Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 55
Found at i:9077298 original size:20 final size:20
Alignment explanation
Indices: 9077275--9077321 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9077265 ATTGCGATAG
9077275 TCATTTCCTCGTTGCAATTC
1 TCATTTCCTCGTTGCAATTC
* *
9077295 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCTCGTTGCAATTC
9077315 TCATTTC
1 TCATTTC
9077322 AACCAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.15, C:0.26, G:0.11, T:0.49
Consensus pattern (20 bp):
TCATTTCCTCGTTGCAATTC
Found at i:9079375 original size:42 final size:42
Alignment explanation
Indices: 9079315--9079437 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
9079305 GCCCGACTCG
* * *
9079315 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
9079357 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
9079399 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
9079438 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:9079395 original size:21 final size:21
Alignment explanation
Indices: 9079371--9079437 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9079361 TCATTCCTCG
9079371 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
9079392 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
9079413 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
9079434 AGAG
1 AGAG
9079438 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:9080809 original size:14 final size:14
Alignment explanation
Indices: 9080790--9080825 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9080780 ATTGTTTAAT
9080790 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
* *
9080804 TGATTTGTACAAGT
1 TGATTTGTAAAAGG
9080818 TGATTTGT
1 TGATTTGT
9080826 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:9081026 original size:19 final size:19
Alignment explanation
Indices: 9081004--9081121 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
9080994 CGAAATTAAA
9081004 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
9081023 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
9081038 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
9081056 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
9081071 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
9081089 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
9081108 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
9081122 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:9081050 original size:33 final size:33
Alignment explanation
Indices: 9081008--9081101 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
9080998 ATTAAATTCG
9081008 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
9081041 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
9081074 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
9081102 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:9083140 original size:20 final size:19
Alignment explanation
Indices: 9083105--9083171 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
9083095 GAAACTTAAA
9083105 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
9083124 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
9083144 ATCGTAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
9083163 ATCGCAACG
1 ATCGCAACG
9083172 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:9083179 original size:14 final size:14
Alignment explanation
Indices: 9083160--9083249 Score: 90
Period size: 14 Copynumber: 5.9 Consensus size: 14
9083150 ATGCGAAATG
9083160 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
9083174 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
9083190 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
9083206 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
9083222 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
9083238 AAAATCGCAACG
1 AAAATCGCAACG
9083250 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.47
16 16 0.25
18 18 0.28
ACGTcount: A:0.48, C:0.26, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:9083202 original size:32 final size:32
Alignment explanation
Indices: 9083152--9083254 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
9083142 CTATCGTAAT
9083152 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
1 GCGAAATG-AAATCGCAACGACAAAATCGCAAC
9083185 GCGAAATGAAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAATCGCAACGACAAAATCGCAAC
9083217 GCGAAATGAAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAATCGCAACGACAAAATCGCAAC
9083249 GCGAAA
1 GCGAAA
9083255 CACAAATCGC
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 62 0.89
33 8 0.11
ACGTcount: A:0.48, C:0.24, G:0.19, T:0.09
Consensus pattern (32 bp):
GCGAAATGAAATCGCAACGACAAAATCGCAAC
Found at i:9083283 original size:19 final size:17
Alignment explanation
Indices: 9083261--9083356 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
9083251 GAAACACAAA
9083261 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
9083280 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
9083296 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
9083312 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
9083328 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
9083345 TCGCATTGCGAT
1 TCGC-TTGCGAT
9083357 AGCCATTTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:9083302 original size:14 final size:14
Alignment explanation
Indices: 9083283--9083340 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
9083273 TTTCATTTCG
9083283 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
9083297 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
9083313 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
9083329 CGTTGCGATTTT
1 CGTTGCGATTTT
9083341 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:9083347 original size:33 final size:33
Alignment explanation
Indices: 9083266--9083356 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
9083256 ACAAATCGCA
9083266 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
9083299 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
9083331 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
9083357 AGCCATTTCT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:9083395 original size:20 final size:20
Alignment explanation
Indices: 9083341--9083384 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9083331 TTGCGATTTT
*
9083341 CATTTC-GCATTGCGATAGC
1 CATTTCTGCGTTGCGATAGC
*
9083360 CATTTCTGCGTTGCGATAGT
1 CATTTCTGCGTTGCGATAGC
9083380 CATTT
1 CATTT
9083385 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTTCTGCGTTGCGATAGC
Found at i:9083888 original size:18 final size:18
Alignment explanation
Indices: 9083862--9083906 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
9083852 GTCGATCAGA
*
9083862 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
9083880 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
9083898 TGATGGCTC
1 TGATGGCTC
9083907 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:9085248 original size:20 final size:20
Alignment explanation
Indices: 9085223--9085260 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9085213 AATAGTTTCT
9085223 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
9085243 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
9085261 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:9085780 original size:20 final size:20
Alignment explanation
Indices: 9085755--9085848 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
9085745 GATTATGTAT
9085755 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
9085775 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
9085795 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
9085816 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
9085836 TATCGCATTGCGA
1 TATCGCGTTGCGA
9085849 TTTTCTCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:9085820 original size:41 final size:42
Alignment explanation
Indices: 9085775--9085910 Score: 118
Period size: 41 Copynumber: 3.3 Consensus size: 42
9085765 CGAAAGTCAG
* * * *
9085775 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTAT
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
* * *
9085816 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAA
1 TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
** ** * *
9085858 T-TCGCGTTGCG-ATTTACTTATTCGCATTGCGAATTTCCCAA
1 TATCGCGTTGCGAAAGTAAGTA-TCGCATTGCGATTTTCTCAA
9085899 T-TCGCGTTGCGA
1 TATCGCGTTGCGA
9085911 TTTACTTATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
40 3 0.04
41 70 0.92
42 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (42 bp):
TATCGCGTTGCGAAAGTAAGTATCGCATTGCGATTTTCTCAA
Found at i:9085849 original size:20 final size:20
Alignment explanation
Indices: 9085735--9085849 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
9085725 CGCTTTGAAA
*
9085735 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
9085756 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
9085776 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
9085796 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
9085817 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
9085837 ATCGCATTGCGAT
1 ATCGCATTGCGAT
9085850 TTTCTCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:9085882 original size:20 final size:20
Alignment explanation
Indices: 9085838--9085930 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
9085828 ATAGTCAGTA
*
9085838 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
9085859 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
9085879 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
9085900 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
9085920 TCGCATTGCGA
1 TCGCATTGCGA
9085931 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:9085911 original size:41 final size:41
Alignment explanation
Indices: 9085838--9085933 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
9085828 ATAGTCAGTA
* *
9085838 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
9085879 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
9085920 TCGCATTGCGAATT
1 TCGCATTGCGAATT
9085934 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:9086543 original size:2 final size:2
Alignment explanation
Indices: 9086532--9086570 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9086522 TTAAACTTGA
9086532 AT AT AT -T 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
9086571 TAATTATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9090745 original size:33 final size:35
Alignment explanation
Indices: 9090703--9090789 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 35
9090693 TCATTTAATA
*
9090703 TTTACTTTATTTTGTTAATA-TGGTTGGA-TTTTT
1 TTTAATTTATTTTGTTAATATTGGTTGGACTTTTT
*
9090736 TTTAATTTATTTTGTTAA-ATTTGTTGGACTTTTT
1 TTTAATTTATTTTGTTAATATTGGTTGGACTTTTT
* *
9090770 GTTAATGTATTTTGGTTAAT
1 TTTAATTTATTTT-GTTAAT
9090790 TTTGTTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 1 0.02
33 24 0.52
34 16 0.35
35 5 0.11
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.62
Consensus pattern (35 bp):
TTTAATTTATTTTGTTAATATTGGTTGGACTTTTT
Found at i:9090775 original size:34 final size:33
Alignment explanation
Indices: 9090708--9090795 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 33
9090698 TAATATTTAC
* *
9090708 TTTATTTTGTT-AATATGGTTGGATTTTTTTTAA
1 TTTATTTTGTTAAAT-TTGTTGGATTTTTGTTAA
9090741 TTTATTTTGTTAAATTTGTTGGACTTTTTGTTAA
1 TTTATTTTGTTAAATTTGTTGGA-TTTTTGTTAA
* *
9090775 TGTATTTTGGTTAATTTTGTT
1 TTTATTTT-GTTAAATTTGTT
9090796 TATTACTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 18 0.38
34 19 0.40
35 11 0.23
ACGTcount: A:0.19, C:0.01, G:0.16, T:0.64
Consensus pattern (33 bp):
TTTATTTTGTTAAATTTGTTGGATTTTTGTTAA
Found at i:9090825 original size:35 final size:33
Alignment explanation
Indices: 9090786--9090870 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
9090776 GTATTTTGGT
*
9090786 TAATTTTGTT-TATTACTATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
9090821 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
9090856 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
9090871 TAAAATTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 2 0.05
38 12 0.29
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:9093848 original size:16 final size:16
Alignment explanation
Indices: 9093823--9093853 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9093813 ATATTTTTCA
*
9093823 AATAATTATAATAAAT
1 AATAAGTATAATAAAT
9093839 AATAAGTATAATAAA
1 AATAAGTATAATAAA
9093854 AAAACTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AATAAGTATAATAAAT
Found at i:9096552 original size:2 final size:2
Alignment explanation
Indices: 9096545--9096579 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9096535 TAATTTCACT
9096545 TA 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 TA T
9096580 TTGTTAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9100974 original size:15 final size:17
Alignment explanation
Indices: 9100956--9100987 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9100946 TTTTTTTTTG
9100956 TAAATT-TAAG-TAGAT
1 TAAATTGTAAGATAGAT
9100971 TAAATTGTAAGATAGAT
1 TAAATTGTAAGATAGAT
9100988 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (17 bp):
TAAATTGTAAGATAGAT
Found at i:9101928 original size:26 final size:26
Alignment explanation
Indices: 9101879--9101929 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
9101869 TTTTTAAGAT
**
9101879 ACATGACATCAATTAATTGGTTGAAA
1 ACATGACATCAATTAATTAATTGAAA
* *
9101905 ACATGATATCAATTGATTAATTGAA
1 ACATGACATCAATTAATTAATTGAA
9101930 GGTTATAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (26 bp):
ACATGACATCAATTAATTAATTGAAA
Found at i:9105247 original size:3 final size:3
Alignment explanation
Indices: 9105239--9105268 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9105229 CCCATGTTAT
9105239 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9105269 TGCATGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9108698 original size:18 final size:18
Alignment explanation
Indices: 9108675--9108709 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9108665 AGCATTTTAA
9108675 TTCATTT-AGAGTTAAAAT
1 TTCATTTCAGAG-TAAAAT
9108693 TTCATTTCAGAGTAAAA
1 TTCATTTCAGAGTAAAA
9108710 GATCAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (18 bp):
TTCATTTCAGAGTAAAAT
Found at i:9121017 original size:16 final size:16
Alignment explanation
Indices: 9120996--9121035 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
9120986 CTCTCGTGAA
9120996 GGAAGAAGTGAAGAAT
1 GGAAGAAGTGAAGAAT
9121012 GGAAGAAGTGAAGAAT
1 GGAAGAAGTGAAGAAT
9121028 GGAAGAAG
1 GGAAGAAG
9121036 AAAAGGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.40, T:0.10
Consensus pattern (16 bp):
GGAAGAAGTGAAGAAT
Found at i:9126220 original size:29 final size:28
Alignment explanation
Indices: 9126188--9126281 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
9126178 GATATAATTG
*
9126188 AAATATTTAAAAGTTTGAGGATCAATTTA
1 AAATATATAAAAGTTT-AGGATCAATTTA
* * **
9126217 AAATGATAGTAAAAGGTTAGGGATAAAAGTA
1 AAAT-ATA-TAAAAGTTTA-GGATCAATTTA
9126248 AAATATATAAAAGTTTAAGGA-CGAATTTA
1 AAATATATAAAAGTTT-AGGATC-AATTTA
9126277 AAATA
1 AAATA
9126282 AGGATCATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
29 24 0.47
30 7 0.14
31 20 0.39
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.30
Consensus pattern (28 bp):
AAATATATAAAAGTTTAGGATCAATTTA
Found at i:9126222 original size:60 final size:60
Alignment explanation
Indices: 9126146--9126290 Score: 143
Period size: 60 Copynumber: 2.4 Consensus size: 60
9126136 AACAATTTGG
* * ** * * * * *
9126146 GGACTAATTTAGAATGAAGGTCATATTTTAGGGATATAATTGAAATATTTAAAAGTTTGA
1 GGACGAATTTAAAATGAAGGTCATAGGTTAGGGATAAAAGTAAAATATATAAAAGTTTAA
* *
9126206 GGATC-AATTTAAAATGATA-GTAAAAGGTTAGGGATAAAAGTAAAATATATAAAAGTTTAA
1 GGA-CGAATTTAAAATGA-AGGTCATAGGTTAGGGATAAAAGTAAAATATATAAAAGTTTAA
9126266 GGACGAATTTAAAAT-AAGGATCATA
1 GGACGAATTTAAAATGAAGG-TCATA
9126291 ATTTGAAGAC
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
58 1 0.01
59 3 0.04
60 62 0.91
61 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.19, T:0.31
Consensus pattern (60 bp):
GGACGAATTTAAAATGAAGGTCATAGGTTAGGGATAAAAGTAAAATATATAAAAGTTTAA
Found at i:9126413 original size:2 final size:2
Alignment explanation
Indices: 9126406--9126443 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
9126396 AAAATTAATC
*
9126406 AT AT AT AT AT AT AT AT AT AT AT AT AA AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9126444 TTTTATCGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9129202 original size:12 final size:13
Alignment explanation
Indices: 9129167--9129207 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
9129157 ATTGAGAATG
9129167 AAGAAAATGAAATA
1 AAGAAAAT-AAATA
9129181 AAGAAAATAAATA
1 AAGAAAATAAATA
*
9129194 AA-CAAATAAATA
1 AAGAAAATAAATA
9129206 AA
1 AA
9129208 TAATACCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.42
13 7 0.27
14 8 0.31
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (13 bp):
AAGAAAATAAATA
Found at i:9130708 original size:18 final size:18
Alignment explanation
Indices: 9130685--9130723 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9130675 AAATATTATA
*
9130685 TAATATAATCTATAATAT
1 TAATATAATATATAATAT
*
9130703 TAATATATTATATAATAT
1 TAATATAATATATAATAT
9130721 TAA
1 TAA
9130724 ATGAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATATAATATATAATAT
Found at i:9131576 original size:105 final size:108
Alignment explanation
Indices: 9131448--9131701 Score: 293
Period size: 111 Copynumber: 2.3 Consensus size: 108
9131438 TTGTTCCGAA
* * *
9131448 TCCAATATCC-TCTGTCGTGAAGTTGAAATTGGT-T-CTGGAA-TG-GGAAATTATTTGTTGACA
1 TCCAATATCCTTCT-T-GTGAAGTTGAAATTGGTCTAATGAAACTGAAGAAATTATTTGTTGACA
9131508 GTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAG
64 GTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAG
* * *
9131553 TCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTAAATGAAACTGAAGAAGTTGTTTGTTGAC
1 TCCAATATCCTTC-TTGTGAAGTTGAAATTG-GTCT-AATGAAACTGAAGAAATTATTTGTTGAC
* ** * *
9131618 AGTCATTTGCCCTTTCGCTGTGAAGTTGATCTTGTGTTGTCTTGAG
63 AGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAG
* *
9131664 TTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAA
1 TCCAATATCCTTC-TTGTGAAGTTGAAATTGG-TCTAA
9131702 AACTAGGAAG
Statistics
Matches: 125, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
105 25 0.20
106 4 0.03
107 2 0.02
109 4 0.03
110 4 0.03
111 86 0.69
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (108 bp):
TCCAATATCCTTCTTGTGAAGTTGAAATTGGTCTAATGAAACTGAAGAAATTATTTGTTGACAGT
CAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAG
Found at i:9131642 original size:111 final size:111
Alignment explanation
Indices: 9131498--9131702 Score: 329
Period size: 111 Copynumber: 1.8 Consensus size: 111
9131488 TGGGAAATTA
9131498 TTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCC
1 TTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCC
*
9131563 TTCATTGTGAAGTTGAAATTGACTCTAAATGAAACTGAAGAAGTTG
66 TTCACTGTGAAGTTGAAATTGACTCTAAATGAAACTGAAGAAGTTG
* ** * * *
9131609 TTTGTTGACAGTCATTTGCCCTTTCGCTGTGAAGTTGATCTTGTGTTGTCTTGAGTTCAATATCC
1 TTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCC
* *
9131674 TTCGCTGTGAAGTTGAAATTGGCTCTAAA
66 TTCACTGTGAAGTTGAAATTGACTCTAAA
9131703 ACTAGGAAGC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 85 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (111 bp):
TTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCC
TTCACTGTGAAGTTGAAATTGACTCTAAATGAAACTGAAGAAGTTG
Found at i:9132836 original size:8 final size:7
Alignment explanation
Indices: 9132814--9132860 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 7
9132804 CCTTATTTTC
9132814 TTTTCTT
1 TTTTCTT
9132821 TTTTCTT
1 TTTTCTT
9132828 TTGTTCTTT
1 TT-TTC-TT
9132837 TTTCTCTT
1 TTT-TCTT
9132845 TTTTCTCT
1 TTTTCT-T
9132853 TTTT-TT
1 TTTTCTT
9132859 TT
1 TT
9132861 CAATTTAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 3 0.08
7 13 0.36
8 14 0.39
9 6 0.17
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTCTT
Found at i:9132844 original size:9 final size:9
Alignment explanation
Indices: 9132809--9132857 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
9132799 ACACACCTTA
*
9132809 TTTTCTTTT
1 TTTTCTCTT
*
9132818 CTTTTTTCTT
1 -TTTTCTCTT
*
9132828 TTGT-TCTT
1 TTTTCTCTT
9132836 TTTTCTCTT
1 TTTTCTCTT
9132845 TTTTCTCTT
1 TTTTCTCTT
9132854 TTTT
1 TTTT
9132858 TTTCAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.21
9 20 0.59
10 7 0.21
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:9132910 original size:1 final size:1
Alignment explanation
Indices: 9132906--9132936 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
9132896 CGTTTTTCTC
*
9132906 TTTTTTTTTTTTTTTTTTTTTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9132937 CTCTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:9132946 original size:13 final size:11
Alignment explanation
Indices: 9132898--9132943 Score: 51
Period size: 10 Copynumber: 4.2 Consensus size: 11
9132888 ACCCTAAACG
*
9132898 TTTTTCTCTTT
1 TTTTTTTCTTT
9132909 TTTTTTT-TTT
1 TTTTTTTCTTT
9132919 TTTTTTT-TTT
1 TTTTTTTCTTT
9132929 TTATTTTTCTCTT
1 TT-TTTTTCT-TT
9132942 TT
1 TT
9132944 ATTCAACTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 15 0.48
11 11 0.35
12 1 0.03
13 4 0.13
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:9143009 original size:12 final size:13
Alignment explanation
Indices: 9142974--9143014 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
9142964 ATTGAGAATG
9142974 AAGAAAATGAAATA
1 AAGAAAAT-AAATA
9142988 AAGAAAATAAATA
1 AAGAAAATAAATA
*
9143001 AA-CAAATAAATA
1 AAGAAAATAAATA
9143013 AA
1 AA
9143015 TAATACCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.42
13 7 0.27
14 8 0.31
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (13 bp):
AAGAAAATAAATA
Found at i:9143391 original size:3 final size:3
Alignment explanation
Indices: 9143326--9143378 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
9143316 ATGAATAGTA
* *
9143326 AAT AAT AAT AAT AAT AAT AA- ACAG AA- AAG AAT -AT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
9143368 AAT AAT AAT AA
1 AAT AAT AAT AA
9143379 GAAGTCAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
2 7 0.16
3 36 0.82
4 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:9144368 original size:5 final size:5
Alignment explanation
Indices: 9144355--9144394 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
9144345 ATGATTGTAC
* *
9144355 ATATT ATATA ATATA ATATA ATATA TATATT ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA -ATATA ATATA ATAT
9144395 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
ATATA
Found at i:9145923 original size:250 final size:244
Alignment explanation
Indices: 9145437--9145963 Score: 637
Period size: 250 Copynumber: 2.1 Consensus size: 244
9145427 TTTTTTTATT
* * *
9145437 TCGGGTCGGGTTTCTAATTTATATAGTCGGGTCTGGTGAAACTTTATTTTGGTTGGGTCGGGTCG
1 TCGGGTCGGATTTCTAA-TTATATATTCGGGTCTGGTGAAACTTTATTTTGGTTCGGTCGGGTCG
* ** *
9145502 GTTTTTTTAAGTGTGATATTTGGTTGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCTACCCGA
65 GATTTTTTAAGTGTGATATTTGGTCAGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCTACCCGA
* *
9145567 AAATATATATAATTTTACCATATTATTAGGAATAATTACAATCCCTCTATATATAATTTTTTTTC
130 AAAAATATATAATTTTACCATATTATTAGGAATAATTACAATCCCTCTATATATAATATTTTTTC
* * **
9145632 ATTAAGTCACTATTTTTTATTGAATAAAAACAATTTTTTATTA-TTTTGG
195 ATTAAGTCACTATGTTTTATTAAATAAAAACAATTTTTTATTACTTCGGG
**
9145681 TCGGGTCGGATTTCTAATTCATATATTTTGGTC-GGTGAAACTTTATTTTGG-TCGGTCGGGTC-
1 TCGGGTCGGATTTCTAATT-ATATATTCGGGTCTGGTGAAACTTTATTTTGGTTCGGTCGGGTCG
*
9145743 GATTTTTTAAGTGTGATATTTGGGTCAGGTCGGGTTCAGGTTTAGGGTGAAAAATACCCTACCCA
65 GATTTTTTAAGTGTGATATTT-GGTCAGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCT-----
9145808 ACCCGACCTAAAAATATATAATTTTACC-TATATATTTA-GAATAATTACAATAATACCCCTCT-
124 ACCCGA---AAAAATATATAATTTTACCATAT-TA-TTAGGAATAATTAC---AAT--CCCTCTA
*
9145870 T-TAT-ATATTTTTTCAATTAAGTCA-T-TGTTTTATTAAATAAAAATAA-TTTTTATTACTTCG
179 TATATAATATTTTTTC-ATTAAGTCACTATGTTTTATTAAATAAAAACAATTTTTTATTACTTCG
9145930 GG
243 GG
*
9145932 TCGGGTCAGATTTCTAATTATATATTCGGGTC
1 TCGGGTCGGATTTCTAATTATATATTCGGGTC
9145964 GAGTCGGGTG
Statistics
Matches: 244, Mismatches: 20, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
241 20 0.08
242 44 0.18
243 20 0.08
244 26 0.11
247 6 0.02
249 3 0.01
250 50 0.20
251 43 0.18
252 10 0.04
253 15 0.06
254 1 0.00
255 6 0.02
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (244 bp):
TCGGGTCGGATTTCTAATTATATATTCGGGTCTGGTGAAACTTTATTTTGGTTCGGTCGGGTCGG
ATTTTTTAAGTGTGATATTTGGTCAGGTCGAGTTCAGGTTTAGGGTGAAAAATACCCTACCCGAA
AAAATATATAATTTTACCATATTATTAGGAATAATTACAATCCCTCTATATATAATATTTTTTCA
TTAAGTCACTATGTTTTATTAAATAAAAACAATTTTTTATTACTTCGGG
Found at i:9148532 original size:142 final size:141
Alignment explanation
Indices: 9148277--9148559 Score: 557
Period size: 142 Copynumber: 2.0 Consensus size: 141
9148267 GAGCAAGTGA
9148277 AGTTTGATGGTAAGACTAAAATTTCAAGTAACTCGGGCCCCGACCTTCAAATTTCTATAAATTTC
1 AGTTTGATGGTAAGACTAAAATTTCAAGTAACTCGGGCCCCGACCTTCAAATTTCTATAAATTTC
9148342 TATTTTGCTTTGTGCCTTCACACCCCATGCCTTTAACATTTGATTCATGTTTTCCTTGGGTTTGA
66 TATTTTGCTTTGTGCCTTCACACCCCATGCCTTTAACATTTGATTCATGTTTTCCTTGGGTTTGA
9148407 GAATTATAGTT
131 GAATTATAGTT
9148418 AGTTTGATGGTAAGACTAAAATTTCAAGTAAACTCGGGCCCCGACCTTCAAATTTCTATAAATTT
1 AGTTTGATGGTAAGACTAAAATTTCAAGT-AACTCGGGCCCCGACCTTCAAATTTCTATAAATTT
9148483 CTATTTTGCTTTGTGCCTTCACACCCCATGCCTTTAACATTTGATTCATGTTTTCCTTGGGTTTG
65 CTATTTTGCTTTGTGCCTTCACACCCCATGCCTTTAACATTTGATTCATGTTTTCCTTGGGTTTG
9148548 AGAATTATAGTT
130 AGAATTATAGTT
9148560 GGAAGATGAA
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 29 0.21
142 112 0.79
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.40
Consensus pattern (141 bp):
AGTTTGATGGTAAGACTAAAATTTCAAGTAACTCGGGCCCCGACCTTCAAATTTCTATAAATTTC
TATTTTGCTTTGTGCCTTCACACCCCATGCCTTTAACATTTGATTCATGTTTTCCTTGGGTTTGA
GAATTATAGTT
Found at i:9151529 original size:6 final size:6
Alignment explanation
Indices: 9151518--9151554 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
9151508 CTTGGCCATT
9151518 GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA G
1 GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA GCCTGA G
9151555 ACTACTGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.16
Consensus pattern (6 bp):
GCCTGA
Found at i:9153262 original size:21 final size:23
Alignment explanation
Indices: 9153222--9153267 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
9153212 ACCCATTTAA
*
9153222 AATATTATAGCCCAGTAAATTTT
1 AATATGATAGCCCAGTAAATTTT
9153245 AATATGATA-CCCA-TAAATTTT
1 AATATGATAGCCCAGTAAATTTT
9153266 AA
1 AA
9153268 AATTCAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 4 0.18
23 8 0.36
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (23 bp):
AATATGATAGCCCAGTAAATTTT
Found at i:9153443 original size:24 final size:24
Alignment explanation
Indices: 9153359--9153443 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
9153349 AAAAAATCTA
*
9153359 TTTTCATTTATGTTCGTTTATGTTC
1 TTTT-ATTTGTGTTCGTTTATGTTC
* **
9153384 ATTTA-TTGTGTTCGTTTGCGTTC
1 TTTTATTTGTGTTCGTTTATGTTC
* ** *
9153407 GTTTACATCTGTTCGTTTATGTTC
1 TTTTATTTGTGTTCGTTTATGTTC
9153431 TTTTATTTGTGTT
1 TTTTATTTGTGTT
9153444 TATTTATCAT
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
23 19 0.41
24 24 0.52
25 3 0.07
ACGTcount: A:0.11, C:0.12, G:0.16, T:0.61
Consensus pattern (24 bp):
TTTTATTTGTGTTCGTTTATGTTC
Found at i:9156161 original size:21 final size:21
Alignment explanation
Indices: 9156135--9156193 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
9156125 ATACACTAAT
9156135 ATTTTATTAAAAATTGAATCA
1 ATTTTATTAAAAATTGAATCA
*
9156156 ATTTTATTGAAAAAACTGAATCA
1 ATTTTATT--AAAAATTGAATCA
* *
9156179 ATTTTCTCAAAAATT
1 ATTTTATTAAAAATT
9156194 TAATTTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.44
23 18 0.56
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (21 bp):
ATTTTATTAAAAATTGAATCA
Found at i:9157322 original size:21 final size:21
Alignment explanation
Indices: 9157293--9157366 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
9157283 GTGTTCCATT
9157293 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
9157314 TCGCATTGCGAT-TTTTCATT
1 TCGCGTTGCGATAGTTGAAAA
9157334 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
9157355 TCGCGTTGCGAT
1 TCGCGTTGCGAT
9157367 TTTCTATTTC
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:9157336 original size:41 final size:40
Alignment explanation
Indices: 9157289--9157389 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 40
9157279 ATTCGTGTTC
9157289 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGA-TTTT
*
9157330 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTT
9157370 CTATTTCGCGTTGCGATAGT
1 C-ATTTCGCGTTGCGATAGT
9157390 CTACAGTTGT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
40 5 0.09
41 53 0.91
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (40 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTT
Found at i:9157342 original size:20 final size:20
Alignment explanation
Indices: 9157314--9157386 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
9157304 TAGTTGAAAA
*
9157314 TCGCATTGCGATTTTTCATT
1 TCGCGTTGCGATTTTTCATT
* ** **
9157334 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTTCATT
9157355 TCGCGTTGCGA-TTTTCTATT
1 TCGCGTTGCGATTTTTC-ATT
9157375 TCGCGTTGCGAT
1 TCGCGTTGCGAT
9157387 AGTCTACAGT
Statistics
Matches: 39, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
19 2 0.05
20 23 0.59
21 14 0.36
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTTCATT
Found at i:9157423 original size:19 final size:19
Alignment explanation
Indices: 9157399--9157468 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
9157389 TCTACAGTTG
9157399 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* ** * *
9157418 TCGTTGTGATAGTCTATAGTT
1 TCGTTGCGATTTTCCA-A-AT
*
9157439 GTCGTTGTGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
9157459 TCGTTGCGAT
1 TCGTTGCGAT
9157469 AGTTAAAAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 21 0.55
20 2 0.05
21 2 0.05
22 13 0.34
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:9157423 original size:41 final size:41
Alignment explanation
Indices: 9157378--9157471 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
9157368 TTCTATTTCG
9157378 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
* * *
9157419 CGTTGTGATAGTCTATAGTTGTCGTTGTGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
9157460 CGTTGCGATAGT
1 CGTTGCGATAGT
9157472 TAAAAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.41
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:9158267 original size:20 final size:20
Alignment explanation
Indices: 9158244--9158282 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9158234 ACTGTGGACT
9158244 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
9158264 ATCGCAACGCGAAATGGAA
1 ATCGCAACGCGAAATGGAA
9158283 CGCGATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.26, T:0.10
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:9158375 original size:41 final size:42
Alignment explanation
Indices: 9158281--9158400 Score: 179
Period size: 41 Copynumber: 2.9 Consensus size: 42
9158271 CGCGAAATGG
** * *
9158281 AACGCGATTTTCAACTATCGCAACGCGATTTTCAACTATCGC
1 AACGCGATTTTCAACTATCGCAACGCGAAATGCAACAATCGC
*
9158323 AACGCGATTTTCAACTATCGCAACGCGAAATGGAA-AATCGC
1 AACGCGATTTTCAACTATCGCAACGCGAAATGCAACAATCGC
*
9158364 AACGCGATTTTCAACTATTGCAACGCGAAATGCAACA
1 AACGCGATTTTCAACTATCGCAACGCGAAATGCAACA
9158401 CGAATTTGCG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 38 0.54
42 32 0.46
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
AACGCGATTTTCAACTATCGCAACGCGAAATGCAACAATCGC
Found at i:9158399 original size:21 final size:21
Alignment explanation
Indices: 9158281--9158391 Score: 161
Period size: 21 Copynumber: 5.3 Consensus size: 21
9158271 CGCGAAATGG
9158281 AACGCGATTTTCAACTATCGC
1 AACGCGATTTTCAACTATCGC
9158302 AACGCGATTTTCAACTATCGC
1 AACGCGATTTTCAACTATCGC
9158323 AACGCGATTTTCAACTATCGC
1 AACGCGATTTTCAACTATCGC
** ** *
9158344 AACGCGAAATGGAA-AATCGC
1 AACGCGATTTTCAACTATCGC
*
9158364 AACGCGATTTTCAACTATTGC
1 AACGCGATTTTCAACTATCGC
9158385 AACGCGA
1 AACGCGA
9158392 AATGCAACAC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 15 0.19
21 63 0.81
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (21 bp):
AACGCGATTTTCAACTATCGC
Found at i:9159155 original size:26 final size:27
Alignment explanation
Indices: 9159120--9159190 Score: 101
Period size: 25 Copynumber: 2.7 Consensus size: 27
9159110 GGTATTCGGG
*
9159120 TCGGATTTTTTAAAAAAAAAATTCAGGA
1 TCGGA-TTTTTAAAAAAAAAATCCAGGA
*
9159148 TCGG-TTTTT-TAAAAAAAATCCAGGA
1 TCGGATTTTTAAAAAAAAAATCCAGGA
9159173 TCGGATTTTTAAAAAAAA
1 TCGGATTTTTAAAAAAAA
9159191 TCACGTTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 18 0.47
26 10 0.26
27 6 0.16
28 4 0.11
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.32
Consensus pattern (27 bp):
TCGGATTTTTAAAAAAAAAATCCAGGA
Found at i:9159191 original size:25 final size:25
Alignment explanation
Indices: 9159133--9159192 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
9159123 GATTTTTTAA
* *
9159133 AAAAAAAATTCAGGATCGGTTTTTT
1 AAAAAAAATCCAGGATCGGATTTTT
9159158 AAAAAAAATCCAGGATCGGATTTTT
1 AAAAAAAATCCAGGATCGGATTTTT
9159183 AAAAAAAATC
1 AAAAAAAATC
9159193 ACGTTCGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (25 bp):
AAAAAAAATCCAGGATCGGATTTTT
Found at i:9170534 original size:31 final size:32
Alignment explanation
Indices: 9170496--9170578 Score: 141
Period size: 32 Copynumber: 2.6 Consensus size: 32
9170486 TGTATTTTCT
* *
9170496 ATGTAAGTGACTAAAACTTAAT-AAAACGATA
1 ATGTAAGTGACCAAAACTTAATAAAAACAATA
9170527 ATGTAAGTGACCAAAACTTAATAAAAACAATA
1 ATGTAAGTGACCAAAACTTAATAAAAACAATA
9170559 ATGTAAGTGACCAAAACTTA
1 ATGTAAGTGACCAAAACTTA
9170579 TGTTTTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 21 0.43
32 28 0.57
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (32 bp):
ATGTAAGTGACCAAAACTTAATAAAAACAATA
Found at i:9172706 original size:106 final size:109
Alignment explanation
Indices: 9172546--9172756 Score: 304
Period size: 106 Copynumber: 2.0 Consensus size: 109
9172536 TGACATAACA
*
9172546 AGTTCATCTCATATGCGATTTATAATTCATCTCTTCTAATTTAAGTAAATAATCGCATTCATATC
1 AGTTCATATCATATGCGATTTATAATTCATCTCTTCTAATTTAAGTAAATAATCGCATTCATATC
* *
9172611 CCCTGAGATTATAGATTCCTTAAAAACTTTAATAAGTGAAAGAG
66 CCATAAGATTATAGATTCCTTAAAAACTTTAATAAGTGAAAGAG
* * * *
9172655 AGTTCATATCATCTGCGA-TT-T-ATTCATCTCTTCTAATTTACGTTAAA-AATCGTATTCATGT
1 AGTTCATATCATATGCGATTTATAATTCATCTCTTCTAATTTAAG-TAAATAATCGCATTCATAT
* *
9172716 CTCATAAGGTTATAGATTCCTTAAAAACTTTAATAAGTGAA
65 CCCATAAGATTATAGATTCCTTAAAAACTTTAATAAGTGAA
9172757 GGAGTATATT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 69 0.75
107 5 0.05
108 2 0.02
109 16 0.17
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (109 bp):
AGTTCATATCATATGCGATTTATAATTCATCTCTTCTAATTTAAGTAAATAATCGCATTCATATC
CCATAAGATTATAGATTCCTTAAAAACTTTAATAAGTGAAAGAG
Found at i:9173345 original size:23 final size:23
Alignment explanation
Indices: 9173309--9173414 Score: 99
Period size: 24 Copynumber: 4.6 Consensus size: 23
9173299 TCGGGCCGGG
9173309 TATATATATATATTTAAATTAAA
1 TATATATATATATTTAAATTAAA
* *
9173332 TATATATTTTTATTTAAATTAAA
1 TATATATATATATTTAAATTAAA
* * *
9173355 T-TAT-TATTATATATATATATATA
1 TATATATA-TATATTTAAAT-TAAA
* * *
9173378 TATATATATATATATATATATATA
1 TATATATATATATTTAAAT-TAAA
9173402 TATATATATATAT
1 TATATATATATAT
9173415 AAAATTATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.01
22 11 0.15
23 26 0.36
24 32 0.44
25 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATATATATATATTTAAATTAAA
Found at i:9173369 original size:2 final size:2
Alignment explanation
Indices: 9173362--9173415 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
9173352 AAATTATTAT
9173362 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
9173404 TA TA TA TA TA TA
1 TA TA TA TA TA TA
9173416 AAATTATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9175297 original size:13 final size:13
Alignment explanation
Indices: 9175279--9175305 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9175269 ATTATGTGTA
9175279 CTTGATTAATATT
1 CTTGATTAATATT
9175292 CTTGATTAATATT
1 CTTGATTAATATT
9175305 C
1 C
9175306 CAGCAGCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (13 bp):
CTTGATTAATATT
Found at i:9186038 original size:13 final size:12
Alignment explanation
Indices: 9186022--9186064 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
9186012 GATATAGCAA
9186022 AAAAAAAGGATAG
1 AAAAAAA-GATAG
*
9186035 AAAAAAATATAG
1 AAAAAAAGATAG
9186047 AAAAAAAAGA-AG
1 -AAAAAAAGATAG
9186059 AAAAAA
1 AAAAAA
9186065 TAAAAGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.22
12 6 0.22
13 15 0.56
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAAAAAGATAG
Found at i:9186069 original size:15 final size:15
Alignment explanation
Indices: 9186045--9186147 Score: 68
Period size: 18 Copynumber: 6.4 Consensus size: 15
9186035 AAAAAAATAT
9186045 AGAAAAAAAAGAAGA
1 AGAAAAAAAAGAAGA
9186060 A-AAAATAAAAGAAGA
1 AGAAAA-AAAAGAAGA
*
9186075 AGAAAAAGAAAAAATGA
1 AGAAAAA-AAAGAA-GA
*
9186092 GAAAAAAAGAAAGAGAGA
1 -AGAAAAA-AAAGA-AGA
9186110 GAGAGAAAAAAAG-AGA
1 -AGA-AAAAAAAGAAGA
*
9186126 A-ATAAAGAAAGAAGAA
1 AGA-AAAAAAAGAAG-A
9186142 AGAAAA
1 AGAAAA
9186148 TCGATCAATC
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
14 12 0.17
15 15 0.21
16 17 0.24
17 3 0.04
18 20 0.28
19 5 0.07
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (15 bp):
AGAAAAAAAAGAAGA
Found at i:9186071 original size:12 final size:12
Alignment explanation
Indices: 9186036--9186089 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
9186026 AAAGGATAGA
*
9186036 AAAAAAT-ATAG
1 AAAAAATAAAAG
9186047 AAAAAA-AAGAAG
1 AAAAAATAA-AAG
9186059 AAAAAATAAAAG
1 AAAAAATAAAAG
*
9186071 AAGAAGA-AAAAG
1 AA-AAAATAAAAG
9186083 AAAAAAT
1 AAAAAAT
9186090 GAGAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
11 10 0.29
12 20 0.57
13 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (12 bp):
AAAAAATAAAAG
Found at i:9186072 original size:24 final size:25
Alignment explanation
Indices: 9186001--9186089 Score: 78
Period size: 24 Copynumber: 3.6 Consensus size: 25
9185991 ACACAGAGAT
*
9186001 AAAGAAGAAAAGATATAGCAA-AAAAA
1 AAAGAAGAAAAAATATA--AAGAAAAA
* *
9186027 AAGGATAGAAAAAA-ATATAGAAAAA
1 AAAGA-AGAAAAAATATAAAGAAAAA
*
9186052 AAAGAAGAAAAAATA-AAAGAAGAAG
1 AAAGAAGAAAAAATATAAAGAA-AAA
9186077 AAA-AAGAAAAAAT
1 AAAGAAGAAAAAAT
9186090 GAGAAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
24 24 0.45
25 15 0.28
26 7 0.13
27 7 0.13
ACGTcount: A:0.75, C:0.01, G:0.16, T:0.08
Consensus pattern (25 bp):
AAAGAAGAAAAAATATAAAGAAAAA
Found at i:9186087 original size:18 final size:19
Alignment explanation
Indices: 9186045--9186119 Score: 70
Period size: 18 Copynumber: 4.1 Consensus size: 19
9186035 AAAAAAATAT
*
9186045 AGAAAAA-AAAGAAGAAAA
1 AGAAAAAGAGAGAAGAAAA
9186063 A-ATAAAAGA-AGAAGAAAA
1 AGA-AAAAGAGAGAAGAAAA
9186081 AGAAAAA-ATGAGAA-AAAA
1 AGAAAAAGA-GAGAAGAAAA
*
9186099 AGAAAGAGAGAGAGAGAAAA
1 AGAAAAAGAGAGA-AGAAAA
9186119 A
1 A
9186120 AAGAGAAATA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
17 2 0.04
18 33 0.69
19 8 0.17
20 5 0.10
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (19 bp):
AGAAAAAGAGAGAAGAAAA
Found at i:9186104 original size:22 final size:22
Alignment explanation
Indices: 9186048--9186123 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
9186038 AAAATATAGA
9186048 AAAAAAAG-AAGAAAAAAT-A-
1 AAAAAAAGAAAGAAAAAATGAG
9186067 AAAGAAGAAGAAAAAGAAAAAATGAG
1 AAA-AA-AAG--AAAGAAAAAATGAG
* *
9186093 AAAAAAAGAAAGAGAGAGA-GAG
1 AAAAAAAGAAAGA-AAAAATGAG
9186115 AAAAAAAGA
1 AAAAAAAGA
9186124 GAAATAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
19 3 0.06
20 2 0.04
21 3 0.06
22 17 0.36
23 3 0.06
24 13 0.28
25 3 0.06
26 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (22 bp):
AAAAAAAGAAAGAAAAAATGAG
Found at i:9186126 original size:32 final size:33
Alignment explanation
Indices: 9186048--9186147 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 33
9186038 AAAATATAGA
9186048 AAAAAAAGAAGAAAAAATA-AAAGAAGAAGAAAAAG
1 AAAAAAAG-AGAAAAAA-AGAAAG-AGAAGAAAAAG
* * *
9186083 AAAAAATGAGAAAAAAAGAAAGAG-AGAGAGAG
1 AAAAAAAGAGAAAAAAAGAAAGAGAAGAAAAAG
*
9186115 AAAAAAAGAGAAATAAAGAAAGAAGAAAGAAAA
1 AAAAAAAGAGAAAAAAAGAAAG-AG-AAGAAAA
9186148 TCGATCAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
32 26 0.48
33 5 0.09
34 12 0.22
35 11 0.20
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (33 bp):
AAAAAAAGAGAAAAAAAGAAAGAGAAGAAAAAG
Found at i:9186138 original size:22 final size:22
Alignment explanation
Indices: 9186091--9186146 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
9186081 AGAAAAAATG
* *
9186091 AGAAAAAAAGAAAGAGAGAGAG
1 AGAAAAAAAGAAAGAGAAAGAA
*
9186113 AGAAAAAAAGAGAA-ATAAAGAA
1 AGAAAAAAAGA-AAGAGAAAGAA
*
9186135 AG-AAGAAAGAAA
1 AGAAAAAAAGAAA
9186147 ATCGATCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 7 0.24
22 18 0.62
23 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (22 bp):
AGAAAAAAAGAAAGAGAAAGAA
Found at i:9188226 original size:90 final size:90
Alignment explanation
Indices: 9188089--9188553 Score: 750
Period size: 90 Copynumber: 5.2 Consensus size: 90
9188079 TCAAAAGATT
*
9188089 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCTTTCGGGTCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGTCATCCATAAGACCTT
* *
9188154 CAGTGCAAGATATTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* *
9188179 TTTTGGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGTCATCCATAAGACATT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGTCATCCATAAGACCTT
*
9188244 CAGCGCAGGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* *
9188269 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGAGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGTCATCCATAAGACCTT
* *
9188334 TAGTGCAGGATGTTTTTAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
*
9188359 TTTTAGAAACTAAACCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGTCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGTCATCCATAAGACCTT
* *
9188424 CAATGCTGGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* * * * * *
9188449 TTATAGAAACTGAGCCTTCGGGGTTTTCTTGATTTGTAAGTCTTTCGAGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGTCATCCATAAGACCTT
*
9188514 CAGTGCAGGATGTTTTCAAATGAGT
66 CAGTGCAGGATGTTTTCAAATGAGA
9188539 TTTTAGAAACTAAGC
1 TTTTAGAAACTAAGC
9188554 ATGATTTTCA
Statistics
Matches: 343, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 343 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (90 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGTCATCCATAAGACCTT
CAGTGCAGGATGTTTTCAAATGAGA
Found at i:9188696 original size:36 final size:36
Alignment explanation
Indices: 9188601--9189007 Score: 334
Period size: 36 Copynumber: 11.0 Consensus size: 36
9188591 TAAAAAAATG
* * ** * *
9188601 AATTTTGTCTCACTTGAGATAATTTTTACTCGAAACG
1 AATTTTGTCTCGCTTGAGAT-AGTTTCCCTTGAAACA
* ** * *
9188638 AGTTTTGTCT--CTTGAGGCAATTTCACTTGAAACA
1 AATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
* * * *
9188672 AATTGTGTCTCGCTTGAGATAATTTCACTCGAAACAGA
1 AATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAAC--A
* *
9188710 AGATTTTTTCTCGCTTGAGATAG-TTCCACTTGAAATAGA
1 A-ATTTTGTCTCGCTTGAGATAGTTTCC-CTTG-AA-ACA
* *
9188749 AGATTTTATCTCGCTTGAGGTAGTTTCCCTTGAAACAAA
1 A-ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAAC--A
* *
9188788 AGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGA
1 A-ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAAC--A
*
9188827 AGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACA
1 A-ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
* * *
9188864 AATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAACA
1 AATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
* * * *
9188900 AATTTTTTCTCTCTTGAGATTGTTTCCTTTGAAACA
1 AATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
* * * *
9188936 AATTTTATCTCTCTTGGGACAGTTTCCCTTGAAACA
1 AATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
* * * *
9188972 AGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
9189008 CAAACCTTTG
Statistics
Matches: 315, Mismatches: 44, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
34 20 0.06
35 6 0.02
36 144 0.46
37 12 0.04
38 7 0.02
39 119 0.38
40 6 0.02
41 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (36 bp):
AATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACA
Found at i:9188750 original size:39 final size:39
Alignment explanation
Indices: 9188679--9189007 Score: 351
Period size: 39 Copynumber: 8.7 Consensus size: 39
9188669 ACAAATTGTG
* * * *
9188679 TCTCGCTTGAGATAATTTCACTCGAAACAGAAGATTTTT
1 TCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTA
*
9188718 TCTCGCTTGAGATAG-TTCCACTTGAAATAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCC-CTTGAAACAGAAGATTTTA
* *
9188757 TCTCGCTTGAGGTAGTTTCCCTTGAAACAAAAGATTTTA
1 TCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTA
*
9188796 TCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTA
*
9188835 TCTCGCTTGAGATAGTTTCCCTTGAAAC--AA-ATTTTG
1 TCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTA
* * * *
9188871 TCTCTCTTGAGACAGTTTCCCTCGAAAC--AA-ATTTTT
1 TCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTA
* * *
9188907 TCTCTCTTGAGATTGTTTCCTTTGAAAC--AA-ATTTTA
1 TCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTA
* * * *
9188943 TCTCTCTTGGGACAGTTTCCCTTGAAAC--AAG-TTTTG
1 TCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTA
* * *
9188979 TCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TCTCGCTTGAGATAGTTTCCCTTGAAACA
9189008 CAAACCTTTG
Statistics
Matches: 256, Mismatches: 30, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
36 123 0.48
37 2 0.01
38 3 0.01
39 124 0.48
40 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (39 bp):
TCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTA
Found at i:9188820 original size:117 final size:111
Alignment explanation
Indices: 9188648--9189007 Score: 377
Period size: 108 Copynumber: 3.2 Consensus size: 111
9188638 AGTTTTGTCT
* * * * * * * *
9188648 CTTGAGGCAATTTCACTTGAAACAAATTGTGTCTCGCTTGAGATAATTTCACTCGAAACAGAAGA
1 CTTGAGACAGTTTCCCTCGAAACAAATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGA
* *
9188713 TTTTTTCTCGCTTGAGATAG-TTCCACTTGAAATAGAAGATTTTATCTCG
66 TTTTATCTCGCTTGAGATAGTTTCC-CTTG-AA-ACAA-ATTTTATCTCG
** *
9188762 CTTGAGGTAGTTTCCCTTGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGA
1 CTTGAGACAGTTTCCCTCGAAAC--AA-ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGA
* *
9188827 AGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCT
63 AGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAATTTTATCTCG
* * * * *
9188876 CTTGAGACAGTTTCCCTCGAAACAAATTTTTTCTCTCTTGAGATTGTTTCCTTTGAAAC--AA-A
1 CTTGAGACAGTTTCCCTCGAAACAAATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGA
* * * * * *
9188938 TTTTATCTCTCTTGGGACAGTTTCCCTTGAAACAAGTTTTGTCTCC
66 TTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAATTTTATCTCG
* *
9188984 CTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTCGAAACA
9189008 CAAACCTTTG
Statistics
Matches: 216, Mismatches: 26, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
108 64 0.30
109 2 0.01
111 29 0.13
112 2 0.01
114 49 0.23
115 3 0.01
116 4 0.02
117 59 0.27
118 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (111 bp):
CTTGAGACAGTTTCCCTCGAAACAAATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGA
TTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAATTTTATCTCG
Found at i:9189068 original size:36 final size:36
Alignment explanation
Indices: 9188645--9189075 Score: 313
Period size: 36 Copynumber: 11.8 Consensus size: 36
9188635 ACGAGTTTTG
* * * *
9188645 TCTCTTGAGGCAATTTCACTTGAAACAAATTGTGTC
1 TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
* * * * * *
9188681 TCGCTTGAGATAATTTCACTCGAAACAGAAGATTTTTTC
1 TCTCTTGAGACAGTTTCCCTTGAAAC--AA-ATTTTGTC
* * * *
9188720 TCGCTTGAGATAG-TTCCACTTGAAATAGAAGATTTTATC
1 TCTCTTGAGACAGTTTCC-CTTG-AA-ACAA-ATTTTGTC
* ** *
9188759 TCGCTTGAGGTAGTTTCCCTTGAAACAAAAGATTTTATC
1 TCTCTTGAGACAGTTTCCCTTGAAAC--AA-ATTTTGTC
* * * *
9188798 TCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATC
1 TCTCTTGAGACAGTTTCCCTTGAAAC--AA-ATTTTGTC
* *
9188837 TCGCTTGAGATAGTTTCCCTTGAAACAAATTTTGTC
1 TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
* *
9188873 TCTCTTGAGACAGTTTCCCTCGAAACAAATTTTTTC
1 TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
** * *
9188909 TCTCTTGAGATTGTTTCCTTTGAAACAAATTTTATC
1 TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
* *
9188945 TCTCTTGGGACAGTTTCCCTTGAAACAAGTTTTGTC
1 TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
* * *
9188981 TCCCTTGAGACAGTTTCTCTTGAAACACAA-----AC
1 TCTCTTGAGACAGTTTCCCTTGAAACA-AATTTTGTC
** *
9189013 -CT-TTGAGATC-GTTTCCCTTGAAATGAATTTTGTG
1 TCTCTTGAGA-CAGTTTCCCTTGAAACAAATTTTGTC
*
9189047 TCTCTTGAGACAGTTTTCCTTGAAACAAA
1 TCTCTTGAGACAGTTTCCCTTGAAACAAA
9189076 ATCTATCTCA
Statistics
Matches: 329, Mismatches: 47, Indels: 38
0.79 0.11 0.09
Matches are distributed among these distances:
29 2 0.01
30 18 0.05
31 2 0.01
32 1 0.00
35 3 0.01
36 166 0.50
37 4 0.01
38 7 0.02
39 119 0.36
40 6 0.02
41 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (36 bp):
TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTC
Found at i:9189721 original size:133 final size:133
Alignment explanation
Indices: 9189480--9190704 Score: 1767
Period size: 134 Copynumber: 9.2 Consensus size: 133
9189470 AAGAACTTGT
* * *
9189480 TCAACTTTCAGCTCGATTCTATCACAAAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
* ** * * *
9189545 TCACAAAATAAGGTGGATCGACCTTCTTT-TGTTCGCTCAAATCCATCACAGAA-GACGTTGGAT
66 TCACAGAAGGAGGTGGATCGACATT-TTTATTTTCGCTCAAATCCATCGCAGAAGGA-GTTGGAT
9189608 CAGCG
129 CAGCG
* *
9189613 TCGACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
* * *
9189678 TCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGAAGTTGGACCA
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
9189743 GCG
131 GCG
9189746 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
* *
9189811 TCATAGAAGGAGGTGGATCGACCTTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
9189876 GCG
131 GCG
* * * * * **
9189879 TCAACTTTTAGCTCGATTCTATCAAAGAATG-TGTAGATCAGCACCAACATCTTGTTCGATTTTA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
* * *
9189943 TCACAGAAAGAGGTGGATCGTCATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCA
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
9190008 GCG
131 GCG
* * *
9190011 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGAACAACATCGACATCTCGTTCGATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGA-TTCC
* * * *
9190076 ATCACAGAAGAAGATGGATCGACATTTTTATTTTCGTTCAAATACATCGCAGAAGGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
9190141 AGCG
130 AGCG
* * * *
9190145 TCAACTTTTAGCTCGATTCTATCACAGAATGAAGTAGATCAACATCGACATCTCGTTCGATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGA-TTCC
* *
9190210 ATCACAGAAGGAGGTGAATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
9190275 AGTG
130 AGCG
* * * *
9190279 TCAACTTTTTGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACACCTCGTTCGATTCCA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
* * * * * *
9190344 TTACAGAAAGAGGTGGATCGACCTTTTTATTTTCGCTCAAATACATCGTAGAAGAAGTTGGATCA
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
*
9190409 GCA
131 GCG
* * ** * *
9190412 TCATCTTTTAGCTCGATTCTATTACAGAAGGAGGTAGATCAGCATTGACATATCGTTTGATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGA-TTCC
* *
9190477 ATCACAGAATGAGGTAGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
9190542 AGCG
130 AGCG
* * * *
9190546 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCATCATCGACATATCGTTTGATTTCC
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGA-TTCC
*
9190611 ATCACAGAAGGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
9190676 AGCG
130 AGCG
*
9190680 TCAACTTCTT-GCTCGACTC-ATCACA
1 TCAACTT-TTAGCTCGATTCTATCACA
9190705 TATGGAGTTG
Statistics
Matches: 988, Mismatches: 98, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
132 123 0.12
133 413 0.42
134 450 0.46
135 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (133 bp):
TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
GCG
Found at i:9190483 original size:401 final size:400
Alignment explanation
Indices: 9189480--9190704 Score: 1856
Period size: 401 Copynumber: 3.1 Consensus size: 400
9189470 AAGAACTTGT
* *
9189480 TCAACTTTCAGCTCGATTCTATCACAAAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
* * * *
9189545 TCACA-AAATAAGGTGGATCGACCTTCTTT-TGTTCGCTCAAATCCATCACAGAAGACGTTGGAT
66 TCACAGAAA-GAGGTGGATCGACCTT-TTTATTTTCGCTCAAATCCATCGCAGAAGAAGTTGGAT
* *
9189608 CAGCGTCGACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGA
129 CAGCGTC-ACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA
*
9189673 -TTCCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGAAGTT
193 TTTCCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTT
* * *
9189737 GGACCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGT
258 GGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATCTCGT
* *
9189802 TCGA-TTCCATCATAGAAGGAGGTGGATCGACCTTTTTATTTTCGCTCAAATCCATCGCAGAAGG
323 TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGG
9189866 AGTTGGATCAGCG
388 AGTTGGATCAGCG
* * * * **
9189879 TCAACTTTTAGCTCGATTCTATCAAAGAATG-TGTAGATCAGCACCAACATCTTGTTCGATTTTA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
* *
9189943 TCACAGAAAGAGGTGGATCGTCATTTTTATTTTCGCTCAAATCCATCGCAGAA-AGAGTTGGATC
66 TCACAGAAAGAGGTGGATCGACCTTTTTATTTTCGCTCAAATCCATCGCAGAAGA-AGTTGGATC
* *
9190007 AGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGAACAACATCGACATCTCGTTCGAT
130 AGCGTC-ACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGAT
* * *
9190072 TTCCATCACAGAA-GAAGATGGATCGACATTTTTATTTTCGTTCAAATACATCGCAGAAGGAGTT
194 TTCCATCACAGAATG-AGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTT
* *
9190136 GGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAATGAAGTAGATCAACATCGACATCTCGT
258 GGATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATCTCGT
* *
9190201 TCGATTTCCATCACAGAAGGAGGTGAATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGG
323 TCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGG
*
9190266 AGTTGGATCAGTG
388 AGTTGGATCAGCG
* * * * *
9190279 TCAACTTTTTGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACACCTCGTTCGATTCCA
1 TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
* * *
9190344 TTACAGAAAGAGGTGGATCGACCTTTTTATTTTCGCTCAAATACATCGTAGAAGAAGTTGGATCA
66 TCACAGAAAGAGGTGGATCGACCTTTTTATTTTCGCTCAAATCCATCGCAGAAGAAGTTGGATCA
* * * * *
9190409 GCATCATCTTTTAGCTCGATTCTATTACAGAAGGAGGTAGATCAGCATTGACATATCGTTTGATT
131 GCGTCA-CTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATT
*
9190474 TCCATCACAGAATGAGGTAGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
195 TCCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
* * *
9190539 ATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCATCATCGACATATCGTTT
260 ATCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATCTCGTTC
*
9190604 GATTTCCATCACAGAAGGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAG
325 GATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAG
9190669 TTGGATCAGCG
390 TTGGATCAGCG
*
9190680 TCAACTTCTT-GCTCGACTC-ATCACA
1 TCAACTT-TTAGCTCGATTCTATCACA
9190705 TATGGAGTTG
Statistics
Matches: 744, Mismatches: 71, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
397 4 0.01
398 137 0.18
399 152 0.20
400 102 0.14
401 345 0.46
402 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (400 bp):
TCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
TCACAGAAAGAGGTGGATCGACCTTTTTATTTTCGCTCAAATCCATCGCAGAAGAAGTTGGATCA
GCGTCACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTT
CCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
TCAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACATCGACATCTCGTTCG
ATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGT
TGGATCAGCG
Found at i:9197922 original size:14 final size:14
Alignment explanation
Indices: 9197903--9197933 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9197893 GTGACCAAAA
*
9197903 AAAGTTTAATGACT
1 AAAGTTTAATGAAT
9197917 AAAGTTTAATGAAT
1 AAAGTTTAATGAAT
9197931 AAA
1 AAA
9197934 TTGAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.32
Consensus pattern (14 bp):
AAAGTTTAATGAAT
Found at i:9199453 original size:5 final size:5
Alignment explanation
Indices: 9199443--9199473 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
9199433 GATTAATGAT
9199443 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
9199474 CTAAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:9200558 original size:137 final size:136
Alignment explanation
Indices: 9200200--9200982 Score: 985
Period size: 137 Copynumber: 5.8 Consensus size: 136
9200190 TCCATTTTTC
* * * *
9200200 ATGACA-TGTTCCTTC---ATGAGGACGTCTGACCATCTTTGAAGATATTTGAGATAATAAGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * * * *
9200261 CCTTTGTAATGAGGACGTCTGGTTATCTGAGGATGACTCG-GCTCCTACGTGATGAGGA-TTCTG
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGA-T-GTGCTCCTTCGTGATGAGGAGTTCTG
*
9200324 ATCGGTGG
129 ATCGGTAG
* * *
9200332 ATGACATTGTTCCTTTGTGATGAGGATGTCTGGCGGCCATCTTTAAATATATTTGAGATAACACG
1 ATGACATTGTTCCTTCGTGATGAGGACGTCT---GGCCATCTTTAAAGATATTTGAGATAACACG
** * * *
9200397 GTTATTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGCTCATTCGTGATGAGGAGTTC
63 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATG-TGCTCCTTCGTGATGAGGAGTTC
*
9200462 TGATCGGTGG
127 TGATCGGTAG
*
9200472 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACACTGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACACGGTT
* ** * *
9200537 CTTTTATGATGAGGACATCTGGTTATCTAAGAATGATATTGCTCCTTCGTGATGAGGAGTTCTGA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGAT-GTGCTCCTTCGTGATGAGGAGTTCTGA
9200602 TCGGTAG
130 TCGGTAG
* *
9200609 ATGACATTGTTCCTTCGTGATGA-GA-GTTCTGGCCATCTTTGAAGATATTTGAGATAACACAGT
1 ATGACATTGTTCCTTCGTGATGAGGACG-TCTGGCCATCTTTAAAGATATTTGAGATAACACGGT
* * * *
9200672 TCCTTCGTGATGAGGACGTCTGGTTGTCTAAGGATGATG-ACTCTTTCGTGATGAGGAGTTCTGA
65 TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGCTCCTTCGTGATGAGGAGTTCTGA
**
9200736 TTAGTAG
130 TCGGTAG
* * * ** *
9200743 ATGACATTGTTCCTTCGTGGTGAGGACATTTGGCCATCTTT-AAGACCTTT-AGGATAACATGGT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGA-GATAACACGGT
*
9200806 TCCTTCGTGATGAGGACATCTGGTTGTCTAAGGATGATGTGACTCCTTCGTGATGAGGAGTTCTG
65 TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTG-CTCCTTCGTGATGAGGAGTTCTG
*
9200871 ATTGGTAG
129 ATCGGTAG
* * *
9200879 ATGACATTATTCCTTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTAAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACACGGTT
* *
9200944 CCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGT
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGT
9200983 TGATGGACAC
Statistics
Matches: 571, Mismatches: 61, Indels: 33
0.86 0.09 0.05
Matches are distributed among these distances:
132 6 0.01
133 9 0.02
134 104 0.18
135 15 0.03
136 146 0.26
137 174 0.30
138 2 0.00
139 73 0.13
140 42 0.07
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (136 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACACGGTT
CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGCTCCTTCGTGATGAGGAGTTCTGAT
CGGTAG
Found at i:9200779 original size:271 final size:269
Alignment explanation
Indices: 9200200--9200982 Score: 988
Period size: 271 Copynumber: 2.9 Consensus size: 269
9200190 TCCATTTTTC
* * * *
9200200 ATGACA-TGTTCCTTC---ATGAGGACGTCTGACCATCTTTGAAGATATTTGAGATAATAAGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTT-AAGATATTTGAGATAA-CATGTT
* * * * *
9200261 CCTTTGTAATGAGGACGTCTGGTTATCTGAGGATGACTCGGCTCCTACGTGATGAGGA-TTCTGA
64 CCTTTGTGATGAGGACATCTGGTTATCTAAGGATGA-TCTGCTCCTTCGTGATGAGGAGTTCTGA
* * *
9200325 TCGGTGGATGACATTGTTCCTTTGTGATGAG-GATGTCTGGCGGCCATCTTTAAATATATTTGAG
128 TCGGTAGATGACATTGTTCCTTCGTGATGAGAG-T-TCT---GGCCATCTTTAAAGATATTTGAG
** * * *
9200389 ATAACACGGTTATTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGCTCATTCGTGATG
188 ATAACACGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATG-TACTCATTCGTGATG
* *
9200454 AGGAGTTCTGATCGGTGG
252 AGGAGTTCTGATCAGTAG
*
9200472 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACACTGTT
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTT-AAGATATTTGAGATAACA-TGTT
* * * *
9200537 CTTTTATGATGAGGACATCTGGTTATCTAAGAATGATATTGCTCCTTCGTGATGAGGAGTTCTGA
64 CCTTTGTGATGAGGACATCTGGTTATCTAAGGATGAT-CTGCTCCTTCGTGATGAGGAGTTCTGA
*
9200602 TCGGTAGATGACATTGTTCCTTCGTGATGAGAGTTCTGGCCATCTTTGAAGATATTTGAGATAAC
128 TCGGTAGATGACATTGTTCCTTCGTGATGAGAGTTCTGGCCATCTTTAAAGATATTTGAGATAAC
* * * *
9200667 ACAGTTCCTTCGTGATGAGGACGTCTGGTTGTCTAAGGATGATG-ACTCTTTCGTGATGAGGAGT
193 ACGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGTACTCATTCGTGATGAGGAGT
*
9200731 TCTGATTAGTAG
258 TCTGATCAGTAG
* * **
9200743 ATGACATTGTTCCTTCGTGGTGAGGACATTTGGCCATCTTTAAGACCTTT-AGGATAACATGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGA-GATAACAT-GTT
* * *
9200807 CCTTCGTGATGAGGACATCTGGTTGTCTAAGGATGATGTGACTCCTTCGTGATGAGGAGTTCTGA
64 CCTTTGTGATGAGGACATCTGGTTATCTAAGGATGATCTG-CTCCTTCGTGATGAGGAGTTCTGA
* * ** *
9200872 TTGGTAGATGACATTATTCCTTCGTGATGAGGACATCTGGCCATCTTTAAAGATATTTAAGATAA
128 TCGGTAGATGACATTGTTCCTTCGTGATGA-GAGTTCTGGCCATCTTTAAAGATATTTGAGATAA
9200937 CACGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGT
192 CACGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGT
9200983 TGATGGACAC
Statistics
Matches: 449, Mismatches: 49, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
269 4 0.01
270 101 0.22
271 137 0.31
272 6 0.01
273 72 0.16
275 2 0.00
276 90 0.20
277 36 0.08
278 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (269 bp):
ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACATGTTCC
TTTGTGATGAGGACATCTGGTTATCTAAGGATGATCTGCTCCTTCGTGATGAGGAGTTCTGATCG
GTAGATGACATTGTTCCTTCGTGATGAGAGTTCTGGCCATCTTTAAAGATATTTGAGATAACACG
GTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGGATGATGTACTCATTCGTGATGAGGAGTTCT
GATCAGTAG
Found at i:9200853 original size:43 final size:40
Alignment explanation
Indices: 9200806--9200911 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
9200796 ATAACATGGT
**
9200806 TCCTTCGTGATGAGGACATCTGGTTGTCTAAGGATGATGTGAC
1 TCCTTCGTGATGAGGACATCTGGTTG-CT-A-GATGACATGAC
** * * * *
9200849 TCCTTCGTGATGAGGAGTTCTGATTGGTAGATGACATTAT
1 TCCTTCGTGATGAGGACATCTGGTTGCTAGATGACATGAC
9200889 TCCTTCGTGATGAGGACATCTGG
1 TCCTTCGTGATGAGGACATCTGG
9200912 CCATCTTTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
40 27 0.52
41 1 0.02
42 1 0.02
43 23 0.44
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (40 bp):
TCCTTCGTGATGAGGACATCTGGTTGCTAGATGACATGAC
Found at i:9210179 original size:43 final size:43
Alignment explanation
Indices: 9210110--9210199 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
9210100 CTAAATTGTC
* **
9210110 TTTGGAGAAGTTAGGAATGAAAGTTATCTCCTATTTGTAAAGT
1 TTTGGAGAAGTTAGGAATGAAAGTTATCCCCTATAAGTAAAGT
* *
9210153 TTTGGAGAAGTTAGGAGTGAAGGTTATCCCCTATAAGTAAAGT
1 TTTGGAGAAGTTAGGAATGAAAGTTATCCCCTATAAGTAAAGT
9210196 TTTG
1 TTTG
9210200 TTTGATGTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.36
Consensus pattern (43 bp):
TTTGGAGAAGTTAGGAATGAAAGTTATCCCCTATAAGTAAAGT
Found at i:9210726 original size:42 final size:42
Alignment explanation
Indices: 9210665--9210748 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
9210655 AGAGATGATT
* * *
9210665 GATCAAGTAAAAAAGTTCCAAGGTGATTCAAATGAACAAATG
1 GATCAAGCAAAAAAGTTCCAAGATGATTCAAAAGAACAAATG
*
9210707 GATCAAGCCAAAAAA-TTCCAAGATGATTCAAAAGAGCAAATG
1 GATCAAG-CAAAAAAGTTCCAAGATGATTCAAAAGAACAAATG
9210749 ACAAAACTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 31 0.84
43 6 0.16
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (42 bp):
GATCAAGCAAAAAAGTTCCAAGATGATTCAAAAGAACAAATG
Found at i:9217113 original size:136 final size:137
Alignment explanation
Indices: 9216840--9217358 Score: 891
Period size: 136 Copynumber: 3.8 Consensus size: 137
9216830 TCGTGTCCAT
*
9216840 CAACATCATTCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTT
1 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTT
* *
9216905 AAAGATGGCCAGACGTCCTCATCATGAA-GAACAATGTCATCCACCGATCAGAATTCCTTATCAC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAATTCCTCATCAC
9216969 GAATGAG
131 GAATGAG
* *
9216976 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAGGGAACCGTGTTATCTTAAATATCTTT
1 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTT
*
9217041 AAAGATGGCCAGACGTCCTCATCACGAATGAACAATGTCATCCACCGATCAGAATTCCTCATCAC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAATTCCTCATCAC
9217106 GAA-GAG
131 GAATGAG
*
9217112 CAACATCATTCTTAGATAGCCAGACGTCCCCATCACGAAGGAACCGTGTTATCTCAAATATCTTT
1 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTT
9217177 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAATTCCTCATCAC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAATTCCTCATCAC
*
9217242 GAATGAA
131 GAATGAG
* * *
9217249 CAACATCATTCTTAGATAGCCAGACGTCCTCATCATGAAGGAACCATGTTATCTCAAATATTTTT
1 CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTT
* * *
9217314 AAAGATGGCCAGACAT-CTCATCATGAAGGAACAATGTCATACACC
66 AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACC
9217359 AGTTGGATCT
Statistics
Matches: 364, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
136 248 0.68
137 116 0.32
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (137 bp):
CAACATCATTCTTAGATAGCCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTT
AAAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAATTCCTCATCAC
GAATGAG
Found at i:9218111 original size:12 final size:12
Alignment explanation
Indices: 9218090--9218132 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
9218080 TAGTGACCGA
9218090 TGACCGGAATAG
1 TGACCGGAATAG
*
9218102 TGACCAGAATAG
1 TGACCGGAATAG
*
9218114 TGATCGGAATAG
1 TGACCGGAATAG
*
9218126 TGCCCGG
1 TGACCGG
9218133 CGATGGTCGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.33, T:0.19
Consensus pattern (12 bp):
TGACCGGAATAG
Found at i:9222294 original size:20 final size:20
Alignment explanation
Indices: 9222266--9222306 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9222256 AGTGAGTAAT
*
9222266 AAAATATATTTAATAAGTTA
1 AAAAAATATTTAATAAGTTA
**
9222286 AAAAAATATTTTTTAAGTTA
1 AAAAAATATTTAATAAGTTA
9222306 A
1 A
9222307 TATATGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAAATATTTAATAAGTTA
Found at i:9224151 original size:24 final size:25
Alignment explanation
Indices: 9224123--9224177 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
9224113 GCGTTTAGTA
9224123 TTTAAATTATTAGA-TTTT-ATTTAT
1 TTTAAATTATTA-ATTTTTAATTTAT
* *
9224147 TTT-AATTTTTAATTTTTAATTTTT
1 TTTAAATTATTAATTTTTAATTTAT
9224171 TTTAAAT
1 TTTAAAT
9224178 CATACTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 1 0.04
23 11 0.42
24 11 0.42
25 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTAAATTATTAATTTTTAATTTAT
Found at i:9224162 original size:6 final size:7
Alignment explanation
Indices: 9224146--9224170 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9224136 ATTTTATTTA
9224146 TTTTAAT
1 TTTTAAT
9224153 TTTTAAT
1 TTTTAAT
9224160 TTTTAAT
1 TTTTAAT
9224167 TTTT
1 TTTT
9224171 TTTAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:9227108 original size:49 final size:49
Alignment explanation
Indices: 9227036--9227134 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
9227026 TTTGCTGAGT
9227036 ACTATAGTTAATAAAAACAATAAGGGTAAATTACGTATTTAGTACTTAA
1 ACTATAGTTAATAAAAACAATAAGGGTAAATTACGTATTTAGTACTTAA
9227085 ACTATAGTTAATAAAAACAATAAGGGTAAATTACGTATTTAGTACTTAA
1 ACTATAGTTAATAAAAACAATAAGGGTAAATTACGTATTTAGTACTTAA
9227134 A
1 A
9227135 ATATCAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.32
Consensus pattern (49 bp):
ACTATAGTTAATAAAAACAATAAGGGTAAATTACGTATTTAGTACTTAA
Found at i:9228514 original size:20 final size:20
Alignment explanation
Indices: 9228494--9228599 Score: 106
Period size: 20 Copynumber: 5.2 Consensus size: 20
9228484 AAATCGTAAT
*
9228494 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
9228514 GCGATACTTACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
9228534 GCGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TATCGCAAC
* *
9228555 GAGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
* *
9228575 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
9228595 GCGAT
1 GCGAT
9228600 TTACATAGCG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.03
20 56 0.77
21 13 0.18
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:9229126 original size:19 final size:18
Alignment explanation
Indices: 9229102--9229181 Score: 97
Period size: 19 Copynumber: 4.2 Consensus size: 18
9229092 AAGAAGAATA
9229102 GCAACGCGAAATGAAAATC
1 GCAACGCGAAAT-AAAATC
*
9229121 GCAACGCGGAAATAACTATC
1 GCAACGC-GAAATAA-AATC
9229141 GCAACGCGAAATAAAAATC
1 GCAACGCGAAAT-AAAATC
*
9229160 GCAACGCGAAACCAAAATC
1 GCAACGCGAAA-TAAAATC
9229179 GCA
1 GCA
9229182 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
19 37 0.69
20 17 0.31
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (18 bp):
GCAACGCGAAATAAAATC
Found at i:9229218 original size:14 final size:14
Alignment explanation
Indices: 9229199--9229254 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
9229189 TTTCATTTCG
9229199 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
9229213 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
9229232 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
9229246 CGTTGCGAT
1 CGTTGCGAT
9229255 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:9229224 original size:33 final size:33
Alignment explanation
Indices: 9229182--9229278 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
9229172 CAAAATCGCA
9229182 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
9229215 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
9229248 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATTTTCATTT-CGCGTTGCGATTCTC
9229279 ATTATCTCGT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 46 0.75
34 15 0.25
ACGTcount: A:0.10, C:0.25, G:0.22, T:0.43
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:9229280 original size:20 final size:19
Alignment explanation
Indices: 9229177--9229303 Score: 103
Period size: 20 Copynumber: 7.1 Consensus size: 19
9229167 GAAACCAAAA
* *
9229177 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
9229196 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
*
9229212 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
9229229 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
**
9229245 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCATT
9229262 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTCTCATT
* *
9229282 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTCTCATT
9229302 TC
1 TC
9229304 AACCAAAGAC
Statistics
Matches: 86, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 23 0.27
16 2 0.02
17 2 0.02
19 28 0.33
20 30 0.35
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTCTCATT
Found at i:9231083 original size:89 final size:90
Alignment explanation
Indices: 9230920--9231100 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 90
9230910 GAGATTGCTT
9230920 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
9230985 GTCTTTT-TGTTTGTCTTTTGGTTGA
66 GTCTTTTGT-TTTGTCTTTTGGTTGA
* * *
9231010 AGTAAATTTA-TCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA-ACTGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TTATTAACACTGTGAAGTTAGTA
9231073 TTTGTC-TTTGTTTTGTCTTTTGGTTGA
63 TTTGTCTTTTGTTTTGTCTTTTGGTTGA
9231100 A
1 A
9231101 AGTTTGAAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 8
0.88 0.03 0.08
Matches are distributed among these distances:
89 24 0.29
90 30 0.36
91 25 0.30
92 5 0.06
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (90 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTGTTTTGTCTTTTGGTTGA
Found at i:9232778 original size:14 final size:14
Alignment explanation
Indices: 9232759--9232794 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
9232749 ATTGTTTAAT
9232759 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
9232773 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
9232787 TGATTTGT
1 TGATTTGT
9232795 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:9232937 original size:14 final size:14
Alignment explanation
Indices: 9232918--9232974 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
9232908 GCGAAATGAA
9232918 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
9232932 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
9232951 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
9232965 AAGCGCAACG
1 AATCGCAACG
9232975 CGAAATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.23, G:0.26, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:9232945 original size:33 final size:33
Alignment explanation
Indices: 9232900--9232980 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
9232890 AAAAAGTACT
*
9232900 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
9232933 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
9232966 AGCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
9232981 TAATTCGCGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:9232959 original size:19 final size:19
Alignment explanation
Indices: 9232900--9232960 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
9232890 AAAAAGTACT
*
9232900 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
9232919 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
9232933 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
9232952 ATCGCAACG
1 ATCGCAACG
9232961 AGAGAAGCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:9233030 original size:33 final size:32
Alignment explanation
Indices: 9232988--9233114 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
9232978 AATTAATTCG
9232988 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
9233021 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
* *
9233054 CGTTGCGATTTTCATTTCGCATCGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
9233087 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
9233115 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
31 3 0.04
33 76 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:9233066 original size:66 final size:66
Alignment explanation
Indices: 9232982--9233113 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
9232972 ACGCGAAATT
* *
9232982 AATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
1 AATTAGCGTTGCGATTTTCATTTCGCATCGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
9233047 A
66 A
* *
9233048 AATTAGCGTTGCGATTTTCATTTCGCATCGTGATTCTCTCGTTGCGATTTTCATTTCGCATTGCG
1 AATTAGCGTTGCGATTTTCATTTCGCATCGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
9233113 A
66 A
9233114 TAGTAATTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (66 bp):
AATTAGCGTTGCGATTTTCATTTCGCATCGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCG
A
Found at i:9235411 original size:12 final size:12
Alignment explanation
Indices: 9235394--9235418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9235384 TCTTCGGGGA
9235394 CTTTTTCTTCTT
1 CTTTTTCTTCTT
9235406 CTTTTTCTTCTT
1 CTTTTTCTTCTT
9235418 C
1 C
9235419 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:9235628 original size:23 final size:23
Alignment explanation
Indices: 9235597--9235641 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9235587 ATCATCAAAA
*
9235597 TCCGAGTATTGACCAATATCAAG
1 TCCGAGTATTGACCAAGATCAAG
*
9235620 TCCGGGTATTGACCAAGATCAA
1 TCCGAGTATTGACCAAGATCAA
9235642 ATTTCGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (23 bp):
TCCGAGTATTGACCAAGATCAAG
Found at i:9236449 original size:20 final size:21
Alignment explanation
Indices: 9236424--9236475 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
9236414 TTTTCCTAAT
*
9236424 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
9236444 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
9236465 TCGCAATGCGA
1 TCGCAATGCGA
9236476 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:9236497 original size:20 final size:20
Alignment explanation
Indices: 9236464--9236542 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
9236454 AATTTGGAAA
* *
9236464 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
9236484 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
9236505 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
9236525 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
9236543 AAATTGCAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 30 0.62
21 14 0.29
22 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:9236551 original size:20 final size:20
Alignment explanation
Indices: 9236502--9236551 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9236492 GAGATAATAC
*
9236502 AAAATCGCAACGAGATTCTG
1 AAAATTGCAACGAGATTCTG
**
9236522 -ACTTTCGCAACGAGATTCTG
1 AAAATT-GCAACGAGATTCTG
9236542 AAAATTGCAA
1 AAAATTGCAA
9236552 TCATCTTCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
AAAATTGCAACGAGATTCTG
Found at i:9236818 original size:20 final size:20
Alignment explanation
Indices: 9236765--9236811 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9236755 CAACGGGGAA
* *
9236765 ATCGCAACGCAAAAATGGCT
1 ATCGCAACGCGAAACTGGCT
9236785 ATCGCAACGCGAAACTGGCT
1 ATCGCAACGCGAAACTGGCT
9236805 ATCGCAA
1 ATCGCAA
9236812 TTCGAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAACTGGCT
Found at i:9236848 original size:20 final size:20
Alignment explanation
Indices: 9236765--9236852 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 20
9236755 CAACGGGGAA
* *
9236765 ATCGCAACGCAAAAATGGCT
1 ATCGCAACGCGAAAATAGCT
* *
9236785 ATCGCAACGCGAAACTGGCT
1 ATCGCAACGCGAAAATAGCT
** ***
9236805 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAAT-AGCT
*
9236825 ATCGCAATGCGAAAATAGCT
1 ATCGCAACGCGAAAATAGCT
9236845 ATCGCAAC
1 ATCGCAAC
9236853 TAGAAAATCG
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
19 3 0.06
20 45 0.87
21 4 0.08
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATAGCT
Found at i:9236924 original size:19 final size:19
Alignment explanation
Indices: 9236902--9236946 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
9236892 TTCTCGTTGG
9236902 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
9236921 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
9236940 GATTTTC
1 GATTTTC
9236947 TCGTTGCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.49
Consensus pattern (19 bp):
GATTTTCATTTCGCATTGC
Found at i:9237102 original size:14 final size:14
Alignment explanation
Indices: 9237083--9237119 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9237073 CATCAATTAA
9237083 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
9237097 ACAAATCATCTTTT
1 ACAAATCAACATTT
9237111 ACAAATCAA
1 ACAAATCAA
9237120 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:9238580 original size:21 final size:20
Alignment explanation
Indices: 9238556--9238615 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
9238546 AACGGTGGGG
9238556 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
9238577 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
9238598 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
9238616 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:9239007 original size:20 final size:20
Alignment explanation
Indices: 9238984--9239048 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
9238974 ACTTAAAATT
9238984 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
9239004 GCAACGCGAAAATGGCTATC
1 GCAACGCGAAAATGACTATC
* * **
9239024 GTAATGCG-AAATGAAAATC
1 GCAACGCGAAAATGACTATC
9239043 GCAACG
1 GCAACG
9239049 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 12 0.32
20 25 0.68
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:9239043 original size:19 final size:19
Alignment explanation
Indices: 9239021--9239105 Score: 73
Period size: 14 Copynumber: 5.0 Consensus size: 19
9239011 GAAAATGGCT
*
9239021 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9239040 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
9239054 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9239073 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
9239087 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9239106 TCACAACGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 20
0.67 0.07 0.26
Matches are distributed among these distances:
14 20 0.39
15 2 0.04
16 4 0.08
17 4 0.08
18 2 0.04
19 19 0.37
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9239056 original size:14 final size:14
Alignment explanation
Indices: 9239037--9239127 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
9239027 ATGCGAAATG
9239037 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
9239051 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
9239070 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
9239084 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
9239100 ATGAAATCACAACGAC
1 A--AAATCGCAACGAC
9239116 AAAATCGCAACG
1 AAAATCGCAACG
9239128 CGAAACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 9 0.15
19 10 0.16
ACGTcount: A:0.49, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:9239113 original size:32 final size:33
Alignment explanation
Indices: 9239021--9239132 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
9239011 GAAAATGGCT
*
9239021 ATCGTAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
9239054 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
9239087 ATCGCAATGCGAAATG-AAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
9239119 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
9239133 CACAAATCGC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 28 0.37
33 48 0.63
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Done.