Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold404
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: 638648
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 4
Found at i:8194 original size:52 final size:52
Alignment explanation
Indices: 8116--8243 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
8106 CGAAATATGA
*
8116 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTAGGC
*
8168 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTAGGC
8220 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
8244 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTAGGC
Found at i:8270 original size:13 final size:13
Alignment explanation
Indices: 8252--8276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8242 CAAAGATCAG
8252 TGTATCGATACAA
1 TGTATCGATACAA
8265 TGTATCGATACA
1 TGTATCGATACA
8277 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8354 original size:33 final size:33
Alignment explanation
Indices: 8317--8383 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
8307 AGTAGCTTAA
8317 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
8350 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
8383 A
1 A
8384 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:8357 original size:13 final size:13
Alignment explanation
Indices: 8339--8363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8329 CAAAAAAATA
8339 TGTATCGATACAT
1 TGTATCGATACAT
8352 TGTATCGATACA
1 TGTATCGATACA
8364 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:9442 original size:164 final size:164
Alignment explanation
Indices: 9245--9796 Score: 677
Period size: 164 Copynumber: 3.3 Consensus size: 164
9235 TTGCAAGATG
*
9245 TTTTTTACTCTGTAAATTTTTTTGAGGGGATTTTTCTTAATTTTTAATTTTTAAAATTCATAAAA
1 TTTTCTACTCTGTAAATTTTTTT-AGGGGATTTTTCTTAATTTTTAATTTTTAAAATTCATAAAA
*
9310 TATCATTATTTATTTAATATTAATTCCA-TTTTAAAAAATAAATTTATTTTCATGAGTTTTAGAT
65 TATCATTATTTATTTCATATTAATT-CAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTAGAT
* *
9374 TTTTTC-TTCAAATTCT-TTTTTTTTCGAAATACGATA
129 TTTTTCTTTAAAATTCTCTTTTTTTT--AAATACAATA
** * *
9410 TTTTCTACT-TCGTAAATTTTTTTAAAGGATTTTTCTTAATTTTTAATTTTTAATATTCATCAAA
1 TTTTCTACTCT-GTAAATTTTTTTAGGGGATTTTTCTTAATTTTTAATTTTTAAAATTCATAAAA
9474 TATCATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTAGATT
65 TATCATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTAGATT
9539 TTTTCTTTAAAATTCTCTTTTTTTTAAATACAATA
130 TTTTCTTTAAAATTCTCTTTTTTTTAAATACAATA
* *
9574 TTTTCTACTCTATAAATTTTTTCGAGGGGATTTTTCTTAATTTTTAATTTTTAAAATTCATAAAA
1 TTTTCTACTCTGTAAATTTTTT-TAGGGGATTTTTCTTAATTTTTAATTTTTAAAATTCATAAAA
* * * * * * * **
9639 CATAATTTTTTATTTCATATTAATACATTTTTAAAAAATAAATTCATTTTCATAAGTTTGGGATT
65 TATCATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTAGA-T
* * * ** *
9704 TTTTTCCTTAAAATCCCCTTTTTCCTAAA-A-ACTGA
129 TTTTTCTTTAAAATTCTCTTTTTTTTAAATACAAT-A
* * * * **
9739 GTTTTATATTCTGTAAATTTTTTTCGGAGAATTTTTCTCT-ATTTAAAATTTTTAAAAT
1 -TTTTCTACTCTGTAAATTTTTTTAGG-GGATTTTTCT-TAATTTTTAATTTTTAAAAT
9797 ACATCTAATA
Statistics
Matches: 339, Mismatches: 37, Indels: 21
0.85 0.09 0.05
Matches are distributed among these distances:
163 2 0.01
164 134 0.40
165 125 0.37
166 77 0.23
167 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (164 bp):
TTTTCTACTCTGTAAATTTTTTTAGGGGATTTTTCTTAATTTTTAATTTTTAAAATTCATAAAAT
ATCATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTTATTTTCATGAGTTTTAGATTT
TTTCTTTAAAATTCTCTTTTTTTTAAATACAATA
Found at i:10395 original size:14 final size:15
Alignment explanation
Indices: 10358--10398 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
10348 CTGAAAAAAG
10358 AGAAAAGA-AGAAGAA
1 AGAAAAGAGA-AAGAA
10373 AGAAAAGAGAAAGAA
1 AGAAAAGAGAAAGAA
*
10388 A-AATAGAGAAA
1 AGAAAAGAGAAA
10399 ATAGGTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 14 0.58
16 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (15 bp):
AGAAAAGAGAAAGAA
Found at i:10397 original size:21 final size:22
Alignment explanation
Indices: 10353--10399 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
10343 CTCAGCTGAA
*
10353 AAAAGAGAAAAGAAGAAGAAAG
1 AAAAGAGAAAAGAAAAAGAAAG
* *
10375 AAAAGAG-AAAGAAAAATAGAG
1 AAAAGAGAAAAGAAAAAGAAAG
10396 AAAA
1 AAAA
10400 TAGGTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (22 bp):
AAAAGAGAAAAGAAAAAGAAAG
Found at i:11473 original size:164 final size:162
Alignment explanation
Indices: 11200--11659 Score: 679
Period size: 164 Copynumber: 2.8 Consensus size: 162
11190 TATATATTTT
* * * *
11200 AAATATTAATCACTTTTAAATCTTCTATATTCTCATTGGTATCCGTAGGGGTATAAAAGATTTCA
1 AAATATTAATCATTTTTAAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTCA
* * *
11265 AAAACTTTTTGTATCTTTTCGGATATCCATTAAAGTATGAAATGATTTTTTTAAAAAAATAAATA
66 AAAACTTTTCGTATCTTTTCGG-TATCCATTAAAGTACGAAATGATTTTTTT-TAAAAATAAATA
*
11330 AATAATATTAAATTCACTCCTCATTAATCACAAC
129 AATAATATTAAATTCACTCCTCATCAATCACAAC
* *
11364 AAATATTGATCATTTTTAAATCTTTTATATTCTTATGGGTATTCGTAGGGGTATAAAAGATTTCA
1 AAATATTAATCATTTTTAAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTCA
*
11429 AAAACTTTTCGTATCTTTTCGAGTATCCATTAAAGTACGAAATGATTTTTTTTTAAAAATGAATA
66 AAAACTTTTCGTATCTTTTCG-GTATCCATTAAAGTACGAAATGA-TTTTTTTTAAAAATAAATA
* * * *
11494 AATAATATTAAATTTACTCCTCGTCAATTACAAT
129 AATAATATTAAATTCACTCCTCATCAATCACAAC
* ** *
11528 AAAAATTAATTGTTTTTTAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTCA
1 AAATATTAATCATTTTTAAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTCA
* *
11593 AAAACTTTTCGTATCTTTTCGGGTAT-CATTAAGGTACGAAATGATTTTTTTTAAATATAAATAA
66 AAAACTTTTCGTATCTTTTC-GGTATCCATTAAAGTACGAAATGATTTTTTTTAAAAATAAATAA
11657 ATA
130 ATA
11660 TCAATTATTT
Statistics
Matches: 269, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
162 21 0.08
163 17 0.06
164 222 0.83
165 9 0.03
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (162 bp):
AAATATTAATCATTTTTAAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTCA
AAAACTTTTCGTATCTTTTCGGTATCCATTAAAGTACGAAATGATTTTTTTTAAAAATAAATAAA
TAATATTAAATTCACTCCTCATCAATCACAAC
Found at i:11776 original size:127 final size:127
Alignment explanation
Indices: 11548--11776 Score: 354
Period size: 127 Copynumber: 1.8 Consensus size: 127
11538 TGTTTTTTAA
* * *
11548 TCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTC
1 TCTTTTATATTCCTATGAGTATCCGTAGGGGTATAAAAGATTTCAAAAACTATTCGTATCTTTTC
** **
11613 GGGTATCATTAAGGTACGAAATGATTTTTTTTAAATATAAATAAATATCAATTATTTTCAAG
66 AAGTATCATTAAGGTACGAAATGATTTTTTAAAAATATAAATAAATATCAATTATTTTCAAG
*
11675 TCTTTTATATTCCTATGAGTATCCGTA-GGGTATAAAATATTTCGAAAAACTATTCGTATCTTTT
1 TCTTTTATATTCCTATGAGTATCCGTAGGGGTATAAAAGATTTC-AAAAACTATTCGTATCTTTT
11739 CAAGTA-CTATTAAGGTACGAAATGATTTTTTAAAAATA
65 CAAGTATC-ATTAAGGTACGAAATGATTTTTTAAAAATA
11777 ATTAAATTAA
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
126 16 0.17
127 76 0.83
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (127 bp):
TCTTTTATATTCCTATGAGTATCCGTAGGGGTATAAAAGATTTCAAAAACTATTCGTATCTTTTC
AAGTATCATTAAGGTACGAAATGATTTTTTAAAAATATAAATAAATATCAATTATTTTCAAG
Found at i:12734 original size:156 final size:155
Alignment explanation
Indices: 12452--13767 Score: 711
Period size: 156 Copynumber: 8.6 Consensus size: 155
12442 AGTAACCACC
* * * * ** * * *
12452 AGGTCTACTTTTATGCCGAAGATAGGTATTTACGATAGGTTCATTCTTTTTATAGTTCTTTTTTA
1 AGGTCTGCTTTTATGCTGAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAA
* * * * * * *
12517 GTCTTTTAGGAGTATCGAGATACTTTCACATTGAAGGTATCCTCTACGGGCATTTTTATAATTAT
66 GTCCTTTAGGGGTATCGGGATACTTTCACGTCGAAGGTATCCTATAGGGGCATTTTTATAATT-T
* *
12582 ATAAAATCGAGTCCTACGTTATCACT
130 TTAAAATCGAGTCCTAGGTTATCACT
* * *
12608 AGGTCTGCTTTTATGGTGAAGGTAGGTATTTAGGATATGTTCATCCCTTTTATAGTCCTTTTTAA
1 AGGTCTGCTTTTATGCTGAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAA
* * * * *
12673 GTCCTTTAGGGGTATCAGGATACTTTCATGTCGAAGGTATCC-ATTAGGGGTATTATCATAATTT
66 GTCCTTTAGGGGTATCGGGATACTTTCACGTCGAAGGTATCCTA-TAGGGGCATTTTTATAA-TT
* * *
12737 TTTACAATCGAGTCTTAGGTTATCACG
129 TTTAAAATCGAGTCCTAGGTTATCACT
* * * * * *
12764 GGGT-TCGCTTTTATG-TCGACGGTCGGTATATAGGATAGCTTCACCCCTTTTATAGTCATTTTT
1 AGGTCT-GCTTTTATGCT-GAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTT
* * * *
12827 AAGTCCTTTAGGGTTA-CTGGGATACTTTCATGTCGAAGGTATACCTATAGAGGTATTTTTTATA
64 AAGTCCTTTAGGGGTATC-GGGATACTTTCACGTCGAAGGTAT-CCTATAGGGGCA-TTTTTATA
* ** *
12891 ATTTTTAAGAATCAAGTCCTTTGTTATC-TT
126 ATTTTTAA-AATCGAGTCCTAGGTTATCACT
* * * * * * *
12921 TGAGTTTGTTTTTATGCCGAAGGTGGGTATATAGGATAGGTTCACCCCTTTTGTAGTCCTTTTTA
1 AG-GTCTGCTTTTATGCTGAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTA
* * ** * * *
12986 AGTCCTTTAGGGGTACCGGGATACTTTCACGTC-ACAAGTATCCCCTAAGGGCCTTTTTGTAATT
65 AGTCCTTTAGGGGTATCGGGATACTTTCACGTCGA-AGGTATCCTATAGGGGCATTTTTATAATT
*
13050 TTTCAGAATCGAGTCCTAGGTTATCAC-
129 TTT-AAAATCGAGTCCTAGGTTATCACT
* * * * * * * *
13077 CGAGTCTGTTTTTAT-TTCGAAAGTGGGTATTTAGGATATGTTCACCCCTTTTATAGCCCCTTTT
1 AG-GTCTGCTTTTATGCT-GAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTT
* * * ** * * * * * *
13141 AAGTCCTTTAAGGTTTTCTAGATACTTTTACATTGAAGGTATACCCT-TAAGGGTATTTTTGTAA
64 AAGTCCTTTAGGGGTATCGGGATACTTTCACGTCGAAGGTAT--CCTATAGGGGCATTTTTATAA
* * * * * *
13205 TTTTTAGAA-CCAATCCTAGGTCATAACG
127 TTTTTAAAATCGAGTCCTAGGTTATCACT
* * ** * ** * *
13233 GGGTCTACTTTTATGCCAAAGGTTGGCGTTTAGGATAGGTTCATCCC-TTTATGAGT-TTTTTTA
1 AGGTCTGCTTTTATGCTGAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTAT-AGTCCTTTTTA
* * ** * * * ** * * **
13296 AGTCTTTTAGGGTTGCCGAGATACTTTTACGTCAAAGGTATACCCGTAAGGGTATTTTGGTAATT
65 AGTCCTTTAGGGGTATCGGGATACTTTCACGTCGAAGGTAT-CCTATAGGGGCATTTTTATAATT
* *
13361 TTCTAGAATCGAGTCCTAGGTTGTCACCT
129 TT-TAAAATCGAGTCCTAGGTTATCA-CT
* * * * *
13390 A-GTCTGCATTT-TG-TCGAAGGTGGGTATTTAGGATAAGTTCATCCC------A-T-C---TCA
1 AGGTCTGCTTTTATGCT-GAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTA
* * * * * * * * * * **
13441 GGTCCTTTAGGGTTGTCAGGATACTTTAACGTCAAAAGTATACCTTTAAGGGTATTTTCGTAATT
65 AGTCCTTTAGGGGTATCGGGATACTTTCACGTCGAAGGTAT-CCTATAGGGGCATTTTTATAA-T
* * * *
13506 TTTTATAATTGAGTCCTAGATTGTCACCT
128 TTTTAAAATCGAGTCCTAGGTTATCA-CT
* * * * *
13535 GGGTCTGCTTTTATGCTGAAGGTAGGTATTTAGCATAGGGTCATCCC------A-T-C---TTAG
1 AGGTCTGCTTTTATGCTGAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAA
** * ** *
13589 GTAATTTAGGGTTAT-GGGATACTTTTGCGTCGAAGGTATACCCTCAT--GGGCATTTTCATAAT
66 GTCCTTTAGGGGTATCGGGATACTTTCACGTCGAAGGTAT--CCT-ATAGGGGCATTTTTATAAT
* * * * *
13651 TTTCAAAA-CTAAGTCTTAGGTTATTACC
128 TTTTAAAATC-GAGTCCTAGGTTATCACT
* * * * *
13679 AGGTCCGTTTTTATGCCT-AAGGTAGGTATTTAAGATAGGTTCATCCCTTTTATAGTCATTTTTA
1 AGGTCTGCTTTTATG-CTGAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTA
* *
13743 AGTCTTTTAGGGGTATCAGG-TACTT
65 AGTCCTTTAGGGGTATCGGGATACTT
13768 CTATGTTGAA
Statistics
Matches: 919, Mismatches: 193, Indels: 97
0.76 0.16 0.08
Matches are distributed among these distances:
144 39 0.04
145 98 0.11
146 44 0.05
147 49 0.05
148 3 0.00
149 1 0.00
150 1 0.00
151 1 0.00
153 2 0.00
154 63 0.07
155 104 0.11
156 353 0.38
157 48 0.05
158 111 0.12
159 2 0.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (155 bp):
AGGTCTGCTTTTATGCTGAAGGTAGGTATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTTAA
GTCCTTTAGGGGTATCGGGATACTTTCACGTCGAAGGTATCCTATAGGGGCATTTTTATAATTTT
TAAAATCGAGTCCTAGGTTATCACT
Found at i:13167 original size:314 final size:308
Alignment explanation
Indices: 12610--13430 Score: 818
Period size: 314 Copynumber: 2.6 Consensus size: 308
12600 TTATCACTAG
* ** * * *
12610 GTCTGCTTTTATGGTGAAGGTAGGTATTTAGGATATGTTCATCCCTTTTATAGTCCTTTTTAAGT
1 GTCTACTTTTATGCCGAAGGTGGGTA-TTAGGATAGGTTCATCCCTTTTGTAGTCCTTTTTAAGT
* * * * ** * * * *
12675 CCTTTAGGGGTATCAGGATACTTTCATGTCGAAGGTATCCATTAGGGGTATTATCATAATTTTTT
65 CCTTTAGGGGTACCGGGATACTTTCACGTC-AAAGTATCCCCTAAGGGTATTTTCGTAATTTTTC
* * * * * * *
12740 ACAATCGAGTCTTAGGTTATCACGGGGT-TCGCTTTTATGTCGACGGTCGGTATATAGGATAGCT
129 AGAATCGAGTCCTAGGTTATCACCGAGTCT-GCTTTTATGTCGAAGGTGGGTATTTAGGATAG-T
* * *
12804 TCACCCCTTTTATAGTCATTTTTAAGTCCTTTAGGGTTACTGGGATAC-TTT-CATGTCGAAGGT
192 TCACCCCTTTTATAGCCACTTTTAAGTCCTTTAGGGTTACTGAGATACTTTTACAT-T-GAAGGT
* ** * ****
12867 ATA-CC-TATAGAGGTATTTTTTATAATTTTTAAGAATCAAGTCCTTTGTTATCTTTGA
255 ATACCCTTA-AG-GGTA-TTTTTATAATTTTT-AGAACCAA-TCCTAGGTCATAACGGA
* ** *
12924 GTTTGTTTTTATGCCGAAGGTGGGTATATAGGATAGGTTCACCCCTTTTGTAGTCCTTTTTAAGT
1 GTCTACTTTTATGCCGAAGGTGGGTAT-TAGGATAGGTTCATCCCTTTTGTAGTCCTTTTTAAGT
** *
12989 CCTTTAGGGGTACCGGGATACTTTCACGTCACAAGTATCCCCTAAGGGCCTTTTTGTAATTTTTC
65 CCTTTAGGGGTACCGGGATACTTTCACGTCA-AAGTATCCCCTAAGGGTATTTTCGTAATTTTTC
* * *
13054 AGAATCGAGTCCTAGGTTATCACCGAGTCTGTTTTTATTTCGAAAGTGGGTATTTAGGATATGTT
129 AGAATCGAGTCCTAGGTTATCACCGAGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATA-GTT
* * *
13119 CACCCCTTTTATAGCCCCTTTTAAGTCCTTTAAGGTTTTCT-AGATACTTTTACATTGAAGGTAT
193 CACCCCTTTTATAGCCACTTTTAAGTCCTTT-AGGGTTACTGAGATACTTTTACATTGAAGGTAT
* *
13183 ACCCTTAAGGGTATTTTTGTAATTTTTAGAACCAATCCTAGGTCATAACGGG
257 ACCCTTAAGGGTATTTTTATAATTTTTAGAACCAATCCTAGGTCATAACGGA
* *
13235 GTCTACTTTTATGCCAAAGGTTGGCGT-TTAGGATAGGTTCATCCCTTTATG-AGT-TTTTTTAA
1 GTCTACTTTTATGCCGAAGG-TGG-GTATTAGGATAGGTTCATCCCTTT-TGTAGTCCTTTTTAA
* * * * * * *
13297 GTCTTTTAGGGTTGCCGAGATACTTTTACGTCAAAGGTATACCCGTAAGGGTATTTTGGTAA-TT
63 GTCCTTTAGGGGTACCGGGATACTTTCACGTCAAA-GTAT-CCCCTAAGGGTATTTTCGTAATTT
* * *
13361 TTCTAGAATCGAGTCCTAGGTTGTCACCTAGTCTGCATTT-TGTCGAAGGTGGGTATTTAGGATA
126 TTC-AGAATCGAGTCCTAGGTTATCACCGAGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGAT-
13425 AGTTCA
189 AGTTCA
13431 TCCCATCTCA
Statistics
Matches: 423, Mismatches: 68, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
309 2 0.00
310 70 0.17
311 97 0.23
312 13 0.03
313 17 0.04
314 202 0.48
315 17 0.04
316 5 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (308 bp):
GTCTACTTTTATGCCGAAGGTGGGTATTAGGATAGGTTCATCCCTTTTGTAGTCCTTTTTAAGTC
CTTTAGGGGTACCGGGATACTTTCACGTCAAAGTATCCCCTAAGGGTATTTTCGTAATTTTTCAG
AATCGAGTCCTAGGTTATCACCGAGTCTGCTTTTATGTCGAAGGTGGGTATTTAGGATAGTTCAC
CCCTTTTATAGCCACTTTTAAGTCCTTTAGGGTTACTGAGATACTTTTACATTGAAGGTATACCC
TTAAGGGTATTTTTATAATTTTTAGAACCAATCCTAGGTCATAACGGA
Found at i:13653 original size:146 final size:144
Alignment explanation
Indices: 13315--13654 Score: 396
Period size: 145 Copynumber: 2.3 Consensus size: 144
13305 GGGTTGCCGA
*
13315 GATACTTTTACGTCAAAGGTATACCCGTAAGGGTATTTTGGTAATTTTCTAGAATCGAGTCCTAG
1 GATACTTTTACGTCAAAGGTATACCC-TAAGGGTATTTTCGTAATTTTCTAGAATCGAGTCCTAG
* * * * *
13380 GTTGTCACCTAGTCTGCATTTTGTCGAAGGTGGGTATTTAGGATAAGTTCATCCCATCTCAGGTC
65 ATTGTCACCTAGTCTGCATTTTGTCGAAGGTAGGTATTTAGCATAAGGTCATCCCATCTCAGGTA
* *
13445 CTTTAGGGTTGTCAG
130 ATTTAGGGTTATCAG
* * * * * *
13460 GATACTTTAACGTCAAAAGTATACCTTTAAGGGTATTTTCGTAATTTTTTATAATTGAGTCCTAG
1 GATACTTTTACGTCAAAGGTATACC-CTAAGGGTATTTTCGTAATTTTCTAGAATCGAGTCCTAG
* * * *
13525 ATTGTCACCTGGGTCTGC-TTTTATGCTGAAGGTAGGTATTTAGCATAGGGTCATCCCATCTTAG
65 ATTGTCACCT-AGTCTGCATTTTGT-C-GAAGGTAGGTATTTAGCATAAGGTCATCCCATCTCAG
*
13589 GTAATTTAGGGTTAT-GG
127 GTAATTTAGGGTTATCAG
* * * * *
13606 GATACTTTTGCGTCGAAGGTATACCCTCATGGGCATTTTCATAATTTTC
1 GATACTTTTACGTCAAAGGTATACCCT-AAGGGTATTTTCGTAATTTTC
13655 AAAACTAAGT
Statistics
Matches: 162, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
145 72 0.44
146 46 0.28
147 44 0.27
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (144 bp):
GATACTTTTACGTCAAAGGTATACCCTAAGGGTATTTTCGTAATTTTCTAGAATCGAGTCCTAGA
TTGTCACCTAGTCTGCATTTTGTCGAAGGTAGGTATTTAGCATAAGGTCATCCCATCTCAGGTAA
TTTAGGGTTATCAG
Found at i:15655 original size:2 final size:2
Alignment explanation
Indices: 15648--15680 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15638 CACTCTATTT
15648 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15681 TTTGTATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18559 original size:21 final size:21
Alignment explanation
Indices: 18521--18560 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18511 TAATGTAAAT
* *
18521 AAATATTTTTATATTTTTATA
1 AAATATTTTTAAAATTTTATA
*
18542 AAATTTTTTTAAAATTTTA
1 AAATATTTTTAAAATTTTA
18561 ATTTAATTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AAATATTTTTAAAATTTTATA
Found at i:18637 original size:15 final size:15
Alignment explanation
Indices: 18609--18652 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
18599 TATTTATTTA
*
18609 TAAACAATAAAAAAGG
1 TAAA-AATAAAAAAAG
18625 T-AAAATAAAAAAAG
1 TAAAAATAAAAAAAG
18639 TAAAAATAAAAAAA
1 TAAAAATAAAAAAA
18653 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 11 0.42
15 14 0.54
16 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (15 bp):
TAAAAATAAAAAAAG
Found at i:18655 original size:19 final size:20
Alignment explanation
Indices: 18625--18662 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18615 ATAAAAAAGG
18625 TAAAATAAAAAAAGTAAAAA
1 TAAAATAAAAAAAGTAAAAA
*
18645 TAAAA-AAAAAAATTAAAA
1 TAAAATAAAAAAAGTAAAA
18663 CGTTTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (20 bp):
TAAAATAAAAAAAGTAAAAA
Found at i:20494 original size:21 final size:21
Alignment explanation
Indices: 20451--20509 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
20441 ATATAAACCA
* *
20451 TTTAAATGGTAATTTGACATT
1 TTTAAATGGTGATTTGGCATT
**
20472 TTTAAATGGTGATTTGGGGTT
1 TTTAAATGGTGATTTGGCATT
*
20493 TTTAAATGATGATTTGG
1 TTTAAATGGTGATTTGG
20510 TAGAATCACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (21 bp):
TTTAAATGGTGATTTGGCATT
Found at i:20621 original size:22 final size:22
Alignment explanation
Indices: 20595--20636 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20585 TTCAAGACTC
*
20595 GAAATATACTTTCC-TAAATCGT
1 GAAATAT-CATTCCATAAATCGT
20617 GAAATATCATTCCATAAATC
1 GAAATATCATTCCATAAATC
20637 CTTCAACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (22 bp):
GAAATATCATTCCATAAATCGT
Found at i:21044 original size:2 final size:2
Alignment explanation
Indices: 21039--21067 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21029 ACATACATAC
21039 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21068 AGTCATTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25833 original size:2 final size:2
Alignment explanation
Indices: 25826--25869 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
25816 AAAGAGCCAA
25826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25868 AT
1 AT
25870 TTTACCTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34195 original size:6 final size:6
Alignment explanation
Indices: 34184--34217 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
34174 CTATCTGTTT
34184 TATTAA TATTAA TATTAA TAATTAA TAATTAA TA
1 TATTAA TATTAA TATTAA T-ATTAA T-ATTAA TA
34218 CTAAAAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TATTAA
Found at i:34209 original size:7 final size:7
Alignment explanation
Indices: 34185--34217 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
34175 TATCTGTTTT
34185 ATTAAT-
1 ATTAATA
34191 ATTAAT-
1 ATTAATA
34197 ATTAATA
1 ATTAATA
34204 ATTAATA
1 ATTAATA
34211 ATTAATA
1 ATTAATA
34218 CTAAAAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTAATA
Found at i:34571 original size:23 final size:24
Alignment explanation
Indices: 34536--34586 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
34526 TTTTTTTATC
34536 AAAA-TTTAAATTA-AATTATTTA
1 AAAATTTTAAATTATAATTATTTA
* *
34558 AAAATTTTATATTATTATTATTTA
1 AAAATTTTAAATTATAATTATTTA
34582 AAAAT
1 AAAAT
34587 AATATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 8 0.32
24 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAAATTTTAAATTATAATTATTTA
Found at i:34582 original size:38 final size:35
Alignment explanation
Indices: 34539--34625 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 35
34529 TTTTATCAAA
34539 ATTTAAATTAAATTATTTAAAAATTTTATATTATTATT
1 ATTTAAATTAAATTATTTAAAAATTTTATA-T-TTA-T
* *
34577 ATTTAAA--AATAATATTTAAATATTTTATATTTAT
1 ATTTAAATTAA-ATTATTTAAAAATTTTATATTTAT
34611 ATTTATAATTAAATT
1 ATTTA-AATTAAATT
34626 TAAATAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
34 6 0.14
35 5 0.12
36 5 0.12
37 19 0.45
38 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (35 bp):
ATTTAAATTAAATTATTTAAAAATTTTATATTTAT
Found at i:34600 original size:24 final size:24
Alignment explanation
Indices: 34545--34600 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
34535 CAAAATTTAA
**
34545 ATTAA-ATTATTTAAAAATTTTAT
1 ATTAATATTATTTAAAAATAATAT
*
34568 ATTATTATTATTTAAAAATAATAT
1 ATTAATATTATTTAAAAATAATAT
34592 -TTAAATATT
1 ATT-AATATT
34601 TTATATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTAATATTATTTAAAAATAATAT
Found at i:34602 original size:37 final size:34
Alignment explanation
Indices: 34552--34631 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 34
34542 TAAATTAAAT
*
34552 TATTTAAAAATTTTATATTATTATTATTTAAAAATAA
1 TATTTAAATATTTTATA-T-TTA-TATTTAAAAATAA
* *
34589 TATTTAAATATTTTATATTTATATTTATAATTAA
1 TATTTAAATATTTTATATTTATATTTAAAAATAA
34623 -ATTTAAATA
1 TATTTAAATA
34632 AATATTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 9 0.22
34 11 0.28
35 3 0.08
36 1 0.03
37 16 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
TATTTAAATATTTTATATTTATATTTAAAAATAA
Found at i:36713 original size:17 final size:17
Alignment explanation
Indices: 36693--36752 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 17
36683 TATTTAAATA
36693 TTTATATTATATTTAT-T
1 TTTATATTAT-TTTATAT
36710 TTTATATTATTTTATAT
1 TTTATATTATTTTATAT
*
36727 TTTA-ATTATTTTTTAT
1 TTTATATTATTTTATAT
*
36743 ATTATGATTA
1 TTTAT-ATTA
36753 ACGTTATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
16 19 0.50
17 15 0.39
18 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATATTATTTTATAT
Found at i:36752 original size:18 final size:19
Alignment explanation
Indices: 36714--36752 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
36704 TTTATTTTTA
*
36714 TATTATTTTATATTTTAAT
1 TATTATTTTATATTATAAT
*
36733 TATT-TTTTATATTATGAT
1 TATTATTTTATATTATAAT
36751 TA
1 TA
36753 ACGTTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TATTATTTTATATTATAAT
Found at i:36763 original size:28 final size:28
Alignment explanation
Indices: 36702--36766 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
36692 ATTTATATTA
* **
36702 TATTTA-TTTTTATATTATTTTATATTT
1 TATTTATTTTTTATATTATATTATACGT
*
36729 TAATTATTTTTTATATTATGATTA-ACGT
1 TATTTATTTTTTATATTAT-ATTATACGT
36757 TATTTATTTT
1 TATTTATTTT
36767 AAATAAGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 5 0.16
28 23 0.74
29 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (28 bp):
TATTTATTTTTTATATTATATTATACGT
Found at i:37139 original size:16 final size:17
Alignment explanation
Indices: 37105--37140 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
37095 ATTTTAAAAA
37105 TTAATATTTAATAAATT
1 TTAATATTTAATAAATT
*
37122 TTAATATTT-ATAATTT
1 TTAATATTTAATAAATT
37138 TTA
1 TTA
37141 TCCCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATATTTAATAAATT
Found at i:37530 original size:11 final size:9
Alignment explanation
Indices: 37506--37530 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37496 TCTATTATAG
37506 TTATATATT
1 TTATATATT
37515 TTATATATT
1 TTATATATT
37524 TTATATA
1 TTATATA
37531 ACTATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATATATT
Found at i:38701 original size:13 final size:13
Alignment explanation
Indices: 38685--38709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38675 TTATTTTTTA
38685 AATATATAATAAG
1 AATATATAATAAG
38698 AATATATAATAA
1 AATATATAATAA
38710 TTTTTTAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATATATAATAAG
Found at i:38916 original size:19 final size:21
Alignment explanation
Indices: 38875--38920 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
38865 TATAATTATG
38875 AAAAATATAAAAATGAATGTT
1 AAAAATATAAAAATGAATGTT
*
38896 AAAAA-ATAAAAATTAAT-TT
1 AAAAATATAAAAATGAATGTT
38915 AAAAAT
1 AAAAAT
38921 CAATTAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 11 0.48
21 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAATATAAAAATGAATGTT
Found at i:50602 original size:22 final size:21
Alignment explanation
Indices: 50576--50633 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
50566 ATTTAACAAA
50576 ATTAATTTAAATAATATAATTT
1 ATTAATTTAAATAATATAA-TT
* *
50598 ATTAATAATAAA-AATTTAATT
1 ATTAAT-TTAAATAATATAATT
*
50619 ACATAATTTAAATAA
1 A-TTAATTTAAATAA
50634 ATTAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 7 0.24
22 18 0.62
23 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAATTTAAATAATATAATT
Found at i:51326 original size:2 final size:2
Alignment explanation
Indices: 51319--51350 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
51309 AATAATCATT
*
51319 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51351 AAGGGGTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:51965 original size:20 final size:18
Alignment explanation
Indices: 51929--51979 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
51919 ACTCTAATTT
*
51929 TTATTTTAATAAAAAATAA
1 TTATTTT-ATTAAAAATAA
51948 TTATGTCTTATTAAAAATAA
1 TTAT-T-TTATTAAAAATAA
51968 TTATTTTATTAA
1 TTATTTTATTAA
51980 TTATAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 7 0.24
19 5 0.17
20 15 0.52
21 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATTTTATTAAAAATAA
Found at i:52842 original size:18 final size:17
Alignment explanation
Indices: 52808--52841 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52798 ATTTTAGATT
52808 TTTAATAATAAAATATA
1 TTTAATAATAAAATATA
*
52825 TTTATTAATAAAA-ATA
1 TTTAATAATAAAATATA
52841 T
1 T
52842 AAAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAATAATAAAATATA
Found at i:53067 original size:17 final size:18
Alignment explanation
Indices: 53032--53070 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
53022 TAATATTTTG
* *
53032 AAAATTAATTTTATAAAT
1 AAAAATAATTTAATAAAT
53050 AAAAATAATTTAAT-AAT
1 AAAAATAATTTAATAAAT
53067 AAAA
1 AAAA
53071 GTCATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATAATTTAATAAAT
Found at i:53479 original size:65 final size:65
Alignment explanation
Indices: 53375--53501 Score: 218
Period size: 65 Copynumber: 2.0 Consensus size: 65
53365 AATTAGAGTT
* *
53375 CTTCCTATGATAAGTTGTGATATTAAAGTCAACAAGTACAATCCAAAGCCTACAATACACAATAC
1 CTTCCTATGATAAGTTGTGATATTAAAGTCAACAAGTACAATCCAAAACCTAAAATACACAATAC
* *
53440 CTTCCTATGATGAGTTTTGATATTAAAGTCAACAAGTACAATCCAAAACCTAAAATACACAA
1 CTTCCTATGATAAGTTGTGATATTAAAGTCAACAAGTACAATCCAAAACCTAAAATACACAA
53502 AACTTGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (65 bp):
CTTCCTATGATAAGTTGTGATATTAAAGTCAACAAGTACAATCCAAAACCTAAAATACACAATAC
Found at i:54563 original size:22 final size:21
Alignment explanation
Indices: 54538--54581 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
54528 AATTTTGATT
*
54538 TTCAATAATCTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
*
54560 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
54581 T
1 T
54582 AAGTGTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:54593 original size:19 final size:18
Alignment explanation
Indices: 54569--54631 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
54559 ATTCAGTAAA
54569 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
54588 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
54601 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
54620 TGTATCGATACA
1 TGTATCGATACA
54632 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:54606 original size:13 final size:13
Alignment explanation
Indices: 54588--54612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54578 ACATAAGTGT
54588 TGTATCGATACAA
1 TGTATCGATACAA
54601 TGTATCGATACA
1 TGTATCGATACA
54613 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:54608 original size:32 final size:32
Alignment explanation
Indices: 54567--54639 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
54557 ACATTCAGTA
54567 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
54599 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
54631 AATGTATCG
1 AATGTATCG
54640 CTATGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:54682 original size:21 final size:21
Alignment explanation
Indices: 54656--54697 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
54646 AGCTACTACC
54656 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
54677 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
54698 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:54702 original size:13 final size:13
Alignment explanation
Indices: 54684--54709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54674 ATTAAGGAAA
54684 TGTATCGATACAT
1 TGTATCGATACAT
54697 TGTATCGATACAT
1 TGTATCGATACAT
54710 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56895 original size:18 final size:18
Alignment explanation
Indices: 56874--56909 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
56864 CCAAATCTGC
56874 CCAAACAAAATTCAAAAA
1 CCAAACAAAATTCAAAAA
56892 CCAAACAAAATTCAAAAA
1 CCAAACAAAATTCAAAAA
56910 GGAGGACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (18 bp):
CCAAACAAAATTCAAAAA
Found at i:57127 original size:52 final size:51
Alignment explanation
Indices: 57059--57455 Score: 219
Period size: 52 Copynumber: 7.6 Consensus size: 51
57049 GTTAAGTTTC
57059 CCAATTGTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
1 CCAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
* * * *
57110 CCAATTTTCCTTTAATCGGGAATACTCCGACTCCGATTTTATTTTCAAAAACA
1 CCAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACA
* * * * * * ***** * *
57163 CTAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACT
1 CCAATTTTCCATAATCGGGGATACTCCAACCCCG--ATTTTATTTTCAAAACA
* * * * ** ** ** *
57216 CCAACCCCGTTACC-T-CTGAGGGGATACTCCAACCTTGGCTTTATTCCCAAAATA
1 CCAA----TTTTCCATAAT-CGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
*** * * *
57270 TTGA-TTTCTCATAATCGGGAATACTCTAACCCCGGTTTTA-TTTCTAAAACA
1 CCAATTTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACA
* * * *
57321 CTAATTTTCCACAATCGGGGATACTTCAACCCTGATTTTATTTTCAAAACA
1 CCAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
* * * * *
57372 CAAATTTTCCTTTAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACA
1 CCAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACA
* * *
57425 CCAATTTTTCACAATCGAGGATACTCCAACC
1 CCAATTTTCCATAATCGGGGATACTCCAACC
57456 TCGTTATTTC
Statistics
Matches: 250, Mismatches: 78, Indels: 35
0.69 0.21 0.10
Matches are distributed among these distances:
49 3 0.01
50 5 0.02
51 74 0.30
52 101 0.40
53 34 0.14
54 13 0.05
55 1 0.00
56 16 0.06
57 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CCAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
Found at i:57212 original size:28 final size:28
Alignment explanation
Indices: 57176--57250 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
57166 ATTTTTCACA
* **
57176 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACCTC
*
57204 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCTCGTTACCTC
*
57232 -TGAGGGGATACTCCAACCT
1 AT-CGGGGATACTCCAACCT
57251 TGGCTTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACCTC
Found at i:57489 original size:28 final size:29
Alignment explanation
Indices: 57438--57512 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
57428 ATTTTTCACA
* **
57438 ATCGAGGATACTCCAA-CCTCGTTATTTC
1 ATCGGGGATACTCCAACCCTCGTTACCTC
57466 ATCGGGGATACTCCAACCCT-GTTACCTC
1 ATCGGGGATACTCCAACCCTCGTTACCTC
*
57494 -TGAGGGGATACTCCAACCC
1 AT-CGGGGATACTCCAACCC
57513 CGACTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 37 0.90
29 3 0.07
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCTCGTTACCTC
Found at i:57536 original size:262 final size:262
Alignment explanation
Indices: 57071--57565 Score: 857
Period size: 262 Copynumber: 1.9 Consensus size: 262
57061 AATTGTTCAT
*
57071 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGAATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACAAATTTTCCTTTAATCGGGAATACT
* *
57136 CCGACTCCGATTTTATTTTCAAAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCGACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
** *
57201 TTCATCGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCTTGGCTTTATTCCCAA
131 TTCATCGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGACTTTATTCCCAA
*
57266 AATATTGATTTCTCATAATCGGGAATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
196 AATATTGATTTCTCATAATCGGGAATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
57331 AC
261 AC
* * *
57333 AATCGGGGATACTTCAACCCTGATTTTATTTTCAAAACACAAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACAAATTTTCCTTTAATCGGGAATACT
57398 CC-AGCTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA
66 CCGA-CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA
*
57462 TTTCATCGGGGATACTCCAACCCTGTTACCTCTGAGGGGATACTCCAACCCCGACTTTATTCCCA
130 TTTCATCGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGACTTTATTCCCA
* *
57527 AAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
195 AAATATTGATTTCTCATAATCGGGAATACTCCAACCCCG
57566 TTATTTCCGA
Statistics
Matches: 219, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
261 1 0.00
262 218 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (262 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACAAATTTTCCTTTAATCGGGAATACT
CCGACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
TTCATCGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGACTTTATTCCCAA
AATATTGATTTCTCATAATCGGGAATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
AC
Found at i:57600 original size:79 final size:79
Alignment explanation
Indices: 57468--57649 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 79
57458 GTTATTTCAT
* ** *
57468 CGGGGATACTCCAACCCTGTTACCTCTGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCC-AAATCA
* * *
57532 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* * * * *
57547 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAATCAT
*
57612 CGATTTTTCACAAC
66 CGATTTCTCACAAC
*
57626 CGGAGATACTCCAACCCCGTTATT
1 CGGGGATACTCCAACCCCGTTATT
57650 ATCTCTAAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 3 0.03
79 84 0.97
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAATCAT
CGATTTCTCACAAC
Found at i:65542 original size:10 final size:11
Alignment explanation
Indices: 65517--65546 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
65507 TTATTACAGG
65517 TTTTTCAAGGA
1 TTTTTCAAGGA
65528 TTTTTCAAGGA
1 TTTTTCAAGGA
65539 TTTTTCAA
1 TTTTTCAA
65547 AGATAGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (11 bp):
TTTTTCAAGGA
Found at i:69332 original size:20 final size:20
Alignment explanation
Indices: 69307--69360 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
69297 ATTTGCCTGC
69307 ATGTATCGATACATTTTATA
1 ATGTATCGATACATTTTATA
69327 ATGTATCGATACATTTTATA
1 ATGTATCGATACATTTTATA
69347 ATGTATCGATACAT
1 ATGTATCGATACAT
69361 CTGGGCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTATA
Found at i:69372 original size:72 final size:72
Alignment explanation
Indices: 69255--69391 Score: 247
Period size: 72 Copynumber: 1.9 Consensus size: 72
69245 ATTTGCCTGC
*
69255 ATGTATCGATACATTTAATAGTGTATCGATACATCTGAGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAATTTGCCTGCATGTATCGATACA
69320 TTTTATA
66 TTTTATA
* *
69327 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAATTTGCCTGCATGTATCGATACA
69392 AAGATCAGTG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (72 bp):
ATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAATTTGCCTGCATGTATCGATACA
TTTTATA
Found at i:69404 original size:72 final size:72
Alignment explanation
Indices: 69255--69411 Score: 226
Period size: 72 Copynumber: 2.2 Consensus size: 72
69245 ATTTGCCTGC
*
69255 ATGTATCGATACATTTAATAGTGTATCGATACATCTGAGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAATTTGCCTGCATGTATCGATACA
***
69320 TTTTATA
66 TAAGATA
* *
69327 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAATTTGCCTGCATGTATCGATACA
69392 -AAGATCA
66 TAAGAT-A
* *
69399 GTGTATTGATACA
1 ATGTATCGATACA
69412 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
71 2 0.03
72 74 0.97
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (72 bp):
ATGTATCGATACATTTAATAATGTATCGATACATCTGAGCAAATTTGCCTGCATGTATCGATACA
TAAGATA
Found at i:69505 original size:13 final size:13
Alignment explanation
Indices: 69487--69511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69477 CAAAAAAATA
69487 TGTATCGATACAT
1 TGTATCGATACAT
69500 TGTATCGATACA
1 TGTATCGATACA
69512 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72677 original size:16 final size:16
Alignment explanation
Indices: 72644--72718 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 16
72634 TTTGATGATA
* *
72644 TTAAATTTGAATTTTT
1 TTAAATTTAAATATTT
*
72660 TTTAATTTAAATAATTT
1 TTAAATTTAAAT-ATTT
*
72677 TT-TATTTAAAT-TTT
1 TTAAATTTAAATATTT
*
72691 TTCGAATTTAAA-ATTTT
1 TT-AAATTTAAATA-TTT
72708 TTAAATTTAAA
1 TTAAATTTAAA
72719 CATATTTTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
14 5 0.10
16 33 0.69
17 10 0.21
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (16 bp):
TTAAATTTAAATATTT
Found at i:72716 original size:32 final size:34
Alignment explanation
Indices: 72644--72718 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 34
72634 TTTGATGATA
* **
72644 TTAAATTTGAATTTTTTTTAATTTAAATAATTTT
1 TTAAATTTAAATTTTTTCGAATTTAAATAATTTT
72678 TT--ATTTAAATTTTTTCGAATTT-AA-AATTTT
1 TTAAATTTAAATTTTTTCGAATTTAAATAATTTT
72708 TTAAATTTAAA
1 TTAAATTTAAA
72719 CATATTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 8 0.22
31 2 0.06
32 24 0.67
34 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (34 bp):
TTAAATTTAAATTTTTTCGAATTTAAATAATTTT
Found at i:74962 original size:19 final size:17
Alignment explanation
Indices: 74940--74982 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
74930 TTAAATTTTA
*
74940 ATATATTATAATTTATGTT
1 ATATATTATAA-TAAT-TT
*
74959 ATATATTTTAATAATTT
1 ATATATTATAATAATTT
74976 ATATATT
1 ATATATT
74983 TATATCGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 3 0.14
19 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
ATATATTATAATAATTT
Found at i:75362 original size:26 final size:26
Alignment explanation
Indices: 75320--75372 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
75310 TCGATTATTT
* *
75320 ATTTTTAAATTTAAATTTAAATTAAA
1 ATTTTTAAATTTAAATTAAAATAAAA
*
75346 ATTTTTTAATATT-AATTAAAATAAAA
1 ATTTTTAAAT-TTAAATTAAAATAAAA
75372 A
1 A
75373 ATTCAATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTTTTAAATTTAAATTAAAATAAAA
Found at i:77603 original size:79 final size:79
Alignment explanation
Indices: 77456--77631 Score: 176
Period size: 79 Copynumber: 2.2 Consensus size: 79
77446 ACCTTAAGGT
* * * * * **
77456 TATTTTTACATTAAAATCGAATCCTTTAAGGTCATGTTAGTATTTCCATATCAAAATTGAAATTT
1 TATTTTTACATCAAAATTGAATCCTTTAAGGTCATGTTAGCATTTACATATCAAAATTCAAACCT
77521 TAGGATTATTTTAA
66 TAGGATTATTTTAA
* * * *
77535 TATTTTTACATGAAAATTGAGT-CTTTTAGTGTCATGTTAGCATTTACATGTCAAAA-TCAAACC
1 TATTTTTACATCAAAATTGAATCCTTTAAG-GTCATGTTAGCATTTACATATCAAAATTCAAA-C
* * *
77598 CTTAGGGTTCTTTTAG
64 CTTAGGATTATTTTAA
* *
77614 TATTCTTAGATCAAAATT
1 TATTTTTACATCAAAATT
77632 AAGTTTTCTA
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 10 0.13
79 69 0.87
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (79 bp):
TATTTTTACATCAAAATTGAATCCTTTAAGGTCATGTTAGCATTTACATATCAAAATTCAAACCT
TAGGATTATTTTAA
Found at i:83668 original size:42 final size:42
Alignment explanation
Indices: 83613--83722 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
83603 TTCTTCTCTC
* * * *
83613 CTCCTCCTGTCATCCCTCCTCTCTTTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
*
83655 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
83697 CTCCTCCTATCATCCCTCCTCTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCT
83723 TCTTTCTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.10, C:0.46, G:0.02, T:0.42
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
Found at i:83672 original size:12 final size:11
Alignment explanation
Indices: 83646--83721 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
83636 TTTATTATCT
*
83646 CTCCTGTCTCTC
1 CTCCTATCTC-C
83658 CTCCTATCATCC
1 CTCCTATC-TCC
83670 CTCCTATCT--
1 CTCCTATCTCC
*
83679 CTACTATCT--
1 CTCCTATCTCC
83688 CTCCTATCTCTC
1 CTCCTATCTC-C
83700 CTCCTATCATCC
1 CTCCTATC-TCC
*
83712 CTCCTCTCTC
1 CTCCTATCTC
83722 TTCTTTCTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
9 16 0.29
11 3 0.05
12 32 0.58
13 4 0.07
ACGTcount: A:0.11, C:0.49, G:0.01, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:83699 original size:9 final size:9
Alignment explanation
Indices: 83641--83701 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
83631 CTCTCTTTAT
83641 TATCTCTCC
1 TATCTCTCC
*
83650 TGTCTCTCC
1 TATCTCTCC
* *
83659 T-CCTAT-C
1 TATCTCTCC
*
83666 -ATCCCTCC
1 TATCTCTCC
*
83674 TATCTCTAC
1 TATCTCTCC
83683 TATCTCTCC
1 TATCTCTCC
83692 TATCTCTCC
1 TATCTCTCC
83701 T
1 T
83702 CCTATCATCC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.11, C:0.44, G:0.02, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:91650 original size:21 final size:21
Alignment explanation
Indices: 91624--91663 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
91614 TGATACAGGG
91624 CATATTGTATCAATACAATTA
1 CATATTGTATCAATACAATTA
*
91645 CATATTGTATCGATACAAT
1 CATATTGTATCAATACAAT
91664 GTTAACCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (21 bp):
CATATTGTATCAATACAATTA
Found at i:92711 original size:15 final size:15
Alignment explanation
Indices: 92691--92720 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92681 CATATAGCAT
92691 GTTGTGTATGATGCA
1 GTTGTGTATGATGCA
*
92706 GTTGTGTATGTTGCA
1 GTTGTGTATGATGCA
92721 TGCATTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.33, T:0.43
Consensus pattern (15 bp):
GTTGTGTATGATGCA
Found at i:102073 original size:22 final size:21
Alignment explanation
Indices: 102033--102073 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
102023 AAATTTATCA
**
102033 TTTTTTAAAATTTTTGAAGAT
1 TTTTTTAAAATTTAGGAAGAT
102054 TTTTTATAAAATTTAGGAAG
1 TTTTT-TAAAATTTAGGAAG
102074 TTATTTACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
TTTTTTAAAATTTAGGAAGAT
Found at i:102609 original size:294 final size:296
Alignment explanation
Indices: 102077--102647 Score: 873
Period size: 294 Copynumber: 1.9 Consensus size: 296
102067 TAGGAAGTTA
*
102077 TTTACCAAAACCTTGTAGTATTTGTATCCATATGCACTTTAAAAAATTAAAAATATTCAAGAAAA
1 TTTACCAAAACCTTGTAGTATTTATATCCATATGCACTTTAAAAAATTAAAAATATTCAAGAAAA
* * * * * *
102142 AATATGTATTCACATTTTCAACCACGTCGTGTTAAATTGTTAATTTTTTTAATTAATTTAGAATT
66 AATATGTATTCACATTTTCAACCACGTAGTGTCAAATTATCAATATTGTTAATTAATTTAGAATT
*
102207 TTTCATAGTATCATGAGTATTATGCTCGTGAAATTTTTCCTAGTTAAATTTATATTAGATTTTAA
131 TTTCATAGTATCATGAGTATTATGCTCGTGAAATTTTTCCTAGTTAAATTTATATTAAATTTTAA
102272 AATTTCACCATTTTCATTTCTAATAATTAATATTTCAGATAATATGTTGTATTTGATTCATTTTA
196 AATTTCACCATTTTCATTTCTAATAATTAATATTTCAGATAATATGTTGTATTTGATTCATTTTA
*
102337 TAAGTTTCAATGTATTTTGGATAATATTTGATTCAT
261 TAAGTTTCAAGGTATTTTGGATAATATTTGATTCAT
* * * *
102373 TTTACCAACACCTTGTAGTATTTATGTCGATATGCACTTTGAAAAATTAAAAATATTCAAGAAAA
1 TTTACCAAAACCTTGTAGTATTTATATCCATATGCACTTTAAAAAATTAAAAATATTCAAGAAAA
** *
102438 AA-ATGTATTCACATTTTTTACCATG-AGTTGTCAAA-TATCAATATTGTTAATTAATTT-GAAA
66 AATATGTATTCACATTTTCAACCACGTAG-TGTCAAATTATCAATATTGTTAATTAATTTAG-AA
* *
102499 TTTTTCATAGTATCATGAGTATTATGCTCGTGAAATTTTTCTTAGTTAAATTTGT-TTCAAATTT
129 TTTTTCATAGTATCATGAGTATTATGCTCGTGAAATTTTTCCTAGTTAAATTTATATT-AAATTT
** *
102563 TAAAATTTCACCATTTTCATTTCTAATAATTAATATTTTGGATAATATGTTGTATTTTATTCATT
193 TAAAATTTCACCATTTTCATTTCTAATAATTAATATTTCAGATAATATGTTGTATTTGATTCATT
* *
102628 TTATATGTTTTAAGGTATTT
258 TTATAAGTTTCAAGGTATTT
102648 CTTAAATTTT
Statistics
Matches: 249, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
293 3 0.01
294 158 0.63
295 26 0.10
296 62 0.25
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (296 bp):
TTTACCAAAACCTTGTAGTATTTATATCCATATGCACTTTAAAAAATTAAAAATATTCAAGAAAA
AATATGTATTCACATTTTCAACCACGTAGTGTCAAATTATCAATATTGTTAATTAATTTAGAATT
TTTCATAGTATCATGAGTATTATGCTCGTGAAATTTTTCCTAGTTAAATTTATATTAAATTTTAA
AATTTCACCATTTTCATTTCTAATAATTAATATTTCAGATAATATGTTGTATTTGATTCATTTTA
TAAGTTTCAAGGTATTTTGGATAATATTTGATTCAT
Found at i:105383 original size:153 final size:155
Alignment explanation
Indices: 105137--105498 Score: 428
Period size: 155 Copynumber: 2.3 Consensus size: 155
105127 TAGGTCACTA
* *
105137 TTATGCCAAAGATGTGTGTTTAGGATAAGTTCACCCTGTTTTTATGATC-TTTTTGTATCCTTTA
1 TTATGCCAAAGATGTGTGTTTAGGATAGGTTCATCC---TTTTATGATCATTTTTGTATCCTTTA
* ** * * *
105201 AAGTTATTAGGATACTTTCATATCAAAGGTATA-CTCCAAAGGTAATTTGGTAATTTTCT-AAAA
63 AAGTTACTACAATACTTTCACATCAAAGGTATACCT-CAAAGGCAATTTAGTAATTTTCTAAAAA
* * *
105264 TCGAGTCTTAGGTAGTTATCGGGTCGTTT
127 TCGAGTCTTAAGTAGTCATCAGGTCGTTT
* * *
105293 TTATGCCAAATG-TGTTTGTTTA-GATAGGTTCATCCTTTTATGATCATTTTTGTGTCCTTTAAG
1 TTATGCCAAA-GATGTGTGTTTAGGATAGGTTCATCCTTTTATGATCATTTTTGTATCCTTTAAA
** * * * * *
105356 GTTACTACAATACTTTCACATTGAAGGTATACCTTAAGGGCATTTTAGTATTTTTTTAAAAAATC
65 GTTACTACAATACTTTCACATCAAAGGTATACCTCAAAGGCAATTTAGTAATTTTCT-AAAAATC
105421 GAGTCTTAAGTAGTCATCAGGTCGTTT
129 GAGTCTTAAGTAGTCATCAGGTCGTTT
* *
105448 TTATGCCAAAGATGTGTGTTTAGGATAGGTTCTTCCTTTTATAATCATTTT
1 TTATGCCAAAGATGTGTGTTTAGGATAGGTTCATCCTTTTATGATCATTTT
105499 CATTTCTTTT
Statistics
Matches: 175, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
152 10 0.06
153 56 0.32
154 3 0.02
155 60 0.34
156 45 0.26
157 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (155 bp):
TTATGCCAAAGATGTGTGTTTAGGATAGGTTCATCCTTTTATGATCATTTTTGTATCCTTTAAAG
TTACTACAATACTTTCACATCAAAGGTATACCTCAAAGGCAATTTAGTAATTTTCTAAAAATCGA
GTCTTAAGTAGTCATCAGGTCGTTT
Found at i:105453 original size:155 final size:152
Alignment explanation
Indices: 105260--105617 Score: 429
Period size: 155 Copynumber: 2.3 Consensus size: 152
105250 GTAATTTTCT
* * *
105260 AAAATCGAGTCTTAGGTAGTTATCGGGTCGTTTTTATGCCAAATGTGTTTGTTTA-GATAGGTTC
1 AAAATCGAGTCTTAGGTAGTCATCAGGTCGTTTTTATGCCAAA-GTGTGTGTTTAGGATAGGTTC
* ** * *
105324 ATCCTTTTATGATCATTTTTGTGTCCTTTAAGGTTACTAC-AATACTTTCACATTGAAGGTATAC
65 ATCCTTTTATAATCATTTTCAT-TCCTTTAAGATTA-T-CGAATACTTTCACATTGAAGGCATAC
*
105388 CTTAAGG-GCATTTTAGTATTTTTTTAA
127 CTT-AGGAGCATTTTAGTA-ATTTTTAA
*
105415 AAAATCGAGTCTTAAGTAGTCATCAGGTCGTTTTTATGCCAAAGATGTGTGTTTAGGATAGGTTC
1 AAAATCGAGTCTTAGGTAGTCATCAGGTCGTTTTTATGCCAAAG-TGTGTGTTTAGGATAGGTTC
* * * *
105480 TTCCTTTTATAATCATTTTCATTTCTTTTAGATTATCGGGATACTTTCACATTGAAGGCATACCT
65 ATCCTTTTATAATCATTTTCATTCCTTTAAGATTATC-GAATACTTTCACATTGAAGGCATACCT
* *
105545 TAGGAGCATTTTGGTAATTTTTCA
129 TAGGAGCATTTTAGTAATTTTTAA
* * *
105569 AAAATCAATTCTTAGGTAGTCACCAGGAT-GTTTTTATGCCAAAG-GTGTG
1 AAAATCGAGTCTTAGGTAGTCATCAGG-TCGTTTTTATGCCAAAGTGTGTG
105618 CATTTAAGAA
Statistics
Matches: 177, Mismatches: 20, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
152 5 0.03
153 1 0.01
154 49 0.28
155 95 0.54
156 27 0.15
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (152 bp):
AAAATCGAGTCTTAGGTAGTCATCAGGTCGTTTTTATGCCAAAGTGTGTGTTTAGGATAGGTTCA
TCCTTTTATAATCATTTTCATTCCTTTAAGATTATCGAATACTTTCACATTGAAGGCATACCTTA
GGAGCATTTTAGTAATTTTTAA
Found at i:106463 original size:19 final size:19
Alignment explanation
Indices: 106441--106486 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
106431 AAAAATACAA
*
106441 AAAATAACAATATATTAAT
1 AAAATAACAATATATCAAT
**
106460 AAAATAATGATATATCAAT
1 AAAATAACAATATATCAAT
106479 AAATATAA
1 AAA-ATAA
106487 GAATGAGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATAACAATATATCAAT
Found at i:106897 original size:16 final size:16
Alignment explanation
Indices: 106882--106953 Score: 83
Period size: 16 Copynumber: 4.6 Consensus size: 16
106872 TTTGGATCAT
106882 TTTTAG-TTCAGGTCA
1 TTTTAGATTCAGGTCA
*
106897 TTTTAGATTCGGGTCA
1 TTTTAGATTCAGGTCA
* *
106913 CTTTAGATTCAAGTCA
1 TTTTAGATTCAGGTCA
* *
106929 TTCTAGGTTCAGGTCA
1 TTTTAGATTCAGGTCA
*
106945 TTTCAGATT
1 TTTTAGATT
106954 TGGCTTATTT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
15 6 0.13
16 39 0.87
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.43
Consensus pattern (16 bp):
TTTTAGATTCAGGTCA
Found at i:107024 original size:16 final size:16
Alignment explanation
Indices: 106940--107024 Score: 53
Period size: 16 Copynumber: 5.3 Consensus size: 16
106930 TCTAGGTTCA
*
106940 GGTCATTTCAGATTTG
1 GGTCATTTCAGGTTTG
* * ** *
106956 GCTTATTTTGGGTTTT
1 GGTCATTTCAGGTTTG
* *
106972 GGTCATTTCGGGTTCG
1 GGTCATTTCAGGTTTG
** *
106988 GGTTGTTTCAGGTTTA
1 GGTCATTTCAGGTTTG
* *
107004 AGTCATTTCAGATTTG
1 GGTCATTTCAGGTTTG
107020 GGTCA
1 GGTCA
107025 ATCGAGTTTA
Statistics
Matches: 47, Mismatches: 22, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.14, C:0.12, G:0.28, T:0.46
Consensus pattern (16 bp):
GGTCATTTCAGGTTTG
Found at i:107822 original size:16 final size:16
Alignment explanation
Indices: 107782--107842 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
107772 TGTGTTTTTA
* *
107782 ATTTATTAATA-ATTT
1 ATTTATAAATATAATT
107797 ATATTATAAATA-AAGTT
1 AT-TTATAAATATAA-TT
*
107814 ATTTTTAAAATATAATT
1 ATTTAT-AAATATAATT
107831 ATTTATAAATAT
1 ATTTATAAATAT
107843 TTATTTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 2 0.05
16 18 0.47
17 16 0.42
18 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTATAAATATAATT
Found at i:107824 original size:17 final size:17
Alignment explanation
Indices: 107790--107839 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
107780 TAATTTATTA
107790 ATAATTTATATTAT-AAAT
1 ATAA-TTAT-TTATAAAAT
*
107808 A-AAGTTATTTTTAAAAT
1 ATAA-TTATTTATAAAAT
107825 ATAATTATTTATAAA
1 ATAATTATTTATAAA
107840 TATTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
ATAATTATTTATAAAAT
Found at i:108405 original size:2 final size:2
Alignment explanation
Indices: 108398--108451 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
108388 TATTGGACTT
* * *
108398 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108440 TA TA TA TA -A TA T
1 TA TA TA TA TA TA T
108452 GAAGCATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112631 original size:16 final size:16
Alignment explanation
Indices: 112565--112631 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
112555 GTTCAGAAAT
**
112565 TTTCGAGTTTGGGTCA
1 TTTCGAGTTTAAGTCA
* *
112581 TTTTGAGTTCAAGTCA
1 TTTCGAGTTTAAGTCA
** *
112597 TTTCG-GATTTGGGTTA
1 TTTCGAG-TTTAAGTCA
112613 TTTCGAGTTTAAGTCA
1 TTTCGAGTTTAAGTCA
112629 TTT
1 TTT
112632 TTGGGTTCCA
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
15 1 0.03
16 35 0.95
17 1 0.03
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.48
Consensus pattern (16 bp):
TTTCGAGTTTAAGTCA
Found at i:120130 original size:14 final size:14
Alignment explanation
Indices: 120102--120134 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
120092 TTCAAAATTT
120102 TTTTAAAAATAAAA
1 TTTTAAAAATAAAA
120116 TATTTAAAAAT-AAA
1 T-TTTAAAAATAAAA
120130 TTTTA
1 TTTTA
120135 CAATTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTTAAAAATAAAA
Found at i:122143 original size:21 final size:22
Alignment explanation
Indices: 122119--122169 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 22
122109 TAAGATCTTT
122119 TTTTTTAATTATAAATAAAA-A
1 TTTTTTAATTATAAATAAAAGA
* *
122140 --TTTTAATT-TTATTAAAAGA
1 TTTTTTAATTATAAATAAAAGA
122159 TTTTTTAATTA
1 TTTTTTAATTA
122170 AATTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
21 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTTTAATTATAAATAAAAGA
Found at i:122328 original size:62 final size:64
Alignment explanation
Indices: 122234--122409 Score: 212
Period size: 62 Copynumber: 2.7 Consensus size: 64
122224 TTAATATGTT
* *
122234 AATTTTTCATTAACTTCAAAAATAATAAAATTTATATTAATTTCTCATAATTCGTGCATATATTA
1 AATTTTT-ATTAACAT-AAAAATAATAAAATTTATATTAATTTCACATAATTCGTGCATATATTA
122299 A
64 A
* * * * * *
122300 AATTTTTATTAACAT-AAAATAA-ATAATTTATATTAATTTGACATAATTTGTTCATATGTTTA
1 AATTTTTATTAACATAAAAATAATAAAATTTATATTAATTTCACATAATTCGTGCATATATTAA
* *
122362 AATTTTTGTTAACATTAAAAATAATAAAATTTATCTTAATTTGCACAT
1 AATTTTTATTAACA-TAAAAATAATAAAATTTATATTAATTT-CACAT
122410 GAAACAAGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
62 46 0.49
63 8 0.09
64 7 0.07
65 22 0.23
66 11 0.12
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (64 bp):
AATTTTTATTAACATAAAAATAATAAAATTTATATTAATTTCACATAATTCGTGCATATATTAA
Found at i:122583 original size:15 final size:16
Alignment explanation
Indices: 122564--122608 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
122554 TAATAAAAGA
122564 ATAAATAATTTAATTT
1 ATAAATAATTTAATTT
* *
122580 -TAAATAAAATAAATTT
1 ATAAAT-AATTTAATTT
122596 ATAAATAATTTAA
1 ATAAATAATTTAA
122609 AAATTTTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.22
16 13 0.57
17 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAATAATTTAATTT
Found at i:122609 original size:17 final size:17
Alignment explanation
Indices: 122564--122609 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
122554 TAATAAAAGA
122564 ATAAATAATTT-AATTT
1 ATAAATAATTTAAATTT
**
122580 -TAAATAAAATAAATTT
1 ATAAATAATTTAAATTT
122596 ATAAATAATTTAAA
1 ATAAATAATTTAAA
122610 AATTTTCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAATAATTTAAATTT
Found at i:122776 original size:27 final size:28
Alignment explanation
Indices: 122743--122796 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
122733 TTATATAAAA
122743 ATTTAATA-TCTAATAAATATAAATTTT
1 ATTTAATATTCTAATAAATATAAATTTT
* *
122770 ATTTAATATTTTAATAAATTTAAATTT
1 ATTTAATATTCTAATAAATATAAATTT
122797 AAATTGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTAATATTCTAATAAATATAAATTTT
Found at i:123308 original size:13 final size:12
Alignment explanation
Indices: 123270--123304 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
123260 TGTATGCTTT
123270 TTATTTTTTC-C
1 TTATTTTTTCTC
123281 TTAATTTTTTCTC
1 TT-ATTTTTTCTC
123294 TTATTTTTTCT
1 TTATTTTTTCT
123305 TCTTTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.09
12 17 0.77
13 3 0.14
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTTTTTCTC
Found at i:133077 original size:18 final size:18
Alignment explanation
Indices: 133029--133069 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
133019 AATTTTTAAT
* * *
133029 TTATTACTAGAATTCTCA
1 TTATTAATAAAATTATCA
133047 TTATTAATAAAATTATCA
1 TTATTAATAAAATTATCA
133065 TTATT
1 TTATT
133070 CATGAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATTAATAAAATTATCA
Found at i:136227 original size:8 final size:9
Alignment explanation
Indices: 136204--136232 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
136194 AATGTCACAA
136204 AGCTTTGGT
1 AGCTTTGGT
136213 AGCTTTGGT
1 AGCTTTGGT
136222 -GCTTTGGT
1 AGCTTTGGT
136230 AGC
1 AGC
136233 CAAAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.14, G:0.34, T:0.41
Consensus pattern (9 bp):
AGCTTTGGT
Found at i:138660 original size:16 final size:17
Alignment explanation
Indices: 138636--138677 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
138626 AAAGTGATGG
* *
138636 TTTAATTTATTAAAT-A
1 TTTATTTTATAAAATAA
138652 TTTATTTTATAAAATAA
1 TTTATTTTATAAAATAA
*
138669 TTAATTTTA
1 TTTATTTTA
138678 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTATTTTATAAAATAA
Found at i:138777 original size:20 final size:20
Alignment explanation
Indices: 138748--138797 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
138738 GATTTGAAGT
*
138748 AAAATATAAAATTATTTTA-A
1 AAAATTTAAAATT-TTTTATA
138768 AAAATTT-AAATTTTTTATTA
1 AAAATTTAAAATTTTTTA-TA
138788 AAAATTTAAA
1 AAAATTTAAA
138798 TGTTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 14 0.54
21 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTTAAAATTTTTTATA
Found at i:138778 original size:19 final size:19
Alignment explanation
Indices: 138756--138798 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
138746 GTAAAATATA
138756 AAATTATTTTA-AAAAATTT
1 AAATT-TTTTATAAAAATTT
138775 AAATTTTTTATTAAAAATTT
1 AAATTTTTTA-TAAAAATTT
138795 AAAT
1 AAAT
138799 GTTATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTTTTTATAAAAATTT
Found at i:138835 original size:31 final size:28
Alignment explanation
Indices: 138780--138838 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 28
138770 AATTTAAATT
* *
138780 TTTTATTAAAAATTTAAATGTTATAATA
1 TTTTATTAAAAAATTAAATATTATAATA
138808 TTTTATTATAATAAATTAAATTATTATAATA
1 TTTTATTA-AA-AAATTAAA-TATTATAATA
138839 ATTATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 2 0.08
30 7 0.27
31 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TTTTATTAAAAAATTAAATATTATAATA
Found at i:138865 original size:27 final size:27
Alignment explanation
Indices: 138835--138886 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
138825 AAATTATTAT
* *
138835 AATAATTATTTTATTTTATTTTTATAA
1 AATAATTATTTTATTATAATTTTATAA
138862 AATAATTATTTTATTATAATTTTAT
1 AATAATTATTTTATTATAATTTTAT
138887 TCGACTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
AATAATTATTTTATTATAATTTTATAA
Found at i:139416 original size:2 final size:2
Alignment explanation
Indices: 139403--139433 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
139393 AGAATTTTCA
*
139403 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
139434 GTAGCTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:140733 original size:28 final size:28
Alignment explanation
Indices: 140702--140757 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
140692 AAATAGCAAA
140702 ATAAA-TCAACAAAAAAAAATCTAACTTC
1 ATAAAGTCAA-AAAAAAAAATCTAACTTC
**
140730 ATAAAGTTTTAAAAAAAAAATCTAACTT
1 ATAAAG-TCAAAAAAAAAAATCTAACTT
140758 ATATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 17 0.71
30 2 0.08
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (28 bp):
ATAAAGTCAAAAAAAAAAATCTAACTTC
Found at i:140856 original size:2 final size:2
Alignment explanation
Indices: 140849--140876 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
140839 TAATTATTAA
140849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
140877 GAAATTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141236 original size:3 final size:3
Alignment explanation
Indices: 141230--141280 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
141220 AACCTTTGAG
141230 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
141278 ATA
1 ATA
141281 TCAAAAGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:144408 original size:30 final size:27
Alignment explanation
Indices: 144374--144442 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 27
144364 TGTGTTTTTG
*
144374 TTTTTGTTTTTTTTGTTTCTATTTTCTCTC
1 TTTTT-TTTTTTTTCTTTCT-TTTT-TCTC
*
144404 TTTTTTTCTATTTTCTTTCTTTTTTCTC
1 TTTTTTT-TTTTTTCTTTCTTTTTTCTC
*
144432 TTTTTCTTTTT
1 TTTTTTTTTTT
144443 CTGTCCACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 3 0.09
28 10 0.29
29 6 0.18
30 15 0.44
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (27 bp):
TTTTTTTTTTTTTCTTTCTTTTTTCTC
Found at i:144418 original size:26 final size:25
Alignment explanation
Indices: 144380--144444 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
144370 TTTGTTTTTG
* *
144380 TTTTTTTTGTTTCTATT-TTCTCTCTT
1 TTTTTCTT-TTTCT-TTCTTCTCTCTC
* *
144406 TTTTTCTATTTTCTTTCTTTTTTCTC
1 TTTTTCT-TTTTCTTTCTTCTCTCTC
144432 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
144445 GTCCACCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
25 8 0.24
26 24 0.73
27 1 0.03
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (25 bp):
TTTTTCTTTTTCTTTCTTCTCTCTC
Found at i:144439 original size:19 final size:19
Alignment explanation
Indices: 144384--144440 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
144374 TTTTTGTTTT
*
144384 TTTTGTTTCTATTTTCTCTC
1 TTTT-TTTCTATTTTCTTTC
144404 TTTTTTTCTATTTTCTTTC
1 TTTTTTTCTATTTTCTTTC
144423 TTTTTTCTCT-TTTTCTTT
1 TTTTTT-TCTATTTTCTTT
144441 TTCTGTCCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 28 0.80
20 7 0.20
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTTCTATTTTCTTTC
Found at i:145194 original size:165 final size:165
Alignment explanation
Indices: 145000--145325 Score: 412
Period size: 165 Copynumber: 2.0 Consensus size: 165
144990 ATGTTAGATG
* * * * * **
145000 AATTTTAAAAATTTTAAATCAAGAAAAATCTCCCCGAAAATATTTATAGAATTGAAAACTCGGT-
1 AATTTTAAAAATTATAAACCAAGAAAAATCCCCCCAAAAATATTTACAGAATAAAAAACTCGGTA
*
145064 TTTTCAAAAATAGGAA-AATTTCAAAGAAAAAATGAAAAACTT-ATGAAAATAAATGAAAATTTT
66 TTTT-AAAAATA-GAAGAATTTC-AAGAAAAAATGAAAAA-TTCATG-AAATAAAAGAAAATTTT
*
145127 -AAAACTGATTT-ACTATGAATTAAATGATGATATTTGATA
126 CAAAAATGATTTGA-TATGAATTAAATGATGATATTTGATA
* * **
145166 AATTTT-AAAATTATAAACCAAGAAAAATCCCCCCAAAAATATTTACGGAGTAAAAAACTTTGTA
1 AATTTTAAAAATTATAAACCAAGAAAAATCCCCCCAAAAATATTTACAGAATAAAAAACTCGGTA
* *
145230 TTTTGAAAATAGAAGAATTTCAAGAAAAAATGCAAAATTCATGAAATAAAAGAAAATTTTCAAAA
66 TTTTAAAAATAGAAGAATTTCAAGAAAAAATGAAAAATTCATGAAATAAAAGAAAATTTTCAAAA
*
145295 ATGATTTGATGTGAATTAAATGATGATATTT
131 ATGATTTGATATGAATTAAATGATGATATTT
145326 AAAGAATTTT
Statistics
Matches: 139, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
163 18 0.13
164 52 0.37
165 59 0.42
166 10 0.07
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (165 bp):
AATTTTAAAAATTATAAACCAAGAAAAATCCCCCCAAAAATATTTACAGAATAAAAAACTCGGTA
TTTTAAAAATAGAAGAATTTCAAGAAAAAATGAAAAATTCATGAAATAAAAGAAAATTTTCAAAA
ATGATTTGATATGAATTAAATGATGATATTTGATA
Found at i:146882 original size:2 final size:2
Alignment explanation
Indices: 146875--146922 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
146865 CGTCTAAAAT
146875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
146917 TA TA TA
1 TA TA TA
146923 ACTTCATTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:147026 original size:2 final size:2
Alignment explanation
Indices: 147019--147051 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
147009 AACGCTAATA
147019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
147052 AGAATAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:149116 original size:25 final size:25
Alignment explanation
Indices: 149088--149138 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
149078 AAATTTGTGT
149088 TCTTTCACATCTTTCTATTAAGTAC
1 TCTTTCACATCTTTCTATTAAGTAC
* *
149113 TCTTTCATATCTTTCTATTGAGTAC
1 TCTTTCACATCTTTCTATTAAGTAC
149138 T
1 T
149139 TTTTGTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.51
Consensus pattern (25 bp):
TCTTTCACATCTTTCTATTAAGTAC
Found at i:149625 original size:46 final size:44
Alignment explanation
Indices: 149570--149698 Score: 120
Period size: 46 Copynumber: 2.8 Consensus size: 44
149560 TAGTAGGGTA
*
149570 TGTAACTTTATCCTTGCAAAAGCTCCTAATTATTTGTT-TAAGAGTT
1 TGTAACTTTAT-CTTGCAAAAGCTACTAATTATTTGTTGT-A-AGTT
* * *
149616 TGTAGCTTTAT-TTGTACAAAAGCTACTAGTTGTTTGTTGGTAAGTT
1 TGTAACTTTATCTTG--CAAAAGCTACTAATTATTTGTT-GTAAGTT
*
149662 TGTAACTTTATCTTTGCAAAAGTTAC-AAGTTATTTGT
1 TGTAACTTTATC-TTGCAAAAGCTACTAA-TTATTTGT
149699 AAGAAGGGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
44 3 0.04
45 1 0.01
46 59 0.87
47 1 0.01
48 4 0.06
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (44 bp):
TGTAACTTTATCTTGCAAAAGCTACTAATTATTTGTTGTAAGTT
Found at i:150521 original size:28 final size:28
Alignment explanation
Indices: 150488--150544 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
150478 ATTCAACGGG
*
150488 TAACTATCCTTTTTTAAGAAAATTCTTT
1 TAACTATCCTTTTTGAAGAAAATTCTTT
150516 TAACTATCCTTTTTGAAGAAAATTCTTT
1 TAACTATCCTTTTTGAAGAAAATTCTTT
150544 T
1 T
150545 GAATAAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (28 bp):
TAACTATCCTTTTTGAAGAAAATTCTTT
Found at i:153021 original size:20 final size:20
Alignment explanation
Indices: 152996--153074 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
152986 TAAAAAACCT
152996 ATAATGTATCAATACAATAA
1 ATAATGTATCAATACAATAA
*
153016 ATAATGTATCGATACAA-ATA
1 ATAATGTATCAATACAATA-A
* * * *
153036 GTAAATGTATCGATACATTTA
1 AT-AATGTATCAATACAATAA
* *
153057 CTTATGTATCAATACAAT
1 ATAATGTATCAATACAAT
153075 TCCTTTCCAG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.02
20 31 0.65
21 16 0.33
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (20 bp):
ATAATGTATCAATACAATAA
Found at i:153167 original size:21 final size:21
Alignment explanation
Indices: 153100--153173 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
153090 AGGGTAATTT
*
153100 TGTATCGATACATTT-TTAGCA
1 TGTATCGATACATTTATT-GTA
* * *
153121 TGTATTGATACATTCACT-TA
1 TGTATCGATACATTTATTGTA
*
153141 TGTATCGATACATTTATTGTT
1 TGTATCGATACATTTATTGTA
153162 TGTATCGATACA
1 TGTATCGATACA
153174 AATTGTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 16 0.37
21 26 0.60
22 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATTTATTGTA
Found at i:153938 original size:87 final size:87
Alignment explanation
Indices: 153680--153940 Score: 335
Period size: 87 Copynumber: 3.0 Consensus size: 87
153670 GGGTTTTGGT
* * *
153680 ATTCTAAGGCTTGACTTCCTTAGACAAGTGTCAACTAATGTGGACTTGACTC-GTACTTAGGTGC
1 ATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAG-ACTTAGGTGC
* * *
153744 CACTAGCTTGTGTGGGCTTTAAC
65 CACCAACTTGTGTGGGCTTTGAC
* * * * * * * *
153767 ATTTTAAGGCTTGGCGTCTTTAGATAGGTGCCAACTAATGTGGACTTAACTTAGACTTAGGTACC
1 ATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAGACTTAGGTGCC
*
153832 ACCAACTTGTATGGGCTTTGAC
66 ACCAACTTGTGTGGGCTTTGAC
* * * *
153854 ATTCTAAGGCTTGACCTCCTCAGACAGGTGCCAACTAATATGGACTTGAGTCAGACTTAGGTGGC
1 ATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAGACTTAGGTGCC
153919 ACCAACTTGTGTGGGCTTTGAC
66 ACCAACTTGTGTGGGCTTTGAC
153941 TTAGGTGCCG
Statistics
Matches: 146, Mismatches: 27, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
87 145 0.99
88 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (87 bp):
ATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAGACTTAGGTGCC
ACCAACTTGTGTGGGCTTTGAC
Found at i:153942 original size:31 final size:31
Alignment explanation
Indices: 153906--154102 Score: 121
Period size: 31 Copynumber: 6.4 Consensus size: 31
153896 GACTTGAGTC
* *
153906 AGACTTAGGTGGCACCAACTTGTGTGGGCTT
1 AGACTTAGGTGCCACCAACTCGTGTGGGCTT
* * * * *
153937 TGACTTAGGTGCCGCTAACTCGTGCGAGCTT
1 AGACTTAGGTGCCACCAACTCGTGTGGGCTT
* * ** **
153968 AGACTTAGTTACTGCCAGA-TTTTGTGGGCTT
1 AGACTTAGGTGCCACCA-ACTCGTGTGGGCTT
* *
153999 TGAC-TAGGGTGCCACCAACTCGTGTGGACTT
1 AGACTTA-GGTGCCACCAACTCGTGTGGGCTT
* ** * * *
154030 AGA-TTCAAGTGCTGCTAACTTGTGTGGACTT
1 AGACTT-AGGTGCCACCAACTCGTGTGGGCTT
* * *
154061 TGACTAACGTGCCACCAACTCGTGTGGGCTT
1 AGACTTAGGTGCCACCAACTCGTGTGGGCTT
*
154092 AGACTCAGGTG
1 AGACTTAGGTG
154103 TCACTGCTTG
Statistics
Matches: 119, Mismatches: 41, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
30 3 0.03
31 113 0.95
32 3 0.03
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (31 bp):
AGACTTAGGTGCCACCAACTCGTGTGGGCTT
Found at i:154031 original size:62 final size:61
Alignment explanation
Indices: 153920--154096 Score: 182
Period size: 62 Copynumber: 2.9 Consensus size: 61
153910 TTAGGTGGCA
* * *
153920 CCAACTTGTGTGGGCTTTGACTTAGGTGCCGCTAACTCGTG-CGAGCTTAGACTT-AGTTACTG
1 CCAACTTGTGTGGGCTTTGAC-TAGGTGCCACCAACTCGTGTGGA-CTTAGACTTAAG-TACTG
* *
153982 CCAGA-TTTTGTGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGACTTAGA-TTCAAGTGCTG
1 CCA-ACTTGTGTGGGCTTTGACTA-GGTGCCACCAACTCGTGTGGACTTAGACTT-AAGTACTG
* * * *
154044 CTAACTTGTGTGGACTTTGACTAACGTGCCACCAACTCGTGTGGGCTTAGACT
1 CCAACTTGTGTGGGCTTTGACT-AGGTGCCACCAACTCGTGTGGACTTAGACT
154097 CAGGTGTCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
61 5 0.05
62 85 0.88
63 7 0.07
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (61 bp):
CCAACTTGTGTGGGCTTTGACTAGGTGCCACCAACTCGTGTGGACTTAGACTTAAGTACTG
Found at i:154211 original size:41 final size:41
Alignment explanation
Indices: 154175--155351 Score: 765
Period size: 41 Copynumber: 28.3 Consensus size: 41
154165 GTCTTACTCT
* * * * * *
154175 TTGATGACAAAAGAAAAAGAGAATGAAATGGGTCTTACTCA
1 TTGAGGACAAAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
* * *
154216 TTGAGAACAAAGGAAAAAAGAGAAAATG-AATGCGTCCTACTCC
1 TTGAGGACAAAGG-AAAAAGAG--AATGAAATGAGTCCTGCTCC
* * * * * *
154259 TTAAGGATAAAGGAAAAAAGAGGAAAGGAATGCGTCATGCTCC
1 TTGAGGACAAAGG-AAAAAGA-GAATGAAATGAGTCCTGCTCC
* * * *
154302 TTGAGGACAAAGGAAAAAAGAGGAAAGGAATGCGTCATGCTCC
1 TTGAGGACAAAGG-AAAAAGA-GAATGAAATGAGTCCTGCTCC
* * * *
154345 TTGAGGACAAAGGAAAAGGAG-ATGAAGTGAGTTCTACTCC
1 TTGAGGACAAAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
*
154385 TTGAGGACAAAGGGAAAAATG-G-ATGAAAT-AGGTCCTGCTCT
1 TTGAGGACAAA-GGAAAAA-GAGAATGAAATGA-GTCCTGCTCC
* ** * *
154426 TTGAGGACAAATGAAAAAAGAGAAAAAAGAATGCA-TTCTGCTTC
1 TTGAGGACAAA-GGAAAAAGAG-AATGA-AATG-AGTCCTGCTCC
* * * *
154470 TTAAGGACAAAGGGAAAAGAAGAATGAAATGGGTCCTACTCC
1 TTGAGGACAAAGGAAAAAG-AGAATGAAATGAGTCCTGCTCC
* * * * * *
154512 TTAAGGACAAAGGGAAAAGA-AGATGAAGTGGGTCTTGCTCT
1 TTGAGGACAAAGGAAAAAGAGA-ATGAAATGAGTCCTGCTCC
* * * *
154553 TTAAGGATAAAGAAAAAAG-GAGATGAAATGAGTCCTACTCC
1 TTGAGGACAAAGGAAAAAGAGA-ATGAAATGAGTCCTGCTCC
* *
154594 TTGAGGACAAAGGGAAAAG-GAGATGAAAT-ATGTCCTGCTCT
1 TTGAGGACAAAGGAAAAAGAGA-ATGAAATGA-GTCCTGCTCC
* * * * *
154635 TTGAGGACCAAGGAAAAAAGAGAAAAGGAATGCGTTCC-GCTTC
1 TTGAGGACAAAGG-AAAAAGAG-AATGAAATGAG-TCCTGCTCC
*
154678 TTGAGGACAAA-GAGAAAAGAAGAATGAAATGGGTCCTGCTCC
1 TTGAGGACAAAGGA-AAAAG-AGAATGAAATGAGTCCTGCTCC
* * * *
154720 TTGAGGATAAAGG-AAAAGA-AGATGAAGTGATTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAGA-ATGAAATGAGTCCTGCTCC
* *
154760 TTGAGGACAAAAGGAAAAA-AGGATGAAATAAGTCCTGCTCC
1 TTGAGGAC-AAAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
* * * * * *
154801 TTGAGGACAAAGGAAAAAAGAAAAAAGGAATGTGTTCTGCTTC
1 TTGAGGACAAAGG-AAAAAG-AGAATGAAATGAGTCCTGCTCC
* * * * *
154844 TTGAGGACAAAAGG-AAAAGAAGAATGAAACGGGTCTTACTCT
1 TTGAGGAC-AAAGGAAAAAG-AGAATGAAATGAGTCCTGCTCC
* *
154886 TTAAGGACAAAGGAAAATGAG-ATGAAATGAGTCCTGCTCC
1 TTGAGGACAAAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
* * *
154926 TTGAGGAAAAAGGAAAAAGAG-ATGAAATGAGTCATACTCC
1 TTGAGGACAAAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
* * * *
154966 TTGAGGACAAAGGGAAAAA-AGGATGAAATGGGTCATGTTCC
1 TTGAGGACAAA-GGAAAAAGAGAATGAAATGAGTCCTGCTCC
* * * * * ** * *
155007 TTGAGAACAAAGGAAAAAAGAAAAAAAGGAATGCGTTTTTCTTC
1 TTGAGGACAAAGG-AAAAAG--AGAATGAAATGAGTCCTGCTCC
* *
155051 TTGAAGACAAA-GAGAAAAGAAGAATGAAATG-GATCCTACTCC
1 TTGAGGACAAAGGA-AAAAG-AGAATGAAATGAG-TCCTGCTCC
* * * *
155093 TTAAGGACATAA-AAAAAAGAG-ATAAAATGAGTCCTCCTCC
1 TTGAGGACA-AAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
* *
155133 TTGAGGACAAAAGGAAAAAGAG-ATCAAATGAGTCTTGCTCC
1 TTGAGGAC-AAAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
* * * * *
155174 TTGAGGACAAAGGGAAAAGA-AGCTGAAGTGGGTCCTACT-C
1 TTGAGGACAAAGGAAAAAGAGA-ATGAAATGAGTCCTGCTCC
* * *
155214 TTGGAAGACAAAAGAAAAAGAG-ATGAAGTGAGTCCTGCTCC
1 TT-GAGGACAAAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
* * * *
155255 TTAAGGACAAAGGGAAAAGGGGATGAAAT-AGGTCCTGCTCC
1 TTGAGGACAAAGGAAAAAGAGAATGAAATGA-GTCCTGCTCC
* * *
155296 TTGAGGACAAAGGAAAAAAGAGAAAAGGAAA-GCGTCTTGCTCC
1 TTGAGGACAAAGG-AAAAAGAG--AATGAAATGAGTCCTGCTCC
155339 TTGAGGACAAAGG
1 TTGAGGACAAAGG
155352 GTAAAGAAGT
Statistics
Matches: 902, Mismatches: 174, Indels: 118
0.76 0.15 0.10
Matches are distributed among these distances:
39 1 0.00
40 185 0.21
41 324 0.36
42 146 0.16
43 184 0.20
44 61 0.07
46 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGAGAATGAAATGAGTCCTGCTCC
Found at i:154482 original size:125 final size:122
Alignment explanation
Indices: 154252--155360 Score: 552
Period size: 125 Copynumber: 8.9 Consensus size: 122
154242 TGAATGCGTC
* * * * *
154252 CTACTCCTTAAGGATAAAGGAAAAAAGAGGAAAGGAATGCGTCATGCTCCTTGAGGACAAAGGAA
1 CTACTCCTTGAGGACAAAGG-AAAAA-AGG-ATGAAATG-GTCCTGCTCCTTGAGGACAAA-GAA
* * * * *
154317 AAAAGAG-GAAAGGAATGC-GTCATGCTCCTTGAGGACAAAGGAAAAGGAGATGAAGTGAGTT
61 AAAAGAGAAAAAAGAATGCATTC-TGCTCCTTGAGGACAAAGGAAAAGAAGATGAAATGAGTT
* *
154378 CTACTCCTTGAGGACAAAGGGAAAAATGGATGAAATAGGTCCTGCTCTTTGAGGACAAATGAAAA
1 CTACTCCTTGAGGACAAA-GGAAAAAAGGATGAAAT-GGTCCTGCTCCTTGAGGACAAA-GAAAA
* * * *
154443 AAGAGAAAAAAGAATGCATTCTGCTTCTTAAGGACAAAGGGAAAAGAAGAATGAAATGGGTC
63 AAGAGAAAAAAGAATGCATTCTGCTCCTTGAGGACAAA-GGAAAAGAAG-ATGAAATGAGTT
* * * * * *
154505 CTACTCCTTAAGGACAAAGGGAAAAGAA-GATGAAGTGGGTCTTGCTCTTTAAGGATAAAGAAAA
1 CTACTCCTTGAGGACAAA-GGAAAA-AAGGATGAAAT-GGTCCTGCTCCTTGAGGACAAAGAAAA
* ** * * * *
154569 AAG-GAGATGA-AATG-AGTCCTACTCCTTGAGGACAAAGGGAAAAGGAGATGAAAT-ATGTC
63 AAGAGAAAAAAGAATGCA-TTCTGCTCCTTGAGGACAAA-GGAAAAGAAGATGAAATGA-GTT
* * * * * *
154628 CTGCTCTTTGAGGACCAAGGAAAAAAGAGAAAAGGAATGCGTTCC-GCTTCTTGAGGACAAAG-A
1 CTACTCCTTGAGGACAAAGGAAAAAAG-G--ATGAAATG-G-TCCTGCTCCTTGAGGACAAAGAA
* * * ** * * *
154691 GAAA-AGAAGAATGAAATGGGTCCTGCTCCTTGAGGATAAAGGAAAAGAAGATGAAGTGA-TT
61 AAAAGAGAAAAAAG-AATGCATTCTGCTCCTTGAGGACAAAGGAAAAGAAGATGAAATGAGTT
* *
154752 CTTGCTCCTTGAGGACAAAAGGAAAAAAGGATGAAATAAGTCCTGCTCCTTGAGGACAAAGGAAA
1 C-TACTCCTTGAGGAC-AAAGGAAAAAAGGATGAAAT-GGTCCTGCTCCTTGAGGACAAA-GAAA
* ** * * *
154817 AAAGA-AAAAAGGAATGTGTTCTGCTTCTTGAGGACAAAAGGAAAAGAAGAATGAAACG-GGT
62 AAAGAGAAAAAAGAATGCATTCTGCTCCTTGAGGAC-AAAGGAAAAGAAG-ATGAAATGAGTT
* * * * *
154878 CTTACTCTTTAAGGACAAAGG-AAAATGAGATGAAATGAGTCCTGCTCCTTGAGGAAAAAGGAAA
1 C-TACTCCTTGAGGACAAAGGAAAAAAG-GATGAAATG-GTCCTGCTCCTTGAGGACAAAGAAAA
** * * *
154942 AAGAG--ATGA-AATG-AGTCATACTCCTTGAGGACAAAGGGAAAA-AAGGATGAAATG-GGT
63 AAGAGAAAAAAGAATGCATTC-TGCTCCTTGAGGACAAA-GGAAAAGAA-GATGAAATGAGTT
** * * * * ** * * *
154999 CATGTTCCTTGAGAACAAAGGAAAAAAGAAAAAAAGGAATGCGTTTTTCTTCTTGAAGACAAAG-
1 C-TACTCCTTGAGGACAAAGGAAAAAAG----GATGAAATG-GTCCTGCTCCTTGAGGACAAAGA
* * * * * * * ** * *
155063 AGAAA-AGAAGAATGAAATGGATCCTACTCCTTAAGGACATAAAAAAAAG-AGATAAAATGAGTC
60 AAAAAGAGAAAAAAG-AATGCATTCTGCTCCTTGAGGACA-AAGGAAAAGAAGATGAAATGAGTT
* * * **
155126 CTCCTCCTTGAGGACAAAAGG-AAAAAGAGATCAAATGAGTCTTGCTCCTTGAGGACAAAG-GGA
1 CTACTCCTTGAGGAC-AAAGGAAAAAAG-GATGAAATG-GTCCTGCTCCTTGAGGACAAAGAAAA
*** ** * * * * * *
155189 AA-AG-AAGCTGAAGTGGGTCCTACT-CTTGGAAGACAAAAGAAAA-AGAGATGAAGTGAGTC
63 AAGAGAAAAAAGAA-TGCATTCTGCTCCTT-GAGGACAAAGGAAAAGA-AGATGAAATGAGTT
* * **
155248 CTGCTCCTTAAGGACAAAGGGAAAAGGGGATGAAATAGGTCCTGCTCCTTGAGGACAAAGGAAAA
1 CTACTCCTTGAGGACAAA-GGAAAAAAGGATGAAAT-GGTCCTGCTCCTTGAGGACAAA-GAAAA
* * * *
155313 AAGAG-AAAAGGAAAGC-GTCTTGCTCCTTGAGGACAAAGGGTAAAGAAG
63 AAGAGAAAAAAGAATGCATTC-TGCTCCTTGAGGACAAA-GGAAAAGAAG
155361 TGTATCCTTC
Statistics
Matches: 761, Mismatches: 159, Indels: 127
0.73 0.15 0.12
Matches are distributed among these distances:
121 49 0.06
122 109 0.14
123 87 0.11
124 125 0.16
125 172 0.23
126 123 0.16
127 91 0.12
128 5 0.01
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.19
Consensus pattern (122 bp):
CTACTCCTTGAGGACAAAGGAAAAAAGGATGAAATGGTCCTGCTCCTTGAGGACAAAGAAAAAAG
AGAAAAAAGAATGCATTCTGCTCCTTGAGGACAAAGGAAAAGAAGATGAAATGAGTT
Found at i:154745 original size:166 final size:165
Alignment explanation
Indices: 154175--155360 Score: 906
Period size: 166 Copynumber: 7.1 Consensus size: 165
154165 GTCTTACTCT
* * *
154175 TTGATGACAAA-AGAAAA-AGAGAATGAAATGGGTCTTACTCATTGAGAACAAAGGAAAA-AAGA
1 TTGAGGACAAAGAGAAAAGA-AGAATGAAATGGGTCTTACTCCTTGAGGACAAAGGAAAAGAAGA
* * * * * * * *
154237 -GAAAATGAATGCGTCCTACTCCTTAAGGATAAAGGAAAAAAGAGGAAAGGAATGCGTCATGCTC
65 TG-AAATG-A---GTCCTGCTCCTTGAGGACAAAGGGAAAAAGA-G-ATGAAAT-AGTCCTGCTC
*
154301 CTTGAGGACAAAGGAAAAAAGAGGAAAGGAATGCG-TCATGCTCC
122 CTTGAGGACAAAGGAAAAAAGAGAAAAGGAATGCGTTC-TGCTCC
* * * *
154345 TTGAGGACAAAG-GAAAAGGAG-ATGAAGTGAGT-TCTACTCCTTGAGGACAAAGGGAAAA-ATG
1 TTGAGGACAAAGAGAAAAGAAGAATGAAATGGGTCT-TACTCCTTGAGGACAAA-GGAAAAGA-A
* * * ** * * *
154406 GATGAAAT-AGGTCCTGCTCTTTGAGGACAAATGAAAAAAGAGAAAAAAGAATGCATTCTGCTTC
63 GATGAAATGA-GTCCTGCTCCTTGAGGACAAAGGGAAAAAGAGATGAAA-TA-G--TCCTGCTCC
* * * * * * *
154470 TTAAGGACAAAGG-GAAAAGA-AGAATGAAATGGGTCCTACTCC
123 TTGAGGACAAAGGAAAAAAGAGA-AAAGGAATGCGTTCTGCTCC
* * * * * * * * *
154512 TTAAGGACAAAGGGAAAAGAAG-ATGAAGTGGGTCTTGCTCTTTAAGGATAAAGAAAAAAGGAGA
1 TTGAGGACAAAGAGAAAAGAAGAATGAAATGGGTCTTACTCCTTGAGGACAAAG-GAAAAGAAGA
* * *
154576 TGAAATGAGTCCTACTCCTTGAGGACAAAGGGAAAAGGAGATGAAATATGTCCTGCTCTTTGAGG
65 TGAAATGAGTCCTGCTCCTTGAGGACAAAGGGAAAAAGAGATGAAATA-GTCCTGCTCCTTGAGG
* * *
154641 ACCAAGGAAAAAAGAGAAAAGGAATGCGTTCCGCTTC
129 ACAAAGGAAAAAAGAGAAAAGGAATGCGTTCTGCTCC
* * *
154678 TTGAGGACAAAGAGAAAAGAAGAATGAAATGGGTCCTGCTCCTTGAGGATAAAGGAAAAGAAGAT
1 TTGAGGACAAAGAGAAAAGAAGAATGAAATGGGTCTTACTCCTTGAGGACAAAGGAAAAGAAGAT
* * * *
154743 GAAGTGATTCTTGCTCCTTGAGGACAAAAGGAAAAA-AGGATGAAATAAGTCCTGCTCCTTGAGG
66 GAAATGAGTCCTGCTCCTTGAGGACAAAGGGAAAAAGA-GATGAAAT-AGTCCTGCTCCTTGAGG
* * *
154807 ACAAAGGAAAAAAGAAAAAAGGAATGTGTTCTGCTTC
129 ACAAAGGAAAAAAGAGAAAAGGAATGCGTTCTGCTCC
* * *
154844 TTGAGGACAAA-AGGAAAAGAAGAATGAAACGGGTCTTACTCTTTAAGGACAAAGGAAAATG-AG
1 TTGAGGACAAAGA-GAAAAGAAGAATGAAATGGGTCTTACTCCTTGAGGACAAAGGAAAA-GAAG
* * *
154907 ATGAAATGAGTCCTGCTCCTTGAGGA-AAAAGGAAAAAGAGATGAAATGAGTCATACTCCTTGAG
64 ATGAAATGAGTCCTGCTCCTTGAGGACAAAGGGAAAAAGAGATGAAAT-AGTCCTGCTCCTTGAG
* * * *
154971 GACAAAGGGAAAAAAG-G--ATGAAATG-GGTCATGTTCC
128 GACAAA-GGAAAAAAGAGAAAAGGAATGCGTTC-TGCTCC
* * * * * * * * * *
155007 TTGAGAACAAAGGAAAAAAGAAAAAAAGGAATGCGTTTTTCTTCTTGAAGACAAAGAGAAAAGAA
1 TTGAGGACAAA-GAGAAAAG-AAGAATGAAATGGGTCTTACTCCTTGAGGACAAAG-GAAAAGAA
* * * * *
155072 GAATGAAATG-GATCCTACTCCTTAAGGACATAA--AAAAAAGAGATAAAATGAGTCCTCCTCCT
63 G-ATGAAATGAG-TCCTGCTCCTTGAGGACA-AAGGGAAAAAGAGATGAAAT-AGTCCTGCTCCT
** *
155134 TGAGGACAAAAGG-AAAAAGAGATCA--AATGAG-TCTTGCTCC
124 TGAGGAC-AAAGGAAAAAAGAGAAAAGGAATGCGTTC-TGCTCC
* * * * * *
155174 TTGAGGACAAAGGGAAAAGAAG-CTGAAGTGGGTCCTACT-CTTGGAAGACAAAAGAAAA-AGAG
1 TTGAGGACAAAGAGAAAAGAAGAATGAAATGGGTCTTACTCCTT-GAGGACAAAGGAAAAGA-AG
* * * *
155236 ATGAAGTGAGTCCTGCTCCTTAAGGACAAAGGGAAAAGGGGATGAAATAGGTCCTGCTCCTTGAG
64 ATGAAATGAGTCCTGCTCCTTGAGGACAAAGGGAAAAAGAGATGAAATA-GTCCTGCTCCTTGAG
*
155301 GACAAAGGAAAAAAGAGAAAAGGAAAGCG-TCTTGCTCC
128 GACAAAGGAAAAAAGAGAAAAGGAATGCGTTC-TGCTCC
* *
155339 TTGAGGACAAAGGGTAAAGAAG
1 TTGAGGACAAAGAGAAAAGAAG
155361 TGTATCCTTC
Statistics
Matches: 822, Mismatches: 144, Indels: 105
0.77 0.13 0.10
Matches are distributed among these distances:
161 2 0.00
162 34 0.04
163 70 0.09
164 23 0.03
165 124 0.15
166 242 0.29
167 168 0.20
168 99 0.12
169 29 0.04
170 24 0.03
171 6 0.01
172 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (165 bp):
TTGAGGACAAAGAGAAAAGAAGAATGAAATGGGTCTTACTCCTTGAGGACAAAGGAAAAGAAGAT
GAAATGAGTCCTGCTCCTTGAGGACAAAGGGAAAAAGAGATGAAATAGTCCTGCTCCTTGAGGAC
AAAGGAAAAAAGAGAAAAGGAATGCGTTCTGCTCC
Found at i:155123 original size:167 final size:164
Alignment explanation
Indices: 154891--155191 Score: 394
Period size: 167 Copynumber: 1.8 Consensus size: 164
154881 ACTCTTTAAG
* * *
154891 GACAAAGGAAAATGAGATGAAATGAGTCCTGCTCCTTGAGGAAAAAGGAAAAAGAGATGAAATGA
1 GACAAAGGAAAATGAGATGAAATGAGTCCTACTCCTTAAGGAAAAA-GAAAAAGAGATAAAATGA
* * * *
154956 GTCATACTCCTTGAGGACAAAGGGAAAAA-AGGATGAAATGGGTCATGTTCCTTGAGAACAAAGG
65 GTCATACTCCTTGAGGACAAAAGGAAAAAGA-GATCAAATGAGTCATGCTCCTTGAGAACAAAGG
155020 AAAAAAGAAAAAAAGGAATGCGTTTTTCTTCTTGAA
129 AAAAAAGAAAAAAAGGAATGCGTTTTTCTTCTTGAA
155056 GACAAAGAGAAAA-GAAGAATGAAATG-GATCCTACTCCTTAAGGACATAAA-AAAAAGAGATAA
1 GACAAAG-GAAAATG-AG-ATGAAATGAG-TCCTACTCCTTAAGGA-A-AAAGAAAAAGAGATAA
* * * *
155118 AATGAGTCCTCCTCCTTGAGGACAAAAGGAAAAAGAGATCAAATGAGTCTTGCTCCTTGAGGACA
60 AATGAGTCATACTCCTTGAGGACAAAAGGAAAAAGAGATCAAATGAGTCATGCTCCTTGAGAACA
*
155183 AAGGGAAAA
125 AAGGAAAAA
155192 GAAGCTGAAG
Statistics
Matches: 117, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
165 8 0.07
166 8 0.07
167 96 0.82
168 2 0.02
169 3 0.03
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.19
Consensus pattern (164 bp):
GACAAAGGAAAATGAGATGAAATGAGTCCTACTCCTTAAGGAAAAAGAAAAAGAGATAAAATGAG
TCATACTCCTTGAGGACAAAAGGAAAAAGAGATCAAATGAGTCATGCTCCTTGAGAACAAAGGAA
AAAAGAAAAAAAGGAATGCGTTTTTCTTCTTGAA
Found at i:156528 original size:15 final size:15
Alignment explanation
Indices: 156508--156542 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
156498 ACACCTCTTT
*
156508 TTTTTGTTGTTTTTG
1 TTTTTGTTGTTTTTC
*
156523 TTTTTGTTTTTTTTC
1 TTTTTGTTGTTTTTC
156538 TTTTT
1 TTTTT
156543 TTTAGGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (15 bp):
TTTTTGTTGTTTTTC
Found at i:156529 original size:12 final size:12
Alignment explanation
Indices: 156505--156545 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
156495 TGAACACCTC
156505 TTTTTTTTGTTG
1 TTTTTTTTGTTG
156517 TTTTTGTTT-TTG
1 TTTTT-TTTGTTG
*
156529 TTTTTTTTCTT-
1 TTTTTTTTGTTG
156540 TTTTTT
1 TTTTTT
156546 AGGCATAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.33
12 15 0.56
13 3 0.11
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (12 bp):
TTTTTTTTGTTG
Found at i:171282 original size:20 final size:21
Alignment explanation
Indices: 171259--171312 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
171249 CATTTCAGGC
171259 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
*
171279 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTCACTGT
*
171300 TTGTATCGATACA
1 ATGTATCGATACA
171313 AATTGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:172484 original size:20 final size:20
Alignment explanation
Indices: 172461--172498 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
172451 TAATATTAAG
* *
172461 GAAAAGAACAAAATAAAAAA
1 GAAAAAAACAAAAGAAAAAA
172481 GAAAAAAACAAAAGAAAA
1 GAAAAAAACAAAAGAAAA
172499 TGGATATGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.03
Consensus pattern (20 bp):
GAAAAAAACAAAAGAAAAAA
Found at i:179404 original size:13 final size:13
Alignment explanation
Indices: 179386--179426 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
179376 ATACAAAGAT
179386 CAATGTATCGATA
1 CAATGTATCGATA
179399 CAATGTATCGATA
1 CAATGTATCGATA
179412 CAATGTATCGATA
1 CAATGTATCGATA
179425 CA
1 CA
179427 TTTGAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:183292 original size:2 final size:2
Alignment explanation
Indices: 183285--183312 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
183275 CTACGTATTC
183285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
183313 TGTATTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:184973 original size:12 final size:13
Alignment explanation
Indices: 184956--184988 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
184946 TTTGAATATT
184956 TTATATTTTA-TA
1 TTATATTTTAGTA
184968 TTATATTTTAGTA
1 TTATATTTTAGTA
184981 TTA-ATTTT
1 TTATATTTT
184989 TTTGAACGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
TTATATTTTAGTA
Done.