Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 63 of 195
Found at i:12589969 original size:13 final size:13
Alignment explanation
Indices: 12589926--12589999 Score: 67
Period size: 13 Copynumber: 5.5 Consensus size: 13
12589916 TTTGAAGGAT
12589926 GGTTTAGGATTTAA
1 GGTTTAGG-TTTAA
* * *
12589940 GGTTTGGGATTAT
1 GGTTTAGGTTTAA
*
12589953 GGTTTAGGTTTAG
1 GGTTTAGGTTTAA
12589966 GGTTTAAGGTTTAA
1 GGTTT-AGGTTTAA
* * *
12589980 TGTTAAGGTTTAG
1 GGTTTAGGTTTAA
12589993 GGTTTAG
1 GGTTTAG
12590000 TGTATACAGT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
13 30 0.64
14 17 0.36
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.45
Consensus pattern (13 bp):
GGTTTAGGTTTAA
Found at i:12589971 original size:7 final size:7
Alignment explanation
Indices: 12589926--12589999 Score: 55
Period size: 7 Copynumber: 11.0 Consensus size: 7
12589916 TTTGAAGGAT
12589926 GGTTTAG
1 GGTTTAG
* *
12589933 GATTTAA
1 GGTTTAG
12589940 GGTTT-G
1 GGTTTAG
* *
12589946 GGATTAT
1 GGTTTAG
12589953 GGTTTA-
1 GGTTTAG
12589959 GGTTTAG
1 GGTTTAG
*
12589966 GGTTTAA
1 GGTTTAG
*
12589973 GGTTTAA
1 GGTTTAG
* *
12589980 TG-TTAA
1 GGTTTAG
12589986 GGTTTAG
1 GGTTTAG
12589993 GGTTTAG
1 GGTTTAG
12590000 TGTATACAGT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
6 15 0.28
7 38 0.72
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:12589976 original size:20 final size:20
Alignment explanation
Indices: 12589926--12589998 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
12589916 TTTGAAGGAT
* *
12589926 GGTTTAGGATTTAAGGTTTG
1 GGTTTAGGGTTTAAGGTTTA
* *
12589946 GGATTATGGTTT-AGGTTTA
1 GGTTTAGGGTTTAAGGTTTA
* * *
12589965 GGGTTTAAGGTTTAATGTTAA
1 -GGTTTAGGGTTTAAGGTTTA
12589986 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
12589999 GTGTATACAG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
19 6 0.14
20 31 0.74
21 5 0.12
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (20 bp):
GGTTTAGGGTTTAAGGTTTA
Found at i:12591066 original size:25 final size:25
Alignment explanation
Indices: 12591012--12591067 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
12591002 AAATTTCTTT
* *
12591012 CTTTTTCCTCTTTTTTTCTTTCACA
1 CTTTTTCCTCTTTTCTTCTCTCACA
*
12591037 TTTTTTCCTCTTTTCTTCTCTC-CTA
1 CTTTTTCCTCTTTTCTTCTCTCAC-A
12591062 CTTTTT
1 CTTTTT
12591068 GTGTTTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (25 bp):
CTTTTTCCTCTTTTCTTCTCTCACA
Found at i:12592093 original size:20 final size:20
Alignment explanation
Indices: 12592070--12592119 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
12592060 TTTTGAGCAA
12592070 GTTTGACCAAATTTGATTTT
1 GTTTGACCAAATTTGATTTT
* * *
12592090 GTTTTACTAATTTTGATTTT
1 GTTTGACCAAATTTGATTTT
12592110 GTTTGACCAA
1 GTTTGACCAA
12592120 GTTTAACAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (20 bp):
GTTTGACCAAATTTGATTTT
Found at i:12598996 original size:34 final size:32
Alignment explanation
Indices: 12598953--12599034 Score: 110
Period size: 34 Copynumber: 2.5 Consensus size: 32
12598943 TTATATTAAA
12598953 TATTTATTATTAAAATAACAAAAATATCATTTAT
1 TATTTATTATTAAAATAACAAAAATAT--TTTAT
* *
12598987 TATTTATTATTAAAATAATAATAATATTTTAT
1 TATTTATTATTAAAATAACAAAAATATTTTAT
*
12599019 TATTATAATATTAAAA
1 TATT-TATTATTAAAA
12599035 GTATATGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.20
33 10 0.23
34 25 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
TATTTATTATTAAAATAACAAAAATATTTTAT
Found at i:12599068 original size:15 final size:14
Alignment explanation
Indices: 12599048--12599089 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
12599038 TATGTTTACT
12599048 AATATTTAAAATAGA
1 AATATTTAAAATA-A
*
12599063 AATATTTTAAATTAA
1 AATA-TTTAAAATAA
12599078 AATA-TTAAAATA
1 AATATTTAAAATA
12599090 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 7 0.29
15 9 0.38
16 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AATATTTAAAATAA
Found at i:12599101 original size:25 final size:25
Alignment explanation
Indices: 12598984--12599101 Score: 66
Period size: 25 Copynumber: 4.6 Consensus size: 25
12598974 AAATATCATT
* *
12598984 TATTATTTATTATTAAAATAATAATAA
1 TATTTTTTA-TATTAAAATATTAA-AA
* *
12599011 TATTTTAT-TATTATAATATTAAAA
1 TATTTTTTATATTAAAATATTAAAA
*
12599035 GTATATGTTTACTAATATTTAAAATA--GAAA
1 -TAT-T-TTT--T-ATA-TTAAAATATTAAAA
*
12599065 TA--TTTTAAATTAAAATATTAAAA
1 TATTTTTTATATTAAAATATTAAAA
12599088 TATTTTTTATATTA
1 TATTTTTTATATTA
12599102 CTTTTTTAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 26
0.66 0.10 0.25
Matches are distributed among these distances:
21 8 0.12
22 2 0.03
23 6 0.09
24 2 0.03
25 27 0.39
26 1 0.01
27 8 0.12
29 3 0.04
30 3 0.04
31 2 0.03
32 7 0.10
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (25 bp):
TATTTTTTATATTAAAATATTAAAA
Found at i:12600557 original size:19 final size:17
Alignment explanation
Indices: 12600535--12600581 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
12600525 TTATTTAATT
*
12600535 TTATATTTATATACATGTA
1 TTATATTAATA-ACAT-TA
12600554 TTATATTAATAACATTA
1 TTATATTAATAACATTA
12600571 TTAT-TTAATAA
1 TTATATTAATAA
12600582 TTTAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 4 0.15
19 10 0.37
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
TTATATTAATAACATTA
Found at i:12600620 original size:11 final size:11
Alignment explanation
Indices: 12600604--12600632 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12600594 AAAATACTAT
12600604 ATTTATATATA
1 ATTTATATATA
12600615 ATTTATATATA
1 ATTTATATATA
12600626 A-TTATAT
1 ATTTATAT
12600633 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTATATATA
Found at i:12606963 original size:2 final size:2
Alignment explanation
Indices: 12606956--12606991 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
12606946 ACCTTTAAAG
* *
12606956 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12606992 CTTGCCATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:12607067 original size:56 final size:56
Alignment explanation
Indices: 12606976--12607085 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 56
12606966 TATATATATA
* **
12606976 TATATGTATATTTATACTTGCCATAACGTTGTGTTCATATCTTATCAATTCTGTAT
1 TATATATATATTTATACTTGCCATAACGTCATGTTCATATCTTATCAATTCTGTAT
** * *
12607032 TATATATATATTTATACTTGCCATAGTGTCATGTTCATTTCTTATCAGTTCTGT
1 TATATATATATTTATACTTGCCATAACGTCATGTTCATATCTTATCAATTCTGT
12607086 GTCTTGTATC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (56 bp):
TATATATATATTTATACTTGCCATAACGTCATGTTCATATCTTATCAATTCTGTAT
Found at i:12617563 original size:29 final size:30
Alignment explanation
Indices: 12617507--12617566 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
12617497 AAAAAAAGGG
12617507 TGTAGAGGGTTTCTTTTCCAATGCTTACAT
1 TGTAGAGGGTTTCTTTTCCAATGCTTACAT
12617537 TGTAGAGGGTTTC-TTTCCAATGCTTACAT
1 TGTAGAGGGTTTCTTTTCCAATGCTTACAT
12617566 T
1 T
12617567 TTTGAGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (30 bp):
TGTAGAGGGTTTCTTTTCCAATGCTTACAT
Found at i:12625389 original size:3 final size:3
Alignment explanation
Indices: 12625381--12625420 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
12625371 ACTTAAAATT
12625381 TTA 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 TTA T
12625421 GTTTTGGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12626169 original size:172 final size:172
Alignment explanation
Indices: 12625871--12626206 Score: 555
Period size: 172 Copynumber: 2.0 Consensus size: 172
12625861 ACTAACATAT
* *
12625871 AAAATCCATTTAAGAATAAAGCCTTCGATTTTTGTTCTTTTCACTGTGAACTACCTTTGCATGAA
1 AAAAACCATTTAAGAATAAAGCCTTCAATTTTTGTTCTTTTCACTGTGAACTACCTTTGCATGAA
* *
12625936 AATGACATAATCAAAACCTATGAGACAAAATGAGGCCATAAACTTCTAAATAGTAAGCATGGAGC
66 AAGGACATAATCAAAACCTATGAGACAAAATGAGGCCATAAACTTCTAAATAGTAAGCATGGAAC
*** * *
12626001 AAGGTGACTTTTGCAGGCAAACCAAACTAAAACAACCAGTAC
131 AAAACGACTTTTACAAGCAAACCAAACTAAAACAACCAGTAC
*
12626043 AAAAACCATTTAAGAATAAAGCCTTCAATTTTTGTTCTTTTCACTGTGAACTACCTTTGCCTGAA
1 AAAAACCATTTAAGAATAAAGCCTTCAATTTTTGTTCTTTTCACTGTGAACTACCTTTGCATGAA
*
12626108 AAGGACATAATCAAAACCTATGAGACAAAATGAGGCCATAAACTTCTAAATAGTGAGCATGGAAC
66 AAGGACATAATCAAAACCTATGAGACAAAATGAGGCCATAAACTTCTAAATAGTAAGCATGGAAC
* *
12626173 AAAACGACTTTTACAAGTAAACCAAACTGAAACA
131 AAAACGACTTTTACAAGCAAACCAAACTAAAACA
12626207 GCTAGCTAAC
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
172 151 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (172 bp):
AAAAACCATTTAAGAATAAAGCCTTCAATTTTTGTTCTTTTCACTGTGAACTACCTTTGCATGAA
AAGGACATAATCAAAACCTATGAGACAAAATGAGGCCATAAACTTCTAAATAGTAAGCATGGAAC
AAAACGACTTTTACAAGCAAACCAAACTAAAACAACCAGTAC
Found at i:12626251 original size:32 final size:32
Alignment explanation
Indices: 12626214--12626281 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
12626204 ACAGCTAGCT
12626214 AACCAAACCAAAACAACCAATATATGCAA-GTA
1 AACCAAACCAAAACAACCAATATATG-AAGGTA
** * *
12626246 AACCAAACCGTAATAGCCAATATATGAAGGTA
1 AACCAAACCAAAACAACCAATATATGAAGGTA
12626278 AACC
1 AACC
12626282 CAATAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 2 0.06
32 29 0.94
ACGTcount: A:0.51, C:0.24, G:0.10, T:0.15
Consensus pattern (32 bp):
AACCAAACCAAAACAACCAATATATGAAGGTA
Found at i:12626382 original size:32 final size:32
Alignment explanation
Indices: 12626341--12626478 Score: 112
Period size: 30 Copynumber: 4.5 Consensus size: 32
12626331 ACGTGCAGGT
* *
12626341 AAACT-AAACAACAAATATATGTAGATGAACC
1 AAACTGAAACAACAAACATATGTAGATAAACC
* * *
12626372 AAACTGAAACAACCAACACATGTAGGTAAACC
1 AAACTGAAACAACAAACATATGTAGATAAACC
*
12626404 AAA-TCGAAACAGCAAACATA--TAGGA-AAACC
1 AAACT-GAAACAACAAACATATGTA-GATAAACC
* **
12626434 AAA-TCGAAACAACAAGC--ATGTAGGCAAACC
1 AAACT-GAAACAACAAACATATGTAGATAAACC
12626464 AAACTGAAACAACAA
1 AAACTGAAACAACAA
12626479 CATGCAAGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
28 1 0.01
29 1 0.01
30 42 0.48
31 8 0.09
32 36 0.41
ACGTcount: A:0.54, C:0.21, G:0.12, T:0.12
Consensus pattern (32 bp):
AAACTGAAACAACAAACATATGTAGATAAACC
Found at i:12626435 original size:30 final size:30
Alignment explanation
Indices: 12626368--12626482 Score: 128
Period size: 30 Copynumber: 3.8 Consensus size: 30
12626358 TATGTAGATG
*
12626368 AACCAAA-CTGAAACAACCAACACATGTAGGTA
1 AACCAAATC-GAAACAA-CAA-ACATGTAGGAA
* *
12626400 AACCAAATCGAAACAGCAAACATATAGGAA
1 AACCAAATCGAAACAACAAACATGTAGGAA
* *
12626430 AACCAAATCGAAACAACAAGCATGTAGGCA
1 AACCAAATCGAAACAACAAACATGTAGGAA
12626460 AACCAAA-CTGAAACAAC-AACATG
1 AACCAAATC-GAAACAACAAACATG
12626483 CAAGTAGACC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
29 6 0.08
30 50 0.68
31 3 0.04
32 13 0.18
33 1 0.01
ACGTcount: A:0.53, C:0.23, G:0.13, T:0.10
Consensus pattern (30 bp):
AACCAAATCGAAACAACAAACATGTAGGAA
Found at i:12626503 original size:29 final size:30
Alignment explanation
Indices: 12626431--12626526 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
12626421 ATATAGGAAA
* * * * *
12626431 ACCAAATCGAAACAACAAGCATGTAGGCAA
1 ACCAAATTGAAACAACAAGCATGCAAGTAG
*
12626461 ACCAAACTGAAACAACAA-CATGCAAGTAG
1 ACCAAATTGAAACAACAAGCATGCAAGTAG
* * * *
12626490 ACCAAATTGCAACAGCAAGCTTGCAGGTAG
1 ACCAAATTGAAACAACAAGCATGCAAGTAG
*
12626520 ACTAAAT
1 ACCAAAT
12626527 CAAAACAGCA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 22 0.42
30 31 0.58
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.14
Consensus pattern (30 bp):
ACCAAATTGAAACAACAAGCATGCAAGTAG
Found at i:12628131 original size:145 final size:144
Alignment explanation
Indices: 12627853--12628410 Score: 502
Period size: 145 Copynumber: 3.9 Consensus size: 144
12627843 TCATTTTTAG
* * * *
12627853 GATTTTAAAGCACCAAAAATCATAAAATATTAT-GAAATTAAGCTTTGAAAAGTTTCATGAAATT
1 GATTTTAAATCACCAAAAATCATGAAATATTATAG-AATTAAGATATGAAAAGTTTCATGAAATT
** * * * *
12627917 TCAAAG-TTGAGAAA-GCCAAATTACGAAAATACCCCTACAAGGGTATTTTGGTAATTTCACACT
65 T-TGAGCTCGA-AAAGGCCAAATTACGAAAATACCCTTACAAAGATATTTTGGTAATTTCACACT
12627980 TCTCGGGGTA-CAGCTAT
128 TCTCGGGGTACCA-CTAT
* * **
12627997 GATTTTAAATACACCAAAAACCATGAAACATTATAGAATTAAGATATGAAAAGTTTTGTGAAATT
1 GATTTTAAAT-CACCAAAAATCATGAAATATTATAGAATTAAGATATGAAAAGTTTCATGAAATT
* *
12628062 TTGAGCTCGAAAAGGCCAAATTACGAAAATACCCTTTA-AATGTTATTTTGGTAATTTCACACTT
65 TTGAGCTCGAAAAGGCCAAATTACGAAAATACCC-TTACAAAGATATTTTGGTAATTTCACACTT
*
12628126 TTCGGGGTACCACTAT
129 CTCGGGGTACCACTAT
* * * * * * * * *
12628142 GGTTTCAAACTCACCAAAAATCATGAAATATTTTAAAATTGAGATATGGAATGTTTCATAAAAAT
1 GATTTTAAA-TCACCAAAAATCATGAAATATTATAGAATTAAGATATGAAAAGTTTCATGAAATT
* * * * *
12628207 CTGAGCTCAAAAAGGCCAAATTACAAAAATACCCTTAGAAAGATATTTTGGTAATTTCACCCTTC
65 TTGAGCTCGAAAAGGCCAAATTACGAAAATACCCTTACAAAGATATTTTGGTAATTTCACACTTC
* ** * * * *
12628272 CCAAGGCACTATTGT
130 TCGGGGTACCACTAT
* * * *
12628287 GAATTTTAAA-CACGAAAAAAATCATGAATTATTATAAAATTAAGATCTGAAAAGTTTACA--AA
1 G-ATTTTAAATCAC--CAAAAATCATGAAATATTATAGAATTAAGATATGAAAAGTTT-CATGAA
* * ** * * * * *
12628349 AATTTGAGCTCAAAAAGTTCAAATTACAAAAATACCCCTATAAAGGTATTTTGATAATTTCA
62 ATTTTGAGCTCGAAAAGGCCAAATTACGAAAATACCCTTACAAAGATATTTTGGTAATTTCA
12628411 TCTTTCTTAA
Statistics
Matches: 344, Mismatches: 58, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
144 20 0.06
145 275 0.80
146 47 0.14
147 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (144 bp):
GATTTTAAATCACCAAAAATCATGAAATATTATAGAATTAAGATATGAAAAGTTTCATGAAATTT
TGAGCTCGAAAAGGCCAAATTACGAAAATACCCTTACAAAGATATTTTGGTAATTTCACACTTCT
CGGGGTACCACTAT
Found at i:12629088 original size:104 final size:103
Alignment explanation
Indices: 12628990--12629337 Score: 335
Period size: 107 Copynumber: 3.3 Consensus size: 103
12628980 TTTTGCTCGG
** *
12628990 AGGTCTTGAAA-ATTATGCATGAAGGTTTTAGAGAATTCAAAATCTTTGAATGCTCCTC-TAATT
1 AGGTCTT-AAAGATTATGCCCGAAGGTCTTA-AGAATTCAAAATCTTTGAATGCTCCTCATAATT
* * *
12629053 AGAGACCAAGAAACTTTAAAAAAATAAAATATTTTGCCCAA
64 AGAG-CCAAGAAACTTTAAAAATATAAAATGTTTTGCCTAA
* * ** * * *
12629094 AGGTTTTAAAAATTATGCTTGGAGGTCTTAAAGATTTCAAAATCTTTGAATGTTCCTCATAAATT
1 AGGTCTTAAAGATTATGCCCGAAGGTCTT-AAGAATTCAAAATCTTTGAATGCTCCTCAT-AATT
* * * * *
12629159 AGAGGCATCGAAACTTT-AAAATGTAAGATGTTTTGCCTGA
64 AGAGCCA-AGAAACTTTAAAAATATAAAATGTTTTGCCTAA
* * *
12629199 AGGTCTTAAAGATTGTGCCCGAAGGTCTTAAGGACTTCAAAAATCTTTGAATGCTCTTCATACAT
1 AGGTCTTAAAGATTATGCCCGAAGGTCTTAA-GAATTC-AAAATCTTTGAATGCTCCTCATA-A-
** * *
12629264 TTA-AGGCGTAGAAACTTTAAAAATTTAAAATGTTTTGCCTAG
62 TTAGA-GCCAAGAAACTTTAAAAATATAAAATGTTTTGCCTAA
*
12629306 AGGTCTTAAAGATTATGCCCGAAGGTTTTAAG
1 AGGTCTTAAAGATTATGCCCGAAGGTCTTAAG
12629338 GATTGTGCCC
Statistics
Matches: 200, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
103 3 0.01
104 48 0.24
105 50 0.25
106 47 0.23
107 52 0.26
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (103 bp):
AGGTCTTAAAGATTATGCCCGAAGGTCTTAAGAATTCAAAATCTTTGAATGCTCCTCATAATTAG
AGCCAAGAAACTTTAAAAATATAAAATGTTTTGCCTAA
Found at i:12629250 original size:106 final size:105
Alignment explanation
Indices: 12628932--12629339 Score: 359
Period size: 104 Copynumber: 3.9 Consensus size: 105
12628922 CAACATTTTC
* * * * * **
12628932 GAATGCTCATCCT-AATAAGAGGCATTA-AAACTTTGAAAATTTAAAAAT-TTTTGCTCGGAGGT
1 GAATGCTCCTCATAAATTAGAGGCA-TAGAAACTTTAAAAATAT-AAAATGTTTTGC-CTAAGGT
** * *
12628994 CTTGAAA-ATTATGCATGAAGGT-TTTAGAGAATTCAAAATCTTT
63 CTT-AAAGATTATGCCCGAAGGTCTTAAG-GACTTCAAAATCTTT
* * * * *
12629037 GAATGCTCCTC-T-AATTAGAGACCA-AGAAACTTTAAAAAAATAAAATATTTTGCCCAAAGGTT
1 GAATGCTCCTCATAAATTAGAG-GCATAGAAACTTTAAAAATATAAAATGTTTTG-CCTAAGGTC
* ** * * *
12629099 TTAAAAATTATGCTTGGAGGTCTTAAAGATTTCAAAATCTTT
64 TTAAAGATTATGCCCGAAGGTCTTAAGGACTTCAAAATCTTT
* * * *
12629141 GAATGTTCCTCATAAATTAGAGGCATCGAAACTTT-AAAATGTAAGATGTTTTGCCTGAAGGTCT
1 GAATGCTCCTCATAAATTAGAGGCATAGAAACTTTAAAAATATAAAATGTTTTGCCT-AAGGTCT
*
12629205 TAAAGATTGTGCCCGAAGGTCTTAAGGACTTCAAAAATCTTT
65 TAAAGATTATGCCCGAAGGTCTTAAGGACTTC-AAAATCTTT
* * * *
12629247 GAATGCTCTTCATACATTTA-AGGCGTAGAAACTTTAAAAATTTAAAATGTTTTGCCTAGAGGTC
1 GAATGCTCCTCATA-AATTAGAGGCATAGAAACTTTAAAAATATAAAATGTTTTGCCTA-AGGTC
*
12629311 TTAAAGATTATGCCCGAAGGTTTTAAGGA
64 TTAAAGATTATGCCCGAAGGTCTTAAGGA
12629340 TTGTGCCCAG
Statistics
Matches: 250, Mismatches: 39, Indels: 26
0.79 0.12 0.08
Matches are distributed among these distances:
103 9 0.04
104 71 0.28
105 64 0.26
106 51 0.20
107 55 0.22
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (105 bp):
GAATGCTCCTCATAAATTAGAGGCATAGAAACTTTAAAAATATAAAATGTTTTGCCTAAGGTCTT
AAAGATTATGCCCGAAGGTCTTAAGGACTTCAAAATCTTT
Found at i:12629331 original size:22 final size:22
Alignment explanation
Indices: 12629299--12629385 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 22
12629289 TAAAATGTTT
* *
12629299 TGCCTAGAGGTCTTAAAGATTA
1 TGCCCAGAGGTCTTAAAGATTG
* *
12629321 TGCCC-GAAGGTTTTAAGGATTG
1 TGCCCAG-AGGTCTTAAAGATTG
*
12629343 TGCCCAGAGGTCTTAAAAATTG
1 TGCCCAGAGGTCTTAAAGATTG
*
12629365 TGCCCAGAGGTCTTAAGGATT
1 TGCCCAGAGGTCTTAAAGATT
12629386 TGAAAAATCT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 1 0.02
22 52 0.96
23 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (22 bp):
TGCCCAGAGGTCTTAAAGATTG
Found at i:12629354 original size:44 final size:44
Alignment explanation
Indices: 12629299--12629385 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
12629289 TAAAATGTTT
* * *
12629299 TGCCTAGAGGTCTTAAAGATTATGCCC-GAAGGTTTTAAGGATTG
1 TGCCCAGAGGTCTTAAAAATTATGCCCAG-AGGTCTTAAGGATTG
*
12629343 TGCCCAGAGGTCTTAAAAATTGTGCCCAGAGGTCTTAAGGATT
1 TGCCCAGAGGTCTTAAAAATTATGCCCAGAGGTCTTAAGGATT
12629386 TGAAAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
TGCCCAGAGGTCTTAAAAATTATGCCCAGAGGTCTTAAGGATTG
Found at i:12630135 original size:91 final size:88
Alignment explanation
Indices: 12630030--12630297 Score: 248
Period size: 91 Copynumber: 2.9 Consensus size: 88
12630020 TTAGATATGA
* ** * *
12630030 ATGCAAATGTCTTTCTCATGATGCACATGTAAGTGCAAATGCGAGTTATGCAAATATGAATGTCC
1 ATGCAAATATCTTTCTCATGATGCACACATAAGTGCAAATGCAAGTGATGCAAATATGAATGT-C
* *
12630095 ATTTTTTTTAGATGAAGATGCAAGTG
65 -TTTCTTAT-GATGAAGATGCAAGTG
* * *
12630121 ATGCAAATATCTTTCTTATGATGCATACATAAGTGCGAATGCAAGTGATGCAAATATGAATGTCT
1 ATGCAAATATCTTTCTCATGATGCACACATAAGTGCAAATGCAAGTGATGCAAATATGAATGTCT
*
12630186 TTCTTATGATGTAGATGCAAGTG
66 TTCTTATGATGAAGATGCAAGTG
* * * * * * * *
12630209 ATGCAAATGCTAATTTCTTTTTTATGATGCAAATACAAGTACGAATGCAAGTGATGCAAATACGA
1 ATGCAAA---T-A--TCTTTCTCATGATGCACACATAAGTGCAAATGCAAGTGATGCAAATATGA
* * *
12630274 TTGTCTTTTTCTATGATGTAGATG
60 ATGTCTTTCT-TATGATGAAGATG
12630298 TGAATGCAAA
Statistics
Matches: 151, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
88 22 0.15
89 6 0.04
90 1 0.01
91 56 0.37
92 1 0.01
94 52 0.34
95 13 0.09
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (88 bp):
ATGCAAATATCTTTCTCATGATGCACACATAAGTGCAAATGCAAGTGATGCAAATATGAATGTCT
TTCTTATGATGAAGATGCAAGTG
Found at i:12630204 original size:41 final size:40
Alignment explanation
Indices: 12630159--12630390 Score: 134
Period size: 41 Copynumber: 5.4 Consensus size: 40
12630149 ATAAGTGCGA
12630159 ATGCAAGTGATGCAAATATGAATGTCTTTCTTATGATGTAG
1 ATGCAAGTGATGCAAATATGAATGTCTTT-TTATGATGTAG
* *
12630200 ATGCAAGTGATGCAAATGCT-AATTTCTTTTTTATGATGCAAATACAAGTACG
1 ATGCAAGTGATGCAAAT-ATGAATGTC--TTTT-T-ATG---AT----GTA-G
* *
12630252 AATGCAAGTGATGCAAATACGATTGTCTTTTTCTATGATGTAG
1 -ATGCAAGTGATGCAAATATGAATGTC-TTTT-TATGATGTAG
* * * *
12630295 AT----GTGAATGCAAATGTGAATGCCTCTTTTGTGATGCAG
1 ATGCAAGTG-ATGCAAATATGAATGTCT-TTTTATGATGTAG
* *
12630333 ATGCAAGTGATGCAAATGCT-AATGTCTTTTTCATGATGTAA
1 ATGCAAGTGATGCAAAT-ATGAATGTCTTTTT-ATGATGTAG
*
12630374 ATGCAAGTGATCCAAAT
1 ATGCAAGTGATGCAAAT
12630391 GCAAATATCT
Statistics
Matches: 149, Mismatches: 19, Indels: 46
0.70 0.09 0.21
Matches are distributed among these distances:
38 14 0.09
39 16 0.11
40 4 0.03
41 58 0.39
42 8 0.05
43 5 0.03
44 6 0.04
47 2 0.01
48 2 0.01
51 6 0.04
52 7 0.05
53 21 0.14
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (40 bp):
ATGCAAGTGATGCAAATATGAATGTCTTTTTATGATGTAG
Found at i:12630208 original size:53 final size:52
Alignment explanation
Indices: 12630130--12630297 Score: 119
Period size: 53 Copynumber: 3.4 Consensus size: 52
12630120 GATGCAAATA
*
12630130 TCTTTCTTATGATGCATACAT--AAGTGCGAATGCAAGTGATGCAAATATGAATG
1 TCTTTCTTATGATG--TAGATGCAAGT-CGAATGCAAGTGATGCAAATATGAATG
*
12630183 TCTTTCTTATGATGTAGATGCAAGT-G-ATGCAA---ATGC-----T-AATT
1 TCTTTCTTATGATGTAGATGCAAGTCGAATGCAAGTGATGCAAATATGAATG
* * * * * *
12630224 TCTTTTTTATGATGCAAATACAAGTACGAATGCAAGTGATGCAAATACGATTG
1 TCTTTCTTATGATGTAGATGCAAGT-CGAATGCAAGTGATGCAAATATGAATG
*
12630277 TCTTTTTCTATGATGTAGATG
1 TCTTTCT-TATGATGTAGATG
12630298 TGAATGCAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 29
0.68 0.09 0.22
Matches are distributed among these distances:
41 24 0.27
42 1 0.01
43 1 0.01
44 6 0.07
47 8 0.09
50 6 0.07
51 5 0.06
53 27 0.31
54 10 0.11
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (52 bp):
TCTTTCTTATGATGTAGATGCAAGTCGAATGCAAGTGATGCAAATATGAATG
Found at i:12630323 original size:94 final size:91
Alignment explanation
Indices: 12630121--12630309 Score: 227
Period size: 94 Copynumber: 2.0 Consensus size: 91
12630111 GATGCAAGTG
* * * * * * *
12630121 ATGCAAATATCTTTCTTATGATGCATACATAAGTGCGAATGCAAGTGATGCAAATATGAATGTCT
1 ATGCTAATCTCTTTTTTATGATGCAAACACAAGTACGAATGCAAGTGATGCAAATACGAATGTCT
12630186 TTCTTATGATGTAGATGCAAGTGATGCAA
66 TTCTTATGATGTAGAT---AGTGATGCAA
* * *
12630215 ATGCTAATTTCTTTTTTATGATGCAAATACAAGTACGAATGCAAGTGATGCAAATACGATTGTCT
1 ATGCTAATCTCTTTTTTATGATGCAAACACAAGTACGAATGCAAGTGATGCAAATACGAATGTCT
*
12630280 TTTTCTATGATGTAGAT-GTGAATGCAA
66 TTCT-TATGATGTAGATAGTG-ATGCAA
12630307 ATG
1 ATG
12630310 TGAATGCCTC
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
91 3 0.04
92 9 0.11
94 59 0.71
95 12 0.14
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (91 bp):
ATGCTAATCTCTTTTTTATGATGCAAACACAAGTACGAATGCAAGTGATGCAAATACGAATGTCT
TTCTTATGATGTAGATAGTGATGCAA
Found at i:12630417 original size:41 final size:41
Alignment explanation
Indices: 12630325--12630404 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
12630315 GCCTCTTTTG
* * * *
12630325 TGATGCAGATGCAAGTGATGCAAATGCTAATGTCTTTTTCA
1 TGATGCAAATGCAAGTGATCCAAATGCAAATATCTTTTTCA
*
12630366 TGATGTAAATGCAAGTGATCCAAATGCAAATATCTTTTT
1 TGATGCAAATGCAAGTGATCCAAATGCAAATATCTTTTT
12630405 TTTTATGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (41 bp):
TGATGCAAATGCAAGTGATCCAAATGCAAATATCTTTTTCA
Found at i:12631766 original size:12 final size:11
Alignment explanation
Indices: 12631749--12631811 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
12631739 CAGCTATTCA
12631749 TTTCTTTTATTT
1 TTTCTTTT-TTT
12631761 TTTCTTCTTTCTT
1 TTTCTT-TTT-TT
* * *
12631774 CTTC-CTTTTC
1 TTTCTTTTTTT
12631784 TTTCATTTTTTT
1 TTTC-TTTTTTT
12631796 TTTCTTTTTTT
1 TTTCTTTTTTT
12631807 TTTCT
1 TTTCT
12631812 CTCACTGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
10 4 0.10
11 15 0.37
12 15 0.37
13 7 0.17
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:12641452 original size:26 final size:26
Alignment explanation
Indices: 12641403--12641452 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
12641393 GAAAAATTAA
** *
12641403 AAATAAAAGGAATTAAATTAAATATC
1 AAATAAAACCAATTAAATCAAATATC
*
12641429 AAATAAAACCAATTAAATCCAATA
1 AAATAAAACCAATTAAATCAAATA
12641453 ATTATTACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.24
Consensus pattern (26 bp):
AAATAAAACCAATTAAATCAAATATC
Found at i:12642791 original size:3 final size:3
Alignment explanation
Indices: 12642783--12642817 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
12642773 CCCATTAAAA
*
12642783 ATT ATT ATT ATT ATT ATT ATT ATTT ATT TTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A
12642818 CTTGATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:12642914 original size:3 final size:3
Alignment explanation
Indices: 12642906--12642988 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
12642896 GGGACTTAAA
*
12642906 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12642954 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12642989 GTTTTGGTAG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12643580 original size:32 final size:32
Alignment explanation
Indices: 12643544--12643771 Score: 94
Period size: 32 Copynumber: 7.3 Consensus size: 32
12643534 TGTAGGCAAG
*
12643544 CCAAACCAAAATAGCCAACATATGA-AGGTAAA
1 CCAAACCAAAACAGCCAACATAT-ATAGGTAAA
*** *
12643576 CCAAATTGAAACAGCCAATATATATAGGTAAA
1 CCAAACCAAAACAGCCAACATATATAGGTAAA
* * ** * * *
12643608 CCAAATCGATGCAGCCAATATTTATAAGTAAA
1 CCAAACCAAAACAGCCAACATATATAGGTAAA
* * * * * * * * *
12643640 CCTAACGAAAACATCAAATAGATGTAGGCAAC
1 CCAAACCAAAACAGCCAACATATATAGGTAAA
** * * *
12643672 CCAAACTGAAATAGGCAACATATGTA-GTAAA
1 CCAAACCAAAACAGCCAACATATATAGGTAAA
* * *
12643703 CCAAA-C--AACA---AATATATGTAGGCAAA
1 CCAAACCAAAACAGCCAACATATATAGGTAAA
* **
12643729 CCAAACCAAAACAGCCAACACATGCAGGTAAA
1 CCAAACCAAAACAGCCAACATATATAGGTAAA
*
12643761 CCAAACTAAAA
1 CCAAACCAAAA
12643772 ATAGCAAACA
Statistics
Matches: 144, Mismatches: 44, Indels: 16
0.71 0.22 0.08
Matches are distributed among these distances:
25 9 0.06
26 9 0.06
27 1 0.01
28 3 0.02
29 4 0.03
31 9 0.06
32 109 0.76
ACGTcount: A:0.50, C:0.21, G:0.13, T:0.16
Consensus pattern (32 bp):
CCAAACCAAAACAGCCAACATATATAGGTAAA
Found at i:12643748 original size:57 final size:58
Alignment explanation
Indices: 12643648--12643775 Score: 152
Period size: 57 Copynumber: 2.2 Consensus size: 58
12643638 AACCTAACGA
* * ** * * * *
12643648 AAACATCAAATAGATGTAGGCAACCCAAACTGAAATAGGCAACATATGTA-GTAAACC
1 AAACAACAAATAGATGTAGGCAAACCAAACCAAAACAGCCAACACATGCAGGTAAACC
*
12643705 AAACAACAAATATATGTAGGCAAACCAAACCAAAACAGCCAACACATGCAGGTAAACC
1 AAACAACAAATAGATGTAGGCAAACCAAACCAAAACAGCCAACACATGCAGGTAAACC
12643763 AAACTAA-AAATAG
1 AAAC-AACAAATAG
12643776 CAAACATACA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 41 0.69
58 16 0.27
59 2 0.03
ACGTcount: A:0.52, C:0.21, G:0.13, T:0.14
Consensus pattern (58 bp):
AAACAACAAATAGATGTAGGCAAACCAAACCAAAACAGCCAACACATGCAGGTAAACC
Found at i:12643895 original size:30 final size:30
Alignment explanation
Indices: 12643722--12643898 Score: 165
Period size: 30 Copynumber: 5.8 Consensus size: 30
12643712 AAATATATGT
*
12643722 AGGCAAACCAAACCAAAACAGCCAACACATGC
1 AGGCAAACCAAACCAAAACAG-CAA-GCATGC
* * * * *
12643754 AGGTAAACCAAACTAAAAATAGCAAACATAC
1 AGGCAAACCAAAC-CAAAACAGCAAGCATGC
* * *
12643785 AGGCAAACCAAATCGAAACAACAAGCATGC
1 AGGCAAACCAAACCAAAACAGCAAGCATGC
* *
12643815 AAGCAAACCAAACCAAAACAACAAGCATGC
1 AGGCAAACCAAACCAAAACAGCAAGCATGC
** * *
12643845 AGGCATGCCAAACCACAATAGCAAGCATGC
1 AGGCAAACCAAACCAAAACAGCAAGCATGC
* * *
12643875 AAGCAAACCAAATCAAAATAGCAA
1 AGGCAAACCAAACCAAAACAGCAA
12643899 ACAGGAAATA
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
30 81 0.69
31 16 0.14
32 15 0.13
33 6 0.05
ACGTcount: A:0.53, C:0.27, G:0.13, T:0.07
Consensus pattern (30 bp):
AGGCAAACCAAACCAAAACAGCAAGCATGC
Found at i:12645780 original size:144 final size:144
Alignment explanation
Indices: 12645225--12645780 Score: 462
Period size: 144 Copynumber: 3.9 Consensus size: 144
12645215 TTGAAGCATC
* * * * * * *
12645225 AAAAATCATAAAATATTATGAAATTAAGATCT-AGAAAGTTTTATGAAAATCTGAACTCGGAAAG
1 AAAAATCATGAAATATTATAAAATTAAGATCTGA-AAAGTTTCATAAAAATTTGAGCTCGAAAAG
* * * * * * * *
12645289 GTAAAATTATAAAAATACTCCTATAACGGTATTTTGGTAATTTTACACTTTCCAT-GGTCCTACT
65 GTCAAATTACAAAAATACCCCTATAAGGGTATTTTGGTAATTTCAC-CTTT-CTTGGGTACTTCT
* * * *
12645353 ATAATTTTAAATACATA
128 GTGATTTTAAATGCACA
* * * * * ** *
12645370 AAAAATCATGAAACATTGTAGAATTGAGATCTAAAAAGTTTTGT-GAAATTCTGAGCTC-AAAAG
1 AAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAATT-TGAGCTCGAAAAG
** * * *
12645433 G-CTAAATTACGTAAATACCCCT-TAAAGGGTATTTTGGTAATTTCATACTTTCTTGGGAAATGT
65 GTC-AAATTACAAAAATACCCCTAT-AAGGGTATTTTGGTAATTTCA-CCTTTCTTGGGTACT-T
* * *
12645496 -TGTGGTTTCAAACTG-ACC
126 CTGTGATTTTAAA-TGCACA
* * ** * * *** * **
12645514 AAAAATTATGAAATATTTTAAAATTGTGATATGAAAAGTTTCACAAAAATGAAAGCTTGGGAAGG
1 AAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAATTTGAGCTCGAAAAGG
* * * * **
12645579 CCAAATTACAAAAATACCCTTATAGGGGTGTTTTGGTAATTTCACCTTTCTCCGGTACTTCTGTG
66 TCAAATTACAAAAATACCCCTATAAGGGTATTTTGGTAATTTCACCTTTCTTGGGTACTTCTGTG
*
12645644 ATTTTAAAGGCACA
131 ATTTTAAATGCACA
12645658 AAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAATTTGAGCTCGAAAAGG
1 AAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAATTTGAGCTCGAAAAGG
* * *
12645723 TCAAGTTACGAAAATACCCCTATAAGGGTATTTTGGTAATATCACCTTTCTTGGGTAC
66 TCAAATTACAAAAATACCCCTATAAGGGTATTTTGGTAATTTCACCTTTCTTGGGTAC
12645781 AATGAAAAGT
Statistics
Matches: 314, Mismatches: 83, Indels: 29
0.74 0.19 0.07
Matches are distributed among these distances:
143 5 0.02
144 221 0.70
145 85 0.27
146 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (144 bp):
AAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATAAAAATTTGAGCTCGAAAAGG
TCAAATTACAAAAATACCCCTATAAGGGTATTTTGGTAATTTCACCTTTCTTGGGTACTTCTGTG
ATTTTAAATGCACA
Found at i:12649867 original size:16 final size:16
Alignment explanation
Indices: 12649848--12649882 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12649838 TGTGATAACA
*
12649848 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
12649864 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
12649880 TAT
1 TAT
12649883 GAACTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:12660957 original size:17 final size:18
Alignment explanation
Indices: 12660930--12660963 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12660920 GCTCCAGATC
*
12660930 ATGATTTTTTAATATTTG
1 ATGATTTTTTAAAATTTG
12660948 ATGA-TTTTTAAAATTT
1 ATGATTTTTTAAAATTT
12660964 TAAAAACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (18 bp):
ATGATTTTTTAAAATTTG
Found at i:12662702 original size:13 final size:13
Alignment explanation
Indices: 12662684--12662774 Score: 52
Period size: 13 Copynumber: 7.5 Consensus size: 13
12662674 AATACCAAAA
12662684 CCTAAACCCTAAC
1 CCTAAACCCTAAC
* *
12662697 CCTAAACCTTAAA
1 CCTAAACCCTAAC
** *
12662710 CCTAAACTTTAAT
1 CCTAAACCCTAAC
12662723 CCT-AA----AA-
1 CCTAAACCCTAAC
12662730 CCTAAACCCT-AC
1 CCTAAACCCTAAC
* *
12662742 CTTAAACCCTAAT
1 CCTAAACCCTAAC
*
12662755 CCTAAGCCCTAATC
1 CCTAAACCCTAA-C
12662769 CCTAAA
1 CCTAAA
12662775 ATCCTAAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
7 3 0.05
8 4 0.07
11 1 0.02
12 11 0.18
13 36 0.60
14 5 0.08
ACGTcount: A:0.40, C:0.36, G:0.01, T:0.23
Consensus pattern (13 bp):
CCTAAACCCTAAC
Found at i:12662704 original size:7 final size:7
Alignment explanation
Indices: 12662653--12662774 Score: 62
Period size: 7 Copynumber: 18.4 Consensus size: 7
12662643 CCCACATTGG
*
12662653 AAACCCC
1 AAACCCT
*
12662660 AAATCC-
1 AAACCCT
12662666 AAACCCT
1 AAACCCT
*
12662673 AAATACC-
1 AAA-CCCT
*
12662680 AAAACCT
1 AAACCCT
12662687 AAACCCT
1 AAACCCT
12662694 -AACCCT
1 AAACCCT
*
12662700 AAACCTT
1 AAACCCT
12662707 AAA-CCT
1 AAACCCT
*
12662713 AAA-CTT
1 AAACCCT
* *
12662719 TAATCCT
1 AAACCCT
*
12662726 AAAACCT
1 AAACCCT
12662733 AAACCCT
1 AAACCCT
*
12662740 --ACCTT
1 AAACCCT
12662745 AAACCCT
1 AAACCCT
*
12662752 -AATCCT
1 AAACCCT
*
12662758 AAGCCCT
1 AAACCCT
*
12662765 AATCCCT
1 AAACCCT
12662772 AAA
1 AAA
12662775 ATCCTAAATC
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
5 4 0.05
6 28 0.32
7 54 0.61
8 2 0.02
ACGTcount: A:0.43, C:0.36, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:12662711 original size:20 final size:19
Alignment explanation
Indices: 12662681--12662773 Score: 57
Period size: 20 Copynumber: 4.8 Consensus size: 19
12662671 CTAAATACCA
12662681 AAACCTAAACCCTAACCCT
1 AAACCTAAACCCTAACCCT
**
12662700 AAACCTTAAA-CCTAAACTTT
1 AAACC-TAAACCCT-AACCCT
* *
12662720 AATCCTAAAACCTAAACCCT
1 AAACCTAAACCCT-AACCCT
*
12662740 --ACCTTAAACCCTAATCCT
1 AAACC-TAAACCCTAACCCT
* *
12662758 AAGCCCTAATCCCTAA
1 AA-ACCTAAACCCTAA
12662774 AATCCTAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
18 7 0.12
19 19 0.33
20 29 0.51
21 2 0.04
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (19 bp):
AAACCTAAACCCTAACCCT
Found at i:12663335 original size:10 final size:10
Alignment explanation
Indices: 12663322--12663350 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
12663312 TTAAAAAGTG
12663322 AAAAAATGAA
1 AAAAAATGAA
12663332 AAAAAATGAA
1 AAAAAATGAA
12663342 AAAAAATGA
1 AAAAAATGA
12663351 GGGAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:12663346 original size:67 final size:67
Alignment explanation
Indices: 12663205--12663347 Score: 157
Period size: 67 Copynumber: 2.1 Consensus size: 67
12663195 CTTTGATCCA
* * *
12663205 AAAAAAAAGAGTTTTGTTTTAAATTTGATTTGCTTTTATTTAAAAAAAATTGAAAAAAAAAAGAA
1 AAAAAAAAGAGTTTTATCTTAAATTTGATTTGCTTTTATTT-AAAAAAAGTGAAAAAAAAAAGAA
12663270 AAG
65 AAG
** * * *
12663273 TCAAAAAA-AGTTTTATCTTAAATTTGATTTGTTTTTGTTT-TAAAAAGTGAAAAAATGAAAA-A
1 AAAAAAAAGAGTTTTATCTTAAATTTGATTTGCTTTTATTTAAAAAAAGTGAAAAAA--AAAAGA
12663335 AAATG
64 AAA-G
12663340 AAAAAAAA
1 AAAAAAAA
12663348 TGAGGGAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
65 13 0.21
66 4 0.06
67 39 0.63
68 6 0.10
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (67 bp):
AAAAAAAAGAGTTTTATCTTAAATTTGATTTGCTTTTATTTAAAAAAAGTGAAAAAAAAAAGAAA
AG
Found at i:12664097 original size:25 final size:26
Alignment explanation
Indices: 12664016--12664175 Score: 202
Period size: 25 Copynumber: 6.3 Consensus size: 26
12664006 ATATTTTAAC
*
12664016 TGTCATTTCAGGCATATTTTTAATTA
1 TGTCATTTCATGCATATTTTTAATTA
* *
12664042 TGTTATTTCATGTATATTTTTAATTA
1 TGTCATTTCATGCATATTTTTAATTA
* * *
12664068 CGTCATGTCATGCATA-TTTTGATTA
1 TGTCATTTCATGCATATTTTTAATTA
*
12664093 TGTCATTTCATGCATACTTTTAATTA
1 TGTCATTTCATGCATATTTTTAATTA
* *
12664119 T-ACTTTTCATGCATA-TTTTAATTA
1 TGTCATTTCATGCATATTTTTAATTA
*
12664143 TGTCATTTCATGCATA-TTTTAATTT
1 TGTCATTTCATGCATATTTTTAATTA
12664168 TGTCATTT
1 TGTCATTT
12664176 AATATATATT
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
24 10 0.09
25 62 0.53
26 44 0.38
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (26 bp):
TGTCATTTCATGCATATTTTTAATTA
Found at i:12664971 original size:15 final size:15
Alignment explanation
Indices: 12664945--12664988 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
12664935 CAGAAAAACC
*
12664945 CAAAA-AAA-AAAAT
1 CAAAAGAAATAAAAA
12664958 CAAAAGAAATAAAAA
1 CAAAAGAAATAAAAA
12664973 CAAAAGAAATGAAAAA
1 CAAAAGAAAT-AAAAA
12664989 AAATCATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 14 0.52
16 5 0.19
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (15 bp):
CAAAAGAAATAAAAA
Found at i:12664987 original size:16 final size:16
Alignment explanation
Indices: 12664952--12664988 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
12664942 ACCCAAAAAA
12664952 AAAAATCAAAAGAAAT
1 AAAAATCAAAAGAAAT
12664968 AAAAA-CAAAAGAAAT
1 AAAAATCAAAAGAAAT
12664983 GAAAAA
1 -AAAAA
12664989 AAATCATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.78, C:0.05, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAATCAAAAGAAAT
Found at i:12665254 original size:37 final size:36
Alignment explanation
Indices: 12665194--12665378 Score: 115
Period size: 37 Copynumber: 5.4 Consensus size: 36
12665184 ACATGCATTT
* ** *
12665194 CATCTTGATAGATTGTACTTGCATTCCATTTCATACA
1 CATCTTAATAGATAATACATGCATTCCATTTCAT-CA
12665231 CATCTTAATAGATAATACATG-----CA-TT--T--
1 CATCTTAATAGATAATACATGCATTCCATTTCATCA
* ** *
12665257 CATCTTGATAGATTGTACTTGCATTCCATTTCATACA
1 CATCTTAATAGATAATACATGCATTCCATTTCAT-CA
*
12665294 CATCTTAATGGATAATACATGCATTCCATCTT-ATC-
1 CATCTTAATAGATAATACATGCATTCCAT-TTCATCA
* * * * *
12665329 CATATCAATAAATAATACACGCATTCTATTTCATGCA
1 CATCTTAATAGATAATACATGCATTCCATTTCAT-CA
*
12665366 CATGTTAATAGAT
1 CATCTTAATAGAT
12665379 GGTACATACA
Statistics
Matches: 111, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
26 17 0.15
29 1 0.01
31 4 0.04
32 4 0.04
34 3 0.03
35 25 0.23
36 2 0.02
37 53 0.48
38 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (36 bp):
CATCTTAATAGATAATACATGCATTCCATTTCATCA
Found at i:12665255 original size:63 final size:63
Alignment explanation
Indices: 12665183--12665325 Score: 268
Period size: 63 Copynumber: 2.3 Consensus size: 63
12665173 TGATAGACAG
12665183 TACATGCATTTCATCTTGATAGATTGTACTTGCATTCCATTTCATACACATCTTAATAGATAA
1 TACATGCATTTCATCTTGATAGATTGTACTTGCATTCCATTTCATACACATCTTAATAGATAA
*
12665246 TACATGCATTTCATCTTGATAGATTGTACTTGCATTCCATTTCATACACATCTTAATGGATAA
1 TACATGCATTTCATCTTGATAGATTGTACTTGCATTCCATTTCATACACATCTTAATAGATAA
*
12665309 TACATGCATTCCATCTT
1 TACATGCATTTCATCTT
12665326 ATCCATATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
63 78 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (63 bp):
TACATGCATTTCATCTTGATAGATTGTACTTGCATTCCATTTCATACACATCTTAATAGATAA
Found at i:12665396 original size:72 final size:72
Alignment explanation
Indices: 12665277--12665410 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 72
12665267 GATTGTACTT
* * *
12665277 GCATTCCATTTCATACACATCTTAATGGATAATACATGCATTCCATCTTATCCATATCAATAAAT
1 GCATTCCATTTCATACACATCTTAATAGATAATACATACATTCCATCTCATCCATATCAATAAAT
12665342 AATACAC
66 AATACAC
* * * ** * *
12665349 GCATTCTATTTCATGCACATGTTAATAGATGGTACATACATTTCATCTCATCTATATCAATA
1 GCATTCCATTTCATACACATCTTAATAGATAATACATACATTCCATCTCATCCATATCAATA
12665411 GATAGTGCAT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 52 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (72 bp):
GCATTCCATTTCATACACATCTTAATAGATAATACATACATTCCATCTCATCCATATCAATAAAT
AATACAC
Found at i:12666100 original size:32 final size:32
Alignment explanation
Indices: 12666059--12666127 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
12666049 ATCAAACCTT
* *
12666059 TGAAGTGAAGAGATATTTTTAAAGGTCTTACC
1 TGAAATGAAGAGATATTGTTAAAGGTCTTACC
**
12666091 TGAAATGAAGAGATATTGTTGGAGGTCTTACC
1 TGAAATGAAGAGATATTGTTAAAGGTCTTACC
12666123 T-AAAT
1 TGAAAT
12666128 ATTGGAGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (32 bp):
TGAAATGAAGAGATATTGTTAAAGGTCTTACC
Found at i:12670442 original size:21 final size:21
Alignment explanation
Indices: 12670418--12670459 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12670408 AAAAAGAAAA
12670418 AAGAGAAAAT-GTGTCTTTTTT
1 AAGA-AAAATGGTGTCTTTTTT
* *
12670439 AAGAATAATGGTGTGTTTTTT
1 AAGAAAAATGGTGTCTTTTTT
12670460 TGTTCCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (21 bp):
AAGAAAAATGGTGTCTTTTTT
Found at i:12671340 original size:29 final size:30
Alignment explanation
Indices: 12671308--12671407 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
12671298 ATATTCGAAC
*
12671308 TTTTCAAATCTTGATGGTGATATGCAAGTT
1 TTTTCAAATCTTGATGGTGATATGCAAGCT
* *
12671338 TTTTCAAATCTTGGTGGTCATATTTG-AA-C-
1 TTTTCAAATCTTGATGGTGATA--TGCAAGCT
* *
12671367 TTTTCTAATCTCGATGGTGATATGCAAGCT
1 TTTTCAAATCTTGATGGTGATATGCAAGCT
12671397 TTTTCAAATCT
1 TTTTCAAATCT
12671408 GAATATTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
27 2 0.04
28 2 0.04
29 19 0.33
30 30 0.53
31 2 0.04
32 2 0.04
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (30 bp):
TTTTCAAATCTTGATGGTGATATGCAAGCT
Found at i:12671367 original size:59 final size:59
Alignment explanation
Indices: 12671275--12671407 Score: 194
Period size: 59 Copynumber: 2.2 Consensus size: 59
12671265 TTTTTGGATT
* * *
12671275 TTTTTTAAAACTCATTGGTGGTGATATTCGAACTTTTCAAATCTTGATGGTGATATGCAAG
1 TTTTTTCAAA-TC-TTGGTGGTCATATTCGAACTTTTCAAATCTCGATGGTGATATGCAAG
* *
12671336 TTTTTTCAAATCTTGGTGGTCATATTTGAACTTTTCTAATCTCGATGGTGATATGCAAG
1 TTTTTTCAAATCTTGGTGGTCATATTCGAACTTTTCAAATCTCGATGGTGATATGCAAG
*
12671395 CTTTTTCAAATCT
1 TTTTTTCAAATCT
12671408 GAATATTTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 55 0.83
60 2 0.03
61 9 0.14
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.44
Consensus pattern (59 bp):
TTTTTTCAAATCTTGGTGGTCATATTCGAACTTTTCAAATCTCGATGGTGATATGCAAG
Found at i:12672044 original size:46 final size:46
Alignment explanation
Indices: 12671978--12672104 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
12671968 ACAAAATTTT
* *
12671978 TTTTTTAAGTTTGATGCCTATTTCATTA-AAGCCCTTTCCAAATAGA
1 TTTTTAAAGTTTGATGCCTATTTCA-TAGAAGCCCTTTCCAAACAGA
* * *
12672024 TTTTTAAATTTTGATGCCTATTTCATAGGAGCCTTTTCCAAACAGA
1 TTTTTAAAGTTTGATGCCTATTTCATAGAAGCCCTTTCCAAACAGA
* *
12672070 TTATTCTAAAGTTTGATGCCTATTTTATAGGAGCC
1 TT-TT-TAAAGTTTGATGCCTATTTCATAGAAGCC
12672105 ATTTTTTAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
45 2 0.03
46 40 0.56
47 2 0.03
48 27 0.38
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (46 bp):
TTTTTAAAGTTTGATGCCTATTTCATAGAAGCCCTTTCCAAACAGA
Found at i:12672100 original size:48 final size:47
Alignment explanation
Indices: 12671926--12672156 Score: 205
Period size: 48 Copynumber: 4.8 Consensus size: 47
12671916 AAATGAGATT
* * * *
12671926 TTTTTTAAAGTTTGATGCTTATTTTATAGGAGCCTTTTCTAGACAAAA
1 TTTTTTAAAGTTTGATGCCTATTTTATAGGAGCCTTTTCCAAAC-AGA
* * * * *
12671974 TTTTTTTTTTAAGTTTGATGCCTATTTCATTA-AAGCCCTTTCCAAATAGA
1 ---TTTTTTAAAGTTTGATGCCTATTTTA-TAGGAGCCTTTTCCAAACAGA
* *
12672024 -TTTTTAAATTTTGATGCCTATTTCATAGGAGCCTTTTCCAAACAGA
1 TTTTTTAAAGTTTGATGCCTATTTTATAGGAGCCTTTTCCAAACAGA
* ** * *
12672070 TTATTCTAAAGTTTGATGCCTATTTTATAGGAGCCATTTTTTAGATAGA
1 TT-TTTTAAAGTTTGATGCCTATTTTATAGGAGCC-TTTTCCAAACAGA
*** *
12672119 TTTTTTAAAGTTTGACAACTATTTTATAAGAGCCTTTT
1 TTTTTTAAAGTTTGATGCCTATTTTATAGGAGCCTTTT
12672157 TTGAAATGGA
Statistics
Matches: 149, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
45 2 0.01
46 38 0.26
47 5 0.03
48 56 0.38
49 11 0.07
50 2 0.01
51 33 0.22
52 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (47 bp):
TTTTTTAAAGTTTGATGCCTATTTTATAGGAGCCTTTTCCAAACAGA
Found at i:12672158 original size:48 final size:46
Alignment explanation
Indices: 12672089--12672211 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 46
12672079 AGTTTGATGC
* * *
12672089 CTATTTTATAGGAGCCATTTTTTAGATAGATTTTTTAAAGTTTGACAA
1 CTATTTTATAAGAGCC-TTTTTTAGATAGA-ATTTTAAAGTCTGACAA
* * ***
12672137 CTATTTTATAAGAGCCTTTTTTGAAATGGAATTTTAAAGTCTGATGC
1 CTATTTTATAAGAGCCTTTTTT-AGATAGAATTTTAAAGTCTGACAA
* *
12672184 CTATTTCATAAGAGCCCTTTTTAGATAG
1 CTATTTTATAAGAGCCTTTTTTAGATAG
12672212 GTCCAAAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
46 4 0.06
47 38 0.61
48 20 0.32
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (46 bp):
CTATTTTATAAGAGCCTTTTTTAGATAGAATTTTAAAGTCTGACAA
Found at i:12674127 original size:40 final size:40
Alignment explanation
Indices: 12674082--12674163 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
12674072 TGCTATTTTA
*
12674082 GTATGTTACATGTTTGATAAATCTTCCTTGAAGTAAATAT
1 GTATGTTACATGTGTGATAAATCTTCCTTGAAGTAAATAT
12674122 GTATGTTACATGTGTGATAAATCTTCCTTGAAGTAAATAT
1 GTATGTTACATGTGTGATAAATCTTCCTTGAAGTAAATAT
12674162 GT
1 GT
12674164 CTTTAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (40 bp):
GTATGTTACATGTGTGATAAATCTTCCTTGAAGTAAATAT
Found at i:12674729 original size:13 final size:13
Alignment explanation
Indices: 12674697--12674746 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 13
12674687 CACTAAATCC
12674697 AAACCCTAAAAGCTT
1 AAACCCTAAAA-C-T
12674712 AAACCCTAAAACT
1 AAACCCTAAAACT
* *
12674725 AAA-CCTTAATCT
1 AAACCCTAAAACT
12674737 AAACCCTAAA
1 AAACCCTAAA
12674747 CCTGAACTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 10 0.32
13 9 0.29
14 1 0.03
15 11 0.35
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACCCTAAAACT
Found at i:12674826 original size:13 final size:12
Alignment explanation
Indices: 12674778--12674828 Score: 66
Period size: 13 Copynumber: 4.1 Consensus size: 12
12674768 TAAACTATAC
12674778 ACCTAAACCCTA
1 ACCTAAACCCTA
12674790 ACCTTAAACCCTA
1 ACC-TAAACCCTA
*
12674803 ATCCTAAACCTTA
1 A-CCTAAACCCTA
*
12674816 ACCTAAAACCTA
1 ACCTAAACCCTA
12674828 A
1 A
12674829 ACCAACCCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 13 0.38
13 19 0.56
14 2 0.06
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (12 bp):
ACCTAAACCCTA
Found at i:12674830 original size:6 final size:6
Alignment explanation
Indices: 12674711--12674840 Score: 50
Period size: 6 Copynumber: 20.7 Consensus size: 6
12674701 CCTAAAAGCT
* * * * ***
12674711 TAAACCC TAAAAC TAAACC TTAATC TAAACCC TAAACC TGAACTC TAATTG
1 TAAA-CC TAAACC TAAACC TAAACC TAAA-CC TAAACC TAAAC-C TAAACC
* * *
12674762 TAGATC TAAA-C TATACACC TAAACCC T-AACC TTAAACCC TAATCC TAAACC
1 TAAACC TAAACC TA-A-ACC TAAA-CC TAAACC -TAAA-CC TAAACC TAAACC
* *
12674813 TTAACC TAAAACC TAAACC -AACCC TAAA
1 TAAACC T-AAACC TAAACC TAAACC TAAA
12674841 GCACTAAATC
Statistics
Matches: 91, Mismatches: 21, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
5 9 0.10
6 50 0.55
7 27 0.30
8 5 0.05
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.23
Consensus pattern (6 bp):
TAAACC
Found at i:12675334 original size:69 final size:66
Alignment explanation
Indices: 12675232--12675375 Score: 182
Period size: 69 Copynumber: 2.1 Consensus size: 66
12675222 AGTTTGATCC
* * *
12675232 AAAAATTAAAAAAAGATAATTTTATTTTAAATTTGTTTTGCTTTTGTGTTAAAAAATTTGAAAAA
1 AAAAAATAAAAAAAGA-AATTTTATTTTAAATTTGATTTGCTTTTGT-TTAAAAAA-TAG-AAAA
12675297 AATAGA
62 AAT-GA
* * *
12675303 AAAAAATAAAAAAAG-AGTTTTATTTTAAATTTGATTTGTTTTTGTTTCAAAAATAGAAAAAATG
1 AAAAAATAAAAAAAGAAATTTTATTTTAAATTTGATTTGCTTTTGTTTAAAAAATAGAAAAAATG
12675367 A
66 A
12675368 AAAAAATA
1 AAAAAATA
12675376 GAGGAAATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
65 10 0.15
66 7 0.10
67 2 0.03
68 7 0.10
69 27 0.40
71 14 0.21
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (66 bp):
AAAAAATAAAAAAAGAAATTTTATTTTAAATTTGATTTGCTTTTGTTTAAAAAATAGAAAAAATG
A
Found at i:12676530 original size:175 final size:176
Alignment explanation
Indices: 12676224--12676572 Score: 601
Period size: 175 Copynumber: 2.0 Consensus size: 176
12676214 ATAAAACCTT
*
12676224 TATAAGGTATCAAATATCAAAGTATTACAAATATGACAATGTTTTAGCTAAAAAGAAATGATTTG
1 TATAAGGTATCAAATATCAAAGTATTACAAATATGACAATGTTTTAGCTAAAAAGAAATGATTTA
* * * *
12676289 GCTTAAAGTGCAAATACCAACACCTTTTTCTCCCTACCCCTACCCTAGTACACCATGCGAGTCAT
66 GCTTAAAGTGCAAATACCAACACCTTTCTCTCCCCACCCCAAACCTAGTACACCATGCGAGTCAT
*
12676354 CCCCTAGCTTCGATGTGGTCTCTCCTTTTCAAATATGATCCCCTCA
131 CCCCTAGCTTCGATGTGGTCTCTCCCTTTCAAATATGATCCCCTCA
12676400 TATAAGGTATCAAATATCAAAGTATTACAAATATGACAATGTTTTAGCTAAAAA-AAATGATTTA
1 TATAAGGTATCAAATATCAAAGTATTACAAATATGACAATGTTTTAGCTAAAAAGAAATGATTTA
* *
12676464 GCTTGAAGTGCAAATACCAACACCTTTCTCTCCCCACCCCAAACCTAGTACACCATGTGAGTCAT
66 GCTTAAAGTGCAAATACCAACACCTTTCTCTCCCCACCCCAAACCTAGTACACCATGCGAGTCAT
* *
12676529 CCCTTAGCTTTGATGTGGTCTCTCCCTTTCAAATATGATCCCCT
131 CCCCTAGCTTCGATGTGGTCTCTCCCTTTCAAATATGATCCCCT
12676573 TTCCTTTCAG
Statistics
Matches: 163, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
175 109 0.67
176 54 0.33
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (176 bp):
TATAAGGTATCAAATATCAAAGTATTACAAATATGACAATGTTTTAGCTAAAAAGAAATGATTTA
GCTTAAAGTGCAAATACCAACACCTTTCTCTCCCCACCCCAAACCTAGTACACCATGCGAGTCAT
CCCCTAGCTTCGATGTGGTCTCTCCCTTTCAAATATGATCCCCTCA
Found at i:12676831 original size:206 final size:207
Alignment explanation
Indices: 12676435--12676836 Score: 572
Period size: 206 Copynumber: 1.9 Consensus size: 207
12676425 TACAAATATG
*
12676435 ACAATGTTTTAGCTAAAAAAAATGATTTAGCTTGAAGTGCAAATACCAACACCTTTCTCTCCCCA
1 ACAATGTTTTAGCTAAAAAAAATGATTTAGCTTGAAATGCAAATACCAACACCTTTCTCTCCCCA
* *
12676500 CCCCAAACCTAGTACACCATGTGAGTCATCCCTTAGCTTTGATGTGGTCTCTCCCTTTCAAATAT
66 CCCCAAACCTAGTACACCATGCGAGTCATCCCTTAGCTTCGATGTGGTCTCTCCCTTTCAAATAT
* * * * * ** **
12676565 GATCCCCTTTCCTTTCAGCACCACACCCTTTGCAGAACCTTTTATGTGTCTCTTTTATTCACACT
131 GATCCCCTTCCCCTTCAGCACCACACCCCTTACAGAACCCTTTACATGTCTCCCTTATTCACACT
12676630 CTTGCATGTCTC
196 CTTGCATGTCTC
* *
12676642 ACAATGTTTTAGCT-AAAAAAATGATTTGGCTTGAAATGCAAATACCAACACCTTTCTCTCTCCA
1 ACAATGTTTTAGCTAAAAAAAATGATTTAGCTTGAAATGCAAATACCAACACCTTTCTCTCCCCA
**** *
12676706 CCCTTGCCCTAGTACACTATGCGAGTCATCCCTTAGCTTCGATGTGGTCTCTCCCTTTCAAATAT
66 CCCCAAACCTAGTACACCATGCGAGTCATCCCTTAGCTTCGATGTGGTCTCTCCCTTTCAAATAT
* * * * * *
12676771 GATTCTCTTCCCCTTCAGGACCATACCCCTTATAGAACCCTTTGCATGTCTCCCTTATTCACACT
131 GATCCCCTTCCCCTTCAGCACCACACCCCTTACAGAACCCTTTACATGTCTCCCTTATTCACACT
12676836 C
196 C
12676837 CTGCTTTTCC
Statistics
Matches: 170, Mismatches: 25, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
206 156 0.92
207 14 0.08
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (207 bp):
ACAATGTTTTAGCTAAAAAAAATGATTTAGCTTGAAATGCAAATACCAACACCTTTCTCTCCCCA
CCCCAAACCTAGTACACCATGCGAGTCATCCCTTAGCTTCGATGTGGTCTCTCCCTTTCAAATAT
GATCCCCTTCCCCTTCAGCACCACACCCCTTACAGAACCCTTTACATGTCTCCCTTATTCACACT
CTTGCATGTCTC
Found at i:12678551 original size:20 final size:20
Alignment explanation
Indices: 12678526--12678598 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
12678516 CTGAATGTTT
12678526 TATGGTCAAACTTGATCAAA
1 TATGGTCAAACTTGATCAAA
** *
12678546 TATGGTCAAACAAGGTCAAA
1 TATGGTCAAACTTGATCAAA
* * *
12678566 TTTCGTCAAAATTGATCAAA
1 TATGGTCAAACTTGATCAAA
*
12678586 CT-TGGTTAAACTT
1 -TATGGTCAAACTT
12678599 TGGTCAACCA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 39 0.98
21 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
TATGGTCAAACTTGATCAAA
Found at i:12679101 original size:143 final size:143
Alignment explanation
Indices: 12678766--12679101 Score: 392
Period size: 143 Copynumber: 2.3 Consensus size: 143
12678756 TGAGGTCGAT
* *
12678766 TTTTTTGTGAAAAGCTCTAGATCATGTTTTGATATTATTTCATAAATTTTAGTGCATTAAAAACC
1 TTTTTCGTGAAAAGCTCTAGATCATGTTTTGATATTATTTCAT-GATTTTAGTGCATTAAAAACC
*
12678831 CTAATCGCACTTCAAAAGTATTGAAATTACCAAAATACATTTTATGGGTATTTTTCTAATTTAAC
65 CTAATCGCACTTCAAAAGTATTGAAATTACCAAAATACATTTTATAGGTATTTTTCTAATTTAAC
*** *
12678896 CTTTTTAAGTTTGG
130 CTTCCAAAGTTTAG
* * * * * * *
12678910 CTTTTCGTGAAAA-CTAC-ATATTATGTTTTTATATTATTTCATGAATTTTAGTTCATTGAAAAG
1 TTTTTCGTGAAAAGCT-CTAGATCATGTTTTGATATTATTTCATG-ATTTTAGTGCATTAAAAAC
* * * * * * *
12678973 CTTAATCGCACTTCAAAAGTGTTGAAATTACCAAAATGCCTTTT-TAGGTTTTCTTTGTAATTTG
64 CCTAATCGCACTTCAAAAGTATTGAAATTACCAAAATACATTTTATAGGTATT-TTTCTAATTTA
12679037 ACCTTCCCAAAG-TTAG
128 ACCTT-CCAAAGTTTAG
* *
12679053 TTTTTCGTGAAAAGCTCTAGATCATATTTTGATATTATTCCATGATTTT
1 TTTTTCGTGAAAAGCTCTAGATCATGTTTTGATATTATTTCATGATTTT
12679102 GAAATTACCA
Statistics
Matches: 159, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
142 6 0.04
143 115 0.72
144 38 0.24
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (143 bp):
TTTTTCGTGAAAAGCTCTAGATCATGTTTTGATATTATTTCATGATTTTAGTGCATTAAAAACCC
TAATCGCACTTCAAAAGTATTGAAATTACCAAAATACATTTTATAGGTATTTTTCTAATTTAACC
TTCCAAAGTTTAG
Found at i:12680671 original size:20 final size:20
Alignment explanation
Indices: 12680643--12680851 Score: 123
Period size: 20 Copynumber: 10.3 Consensus size: 20
12680633 TAATGTAGAA
* *
12680643 TAAAGCCCAAACCAAACCTT
1 TAAACCCCAAACCAAACCCT
*
12680663 TAAACCCCAAAATCAAAACCCT
1 TAAACCCC-AAA-CCAAACCCT
* * * *
12680685 TAAACACCTAATCAATCCCT
1 TAAACCCCAAACCAAACCCT
* **
12680705 AAAACCCTTAACCAAACCCT
1 TAAACCCCAAACCAAACCCT
** * **
12680725 TAAATTCAAAACCAAAGACT
1 TAAACCCCAAACCAAACCCT
* *
12680745 TAAGCCCCAAGCCAAACCCT
1 TAAACCCCAAACCAAACCCT
* * * *
12680765 TAAACCCTAGACCAATCCTT
1 TAAACCCCAAACCAAACCCT
*
12680785 TAAACCCCTAAATCAAACCCT
1 TAAACCCC-AAACCAAACCCT
* * *
12680806 CAAACCCCAAACTAAGCCCT
1 TAAACCCCAAACCAAACCCT
* * *
12680826 CAAATCCTAAACTCAAACCC-
1 TAAACCCCAAAC-CAAACCCT
12680846 TAAACC
1 TAAACC
12680852 AAACACTTAA
Statistics
Matches: 137, Mismatches: 48, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
20 98 0.72
21 25 0.18
22 14 0.10
ACGTcount: A:0.44, C:0.37, G:0.03, T:0.17
Consensus pattern (20 bp):
TAAACCCCAAACCAAACCCT
Found at i:12680840 original size:13 final size:13
Alignment explanation
Indices: 12680824--12680884 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
12680814 AAACTAAGCC
*
12680824 CTCAAATCCTAAA
1 CTCAAACCCTAAA
12680837 CTCAAACCCTAAA
1 CTCAAACCCTAAA
*
12680850 C-CAAACACTTAAA
1 CTCAAAC-CCTAAA
*
12680863 CTCCAAACTC-AAA
1 CT-CAAACCCTAAA
12680876 CTCCAAACC
1 CT-CAAACC
12680885 AAACCTTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 5 0.12
13 30 0.75
15 5 0.12
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (13 bp):
CTCAAACCCTAAA
Found at i:12680841 original size:33 final size:33
Alignment explanation
Indices: 12680804--12680897 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 33
12680794 AAATCAAACC
* * *
12680804 CTCAAACCCCAAACTAAGCCCTCAAA-TCCTAAA
1 CTCAAACCCCAAACCAAACACTCAAACTCC-AAA
* *
12680837 CTCAAACCCTAAACCAAACACTTAAACTCCAAA
1 CTCAAACCCCAAACCAAACACTCAAACTCCAAA
*
12680870 CTCAAACTCCAAACCAAAC-CTTCAAACT
1 CTCAAACCCCAAACCAAACAC-TCAAACT
12680898 TAATCTCCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 1 0.02
33 47 0.92
34 3 0.06
ACGTcount: A:0.45, C:0.38, G:0.01, T:0.16
Consensus pattern (33 bp):
CTCAAACCCCAAACCAAACACTCAAACTCCAAA
Found at i:12680895 original size:13 final size:13
Alignment explanation
Indices: 12680863--12680916 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
12680853 AACACTTAAA
12680863 CTCCAAACTCAAA-
1 CTCCAAAC-CAAAC
12680876 CTCCAAACCAAAC
1 CTCCAAACCAAAC
* ** *
12680889 CTTCAAACTTAAT
1 CTCCAAACCAAAC
12680902 CTCCAAACCAAAC
1 CTCCAAACCAAAC
12680915 CT
1 CT
12680917 TTAAACCCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 4 0.12
13 28 0.88
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.19
Consensus pattern (13 bp):
CTCCAAACCAAAC
Found at i:12680895 original size:26 final size:26
Alignment explanation
Indices: 12680866--12680922 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
12680856 ACTTAAACTC
12680866 CAAACTCAAACTCCAAACCAAACCTT
1 CAAACTCAAACTCCAAACCAAACCTT
* *
12680892 CAAACTTAATCTCCAAACCAAACCTT
1 CAAACTCAAACTCCAAACCAAACCTT
*
12680918 TAAAC
1 CAAAC
12680923 CCTAAACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (26 bp):
CAAACTCAAACTCCAAACCAAACCTT
Found at i:12680971 original size:20 final size:20
Alignment explanation
Indices: 12680929--12680993 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
12680919 AAACCCTAAA
* *
12680929 CTAAACCTCAAACCGAA--C
1 CTAAACCCCAAACCAAACCC
*
12680947 CTAAACCCCAAGCCAAACCC
1 CTAAACCCCAAACCAAACCC
* *
12680967 CTAAACCCTAAACCAAGCCC
1 CTAAACCCCAAACCAAACCC
12680987 C-AAACCC
1 CTAAACCC
12680994 AAGGCCTAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 14 0.36
19 6 0.15
20 19 0.49
ACGTcount: A:0.42, C:0.46, G:0.05, T:0.08
Consensus pattern (20 bp):
CTAAACCCCAAACCAAACCC
Found at i:12681007 original size:6 final size:6
Alignment explanation
Indices: 12680998--12681050 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
12680988 AAACCCAAGG
* * * *
12680998 CCTAAC CCTAAC CATAA- CCTAAGG CCTAAC CCTAAC CATAAC CCAAAC
1 CCTAAC CCTAAC CCTAAC CCTAA-C CCTAAC CCTAAC CCTAAC CCTAAC
12681046 CCTAA
1 CCTAA
12681051 ACTAAACCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
5 4 0.11
6 29 0.76
7 5 0.13
ACGTcount: A:0.40, C:0.42, G:0.04, T:0.15
Consensus pattern (6 bp):
CCTAAC
Found at i:12681050 original size:24 final size:24
Alignment explanation
Indices: 12680989--12681043 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
12680979 CCAAGCCCCA
12680989 AACCCAAGGCCTAACCCTAACCAT
1 AACCCAAGGCCTAACCCTAACCAT
*
12681013 AACCTAAGGCCTAACCCTAACCAT
1 AACCCAAGGCCTAACCCTAACCAT
12681037 AACCCAA
1 AACCCAA
12681044 ACCCTAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.40, G:0.07, T:0.13
Consensus pattern (24 bp):
AACCCAAGGCCTAACCCTAACCAT
Found at i:12681057 original size:12 final size:12
Alignment explanation
Indices: 12681040--12681086 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
12681030 TAACCATAAC
12681040 CCAAACCCTAAA
1 CCAAACCCTAAA
* *
12681052 CTAAACCCCAAA
1 CCAAACCCTAAA
* *
12681064 CCAAATCCAAAA
1 CCAAACCCTAAA
12681076 CCAAA-CCTAAA
1 CCAAACCCTAAA
12681087 TCCTACCTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 5 0.17
12 24 0.83
ACGTcount: A:0.53, C:0.38, G:0.00, T:0.09
Consensus pattern (12 bp):
CCAAACCCTAAA
Found at i:12681173 original size:13 final size:12
Alignment explanation
Indices: 12681145--12681209 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
12681135 CCTCAAATTG
12681145 AACCAAACCCTA
1 AACCAAACCCTA
12681157 AACCAAACCCTTA
1 AACCAAACCC-TA
*
12681170 AACCCCAAA-TC-A
1 AA--CCAAACCCTA
12681182 AACCTAAACCCCTA
1 AACC-AAA-CCCTA
*
12681196 AACTAAACCCTA
1 AACCAAACCCTA
12681208 AA
1 AA
12681210 TCTAATCCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 2 0.05
11 3 0.07
12 20 0.47
13 8 0.19
14 5 0.12
15 5 0.12
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.12
Consensus pattern (12 bp):
AACCAAACCCTA
Found at i:12681203 original size:31 final size:31
Alignment explanation
Indices: 12681168--12681235 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
12681158 ACCAAACCCT
*
12681168 TAAACCCCAAATC-AAACCTAAACCCCTAAAC
1 TAAACCCCAAATCTAAACCCAAA-CCCTAAAC
* *
12681199 TAAACCCTAAATCTAATCCCAAACCCTAAAC
1 TAAACCCCAAATCTAAACCCAAACCCTAAAC
*
12681230 CAAACC
1 TAAACC
12681236 TTAAACCCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (31 bp):
TAAACCCCAAATCTAAACCCAAACCCTAAAC
Found at i:12681209 original size:20 final size:20
Alignment explanation
Indices: 12681152--12681209 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
12681142 TTGAACCAAA
*
12681152 CCCTAAACCAAACCCTTAAAC
1 CCCTAAACTAAACCC-TAAAC
12681173 CCC-AAA-TCAAA-CCTAAAC
1 CCCTAAACT-AAACCCTAAAC
12681191 CCCTAAACTAAACCCTAAA
1 CCCTAAACTAAACCCTAAA
12681210 TCTAATCCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 8 0.25
19 8 0.25
20 13 0.41
21 3 0.09
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.14
Consensus pattern (20 bp):
CCCTAAACTAAACCCTAAAC
Found at i:12681241 original size:19 final size:18
Alignment explanation
Indices: 12681145--12681247 Score: 74
Period size: 19 Copynumber: 5.8 Consensus size: 18
12681135 CCTCAAATTG
12681145 AACC-AAACCCTAAACCA
1 AACCTAAACCCTAAACCA
* *
12681162 AACCCTTAAACCCCAAATCA
1 AA-CC-TAAACCCTAAACCA
*
12681182 AACCTAAACCC----CTA
1 AACCTAAACCCTAAACCA
*
12681196 AA-CTAAACCCTAAATCTA
1 AACCTAAACCCTAAA-CCA
* *
12681214 ATCCCAAACCCTAAACCA
1 AACCTAAACCCTAAACCA
12681232 AACCTTAAACCCTAAA
1 AACC-TAAACCCTAAA
12681248 AGTCAAACCT
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.12
14 3 0.04
17 2 0.03
18 18 0.27
19 23 0.34
20 13 0.19
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.15
Consensus pattern (18 bp):
AACCTAAACCCTAAACCA
Found at i:12683044 original size:25 final size:25
Alignment explanation
Indices: 12682978--12683030 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
12682968 GTATTTTTTG
* *
12682978 AAAAAATTTTAAAAAAAGTTTTTCT
1 AAAATATTTTAAAAAATGTTTTTCT
12683003 AAAATATTTTAAAAAATGTTTTTCT
1 AAAATATTTTAAAAAATGTTTTTCT
12683028 AAA
1 AAA
12683031 TTTTCTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAATATTTTAAAAAATGTTTTTCT
Found at i:12683359 original size:17 final size:16
Alignment explanation
Indices: 12683321--12683360 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 16
12683311 AAAAAGTTAA
12683321 AAAAATGAAAAAAAAT
1 AAAAATGAAAAAAAAT
12683337 GAAAAATGAAAAAAGGAAT
1 -AAAAATGAAAAAA--AAT
12683356 AAAAA
1 AAAAA
12683361 AGTGATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.62
18 5 0.24
19 3 0.14
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (16 bp):
AAAAATGAAAAAAAAT
Found at i:12691911 original size:16 final size:16
Alignment explanation
Indices: 12691887--12691936 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
12691877 AAAAAAAAGC
12691887 AAAAA-AATA-AAAAA
1 AAAAAGAATAGAAAAA
12691901 AATAAAGAATAGAGAAAA
1 AA-AAAGAATAGA-AAAA
12691919 AAAAGAGAA-AGAAAAA
1 AAAA-AGAATAGAAAAA
12691935 AA
1 AA
12691937 GGAATGATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.06
15 3 0.10
16 10 0.32
17 6 0.19
18 10 0.32
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAAGAATAGAAAAA
Found at i:12693131 original size:35 final size:35
Alignment explanation
Indices: 12693041--12693462 Score: 241
Period size: 35 Copynumber: 12.1 Consensus size: 35
12693031 AGTCACATTT
* * ** * *
12693041 ATTCTTTGATTCATGGCCTAATCTCGATCGTTTTT
1 ATTCTCTGACTCATGGTTTAATCTCGATCATTTTC
* * * * *
12693076 ATTTTCTAACTCATGATTTAATCTCGACCGTTTTC
1 ATTCTCTGACTCATGGTTTAATCTCGATCATTTTC
* *
12693111 ATTCTCTGACTCATGGTTTAAT-TCTGGTCATTATC
1 ATTCTCTGACTCATGGTTTAATCTC-GATCATTTTC
* * * * ** *
12693146 ATT-TCTAACTCGTGATTTAAT-TCTGGTTGTTTTT
1 ATTCTCTGACTCATGGTTTAATCTC-GATCATTTTC
* * *
12693180 ATTCTTTGATTCATGGTTTAATCCCGATCATTTTC
1 ATTCTCTGACTCATGGTTTAATCTCGATCATTTTC
* *
12693215 ATT-TCTTGACTTATGGCTTAATCTCTG-TCATTTTC
1 ATTCTC-TGACTCATGGTTTAATCTC-GATCATTTTC
* * * **
12693250 ATTCTCTTACTCATGGCTTATTCTCGATTGTTTTC
1 ATTCTCTGACTCATGGTTTAATCTCGATCATTTTC
* * * *
12693285 ATTTTCTAACTCATGGTTTAATTTCAATCATTTTC
1 ATTCTCTGACTCATGGTTTAATCTCGATCATTTTC
* * * *
12693320 ATTTTCTGACTCGTGGTTTAATC-CTGGTTATTTTC
1 ATTCTCTGACTCATGGTTTAATCTC-GATCATTTTC
* * * * * *
12693355 ATTCTTTAACTCGTGGTTTTAATTTTGATCATTTTT
1 ATTCTCTGACTCATGG-TTTAATCTCGATCATTTTC
* * * *
12693391 ATT-TTTGACTCATGCTTTAATC-CCAGTCAGTTTC
1 ATTCTCTGACTCATGGTTTAATCTCGA-TCATTTTC
* ** *
12693425 ATTTTCTGACTTGTGGTTTAATC-CTAGTCATTTTC
1 ATTCTCTGACTCATGGTTTAATCTCGA-TCATTTTC
12693460 ATT
1 ATT
12693463 TATCTCAGTC
Statistics
Matches: 296, Mismatches: 79, Indels: 24
0.74 0.20 0.06
Matches are distributed among these distances:
33 1 0.00
34 47 0.16
35 228 0.77
36 20 0.07
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.50
Consensus pattern (35 bp):
ATTCTCTGACTCATGGTTTAATCTCGATCATTTTC
Found at i:12693288 original size:139 final size:140
Alignment explanation
Indices: 12693038--12693307 Score: 314
Period size: 139 Copynumber: 1.9 Consensus size: 140
12693028 ATTAGTCACA
* * * *
12693038 TTTATTCTTTGATTCATGGCCTAATCTCGATCGTTTTTATTTTCTAACTCATGATTTAATCTCGA
1 TTTATTCTTTGATTCATGGCCTAATCCCGATCATTTTCATTTTCTAACTCATGACTTAATCTCGA
* * * *
12693103 CCGTTTTCATTCTCTGACTCATGGTTTAATTCTGGTCATTATCA-TTTCTAACTCGTGATTTAAT
66 CCATTTTCATTCTCTGACTCATGGCTTAATTCTGATCATTATCATTTTCTAACTCATGATTTAAT
12693167 TCTGGTTGTT
131 TCTGGTTGTT
** * * *
12693177 TTTATTCTTTGATTCATGGTTTAATCCCGATCATTTTCA-TTTCTTGACTTATGGCTTAATCTCT
1 TTTATTCTTTGATTCATGGCCTAATCCCGATCATTTTCATTTTC-TAACTCATGACTTAATCTC-
* * ** * *
12693241 G-TCATTTTCATTCTCTTACTCATGGCTT-ATTCTCGATTGTTTTCATTTTCTAACTCATGGTTT
64 GACCATTTTCATTCTCTGACTCATGGCTTAATTCT-GATCATTATCATTTTCTAACTCATGATTT
12693304 AATT
128 AATT
12693308 TCAATCATTT
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
138 9 0.08
139 79 0.73
140 20 0.19
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (140 bp):
TTTATTCTTTGATTCATGGCCTAATCCCGATCATTTTCATTTTCTAACTCATGACTTAATCTCGA
CCATTTTCATTCTCTGACTCATGGCTTAATTCTGATCATTATCATTTTCTAACTCATGATTTAAT
TCTGGTTGTT
Found at i:12693321 original size:105 final size:105
Alignment explanation
Indices: 12693051--12693462 Score: 372
Period size: 105 Copynumber: 3.9 Consensus size: 105
12693041 ATTCTTTGAT
* * * * * * *
12693051 TCATGGCCTAA-TCTCGATCGTTTTTATTTTCTAACTCATGATTTAATCTCGACCGTTTTCATTC
1 TCATGGCTTAATTCTCGATCGTTTTTATTTT-TAACTCATGGTTTAATCCCAATCATTTTCATTT
* * *
12693115 TCTGACTCATGGTTTAATTCTGGTCATTATCATT-TCTAAC
65 TCTGACTCATGGTTTAATCCTGGTCATTTTCATTCTCTTAC
* ** * * * * *
12693155 TCGTGATTTAATTCT-GGTTGTTTTTATTCTTTGATTCATGGTTTAATCCCGATCATTTTCA-TT
1 TCATGGCTTAATTCTCGATCGTTTTTATT-TTTAACTCATGGTTTAATCCCAATCATTTTCATTT
* *
12693218 TCTTGACTTATGGCTTAATCTCT-GTCATTTTCATTCTCTTAC
65 TC-TGACTCATGGTTTAATC-CTGGTCATTTTCATTCTCTTAC
* * **
12693260 TCATGGCTT-ATTCTCGATTGTTTTCATTTTCTAACTCATGGTTTAATTTCAATCATTTTCATTT
1 TCATGGCTTAATTCTCGATCGTTTTTATTTT-TAACTCATGGTTTAATCCCAATCATTTTCATTT
* *
12693324 TCTGACTCGTGGTTTAATCCTGGTTATTTTCATTCT-TTAAC
65 TCTGACTCATGGTTTAATCCTGGTCATTTTCATTCTCTT-AC
* * * * * * * *
12693365 TCGTGGTTTTAATT-TTGATCATTTTTATTTTTGACTCATGCTTTAATCCCAGTCAGTTTCATTT
1 TCATGG-CTTAATTCTCGATCGTTTTTATTTTTAACTCATGGTTTAATCCCAATCATTTTCATTT
** *
12693429 TCTGACTTGTGGTTTAATCCTAGTCATTTTCATT
65 TCTGACTCATGGTTTAATCCTGGTCATTTTCATT
12693463 TATCTCAGTC
Statistics
Matches: 249, Mismatches: 47, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
103 3 0.01
104 78 0.31
105 146 0.59
106 19 0.08
107 3 0.01
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (105 bp):
TCATGGCTTAATTCTCGATCGTTTTTATTTTTAACTCATGGTTTAATCCCAATCATTTTCATTTT
CTGACTCATGGTTTAATCCTGGTCATTTTCATTCTCTTAC
Found at i:12693396 original size:16 final size:17
Alignment explanation
Indices: 12693371--12693403 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12693361 TAACTCGTGG
12693371 TTTTAATTTTGA-TCAT
1 TTTTAATTTTGACTCAT
*
12693387 TTTTATTTTTGACTCAT
1 TTTTAATTTTGACTCAT
12693404 GCTTTAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTAATTTTGACTCAT
Found at i:12693473 original size:54 final size:54
Alignment explanation
Indices: 12693414--12693517 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
12693404 GCTTTAATCC
** *
12693414 CAGTCAGTTTCATTTTCTGACTTGTGGTTTAATCCTAG-TCATTTTCATTTATCT
1 CAGTCAGTTTCATTTTCTGACTCATGATTTAAT-CTAGATCATTTTCATTTATCT
* * * *
12693468 CAGTCATTTTTATTTTTTGACTCATGATTTAATCTTGATCATTTTCATTT
1 CAGTCAGTTTCATTTTCTGACTCATGATTTAATCTAGATCATTTTCATTT
12693518 TTTGACTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.07
54 39 0.93
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.53
Consensus pattern (54 bp):
CAGTCAGTTTCATTTTCTGACTCATGATTTAATCTAGATCATTTTCATTTATCT
Found at i:12693500 original size:89 final size:88
Alignment explanation
Indices: 12693383--12693552 Score: 236
Period size: 89 Copynumber: 1.9 Consensus size: 88
12693373 TTAATTTTGA
* *
12693383 TCATTTTTATTTTTGACTCATGCTTTAATCCCAG-TCAGTTTCATTTTCTGACTTGTGGTTTAAT
1 TCATTTTTATTTTTGACTCATGATTTAAT-CCAGATCAGTTTCATTTTCTGACTTATGGTTTAAT
12693447 CCTAG-TCATTTTCATTTATCTCAG
65 -CTAGATCATTTTCATTTATCTCAG
** * *
12693471 TCATTTTTATTTTTTGACTCATGATTTAATCTTGATCATTTTCATTTTTTGACTTATGGTTTAAT
1 TCATTTTTA-TTTTTGACTCATGATTTAATCCAGATCAGTTTCATTTTCTGACTTATGGTTTAAT
*
12693536 CTCGATCATTTTCATTT
65 CTAGATCATTTTCATTT
12693553 TCTGACTTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
88 14 0.19
89 58 0.81
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.54
Consensus pattern (88 bp):
TCATTTTTATTTTTGACTCATGATTTAATCCAGATCAGTTTCATTTTCTGACTTATGGTTTAATC
TAGATCATTTTCATTTATCTCAG
Found at i:12693510 original size:35 final size:35
Alignment explanation
Indices: 12693471--12693743 Score: 203
Period size: 35 Copynumber: 7.8 Consensus size: 35
12693461 TTTATCTCAG
* *
12693471 TCATTTTTATTTTTTGACTCATGATTTAATCTTGA
1 TCATTTTTATTTTTTGACTCATGGTTTAATCTCGA
* *
12693506 TCATTTTCATTTTTTGACTTATGGTTTAATCTCGA
1 TCATTTTTATTTTTTGACTCATGGTTTAATCTCGA
* * **
12693541 TCATTTTCATTTTCTGACTTGTGGTTTAATCTCGA
1 TCATTTTTATTTTTTGACTCATGGTTTAATCTCGA
* * * ** *
12693576 TGATTTTTA-TTTCTAACTTGTGGTTTAATC-CAA
1 TCATTTTTATTTTTTGACTCATGGTTTAATCTCGA
** * *
12693609 GTTGTTTTTATTTTTTGACTCATGGTTTAGTC-CCA
1 -TCATTTTTATTTTTTGACTCATGGTTTAATCTCGA
** * * * *
12693644 GTCATCATTATTCTTTGACTCATGGTTTAATATAGG
1 -TCATTTTTATTTTTTGACTCATGGTTTAATCTCGA
* * * * *
12693680 TCATTTCTATTTTTTGACTCGTGATTCAAT-TCTA
1 TCATTTTTATTTTTTGACTCATGGTTTAATCTCGA
* * *
12693714 GTCATTTTTGTTCTCTGACTCATGGTTTAA
1 -TCATTTTTATTTTTTGACTCATGGTTTAA
12693744 GCCCTCTCGT
Statistics
Matches: 189, Mismatches: 45, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
33 2 0.01
34 28 0.15
35 159 0.84
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (35 bp):
TCATTTTTATTTTTTGACTCATGGTTTAATCTCGA
Found at i:12693897 original size:6 final size:6
Alignment explanation
Indices: 12693882--12694014 Score: 57
Period size: 6 Copynumber: 22.8 Consensus size: 6
12693872 CTTGTGATGT
* * * * *
12693882 CAAAAA -AAAAA CAAAAA GAAAAAA AACAAAA CAAAAA AATAAAA GTAATAA
1 CAAAAA CAAAAA CAAAAA -CAAAAA CA-AAAA CAAAAA CA-AAAA -CAAAAA
* * * * * *
12693933 C-AAAA TAAACA -AAAAA CAATAA C-AAAA TAAAAA CAATAA CAATAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
* *
12693978 C-AAAA -TAAAA CAAAAA CAAAAA -AAAAA -AGAAA CAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAA
12694015 GAAAAAGAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 31 0.32
6 48 0.49
7 17 0.18
8 1 0.01
ACGTcount: A:0.80, C:0.11, G:0.02, T:0.07
Consensus pattern (6 bp):
CAAAAA
Found at i:12693919 original size:22 final size:21
Alignment explanation
Indices: 12693900--12694019 Score: 82
Period size: 20 Copynumber: 5.6 Consensus size: 21
12693890 AAACAAAAAG
12693900 AAAAAAAACAAAACAAAAAAA
1 AAAAAAAACAAAACAAAAAAA
* ** * *
12693921 TAAAAGTA-ATAACAAAATAA
1 AAAAAAAACAAAACAAAAAAA
*
12693941 ACAAAAAACAATAACAAAATAAA
1 AAAAAAAACAA-AACAAAA-AAA
* * *
12693964 AACAATAACAATAACAAAATAA
1 AAAAAAAACAA-AACAAAAAAA
*
12693986 AACAAAAACAAAA-AAAAAAA
1 AAAAAAAACAAAACAAAAAAA
* *
12694006 GAAACAAAAGAAAA
1 -AAAAAAAACAAAA
12694020 AGAAAAGCAA
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
20 20 0.27
21 18 0.24
22 19 0.25
23 18 0.24
ACGTcount: A:0.80, C:0.10, G:0.03, T:0.07
Consensus pattern (21 bp):
AAAAAAAACAAAACAAAAAAA
Found at i:12693971 original size:39 final size:39
Alignment explanation
Indices: 12693900--12694004 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 39
12693890 AAACAAAAAG
* ** *
12693900 AAAAAAAACAAAACAAAAAAATAAAAGTAATAACAA-AATA
1 AAAAAAAAC-AAA-AACAAAATAAAAACAATAACAATAACA
*
12693940 AACAAAAAACAATAACAAAATAAAAACAATAACAATAACA
1 AA-AAAAAACAAAAACAAAATAAAAACAATAACAATAACA
* *
12693980 AAATAAAACAAAAACAAAAAAAAAA
1 AAAAAAAACAAAAACAAAATAAAAA
12694005 AGAAACAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 39 0.71
40 9 0.16
41 7 0.13
ACGTcount: A:0.80, C:0.10, G:0.01, T:0.09
Consensus pattern (39 bp):
AAAAAAAACAAAAACAAAATAAAAACAATAACAATAACA
Found at i:12693994 original size:45 final size:44
Alignment explanation
Indices: 12693928--12694012 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
12693918 AAATAAAAGT
*
12693928 AATAACAAAATAAACAAAAAACAATAACAAAATAA-AAACAATAAC
1 AATAACAAAATAAACAAAAAACAA-AA-AAAAAAAGAAACAATAAC
12693973 AATAACAAAATAAA-ACAAAAACAAAAAAAAAAAGAAACAA
1 AATAACAAAATAAACA-AAAAACAAAAAAAAAAAGAAACAA
12694013 AAGAAAAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
43 6 0.16
44 9 0.24
45 22 0.59
ACGTcount: A:0.79, C:0.12, G:0.01, T:0.08
Consensus pattern (44 bp):
AATAACAAAATAAACAAAAAACAAAAAAAAAAAGAAACAATAAC
Found at i:12694020 original size:22 final size:20
Alignment explanation
Indices: 12693883--12694025 Score: 81
Period size: 20 Copynumber: 7.0 Consensus size: 20
12693873 TTGTGATGTC
*
12693883 AAAAAAAAAACAAAAAGAAA
1 AAAAAAAAAACAAAAAAAAA
* *
12693903 AAAAACAAAACAAAAAAATA
1 AAAAAAAAAACAAAAAAAAA
** *
12693923 AAAGTAATAACAAAATAAACAA
1 AAAAAAAAAACAAAA-AAA-AA
* * *
12693945 AAAACAATAACAAAATAAAA
1 AAAAAAAAAACAAAAAAAAA
* * * * * *
12693965 ACAATAACAA-TAACAAAAT
1 AAAAAAAAAACAAAAAAAAA
*
12693984 AAAACAAAAACAAAAAAAAA
1 AAAAAAAAAACAAAAAAAAA
* * *
12694004 AAGAAACAAAAGAAAAAGAAA
1 AA-AAAAAAAACAAAAAAAAA
12694025 A
1 A
12694026 GCAAGGTTTA
Statistics
Matches: 91, Mismatches: 28, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
19 12 0.13
20 45 0.49
21 20 0.22
22 14 0.15
ACGTcount: A:0.81, C:0.09, G:0.03, T:0.06
Consensus pattern (20 bp):
AAAAAAAAAACAAAAAAAAA
Found at i:12694669 original size:145 final size:141
Alignment explanation
Indices: 12694503--12694993 Score: 445
Period size: 145 Copynumber: 3.4 Consensus size: 141
12694493 GAATTTTTGT
* * *
12694503 GAAACGTTTCAGATCTTAATTTTATAATATCTCATGATTTTTGGTGTATTTAAAATCACAATAGT
1 GAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTG-ATTTAAAATCACAATAGT
*
12694568 ACCCTAAGAAGGGTAAACTTACCAAAATACCCTTATAGGGCTATATTCATAATTTGGCTTTCTTG
65 ACCCTAA-AAGGGTAAA-TTACCAAAATACCCTTATAGGGCTATTTTCATAATTTGGCTTT-TTG
* *
12694633 AGCTCAGATTTTCAT
127 AGCTCAGAATTTCAC
* ** **
12694648 GAAACTTTTTAGAT-TTCAATTTCATAATATTTCATGATTTTTGGTGAGCTCGAA--ACAATAGC
1 GAAACTTTTCAGATCTT-AATTTCATAATATTTCATGATTTTTGGTGATTTAAAATCACAATAG-
* * * * *
12694710 AATACCCTAAAAAAGGTAATATTACCACAATACTCTTATAGGGGTATTTTCATAATTTGACTTTT
64 --TACCCT-AAAAGGGTAA-ATTACCAAAATACCCTTATAGGGCTATTTTCATAATTTGGCTTTT
* **
12694775 TCGAGTTTGGAATTTCAC
125 T-GAGCTCAGAATTTCAC
* * * * *
12694793 GAAACTTTTCAAATGTTAATTTCATAATATTTTATGATTTTTGGT-ATATATGAAATCA-AAGCA
1 GAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGAT-T-TAAAATCACAA-TA
* * ** * *
12694856 GTACCTCGAAAAGTGTAAAATTATGAAAATACCCTTATAAGGTTATTTTCATAATTTGGCTTTTC
63 GTACC-CTAAAAGGGT-AAATTACCAAAATACCCTTATAGGGCTATTTTCATAATTTGGCTTTT-
** *
12694921 CAAGCTCAAAATTTCAC
125 TGAGCTCAGAATTTCAC
* * * *
12694938 GAAAC-TTCCTAGATCTTAATTTTATAATATTTCATGATTTTTTGTGCTTTAAAATC
1 GAAACTTTTC-AGATCTTAATTTCATAATATTTCATGATTTTTGGTGATTTAAAATC
12694994 CCAAAAATGA
Statistics
Matches: 277, Mismatches: 51, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
142 7 0.03
144 18 0.06
145 235 0.85
146 12 0.04
147 2 0.01
148 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (141 bp):
GAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGATTTAAAATCACAATAGTA
CCCTAAAAGGGTAAATTACCAAAATACCCTTATAGGGCTATTTTCATAATTTGGCTTTTTGAGCT
CAGAATTTCAC
Found at i:12698771 original size:15 final size:15
Alignment explanation
Indices: 12698751--12698791 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
12698741 ATTTTTTTTC
12698751 ATTTTTGATTTAT-TT
1 ATTTTT-ATTTATATT
12698766 ATTTTT-TTATATATT
1 ATTTTTATT-TATATT
12698781 ATTTTTATTTA
1 ATTTTTATTTA
12698792 AGCATTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.09
14 3 0.13
15 16 0.70
16 2 0.09
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTTATTTATATT
Found at i:12698950 original size:3 final size:3
Alignment explanation
Indices: 12698933--12698983 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
12698923 AATAAACCTT
* *
12698933 ATA ATAA ATA A-A ATA ATA ATA ACTAA ATA ATA ATA ACA ATA ACA ATA
1 ATA AT-A ATA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA ATA ATA ATA
12698980 ATA A
1 ATA A
12698984 AAAATGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 31 0.77
4 5 0.12
5 2 0.05
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:12699392 original size:29 final size:28
Alignment explanation
Indices: 12699361--12699509 Score: 138
Period size: 29 Copynumber: 5.2 Consensus size: 28
12699351 TCAAAAATAA
*
12699361 AAAATCAAAACCTTAAACTCCAAACCCT
1 AAAATCAAAACCCTAAACTCCAAACCCT
* **
12699389 AAAAATCAAAACCCTAAACCCCAAATGCT
1 -AAAATCAAAACCCTAAACTCCAAACCCT
* *
12699418 AAAATCGAAA-CCTAAACCCTCGAAACCCT
1 AAAATCAAAACCCTAAA--CTCCAAACCCT
* ** *
12699447 AAAATCAAAGCATTAAACCCCAAACCCT
1 AAAATCAAAACCCTAAACTCCAAACCCT
* *
12699475 AAAATTAAAACCCTAAACCTTTCAAACCCT
1 AAAATCAAAACCCTAAA-C-TCCAAACCCT
12699505 AAAAT
1 AAAAT
12699510 TATAATCATA
Statistics
Matches: 94, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
27 6 0.06
28 31 0.33
29 40 0.43
30 17 0.18
ACGTcount: A:0.50, C:0.31, G:0.03, T:0.17
Consensus pattern (28 bp):
AAAATCAAAACCCTAAACTCCAAACCCT
Found at i:12699451 original size:57 final size:56
Alignment explanation
Indices: 12699361--12699538 Score: 171
Period size: 57 Copynumber: 3.1 Consensus size: 56
12699351 TCAAAAATAA
* * **
12699361 AAAATCAAAACCTTAAACTC-CAAACCCTAAAAATCAAAACCCTAAACCCCAAATGCT
1 AAAATCAAAACC-TAAACCCTCAAACCCT-AAAATCAAAACACTAAACCCCAAACCCT
* * *
12699418 AAAATCGAAACCTAAACCCTCGAAACCCTAAAATCAAAGCATTAAACCCCAAACCCT
1 AAAATCAAAACCTAAACCCTC-AAACCCTAAAATCAAAACACTAAACCCCAAACCCT
* * * *
12699475 AAAATTAAAACCCTAAACCTTTCAAACCCTAAAATTATAATCA-TAAACCCTTCAAACCCT
1 AAAATCAAAA-CCTAAACC-CTCAAACCCTAAAATCA-AAACACTAAACCC--CAAACCCT
12699535 AAAA
1 AAAA
12699539 CCTTAAAGCC
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
56 6 0.06
57 43 0.42
58 35 0.34
59 6 0.06
60 12 0.12
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.18
Consensus pattern (56 bp):
AAAATCAAAACCTAAACCCTCAAACCCTAAAATCAAAACACTAAACCCCAAACCCT
Found at i:12699466 original size:30 final size:28
Alignment explanation
Indices: 12699381--12699538 Score: 122
Period size: 30 Copynumber: 5.4 Consensus size: 28
12699371 CCTTAAACTC
* *
12699381 CAAACCCTAAAAATCAAAACCCTAAACCC-
1 CAAACCCT-AAAATTAAAA-CATAAACCCT
** ** *
12699410 CAAATGCTAAAATCGAAACCTAAACCCT
1 CAAACCCTAAAATTAAAACATAAACCCT
* *
12699438 CGAAACCCTAAAATCAAAGCATTAAACCC-
1 C-AAACCCTAAAATTAAAACA-TAAACCCT
* *
12699467 CAAACCCTAAAATTAAAACCCTAAACCTTT
1 CAAACCCTAAAATTAAAA-CATAAACC-CT
*
12699497 CAAACCCTAAAATTATAATCATAAACCCTT
1 CAAACCCTAAAATTA-AAACATAAACCC-T
12699527 CAAACCCTAAAA
1 CAAACCCTAAAA
12699539 CCTTAAAGCC
Statistics
Matches: 106, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
27 9 0.08
28 31 0.29
29 22 0.21
30 42 0.40
31 2 0.02
ACGTcount: A:0.49, C:0.31, G:0.03, T:0.18
Consensus pattern (28 bp):
CAAACCCTAAAATTAAAACATAAACCCT
Found at i:12699652 original size:24 final size:24
Alignment explanation
Indices: 12699603--12699661 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
12699593 TTTAAACCGT
*
12699603 TAAAACCCT-AAA-CCCAAAATCA
1 TAAAACCTTAAAACCCCAAAATCA
**
12699625 T-AAACCTTCAAAACCCCAAAATTT
1 TAAAACCTT-AAAACCCCAAAATCA
12699649 TAAAACCTTAAAA
1 TAAAACCTTAAAA
12699662 TCCAAAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 6 0.20
22 1 0.03
23 3 0.10
24 13 0.43
25 7 0.23
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (24 bp):
TAAAACCTTAAAACCCCAAAATCA
Found at i:12699670 original size:15 final size:14
Alignment explanation
Indices: 12699650--12699707 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
12699640 CCAAAATTTT
12699650 AAAACCTTAAAATCC
1 AAAACC-TAAAATCC
*
12699665 AAAACCTAAAACTCT
1 AAAACCTAAAA-TCC
** *
12699680 AAAATTTAAAATTC
1 AAAACCTAAAATCC
12699694 AAAACCTAAAATCC
1 AAAACCTAAAATCC
12699708 CAAATTTGGT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
14 17 0.50
15 17 0.50
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAACCTAAAATCC
Found at i:12700870 original size:26 final size:25
Alignment explanation
Indices: 12700840--12700889 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
12700830 CAGTGGTTGG
**
12700840 ATTTAATTGGTTTTATTTTATATTTA
1 ATTTAATTCCTTTTATTTTA-ATTTA
12700866 ATTTAATTCCTTTTATTTTAATTT
1 ATTTAATTCCTTTTATTTTAATTT
12700890 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (25 bp):
ATTTAATTCCTTTTATTTTAATTTA
Found at i:12701513 original size:13 final size:11
Alignment explanation
Indices: 12701489--12701535 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
12701479 CGTCATTGAC
*
12701489 AAGATAAAAAA
1 AAGAGAAAAAA
*
12701500 AGAGAGACAAAA
1 A-AGAGAAAAAA
12701512 AAGAGAAAAAA
1 AAGAGAAAAAA
12701523 AAGCA-AAAAAA
1 AAG-AGAAAAAA
12701534 AA
1 AA
12701536 AAAAAGAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.79, C:0.04, G:0.15, T:0.02
Consensus pattern (11 bp):
AAGAGAAAAAA
Found at i:12701516 original size:11 final size:10
Alignment explanation
Indices: 12701495--12701543 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
12701485 TGACAAGATA
12701495 AAAAAAGAGAG
1 AAAAAA-AGAG
12701506 ACAAAAAAGAG
1 A-AAAAAAGAG
12701517 AAAAAAA-AG
1 AAAAAAAGAG
*
12701526 CAAAAAA-A-
1 AAAAAAAGAG
12701534 AAAAAAAGAG
1 AAAAAAAGAG
12701544 CTCTCATGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 6 0.18
9 10 0.30
10 6 0.18
11 6 0.18
12 5 0.15
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:12704564 original size:28 final size:28
Alignment explanation
Indices: 12704533--12704593 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
12704523 CCATTCAATG
*
12704533 AAAAAAAAAGAAAAA-AAAAGAGGAAAA
1 AAAAAAAAAGAAAAATAAAAAAGGAAAA
*
12704560 TAAAAACAAAGAAAAATAAAAAAGGAAAA
1 -AAAAAAAAAGAAAAATAAAAAAGGAAAA
12704589 AAAAA
1 AAAAA
12704594 TGAATGGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.03
Consensus pattern (28 bp):
AAAAAAAAAGAAAAATAAAAAAGGAAAA
Found at i:12704575 original size:16 final size:16
Alignment explanation
Indices: 12704533--12704582 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 16
12704523 CCATTCAATG
*
12704533 AAAA-AAAAAGAAAAA
1 AAAAGAAAAATAAAAA
12704548 AAAAGAGGAAAATAAAAA
1 AAAAGA--AAAATAAAAA
*
12704566 CAAAGAAAAATAAAAA
1 AAAAGAAAAATAAAAA
12704582 A
1 A
12704583 GGAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
18 14 0.48
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAATAAAAA
Found at i:12705503 original size:32 final size:31
Alignment explanation
Indices: 12705444--12705518 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
12705434 AAAGAAAACA
*
12705444 ATTTCAAGCCTAGTTTAGCTGGCATCAATGA-
1 ATTT-AAGCCTAGATTAGCTGGCATCAATGAG
* *
12705475 AGTCTTAAGCCTAGATTATCTGGTATCAATGAG
1 A-T-TTAAGCCTAGATTAGCTGGCATCAATGAG
12705508 ATTTAAGCCTA
1 ATTTAAGCCTA
12705519 ATATAGTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 10 0.26
32 25 0.66
33 3 0.08
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (31 bp):
ATTTAAGCCTAGATTAGCTGGCATCAATGAG
Found at i:12705570 original size:32 final size:32
Alignment explanation
Indices: 12705534--12705634 Score: 114
Period size: 32 Copynumber: 3.2 Consensus size: 32
12705524 GTTGGCACGC
12705534 AAGCCCAGATTATCTGGCACTAATGAAGTTTT
1 AAGCCCAGATTATCTGGCACTAATGAAGTTTT
* * ***
12705566 AAGCCCAGTTTAACTGGCACTAATGAAAAGTT
1 AAGCCCAGATTATCTGGCACTAATGAAGTTTT
* * *
12705598 AAGCCTAGATTATCTGG-AATCAATAAAGTTTT
1 AAGCCCAGATTATCTGGCACT-AATGAAGTTTT
12705630 AAGCC
1 AAGCC
12705635 TAGTTTAGAT
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
31 2 0.04
32 53 0.96
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (32 bp):
AAGCCCAGATTATCTGGCACTAATGAAGTTTT
Found at i:12706047 original size:33 final size:33
Alignment explanation
Indices: 12706009--12706275 Score: 110
Period size: 33 Copynumber: 8.3 Consensus size: 33
12705999 CCCAGCTCCT
12706009 AATGAAATTTTAAACCTAGTTTATCTGGCCTTC
1 AATGAAATTTTAAACCTAGTTTATCTGGCCTTC
* * * * * * *
12706042 GATGAAAGATTTAAGCCTAGTCTAGCTAG-CATC
1 AATGAAA-TTTTAAACCTAGTTTATCTGGCCTTC
* * *
12706075 --T--AATTTTAAACCCAGTTTATTTGGGCC-CC
1 AATGAAATTTTAAACCTAGTTTATCT-GGCCTTC
* * * *
12706104 AAAGAAAGATTTAAGCCTAGTTTATCTAGCCTTC
1 AATGAAA-TTTTAAACCTAGTTTATCTGGCCTTC
* * *
12706138 AATAAAATTTTAAACTTAATTTATCTGGCCTTC
1 AATGAAATTTTAAACCTAGTTTATCTGGCCTTC
* * * * *
12706171 GATGAAAGATTTAAGCCCAG--T-T-TGG-CTAGC
1 AATGAAA-TTTTAAACCTAGTTTATCTGGCCT-TC
*** * * *
12706201 -ACCCAATTTTAAGCCCAGTTTATCTGGCCTCC
1 AATGAAATTTTAAACCTAGTTTATCTGGCCTTC
* * *
12706233 AATGAAATTTTAAGCCTAGTTTATTTGGCC-CC
1 AATGAAATTTTAAACCTAGTTTATCTGGCCTTC
12706265 TAATGAAATTT
1 -AATGAAATTT
12706276 AAGCCCAATC
Statistics
Matches: 169, Mismatches: 47, Indels: 36
0.67 0.19 0.14
Matches are distributed among these distances:
28 24 0.14
29 9 0.05
30 6 0.04
31 3 0.02
32 7 0.04
33 76 0.45
34 44 0.26
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (33 bp):
AATGAAATTTTAAACCTAGTTTATCTGGCCTTC
Found at i:12706078 original size:67 final size:66
Alignment explanation
Indices: 12705985--12706255 Score: 224
Period size: 62 Copynumber: 4.2 Consensus size: 66
12705975 AAAAAAATTC
* *
12705985 TTAAGCCTAGTTTACCCAGC-TCCTAATGAAATTTTAAACCTAGTTTATCTGGCCTTCGATGAAA
1 TTAAGCCTAGTTTAGCTAGCAT-CTAAT-AAATTTTAAACCTAGTTTATCTGGCCTTCGATGAAA
12706049 GAT
64 GAT
* * * * * *
12706052 TTAAGCCTAGTCTAGCTAGCATC---T-AATTTTAAACCCAGTTTATTTGGGCC-CCAAAGAAAG
1 TTAAGCCTAGTTTAGCTAGCATCTAATAAATTTTAAACCTAGTTTATCT-GGCCTTCGATGAAAG
12706112 AT
65 AT
* * * *
12706114 TTAAGCCTAGTTTATCTAGCCT-TCAATAAAATTTTAAACTTAATTTATCTGGCCTTCGATGAAA
1 TTAAGCCTAGTTTAGCTAGCATCT-AAT-AAATTTTAAACCTAGTTTATCTGGCCTTCGATGAAA
12706178 GAT
64 GAT
* * ** * * * * *
12706181 TTAAGCCCAGTTTGGCTAGCA-C---CCAATTTTAAGCCCAGTTTATCTGGCCTCCAATGAAA-T
1 TTAAGCCTAGTTTAGCTAGCATCTAATAAATTTTAAACCTAGTTTATCTGGCCTTCGATGAAAGA
12706241 T
66 T
12706242 TTAAGCCTAGTTTA
1 TTAAGCCTAGTTTA
12706256 TTTGGCCCCT
Statistics
Matches: 161, Mismatches: 33, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
61 13 0.08
62 76 0.47
63 4 0.02
64 1 0.01
65 1 0.01
66 4 0.02
67 61 0.38
68 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (66 bp):
TTAAGCCTAGTTTAGCTAGCATCTAATAAATTTTAAACCTAGTTTATCTGGCCTTCGATGAAAGA
T
Found at i:12706092 original size:62 final size:62
Alignment explanation
Indices: 12706014--12706255 Score: 245
Period size: 62 Copynumber: 3.8 Consensus size: 62
12706004 CTCCTAATGA
* * * *
12706014 AATTTTAAACCTAGTTTATCTGGCCTTCGATGAAAGATTTAAGCCTAGTCTAGCTAGCATCT
1 AATTTTAAACCCAGTTTATCTGGCCTCCAATGAAAGATTTAAGCCTAGTTTAGCTAGCATCT
* * * *
12706076 AATTTTAAACCCAGTTTATTTGGGCC-CCAAAGAAAGATTTAAGCCTAGTTTATCTAGCCTTCAA
1 AATTTTAAACCCAGTTTATCT-GGCCTCCAATGAAAGATTTAAGCCTAGTTTAGCTAG-CATC--
12706140 T
62 T
** * * * * * * *
12706141 AAAATTTTAAACTTAATTTATCTGGCCTTCGATGAAAGATTTAAGCCCAGTTTGGCTAGCACCC
1 --AATTTTAAACCCAGTTTATCTGGCCTCCAATGAAAGATTTAAGCCTAGTTTAGCTAGCATCT
* *
12706205 AATTTTAAGCCCAGTTTATCTGGCCTCCAATGAAA-TTTTAAGCCTAGTTTA
1 AATTTTAAACCCAGTTTATCTGGCCTCCAATGAAAGATTTAAGCCTAGTTTA
12706256 TTTGGCCCCT
Statistics
Matches: 143, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
61 13 0.09
62 74 0.52
63 7 0.05
65 1 0.01
66 6 0.04
67 42 0.29
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (62 bp):
AATTTTAAACCCAGTTTATCTGGCCTCCAATGAAAGATTTAAGCCTAGTTTAGCTAGCATCT
Found at i:12706218 original size:129 final size:128
Alignment explanation
Indices: 12705985--12706256 Score: 368
Period size: 129 Copynumber: 2.1 Consensus size: 128
12705975 AAAAAAATTC
* * *
12705985 TTAAGCCTAGTTTACCCAGCTCCTAATGAAATTTTAAACCTAGTTTATCTGGCCTTCGATGAAAG
1 TTAAGCCTAGTTTATCCAGCTCCTAATAAAATTTTAAACCTAATTTATCTGGCCTTCGATGAAAG
* * * *
12706050 ATTTAAGCCTAGTCTAGCTAGCATCTAATTTTAAACCCAGTTTATTTGGGCC-CCAAAGAAAGAT
66 ATTTAAGCCCAGTCTAGCTAGCACCCAATTTTAAACCCAGTTTATCT-GGCCTCCAAAGAAA-AT
* * *
12706114 TTAAGCCTAGTTTATCTAGC-CTTCAATAAAATTTTAAACTTAATTTATCTGGCCTTCGATGAAA
1 TTAAGCCTAGTTTATCCAGCTCCT-AATAAAATTTTAAACCTAATTTATCTGGCCTTCGATGAAA
* * * * *
12706178 GATTTAAGCCCAGTTTGGCTAGCACCCAATTTTAAGCCCAGTTTATCTGGCCTCCAATGAAATT
65 GATTTAAGCCCAGTCTAGCTAGCACCCAATTTTAAACCCAGTTTATCTGGCCTCCAAAGAAAAT
12706242 TTAAGCCTAGTTTAT
1 TTAAGCCTAGTTTAT
12706257 TTGGCCCCTA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
128 22 0.17
129 104 0.83
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (128 bp):
TTAAGCCTAGTTTATCCAGCTCCTAATAAAATTTTAAACCTAATTTATCTGGCCTTCGATGAAAG
ATTTAAGCCCAGTCTAGCTAGCACCCAATTTTAAACCCAGTTTATCTGGCCTCCAAAGAAAAT
Found at i:12706290 original size:32 final size:33
Alignment explanation
Indices: 12706205--12706320 Score: 121
Period size: 33 Copynumber: 3.5 Consensus size: 33
12706195 GCTAGCACCC
*
12706205 AATTTTAAGCCCAGTTTATCTGGCCTCCAATGA
1 AATTTTAAGCCCAGTTTATTTGGCCTCCAATGA
*
12706238 AATTTTAAGCCTAGTTTATTTGGCC-CCTAATGA
1 AATTTTAAGCCCAGTTTATTTGGCCTCC-AATGA
* * ** * *
12706271 AA-TTTAAGCCCAATCTATTT-ATCACCAAAGA
1 AATTTTAAGCCCAGTTTATTTGGCCTCCAATGA
12706302 AAGTTTTAAGCCCAGTTTA
1 AA-TTTTAAGCCCAGTTTA
12706321 GCTAGCATGT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
31 7 0.10
32 19 0.28
33 43 0.62
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (33 bp):
AATTTTAAGCCCAGTTTATTTGGCCTCCAATGA
Found at i:12706443 original size:37 final size:37
Alignment explanation
Indices: 12706402--12706510 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 37
12706392 TTCAACTTAC
12706402 GGTGTTATCCCGATCAATTTTTTATTTTTTGACTTGT
1 GGTGTTATCCCGATCAATTTTTTATTTTTTGACTTGT
* * ** * * *
12706439 GGTGTTGTCCCGGTTGACTCTTTATTTTTCGACTTGT
1 GGTGTTATCCCGATCAATTTTTTATTTTTTGACTTGT
* * ** * * *
12706476 GATGTCATCCTAATCATTTTTTTATCTCTTGACTT
1 GGTGTTATCCCGATCAATTTTTTATTTTTTGACTT
12706511 CTAGTTCAAT
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (37 bp):
GGTGTTATCCCGATCAATTTTTTATTTTTTGACTTGT
Found at i:12706748 original size:13 final size:15
Alignment explanation
Indices: 12706693--12706750 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
12706683 AAGTTTTGTT
*
12706693 TATTAATATTAAAAT-
1 TATTAATA-AAAAATA
*
12706708 TAATAATAAATTAAATA
1 TATTAATAAA--AAATA
12706725 TATTAATAAAAAATA
1 TATTAATAAAAAATA
12706740 T-TTAA-AAAAAA
1 TATTAATAAAAAA
12706751 AAGGGACAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 6 0.16
14 5 0.14
15 13 0.35
16 4 0.11
17 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TATTAATAAAAAATA
Found at i:12708075 original size:14 final size:14
Alignment explanation
Indices: 12708056--12708097 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
12708046 ATAATAAATA
12708056 AAATAACAATAACT
1 AAATAACAATAACT
*
12708070 AAATAATAATAAC-
1 AAATAACAATAACT
12708083 AAA-AACAATAA-T
1 AAATAACAATAACT
12708095 AAA
1 AAA
12708098 AAATTATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 12 0.48
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAACAATAACT
Found at i:12708089 original size:26 final size:25
Alignment explanation
Indices: 12708046--12708097 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
12708036 AATAAACCTT
*
12708046 ATAATAAATAAAATAACAATAACTAA
1 ATAATAAATAAAAAAACAATAA-TAA
12708072 ATAAT-AATAACAAAAACAATAATAA
1 ATAATAAATAA-AAAAACAATAATAA
12708097 A
1 A
12708098 AAATTATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (25 bp):
ATAATAAATAAAAAAACAATAATAA
Found at i:12708511 original size:30 final size:30
Alignment explanation
Indices: 12708470--12708695 Score: 147
Period size: 30 Copynumber: 7.6 Consensus size: 30
12708460 TTAAAATTCA
*
12708470 AAAATTGAAACCCTAAACCCTTTAAACCCT
1 AAAATCGAAACCCTAAACCCTTTAAACCCT
* * * *
12708500 AAAATCAAAACCTTAAAACCGTTAAACCCT
1 AAAATCGAAACCCTAAACCCTTTAAACCCT
** ** *
12708530 AAAATCGAAACATTAAACCC--TAAATGCA
1 AAAATCGAAACCCTAAACCCTTTAAACCCT
* *
12708558 AAAATC-AAAGCCTAAACCCTCTAAACCCT
1 AAAATCGAAACCCTAAACCCTTTAAACCCT
** *
12708587 AAAATCGAAACCCTAAAACCCCCTCAAAACCTT
1 AAAATCGAAACCCT-AAA--CCCTTTAAACCCT
* * * * * *
12708620 AAAATTGTAGCCTTAAACCCTTCAAACCAT
1 AAAATCGAAACCCTAAACCCTTTAAACCCT
* * *
12708650 -AAAGCTAAAACCCTAAAACC-TTAAACCCT
1 AAAATC-GAAACCCTAAACCCTTTAAACCCT
* *
12708679 TAAATTGAAACCCTAAA
1 AAAATCGAAACCCTAAA
12708696 ATCCCAAACC
Statistics
Matches: 149, Mismatches: 39, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
27 10 0.07
28 11 0.07
29 31 0.21
30 70 0.47
31 3 0.02
32 3 0.02
33 21 0.14
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (30 bp):
AAAATCGAAACCCTAAACCCTTTAAACCCT
Found at i:12708532 original size:16 final size:15
Alignment explanation
Indices: 12708477--12708533 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
12708467 TCAAAAATTG
*
12708477 AAACCCTAAACCCTTT
1 AAACCCTAAAACC-TT
* *
12708493 AAACCCTAAAATC-A
1 AAACCCTAAAACCTT
*
12708507 AAACCTTAAAACCGTT
1 AAACCCTAAAACC-TT
12708523 AAACCCTAAAA
1 AAACCCTAAAA
12708534 TCGAAACATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 11 0.34
16 21 0.66
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.19
Consensus pattern (15 bp):
AAACCCTAAAACCTT
Done.