Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 56 of 145
Found at i:18169025 original size:18 final size:19
Alignment explanation
Indices: 18168998--18169035 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18168988 ATTCTAACCA
18168998 TTTGAATTT-AAATTGACT
1 TTTGAATTTAAAATTGACT
*
18169016 TTTGATTTTAAAATTGACT
1 TTTGAATTTAAAATTGACT
18169035 T
1 T
18169036 GAAGTACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTGAATTTAAAATTGACT
Found at i:18169468 original size:64 final size:66
Alignment explanation
Indices: 18169394--18169531 Score: 244
Period size: 66 Copynumber: 2.1 Consensus size: 66
18169384 GTGGGTGGGT
* *
18169394 TTAGGGTTAGCTTGTATTCA-TTTCTATTTGTTTAGGGTTTTTT-TTCATTTGGGCTAGATTTTT
1 TTAGGGTTAGCTTGTATTCATTTTCTATTTGCTTAGGGTTTTTTCCTCATTTGGGCTAGATTTTT
18169457 C
66 C
18169458 TTAGGGTTAGCTTGTATTCATTTTCTATTTGCTTAGGGTTTTTTCCTCATTTGGGCTAGATTTTT
1 TTAGGGTTAGCTTGTATTCATTTTCTATTTGCTTAGGGTTTTTTCCTCATTTGGGCTAGATTTTT
18169523 C
66 C
18169524 TTAGGGTT
1 TTAGGGTT
18169532 TAGGTAAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
64 20 0.29
65 22 0.31
66 28 0.40
ACGTcount: A:0.14, C:0.11, G:0.21, T:0.54
Consensus pattern (66 bp):
TTAGGGTTAGCTTGTATTCATTTTCTATTTGCTTAGGGTTTTTTCCTCATTTGGGCTAGATTTTT
C
Found at i:18169496 original size:32 final size:32
Alignment explanation
Indices: 18169394--18169497 Score: 92
Period size: 32 Copynumber: 3.2 Consensus size: 32
18169384 GTGGGTGGGT
*
18169394 TTAGGGTTAGCTTGTATTCA-TTTCTATTTGT
1 TTAGGGTTAGCTTGTATTCATTTTCTATTTGC
* * *
18169425 TTAGGGTT---TT-TTTTCATTTGGGCTAGATTTTTC
1 TTAGGGTTAGCTTGTATTCATTT--TCT--A-TTTGC
18169458 TTAGGGTTAGCTTGTATTCATTTTCTATTTGC
1 TTAGGGTTAGCTTGTATTCATTTTCTATTTGC
18169490 TTAGGGTT
1 TTAGGGTT
18169498 TTTTCCTCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
27 5 0.09
28 4 0.07
30 2 0.04
31 8 0.14
32 13 0.23
33 12 0.21
35 2 0.04
36 2 0.04
37 8 0.14
ACGTcount: A:0.14, C:0.10, G:0.21, T:0.55
Consensus pattern (32 bp):
TTAGGGTTAGCTTGTATTCATTTTCTATTTGC
Found at i:18178865 original size:3 final size:3
Alignment explanation
Indices: 18178857--18178896 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18178847 TCAAAAGGAA
18178857 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18178897 TTATTATTAT
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:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18183053 original size:126 final size:125
Alignment explanation
Indices: 18182617--18183189 Score: 614
Period size: 125 Copynumber: 4.5 Consensus size: 125
18182607 GATAAAATCA
* * * * * * *
18182617 AAGCAGGATGCTTTATCAGAAGGATTTTTGCAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
18182682 AGGTCCT-GGAAAAATAATTTTGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTAGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
* * * * * *
18182742 AAGCACAAGCAGGATATATATGCGAAGAATTTGTAAAATCGCGCCCTCCTGGACGCGCTTTTGCT
1 AAG--CAAG-ATGCT-T-TATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCT
* * * * * *
18182807 ACAGTTGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGATTC
61 ACAGTAGGTCCTAGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * * * * * *
18182872 TACCAGGATGCTTTATGAGAAGAATTTATGAAATCGAGCCCACGTGGACGTGCTTTTGCTATAGT
1 AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
18182937 AGGTCCT-GAAAAAATTATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAAACGCTTC
66 AGGTCCTAGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAAACGCTTC
* * *** *
18182998 AAGC-AGTATGCTATT-TGAGAAGAATTTCTGAAATCGCTCCTTTGTGGATGCGCTTTTGCTACA
1 AAGCAAG-ATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
* * * *
18183061 GTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTC
64 GTAGGTCCTAGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * * * *
18183123 TAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCTACGTGGATGCACTTTTGCTACAGT
1 AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
18183188 AG
66 AG
18183190 CATGTTTGGG
Statistics
Matches: 368, Mismatches: 67, Indels: 26
0.80 0.15 0.06
Matches are distributed among these distances:
124 40 0.11
125 115 0.31
126 66 0.18
127 46 0.12
128 6 0.02
129 1 0.00
130 57 0.15
131 37 0.10
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
AAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTAGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:18183097 original size:251 final size:254
Alignment explanation
Indices: 18182620--18183189 Score: 772
Period size: 251 Copynumber: 2.3 Consensus size: 254
18182610 AAAATCAAAG
* * * * * * *
18182620 CAGGATGCTTTATCAGAAGGATTTTTGCAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTATGAAATCGAGCCCACGTGGACGCGCTTTTGCTACAGTAGG
* *
18182685 TCCTGGAAAAATAATTTTGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCACAA
66 TCCTGAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTCAAG-ACAA
* *
18182750 GCAGGATATATATGCGAAGAATTTGTAAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGG
130 GCAGGATATATATGAGAAGAATTTCTAAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGG
* *
18182815 TCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGA-TTCTAC
195 TCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATC-ACTTCTAC
* *
18182875 CAGGATGCTTTATGAGAAGAATTTATGAAATCGAGCCCACGTGGACGTGCTTTTGCTATAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTATGAAATCGAGCCCACGTGGACGCGCTTTTGCTACAGTAGG
* * *
18182940 TCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAAACGCTTCAAG-C-A
66 TCCTGAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTAT-AAAAAACGCTTCAAGACAA
* * * * * * ** *
18183003 GTATGCTAT-T-TGAGAAGAATTTCTGAAATCGCTCCTTTGTGGATGCGCTTTTGCTACAGTTGG
130 GCAGGATATATATGAGAAGAATTTCTAAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGG
*
18183066 TCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAG
195 TCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAC
* * * * * *
18183126 CAAGATGCTTTATGAGAAGAATTTGTGAAATCGTGCCTACGTGGATGCACTTTTGCTACAGTAG
1 CAGGATGCTTTATGAGAAGAATTTATGAAATCGAGCCCACGTGGACGCGCTTTTGCTACAGTAG
18183190 CATGTTTGGG
Statistics
Matches: 277, Mismatches: 36, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
250 1 0.00
251 156 0.56
252 1 0.00
253 7 0.03
254 1 0.00
255 96 0.35
256 15 0.05
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (254 bp):
CAGGATGCTTTATGAGAAGAATTTATGAAATCGAGCCCACGTGGACGCGCTTTTGCTACAGTAGG
TCCTGAAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGACAAG
CAGGATATATATGAGAAGAATTTCTAAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGT
CCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAC
Found at i:18186402 original size:7 final size:7
Alignment explanation
Indices: 18186387--18186498 Score: 55
Period size: 7 Copynumber: 15.4 Consensus size: 7
18186377 AAGTTAAGGT
*
18186387 TTTAGGG
1 TTTATGG
18186394 TTTATGG
1 TTTATGG
* *
18186401 TTTTTAAG
1 TTTAT-GG
*
18186409 TTTAGGG
1 TTTATGG
18186416 TTTATGG
1 TTTATGG
18186423 TTTATGG
1 TTTATGG
*
18186430 TTTTTAGG
1 TTTAT-GG
18186438 TTTA-GG
1 TTTATGG
*
18186444 CTTTGTGG
1 -TTTATGG
* *
18186452 TTTTTAAG
1 TTTAT-GG
*
18186460 TTTAGGG
1 TTTATGG
*
18186467 TTTAGGG
1 TTTATGG
*
18186474 TTTTTAGG
1 TTTAT-GG
*
18186482 TTTAAGG
1 TTTATGG
*
18186489 TTTGTGG
1 TTTATGG
18186496 TTT
1 TTT
18186499 TTAAGTTTAG
Statistics
Matches: 78, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
6 2 0.03
7 56 0.72
8 20 0.26
ACGTcount: A:0.14, C:0.01, G:0.30, T:0.54
Consensus pattern (7 bp):
TTTATGG
Found at i:18186404 original size:29 final size:29
Alignment explanation
Indices: 18186362--18186476 Score: 93
Period size: 29 Copynumber: 4.2 Consensus size: 29
18186352 ATTTAACTTA
* *
18186362 AGGG-TTAGGGTTTTAAAGTTAAGGTTTT
1 AGGGTTTATGGTTTTAAAGTTAAGGGTTT
* *
18186390 AGGGTTTATGGTTTTTAAGTTTAGGGTTT
1 AGGGTTTATGGTTTTAAAGTTAAGGGTTT
*
18186419 ATGGTTTATGG-TTT----TT-A-GGTTT
1 AGGGTTTATGGTTTTAAAGTTAAGGGTTT
* * * *
18186441 AGGCTTTGTGGTTTTTAAGTTTAGGGTTT
1 AGGGTTTATGGTTTTAAAGTTAAGGGTTT
18186470 AGGGTTT
1 AGGGTTT
18186477 TTAGGTTTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
22 13 0.19
23 4 0.06
24 2 0.03
27 2 0.03
28 8 0.11
29 41 0.59
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.50
Consensus pattern (29 bp):
AGGGTTTATGGTTTTAAAGTTAAGGGTTT
Found at i:18186432 original size:44 final size:43
Alignment explanation
Indices: 18186415--18186611 Score: 270
Period size: 44 Copynumber: 4.5 Consensus size: 43
18186405 TAAGTTTAGG
* *
18186415 GTTTATGGTTTATGGTTTTTAGGTTTAGGCTTTGTGGTTTTTAA
1 GTTTAGGGTTTA-GGTTTTTAGGTTTAGGGTTTGTGGTTTTTAA
*
18186459 GTTTAGGGTTTAGGGTTTTTAGGTTTAAGGTTTGTGGTTTTTAA
1 GTTTAGGGTTTA-GGTTTTTAGGTTTAGGGTTTGTGGTTTTTAA
18186503 GTTTAGGGTTTAGTGTTTTTAGGTTTAGGGTTTGTGGTTTTTAA
1 GTTTAGGGTTTAG-GTTTTTAGGTTTAGGGTTTGTGGTTTTTAA
* * *
18186547 GTTAAGGG-TTAGAGTTTTTAAGTTTAGGGTTTGATGTTTTTTAA
1 GTTTAGGGTTTAG-GTTTTTAGGTTTAGGGTTTG-TGGTTTTTAA
*
18186591 GTTTAGAGTTTAGGGTTTTTA
1 GTTTAGGGTTTA-GGTTTTTA
18186612 AGTTAAGTGT
Statistics
Matches: 138, Mismatches: 11, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
43 24 0.17
44 103 0.75
45 10 0.07
46 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.29, T:0.53
Consensus pattern (43 bp):
GTTTAGGGTTTAGGTTTTTAGGTTTAGGGTTTGTGGTTTTTAA
Found at i:18186439 original size:22 final size:22
Alignment explanation
Indices: 18186415--18186615 Score: 228
Period size: 22 Copynumber: 9.1 Consensus size: 22
18186405 TAAGTTTAGG
* *
18186415 GTTTATGGTTTATGGTTTTTAG
1 GTTTAGGGTTTATGGTTTTTAA
* *
18186437 GTTTAGGCTTTGTGGTTTTTAA
1 GTTTAGGGTTTATGGTTTTTAA
* *
18186459 GTTTAGGGTTTAGGGTTTTTAG
1 GTTTAGGGTTTATGGTTTTTAA
* *
18186481 GTTTAAGGTTTGTGGTTTTTAA
1 GTTTAGGGTTTATGGTTTTTAA
*
18186503 GTTTAGGGTTTA-GTGTTTTTAG
1 GTTTAGGGTTTATG-GTTTTTAA
*
18186525 GTTTAGGGTTTGTGGTTTTTAA
1 GTTTAGGGTTTATGGTTTTTAA
*
18186547 GTTAAGGG-TTA-GAGTTTTTAA
1 GTTTAGGGTTTATG-GTTTTTAA
*
18186568 GTTTAGGGTTTGATGTTTTTTAA
1 GTTTAGGGTTT-ATGGTTTTTAA
* *
18186591 GTTTAGAGTTTAGGGTTTTTAA
1 GTTTAGGGTTTATGGTTTTTAA
18186613 GTT
1 GTT
18186616 AAGTGTTACC
Statistics
Matches: 149, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.01
21 18 0.12
22 110 0.74
23 19 0.13
24 1 0.01
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.53
Consensus pattern (22 bp):
GTTTAGGGTTTATGGTTTTTAA
Found at i:18186541 original size:29 final size:28
Alignment explanation
Indices: 18186392--18186542 Score: 101
Period size: 29 Copynumber: 5.2 Consensus size: 28
18186382 AAGGTTTTAG
* *
18186392 GGTTTATGGTTTTTAAGTTTAGGGTTTAT
1 GGTTTAT-GTTTTTAGGTTTAGGGTTTGT
*
18186421 GGTTTATGGTTTTTAGGTTTAGGCTTTGT
1 GGTTTAT-GTTTTTAGGTTTAGGGTTTGT
* *** *
18186450 GGTTTTTAAGTTTAGGGTTTAGGGTTTTT
1 GGTTTATGTTTTTA-GGTTTAGGGTTTGT
* * *
18186479 AGGTTTAAGGTTTGT-GGTTTTTA-AGTTTAG-
1 -GGTTT-ATGTTTTTAGG--TTTAGGGTTT-GT
18186509 GGTTTAGTGTTTTTAGGTTTAGGGTTTGT
1 GGTTTA-TGTTTTTAGGTTTAGGGTTTGT
18186538 GGTTT
1 GGTTT
18186543 TTAAGTTAAG
Statistics
Matches: 92, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
28 10 0.11
29 65 0.71
30 11 0.12
31 6 0.07
ACGTcount: A:0.14, C:0.01, G:0.31, T:0.54
Consensus pattern (28 bp):
GGTTTATGTTTTTAGGTTTAGGGTTTGT
Found at i:18186642 original size:66 final size:64
Alignment explanation
Indices: 18186429--18186656 Score: 223
Period size: 66 Copynumber: 3.5 Consensus size: 64
18186419 ATGGTTTATG
* * * *
18186429 GTTTTTAGGTTTAGGCTTT-GTGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAGGTTTAAGGTTTG
1 GTTTTTAAGTTTAGGGTTTAGT-GTTTTTAAGTTTAGGGTTTAGGGTTTTTAAG-TTAAGG-TTA
**
18186493 TG
63 CA
* *
18186495 GTTTTTAAGTTTAGGGTTTAGTGTTTTTAGGTTTAGGGTTT-GTGGTTTTTAAGTTAAGGGTTAG
1 GTTTTTAAGTTTAGGGTTTAGTGTTTTTAAGTTTAGGGTTTAG-GGTTTTTAAGTTAA-GGTTAC
18186559 A
64 A
*
18186560 GTTTTTAAGTTTAGGGTTT-GATGTTTTTTAAGTTTAGAGTTTAGGGTTTTTAAGTTAAGTGTTA
1 GTTTTTAAGTTTAGGGTTTAG-TG-TTTTTAAGTTTAGGGTTTAGGGTTTTTAAGTTAAG-GTTA
*
18186624 CC
63 CA
* * *
18186626 CTTTTTGA-TTTAAGGG-TTAGGGTTTTTAAGT
1 GTTTTTAAGTTT-AGGGTTTAGTGTTTTTAAGT
18186657 GAAGGGTTAG
Statistics
Matches: 139, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
64 10 0.07
65 35 0.25
66 91 0.65
67 3 0.02
ACGTcount: A:0.18, C:0.02, G:0.29, T:0.52
Consensus pattern (64 bp):
GTTTTTAAGTTTAGGGTTTAGTGTTTTTAAGTTTAGGGTTTAGGGTTTTTAAGTTAAGGTTACA
Found at i:18186922 original size:21 final size:22
Alignment explanation
Indices: 18186898--18186945 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
18186888 TCAGTGCCAG
*
18186898 CTTCCGA-CGGCGG-TTGTGGTT
1 CTTCCGAGCGG-GGATTCTGGTT
18186919 CTTCC-AGCGGGGATTCTGGTT
1 CTTCCGAGCGGGGATTCTGGTT
18186940 CTTCCG
1 CTTCCG
18186946 GTAGGGCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.06, C:0.27, G:0.33, T:0.33
Consensus pattern (22 bp):
CTTCCGAGCGGGGATTCTGGTT
Found at i:18189142 original size:51 final size:51
Alignment explanation
Indices: 18189087--18189186 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
18189077 AATTATTTAA
* *
18189087 AAATAGGGATTTAAGAGAAATTTAAAAGGAAATTGAGAGCTAATTGAGATT
1 AAATAGGAATTTAAGAGAAATTTAAAAGGAAATTGAGAGCAAATTGAGATT
* * ** * *
18189138 AAATATGAATTTGAGAGAAATTTGGAAGGAAATTTAGAGGAAATTGAGA
1 AAATAGGAATTTAAGAGAAATTTAAAAGGAAATTGAGAGCAAATTGAGA
18189187 GGAAATTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.47, C:0.01, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAGGAATTTAAGAGAAATTTAAAAGGAAATTGAGAGCAAATTGAGATT
Found at i:18189198 original size:12 final size:12
Alignment explanation
Indices: 18189145--18189199 Score: 73
Period size: 11 Copynumber: 4.8 Consensus size: 12
18189135 ATTAAATATG
18189145 AATTTGAGA-GA
1 AATTTGAGAGGA
18189156 AATTTG-GAAGGA
1 AATTTGAG-AGGA
18189168 AATTT-AGAGGA
1 AATTTGAGAGGA
18189179 AA-TTGAGAGGA
1 AATTTGAGAGGA
18189190 AATTTGAGAG
1 AATTTGAGAG
18189200 AGGATTTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.08
11 21 0.54
12 15 0.38
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:18195026 original size:105 final size:105
Alignment explanation
Indices: 18194844--18195059 Score: 387
Period size: 105 Copynumber: 2.1 Consensus size: 105
18194834 GTAATGAGAA
* *
18194844 AACGAATAAATGCATACATTGGTGCCAGTAGAGTTTGATGTGCAGATAAAAAATGCAATGGGGGC
1 AACGAATAAAAGCATACATTGGTGCCAGTAGAGTTTGATGTGCAGATAAAAAATGCAATGGGAGC
*
18194909 TAGGATTTAGGGAGTTAACCAAATTCAATGTGGCTTTTTT
66 TAGGATTTAGGGAGTTAACCAAATTCAATGTGGCCTTTTT
* *
18194949 AACGAATAAAAGCATACATTGGTGCTAGTGGAGTTTGATGTGCAGATAAAAAATGCAATGGGAGC
1 AACGAATAAAAGCATACATTGGTGCCAGTAGAGTTTGATGTGCAGATAAAAAATGCAATGGGAGC
18195014 TAGGATTTAGGGAGTTAACCAAATTCAATGTGGCCTTTTT
66 TAGGATTTAGGGAGTTAACCAAATTCAATGTGGCCTTTTT
18195054 AACGAA
1 AACGAA
18195060 ACAAGGTTAG
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (105 bp):
AACGAATAAAAGCATACATTGGTGCCAGTAGAGTTTGATGTGCAGATAAAAAATGCAATGGGAGC
TAGGATTTAGGGAGTTAACCAAATTCAATGTGGCCTTTTT
Found at i:18197724 original size:25 final size:25
Alignment explanation
Indices: 18197680--18197755 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
18197670 ATGAGTGATA
18197680 AACGGTAAGCTTC-T-CTGAGCTGAAT
1 AACGGTAAGC-TCATAC-GAGCTGAAT
*
18197705 AACGGTAAGCTCATACGAGCTGAGT
1 AACGGTAAGCTCATACGAGCTGAAT
* * *
18197730 ATCAGTAAGCTCATAAGAGCTAGAAT
1 AACGGTAAGCTCATACGAGCT-GAAT
18197756 CAGTAACCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 37 0.86
26 4 0.09
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:18200444 original size:46 final size:46
Alignment explanation
Indices: 18200249--18200433 Score: 264
Period size: 46 Copynumber: 4.0 Consensus size: 46
18200239 ACAATGCTAT
* * * *
18200249 AACTCAGTATGGTTTTCTTCACTGAAATACTATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
*
18200295 AACTCAGTATGGTTTT-TGTGACTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCT-TTACTGAAATACCATACCTACGTTCCAC
* * *
18200341 AACTCAGTATGATTTTCTTTATTGAATTACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
* *
18200387 AACTCAGTATGGTTTTATTTACTGAATTACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
18200433 A
1 A
18200434 CTTTGCTATG
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 124 0.98
47 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
Found at i:18213253 original size:84 final size:84
Alignment explanation
Indices: 18213159--18213341 Score: 366
Period size: 84 Copynumber: 2.2 Consensus size: 84
18213149 TATATAAAAC
18213159 AATTATTTTATAATAAAATTTGAAACAAATATTAATTTTGTTATTAATTAAATTATAAAACTATT
1 AATTATTTTATAATAAAATTTGAAACAAATATTAATTTTGTTATTAATTAAATTATAAAACTATT
18213224 TAAATTTAATACAAAAGAT
66 TAAATTTAATACAAAAGAT
18213243 AATTATTTTATAATAAAATTTGAAACAAATATTAATTTTGTTATTAATTAAATTATAAAACTATT
1 AATTATTTTATAATAAAATTTGAAACAAATATTAATTTTGTTATTAATTAAATTATAAAACTATT
18213308 TAAATTTAATACAAAAGAT
66 TAAATTTAATACAAAAGAT
18213327 AATTATTTTATAATA
1 AATTATTTTATAATA
18213342 CTTAAAATAA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 99 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (84 bp):
AATTATTTTATAATAAAATTTGAAACAAATATTAATTTTGTTATTAATTAAATTATAAAACTATT
TAAATTTAATACAAAAGAT
Found at i:18213338 original size:39 final size:39
Alignment explanation
Indices: 18213211--18213339 Score: 100
Period size: 39 Copynumber: 3.2 Consensus size: 39
18213201 ATTAATTAAA
18213211 TTATAAAACTATTTAAATTTAATACAAAAGATAATTATT
1 TTATAAAACTATTTAAATTTAATACAAAAGATAATTATT
* ** * ** **
18213250 TTATAATAA-AATTTGAAA-CAAATATTAATTTTGTTATTAATTAAA
1 TTATAA-AACTATTT-AAATTTAATA-CAA--AAG--A-TAATTATT
18213295 TTATAAAACTATTTAAATTTAATACAAAAGATAATTATT
1 TTATAAAACTATTTAAATTTAATACAAAAGATAATTATT
18213334 TTATAA
1 TTATAA
18213340 TACTTAAAAT
Statistics
Matches: 64, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
39 26 0.41
40 8 0.12
42 2 0.03
44 8 0.12
45 20 0.31
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (39 bp):
TTATAAAACTATTTAAATTTAATACAAAAGATAATTATT
Found at i:18215647 original size:24 final size:24
Alignment explanation
Indices: 18215632--18215683 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
18215622 AATCAAAGTC
18215632 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
* *
18215656 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATGCT
18215680 AAAT
1 AAAT
18215684 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:18219963 original size:24 final size:24
Alignment explanation
Indices: 18219921--18219972 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18219911 AATCAAATTC
* *
18219921 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
18219945 AAATATATTATATTCATAAATACT
1 AAATATATTATACTAATAAATACT
18219969 AAAT
1 AAAT
18219973 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:18220714 original size:31 final size:30
Alignment explanation
Indices: 18220679--18220756 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
18220669 TAATTCAAGC
*
18220679 TTTTAAAAACTTTTAGAGGCTTGATA-ATAAT
1 TTTTAAAAA-TTTTAGAGGCTTAATATA-AAT
* *
18220710 TTTTAAAAATTATGAGAGGCTTAATTTAAAT
1 TTTTAAAAATT-TTAGAGGCTTAATATAAAT
*
18220741 TTTCAAAAATTTTAGA
1 TTTTAAAAATTTTAGA
18220757 ACCATAATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 6 0.15
31 33 0.82
32 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (30 bp):
TTTTAAAAATTTTAGAGGCTTAATATAAAT
Found at i:18220717 original size:62 final size:61
Alignment explanation
Indices: 18220640--18220756 Score: 139
Period size: 62 Copynumber: 1.9 Consensus size: 61
18220630 GGGGGAGGTA
* *
18220640 ATAAGAATTTCTAAAATTTAGGA-AGGGCTTAATTCAAGCTTTT-AAAAACTTTTAGAGGCTTG
1 ATAAGAATTTCTAAAAATTAGGAGA-GGCTTAATTCAA-ATTTTCAAAAA-TTTTAGAGGCTTG
* * * *
18220702 ATAATAATTTTTAAAAATTATGAGAGGCTTAATTTAAATTTTCAAAAATTTTAGA
1 ATAAGAATTTCTAAAAATTAGGAGAGGCTTAATTCAAATTTTCAAAAATTTTAGA
18220757 ACCATAATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
61 11 0.23
62 35 0.74
63 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (61 bp):
ATAAGAATTTCTAAAAATTAGGAGAGGCTTAATTCAAATTTTCAAAAATTTTAGAGGCTTG
Found at i:18232328 original size:87 final size:87
Alignment explanation
Indices: 18232182--18232352 Score: 315
Period size: 87 Copynumber: 2.0 Consensus size: 87
18232172 TTTCATGGCA
18232182 TTTTTGCATTTTATTCAATTTGGTCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
1 TTTTTGCATTTTATTCAATTTGGTCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
*
18232247 CCTTTCTTAAACTAAGCTTTTT
66 CCTTTCTTAAAATAAGCTTTTT
* *
18232269 TTTTTTCATTTTATTCAATTTGGTTCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
1 TTTTTGCATTTTATTCAATTTGGTCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
18232334 CCTTTCTTAAAATAAGCTT
66 CCTTTCTTAAAATAAGCTT
18232353 AATTTTTATC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (87 bp):
TTTTTGCATTTTATTCAATTTGGTCCTTAATGTATGAAATTAATAATTAAGCTTTACAGTTTACC
CCTTTCTTAAAATAAGCTTTTT
Found at i:18235348 original size:10 final size:10
Alignment explanation
Indices: 18235329--18235371 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
18235319 AACAAATTTT
*
18235329 TTTAAATATA
1 TTTAATTATA
*
18235339 TATAATTATA
1 TTTAATTATA
18235349 TTTAATT-TAA
1 TTTAATTAT-A
18235359 TTTAATTATA
1 TTTAATTATA
18235369 TTT
1 TTT
18235372 TGTTTTGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 1 0.04
10 26 0.93
11 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAATTATA
Found at i:18237320 original size:3 final size:3
Alignment explanation
Indices: 18237312--18237368 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
18237302 ATTTGACATT
* ** *
18237312 TTA TTA TTA TTA TTA TTA CTA CCA TTA TTAA TCA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
18237357 TTA CTTA TTA TT
1 TTA -TTA TTA TT
18237369 CTTGTTATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:18237527 original size:27 final size:26
Alignment explanation
Indices: 18237490--18237562 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 26
18237480 TTAATTCATT
*
18237490 TTTATAGTTTATATATATG-TATATAC
1 TTTATATTTTATATATATGTTATAT-C
18237516 ATTTATATTTTATAGTAT-TGTTATATC
1 -TTTATATTTTATA-TATATGTTATATC
*
18237543 TTCCATATTTTATAATATAT
1 TT-TATATTTTAT-ATATAT
18237563 ATACGTATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 2 0.05
27 27 0.69
28 10 0.26
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTATATTTTATATATATGTTATATC
Found at i:18247296 original size:10 final size:10
Alignment explanation
Indices: 18247273--18247305 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18247263 CAATTATTTA
18247273 AAAAAATTAT
1 AAAAAATTAT
18247283 -AAAAATTAT
1 AAAAAATTAT
*
18247292 AAAAAAATAT
1 AAAAAATTAT
18247302 AAAA
1 AAAA
18247306 TTTTTCAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:18253656 original size:20 final size:20
Alignment explanation
Indices: 18253631--18253678 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
18253621 GGAACTTAGG
18253631 AAATTTTTAGCAAAATTTCA
1 AAATTTTTAGCAAAATTTCA
18253651 AAATTTTTAGCAAAATTTCA
1 AAATTTTTAGCAAAATTTCA
18253671 AAATTTTT
1 AAATTTTT
18253679 CCAAGGTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (20 bp):
AAATTTTTAGCAAAATTTCA
Found at i:18254957 original size:32 final size:32
Alignment explanation
Indices: 18254911--18254972 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
18254901 ATTTTACACC
18254911 TTTCATTTACAAAAGTTGTTTATCTATCAAAA
1 TTTCATTTACAAAAGTTGTTTATCTATCAAAA
*
18254943 TTTCCTTTACAAAAGTTGTTTATCTATCAA
1 TTTCATTTACAAAAGTTGTTTATCTATCAA
18254973 CAACCTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (32 bp):
TTTCATTTACAAAAGTTGTTTATCTATCAAAA
Found at i:18255770 original size:25 final size:25
Alignment explanation
Indices: 18255734--18255787 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
18255724 GACATTACGT
* * *
18255734 CACATAGCCTTTATAGGTAACTTGC
1 CACATAGACTTTACAGATAACTTGC
18255759 CACATAGACTTTACAGATAACTTGC
1 CACATAGACTTTACAGATAACTTGC
18255784 CACA
1 CACA
18255788 AAGGCTTCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (25 bp):
CACATAGACTTTACAGATAACTTGC
Found at i:18255803 original size:25 final size:25
Alignment explanation
Indices: 18255775--18255850 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
18255765 GACTTTACAG
*
18255775 ATAACTTGCCACAAAGGCTTCCCAA
1 ATAAATTGCCACAAAGGCTTCCCAA
* *
18255800 ATAAATAGCCACAAAGGCTTCCAAAA
1 ATAAATTGCCACAAAGGCTTCC-CAA
* * *
18255826 ATAAATCGCCATAAAGGCTTTCCAA
1 ATAAATTGCCACAAAGGCTTCCCAA
18255851 CCAATTCGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 22 0.51
26 21 0.49
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (25 bp):
ATAAATTGCCACAAAGGCTTCCCAA
Found at i:18255836 original size:26 final size:26
Alignment explanation
Indices: 18255782--18255850 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
18255772 CAGATAACTT
*
18255782 GCCACAAAGGCTTCC-CAAATAAATA
1 GCCACAAAGGCTTCCAAAAATAAATA
*
18255807 GCCACAAAGGCTTCCAAAAATAAATC
1 GCCACAAAGGCTTCCAAAAATAAATA
*
18255833 GCCATAAAGGCTTTCCAA
1 GCCACAAAGGC-TTCCAA
18255851 CCAATTCGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
25 15 0.38
26 18 0.46
27 6 0.15
ACGTcount: A:0.42, C:0.28, G:0.13, T:0.17
Consensus pattern (26 bp):
GCCACAAAGGCTTCCAAAAATAAATA
Found at i:18257909 original size:26 final size:26
Alignment explanation
Indices: 18257874--18257936 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
18257864 GTAGCTCTTA
* *
18257874 TGAGCGTCCC-ATTATATGGCTCTTCG
1 TGAGCTTCCCGATTA-AAGGCTCTTCG
*
18257900 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTCTTCG
*
18257926 TAAGCTTCCCG
1 TGAGCTTCCCG
18257937 TTAGTGCTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.33
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTCTTCG
Found at i:18258008 original size:24 final size:24
Alignment explanation
Indices: 18257981--18258040 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
18257971 TCTGGTGCTT
18257981 CCGTTAATTGCTCTTCGGAGCTAC
1 CCGTTAATTGCTCTTCGGAGCTAC
* *
18258005 CCGTTAATTACTCTTTGGAGCTAC
1 CCGTTAATTGCTCTTCGGAGCTAC
18258029 CCGTTATATTGC
1 CCGTTA-ATTGC
18258041 CCGGATAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 28 0.88
25 4 0.12
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (24 bp):
CCGTTAATTGCTCTTCGGAGCTAC
Found at i:18259189 original size:40 final size:40
Alignment explanation
Indices: 18259145--18259224 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
18259135 CCTTACTTCA
*
18259145 AATACCACGCGACCTAAGTTATGGGTGTGTCACTTGGCCG
1 AATACAACGCGACCTAAGTTATGGGTGTGTCACTTGGCCG
*
18259185 AATACAATGCGACCTAAGTTATGGGTGTGTCACTTGGCCG
1 AATACAACGCGACCTAAGTTATGGGTGTGTCACTTGGCCG
18259225 TGTGAGCCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
AATACAACGCGACCTAAGTTATGGGTGTGTCACTTGGCCG
Found at i:18265104 original size:20 final size:21
Alignment explanation
Indices: 18265059--18265104 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
18265049 ATAATGTTGC
18265059 ATAGAGGAACTGAAGTGCAAA
1 ATAGAGGAACTGAAGTGCAAA
* *
18265080 A-AGAGGCACTGAAG-GGAAA
1 ATAGAGGAACTGAAGTGCAAA
18265099 ATAGAG
1 ATAGAG
18265105 AGCAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 16 0.73
21 1 0.05
ACGTcount: A:0.48, C:0.09, G:0.33, T:0.11
Consensus pattern (21 bp):
ATAGAGGAACTGAAGTGCAAA
Found at i:18267330 original size:17 final size:17
Alignment explanation
Indices: 18267280--18267330 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
18267270 AAATAATTGA
*
18267280 GATAAAAATAAATAAAT
1 GATAAAAATAAATAAAC
* * *
18267297 AAGAAAAATAAACAAAC
1 GATAAAAATAAATAAAC
*
18267314 GATAAAAATCAATAAAC
1 GATAAAAATAAATAAAC
18267331 CAATCAGGAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.71, C:0.08, G:0.06, T:0.16
Consensus pattern (17 bp):
GATAAAAATAAATAAAC
Found at i:18272512 original size:8 final size:8
Alignment explanation
Indices: 18272495--18272538 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
18272485 AAAAAAAAAG
*
18272495 CAAACGTA
1 CAAACATA
18272503 CAAACATA
1 CAAACATA
*
18272511 CAAACAAA
1 CAAACATA
*
18272519 CAAACAAA
1 CAAACATA
18272527 CAAACCATA
1 CAAA-CATA
18272536 CAA
1 CAA
18272539 TTTGTTCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
8 26 0.81
9 6 0.19
ACGTcount: A:0.64, C:0.27, G:0.02, T:0.07
Consensus pattern (8 bp):
CAAACATA
Found at i:18272519 original size:4 final size:4
Alignment explanation
Indices: 18272481--18272531 Score: 52
Period size: 4 Copynumber: 13.0 Consensus size: 4
18272471 TCTTATTGAT
** *
18272481 AAAC AAA- AAA- AAAGC AAAC GTAC AAAC ATAC AAAC AAAC AAAC AAAC
1 AAAC AAAC AAAC AAA-C AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC
18272528 AAAC
1 AAAC
18272532 CATACAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 6 0.15
4 30 0.77
5 3 0.08
ACGTcount: A:0.71, C:0.22, G:0.04, T:0.04
Consensus pattern (4 bp):
AAAC
Found at i:18272519 original size:12 final size:12
Alignment explanation
Indices: 18272502--18272538 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
18272492 AAGCAAACGT
18272502 ACAAACATACAA
1 ACAAACATACAA
*
18272514 ACAAACAAACAA
1 ACAAACATACAA
18272526 ACAAACCATACAA
1 ACAAA-CATACAA
18272539 TTTGTTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (12 bp):
ACAAACATACAA
Found at i:18282213 original size:20 final size:18
Alignment explanation
Indices: 18282165--18282219 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
18282155 GCAATAAAAT
18282165 AAAATAAAAA-AAGATTTA
1 AAAATAAAAATAA-ATTTA
18282183 AAAATGCAAAAATAAATTTA
1 AAAAT--AAAAATAAATTTA
18282203 AGAAA-ATAAAATAAATT
1 A-AAATA-AAAATAAATT
18282220 GTTAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 6 0.19
19 10 0.31
20 11 0.34
21 5 0.16
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATAAATTTA
Found at i:18283087 original size:13 final size:13
Alignment explanation
Indices: 18283069--18283147 Score: 107
Period size: 13 Copynumber: 6.5 Consensus size: 13
18283059 TAGATTTTTT
18283069 CTAAATATTATCA
1 CTAAATATTATCA
18283082 CTAAATA--ATC-
1 CTAAATATTATCA
18283092 CTAAATATTATCA
1 CTAAATATTATCA
*
18283105 CTAAATA--AT-T
1 CTAAATATTATCA
18283115 CTAAATATTATCA
1 CTAAATATTATCA
18283128 CTAAATATTATCA
1 CTAAATATTATCA
18283141 CTAAATA
1 CTAAATA
18283148 ATTCAAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
10 14 0.24
11 5 0.09
12 5 0.09
13 34 0.59
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:18283099 original size:23 final size:23
Alignment explanation
Indices: 18283069--18283134 Score: 123
Period size: 23 Copynumber: 2.9 Consensus size: 23
18283059 TAGATTTTTT
18283069 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATC
*
18283092 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATC
18283115 CTAAATATTATCACTAAATA
1 CTAAATATTATCACTAAATA
18283135 TTATCACTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATC
Found at i:18301375 original size:21 final size:21
Alignment explanation
Indices: 18301333--18301374 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
18301323 TTTAAAATAA
*
18301333 AAAAATAAAAACAAGTATTTT
1 AAAAATAAAAACAAATATTTT
*
18301354 AAAAATAAAAAATAAATATTT
1 AAAAAT-AAAAACAAATATTT
18301375 ATTATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATAAAAACAAATATTTT
Found at i:18306878 original size:8 final size:8
Alignment explanation
Indices: 18306830--18306887 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 8
18306820 AAAAATTATA
18306830 AATTTAAT
1 AATTTAAT
*
18306838 AATGTTAAC
1 AAT-TTAAT
*
18306847 AATATAAT
1 AATTTAAT
18306855 AA-TTAACT
1 AATTTAA-T
18306863 AA-TT-AT
1 AATTTAAT
18306869 AATTTAAT
1 AATTTAAT
18306877 AATTTAAT
1 AATTTAAT
18306885 AAT
1 AAT
18306888 ATTTTCTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 3 0.07
7 6 0.14
8 26 0.62
9 7 0.17
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (8 bp):
AATTTAAT
Found at i:18307421 original size:21 final size:20
Alignment explanation
Indices: 18307395--18307444 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
18307385 GCGGTGGAAA
* *
18307395 TGAGATTAATTACTGTAGCGG
1 TGAGATTAA-TACTGTAACAG
*
18307416 TGAGATTGGATACTGTAACAG
1 TGAGATT-AATACTGTAACAG
18307437 TGAGATTA
1 TGAGATTA
18307445 GAAACAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (20 bp):
TGAGATTAATACTGTAACAG
Found at i:18308122 original size:24 final size:24
Alignment explanation
Indices: 18308094--18308141 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18308084 TGCAATTCCA
18308094 TGTCTTTTGTTCCTTGAATTCACC
1 TGTCTTTTGTTCCTTGAATTCACC
18308118 TGTCTTTTGTTCCTTGAATTCACC
1 TGTCTTTTGTTCCTTGAATTCACC
18308142 AACTTCTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.50
Consensus pattern (24 bp):
TGTCTTTTGTTCCTTGAATTCACC
Found at i:18308543 original size:21 final size:21
Alignment explanation
Indices: 18308515--18308570 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
18308505 AATAGCGGTG
*
18308515 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
18308536 GTGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
18308557 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
18308571 AACAATGGCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:18309481 original size:19 final size:21
Alignment explanation
Indices: 18309453--18309501 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18309443 GGTTTTTTAC
*
18309453 TAAAATAATA-CAAAAGAA-A
1 TAAAAAAATACCAAAAGAATA
*
18309472 TAAAAAAATACCAAAATAATA
1 TAAAAAAATACCAAAAGAATA
18309493 TAAAAAAAT
1 TAAAAAAAT
18309502 TATTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 7 0.27
21 10 0.38
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (21 bp):
TAAAAAAATACCAAAAGAATA
Found at i:18309579 original size:27 final size:27
Alignment explanation
Indices: 18309549--18309608 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
18309539 GGTAATGGAA
*
18309549 TGGCGGCA-CTGGTGGTGCCATTCTCAT
1 TGGCGGCATC-GGTGGTGCCATTCCCAT
18309576 TGGCGGCATCGGTGGTGCCATTCCCAT
1 TGGCGGCATCGGTGGTGCCATTCCCAT
18309603 TGGCGG
1 TGGCGG
18309609 TACAGGACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.10, C:0.27, G:0.37, T:0.27
Consensus pattern (27 bp):
TGGCGGCATCGGTGGTGCCATTCCCAT
Found at i:18311397 original size:39 final size:39
Alignment explanation
Indices: 18311343--18311421 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
18311333 TAGTCCTTTG
18311343 ACTCAATTACTTATTTTGTAGTCCTATATGATAAAAACT
1 ACTCAATTACTTATTTTGTAGTCCTATATGATAAAAACT
18311382 ACTCAATTACTTATTTTGTAGTCCTATATGATAAAAACT
1 ACTCAATTACTTATTTTGTAGTCCTATATGATAAAAACT
18311421 A
1 A
18311422 GGCCGCATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.41
Consensus pattern (39 bp):
ACTCAATTACTTATTTTGTAGTCCTATATGATAAAAACT
Found at i:18311753 original size:103 final size:105
Alignment explanation
Indices: 18311566--18311784 Score: 234
Period size: 103 Copynumber: 2.1 Consensus size: 105
18311556 TGATTATTAC
* * *
18311566 ACCTGTTTTATGCACTTAAGTTGGCATAGGTTAGGCGTTGTTGTTGATGGTATAGAATATAAGGA
1 ACCTGTTTTATGCACTTAAGTTGGCATAGGTTA-GAGTTGTTGTTGATGATATAGAATATAAAGA
* * *
18311631 TCTAAACTTTCATAGGTTTATGTGTCCAG-TT-AT-AATCT
65 TCCAAACTTTCATAGGTTTATATCTCCAGCTTAATGAATCT
* *
18311669 ACCTGTTTTATGTACTTGAGTTGGCAT-GGTTTA-AG-TGTTGTTGATGATATAGAATATAAAGA
1 ACCTGTTTTATGCACTTAAGTTGGCATAGG-TTAGAGTTGTTGTTGATGATATAGAATATAAAGA
** **
18311731 TCCAATTTTTTTTTATGTGTTTATATCTCCAGTCTTAATGAATCT
65 TCCAA-ACTTTCATA-G-GTTTATATCTCCAG-CTTAATGAATCT
18311776 ACCTGTTTT
1 ACCTGTTTT
18311785 TGTGCACTAG
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
100 29 0.30
101 6 0.06
102 3 0.03
103 40 0.42
105 2 0.02
106 2 0.02
107 14 0.15
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (105 bp):
ACCTGTTTTATGCACTTAAGTTGGCATAGGTTAGAGTTGTTGTTGATGATATAGAATATAAAGAT
CCAAACTTTCATAGGTTTATATCTCCAGCTTAATGAATCT
Found at i:18317481 original size:16 final size:16
Alignment explanation
Indices: 18317445--18317496 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
18317435 AAAAATTATG
* *
18317445 TTTTCCAT-CTTCTAG
1 TTTTCCATCCTTCCAA
18317460 TTTTCCATCCCTT-CAA
1 TTTTCCAT-CCTTCCAA
18317476 TTTTCCATCCTTCCAA
1 TTTTCCATCCTTCCAA
18317492 TTTTC
1 TTTTC
18317497 TTTTCACTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 12 0.38
16 17 0.53
17 3 0.09
ACGTcount: A:0.15, C:0.33, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTTCCATCCTTCCAA
Found at i:18319407 original size:22 final size:19
Alignment explanation
Indices: 18319358--18319398 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
18319348 ATAAAAGATA
*
18319358 TAAAATGATAAATTTATTT
1 TAAAATAATAAATTTATTT
*
18319377 TTAAATAATATAATTTATTT
1 TAAAATAATA-AATTTATTT
18319397 TA
1 TA
18319399 CAAAATAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAAAATAATAAATTTATTT
Found at i:18320268 original size:22 final size:23
Alignment explanation
Indices: 18320241--18320285 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
18320231 TTAAGTGTTT
18320241 AATTAGGATTTAAGG-TTTATTA
1 AATTAGGATTTAAGGTTTTATTA
* *
18320263 AATTAGGGTTTTAGGTTTTATTA
1 AATTAGGATTTAAGGTTTTATTA
18320286 TTTTCAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (23 bp):
AATTAGGATTTAAGGTTTTATTA
Found at i:18329837 original size:18 final size:19
Alignment explanation
Indices: 18329804--18329840 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18329794 ATGTTTTAGT
18329804 TATTTATTTAAGTAAAATA
1 TATTTATTTAAGTAAAATA
*
18329823 TATTTA-TTAATTAAAATA
1 TATTTATTTAAGTAAAATA
18329841 AAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTATTTAAGTAAAATA
Found at i:18332868 original size:47 final size:47
Alignment explanation
Indices: 18332762--18332872 Score: 152
Period size: 47 Copynumber: 2.4 Consensus size: 47
18332752 AAAGTGGATG
* * *
18332762 TTATTGGTAGTTTATCTATAATTTTGATGGCTTGTCCACGATTTTGA
1 TTATTGATAGTTTATCTACAATTTTGATGGCTTGTCCACAATTTTGA
* * *
18332809 TTATT-AGCAGTTTATCTACGATTTTGGTGGCTTGTCCACAATTTTGA
1 TTATTGA-TAGTTTATCTACAATTTTGATGGCTTGTCCACAATTTTGA
18332856 TTATTGATAGTTTATCT
1 TTATTGATAGTTTATCT
18332873 GCATTATTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 54 0.98
48 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.49
Consensus pattern (47 bp):
TTATTGATAGTTTATCTACAATTTTGATGGCTTGTCCACAATTTTGA
Found at i:18333256 original size:8 final size:8
Alignment explanation
Indices: 18333243--18333273 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
18333233 AATTAAATTT
18333243 TATTTTGA
1 TATTTTGA
18333251 TATTTTGA
1 TATTTTGA
18333259 TATTTTGA
1 TATTTTGA
18333267 TATTTTG
1 TATTTTG
18333274 GGTTTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (8 bp):
TATTTTGA
Found at i:18335909 original size:124 final size:126
Alignment explanation
Indices: 18335748--18335982 Score: 429
Period size: 124 Copynumber: 1.9 Consensus size: 126
18335738 TGAAAAATGG
18335748 TTGAATCTTCAGTGGTTAAACAATGGAAGAATTACATTTCTACTAGGATTCTACCAGAGAATTTG
1 TTGAATCTTCA-TGGTTAAACAATGGAAGAATTACATTTCTACTAGGATTCTACCAGAGAATTTG
* *
18335813 ATTTCAGAGTAACTTTTCCAAAAATAATATTATTTTAATA-TTTAATATTAAATAAAATTTA
65 ATTTCAGAGTAACTTTTCCAAAAATAAAATAATTTTAATAGTTTAATATTAAATAAAATTTA
18335874 TTGAATCTTC-TGGTTAAACAATGGAAGAATTACATTTCTACTAGGATTCTACCAGAGAATTTGA
1 TTGAATCTTCATGGTTAAACAATGGAAGAATTACATTTCTACTAGGATTCTACCAGAGAATTTGA
18335938 TTTCAGAGTAACTTTTCCAAAAATAAAATAATTTTAATAGTTTAA
66 TTTCAGAGTAACTTTTCCAAAAATAAAATAATTTTAATAGTTTAA
18335983 AATTTAATTT
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
124 91 0.86
125 5 0.05
126 10 0.09
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (126 bp):
TTGAATCTTCATGGTTAAACAATGGAAGAATTACATTTCTACTAGGATTCTACCAGAGAATTTGA
TTTCAGAGTAACTTTTCCAAAAATAAAATAATTTTAATAGTTTAATATTAAATAAAATTTA
Found at i:18341420 original size:169 final size:170
Alignment explanation
Indices: 18341131--18341471 Score: 675
Period size: 169 Copynumber: 2.0 Consensus size: 170
18341121 TTAAATATAC
18341131 ATATTCCAATTTAGCTTTTGAATAATTATCACACATATACTAGTCATCATTAAAACATGCTCAAC
1 ATATTCCAATTTAGCTTTTGAATAATTATCACACATATACTAGTCATCATTAAAACATGCTCAAC
18341196 ATTCATCAAACAAACTTAAAACGAGAATTAAACATGCTTTTAGACCACCAAACAAAAATTCAGAA
66 ATTCATCAAACAAACTTAAAACGAGAATTAAACATGCTTTTAGACCACCAAACAAAAATTCAGAA
18341261 TTATTTATGTAGGTATCGATACTGAATCAAAGGTATCGAT
131 TTATTTATGTAGGTATCGATACTGAATCAAAGGTATCGAT
18341301 ATATTCCAA-TTAGCTTTTGAATAATTATCACACATATACTAGTCATCATTAAAACATGCTCAAC
1 ATATTCCAATTTAGCTTTTGAATAATTATCACACATATACTAGTCATCATTAAAACATGCTCAAC
18341365 ATTCATCAAACAAACTTAAAACGAGAATTAAACATGCTTTTAGACCACCAAACAAAAATTCAGAA
66 ATTCATCAAACAAACTTAAAACGAGAATTAAACATGCTTTTAGACCACCAAACAAAAATTCAGAA
18341430 TTATTTATGTAGGTATCGATACTGAATCAAAGGTATCGAT
131 TTATTTATGTAGGTATCGATACTGAATCAAAGGTATCGAT
18341470 AT
1 AT
18341472 TTCTTTCAAA
Statistics
Matches: 171, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
169 162 0.95
170 9 0.05
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (170 bp):
ATATTCCAATTTAGCTTTTGAATAATTATCACACATATACTAGTCATCATTAAAACATGCTCAAC
ATTCATCAAACAAACTTAAAACGAGAATTAAACATGCTTTTAGACCACCAAACAAAAATTCAGAA
TTATTTATGTAGGTATCGATACTGAATCAAAGGTATCGAT
Found at i:18366428 original size:12 final size:11
Alignment explanation
Indices: 18366405--18366482 Score: 77
Period size: 12 Copynumber: 6.7 Consensus size: 11
18366395 AAACAATATT
18366405 ATAAAATAATAC
1 ATAAAAT-ATAC
18366417 ATAAGAATATAC
1 ATAA-AATATAC
* *
18366429 ATAGAATTATGC
1 ATA-AAATATAC
18366441 ATAAATATATAC
1 ATAAA-ATATAC
*
18366453 A-AAAAAATAC
1 ATAAAATATAC
18366463 ATAAAGATATAC
1 ATAAA-ATATAC
18366475 ATAAAATA
1 ATAAAATA
18366483 ATATTAACCC
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
10 6 0.11
11 11 0.20
12 34 0.62
13 4 0.07
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (11 bp):
ATAAAATATAC
Found at i:18366480 original size:24 final size:24
Alignment explanation
Indices: 18366405--18366485 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
18366395 AAACAATATT
18366405 ATAAAATAATACAT-AAGAATATAC
1 ATAAAATAATACATAAAG-ATATAC
* * * *
18366429 ATAGAATTATGCATAAATATATAC
1 ATAAAATAATACATAAAGATATAC
18366453 A-AAAA-AATACATAAAGATATAC
1 ATAAAATAATACATAAAGATATAC
18366475 ATAAAATAATA
1 ATAAAATAATA
18366486 TTAACCCCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
22 15 0.33
23 7 0.15
24 22 0.48
25 2 0.04
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (24 bp):
ATAAAATAATACATAAAGATATAC
Found at i:18368959 original size:27 final size:27
Alignment explanation
Indices: 18368929--18369006 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
18368919 AACACGTCAG
*
18368929 GAAAGAAATGCCTTTGTGGCGAAATAT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
18368956 GAAAGAAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
* *
18368983 AAAAGAAAAGCCCTTGTGGC-AAAT
1 GAAAGAAAAGCCTTTGTGGCGAAAT
18369007 TTCGTATGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 4 0.08
27 44 0.92
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGAAATAT
Found at i:18370521 original size:104 final size:105
Alignment explanation
Indices: 18370308--18370527 Score: 379
Period size: 108 Copynumber: 2.1 Consensus size: 105
18370298 AGGAGAAGAT
* *
18370308 TGTGAGATGGTCAATTGGGTTAGTGAAAATCGTGTTAATTAATTTGTGTGAGTTGTCGATTTAGG
1 TGTGTGATGGTCAATCGGGTTAGTGAAAATCGTGTTAATTAATTTGTGTGAGTTGTCG---TAGG
18370373 TACTGAACTACTTATTCGTGAAGTTACATCAATAATATTAAGG
63 TACTGAACTACTTATTCGTGAAGTTACATCAATAATATTAAGG
18370416 TGTGTGATGGTCAATCGGGTTAGTGAAAATCGTGTTAATTAATTTGTGTGAGTTGTCG-AGGTAC
1 TGTGTGATGGTCAATCGGGTTAGTGAAAATCGTGTTAATTAATTTGTGTGAGTTGTCGTAGGTAC
*
18370480 TGAACTACTTATTTGTGAAGTTACATCAATAATATTAAGG
66 TGAACTACTTATTCGTGAAGTTACATCAATAATATTAAGG
18370520 TGTGTGAT
1 TGTGTGAT
18370528 TCTAACACGA
Statistics
Matches: 109, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
104 53 0.49
108 56 0.51
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (105 bp):
TGTGTGATGGTCAATCGGGTTAGTGAAAATCGTGTTAATTAATTTGTGTGAGTTGTCGTAGGTAC
TGAACTACTTATTCGTGAAGTTACATCAATAATATTAAGG
Found at i:18372961 original size:3 final size:3
Alignment explanation
Indices: 18372953--18373006 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
18372943 CCATTCTAAG
18372953 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18373001 TAA TAA
1 TAA TAA
18373007 AAAATAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18377092 original size:26 final size:27
Alignment explanation
Indices: 18377063--18377116 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
18377053 TTAAAATTTC
* * *
18377063 AAAATTTTTAAAA-AATTAAAAATTAA
1 AAAATGTTTAAAAGAATAAAAAAATAA
18377089 AAAATGTTTAAAAGAATAAAAAAATAA
1 AAAATGTTTAAAAGAATAAAAAAATAA
18377116 A
1 A
18377117 TTTAGTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (27 bp):
AAAATGTTTAAAAGAATAAAAAAATAA
Found at i:18378953 original size:3 final size:3
Alignment explanation
Indices: 18378945--18378984 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18378935 GCAAGAGGAC
18378945 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18378985 ATAAGGAGGA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18385648 original size:42 final size:42
Alignment explanation
Indices: 18385592--18385772 Score: 220
Period size: 42 Copynumber: 4.3 Consensus size: 42
18385582 AGCTCATGAA
* * * *
18385592 AGCTAATCAGAAACCCATAAGGGTTGAACATAAGCTCATAAG
1 AGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAG
*
18385634 AGCTAAAC-GAAAACCCATAAGGGTTAAATAGAAGCTCAAAAG
1 AGCTAAACAG-AAACCCATAAGGGTTAAACAGAAGCTCAAAAG
* * * *
18385676 AGTTAAACGGAAAGCCATAAGTGTTAAACAGAAGCTCAAAAG
1 AGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAG
* * * *
18385718 AGCTAAACAGAAACTCATATGAGTTAAACAGAAGCTCAAGAG
1 AGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAG
*
18385760 AGCTAAATAGAAA
1 AGCTAAACAGAAA
18385773 GTAAACACGA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 118 0.98
43 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (42 bp):
AGCTAAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAG
Found at i:18385661 original size:21 final size:21
Alignment explanation
Indices: 18385602--18385661 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
18385592 AGCTAATCAG
*
18385602 AAACCCATAAGGGTTGAACAT
1 AAACCCATAAGGGTTAAACAT
* * * *
18385623 AAGCTCATAAGAGCTAAACGA-
1 AAACCCATAAGGGTTAAAC-AT
18385644 AAACCCATAAGGGTTAAA
1 AAACCCATAAGGGTTAAA
18385662 TAGAAGCTCA
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.17
Consensus pattern (21 bp):
AAACCCATAAGGGTTAAACAT
Found at i:18385680 original size:21 final size:21
Alignment explanation
Indices: 18385656--18385771 Score: 117
Period size: 21 Copynumber: 5.5 Consensus size: 21
18385646 ACCCATAAGG
*
18385656 GTTAAATAGAAGCTCAAAAGA
1 GTTAAACAGAAGCTCAAAAGA
* * *
18385677 GTTAAACGGAAAGC-CATAAGT
1 GTTAAACAG-AAGCTCAAAAGA
18385698 GTTAAACAGAAGCTCAAAAGA
1 GTTAAACAGAAGCTCAAAAGA
* * * *
18385719 GCTAAACAGAAACTCATATGA
1 GTTAAACAGAAGCTCAAAAGA
*
18385740 GTTAAACAGAAGCTCAAGAGA
1 GTTAAACAGAAGCTCAAAAGA
* *
18385761 GCTAAATAGAA
1 GTTAAACAGAA
18385772 AGTAAACACG
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
20 4 0.05
21 67 0.89
22 4 0.05
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (21 bp):
GTTAAACAGAAGCTCAAAAGA
Found at i:18387840 original size:10 final size:10
Alignment explanation
Indices: 18387825--18387849 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18387815 GTTGTCGTAA
18387825 ACCTGTTGGT
1 ACCTGTTGGT
18387835 ACCTGTTGGT
1 ACCTGTTGGT
18387845 ACCTG
1 ACCTG
18387850 ATGTTCTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.28, T:0.36
Consensus pattern (10 bp):
ACCTGTTGGT
Found at i:18392873 original size:42 final size:41
Alignment explanation
Indices: 18392827--18392998 Score: 200
Period size: 42 Copynumber: 4.1 Consensus size: 41
18392817 GAGCTAAGTA
* * *
18392827 GAAACCTATAAGGGTTGAACAGAAGCTTATAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCA-AAGAGCTAAACG
* * *
18392869 GAAACCCATAAAGGTTAAACAGAAGCTCGAAAGAGTTAAATG
1 GAAACCCATAAGGGTTAAACAGAAGCTC-AAAGAGCTAAACG
*
18392911 GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACA
1 GAAACCCATAAGGGTTAAACAGAAGCTC-AAAGAGCTAAACG
* * * * *
18392953 GAAACTCATATGAGTTAAACAGAAGCTCGAGAGAGCTAAACA
1 GAAACCCATAAGGGTTAAACAGAAGCTC-AAAGAGCTAAACG
18392995 GAAA
1 GAAA
18392999 GTAAACACGA
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 112 0.99
43 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACAGAAGCTCAAAGAGCTAAACG
Found at i:18392879 original size:21 final size:21
Alignment explanation
Indices: 18392826--18392976 Score: 99
Period size: 21 Copynumber: 7.2 Consensus size: 21
18392816 AGAGCTAAGT
* * *
18392826 AGAAACCTATAAGGGTTGAAC
1 AGAAACCCATAAGAGTTAAAC
* ** *
18392847 AGAAGCTTATAAGAGCTAAAC
1 AGAAACCCATAAGAGTTAAAC
*
18392868 GGAAACCCATAA-AGGTTAAAC
1 AGAAACCCATAAGA-GTTAAAC
* * *
18392889 AGAAGCTCGA-AAGAGTTAAAT
1 AGAAAC-CCATAAGAGTTAAAC
* *
18392910 GGAAACCCATAAGGGTTAAAC
1 AGAAACCCATAAGAGTTAAAC
* * * *
18392931 AGAAGCTCAAAAGAGCTAAAC
1 AGAAACCCATAAGAGTTAAAC
* *
18392952 AGAAACTCATATGAGTTAAAC
1 AGAAACCCATAAGAGTTAAAC
18392973 AGAA
1 AGAA
18392977 GCTCGAGAGA
Statistics
Matches: 97, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.03
21 91 0.94
22 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.17
Consensus pattern (21 bp):
AGAAACCCATAAGAGTTAAAC
Found at i:18392948 original size:84 final size:84
Alignment explanation
Indices: 18392816--18392992 Score: 239
Period size: 84 Copynumber: 2.1 Consensus size: 84
18392806 AAAGCTCATG
* * * * * * *
18392816 AGAGCTAAGTAGAAACCTATAAGGGTTGAACAGAAGCTTATAAGAGCTAAACGGAAACCCATAA-
1 AGAGCTAAATGGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAG
18392880 AGGTTAAACAGAAGCTCGAA
66 A-GTTAAACAGAAGCTCGAA
* * *
18392900 AGAGTTAAATGGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACTCATATG
1 AGAGCTAAATGGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAG
*
18392965 AGTTAAACAGAAGCTCGAG
66 AGTTAAACAGAAGCTCGAA
18392984 AGAGCTAAA
1 AGAGCTAAA
18392993 CAGAAAGTAA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 79 0.99
85 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.16
Consensus pattern (84 bp):
AGAGCTAAATGGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAG
AGTTAAACAGAAGCTCGAA
Found at i:18392992 original size:21 final size:20
Alignment explanation
Indices: 18392844--18392997 Score: 85
Period size: 21 Copynumber: 7.3 Consensus size: 20
18392834 ATAAGGGTTG
*
18392844 AACAGAAGCTTATAAGAGCTA
1 AACAGAAGCTCA-AAGAGCTA
* * * *
18392865 AACGGAAACCCATAA-AGGTTA
1 AACAGAAGCTCA-AAGA-GCTA
*
18392886 AACAGAAGCTCGAAAGAGTTA
1 AACAGAAGCTC-AAAGAGCTA
** * * * *
18392907 AATGGAAACCCATAAGGGTTA
1 AACAGAAGCTCA-AAGAGCTA
18392928 AACAGAAGCTCAAAAGAGCTA
1 AACAGAAGCTC-AAAGAGCTA
* * *
18392949 AACAGAAACTCATATGAGTTA
1 AACAGAAGCTCA-AAGAGCTA
*
18392970 AACAGAAGCTCGAGAGAGCTA
1 AACAGAAGCTC-AAAGAGCTA
18392991 AACAGAA
1 AACAGAA
18392998 AGTAAACACG
Statistics
Matches: 100, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
20 3 0.03
21 93 0.93
22 4 0.04
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.15
Consensus pattern (20 bp):
AACAGAAGCTCAAAGAGCTA
Found at i:18402230 original size:12 final size:12
Alignment explanation
Indices: 18402202--18402273 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 12
18402192 CCATTTTATT
*
18402202 TTATTTTATTTA
1 TTATATTATTTA
*
18402214 -T-TATTATTTG
1 TTATATTATTTA
18402224 TTATATTATTTA
1 TTATATTATTTA
*
18402236 TTATTATTTTACTATTT
1 TTA-TA--TTA-T-TTA
18402253 TTATATTATTTA
1 TTATATTATTTA
18402265 TT-TATTATT
1 TTATATTATT
18402274 CTTATACTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
10 7 0.15
11 9 0.19
12 15 0.31
13 3 0.06
14 3 0.06
15 3 0.06
16 3 0.06
17 5 0.10
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (12 bp):
TTATATTATTTA
Found at i:18402232 original size:22 final size:21
Alignment explanation
Indices: 18402200--18402273 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 21
18402190 ACCCATTTTA
*
18402200 TTTTATTTTATTTATTATTAT
1 TTTTATATTATTTATTATTAT
18402221 TTGTTATATTATTTATTATTA-
1 TT-TTATATTATTTATTATTAT
18402242 TTTTACTATT-TTTA-TATTAT
1 TTTTA-TATTATTTATTATTAT
18402262 TTATT-TATTATT
1 TT-TTATATTATT
18402274 CTTATACTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
19 9 0.19
20 11 0.23
21 10 0.21
22 17 0.36
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (21 bp):
TTTTATATTATTTATTATTAT
Found at i:18402236 original size:19 final size:19
Alignment explanation
Indices: 18402201--18402273 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
18402191 CCCATTTTAT
*
18402201 TTTATTTTATT-TATTATTA
1 TTTATTATATTAT-TTATTA
*
18402220 TTTGTTATATTATTTATTA
1 TTTATTATATTATTTATTA
* *
18402239 TTATTTTACTATTTTTATATTA
1 TT-TATTA-TATTATT-TATTA
18402261 TTTATT-TATTATT
1 TTTATTATATTATT
18402274 CTTATACTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 23 0.52
20 5 0.11
21 9 0.20
22 7 0.16
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (19 bp):
TTTATTATATTATTTATTA
Found at i:18402240 original size:29 final size:29
Alignment explanation
Indices: 18402195--18402272 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
18402185 AAGTCACCCA
* *
18402195 TTTTATTTTA-TT-TTATT-TATTATTAT
1 TTTTATATTATTTATTATTATATTACTAT
*
18402221 TTGTTATATTATTTATTATTATTTTACTAT
1 TT-TTATATTATTTATTATTATATTACTAT
18402251 TTTTATATTATTTATTTATTAT
1 TTTTATATTATTTA-TTATTAT
18402273 TCTTATACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.05
27 7 0.16
28 2 0.05
29 17 0.39
30 16 0.36
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (29 bp):
TTTTATATTATTTATTATTATATTACTAT
Found at i:18402278 original size:22 final size:22
Alignment explanation
Indices: 18402234--18402279 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
18402224 TTATATTATT
*
18402234 TATTATTATTTTACTATTTTTA
1 TATTATTATTTTACTATTCTTA
*
18402256 TATTATT-TATTTATTATTCTTA
1 TATTATTAT-TTTACTATTCTTA
18402278 TA
1 TA
18402280 CTTAGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTATTATTTTACTATTCTTA
Found at i:18402298 original size:36 final size:33
Alignment explanation
Indices: 18402224--18402299 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
18402214 TTATTATTTG
* * *
18402224 TTATATTATTTATTATTATTTTACTATTTTTATA
1 TTAT-TTATTTATTATTATTATACTAATTTTACA
*
18402258 TTATTTATTTATTATTCTTATACTTAGATTTTACA
1 TTATTTATTTATTATTATTATAC-TA-ATTTTACA
18402293 TTTATTT
1 -TTATTT
18402300 TAATTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 17 0.49
34 6 0.17
35 6 0.17
36 6 0.17
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (33 bp):
TTATTTATTTATTATTATTATACTAATTTTACA
Found at i:18402399 original size:12 final size:11
Alignment explanation
Indices: 18402383--18402424 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
18402373 TATAATTAAG
18402383 TTTATTATTAT
1 TTTATTATTAT
18402394 TATTATTATTAT
1 T-TTATTATTAT
18402406 TTTCATT-TTAT
1 TTT-ATTATTAT
18402417 TTT-TTATT
1 TTTATTATT
18402425 TTATTTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.07
10 2 0.07
11 10 0.36
12 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:18402430 original size:12 final size:13
Alignment explanation
Indices: 18402383--18402429 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 13
18402373 TATAATTAAG
18402383 TTTATTATTATTAT
1 TTTATTATT-TTAT
18402397 TATTATTATTTTCAT
1 T-TTATTATTTT-AT
18402412 TTTATT-TTTTAT
1 TTTATTATTTTAT
18402424 TTTATT
1 TTTATT
18402430 TATCTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.26
13 4 0.13
14 8 0.26
15 11 0.35
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:18403456 original size:15 final size:15
Alignment explanation
Indices: 18403436--18403486 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 15
18403426 TTATTGAAAA
18403436 AAAAAAGATACAAAG
1 AAAAAAGATACAAAG
*
18403451 AAAAAAG--ACAAAA
1 AAAAAAGATACAAAG
*
18403464 AAAAGAAAATATCAAAG
1 AAAA-AAGATA-CAAAG
18403481 AAAAAA
1 AAAAAA
18403487 ATATTGATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 9 0.31
14 2 0.07
15 7 0.24
16 3 0.10
17 8 0.28
ACGTcount: A:0.78, C:0.06, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAAAAGATACAAAG
Found at i:18406942 original size:22 final size:22
Alignment explanation
Indices: 18406917--18406966 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
18406907 CCGATAGCTG
*
18406917 GTAAAAGGTATTGATACTTTTT
1 GTAAAAGGTATCGATACTTTTT
*
18406939 GT-AAAGGTATCGATATTTTTT
1 GTAAAAGGTATCGATACTTTTT
18406960 GTGAAAA
1 GT-AAAA
18406967 ATGAAAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 19 0.79
22 2 0.08
23 3 0.12
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (22 bp):
GTAAAAGGTATCGATACTTTTT
Found at i:18409227 original size:54 final size:52
Alignment explanation
Indices: 18409122--18409229 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 52
18409112 TGCCCGTGTA
* **
18409122 GGCCCACATGGCCAAAATGGCCAGCTCGTGTGGCTTACACGACCTCGCACAC
1 GGCCCACATGACCAAAATGGCCAGCTCGTGTGGCACACACGACCTCGCACAC
* *
18409174 GGCCCACACTGACCAAAATGGCCTAGACT-GTGTGTCACACAC-AGCCTGGCACAC
1 GGCCCACA-TGACCAAAATGGCC-AG-CTCGTGTGGCACACACGA-CCTCGCACAC
18409228 GG
1 GG
18409230 TCGTGTGGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
52 8 0.17
53 14 0.30
54 23 0.49
55 2 0.04
ACGTcount: A:0.25, C:0.35, G:0.25, T:0.15
Consensus pattern (52 bp):
GGCCCACATGACCAAAATGGCCAGCTCGTGTGGCACACACGACCTCGCACAC
Found at i:18421724 original size:11 final size:10
Alignment explanation
Indices: 18421700--18421734 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
18421690 TTTTTAATAA
*
18421700 AATAAAAATT
1 AATAAAATTT
18421710 AATAAATATTT
1 AATAAA-ATTT
18421721 AATAAAATTT
1 AATAAAATTT
18421731 AATA
1 AATA
18421735 TATTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATAAAATTT
Found at i:18421739 original size:19 final size:20
Alignment explanation
Indices: 18421700--18421740 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
18421690 TTTTTAATAA
18421700 AATAAAAATTAATAAATATTT
1 AATAAAAATTAAT-AATATTT
*
18421721 AATAAAATTTAAT-ATATTT
1 AATAAAAATTAATAATATTT
18421740 A
1 A
18421741 TTAACAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAAAAATTAATAATATTT
Found at i:18424342 original size:36 final size:36
Alignment explanation
Indices: 18424302--18424389 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
18424292 AATGATATTC
* * *
18424302 CATTCGAAACAGACCAGATGCTCATAAGATCTAATA
1 CATTCGAAACACACCAGATGCCCATAAGAGCTAATA
*
18424338 CATTCGAAACACACCAGATGCCCATAAGAGCTAATC
1 CATTCGAAACACACCAGATGCCCATAAGAGCTAATA
* *
18424374 CATCCGAAACATACCA
1 CATTCGAAACACACCA
18424390 ATGGCTCCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.18
Consensus pattern (36 bp):
CATTCGAAACACACCAGATGCCCATAAGAGCTAATA
Found at i:18426894 original size:136 final size:137
Alignment explanation
Indices: 18426734--18427007 Score: 541
Period size: 136 Copynumber: 2.0 Consensus size: 137
18426724 TAGTTATATA
18426734 AAAAATATTGTTATAATAAAATTAAATTTAATAGAAGAAATATAACTGTTTTTAACAATTGAACT
1 AAAAATATTGTTATAATAAAATTAAATTTAATAGAAGAAATATAACTGTTTTTAACAATTGAACT
18426799 TACATTTTTAAATTAAAAAAAAAGAAAAACTCATCAAAATAAAAATAGGGATACGGATTGAATTT
66 TACATTTTTAAATTAAAAAAAAAGAAAAACTCATCAAAATAAAAATAGGGATACGGATTGAATTT
18426864 TAAAAGT
131 TAAAAGT
18426871 AAAAATATTG-TATAATAAAATTAAATTTAATAGAAGAAATATAACTGTTTTTAACAATTGAACT
1 AAAAATATTGTTATAATAAAATTAAATTTAATAGAAGAAATATAACTGTTTTTAACAATTGAACT
18426935 TACATTTTTAAATTAAAAAAAAAGAAAAACTCATCAAAATAAAAATAGGGATACGGATTGAATTT
66 TACATTTTTAAATTAAAAAAAAAGAAAAACTCATCAAAATAAAAATAGGGATACGGATTGAATTT
18427000 TAAAAGT
131 TAAAAGT
18427007 A
1 A
18427008 GTATCTTAAC
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 127 0.93
137 10 0.07
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (137 bp):
AAAAATATTGTTATAATAAAATTAAATTTAATAGAAGAAATATAACTGTTTTTAACAATTGAACT
TACATTTTTAAATTAAAAAAAAAGAAAAACTCATCAAAATAAAAATAGGGATACGGATTGAATTT
TAAAAGT
Found at i:18429115 original size:60 final size:60
Alignment explanation
Indices: 18429022--18429142 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
18429012 GAATCTAAGA
18429022 TAATGGAATGTGTCCATAATGTGTGCCAAAGGACCATATTTATAGCCTTCAGGTAGCCAT
1 TAATGGAATGTGTCCATAATGTGTGCCAAAGGACCATATTTATAGCCTTCAGGTAGCCAT
*
18429082 TAATGGAATGTGTCCATAATGTGTGCCAAAGGACCCTATTTATAGCCTTCAGGTAGCCAT
1 TAATGGAATGTGTCCATAATGTGTGCCAAAGGACCATATTTATAGCCTTCAGGTAGCCAT
18429142 T
1 T
18429143 GTGCTCAGCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (60 bp):
TAATGGAATGTGTCCATAATGTGTGCCAAAGGACCATATTTATAGCCTTCAGGTAGCCAT
Found at i:18430621 original size:10 final size:10
Alignment explanation
Indices: 18430606--18430648 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
18430596 TATGAACATG
18430606 ATTAATTTTA
1 ATTAATTTTA
18430616 ATTAATTTTA
1 ATTAATTTTA
*
18430626 TAGTTAATTTTT
1 -A-TTAATTTTA
18430638 ATTAATTTTA
1 ATTAATTTTA
18430648 A
1 A
18430649 CTATTTTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:18434881 original size:18 final size:18
Alignment explanation
Indices: 18434858--18434892 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18434848 CTTAGACATC
18434858 ATTAAA-ACATGTAATAAA
1 ATTAAACACAT-TAATAAA
18434876 ATTAAACACATTAATAA
1 ATTAAACACATTAATAA
18434893 GATGCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTAAACACATTAATAAA
Found at i:18437740 original size:407 final size:407
Alignment explanation
Indices: 18436978--18437794 Score: 1526
Period size: 407 Copynumber: 2.0 Consensus size: 407
18436968 TCTGTATCGA
*
18436978 TTACCGGAAGTTGAACAATGTGACTAGGAAAGATCACTTCCCTTTGTCGTTCTTGGACCAGATGC
1 TTACCGGAAGTTGAACAATGCGACTAGGAAAGATCACTTCCCTTTGTCGTTCTTGGACCAGATGC
*
18437043 TGGATAGACTCGTAGGACGAGATTGCTACTATTTTCTCGATGGATACTCAGGGTATAATCAGATT
66 TGGATAGACTCGTAGGACGAGATTACTACTATTTTCTCGATGGATACTCAGGGTATAATCAGATT
18437108 ACAGTAGCACCGAAAGATTAACACAAAACGACATTCACCTGCCTATACGGTACGTTTGCATTTAG
131 ACAGTAGCACCGAAAGATTAACACAAAACGACATTCACCTGCCTATACGGTACGTTTGCATTTAG
** *
18437173 ATGTATGTCATTTGGTTTATGTAATGCACCTGCTACATTTCAAAGATGTATGGTGTCTATTTTTA
196 ATGTATGTCATTTGGTTTATGTAATGCACCTGAAACATTTCAAAGATGTATGATGTCTATTTTTA
18437238 CTGACATGGTTGAGAAATATTTAGAAGTTTTTATGGACGATTTTTCAGTACTCGAAGATACTTAC
261 CTGACATGGTTGAGAAATATTTAGAAGTTTTTATGGACGATTTTTCAGTACTCGAAGATACTTAC
*
18437303 GATGATTGCTTAGCCAATCTAACCAAGGTACTAAGGAGATGCGAAGAAATGATTCTCGTACTCAA
326 AATGATTGCTTAGCCAATCTAACCAAGGTACTAAGGAGATGCGAAGAAATGATTCTCGTACTCAA
18437368 CTGGGAAAAGTGTCATT
391 CTGGGAAAAGTGTCATT
*
18437385 TTACCGGAAGTTGAACAATGCGACTAGGAGAGATCACTTCCCTTTGTCGTTCTTGGACCAGATGC
1 TTACCGGAAGTTGAACAATGCGACTAGGAAAGATCACTTCCCTTTGTCGTTCTTGGACCAGATGC
18437450 TGGATAGACTCGTAGGACGAGATTACTACTATTTTCTCGATGGATACTCAGGGTATAATCAGATT
66 TGGATAGACTCGTAGGACGAGATTACTACTATTTTCTCGATGGATACTCAGGGTATAATCAGATT
* *
18437515 ACAGTAGCATCGAAAGATTAACACAAAACGACATTCACCTGCCTGTACGGTACGTTTGCATTTAG
131 ACAGTAGCACCGAAAGATTAACACAAAACGACATTCACCTGCCTATACGGTACGTTTGCATTTAG
18437580 ATGTATGTCATTTGGTTTATGTAATGCACCTGAAACATTTCAAAGATGTATGATGTCTATTTTTA
196 ATGTATGTCATTTGGTTTATGTAATGCACCTGAAACATTTCAAAGATGTATGATGTCTATTTTTA
*
18437645 CTGACATGGTTGAGAAATATTTAGAAGTTTTTATGGACGATTTTTCAGTATTCGAAGATACTTAC
261 CTGACATGGTTGAGAAATATTTAGAAGTTTTTATGGACGATTTTTCAGTACTCGAAGATACTTAC
* *
18437710 AATGATTGCTTAGCCAATCTAACTAAGGTACTATGGAGATGCGAAGAAATGATTCTCGTACTCAA
326 AATGATTGCTTAGCCAATCTAACCAAGGTACTAAGGAGATGCGAAGAAATGATTCTCGTACTCAA
18437775 CTGGGAAAAGTGTCATT
391 CTGGGAAAAGTGTCATT
18437792 TTA
1 TTA
18437795 TGGTACGAGA
Statistics
Matches: 398, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
407 398 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (407 bp):
TTACCGGAAGTTGAACAATGCGACTAGGAAAGATCACTTCCCTTTGTCGTTCTTGGACCAGATGC
TGGATAGACTCGTAGGACGAGATTACTACTATTTTCTCGATGGATACTCAGGGTATAATCAGATT
ACAGTAGCACCGAAAGATTAACACAAAACGACATTCACCTGCCTATACGGTACGTTTGCATTTAG
ATGTATGTCATTTGGTTTATGTAATGCACCTGAAACATTTCAAAGATGTATGATGTCTATTTTTA
CTGACATGGTTGAGAAATATTTAGAAGTTTTTATGGACGATTTTTCAGTACTCGAAGATACTTAC
AATGATTGCTTAGCCAATCTAACCAAGGTACTAAGGAGATGCGAAGAAATGATTCTCGTACTCAA
CTGGGAAAAGTGTCATT
Found at i:18445102 original size:23 final size:23
Alignment explanation
Indices: 18445076--18445161 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
18445066 TGCATAACAG
*
18445076 AATATGCCACAAAAGCTACACGA
1 AATATGCCACAAAGGCTACACGA
*
18445099 AATATGCCACAAAGGCTTTATA-G-
1 AATATGCCACAAAGGC--TACACGA
* *
18445122 AATATGCCACATAGGCAACACGA
1 AATATGCCACAAAGGCTACACGA
*
18445145 AATATGCCATAAAGGCT
1 AATATGCCACAAAGGCT
18445162 TTAATATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 44 0.86
24 1 0.02
25 3 0.06
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (23 bp):
AATATGCCACAAAGGCTACACGA
Found at i:18445124 original size:46 final size:46
Alignment explanation
Indices: 18445074--18445164 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
18445064 CATGCATAAC
*
18445074 AGAATATGCCACAAAAGCTACACGAAATATGCCACAAAGGCTTTAT
1 AGAATATGCCACAAAAGCAACACGAAATATGCCACAAAGGCTTTAT
* * *
18445120 AGAATATGCCACATAGGCAACACGAAATATGCCATAAAGGCTTTA
1 AGAATATGCCACAAAAGCAACACGAAATATGCCACAAAGGCTTTA
18445165 ATATTATGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (46 bp):
AGAATATGCCACAAAAGCAACACGAAATATGCCACAAAGGCTTTAT
Found at i:18454591 original size:20 final size:20
Alignment explanation
Indices: 18454566--18454609 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
18454556 AATGTTTTAT
*
18454566 GTTTCA-AATATTTCTCAGAA
1 GTTTCAGAAAATTT-TCAGAA
18454586 GTTTCAGAAAATTTTCAGAA
1 GTTTCAGAAAATTTTCAGAA
18454606 GTTT
1 GTTT
18454610 TAGTCTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (20 bp):
GTTTCAGAAAATTTTCAGAA
Found at i:18460449 original size:16 final size:17
Alignment explanation
Indices: 18460428--18460459 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18460418 AATTTTCAGA
18460428 AAATTTTCCT-AATTTC
1 AAATTTTCCTCAATTTC
18460444 AAATTTTCCTCAATTT
1 AAATTTTCCTCAATTT
18460460 AGTCCCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTTTCCTCAATTTC
Found at i:18460870 original size:3 final size:3
Alignment explanation
Indices: 18460851--18460900 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
18460841 AATTTATTTC
* * *
18460851 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18460897 ATA A
1 ATA A
18460901 AATGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:18460879 original size:18 final size:18
Alignment explanation
Indices: 18460851--18460897 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
18460841 AATTTATTTC
18460851 ATAAT-ATAATAACAATA
1 ATAATAATAATAACAATA
*
18460868 ATATTAATAATAACAATA
1 ATAATAATAATAACAATA
18460886 ATAATAA-AATAA
1 ATAATAATAATAA
18460898 TAAAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:18461420 original size:18 final size:18
Alignment explanation
Indices: 18461397--18461434 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18461387 ACTGTAGAAA
18461397 TAAATTACTTTCTTACTG
1 TAAATTACTTTCTTACTG
18461415 TAAATTACTTTCTTACTG
1 TAAATTACTTTCTTACTG
18461433 TA
1 TA
18461435 GAAATTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.50
Consensus pattern (18 bp):
TAAATTACTTTCTTACTG
Found at i:18464851 original size:21 final size:21
Alignment explanation
Indices: 18464806--18464852 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18464796 GAATTGAGAG
* **
18464806 TTCTACCGATACAACTCTAGG
1 TTCTACCGATACAACTCGAAC
*
18464827 TTCTACTGATACAACTCGAAC
1 TTCTACCGATACAACTCGAAC
18464848 TTCTA
1 TTCTA
18464853 TCAGTAGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.32
Consensus pattern (21 bp):
TTCTACCGATACAACTCGAAC
Found at i:18468838 original size:18 final size:18
Alignment explanation
Indices: 18468815--18468849 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18468805 CTTGGACATC
18468815 ATTAAA-ACATGTAATAAA
1 ATTAAACACAT-TAATAAA
18468833 ATTAAACACATTAATAA
1 ATTAAACACATTAATAA
18468850 GATGCATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTAAACACATTAATAAA
Found at i:18469494 original size:82 final size:82
Alignment explanation
Indices: 18469357--18469587 Score: 419
Period size: 82 Copynumber: 2.8 Consensus size: 82
18469347 GTACAGCAGC
18469357 AAGCCTCCTTCCC-ATGAAGATGAGAGGAGACCAACATTGTCAATGGACATCAACAAGACAAAAA
1 AAGCCTCC-TCCCAATGAAGATGAGAGGAGACCAACATTGTCAATGGACATCAACAAGACAAAAA
18469421 AGGTGTCTTCGATTCCCA
65 AGGTGTCTTCGATTCCCA
18469439 AAGCCTCCTCCCAATGAAGATGAGAGGAGACCAACATTGTCAATGGACATCAACAAGACAAAAAA
1 AAGCCTCCTCCCAATGAAGATGAGAGGAGACCAACATTGTCAATGGACATCAACAAGACAAAAAA
18469504 GGTGTCTTCGATTCCCA
66 GGTGTCTTCGATTCCCA
* *
18469521 AAGCCTCCTCCCAATGAAGATGAGAGGAGACCAACATTGTCAATGGACATCAGCAAGGCAAAGAA
1 AAGCCTCCTCCCAATGAAGATGAGAGGAGACCAACATTGTCAATGGACATCAACAAGACAAA-AA
18469586 AG
65 AG
18469588 TGCATTCAAT
Statistics
Matches: 145, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
81 4 0.03
82 137 0.94
83 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (82 bp):
AAGCCTCCTCCCAATGAAGATGAGAGGAGACCAACATTGTCAATGGACATCAACAAGACAAAAAA
GGTGTCTTCGATTCCCA
Found at i:18470506 original size:43 final size:43
Alignment explanation
Indices: 18470448--18470850 Score: 388
Period size: 43 Copynumber: 9.3 Consensus size: 43
18470438 TTTTTACTAA
* * *
18470448 TAAGGATTTAGGGTTTTAAAGTTAAGGGCCTCA-GGTTTTAAAGT
1 TAAGG-TTTAGGGTTTTTAAGTTAAGGG-TTTAGGGTTTTAAAGT
* *
18470492 TAAGGTTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTAAATT
1 TAAGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGT
* * * *
18470534 TAAGGGTTAGTGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGT
1 TAAGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGT
* * * * * *
18470577 TAAGGGTCTAGGGTTTTAAAGCTAAAGG-TTAGGGTTTTTAGGT
1 TAA-GGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGT
* * * *
18470620 TAA-GTGTTAGAGTTTTTAATTTAAGGGTTTAGGGTTTTTAATT
1 TAAGGT-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGT
* * * * * *
18470663 TAAGGGTTAGTGTTTTTAATTTAAGAGTTTAGGGTTTTTTAGGTT
1 TAAGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGG-TTTTAAAG-T
* * * *
18470708 TAGGGTTTAGGGTTTTTAGGTTAAGGGGTTAAGGTTTTAAAGT
1 TAAGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGT
*
18470751 TAATGG-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTAAAGT
1 TAA-GGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGT
* *
18470794 TAAGAG-TTAGGGTTTTTAGGTTAAGGGGTTAAGGGTTTT-AAGT
1 TAAG-GTTTAGGGTTTTTAAGTTAA-GGGTTTAGGGTTTTAAAGT
18470837 TAAGGTTTAGGGTT
1 TAAGGTTTAGGGTT
18470851 AGGGTTTTTA
Statistics
Matches: 302, Mismatches: 45, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.01
42 51 0.17
43 169 0.56
44 51 0.17
45 27 0.09
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (43 bp):
TAAGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGT
Found at i:18470859 original size:27 final size:28
Alignment explanation
Indices: 18470819--18470878 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
18470809 TTAGGTTAAG
18470819 GGGTTAAGGGTTTTAAGTT-AAGGTTTA
1 GGGTTAAGGGTTTTAAGTTAAAGGTTTA
*
18470846 GGGTT-AGGGTTTTTAGGTTAAAGGTTTA
1 GGGTTAAGGG-TTTTAAGTTAAAGGTTTA
*
18470874 AGGTT
1 GGGTT
18470879 TTTCAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 13 0.45
28 12 0.41
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (28 bp):
GGGTTAAGGGTTTTAAGTTAAAGGTTTA
Found at i:18470871 original size:21 final size:21
Alignment explanation
Indices: 18470455--18470850 Score: 391
Period size: 21 Copynumber: 18.4 Consensus size: 21
18470445 TAATAAGGAT
*
18470455 TTAGGGTTTTAAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
* * *
18470476 CCTCA-GGTTTTAAAGTTAAGGT
1 --TTAGGGTTTTTAAGTTAAGGG
*
18470498 TTAGGGTTTTTAGGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
* *
18470519 TTAGGGTTTTAAATTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
18470540 TTAGTGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
18470561 TTTAAGGTTTTTAAGTTAAGGG
1 -TTAGGGTTTTTAAGTTAAGGG
* * *
18470583 TCTAGGGTTTTAAAGCTAAAGG
1 T-TAGGGTTTTTAAGTTAAGGG
* *
18470605 TTAGGGTTTTTAGGTTAAGTG
1 TTAGGGTTTTTAAGTTAAGGG
* *
18470626 TTAGAGTTTTTAATTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
18470647 TTTAGGGTTTTTAATTTAAGGG
1 -TTAGGGTTTTTAAGTTAAGGG
* * *
18470669 TTAGTGTTTTTAATTTAAGAGT
1 TTAGGGTTTTTAAGTTAAG-GG
* *
18470691 TTAGGGTTTTTTAGGTTTAGGG
1 TTAGGG-TTTTTAAGTTAAGGG
*
18470713 TTTAGGGTTTTTAGGTTAAGGGG
1 -TTAGGGTTTTTAAGTTAA-GGG
* * *
18470736 TTAAGGTTTTAAAGTTAATGG
1 TTAGGGTTTTTAAGTTAAGGG
*
18470757 TTAGGGTTTTTAGGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
* *
18470778 TTTAGGGTTTTAAAGTTAAGAG
1 -TTAGGGTTTTTAAGTTAAGGG
*
18470800 TTAGGGTTTTTAGGTTAAGGGG
1 TTAGGGTTTTTAAGTTAA-GGG
*
18470822 TTAAGGG-TTTTAAGTTAAGGT
1 TT-AGGGTTTTTAAGTTAAGGG
18470843 TTAGGGTT
1 TTAGGGTT
18470851 AGGGTTTTTA
Statistics
Matches: 309, Mismatches: 52, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.02
21 141 0.46
22 137 0.44
23 25 0.08
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.44
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGG
Found at i:18470877 original size:14 final size:14
Alignment explanation
Indices: 18470820--18470878 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
18470810 TAGGTTAAGG
18470820 GGTTAAGGGTTTTAA
1 GGTTAA-GGTTTTAA
*
18470835 -GTTAAGG-TTTAG
1 GGTTAAGGTTTTAA
* *
18470847 GGTTAGGGTTTTTA
1 GGTTAAGGTTTTAA
18470861 GGTTAAAGG-TTTAA
1 GGTT-AAGGTTTTAA
18470875 GGTT
1 GGTT
18470879 TTTCAATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
12 4 0.11
13 8 0.23
14 20 0.57
15 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.42
Consensus pattern (14 bp):
GGTTAAGGTTTTAA
Found at i:18471180 original size:21 final size:21
Alignment explanation
Indices: 18471137--18471183 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18471127 GCGGCGGTTG
* *
18471137 TGGTTCTTCCGGTGGGGATTC
1 TGGTTCTTCCAGTGGGCATTC
18471158 TGGTTCTTCCAGTAGGGCA-TC
1 TGGTTCTTCCAGT-GGGCATTC
18471179 TGGTT
1 TGGTT
18471184 GTCGGAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.09, C:0.19, G:0.34, T:0.38
Consensus pattern (21 bp):
TGGTTCTTCCAGTGGGCATTC
Found at i:18471457 original size:18 final size:18
Alignment explanation
Indices: 18471430--18471464 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18471420 GAAAAAAGAA
* *
18471430 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
18471448 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
18471465 AATGCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:18472095 original size:7 final size:7
Alignment explanation
Indices: 18472085--18472110 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18472075 TTATATACAT
18472085 AATACTA
1 AATACTA
18472092 AATACTA
1 AATACTA
18472099 AATACTA
1 AATACTA
18472106 AATAC
1 AATAC
18472111 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:18473256 original size:51 final size:51
Alignment explanation
Indices: 18473201--18473298 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
18473191 AATTATTTAA
18473201 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
18473252 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
18473299 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:18473274 original size:11 final size:11
Alignment explanation
Indices: 18473260--18473336 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
18473250 ATAAATATGG
18473260 ATTTGAGAGAA
1 ATTTGAGAGAA
*
18473271 ATTTTGA-AGGA
1 A-TTTGAGAGAA
18473282 ATTTGAGAGCAA
1 ATTTGAGAG-AA
18473294 A-TTGAGAGGAA
1 ATTTGAGA-GAA
18473305 ATTT-AGAAGAA
1 ATTTGAG-AGAA
18473316 A-TTGAGAGGAA
1 ATTTGAGA-GAA
18473327 ATTTGAGAGA
1 ATTTGAGAGA
18473337 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 8 0.15
11 30 0.55
12 17 0.31
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:18473285 original size:22 final size:22
Alignment explanation
Indices: 18473260--18473336 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
18473250 ATAAATATGG
18473260 ATTTGAGAGAAATTTTGA-AGG-A
1 ATTTGAGAGAAA--TTGAGAGGAA
18473282 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
18473305 ATTT-AGAAGAAATTGAGAGGAA
1 ATTTGAG-AGAAATTGAGAGGAA
18473327 ATTTGAGAGA
1 ATTTGAGAGA
18473337 GGATTAGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.08
22 34 0.68
23 12 0.24
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.26
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:18473299 original size:33 final size:33
Alignment explanation
Indices: 18473260--18473336 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
18473250 ATAAATATGG
* *
18473260 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGCAA
*
18473294 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGCAA
18473327 ATTTGAGAGA
1 ATTTGAGAGA
18473337 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGCAA
Found at i:18477036 original size:21 final size:20
Alignment explanation
Indices: 18476991--18477041 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
18476981 ATTATCACTT
18476991 ATTTTTTTAAAATAATTTTAA
1 ATTTTTTTAAAAT-ATTTTAA
*
18477012 ATTTTTTTAAAGAT-TTTATAC
1 ATTTTTTTAAA-ATATTT-TAA
18477033 ATTTTTTTA
1 ATTTTTTTA
18477042 CGGTTTAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 22 0.81
22 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTTTAAAATATTTTAA
Found at i:18477499 original size:19 final size:18
Alignment explanation
Indices: 18477474--18477520 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
18477464 TATTATAATA
*
18477474 AAAATATAAAATAATTTT
1 AAAATATAAAATAATATT
18477492 ATAAATATAAAATAATATT
1 A-AAATATAAAATAATATT
18477511 AAAATA-AAAA
1 AAAATATAAAA
18477521 ACTTGATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATAAAATAATATT
Found at i:18481238 original size:81 final size:81
Alignment explanation
Indices: 18481141--18481303 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
18481131 TGAAAAATCT
*
18481141 ATGTTTATTTTGTATTGAAAAGGGGTATCGTTTTCATAGGGACTATATAAGCAAAAACTTTTGTG
1 ATGTTTATTTTGTATTGAAAAGGGGTATCGTTTTCATAGGGACTATATAAACAAAAACTTTTGTG
18481206 AAATAAAGACTTTCAC
66 AAATAAAGACTTTCAC
*
18481222 ATGTTTATTTTGTATTGAAAAGGGGTATTGTTTTCATAGGGACTATATAAACAAAAACTTTTGTG
1 ATGTTTATTTTGTATTGAAAAGGGGTATCGTTTTCATAGGGACTATATAAACAAAAACTTTTGTG
18481287 AAATAAAGACTTTCAC
66 AAATAAAGACTTTCAC
18481303 A
1 A
18481304 ATTTGGTGAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (81 bp):
ATGTTTATTTTGTATTGAAAAGGGGTATCGTTTTCATAGGGACTATATAAACAAAAACTTTTGTG
AAATAAAGACTTTCAC
Done.