTTTTTG-T-ACATA
1 GATGTGGTTGCTTCCACAGTTGCTTCCTTTTTTTGCTGACATA
*
27490897 GATGTGGTTGCTTCCACATGTTGCTT-CTTTTTTTGTCTGGAGATA
1 GATGTGGTTGCTTCCACA-GTTGCTTCCTTTTTTTG-CT-GACATA
27490942 GATGTGGTTGCTTCCACACGTTGCTTCCTTT
1 GATGTGGTTGCTTCCACA-GTTGCTTCCTTT
27490973 GTCTTTTCTT
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
40 17 0.26
41 9 0.14
42 6 0.09
43 1 0.02
45 29 0.44
46 4 0.06
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.47
Consensus pattern (43 bp):
GATGTGGTTGCTTCCACAGTTGCTTCCTTTTTTTGCTGACATA
Found at i:27491565 original size:22 final size:21
Alignment explanation
Indices: 27491517--27491566 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
27491507 GTAATAACAT
***
27491517 AATTTTAATAAATGCTGGAAA
1 AATTTTAATAAATGAAAGAAA
27491538 ATATTTTAATAAATGAAAAGAAA
1 A-ATTTTAATAAATG-AAAGAAA
27491561 AATTTT
1 AATTTT
27491567 GAGCTGTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (21 bp):
AATTTTAATAAATGAAAGAAA
Found at i:27501680 original size:21 final size:21
Alignment explanation
Indices: 27501656--27501695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27501646 AAAAATGAAA
*
27501656 TAAAAATAAGTAAAACAAAAT
1 TAAAAATAAATAAAACAAAAT
**
27501677 TAAAGCTAAATAAAACAAA
1 TAAAAATAAATAAAACAAA
27501696 TAAATGAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (21 bp):
TAAAAATAAATAAAACAAAAT
Found at i:27502840 original size:23 final size:23
Alignment explanation
Indices: 27502810--27502854 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
27502800 ATATTATAAC
27502810 TTTTTTATTTATCAAAAAATATA
1 TTTTTTATTTATCAAAAAATATA
*
27502833 TTTTTTATTTATCAAAATATAT
1 TTTTTTATTTATCAAAAAATAT
27502855 CAAAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTTTATTTATCAAAAAATATA
Found at i:27502943 original size:27 final size:27
Alignment explanation
Indices: 27502913--27502979 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
27502903 CGCCAATGGG
27502913 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
27502940 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
27502967 ATTGGCGGCACCA
1 ATTGGCGGCACCA
27502980 GTTAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:27503032 original size:4 final size:4
Alignment explanation
Indices: 27503023--27503338 Score: 484
Period size: 4 Copynumber: 79.0 Consensus size: 4
27503013 GAAGAAGAGG
27503023 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
27503071 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
27503119 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
27503167 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
27503215 GAAA GAAA GAAA GAAA GAAA GAAA G-AA -AAA GAAG GAAA GAAAA GGAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA
* *
27503263 G-GA GAAGA GAAA AAAA GAAA GAAA G-AA G-AA G-AA GAAAA GGAAA GGAGAA
1 GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA
*
27503312 GAAA -AAA GAAA GAAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
27503339 AGGAAAGGAG
Statistics
Matches: 293, Mismatches: 8, Indels: 22
0.91 0.02 0.07
Matches are distributed among these distances:
3 18 0.06
4 251 0.86
5 20 0.07
6 4 0.01
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:27503429 original size:19 final size:19
Alignment explanation
Indices: 27503405--27503442 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27503395 AAAAAAAGGT
27503405 AATTTTATTTATAA-ATTTG
1 AATTTT-TTTATAATATTTG
*
27503424 AATTTTTTTGTAATATTTG
1 AATTTTTTTATAATATTTG
27503443 TGTGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
AATTTTTTTATAATATTTG
Found at i:27504496 original size:24 final size:25
Alignment explanation
Indices: 27504469--27504535 Score: 100
Period size: 24 Copynumber: 2.6 Consensus size: 25
27504459 GGTTTTTTTG
27504469 ATATATTTTGGTAAATAAAAAAA-T
1 ATATATTTTGGTAAATAAAAAAATT
*
27504493 ATATTTTTTGGTAAATAAAAAAATTT
1 ATATATTTTGGTAAATAAAAAAA-TT
27504519 ATAATATTTTGGTAAAT
1 AT-ATATTTTGGTAAAT
27504536 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 22 0.58
26 3 0.08
27 13 0.34
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (25 bp):
ATATATTTTGGTAAATAAAAAAATT
Found at i:27516752 original size:23 final size:23
Alignment explanation
Indices: 27516705--27516784 Score: 151
Period size: 23 Copynumber: 3.4 Consensus size: 23
27516695 TATATTTAAT
27516705 ATATATATTTGATTAAAAATAAAA
1 ATATATATTTGATTAAAAAT-AAA
27516729 ATATATATTTGATTAAAAATAAA
1 ATATATATTTGATTAAAAATAAA
27516752 ATATATATTTGATTAAAAATAAA
1 ATATATATTTGATTAAAAATAAA
27516775 ATATATATTT
1 ATATATATTT
27516785 AATATATAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 36 0.64
24 20 0.36
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
ATATATATTTGATTAAAAATAAA
Found at i:27517224 original size:23 final size:23
Alignment explanation
Indices: 27517196--27517251 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
27517186 TATATGTAAT
27517196 ATATATATTTGATTAAAAATAAA
1 ATATATATTTGATTAAAAATAAA
27517219 ATATATATTTGATTAAAAATAAA
1 ATATATATTTGATTAAAAATAAA
27517242 ATATATATTT
1 ATATATATTT
27517252 AATATATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
ATATATATTTGATTAAAAATAAA
Found at i:27517602 original size:467 final size:467
Alignment explanation
Indices: 27516729--27517667 Score: 1855
Period size: 467 Copynumber: 2.0 Consensus size: 467
27516719 AAAAATAAAA
27516729 ATATATATTTGATTAAAAATAAAATATATATTTGATTAAAAATAAAATATATATTTAATATATAA
1 ATATATATTTGATTAAAAATAAAATATATATTTGATTAAAAATAAAATATATATTTAATATATAA
27516794 TTCGGGTCGAGCCGGGCCCAGGCCAAAAAAGTTTTACCCGAGGCCCAGCCCGTTTTCTAAACGGG
66 TTCGGGTCGAGCCGGGCCCAGGCCAAAAAAGTTTTACCCGAGGCCCAGCCCGTTTTCTAAACGGG
27516859 CCTCATTTTTTTGCCCAAACCCATATTTCGGGCCTACATTTTTACCCGAACCCTCCTATTTTTCG
131 CCTCATTTTTTTGCCCAAACCCATATTTCGGGCCTACATTTTTACCCGAACCCTCCTATTTTTCG
27516924 GGCGGACCATCAGGCCGGGCTGGGTAGCCCAACCCATGATCACCTTTACACATCAATTAACAATT
196 GGCGGACCATCAGGCCGGGCTGGGTAGCCCAACCCATGATCACCTTTACACATCAATTAACAATT
27516989 ATTCACTTATTATTTTATCAATTTGTTTAAACATACTCACATGTATTAATCATTCCATCACTTAT
261 ATTCACTTATTATTTTATCAATTTGTTTAAACATACTCACATGTATTAATCATTCCATCACTTAT
27517054 AACCATTTCGAAACATTTCAAATTCTTCTACTATATATATATATTCATATTTTTTTCCTCCTCCT
326 AACCATTTCGAAACATTTCAAATTCTTCTACTATATATATATATTCATATTTTTTTCCTCCTCCT
27517119 CCTCTCCATTCCACATCCTTTATGTATATATTTGTTAAAATCTTTAACTTTTAGTATATAACATG
391 CCTCTCCATTCCACATCCTTTATGTATATATTTGTTAAAATCTTTAACTTTTAGTATATAACATG
27517184 CTTATATGTAAT
456 CTTATATGTAAT
27517196 ATATATATTTGATTAAAAATAAAATATATATTTGATTAAAAATAAAATATATATTTAATATATAA
1 ATATATATTTGATTAAAAATAAAATATATATTTGATTAAAAATAAAATATATATTTAATATATAA
27517261 TTCGGGTCGAGCCGGGCCCAGGCCAAAAAAGTTTTACCCGAGGCCCAGCCCGTTTTCTAAACGGG
66 TTCGGGTCGAGCCGGGCCCAGGCCAAAAAAGTTTTACCCGAGGCCCAGCCCGTTTTCTAAACGGG
27517326 CCTCATTTTTTTGCCCAAACCCATATTTCGGGCCTACATTTTTACCCGAACCCTCCTATTTTTCG
131 CCTCATTTTTTTGCCCAAACCCATATTTCGGGCCTACATTTTTACCCGAACCCTCCTATTTTTCG
27517391 GGCGGACCATCAGGCCGGGCTGGGTAGCCCAACCCATGATCACCTTTACACATCAATTAACAATT
196 GGCGGACCATCAGGCCGGGCTGGGTAGCCCAACCCATGATCACCTTTACACATCAATTAACAATT
27517456 ATTCACTTATTATTTTATCAA-TTGTTTAAACAATACTCACATGTATTAATCATTCCATCACTTA
261 ATTCACTTATTATTTTATCAATTTGTTTAAAC-ATACTCACATGTATTAATCATTCCATCACTTA
27517520 TAACCATTTCGAAACATTTCAAATTCTTCTACTATATATATATATTCATATTTTTTTCCTCCTCC
325 TAACCATTTCGAAACATTTCAAATTCTTCTACTATATATATATATTCATATTTTTTTCCTCCTCC
27517585 TCCTCTCCATTCCACATCCTTTATGTATATATTTGTTAAAATCTTTAACTTTTAGTATATAACAT
390 TCCTCTCCATTCCACATCCTTTATGTATATATTTGTTAAAATCTTTAACTTTTAGTATATAACAT
27517650 GCTTATATGTAAT
455 GCTTATATGTAAT
27517663 A-ATAT
1 ATATAT
27517668 CTATAATTCC
Statistics
Matches: 471, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
466 14 0.03
467 457 0.97
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (467 bp):
ATATATATTTGATTAAAAATAAAATATATATTTGATTAAAAATAAAATATATATTTAATATATAA
TTCGGGTCGAGCCGGGCCCAGGCCAAAAAAGTTTTACCCGAGGCCCAGCCCGTTTTCTAAACGGG
CCTCATTTTTTTGCCCAAACCCATATTTCGGGCCTACATTTTTACCCGAACCCTCCTATTTTTCG
GGCGGACCATCAGGCCGGGCTGGGTAGCCCAACCCATGATCACCTTTACACATCAATTAACAATT
ATTCACTTATTATTTTATCAATTTGTTTAAACATACTCACATGTATTAATCATTCCATCACTTAT
AACCATTTCGAAACATTTCAAATTCTTCTACTATATATATATATTCATATTTTTTTCCTCCTCCT
CCTCTCCATTCCACATCCTTTATGTATATATTTGTTAAAATCTTTAACTTTTAGTATATAACATG
CTTATATGTAAT
Found at i:27518925 original size:23 final size:23
Alignment explanation
Indices: 27518893--27518936 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27518883 ACTACCATTT
27518893 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
27518916 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
27518937 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:27518929 original size:13 final size:11
Alignment explanation
Indices: 27518897--27518939 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
27518887 CCATTTTCTA
*
27518897 AATAAAATAAT
1 AATAAAATATT
27518908 AAT-AAATATCT
1 AATAAAATAT-T
27518919 AAGTAAAATATT
1 AA-TAAAATATT
27518931 AATAAAATA
1 AATAAAATA
27518940 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:27522186 original size:2 final size:2
Alignment explanation
Indices: 27522179--27522203 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27522169 TGTATTATTC
27522179 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 T
27522204 TCATGGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27523733 original size:230 final size:229
Alignment explanation
Indices: 27523307--27523743 Score: 615
Period size: 230 Copynumber: 1.9 Consensus size: 229
27523297 GGTTGTTACA
* * *
27523307 GAATGACTTCCATTAAAAGAGAAAAAAATCATTAAAAATTATAGAAATTCTAATGGTGAGAAAAG
1 GAATGACTTCCATTAAAAGAGAAAAAAAGCATTAAAAATTACAGAAACTCTAATGGTGAGAAAAG
* *
27523372 TGAATCTAGAATGAGAGAAAGATAGAAGGAGAAAGAAATGATTGTTTTGATGGTTAATCTAAACA
66 TGAATCTAGAAT-AGAGAAAGATAAAAGGAGAAAGAAATGATTGTCTTGATGGTTAATCTAAACA
* ** * * *
27523437 GAGAAAGCCTTCAATTGTGGAGAGTTCACAACAACAACTACAATTTTTTGCTATTTAGTTTATCT
130 AAGAAAGCCTTCAACAGTGGAGAGTTCACAACAACAACGACAATTTTTTACTATTTAATTTATCT
27523502 TCATCTCTTTTTTTTTTTATATTTTTGAATTGTAAT
195 TCATCT-TTTTTTTTTTTATATTTTTGAATTGTAAT
* * * * *
27523538 GAATGTCTTCCATTAAAAGGGAAAAAAAAGCATTGAAAATTACAGAAGCTCTAATGGTGAGAAAG
1 GAATGACTTCCATTAAAAGAG-AAAAAAAGCATTAAAAATTACAGAAACTCTAATGGTGAGAAAA
* *
27523603 GTGAATCTAGAAT-GAGAAAGATAAAAGGAGAAAGAAATGATTGTCTTGGTGGTTAATCTGAACA
65 GTGAATCTAGAATAGAGAAAGATAAAAGGAGAAAGAAATGATTGTCTTGATGGTTAATCTAAACA
** * * ** *
27523667 AAGAAAGCCTTTGACAGTGGAGAGTTCACAATAGCGGCGACGATTTTTTACTATTTAATTTATCT
130 AAGAAAGCCTTCAACAGTGGAGAGTTCACAACAACAACGACAATTTTTTACTATTTAATTTATCT
27523732 TCATCTTTTTTT
195 TCATCTTTTTTT
27523744 AAAAACTGTA
Statistics
Matches: 180, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
229 6 0.03
230 105 0.58
231 19 0.11
232 50 0.28
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (229 bp):
GAATGACTTCCATTAAAAGAGAAAAAAAGCATTAAAAATTACAGAAACTCTAATGGTGAGAAAAG
TGAATCTAGAATAGAGAAAGATAAAAGGAGAAAGAAATGATTGTCTTGATGGTTAATCTAAACAA
AGAAAGCCTTCAACAGTGGAGAGTTCACAACAACAACGACAATTTTTTACTATTTAATTTATCTT
CATCTTTTTTTTTTTTATATTTTTGAATTGTAAT
Found at i:27525862 original size:21 final size:22
Alignment explanation
Indices: 27525838--27525886 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
27525828 CCCATTGCTT
*
27525838 GTGGCTATACAA-TTGTTTGCA
1 GTGGCTATACAATTTATTTGCA
*
27525859 GTGGCTATATAATTTATTTGCA
1 GTGGCTATACAATTTATTTGCA
27525881 GTGGCT
1 GTGGCT
27525887 CCATCTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (22 bp):
GTGGCTATACAATTTATTTGCA
Found at i:27530091 original size:92 final size:91
Alignment explanation
Indices: 27529934--27530142 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
27529924 TTGATTTTAG
* * *
27529934 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
27529999 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
27530026 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
27530090 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
27530118 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
27530143 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:27530105 original size:24 final size:25
Alignment explanation
Indices: 27530070--27530117 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
27530060 TTATGAAATT
27530070 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
27530094 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
27530118 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:27530313 original size:16 final size:16
Alignment explanation
Indices: 27530292--27530333 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27530282 TTATTAAATT
*
27530292 ATATATTTTAATTATA
1 ATATATTTTAATAATA
27530308 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
27530323 AT-TATGTTTAA
1 ATATAT-TTTAA
27530334 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:27530318 original size:15 final size:15
Alignment explanation
Indices: 27530283--27530324 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27530273 TTAAGAATTT
*
27530283 TATTAAATTAT-ATA
1 TATTTAATTATAATA
27530297 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27530311 TATTTAATAATAAT
1 TATTTAATTATAAT
27530325 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27530493 original size:16 final size:16
Alignment explanation
Indices: 27530464--27530517 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
27530454 CCATTATGCT
*
27530464 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
27530480 ATTACACCTTTATTCC
1 ATTACACCTCTATTCC
*
27530496 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
27530512 AATACA
1 ATTACA
27530518 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:27531785 original size:18 final size:18
Alignment explanation
Indices: 27531710--27531776 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
27531700 AACCGACCGA
27531710 TTAACCGAATTCGGTCGG
1 TTAACCGAATTCGGTCGG
* *** *
27531728 TTAACCAAATTTTTTTGG
1 TTAACCGAATTCGGTCGG
*
27531746 TTTTACCCGAATTCGGTCGG
1 --TTAACCGAATTCGGTCGG
27531766 TTAACCGAATT
1 TTAACCGAATT
27531777 TTTTCGGTTG
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
18 23 0.66
20 12 0.34
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (18 bp):
TTAACCGAATTCGGTCGG
Found at i:27531964 original size:38 final size:39
Alignment explanation
Indices: 27531904--27531981 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 39
27531894 ATCCAACCCA
*
27531904 ACCCAATTACCCAACCTAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCTAATAAAAATAAAACTAAAGTCT
27531943 ACCCAATTA-CCAA-CTCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCT-AATAAAAATAAAACTAAAGTCT
27531981 A
1 A
27531982 ACTCTAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
37 2 0.05
38 26 0.70
39 9 0.24
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.21
Consensus pattern (39 bp):
ACCCAATTACCCAACCTAATAAAAATAAAACTAAAGTCT
Found at i:27532132 original size:17 final size:17
Alignment explanation
Indices: 27532112--27532177 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
27532102 TAATTTCAAG
27532112 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
27532129 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
27532147 AGACTTATGTAATGTTTTT
1 A-A-TTATGTAATGTTTTT
27532166 AATTATGTAATG
1 AATTATGTAATG
27532178 ATTTAATTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 21 0.55
18 4 0.11
19 4 0.11
20 9 0.24
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.48
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:27532155 original size:37 final size:37
Alignment explanation
Indices: 27532109--27532180 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
27532099 TGTTAATTTC
*
27532109 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATGTTTTTAATTATGTAATGATTCA
*
27532146 AAGACTTATGTAATGTTTTTAATTATGTAATGATT
1 AAGAATTATGTAATGTTTTTAATTATGTAATGATT
27532181 TAATTCTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (37 bp):
AAGAATTATGTAATGTTTTTAATTATGTAATGATTCA
Found at i:27532194 original size:9 final size:9
Alignment explanation
Indices: 27532180--27532221 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
27532170 ATGTAATGAT
*
27532180 TTAATTCTG
1 TTAATTCGG
27532189 TTAATTCGG
1 TTAATTCGG
* *
27532198 GTGATTCGG
1 TTAATTCGG
27532207 TTAATTCGG
1 TTAATTCGG
27532216 TTAATT
1 TTAATT
27532222 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (9 bp):
TTAATTCGG
Found at i:27533396 original size:15 final size:15
Alignment explanation
Indices: 27533376--27533409 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
27533366 GCCCGTTTTT
*
27533376 TTAATGTGTTAGAAA
1 TTAATGTGTTACAAA
27533391 TTAATGTGTTACAAA
1 TTAATGTGTTACAAA
27533406 TTAA
1 TTAA
27533410 ATGTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (15 bp):
TTAATGTGTTACAAA
Found at i:27533518 original size:15 final size:13
Alignment explanation
Indices: 27533445--27533536 Score: 114
Period size: 13 Copynumber: 7.0 Consensus size: 13
27533435 AATTTAAAAG
*
27533445 TTAAAACATTATA
1 TTAAAACAATATA
27533458 TTAAAACAATATAA
1 TTAAAACAATAT-A
* * *
27533472 TTATAACAGTACA
1 TTAAAACAATATA
*
27533485 TTATAACAATATA
1 TTAAAACAATATA
27533498 TTAAAACAATATA
1 TTAAAACAATATA
27533511 TTAAAA-AAGTATA
1 TTAAAACAA-TATA
27533524 TTAAAACAATATA
1 TTAAAACAATATA
27533537 ACCAAACTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
12 2 0.03
13 55 0.80
14 12 0.17
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:27535523 original size:18 final size:18
Alignment explanation
Indices: 27535502--27535537 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27535492 AAATTAAGTT
27535502 AAATTATACAATTGGTCC
1 AAATTATACAATTGGTCC
27535520 AAATTATACAATTGGTCC
1 AAATTATACAATTGGTCC
27535538 CCATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
AAATTATACAATTGGTCC
Found at i:27539948 original size:38 final size:38
Alignment explanation
Indices: 27539900--27540078 Score: 207
Period size: 38 Copynumber: 4.7 Consensus size: 38
27539890 AACGTAATGT
* * *
27539900 TATTAGGGCTCTATACCTAGC-GTGCTTTGTGCCGGTGA
1 TATTCGGGCTCTATGCCTAGCAG-GCTTTGTGCCAGTGA
* *
27539938 TATTCGGGCTCTATGCCTAGCAGACTTTGTGCTAGTGA
1 TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCCAGTGA
* * * * *
27539976 TATTCGGGCTCTGTGTCTAGCAGGCTTTGTGTCGGTTA
1 TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCCAGTGA
* *
27540014 TATTCGGGCTCTATGCCTAGCAAGCTTTGTACCAGTGA
1 TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCCAGTGA
** *
27540052 TATTTAGGCTCTATGCCTAGCAAGCTT
1 TATTCGGGCTCTATGCCTAGCAGGCTT
27540079 CATGTCGGTG
Statistics
Matches: 119, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
38 118 0.99
39 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.35
Consensus pattern (38 bp):
TATTCGGGCTCTATGCCTAGCAGGCTTTGTGCCAGTGA
Found at i:27546617 original size:62 final size:62
Alignment explanation
Indices: 27546535--27546748 Score: 311
Period size: 62 Copynumber: 3.5 Consensus size: 62
27546525 CTAAATCACA
* * *
27546535 AACAGTGAGTCACATGGCCTGGACACACACCTGTGTCTCTAGCCCGTATGGTCTCTAATAGC
1 AACAGTGAGTCACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTACGGTCTCTAATAGC
* * * * *
27546597 AACAATGAGTTACACAGCCTGGACACACACCCGTGTCTTTAGCCCGTACGGTCTTTAATAGC
1 AACAGTGAGTCACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTACGGTCTCTAATAGC
* * * *
27546659 AACAGTGTGTCACATGGCCTGGACACACACCCGTGTCTCTGGCCCGTGCGGTCTCTAATAGC
1 AACAGTGAGTCACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTACGGTCTCTAATAGC
*
27546721 AACAGTGAGTCACACGGCCTAGACACAC
1 AACAGTGAGTCACACGGCCTGGACACAC
27546749 GCTCGTGCAG
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 132 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (62 bp):
AACAGTGAGTCACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTACGGTCTCTAATAGC
Found at i:27546785 original size:49 final size:48
Alignment explanation
Indices: 27546703--27546798 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 48
27546693 GTCTCTGGCC
*
27546703 CGTGCGGTCTCTAATAGCAACAGTGAGTCACACGGCCTAGACACACGCT
1 CGTGCAGTCTCTAATAGCAACAGTGAGTCACACGGCCTA-ACACACGCT
*
27546752 CGTGCAGTCTCTAATAGCAACAGTGAGTCACACGGCCTACCACACGC
1 CGTGCAGTCTCTAATAGCAACAGTGAGTCACACGGCCTAACACACGC
27546799 CTATGTCTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 7 0.16
49 38 0.84
ACGTcount: A:0.27, C:0.32, G:0.23, T:0.18
Consensus pattern (48 bp):
CGTGCAGTCTCTAATAGCAACAGTGAGTCACACGGCCTAACACACGCT
Found at i:27554036 original size:44 final size:43
Alignment explanation
Indices: 27553973--27554867 Score: 380
Period size: 44 Copynumber: 20.9 Consensus size: 43
27553963 GCTATCTTAG
* *
27553973 TCTGCTCCACTGCACCTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* * *
27554017 TCTGCTCCACTGCAACTTCAGGAAGATAAGATT-TGTCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AA
* * *
27554062 TCTGC-CTCACTACAACTTCA-GGAGGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * ***
27554106 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * * **
27554147 TCTACT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
** *
27554190 T-TCGCTCCACTGCAACTTCAGGGAGATAAGATTCACTATCTTCAA
1 TCT-GCTCCACTGCAACTTCAGGGAGATAAGATT-A-TGGCTTTAA
* * *
27554235 TCTGCCCCACTGCAACTTCAGGGGGATAAGACT-T-G--TT-A
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * ***
27554273 TCT--TCGA-T-C--CTTCAGGGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * * **
27554308 CCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* * * * * **
27554351 TCCGCTCTACTGCAACTTCGGGGAGATAGGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
*
27554395 T-TCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTTAA
1 TCT-GCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* * *
27554439 TCTGTTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AA
* *
27554484 TCTG-TCTCACTGCAACTTCA-GGAGGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * * ***
27554528 CCTGCTCCACTGCAACTTGAGGGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * **
27554569 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* * *
27554612 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* *
27554656 TCTGCTCCACTTCAACTTCAGGGAGATAAGAATTGCCAT--CTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG-ATT---ATGGCTTTAA
* *
27554701 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * * ***
27554745 CCTGCTCCACTGCAACTTCAGAGAGATAAGACTA--GATACGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * ** *
27554786 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* * *
27554829 TCCGTTCCACTGCAACTTCAGGGA-ATAGGATTATCGGCT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCT
27554868 ACGGATTTGT
Statistics
Matches: 654, Mismatches: 131, Indels: 133
0.71 0.14 0.14
Matches are distributed among these distances:
32 18 0.03
34 1 0.00
35 4 0.01
36 2 0.00
37 2 0.00
38 5 0.01
39 1 0.00
40 81 0.12
41 20 0.03
42 9 0.01
43 43 0.07
44 328 0.50
45 137 0.21
46 1 0.00
48 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
Found at i:27554537 original size:89 final size:87
Alignment explanation
Indices: 27554316--27554777 Score: 282
Period size: 89 Copynumber: 5.3 Consensus size: 87
27554306 GACCTGCTCT
* * * *
27554316 CTGCAACTTCAGAGAGATAAGATCTGTGATT--TTAATCC-GCTCTACTGCAACTTCGGGGAGAT
1 CTGCAACTTCAGAGAGATAAGA-CT-TGCTTACTT-AGCCTGCTCCACTGCAACTTCAGGGAGAT
* * * *
27554378 AGGATCTGTG-ATTTTAAT-TCGCTCCA
63 AAGA-CT-TGCACTTCAGTCT-GCTCCA
* * * ** *
27554404 CTGCAACTTCAGGGAGATAAGA-TT-ATCGACTTTAATCTGTTCCACTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGAGAGATAAGACTTGCT-TAC-TTAGCCTGCTCCACTGCAACTTCAGGGAGATA
*
27554467 AGATTTGCCATCTTCAGTCTG-TCTCA
64 AGACTTG-CA-CTTCAGTCTGCTC-CA
*
27554493 CTGCAACTTCAG-GAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTGAGGGAGATAA
1 CTGCAACTTCAGAGA-GATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
27554557 GACTAG-A-TGC-GATCTGCT-CT
65 GACTTGCACTTCAG-TCTGCTCCA
* *
27554577 CTGCAACTTCAGAGAGATAAGATCTGTGATT--TTAATCC-GCTCCACTGCAACTTCAGGGAGAT
1 CTGCAACTTCAGAGAGATAAGA-CT-TGCTTACTT-AGCCTGCTCCACTGCAACTTCAGGGAGAT
* * * *
27554639 AGGA-TTATCGACTTTAATCTGCTCCA
63 AAGACTT-GC-ACTTCAGTCTGCTCCA
* * * * *
27554665 CTTCAACTTCAGGGAGATAAGAATTGC-CATCTTTAGTCTGC-CTCACTGCAACTTCA-GGAGGA
1 CTGCAACTTCAGAGAGATAAGACTTGCTTA-C-TTAGCCTGCTC-CACTGCAACTTCAGGGA-GA
*
27554727 TAAGACTTGCTTACTT-AGCCTGCTCCA
62 TAAGACTTGC--ACTTCAGTCTGCTCCA
27554754 CTGCAACTTCAGAGAGATAAGACT
1 CTGCAACTTCAGAGAGATAAGACT
27554778 AGATACGATC
Statistics
Matches: 293, Mismatches: 47, Indels: 67
0.72 0.12 0.16
Matches are distributed among these distances:
83 1 0.00
84 51 0.17
85 14 0.05
86 11 0.04
87 12 0.04
88 79 0.27
89 113 0.39
90 11 0.04
91 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (87 bp):
CTGCAACTTCAGAGAGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATAAG
ACTTGCACTTCAGTCTGCTCCA
Found at i:27554657 original size:217 final size:217
Alignment explanation
Indices: 27554308--27554864 Score: 875
Period size: 217 Copynumber: 2.6 Consensus size: 217
27554298 CTAGATGCGA
* * *** * *
27554308 CCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCAACTTCGG
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGA-CT-AGA-TACGATCTGCTCT-CTGCAACTTCAG
* * * *
27554372 GGAGATAGGATCTGTGATTTTAATTCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGACTTT
62 AGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTT
* * *
27554437 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGTCTCACTGCAACTT
127 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGCCATCTTCAGTCTGCCTCACTGCAACTT
27554502 CAGGAGGATAAGACTTGCTTACTTAG
192 CAGGAGGATAAGACTTGCTTACTTAG
* * *
27554528 CCTGCTCCACTGCAACTTGAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAG
27554593 ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATC
66 ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATC
* *
27554658 TGCTCCACTTCAACTTCAGGGAGATAAGAATTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGG
131 TGCTCCACTGCAACTTCAGGGAGATAAGAATTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
27554723 AGGATAAGACTTGCTTACTTAG
196 AGGATAAGACTTGCTTACTTAG
27554745 CCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAG
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAG
* *
27554810 ATAAGATCTGTGATTTTATTCCGTTCCACTGCAACTTCAGGGA-ATAGGATTATCG
66 ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCG
27554865 GCTACGGATT
Statistics
Matches: 313, Mismatches: 23, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
216 12 0.04
217 261 0.83
218 9 0.03
219 2 0.01
220 8 0.03
221 21 0.07
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
CCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATC
TGCTCCACTGCAACTTCAGGGAGATAAGAATTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
AGGATAAGACTTGCTTACTTAG
Found at i:27554714 original size:173 final size:173
Alignment explanation
Indices: 27554404--27554733 Score: 406
Period size: 173 Copynumber: 1.9 Consensus size: 173
27554394 ATTCGCTCCA
* * *
27554404 CTGCAACTTCAGGGAGATAAGATTATCGACTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATTATCGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
* * *
27554469 ATTTGCCATCTTCAGTCTGTCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCCTGCT
66 ATTTGCCATCTTCAATCTGTCTCACTGCAACTTCAGGAGGATAAGAATTGCATACTTAGCCTGCT
*
27554534 CCACTGCAACTTGAGG-GAGATAAGACTAGATGCGATCTGCTCT
131 CCACTGCAACTTCAGGAG-GATAAGACTAGATGCGATCTGCTCT
* * *
27554577 CTGCAACTTCAGAGAGATAAGATCTGT-GATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 CTGCAACTTCAGAGAGATAAGAT-TATCGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
* * *
27554641 GATTAT-CGA-CTTTAATCTG-CTCCACTTCAACTTCAGG-GAGATAAGAATTGCCAT-CTTTAG
65 GATT-TGCCATCTTCAATCTGTCT-CACTGCAACTTCAGGAG-GATAAGAATTG-CATAC-TTAG
*
27554701 TCTGC-CTCACTGCAACTTCAGGAGGATAAGACT
125 CCTGCTC-CACTGCAACTTCAGGAGGATAAGACT
27554734 TGCTTACTTA
Statistics
Matches: 135, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
171 3 0.02
172 34 0.25
173 94 0.70
174 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATTATCGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
ATTTGCCATCTTCAATCTGTCTCACTGCAACTTCAGGAGGATAAGAATTGCATACTTAGCCTGCT
CCACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCT
Found at i:27554758 original size:261 final size:261
Alignment explanation
Indices: 27554286--27554777 Score: 723
Period size: 261 Copynumber: 1.9 Consensus size: 261
27554276 TCGATCCTTC
27554286 AGGGAGATAAGACTAGATGCGACCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 AGGGAGATAAGACTAGATGCGACCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* * * *
27554351 TCCGCTCTACTGCAACTTCGGGGAGATAGGATCTGTGATTTTAATTCGCTCCACTGCAACTTCAG
66 TCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATGACTTTAATTCGCTCCACTGCAACTTCAG
* * * *
27554416 GGAGATAAGATTATCGACTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTT
131 GGAGATAAGATTAGCCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTT
*
27554481 CAGTCTGTCTCACTGCAACTTCAG-GAGGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACT
196 CAGCCTGTCTCACTGCAACTTCAGAGA-GATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACT
27554545 TG
260 TG
*
27554547 AGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 AGGGAGATAAGACTAGATGCGACCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
*
27554612 TCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGACTTTAA-TCTGCTCCACTTCAACTTC
66 TCCGCTCCACTGCAACTTCAGGGAGATAGGATCTAT-GACTTTAATTC-GCTCCACTGCAACTTC
*
27554675 AGGGAGATAAGAATT-GCCATCTTTAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-
129 AGGGAGATAAG-ATTAGCCA-CTTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC
*
27554736 CTTACTT-AGCCTG-CTCCACTGCAACTTCAGAGAGATAAGACT
190 CAT-CTTCAGCCTGTCT-CACTGCAACTTCAGAGAGATAAGACT
27554778 AGATACGATC
Statistics
Matches: 209, Mismatches: 13, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
260 6 0.03
261 163 0.78
262 40 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (261 bp):
AGGGAGATAAGACTAGATGCGACCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
TCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATGACTTTAATTCGCTCCACTGCAACTTCAG
GGAGATAAGATTAGCCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTT
CAGCCTGTCTCACTGCAACTTCAGAGAGATAAGACTTGCTTACTTAGCCTGCTCCACTGCAACTT
G
Found at i:27570747 original size:33 final size:33
Alignment explanation
Indices: 27570705--27570815 Score: 222
Period size: 33 Copynumber: 3.4 Consensus size: 33
27570695 GTTTTAAGCA
27570705 CTCTAACCAACATCTTTAAAAAATAAAAAAGTT
1 CTCTAACCAACATCTTTAAAAAATAAAAAAGTT
27570738 CTCTAACCAACATCTTTAAAAAATAAAAAAGTT
1 CTCTAACCAACATCTTTAAAAAATAAAAAAGTT
27570771 CTCTAACCAACATCTTTAAAAAATAAAAAAGTT
1 CTCTAACCAACATCTTTAAAAAATAAAAAAGTT
27570804 CTCTAACCAACA
1 CTCTAACCAACA
27570816 GAGATCCAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (33 bp):
CTCTAACCAACATCTTTAAAAAATAAAAAAGTT
Found at i:27580819 original size:25 final size:25
Alignment explanation
Indices: 27580764--27580811 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
27580754 AAAATCTACT
27580764 CTAAAAAGAAAAGAGAAAACCTAAA
1 CTAAAAAGAAAAGAGAAAACCTAAA
*
27580789 CTAAAAATAAAA-AGAAAACCTAA
1 CTAAAAAGAAAAGAGAAAACCTAA
27580812 CCCTAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.69, C:0.12, G:0.08, T:0.10
Consensus pattern (25 bp):
CTAAAAAGAAAAGAGAAAACCTAAA
Found at i:27581329 original size:14 final size:14
Alignment explanation
Indices: 27581304--27581346 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
27581294 TAATTTCACA
27581304 TTTTACTATTTTGTC
1 TTTTA-TATTTTGTC
*
27581319 TTTTGTATTTTCTGTC
1 TTTTATA-TTT-TGTC
27581335 TTTTATATTTTG
1 TTTTATATTTTG
27581347 CATGCATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 4 0.17
15 10 0.42
16 10 0.42
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70
Consensus pattern (14 bp):
TTTTATATTTTGTC
Found at i:27581336 original size:16 final size:16
Alignment explanation
Indices: 27581315--27581345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27581305 TTTACTATTT
*
27581315 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
27581331 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
27581346 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:27582916 original size:142 final size:143
Alignment explanation
Indices: 27582660--27582944 Score: 554
Period size: 142 Copynumber: 2.0 Consensus size: 143
27582650 AACTCTCTAA
27582660 ACTCTCCCTATATAAAGAGAGCCTTGAGTCATTATTTACACAGACTTGAATCCAAGGGAAAGTTG
1 ACTCTCCCTATATAAAGAGAGCCTTGAGTCATTATTTACACAGACTTGAATCCAAGGGAAAGTTG
27582725 TAGAGAGAAATTTCTCTAAAGAGATTATTCTAGAAAATCTCTAAAGACATTTTTTTGATTTACAA
66 TAGAGAGAAATTTCTCTAAAGAGATTATTCTAGAAAATCTCTAAAGACATTTTTTTGATTTACAA
27582790 C-TGACCCAAAAG
131 CTTGACCCAAAAG
*
27582802 ACTCTCCCTATATAAAGAGAGCCTTGAGTCATTATTTACACAGACTTGAATTCAAGGGAAAGTTG
1 ACTCTCCCTATATAAAGAGAGCCTTGAGTCATTATTTACACAGACTTGAATCCAAGGGAAAGTTG
27582867 TAGAGAGAAATTTCTCTAAAGAGATTATTCTAGAAAATCTCTAAAGACATTTTTTTGATTTACAA
66 TAGAGAGAAATTTCTCTAAAGAGATTATTCTAGAAAATCTCTAAAGACATTTTTTTGATTTACAA
27582932 CTTGACCCAAAAG
131 CTTGACCCAAAAG
27582945 TTTAGAGAAA
Statistics
Matches: 141, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
142 130 0.92
143 11 0.08
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (143 bp):
ACTCTCCCTATATAAAGAGAGCCTTGAGTCATTATTTACACAGACTTGAATCCAAGGGAAAGTTG
TAGAGAGAAATTTCTCTAAAGAGATTATTCTAGAAAATCTCTAAAGACATTTTTTTGATTTACAA
CTTGACCCAAAAG
Found at i:27584148 original size:28 final size:28
Alignment explanation
Indices: 27584108--27584163 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
27584098 TTAGTTAAGA
27584108 ATGCCACTAGGACTATTGTATGATCATT
1 ATGCCACTAGGACTATTGTATGATCATT
27584136 ATGCCACTAGGACTATTGTATGATCATT
1 ATGCCACTAGGACTATTGTATGATCATT
27584164 CTTGAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (28 bp):
ATGCCACTAGGACTATTGTATGATCATT
Found at i:27588627 original size:41 final size:41
Alignment explanation
Indices: 27588533--27588807 Score: 259
Period size: 41 Copynumber: 6.7 Consensus size: 41
27588523 ATCGGAGTGT
* * * *
27588533 AAATAGGGGCACGTATGTGCAATTTAAGGATATCACAA-TAC
1 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCA-AAGTAC
* * * ** *
27588574 CAACACGGGCACGTATGTTTAATTTAGGGGTACCAAAGTAC
1 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
* * * * *
27588615 AATTAGGAGCACGCATGTGCAATTGAAGGGTACCAAAGTAC
1 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
* * *
27588656 AGAA-ATGGGCAC-TCATGTGCAATTTAGGGGTATCAAAGTAC
1 A-AATAGGGGCACGT-ATGTGCAATTCAGGGGTACCAAAGTAC
*
27588697 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
1 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
* * * * * *
27588738 AAACAAGTGCACGTATGTGCAATTCAAGGGTACCGAAGTAT
1 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
* *
27588779 AATTAGGGGCACATATGTGCAATTCAGGG
1 AAATAGGGGCACGTATGTGCAATTCAGGG
27588808 AATAATTAAG
Statistics
Matches: 189, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
40 4 0.02
41 183 0.97
42 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.23
Consensus pattern (41 bp):
AAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTAC
Found at i:27588684 original size:82 final size:82
Alignment explanation
Indices: 27588536--27588804 Score: 301
Period size: 82 Copynumber: 3.3 Consensus size: 82
27588526 GGAGTGTAAA
* * * * * **
27588536 TAGGGGCACGTATGTGCAATTTAAGGATATCACAA-TACCAACACGGGCACGTATGTTTAATTTA
1 TAGGGGCACGTATGTGCAATTCAAGGGTACCA-AAGTACAAACAAGGGCACGTATGTGCAATTTA
27588600 GGGGTACCAAAGTACAAT
65 GGGGTACCAAAGTACAAT
* * * *
27588618 TAGGAGCACGCATGTGCAATTGAAGGGTACCAAAGTACAGAA-ATGGGCAC-TCATGTGCAATTT
1 TAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTACA-AACAAGGGCACGT-ATGTGCAATTT
* *
27588681 AGGGGTATCAAAGTACAAA
64 AGGGGTACCAAAGTACAAT
* * * * *
27588700 TAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAAGTGCACGTATGTGCAATTCAA
1 TAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATTTAG
* *
27588765 GGGTACCGAAGTATAAT
66 GGGTACCAAAGTACAAT
*
27588782 TAGGGGCACATATGTGCAATTCA
1 TAGGGGCACGTATGTGCAATTCA
27588805 GGGAATAATT
Statistics
Matches: 157, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
81 5 0.03
82 149 0.95
83 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (82 bp):
TAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTACAAACAAGGGCACGTATGTGCAATTTAG
GGGTACCAAAGTACAAT
Found at i:27588725 original size:21 final size:21
Alignment explanation
Indices: 27588701--27588807 Score: 60
Period size: 21 Copynumber: 5.2 Consensus size: 21
27588691 AAGTACAAAT
27588701 AGGGGCACGTATGTGCAATTC
1 AGGGGCACGTATGTGCAATTC
* * * *
27588722 AGGGGTACCG-AAGTACAA-AC
1 AGGGGCA-CGTATGTGCAATTC
* *
27588742 AAGTGCACGTATGTGCAATTC
1 AGGGGCACGTATGTGCAATTC
* * * **
27588763 AAGGGTACCG-AAGTATAATT-
1 AGGGGCA-CGTATGTGCAATTC
*
27588783 AGGGGCACATATGTGCAATTC
1 AGGGGCACGTATGTGCAATTC
27588804 AGGG
1 AGGG
27588808 AATAATTAAG
Statistics
Matches: 59, Mismatches: 21, Indels: 12
0.64 0.23 0.13
Matches are distributed among these distances:
19 3 0.05
20 23 0.39
21 29 0.49
22 4 0.07
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (21 bp):
AGGGGCACGTATGTGCAATTC
Found at i:27588789 original size:123 final size:123
Alignment explanation
Indices: 27588535--27588808 Score: 311
Period size: 123 Copynumber: 2.2 Consensus size: 123
27588525 CGGAGTGTAA
* * * ** *
27588535 ATAGGGGCACGTATGTGCAATTTAAGGATATCACAATACCAACACGGGCACGTATGTTTAATTTA
1 ATAGGGGCACATATGTGCAATTTAGGGATATCACAATACAAACACGGGCACGTATGTGCAATTCA
** * *
27588600 GGGGTACCAAAGTACAATTAGGAGCACGCATGTGCAATTGAAGGGTACCAAAGTACAG
66 GGGGTACCAAAGTACAAACAAGAGCACGCATGTGCAATTCAAGGGTACCAAAGTACAG
* * * * *
27588658 AAATGGGCAC-TCATGTGCAATTTAGGGGTATCA-AAGTACAAATAGGGGCACGTATGTGCAATT
1 ATAGGGGCACAT-ATGTGCAATTTAGGGATATCACAA-TACAAACACGGGCACGTATGTGCAATT
* * * * *
27588721 CAGGGGTACCGAAGTACAAACAAGTGCACGTATGTGCAATTCAAGGGTACCGAAGTATA-
64 CAGGGGTACCAAAGTACAAACAAGAGCACGCATGTGCAATTCAAGGGTACCAAAGTACAG
*
27588780 ATTAGGGGCACATATGTGCAATTCAGGGA
1 A-TAGGGGCACATATGTGCAATTTAGGGA
27588809 ATAATTAAGT
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
122 4 0.03
123 119 0.96
124 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (123 bp):
ATAGGGGCACATATGTGCAATTTAGGGATATCACAATACAAACACGGGCACGTATGTGCAATTCA
GGGGTACCAAAGTACAAACAAGAGCACGCATGTGCAATTCAAGGGTACCAAAGTACAG
Found at i:27595013 original size:50 final size:50
Alignment explanation
Indices: 27594772--27595012 Score: 243
Period size: 50 Copynumber: 4.8 Consensus size: 50
27594762 AAACATAACA
* * * ** * * *
27594772 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** *
27594821 TGCCAATGCCATATCCCAGATATGGTGTTACATGGGAATTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *** * *
27594871 TGCCCATGCCATGTCCTAGACATGGTCTTATGGGGGATCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
27594921 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
27594971 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27595013 TTACCCAAAT
Statistics
Matches: 155, Mismatches: 35, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 118 0.76
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:27598970 original size:41 final size:41
Alignment explanation
Indices: 27598913--27599151 Score: 165
Period size: 41 Copynumber: 5.8 Consensus size: 41
27598903 AAGTTATCGG
* *
27598913 AGTATAAACAGGGGCACACATTTGCAATTTAGGGGTACCGA
1 AGTATAAACAGGGGCACACATGTGCAATTGAGGGGTACCGA
* * *
27598954 AGTATAAATAGGGGCACATATGTGCAATTGAGGGGTACTGA
1 AGTATAAACAGGGGCACACATGTGCAATTGAGGGGTACCGA
* * ** * * * * *
27598995 AATACAAATCA-GGGCACGTATGTGTAGTTCAGAGGTATCGA
1 AGTATAAA-CAGGGGCACACATGTGCAATTGAGGGGTACCGA
* * *** * **
27599036 AGCACAAACAATAGAACGTATGTGCAATTGAGGGGTACCGA
1 AGTATAAACAGGGGCACACATGTGCAATTGAGGGGTACCGA
*** * *
27599077 AGTATAAACAGGGGCAGGTATGTGCAATTCAAGGGTACCGA
1 AGTATAAACAGGGGCACACATGTGCAATTGAGGGGTACCGA
* ** ** *
27599118 AGTACAATTAGGGGCACGGATGTGCAATTCAGGG
1 AGTATAAACAGGGGCACACATGTGCAATTGAGGG
27599152 AATAATTGAC
Statistics
Matches: 156, Mismatches: 40, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
40 2 0.01
41 153 0.98
42 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (41 bp):
AGTATAAACAGGGGCACACATGTGCAATTGAGGGGTACCGA
Found at i:27599141 original size:82 final size:82
Alignment explanation
Indices: 27598913--27599151 Score: 239
Period size: 82 Copynumber: 2.9 Consensus size: 82
27598903 AAGTTATCGG
** * * * * *
27598913 AGTATAAACAGGGGCACACATTTGCAATTTAGGGGTACCGAAGTATAAATAGGGGCACATATGTG
1 AGTATAAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTG
*
27598978 CAATTGAGGGGTACTGA
66 CAATTGAGGGGTACCGA
* * * * * * * *** *
27598995 AATACAAATCA-GGGCACGTATGTGTAGTTC-AGAGGTATCGAAGCACAAACAATAGAACGTATG
1 AGTATAAA-CAGGGGCACGTATGTGCAATTCAAG-GGTACCGAAGTACAAATAGGGGCACGTATG
27599058 TGCAATTGAGGGGTACCGA
64 TGCAATTGAGGGGTACCGA
* * *
27599077 AGTATAAACAGGGGCAGGTATGTGCAATTCAAGGGTACCGAAGTACAATTAGGGGCACGGATGTG
1 AGTATAAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTG
*
27599142 CAATTCAGGG
66 CAATTGAGGG
27599152 AATAATTGAC
Statistics
Matches: 119, Mismatches: 34, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
81 3 0.03
82 112 0.94
83 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (82 bp):
AGTATAAACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTG
CAATTGAGGGGTACCGA
Found at i:27601100 original size:7 final size:7
Alignment explanation
Indices: 27601090--27601115 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27601080 TTATATTTTG
27601090 CATTTCA
1 CATTTCA
27601097 CATTTCA
1 CATTTCA
27601104 CATTTCA
1 CATTTCA
27601111 CATTT
1 CATTT
27601116 TCTATCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (7 bp):
CATTTCA
Found at i:27608176 original size:22 final size:22
Alignment explanation
Indices: 27608128--27608183 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
27608118 GTAAATACGA
*
27608128 TTGGCACAAAGCCATAATCAAG
1 TTGGCACAGAGCCATAATCAAG
* * * *
27608150 ATGGCACAGAGCCATATTTAGG
1 TTGGCACAGAGCCATAATCAAG
*
27608172 TTGGCATAGAGC
1 TTGGCACAGAGC
27608184 TGTAATCAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (22 bp):
TTGGCACAGAGCCATAATCAAG
Found at i:27608528 original size:27 final size:27
Alignment explanation
Indices: 27608498--27608681 Score: 179
Period size: 27 Copynumber: 6.8 Consensus size: 27
27608488 TATTTCAATA
* *
27608498 ATTTTACCCCACAAAGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * * *** *
27608525 ATTTTTCCCTATAAAGATGTTACAGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * * *
27608552 ATTTTACCCTATAGGGGCATTACAGTA
1 ATTTTACCCTACAAGGGCATTACGGTC
*
27608579 ATTTTACCTTACAAGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
** *
27608606 ATTTTACCCTACTGGGGCATTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
27608633 ATTTTACCCTATAGGGGTATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
*
27608660 ATTTTACCCTACAGGGGCATTA
1 ATTTTACCCTACAAGGGCATTA
27608682 TGATCATTAT
Statistics
Matches: 128, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGCATTACGGTC
Found at i:27608602 original size:81 final size:81
Alignment explanation
Indices: 27608467--27608681 Score: 256
Period size: 81 Copynumber: 2.7 Consensus size: 81
27608457 GGGGGAAAAG
* * * * * *
27608467 AGTCATTTTACCCTTTAGGGGTATTTCAATAATTTTACCCCACAAAGGCATTACGGTCATTTTTC
1 AGTCATTTTACCCTATAGGGGTATTACAGTAATTTTACCCTACAAGGGCATTACGGTCATTTTAC
27608532 CCTA-TAAAG-ATGTTAC
66 CCTACTAAAGCA--TTAC
* *
27608548 AGTCATTTTACCCTATAGGGGCATTACAGTAATTTTACCTTACAAGGGCATTACGGTCATTTTAC
1 AGTCATTTTACCCTATAGGGGTATTACAGTAATTTTACCCTACAAGGGCATTACGGTCATTTTAC
***
27608613 CCTACTGGGGCATTAC
66 CCTACTAAAGCATTAC
* * *
27608629 -GATCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTA
1 AG-TCATTTTACCCTATAGGGGTATTACAGTAATTTTACCCTACAAGGGCATTA
27608682 TGATCATTAT
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 111 0.97
82 2 0.02
83 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (81 bp):
AGTCATTTTACCCTATAGGGGTATTACAGTAATTTTACCCTACAAGGGCATTACGGTCATTTTAC
CCTACTAAAGCATTAC
Found at i:27608687 original size:54 final size:54
Alignment explanation
Indices: 27608469--27608694 Score: 220
Period size: 54 Copynumber: 4.2 Consensus size: 54
27608459 GGGAAAAGAG
* * * * * * ** *
27608469 TCATTTTACCCTTTAGGGGTATTTCAATAATTTTACCCCACAAAGGCATTACGG
1 TCATTTTACCCTATAAGGGTATTACAGTCATTTTACCCTACAGGGGCATTACGA
* * * * *
27608523 TCATTTTTCCCTATAAAGATGTTACAGTCATTTTACCCTATAGGGGCATTAC-A
1 TCATTTTACCCTATAAGGGTATTACAGTCATTTTACCCTACAGGGGCATTACGA
* * * * * *
27608576 GTAATTTTACCTTACAAGGGCATTACGGTCATTTTACCCTACTGGGGCATTACGA
1 -TCATTTTACCCTATAAGGGTATTACAGTCATTTTACCCTACAGGGGCATTACGA
* * *
27608631 TCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTATGA
1 TCATTTTACCCTATAAGGGTATTACAGTCATTTTACCCTACAGGGGCATTACGA
*
27608685 TCATTATACC
1 TCATTTTACC
27608695 TATTTTAGGG
Statistics
Matches: 137, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
54 136 0.99
55 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (54 bp):
TCATTTTACCCTATAAGGGTATTACAGTCATTTTACCCTACAGGGGCATTACGA
Found at i:27615896 original size:45 final size:45
Alignment explanation
Indices: 27615805--27615978 Score: 158
Period size: 45 Copynumber: 3.9 Consensus size: 45
27615795 CATTGGATTG
* **
27615805 AGAAATGAGAAAGACCAT-GATTAAAAGATA-TCATGGCATTTTACC
1 AGAAATGAGAAAGACCATAG-TTGAAAGATACT-ATGGCATTAAACC
27615850 AGAAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTAAACC
1 AGAAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTAAACC
* * * * * * * *
27615895 AGGATTGTGTAAGACCATAGTCGAAAGATATTATGACATTAAATTC
1 AGAAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTAAA-CC
* * *
27615941 -GATA-CAGATAAGACCATAATTGAAAGATACTATGGCAT
1 AGAAATGAGA-AAGACCATAGTTGAAAGATACTATGGCAT
27615979 CACATCGGTA
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
44 1 0.01
45 100 0.96
46 3 0.03
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.25
Consensus pattern (45 bp):
AGAAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTAAACC
Found at i:27620601 original size:15 final size:15
Alignment explanation
Indices: 27620567--27620602 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
27620557 TCAAAAAATA
27620567 AAAAAT-AATATTTT
1 AAAAATAAATATTTT
27620581 AAAAATAAATATTTT
1 AAAAATAAATATTTT
27620596 AAAAATA
1 AAAAATA
27620603 TCTTTGACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATAAATATTTT
Found at i:27626940 original size:8 final size:8
Alignment explanation
Indices: 27626890--27626940 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
27626880 CTATATTTGG
*
27626890 ATTATTAT
1 ATTATTAA
27626898 ATTATTAA
1 ATTATTAA
* *
27626906 ATTACTAT
1 ATTATTAA
*
27626914 ATTATTTA
1 ATTATTAA
*
27626922 ATTATTTA
1 ATTATTAA
27626930 ATTATTAA
1 ATTATTAA
27626938 ATT
1 ATT
27626941 TAAATTTTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTATTAA
Found at i:27628708 original size:40 final size:39
Alignment explanation
Indices: 27628648--27628771 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 39
27628638 TAATTATTGA
*
27628648 TGAATGCACATACGTGCCCCTATTTGCACTTCGCTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCG-TACCCC
* * * *
27628688 TGAATGCAGATACGTTCCCCTGTTTGTACTTCAGTACCTC
1 TGAATGCACATACGTGCCCCTATTTGTACTTC-GTACCCC
* *
27628728 TGAATGCACACACGTGCCCC-AGTTTATACTTCGATACCCC
1 TGAATGCACATACGTGCCCCTA-TTTGTACTTCG-TACCCC
27628768 TGAA
1 TGAA
27628772 CATACATACG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 68 0.97
41 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGTACCCC
Found at i:27630426 original size:35 final size:35
Alignment explanation
Indices: 27630366--27630482 Score: 144
Period size: 35 Copynumber: 3.3 Consensus size: 35
27630356 AATCCAACCA
* *
27630366 AAACATACCAAATGCTCATAAGAGCTAATCCATCCG
1 AAACAAACC-AATGCTCATAAGAGCTAAACCATCCG
* * *
27630402 AAATAAACCAATGCTCATATGAGCTAAACCATCTG
1 AAACAAACCAATGCTCATAAGAGCTAAACCATCCG
* *
27630437 AAACATACCAATGCTCATACGAGCTAAACCATCCG
1 AAACAAACCAATGCTCATAAGAGCTAAACCATCCG
* *
27630472 TAACACACCAA
1 AAACAAACCAA
27630483 AACAGAGGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
35 63 0.90
36 7 0.10
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (35 bp):
AAACAAACCAATGCTCATAAGAGCTAAACCATCCG
Found at i:27637828 original size:35 final size:35
Alignment explanation
Indices: 27637750--27637911 Score: 184
Period size: 35 Copynumber: 4.6 Consensus size: 35
27637740 GTACATCAAG
* *
27637750 AATCCAACCAAAACACACCAGATGCTCATAAGAGCT
1 AATCCATCCAAAACACACCA-ATGCTCATACGAGCT
*
27637786 AATCCATCCAAAACACACCAATGCGCATACGAGCT
1 AATCCATCCAAAACACACCAATGCTCATACGAGCT
* * *
27637821 AGA-CCATCCAAAACACACTAATGCTTATATGAGCT
1 A-ATCCATCCAAAACACACCAATGCTCATACGAGCT
* ** *
27637856 AAACCATCTGAAACACACCAATGCTCAT-CAGATCT
1 AATCCATCCAAAACACACCAATGCTCATAC-GAGCT
*
27637891 AATCCATCCGAAACACACCAA
1 AATCCATCCAAAACACACCAA
27637912 AACATAGAGT
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.01
35 87 0.81
36 20 0.19
ACGTcount: A:0.42, C:0.31, G:0.10, T:0.17
Consensus pattern (35 bp):
AATCCATCCAAAACACACCAATGCTCATACGAGCT
Found at i:27647205 original size:13 final size:14
Alignment explanation
Indices: 27647187--27647216 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27647177 GCAAAATTGT
27647187 AATTT-AGTAATTA
1 AATTTAAGTAATTA
27647200 AATTTAAGTAATTA
1 AATTTAAGTAATTA
27647214 AAT
1 AAT
27647217 AGTTAGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTAAGTAATTA
Found at i:27648096 original size:40 final size:40
Alignment explanation
Indices: 27648052--27648238 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
27648042 ATTATTTATG
* ** * * *
27648052 AATGCACATACATGCCTTTATTTGTAGTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
*
27648092 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* *
27648132 AATGCACATACGTGCCCCTGTTTATACTTCGATACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* * *
27648172 AATGCACAAACGTGCCCCTGTTTGTACTTGGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* *
27648212 AACGCACATAC-TG-CCCTGTTTATACTT
1 AATGCACATACGTGCCCCTGTTTGTACTT
27648239 TGGTAACCCT
Statistics
Matches: 129, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 13 0.10
39 2 0.02
40 114 0.88
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
Found at i:27649810 original size:3 final size:3
Alignment explanation
Indices: 27649802--27649846 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
27649792 TGAGAAAAGA
* * *
27649802 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GCG GCG GCG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
27649847 AAAGAGCAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.07, G:0.67, T:0.27
Consensus pattern (3 bp):
GTG
Found at i:27649967 original size:12 final size:12
Alignment explanation
Indices: 27649950--27649974 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27649940 TCTCCATTTC
27649950 TTTTCTTCTTCT
1 TTTTCTTCTTCT
27649962 TTTTCTTCTTCT
1 TTTTCTTCTTCT
27649974 T
1 T
27649975 CTTCCAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTCTTCT
Done.