Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 54
Found at i:6025196 original size:2 final size:2
Alignment explanation
Indices: 6025189--6025223 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6025179 TTTCGTAAAT
6025189 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
6025224 TGTAGATTGA
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:6030779 original size:45 final size:44
Alignment explanation
Indices: 6030682--6030779 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 44
6030672 GGCCTTGTGC
6030682 ATCGATGCACATTCAAGGAGTGCATCAGTGCATCTTCATGATGT
1 ATCGATGCACATTCAAGGAGTGCATCAGTGCATCTTCATGATGT
*
6030726 ATCAATGCACATTCAAAGG-GATGCATC-GATGCA-CTTTCAT-ATTGT
1 ATCGATGCACATTC-AAGGAG-TGCATCAG-TGCATC-TTCATGA-TGT
6030771 ATCGATGCA
1 ATCGATGCA
6030780 TTATACACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
44 17 0.36
45 30 0.64
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGAGTGCATCAGTGCATCTTCATGATGT
Found at i:6046518 original size:16 final size:18
Alignment explanation
Indices: 6046489--6046521 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
6046479 CAATTTAGTC
6046489 CCTATATAATTTTATTTG
1 CCTATATAATTTTATTTG
6046507 CCTAT-TAA-TTTATTT
1 CCTATATAATTTTATTT
6046522 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (18 bp):
CCTATATAATTTTATTTG
Found at i:6046971 original size:4 final size:4
Alignment explanation
Indices: 6046964--6047044 Score: 51
Period size: 4 Copynumber: 20.0 Consensus size: 4
6046954 AATATTCATT
* * * *
6046964 TTTA TTTA TATCA TCTA TTTA TTTA TTTA -CTA TTT- TTTA ATTA TTTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
* *
6047012 TTTTA TTTA TTCA TCTTT TTTA TTT- TTTA TTTA
1 -TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
6047045 CCATGTTGAT
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
3 8 0.14
4 38 0.64
5 13 0.22
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:6047022 original size:32 final size:29
Alignment explanation
Indices: 6046981--6047043 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 29
6046971 ATATCATCTA
*
6046981 TTTATTTATTTACTATTTTTTAATTATTTTAT
1 TTTATTTATTCA-TATTTTTT-ATT-TTTTAT
*
6047013 TTTATTTATTCATCTTTTTTATTTTTTAT
1 TTTATTTATTCATATTTTTTATTTTTTAT
6047042 TT
1 TT
6047044 ACCATGTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 3 0.10
31 7 0.24
32 11 0.38
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTATTTATTCATATTTTTTATTTTTTAT
Found at i:6047034 original size:17 final size:17
Alignment explanation
Indices: 6046962--6047036 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
6046952 TAAATATTCA
6046962 TTTTTATTTATATCATC-
1 TTTTTATTTAT-TCATCT
* * *
6046979 TATTTATTTATTTACTAT
1 TTTTTATTTATTCA-TCT
*
6046997 TTTTTAATTATT--T-T
1 TTTTTATTTATTCATCT
*
6047011 ATTTTATTTATTCATCT
1 TTTTTATTTATTCATCT
6047028 TTTTTATTT
1 TTTTTATTT
6047037 TTTATTTACC
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 3 0.07
17 20 0.44
18 10 0.22
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTATTTATTCATCT
Found at i:6047035 original size:22 final size:22
Alignment explanation
Indices: 6046963--6047037 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
6046953 AAATATTCAT
6046963 TTTTATTTATATCATCTATTTATTTA
1 TTTTATTTAT-TCATC--TTT-TTTA
* * *
6046989 TTTACTATTTTTTAAT-TATTTTA
1 TTT--TATTTATTCATCTTTTTTA
6047012 TTTTATTTATTCATCTTTTTTA
1 TTTTATTTATTCATCTTTTTTA
6047034 TTTT
1 TTTT
6047038 TTATTTACCA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 9 0.22
22 10 0.25
23 7 0.17
24 2 0.05
26 3 0.08
27 3 0.08
28 6 0.15
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATTTATTCATCTTTTTTA
Found at i:6049723 original size:175 final size:175
Alignment explanation
Indices: 6049432--6049781 Score: 700
Period size: 175 Copynumber: 2.0 Consensus size: 175
6049422 AAGAATGGGT
6049432 AACAAACACCCTCGATGATAGATGAACTACAATTTTCAAAAACCTTAAGGAGGAAGAGATCGTGT
1 AACAAACACCCTCGATGATAGATGAACTACAATTTTCAAAAACCTTAAGGAGGAAGAGATCGTGT
6049497 GGAACGAACCTTGATTCTATCCAAGATATTCCCTCTATCAGATAAATGACTATGATTGGGTAATG
66 GGAACGAACCTTGATTCTATCCAAGATATTCCCTCTATCAGATAAATGACTATGATTGGGTAATG
6049562 CTTCTAGGAATATGGGGAGCCATTGGGTATGCACTACTTCTAGTA
131 CTTCTAGGAATATGGGGAGCCATTGGGTATGCACTACTTCTAGTA
6049607 AACAAACACCCTCGATGATAGATGAACTACAATTTTCAAAAACCTTAAGGAGGAAGAGATCGTGT
1 AACAAACACCCTCGATGATAGATGAACTACAATTTTCAAAAACCTTAAGGAGGAAGAGATCGTGT
6049672 GGAACGAACCTTGATTCTATCCAAGATATTCCCTCTATCAGATAAATGACTATGATTGGGTAATG
66 GGAACGAACCTTGATTCTATCCAAGATATTCCCTCTATCAGATAAATGACTATGATTGGGTAATG
6049737 CTTCTAGGAATATGGGGAGCCATTGGGTATGCACTACTTCTAGTA
131 CTTCTAGGAATATGGGGAGCCATTGGGTATGCACTACTTCTAGTA
6049782 TTGAAGCAAT
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 175 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (175 bp):
AACAAACACCCTCGATGATAGATGAACTACAATTTTCAAAAACCTTAAGGAGGAAGAGATCGTGT
GGAACGAACCTTGATTCTATCCAAGATATTCCCTCTATCAGATAAATGACTATGATTGGGTAATG
CTTCTAGGAATATGGGGAGCCATTGGGTATGCACTACTTCTAGTA
Found at i:6058113 original size:14 final size:14
Alignment explanation
Indices: 6058094--6058149 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 14
6058084 TACACATAAA
*
6058094 GAAAAAATGAAGAT
1 GAAAAAATGAAAAT
*
6058108 GAAAAACTGAAAAT
1 GAAAAAATGAAAAT
6058122 G--AAAATGAAAA-
1 GAAAAAATGAAAAT
6058133 -AAAAAA-GAAAAT
1 GAAAAAATGAAAAT
6058145 -AAAAA
1 GAAAAA
6058150 GAAAAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 5 0.14
12 18 0.50
14 13 0.36
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.11
Consensus pattern (14 bp):
GAAAAAATGAAAAT
Found at i:6058142 original size:11 final size:11
Alignment explanation
Indices: 6058123--6058156 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6058113 ACTGAAAATG
*
6058123 AAAATGAAAAA
1 AAAAAGAAAAA
*
6058134 AAAAAGAAAAT
1 AAAAAGAAAAA
6058145 AAAAAGAAAAA
1 AAAAAGAAAAA
6058156 A
1 A
6058157 TAATAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:6058156 original size:20 final size:20
Alignment explanation
Indices: 6058130--6058174 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
6058120 ATGAAAATGA
*
6058130 AAAAAAAAAGAAAATAAAAAG
1 AAAAAATAAGAAAA-AAAAAG
* *
6058151 AAAAAATAATAAAAGAAAAG
1 AAAAAATAAGAAAAAAAAAG
6058171 AAAA
1 AAAA
6058175 TTAGGGTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (20 bp):
AAAAAATAAGAAAAAAAAAG
Found at i:6059011 original size:30 final size:30
Alignment explanation
Indices: 6058963--6059038 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
6058953 GCTAAGCATC
*
6058963 AAATAGTACAGAGACTTGGCCACCAAGGTT
1 AAATAGTACAGGGACTTGGCCACCAAGGTT
* * *
6058993 AAAGT-GTATAGGGACTTGGCCATCAATGTT
1 AAA-TAGTACAGGGACTTGGCCACCAAGGTT
6059023 AAATAGTACAGGGACT
1 AAATAGTACAGGGACT
6059039 AAGACAAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 37 0.95
31 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (30 bp):
AAATAGTACAGGGACTTGGCCACCAAGGTT
Found at i:6068762 original size:27 final size:26
Alignment explanation
Indices: 6068705--6068760 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
6068695 TAGTGGATCG
* *
6068705 AAGTGTAAAATGACTAAAATGCCCCTA
1 AAGTGTAAAATGACAAAAATACCCC-A
6068732 AAGTGTAAAATGACCAAAAATACCTCCA
1 AAGTGTAAAATGA-CAAAAATACC-CCA
6068760 A
1 A
6068761 GTCTTGGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.52
28 10 0.40
29 2 0.08
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (26 bp):
AAGTGTAAAATGACAAAAATACCCCA
Found at i:6068787 original size:26 final size:26
Alignment explanation
Indices: 6068749--6068804 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
6068739 AAATGACCAA
**
6068749 AAATACCTCCAAG-TCTTGGAATGAAT
1 AAATACCTCCAAGATC-TAAAATGAAT
6068775 AAATACC-CTCAAGATCTAAAATGAAT
1 AAATACCTC-CAAGATCTAAAATGAAT
6068801 AAAT
1 AAAT
6068805 GAACCTCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 23 0.88
27 2 0.08
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (26 bp):
AAATACCTCCAAGATCTAAAATGAAT
Found at i:6074542 original size:309 final size:309
Alignment explanation
Indices: 6073972--6074584 Score: 868
Period size: 309 Copynumber: 2.0 Consensus size: 309
6073962 ACTTTGAGAA
* *
6073972 GTGTGACCATCAATGTCTTTAATACACTCAAATATGTGGATGATTCCGAGAAGTTTCAATGTGTT
1 GTGTGACAATCAATGTCTTTAATACACTCAAATACGTGGATGATTCCGAGAAGTTTCAATGTGTT
* * *
6074037 ATAAACATAGATTCAATGGTGTAAGAAAAAGCTATAGAATTTTGCTATATCAATTTCGTACAGAT
66 ATAAACATAGATTCAATGGTGGAAGAAAAAGCTATAGAATTTTGCTATAACAATTTCATACAGAT
* * *
6074102 TAAGGACTACGTAAAGCTCAATGAAGATGATAACGAGGAGCTTAAGGAATTCCCATTGGAGGTGA
131 TAAGGACTACGTAAAACTCAATGAAGACGATAACGAGGAGCTCAAGGAATTCCCATTGGAGGTGA
* * * * * *
6074167 AATGGTCTAGCTTACTCATAACTAGACCATTTACACAATTCAAACCCTTAGCTTTTGCTGAATTT
196 AATAGTCTAGCTTACTCATAACTAAACCATGTACACAATTCAAACCCTTAGATTTTACTAAATTT
* *
6074232 ATTCCTCCAAAAACCTCACTTGAACATGCACCCATCCTGGAGTTTCAAT
261 ATTACTCCAAAAACCTCACTTGAACATGCACCCATCCTAGAGTTTCAAT
* *
6074281 GTGTGACAATCAATGTCTTTAATACACTCAAATACGTGGATGATTTCGAGAAGTTTCAATGTTTT
1 GTGTGACAATCAATGTCTTTAATACACTCAAATACGTGGATGATTCCGAGAAGTTTCAATGTGTT
* * * * * * *
6074346 ATAGACATGGATTCGATGGTGGAAGAGAAAGGTGTGGAATTTTGCTATAACAATTTCATACAGAT
66 ATAAACATAGATTCAATGGTGGAAGAAAAAGCTATAGAATTTTGCTATAACAATTTCATACAGAT
* * * * *
6074411 TTAGGACTATGTAAAACTCAATGTAA-ACGGTAACTAGGAGCTCAAGGAATTCCTATTGGAGGTG
131 TAAGGACTACGTAAAACTCAATG-AAGACGATAACGAGGAGCTCAAGGAATTCCCATTGGAGGTG
* * *
6074475 CAATAGTCTAGCTTACTCATAACTAAACTATGTACACAATTCATACCCTTAGATTTTACTAAATT
195 AAATAGTCTAGCTTACTCATAACTAAACCATGTACACAATTCAAACCCTTAGATTTTACTAAATT
* * * * *
6074540 TATTATTCTAAAACCCTCACTTGAGCATGCACCCGTCCTAGAGTT
260 TATTACTCCAAAAACCTCACTTGAACATGCACCCATCCTAGAGTT
6074585 AAAGCATTTT
Statistics
Matches: 265, Mismatches: 38, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
309 263 0.99
310 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (309 bp):
GTGTGACAATCAATGTCTTTAATACACTCAAATACGTGGATGATTCCGAGAAGTTTCAATGTGTT
ATAAACATAGATTCAATGGTGGAAGAAAAAGCTATAGAATTTTGCTATAACAATTTCATACAGAT
TAAGGACTACGTAAAACTCAATGAAGACGATAACGAGGAGCTCAAGGAATTCCCATTGGAGGTGA
AATAGTCTAGCTTACTCATAACTAAACCATGTACACAATTCAAACCCTTAGATTTTACTAAATTT
ATTACTCCAAAAACCTCACTTGAACATGCACCCATCCTAGAGTTTCAAT
Found at i:6078183 original size:3 final size:3
Alignment explanation
Indices: 6078175--6078202 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6078165 TTTACACATA
6078175 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6078203 TTTACATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6079287 original size:22 final size:22
Alignment explanation
Indices: 6079262--6079314 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
6079252 GTGAACAGTG
6079262 GGGGAATCGATTCCCTGTAGCA
1 GGGGAATCGATTCCCTGTAGCA
6079284 GGGGAATCGATTCCCTGTAGCA
1 GGGGAATCGATTCCCTGTAGCA
6079306 GGGGAATCG
1 GGGGAATCG
6079315 GTACCCCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.21, G:0.36, T:0.21
Consensus pattern (22 bp):
GGGGAATCGATTCCCTGTAGCA
Found at i:6079835 original size:47 final size:45
Alignment explanation
Indices: 6079760--6079885 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
6079750 TATAAAATCT
* *
6079760 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
* * *
6079805 CTTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
* * *
6079852 CTTGCTA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
6079886 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 24 0.34
45 10 0.14
46 2 0.03
47 35 0.49
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATA
Found at i:6083709 original size:25 final size:25
Alignment explanation
Indices: 6083681--6083741 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
6083671 TCTCTCATTT
*
6083681 TTTTCTCTTTTTCTT-TTC-TTTCTCG
1 TTTTCT-TTTTTCTTCTTCGTTT-TCA
6083706 TTTTCATTTTTTCTTCTTCGTTTTCA
1 TTTTC-TTTTTTCTTCTTCGTTTTCA
6083732 TTTTCTTTTT
1 TTTTCTTTTT
6083742 CTATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 18 0.56
26 11 0.34
27 3 0.09
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.74
Consensus pattern (25 bp):
TTTTCTTTTTTCTTCTTCGTTTTCA
Found at i:6083719 original size:20 final size:20
Alignment explanation
Indices: 6083694--6083735 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6083684 TCTCTTTTTC
6083694 TTTTCTT-TCTCGTTTTCATT
1 TTTTCTTCT-TCGTTTTCATT
6083714 TTTTCTTCTTCGTTTTCATT
1 TTTTCTTCTTCGTTTTCATT
6083734 TT
1 TT
6083736 CTTTTTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTCTTCTTCGTTTTCATT
Found at i:6083730 original size:32 final size:32
Alignment explanation
Indices: 6083680--6083760 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 32
6083670 ATCTCTCATT
*
6083680 TTTTTCTCTTTTTCTTTTC-TTTCTCGTTTTC-A
1 TTTTT-TCTTCTTCTTTTCATTT-TCGTTTTCTA
*
6083712 TTTTTTCTTCTTCGTTTTCATTTTCTTTTTCTA
1 TTTTTTCTTCTTC-TTTTCATTTTCGTTTTCTA
6083745 TTTTTT-TTCTTCTTTT
1 TTTTTTCTTCTTCTTTT
6083761 GTTTTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
31 11 0.25
32 23 0.52
33 10 0.23
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (32 bp):
TTTTTTCTTCTTCTTTTCATTTTCGTTTTCTA
Found at i:6083749 original size:20 final size:20
Alignment explanation
Indices: 6083680--6083749 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
6083670 ATCTCTCATT
6083680 TTTTTCTCTTTTTC-TTTTC
1 TTTTTCTCTTTTTCATTTTC
*
6083699 --TTTCTCGTTTTCATTTT-
1 TTTTTCTCTTTTTCATTTTC
* *
6083716 TTCTTCTTCGTTTTCATTTTC
1 TTTTTC-TCTTTTTCATTTTC
*
6083737 TTTTTCTATTTTT
1 TTTTTCTCTTTTT
6083750 TTTCTTCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 11 0.27
18 4 0.10
19 3 0.07
20 18 0.44
21 5 0.12
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTCTCTTTTTCATTTTC
Found at i:6083752 original size:12 final size:12
Alignment explanation
Indices: 6083686--6083766 Score: 51
Period size: 12 Copynumber: 6.6 Consensus size: 12
6083676 CATTTTTTTC
6083686 TCTTTTTC-TTT
1 TCTTTTTCATTT
* *
6083697 TCTTTCTCGTTT
1 TCTTTTTCATTT
6083709 TCATTTTTTC-TTCT
1 TC--TTTTTCATT-T
*
6083723 TCGTTTTCATTT
1 TCTTTTTCATTT
6083735 TCTTTTTCTATTT
1 TCTTTTTC-ATTT
*
6083748 TTTTTCTTC-TTT
1 TCTTT-TTCATTT
*
6083760 TGTTTTT
1 TCTTTTT
6083767 TTTTCATCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
11 9 0.16
12 25 0.44
13 12 0.21
14 11 0.19
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (12 bp):
TCTTTTTCATTT
Found at i:6083768 original size:18 final size:18
Alignment explanation
Indices: 6083745--6083812 Score: 109
Period size: 18 Copynumber: 3.8 Consensus size: 18
6083735 TCTTTTTCTA
6083745 TTTTTTTTCTTCTTTTGT
1 TTTTTTTTCTTCTTTTGT
*
6083763 TTTTTTTTCATCTTTTGT
1 TTTTTTTTCTTCTTTTGT
*
6083781 TTTTTTTTCTTCTTCTGT
1 TTTTTTTTCTTCTTTTGT
*
6083799 TTTTTCTTCTTCTT
1 TTTTTTTTCTTCTT
6083813 ATAATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTTTTCTTCTTTTGT
Found at i:6083802 original size:36 final size:36
Alignment explanation
Indices: 6083712--6083808 Score: 119
Period size: 36 Copynumber: 2.7 Consensus size: 36
6083702 CTCGTTTTCA
*
6083712 TTTTTTCTTCTTC-GTTTTCATTTTCT-TTTTCTATT
1 TTTTTTCTTCTTCTGTTTT-TTTTTCTCTTTTCTATT
* *
6083747 TTTTTTCTTCTTTTGTTTTTTTTTCATCTTTTGT-TT
1 TTTTTTCTTCTTCTGTTTTTTTTTC-TCTTTTCTATT
*
6083783 TTTTTTCTTCTTCTGTTTTTTCTTCT
1 TTTTTTCTTCTTCTGTTTTTTTTTCT
6083809 TCTTATAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
35 18 0.33
36 31 0.57
37 5 0.09
ACGTcount: A:0.03, C:0.15, G:0.04, T:0.77
Consensus pattern (36 bp):
TTTTTTCTTCTTCTGTTTTTTTTTCTCTTTTCTATT
Found at i:6083807 original size:12 final size:13
Alignment explanation
Indices: 6083714--6083808 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 13
6083704 CGTTTTCATT
6083714 TTTTCTTCTTC-G
1 TTTTCTTCTTCTG
6083726 TTTTCATT-TTCT-
1 TTTTC-TTCTTCTG
6083738 TTTTCTAT-TT-T-
1 TTTTCT-TCTTCTG
*
6083749 TTTTCTTCTTTTG
1 TTTTCTTCTTCTG
* *
6083762 TTTT-TTTTTCATC
1 TTTTCTTCTTC-TG
*
6083775 TTTTGTT-TT-T-
1 TTTTCTTCTTCTG
6083785 TTTTCTTCTTCTG
1 TTTTCTTCTTCTG
6083798 TTTT-TTCTTCT
1 TTTTCTTCTTCT
6083809 TCTTATAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 22
0.72 0.04 0.23
Matches are distributed among these distances:
10 7 0.10
11 13 0.19
12 29 0.43
13 17 0.25
14 2 0.03
ACGTcount: A:0.03, C:0.16, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTCTTCTTCTG
Found at i:6086695 original size:47 final size:45
Alignment explanation
Indices: 6086625--6086750 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
6086615 TATAAAATCT
*
6086625 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
6086670 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
6086717 CTTCCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
6086751 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:6092563 original size:183 final size:183
Alignment explanation
Indices: 6092250--6092602 Score: 616
Period size: 183 Copynumber: 1.9 Consensus size: 183
6092240 TTAAATCTGA
* * *
6092250 AAAGCTGAGCTATTCCACTAAGGCAATTGGTTATATAGGAAACTCGAAAGCCCTGGCTTTATGAA
1 AAAGCTGAGCTATTCCACTAAAGCAATTGGTTATAGAGGAAACTCGAAAGCCCTAGCTTTATGAA
** *
6092315 TAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTT
66 TAGATTACATTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCAATGCTTT
6092380 TGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTCT
131 TGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTCT
*
6092433 AAAGCTGAGCTATTCCGCTAAAGCAATTGGTTATAGAGGAAACTCGAAAGCCCTAGCTTTATGAA
1 AAAGCTGAGCTATTCCACTAAAGCAATTGGTTATAGAGGAAACTCGAAAGCCCTAGCTTTATGAA
* * *
6092498 TAGATTACATTCAAACTATGACATTGCTCGGACACTTGGTAATTCGGTGTTTGCTCTAATGCTTT
66 TAGATTACATTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCAATGCTTT
6092563 TGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
131 TGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
6092603 TAAACCTGAT
Statistics
Matches: 160, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (183 bp):
AAAGCTGAGCTATTCCACTAAAGCAATTGGTTATAGAGGAAACTCGAAAGCCCTAGCTTTATGAA
TAGATTACATTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCAATGCTTT
TGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTCT
Found at i:6093920 original size:39 final size:39
Alignment explanation
Indices: 6093868--6093944 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
6093858 TTTAAAGAAT
*
6093868 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
1 ATTTTATCCCGCTTGAGATAGTTTCCCTTGAAACAAAAG
*
6093907 ATTTTATCCCGCTTGATATAGTTTCCCTTGAAACAAAA
1 ATTTTATCCCGCTTGAGATAGTTTCCCTTGAAACAAAA
6093945 TTTTGTCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (39 bp):
ATTTTATCCCGCTTGAGATAGTTTCCCTTGAAACAAAAG
Found at i:6093959 original size:37 final size:39
Alignment explanation
Indices: 6093868--6093978 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 39
6093858 TTTAAAGAAT
*
6093868 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAAG
1 ATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACAAAAG
*
6093907 ATTTTATC-CCGCTTGATATAGTTTCCCTTGAAAC-AAA-
1 ATTTTATCTCC-CTTGAGATAGTTTCCCTTGAAACAAAAG
* * *
6093944 ATTTTGTCTCCCTTGAGA-CGTTTTCTCTTGAAACA
1 ATTTTATCTCCCTTGAGATAG-TTTCCCTTGAAACA
6093979 TAAACATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
36 1 0.02
37 25 0.40
38 6 0.10
39 30 0.48
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (39 bp):
ATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACAAAAG
Found at i:6094030 original size:92 final size:92
Alignment explanation
Indices: 6093925--6094682 Score: 1144
Period size: 92 Copynumber: 8.0 Consensus size: 92
6093915 CCGCTTGATA
6093925 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC-GTTTTCTCTTGAAACATAAACATTGA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG-TTTCTCTTGAAACATAAACATTGA
*
6093989 AAACATTTCCCCTGAAATGAATTTTGTC
65 AAACATTTCCCTTGAAATGAATTTTGTC
6094017 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC-GATTTCTCTTGAAACATAAACATTGA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG-TTTCTCTTGAAACATAAACATTGA
* *
6094081 ACACATTTCTCTTGAAATGAATTTTGTC
65 AAACATTTCCCTTGAAATGAATTTTGTC
*
6094109 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACATTGAA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
*
6094174 AACATTTCCCTTGAAATGAATTTTTTC
66 AACATTTCCCTTGAAATGAATTTTGTC
* * * *
6094201 TAGTTTCCCTTGAAATAAAATTTTATCTCCCTTGAGA-GGATGTCTCTTGAAACATAAACATTGA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG-TTTCTCTTGAAACATAAACATTGA
6094265 AAACATTTCCCTTGAAATGAATTTTGTCTATC
65 AAACATTTCCCTTGAAATGAATTTTG----TC
*
6094297 TTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGAAACATAAAC
1 ------TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
*
6094362 ATTGAAAACATTTCTCTTGAAATGAATTTTGTC
60 ATTGAAAACATTTCCCTTGAAATGAATTTTGTC
6094395 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
*
6094460 AACATTTCTCTTGAAATGAATTTTGTC
66 AACATTTCCCTTGAAATGAATTTTGTC
* *
6094487 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAGCATAAACATTGAA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
6094552 AACATTTCCCTTGAAAATGAATTTTGTCTCTC
66 AACATTTCCCTTG-AAATGAATTTTG----TC
6094584 TTGAAATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 ------TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
*
6094649 TTTGAAAACATTTCCCTTGAAATGAATTTTGTC
60 ATTGAAAACATTTCCCTTGAAATGAATTTTGTC
6094682 T
1 T
6094683 CCCTTGAGAC
Statistics
Matches: 615, Mismatches: 27, Indels: 48
0.89 0.04 0.07
Matches are distributed among these distances:
91 1 0.00
92 423 0.69
93 13 0.02
96 2 0.00
97 2 0.00
98 4 0.01
102 94 0.15
103 76 0.12
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (92 bp):
TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
AACATTTCCCTTGAAATGAATTTTGTC
Found at i:6094323 original size:102 final size:102
Alignment explanation
Indices: 6094201--6094396 Score: 322
Period size: 102 Copynumber: 1.9 Consensus size: 102
6094191 GAATTTTTTC
* *
6094201 TAGTTTCCCTTGAAATAAAATTTTATCTCCCTTGAGA-GGATGTCTCTTGAAACATAAACATTGA
1 TAGTTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG-TGTCTCTTGAAACATAAACATTGA
6094265 AAACATTTCCCTTGAAATGAATTTTGTCTATCTTGAGA
65 AAACATTTCCCTTGAAATGAATTTTGTCTATCTTGAGA
* * *
6094303 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGAAACATAAACATTGAA
1 TAGTTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTGTCTCTTGAAACATAAACATTGAA
*
6094368 AACATTTCTCTTGAAATGAATTTTGTCTA
66 AACATTTCCCTTGAAATGAATTTTGTCTA
6094397 GTTTCCCTTG
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 86 0.99
103 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (102 bp):
TAGTTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTGTCTCTTGAAACATAAACATTGAA
AACATTTCCCTTGAAATGAATTTTGTCTATCTTGAGA
Found at i:6094337 original size:37 final size:37
Alignment explanation
Indices: 6094270--6094356 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
6094260 ATTGAAAACA
** * *
6094270 TTTCCCTTGAAA-TGAATTTTGTCTATCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTACCTTGAGACAG
*
6094306 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTACCTTGAGACAG
**
6094343 TTTCTTTTGAAACA
1 TTTCCCTTGAAACA
6094357 TAAACATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTACCTTGAGACAG
Found at i:6094427 original size:286 final size:283
Alignment explanation
Indices: 6093925--6094682 Score: 1246
Period size: 286 Copynumber: 2.7 Consensus size: 283
6093915 CCGCTTGATA
*
6093925 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACGTTTTCTCTTGAAACATAAACATTGAA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA-GATTTCTCTTGAAACATAAACATTGAA
*
6093990 AACATTTCCCCTGAAATGAATTTTG---TC-----TAGTTTCCCTTGAAACAAAATTTTGTCTCC
65 AACATTTCCCTTGAAATGAATTTTGTCTTCTTGAATAGTTTCCCTTGAAACAAAATTTTGTCTCC
*
6094047 CTTGAGAC-GATTTCTCTTGAAACATAAACATTGAACACATTTCTCTTGAAATGAATTTTGTCTA
130 CTTGAGACAG-TTTCTCTTGAAACATAAACATTGAAAACATTTCTCTTGAAATGAATTTTGTCTA
*
6094111 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACATTGAAAA
194 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
*
6094176 CATTTCCCTTGAAATGAATTTTTTC
259 CATTTCCCTTGAAATGAATTTTGTC
* * *
6094201 TAGTTTCCCTTGAAATAAAATTTTATCTCCCTTGAGAGGATGTCTCTTGAAACATAAACATTGAA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA-GATTTCTCTTGAAACATAAACATTGAA
6094266 AACATTTCCCTTGAAATGAATTTTGTCTATCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCT
65 AACATTTCCCTTGAAATGAATTTTGTCT-TCTTGA-ATAGTTTCCCTTGAAACAAAATTTTGTCT
*
6094331 CCCTTGAGACAGTTTCTTTTGAAACATAAACATTGAAAACATTTCTCTTGAAATGAATTTTGTCT
128 CCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCTTGAAATGAATTTTGTCT
6094396 AGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAA
193 AGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAA
*
6094461 ACATTTCTCTTGAAATGAATTTTGTC
258 ACATTTCCCTTGAAATGAATTTTGTC
* *
6094487 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAGCATAAACATTGAA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAGA-TTTCTCTTGAAACATAAACATTGAA
6094552 AACATTTCCCTTGAAAATGAATTTTGTCTCTCTTGAAATAGTTTCCCTTGAAACAAAATTTTGTC
65 AACATTTCCCTTG-AAATGAATTTTGTCT-TCTTG-AATAGTTTCCCTTGAAACAAAATTTTGTC
* *
6094617 TCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACATTTCCCTTGAAATGAATTTTGTC
127 TCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCTTGAAATGAATTTTGTC
6094682 T
192 T
6094683 CCCTTGAGAC
Statistics
Matches: 448, Mismatches: 20, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
276 84 0.19
280 2 0.00
285 1 0.00
286 248 0.55
287 112 0.25
288 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (283 bp):
TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAGATTTCTCTTGAAACATAAACATTGAAA
ACATTTCCCTTGAAATGAATTTTGTCTTCTTGAATAGTTTCCCTTGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCTTGAAATGAATTTTGTCTAGT
TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
TTTCCCTTGAAATGAATTTTGTC
Found at i:6094597 original size:37 final size:37
Alignment explanation
Indices: 6094551--6094652 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
6094541 TAAACATTGA
* *
6094551 AAACA-TTTCCCTTGAAA-ATGAATTTTGTCTCTCTTG
1 AAACAGTTTCCCTTGAAACA-AAATTTTGTCTCCCTTG
*
6094587 AAATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTG
1 AAACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTG
* * *
6094624 AGACAGTTTCTCTTGAAACATAAACTTTG
1 AAACAGTTTCCCTTGAAACA-AAATTTTG
6094653 AAAACATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 4 0.07
37 44 0.79
38 8 0.14
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (37 bp):
AAACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTG
Found at i:6094608 original size:103 final size:102
Alignment explanation
Indices: 6094487--6094717 Score: 363
Period size: 103 Copynumber: 2.2 Consensus size: 102
6094477 GAATTTTGTC
* *
6094487 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAGCATAAACATTGAA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
*
6094552 AACATTTCCCTTGAAAATGAATTTTGTCTCTCTTGAAA
66 AACATTTCCCTTG-AAATGAATTTTGTCTCCCTTGAAA
*
6094590 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAA
1 TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
*
6094655 AACATTTCCCTTGAAATGAATTTTGTCTCCCTTGAGA
66 AACATTTCCCTTGAAATGAATTTTGTCTCCCTTGAAA
* * * *
6094692 CAGTTTCTCTCGAAACATAAACTTTG
1 TAGTTTCCCTTGAAACA-AAATTTTG
6094718 AAAACGTTAC
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 36 0.31
103 82 0.69
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (102 bp):
TAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
AACATTTCCCTTGAAATGAATTTTGTCTCCCTTGAAA
Found at i:6094690 original size:65 final size:66
Alignment explanation
Indices: 6094593--6094803 Score: 352
Period size: 66 Copynumber: 3.2 Consensus size: 66
6094583 CTTGAAATAG
*
6094593 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
1 TTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
6094658 A
66 A
* *
6094659 TTTCCCTTGAAA-TGAATTTTGTCTCCCTTGAGACAGTTTCTCTCGAAACATAAACTTTGAAAAC
1 TTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
*
6094723 G
66 A
* * *
6094724 TTACCCTTGAAACAGAATTTTGTCTCACTTGGGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
1 TTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
6094789 A
66 A
6094790 TTTCCCTTGAAACA
1 TTTCCCTTGAAACA
6094804 CAAAATACTT
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
65 60 0.45
66 73 0.55
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (66 bp):
TTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
A
Found at i:6095671 original size:106 final size:106
Alignment explanation
Indices: 6095485--6095746 Score: 355
Period size: 106 Copynumber: 2.5 Consensus size: 106
6095475 ATGAAGGGGC
* * * * * *
6095485 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACGCAAGTT
1 TTCCCAATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGAAAACACAAGCT
** * * *
6095550 CAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAAT
66 CAACTTCACGACGAAGGGACCGATGACTATAAACAAACAAT
*
6095591 TTCCCAATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGAAAACACAAGCT
* * *
6095656 CAACTTCAC-AGCGAAGGGGCGGCTGACTATAAACAAACAAT
66 CAACTTCACGA-CGAAGGGACCGATGACTATAAACAAACAAT
* *
6095697 TTCCCAATTCCAGAACCAATTTCAACTTCACAGCGGAGGATATTGGACTC
1 TTCCCAATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTC
6095747 GGAACAATAC
Statistics
Matches: 138, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
105 1 0.01
106 137 0.99
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
TTCCCAATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGAAAACACAAGCT
CAACTTCACGACGAAGGGACCGATGACTATAAACAAACAAT
Found at i:6096263 original size:26 final size:28
Alignment explanation
Indices: 6096234--6096293 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
6096224 CTAATTAGTA
6096234 TTACATATATA-TA-TA-CATTATTGTTT
1 TTACATATATATTATTATCATTATT-TTT
* *
6096260 TTACACATATATTATTATTATTATTTTT
1 TTACATATATATTATTATCATTATTTTT
6096288 TTACAT
1 TTACAT
6096294 TGTGATAGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.36
27 2 0.07
28 10 0.36
29 6 0.21
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (28 bp):
TTACATATATATTATTATCATTATTTTT
Found at i:6107803 original size:13 final size:13
Alignment explanation
Indices: 6107785--6107839 Score: 92
Period size: 13 Copynumber: 4.2 Consensus size: 13
6107775 TGCGTCATAA
6107785 ATTTATGACGCGC
1 ATTTATGACGCGC
*
6107798 ATTTATGACACGC
1 ATTTATGACGCGC
6107811 ATTTATGACGCGC
1 ATTTATGACGCGC
*
6107824 ATTTATGACGCTC
1 ATTTATGACGCGC
6107837 ATT
1 ATT
6107840 GCATATCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:6107914 original size:84 final size:85
Alignment explanation
Indices: 6107811--6107977 Score: 198
Period size: 84 Copynumber: 2.0 Consensus size: 85
6107801 TATGACACGC
* * *
6107811 ATTTATGACGCGCATTTATGACGCT-CATTGCATATCATTGAAGC-CCCGTCA-TA-AATGAAGA
1 ATTTATGACACACATTTATGAC-CTACATTGCATATCATTGAAGCACACGTCATTAGAA--AAGA
* * *
6107872 CGGCGCACATTTGTGTGTCATAA
63 CGACACACATTCGTGTGTCATAA
* * *
6107895 ATTTATGACACACATTTATGACTTACATTGCGTGTCATTGAAGCACACGTCATTAGAAAAGACGA
1 ATTTATGACACACATTTATGACCTACATTGCATATCATTGAAGCACACGTCATTAGAAAAGACGA
6107960 CACACATTCGTGTGTCAT
66 CACACATTCGTGTGTCAT
6107978 GATTGTATGT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
83 1 0.01
84 37 0.53
85 28 0.40
86 2 0.03
87 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (85 bp):
ATTTATGACACACATTTATGACCTACATTGCATATCATTGAAGCACACGTCATTAGAAAAGACGA
CACACATTCGTGTGTCATAA
Found at i:6110692 original size:17 final size:17
Alignment explanation
Indices: 6110670--6110706 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6110660 TCCACTAACA
6110670 GAAGTATAGATTAATGT
1 GAAGTATAGATTAATGT
*
6110687 GAAGTATATATTAATGT
1 GAAGTATAGATTAATGT
6110704 GAA
1 GAA
6110707 AGATAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (17 bp):
GAAGTATAGATTAATGT
Found at i:6111676 original size:18 final size:19
Alignment explanation
Indices: 6111653--6111689 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
6111643 CATTTTGGAC
6111653 AAAGGGAAAAAGA-AAAAA
1 AAAGGGAAAAAGAGAAAAA
6111671 AAAGGGAAAAAGAGAAAAA
1 AAAGGGAAAAAGAGAAAAA
6111690 GGGGAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAGGGAAAAAGAGAAAAA
Found at i:6115955 original size:20 final size:20
Alignment explanation
Indices: 6115932--6115972 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6115922 ATGTTTTGCT
6115932 TATGTCTGTTTTGTTCATAG
1 TATGTCTGTTTTGTTCATAG
*
6115952 TATGTGTGTTTTGTTCATAG
1 TATGTCTGTTTTGTTCATAG
6115972 T
1 T
6115973 TTAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (20 bp):
TATGTCTGTTTTGTTCATAG
Found at i:6119005 original size:11 final size:11
Alignment explanation
Indices: 6118989--6119019 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6118979 TTTTCCTTTG
6118989 CATTAACTCCC
1 CATTAACTCCC
6119000 CATTAACTCCC
1 CATTAACTCCC
*
6119011 TATTAACTC
1 CATTAACTC
6119020 TTTCATCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (11 bp):
CATTAACTCCC
Found at i:6122091 original size:24 final size:25
Alignment explanation
Indices: 6122064--6122115 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
6122054 TTTTTAAATG
*
6122064 AATGGTTTGATATT-TTCAT-GTTTA
1 AATGGATTGAT-TTGTTCATCGTTTA
6122088 AAT-GATTGATTTGTTCATCGTTTA
1 AATGGATTGATTTGTTCATCGTTTA
6122112 AATG
1 AATG
6122116 CTTAGAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.08
23 11 0.46
24 11 0.46
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.50
Consensus pattern (25 bp):
AATGGATTGATTTGTTCATCGTTTA
Found at i:6122096 original size:23 final size:24
Alignment explanation
Indices: 6122070--6122115 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
6122060 AATGAATGGT
6122070 TTGATATT-TTCAT-GTTTAAATGA
1 TTGAT-TTGTTCATCGTTTAAATGA
6122093 TTGATTTGTTCATCGTTTAAATG
1 TTGATTTGTTCATCGTTTAAATG
6122116 CTTAGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.10
23 10 0.48
24 9 0.43
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (24 bp):
TTGATTTGTTCATCGTTTAAATGA
Found at i:6122194 original size:88 final size:88
Alignment explanation
Indices: 6122087--6122263 Score: 336
Period size: 88 Copynumber: 2.0 Consensus size: 88
6122077 TTTCATGTTT
*
6122087 AAATGATTGATTTGTTCATCGTTTAAATGCTTAGAATTATAAGAGCTTTTGAGAGTTAGCCATGT
1 AAATGATTGATTTGTTCATCATTTAAATGCTTAGAATTATAAGAGCTTTTGAGAGTTAGCCATGT
6122152 TCTATGTTTGATGCTTAATATCG
66 TCTATGTTTGATGCTTAATATCG
*
6122175 AAATGATTGATTTGTTCATCATTTAAATGCTTAGAATTATAAGAGCTTTTGAGAGTTAGCCATTT
1 AAATGATTGATTTGTTCATCATTTAAATGCTTAGAATTATAAGAGCTTTTGAGAGTTAGCCATGT
6122240 TCTATGTTTGATGCTTAATATCG
66 TCTATGTTTGATGCTTAATATCG
6122263 A
1 A
6122264 TAGAGTTAGG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (88 bp):
AAATGATTGATTTGTTCATCATTTAAATGCTTAGAATTATAAGAGCTTTTGAGAGTTAGCCATGT
TCTATGTTTGATGCTTAATATCG
Found at i:6122654 original size:22 final size:22
Alignment explanation
Indices: 6122624--6122704 Score: 103
Period size: 22 Copynumber: 3.7 Consensus size: 22
6122614 ATTAACACAA
*
6122624 TTTTT-CCATAGCATTGTTTAC
1 TTTTTGCCATAGCATTCTTTAC
6122645 TTTTTGCCATAGCATTCTTTA-
1 TTTTTGCCATAGCATTCTTTAC
6122666 TTGTTTGCCATAGCATTCTTTAC
1 TT-TTTGCCATAGCATTCTTTAC
* **
6122689 TGTTTGTTATAGCATT
1 TTTTTGCCATAGCATT
6122705 TTAACCCACA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
21 7 0.13
22 45 0.85
23 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (22 bp):
TTTTTGCCATAGCATTCTTTAC
Found at i:6136503 original size:61 final size:60
Alignment explanation
Indices: 6136414--6136553 Score: 226
Period size: 61 Copynumber: 2.3 Consensus size: 60
6136404 AAGCTATTAG
* *
6136414 TTTTATTTCGTTTTAATACCTAAACGTTCATTTGTTTTAAAACAATAACTAACGTTTAATT
1 TTTTATTTCATTTTAGTACCTAAACGTTCATTTGTTTTAAAACAATAACTAACGTTT-ATT
* *
6136475 TTTTGTTTCATTTTGGTACCTAAACGTTCATTTGTTTTAAAACAATAACTAACGTTTATT
1 TTTTATTTCATTTTAGTACCTAAACGTTCATTTGTTTTAAAACAATAACTAACGTTTATT
*
6136535 TTTTATTTCGTTTTAGTAC
1 TTTTATTTCATTTTAGTAC
6136554 GTCGCCACTA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 19 0.26
61 53 0.74
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.50
Consensus pattern (60 bp):
TTTTATTTCATTTTAGTACCTAAACGTTCATTTGTTTTAAAACAATAACTAACGTTTATT
Found at i:6137195 original size:71 final size:71
Alignment explanation
Indices: 6137079--6137229 Score: 266
Period size: 71 Copynumber: 2.1 Consensus size: 71
6137069 AGTAAACTAT
*
6137079 ACGTTTAGTATTTAAATTATTATTTTTGTTATGTTTTAATTTATAAATATTATTTTTTAAAATCA
1 ACGTTTAGTACTTAAATTATTATTTTTGTTATGTTTTAATTTATAAATATTATTTTTTAAAATCA
6137144 TACCTA
66 TACCTA
* * *
6137150 ACGTTTAGTACTTAAATTATTATTTTTGTTATGTTTTTATTTATAAATATTTTTTTTTTAAATCA
1 ACGTTTAGTACTTAAATTATTATTTTTGTTATGTTTTAATTTATAAATATTATTTTTTAAAATCA
6137215 TACCTA
66 TACCTA
6137221 ACGTTTAGT
1 ACGTTTAGT
6137230 TTATGTTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (71 bp):
ACGTTTAGTACTTAAATTATTATTTTTGTTATGTTTTAATTTATAAATATTATTTTTTAAAATCA
TACCTA
Found at i:6137933 original size:20 final size:20
Alignment explanation
Indices: 6137908--6138056 Score: 87
Period size: 20 Copynumber: 7.5 Consensus size: 20
6137898 AATTCGCAAC
*
6137908 AATCGCAACGTAAATCTGTA
1 AATCGCAACGCAAATCTGTA
* *
6137928 AATCGCAACGCGAATTTGTA
1 AATCGCAACGCAAATCTGTA
*
6137948 AATCGCAACACAGAA---GTCA
1 AATCGCAACGCA-AATCTGT-A
* *
6137967 AATTCGCAACGC-GAT-AGTCA
1 AA-TCGCAACGCAAATCTGT-A
* *
6137987 AATTCGCAACGCTGAA-GT-TA
1 AA-TCGCAACGC-AAATCTGTA
*
6138007 AATTCGCAACGCGAATCTGTA
1 AA-TCGCAACGCAAATCTGTA
* *
6138028 AATCGCAACGCGAATTTGTA
1 AATCGCAACGCAAATCTGTA
6138048 AATCGCAAC
1 AATCGCAAC
6138057 ACAGAAGTCA
Statistics
Matches: 108, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.03
19 6 0.06
20 91 0.84
21 7 0.06
22 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCAAATCTGTA
Found at i:6137954 original size:40 final size:39
Alignment explanation
Indices: 6137908--6138056 Score: 112
Period size: 40 Copynumber: 3.7 Consensus size: 39
6137898 AATTCGCAAC
*
6137908 AATCGCAACGTAAATCTGTAAA-TCGCAACGCGAATTTGTA
1 AATCGCAACGCAAA--TGTAAATTCGCAACGCGAATTTGTA
* *
6137948 AATCGCAACACAGAA-GTCAAATTCGCAACGCG-A-TAGTCA
1 AATCGCAACGCA-AATGT-AAATTCGCAACGCGAATTTGT-A
* *
6137987 AATTCGCAACGCTGAA-GTTAAATTCGCAACGCGAATCTGTA
1 AA-TCGCAACGC-AAATG-TAAATTCGCAACGCGAATTTGTA
*
6138028 AATCGCAACGCGAATTTGTAAA-TCGCAAC
1 AATCGCAACGC-AA-ATGTAAATTCGCAAC
6138057 ACAGAAGTCA
Statistics
Matches: 88, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
38 5 0.06
39 7 0.08
40 62 0.70
41 11 0.12
42 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (39 bp):
AATCGCAACGCAAATGTAAATTCGCAACGCGAATTTGTA
Found at i:6138054 original size:80 final size:80
Alignment explanation
Indices: 6137926--6138100 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 80
6137916 CGTAAATCTG
* *
6137926 TAAA-TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACGC-GATAGTCAAA
1 TAAATTCGCAACGCGAATCTGTAAATCGCAACACAGAAGTCAAATTCGCAACACAGA-AGTCAAA
* *
6137989 TTCGCAACGCTGAAGT
65 TTCGCAACACAGAAGT
*
6138005 TAAATTCGCAACGCGAATCTGTAAATCGCAACGC-GAATTTGT-AAA-TCGCAACACAGAAGTCA
1 TAAATTCGCAACGCGAATCTGTAAATCGCAACACAGAA---GTCAAATTCGCAACACAGAAGTCA
6138067 AATTCGCAACACAGAAGT
63 AATTCGCAACACAGAAGT
*
6138085 CAAATTCGCAACGCGA
1 TAAATTCGCAACGCGA
6138101 TAGTCAAATT
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.84
81 5 0.06
82 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (80 bp):
TAAATTCGCAACGCGAATCTGTAAATCGCAACACAGAAGTCAAATTCGCAACACAGAAGTCAAAT
TCGCAACACAGAAGT
Found at i:6138073 original size:20 final size:20
Alignment explanation
Indices: 6138050--6138137 Score: 115
Period size: 20 Copynumber: 4.3 Consensus size: 20
6138040 AATTTGTAAA
6138050 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
6138070 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
6138090 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* * *
6138110 TTGCAACACTGAATTTCAAAT
1 TCGCAACACAGAA-GTCAAAT
6138131 TCGCAAC
1 TCGCAAC
6138138 TGAATTTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.03
20 44 0.73
21 14 0.23
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:6138086 original size:100 final size:100
Alignment explanation
Indices: 6137910--6138116 Score: 337
Period size: 100 Copynumber: 2.1 Consensus size: 100
6137900 TTCGCAACAA
*
6137910 TCGCAACGTAAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCA
1 TCGCAACGCAAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCA
* *
6137975 ACGCGATAGTCAAATTCGCAACGCTGA-AGTTAAAT
66 ACACGATAGTCAAATTCGCAACGC-GATAGTCAAAT
*
6138010 TCGCAACGCGAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCA
1 TCGCAACGCAAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCA
6138075 ACACAGA-AGTCAAATTCGCAACGCGATAGTCAAAT
66 ACAC-GATAGTCAAATTCGCAACGCGATAGTCAAAT
*
6138110 TTGCAAC
1 TCGCAAC
6138117 ACTGAATTTC
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
99 2 0.02
100 96 0.96
101 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (100 bp):
TCGCAACGCAAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCA
ACACGATAGTCAAATTCGCAACGCGATAGTCAAAT
Found at i:6138094 original size:40 final size:40
Alignment explanation
Indices: 6137950--6138137 Score: 190
Period size: 40 Copynumber: 4.7 Consensus size: 40
6137940 AATTTGTAAA
6137950 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
* * * *
6137990 TCGCAACGCTGAAGTTAAATTCGCAACGCGAATCTGT-AAA-
1 TCGCAACACAGAAGTCAAATTCGCAACGCG-AT-AGTCAAAT
* *
6138030 TCGCAACGC-GAATTTGT-AAA-TCGCAACACAGA-AGTCAAAT
1 TCGCAACACAGAA---GTCAAATTCGCAACGC-GATAGTCAAAT
6138070 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
* * *
6138110 TTGCAACACTGAATTTCAAATTCGCAAC
1 TCGCAACACAGAA-GTCAAATTCGCAAC
6138138 TGAATTTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
38 4 0.03
39 11 0.09
40 80 0.65
41 25 0.20
42 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (40 bp):
TCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAAT
Found at i:6138148 original size:40 final size:40
Alignment explanation
Indices: 6137950--6138176 Score: 166
Period size: 40 Copynumber: 5.7 Consensus size: 40
6137940 AATTTGTAAA
* *
6137950 TCGCAACACAGAA-GTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACAC-GAATTTCAAATTCGCAACGCAATAGTCAAAT
* * *
6137990 TCGCAACGCTGAAGTT-AAATTCGCAACGCGAATCTGT-AAA-
1 TCGCAACAC-GAATTTCAAATTCGCAACGC-AAT-AGTCAAAT
* * *
6138030 TCGCAACGCGAATTTGTAAA-TCGCAACACAGA-AGTCAAAT
1 TCGCAACACGAATTT-CAAATTCGCAACGCA-ATAGTCAAAT
* *
6138070 TCGCAACACAGAA-GTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACAC-GAATTTCAAATTCGCAACGCAATAGTCAAAT
* *
6138110 TTGCAACACTGAATTTCAAATTCGCAACTG-AAT-TTCAAAT
1 TCGCAACAC-GAATTTCAAATTCGCAAC-GCAATAGTCAAAT
* * * *
6138150 TCACAACTCGATTTTCGAATTCGCAAC
1 TCGCAACACGAATTTCAAATTCGCAAC
6138177 ACGAATTTAA
Statistics
Matches: 151, Mismatches: 23, Indels: 27
0.75 0.11 0.13
Matches are distributed among these distances:
38 2 0.01
39 29 0.19
40 90 0.60
41 27 0.18
42 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (40 bp):
TCGCAACACGAATTTCAAATTCGCAACGCAATAGTCAAAT
Found at i:6138148 original size:60 final size:59
Alignment explanation
Indices: 6137964--6138194 Score: 204
Period size: 60 Copynumber: 3.9 Consensus size: 59
6137954 AACACAGAAG
* * *
6137964 TCAAATTCGCAACGCGATAGTCAAATTCGCAACGCTGAAGTTAAATTCGCAACGCGAATCT
1 TCAAATTCGCAACGCGATAGTCAAATTCGCAACACTGAATTTAAATTCGCAAC-AGAAT-T
* * * * *
6138025 GT-AAA-TCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGTCAAATTCGCAACACAGAA-G
1 -TCAAATTCGCAACGCG-A-TAGTCAAATTCGCAACACTGAATTTAAATTCGC-A-ACAGAATT
* *
6138084 TCAAATTCGCAACGCGATAGTCAAATTTGCAACACTGAATTTCAAATTCGCAACTGAATT
1 TCAAATTCGCAACGCGATAGTCAAATTCGCAACACTGAATTT-AAATTCGCAACAGAATT
* * ** * *
6138144 TCAAATTCACAACTCGATTTTCGAATTCGCAACAC-GAATTTAATTTCGCAA
1 TCAAATTCGCAACGCGATAGTCAAATTCGCAACACTGAATTTAAATTCGCAA
6138195 TAGGCTTTAG
Statistics
Matches: 139, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
58 13 0.09
59 18 0.13
60 83 0.60
61 19 0.14
62 6 0.04
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (59 bp):
TCAAATTCGCAACGCGATAGTCAAATTCGCAACACTGAATTTAAATTCGCAACAGAATT
Found at i:6138170 original size:20 final size:19
Alignment explanation
Indices: 6138117--6138194 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
6138107 AATTTGCAAC
6138117 ACTGAATTTCAAATTCGCA
1 ACTGAATTTCAAATTCGCA
*
6138136 ACTGAATTTCAAATTCACA
1 ACTGAATTTCAAATTCGCA
* *
6138155 ACTCGATTTTCGAATTCGCA
1 ACT-GAATTTCAAATTCGCA
* *
6138175 ACACGAATTT-AATTTCGCA
1 AC-TGAATTTCAAATTCGCA
6138194 A
1 A
6138195 TAGGCTTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 29 0.59
20 20 0.41
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (19 bp):
ACTGAATTTCAAATTCGCA
Found at i:6139382 original size:28 final size:28
Alignment explanation
Indices: 6139350--6139403 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6139340 ATAATTCTTA
*
6139350 TTTACACATCAAATTAAACAAATCAACT
1 TTTACAAATCAAATTAAACAAATCAACT
* **
6139378 TTTACAAATCAACTTTTACAAATCAA
1 TTTACAAATCAAATTAAACAAATCAA
6139404 TTAAACAAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (28 bp):
TTTACAAATCAAATTAAACAAATCAACT
Found at i:6139384 original size:14 final size:14
Alignment explanation
Indices: 6139367--6139403 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
6139357 ATCAAATTAA
6139367 ACAAATCAACTTTT
1 ACAAATCAACTTTT
6139381 ACAAATCAACTTTT
1 ACAAATCAACTTTT
6139395 ACAAATCAA
1 ACAAATCAA
6139404 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6139488 original size:78 final size:80
Alignment explanation
Indices: 6139315--6139490 Score: 180
Period size: 78 Copynumber: 2.2 Consensus size: 80
6139305 ATCAACTTTT
** *
6139315 ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAACTTT
1 ACAAATCAACAAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATAAACTTT
* * **
6139380 TACAAATCAACTTTT
66 TACAAATAAAATTCA
** * *
6139395 ACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTCCTCATC-AATTAAACAAATAAACTTT
1 ACAAATCAACAAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATAAACTTT
**
6139458 TA-ATGTAAAATTCA
66 TACAAATAAAATTCA
*
6139472 ATTAAA-CAAGCAAAACAAG
1 A-CAAATCAA-CAAAACAAG
6139491 TGTACCCCAG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
77 10 0.12
78 30 0.37
79 23 0.28
80 19 0.23
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (80 bp):
ACAAATCAACAAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATAAACTTT
TACAAATAAAATTCA
Found at i:6140863 original size:21 final size:21
Alignment explanation
Indices: 6140839--6140933 Score: 102
Period size: 21 Copynumber: 4.5 Consensus size: 21
6140829 GAGGGACCCA
* * *
6140839 TTGAACGATGACAGGGGTCTC
1 TTGAACGATGAGAGGAGCCTC
* * *
6140860 TTGAACGGTGGGAGGTGCCTC
1 TTGAACGATGAGAGGAGCCTC
*
6140881 TTGAACGATAAGAGGAGCCTC
1 TTGAACGATGAGAGGAGCCTC
*
6140902 TTGAACGAT-AGGAGGCGCCTC
1 TTGAACGATGA-GAGGAGCCTC
6140923 TTGAACGATGA
1 TTGAACGATGA
6140934 CAAGTGAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.02
21 60 0.97
22 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (21 bp):
TTGAACGATGAGAGGAGCCTC
Found at i:6140874 original size:42 final size:42
Alignment explanation
Indices: 6140815--6140935 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
6140805 GTGAATCGGG
* *
6140815 CTCTTGAACGGTGGGAGG-GACC-CATTGAACGATGACAGGGGT
1 CTCTTGAACGGTGGGAGGCG-CCTC-TTGAACGATGACAGGAGC
* * *
6140857 CTCTTGAACGGTGGGAGGTGCCTCTTGAACGATAAGAGGAGC
1 CTCTTGAACGGTGGGAGGCGCCTCTTGAACGATGACAGGAGC
* *
6140899 CTCTTGAACGATAGGAGGCGCCTCTTGAACGATGACA
1 CTCTTGAACGGTGGGAGGCGCCTCTTGAACGATGACA
6140936 AGTGAATCAG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 66 0.97
43 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGCGCCTCTTGAACGATGACAGGAGC
Found at i:6141337 original size:42 final size:42
Alignment explanation
Indices: 6141291--6141399 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
6141281 TCCACCTCAC
* *
6141291 CACGTAAAG-ACCGTACCTCATC-ACGCCATGCACCATTGCCTT
1 CACGTAAAGTACCG-ACCTCA-CGACGCCATACACCATTACCTT
*
6141333 CACGTAAAGTACCGACCTCACGACGCCATACACCATTATCTT
1 CACGTAAAGTACCGACCTCACGACGCCATACACCATTACCTT
* *
6141375 CACGTAAAGTACCAACCTCATGACG
1 CACGTAAAGTACCGACCTCACGACG
6141400 TAAAGCACCG
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
41 1 0.02
42 55 0.92
43 4 0.07
ACGTcount: A:0.30, C:0.36, G:0.14, T:0.20
Consensus pattern (42 bp):
CACGTAAAGTACCGACCTCACGACGCCATACACCATTACCTT
Found at i:6141400 original size:21 final size:21
Alignment explanation
Indices: 6141376--6141416 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6141366 CATTATCTTC
*
6141376 ACGTAAAGTACCAACCTCATG
1 ACGTAAAGCACCAACCTCATG
*
6141397 ACGTAAAGCACCGACCTCAT
1 ACGTAAAGCACCAACCTCAT
6141417 CACATAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.32, G:0.15, T:0.17
Consensus pattern (21 bp):
ACGTAAAGCACCAACCTCATG
Found at i:6143197 original size:20 final size:19
Alignment explanation
Indices: 6143159--6143212 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
6143149 AAATCGCAAC
*
6143159 GCGATTTTAGTTTCTCGTT
1 GCGATTTTAGTTTCGCGTT
*
6143178 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
6143198 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
6143213 AGAAACTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.15, C:0.17, G:0.20, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:6143571 original size:22 final size:22
Alignment explanation
Indices: 6143544--6143591 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
6143534 GGAGATAGAT
6143544 GGATTTCACCGGAGATGGGGAC
1 GGATTTCACCGGAGATGGGGAC
**
6143566 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCACCGGAGATGGGGAC
6143588 GGAT
1 GGAT
6143592 GTCGCCGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.44, T:0.21
Consensus pattern (22 bp):
GGATTTCACCGGAGATGGGGAC
Found at i:6143774 original size:20 final size:20
Alignment explanation
Indices: 6143749--6144013 Score: 224
Period size: 20 Copynumber: 13.3 Consensus size: 20
6143739 TAATCGGGCT
*
6143749 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGTG
*
6143769 TTGCGAATTTGACTATCGTG
1 TTGCGAATTTGACTTTCGTG
* **
6143789 TTGCGAATTTGACTATCACG
1 TTGCGAATTTGACTTTCGTG
*
6143809 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTCGTG
* *
6143829 TTGTGAA-TTGACTTTCGCG
1 TTGCGAATTTGACTTTCGTG
6143848 TTGCGAATTTGAC-TTCTGTG
1 TTGCGAATTTGACTTTC-GTG
* * **
6143868 TTGCG-ATTTAAAATTTCGCA
1 TTGCGAATTT-GACTTTCGTG
* *
6143888 TTGC-AATTT-ACAGATTCTTG
1 TTGCGAATTTGAC--TTTCGTG
*
6143908 TTGCAAATTTGAC-TTCAGTG
1 TTGCGAATTTGACTTTC-GTG
6143928 TTGCGAATTTGAC-TTCAGTG
1 TTGCGAATTTGACTTTC-GTG
* *
6143948 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGTG
* *
6143968 TTGTGAATTTAAC-TTCTGTG
1 TTGCGAATTTGACTTTC-GTG
6143988 TTGCGAATTTGAC-TTCTGTG
1 TTGCGAATTTGACTTTC-GTG
6144008 TTGCGA
1 TTGCGA
6144014 TTTACAAATT
Statistics
Matches: 201, Mismatches: 32, Indels: 24
0.78 0.12 0.09
Matches are distributed among these distances:
18 1 0.00
19 28 0.14
20 160 0.80
21 10 0.05
22 2 0.01
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGTG
Found at i:6143798 original size:40 final size:40
Alignment explanation
Indices: 6143749--6144002 Score: 288
Period size: 40 Copynumber: 6.4 Consensus size: 40
6143739 TAATCGGGCT
6143749 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATC-GTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACT-TCTGTG
* * *
6143789 TTGCGAATTTGACTATCACGTTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
*
6143829 TTGTGAA-TTGACTTTCGCGTTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
* * *
6143868 TTGCG-ATTTAAAATTTCGCATTGC-AATTT-ACAGATTCT-TG
1 TTGCGAATTT-GACTTTCGCGTTGCGAATTTGAC---TTCTGTG
* * *
6143908 TTGCAAATTTGAC-TTCAGTGTTGCGAATTTGACTTCAGTG
1 TTGCGAATTTGACTTTC-GCGTTGCGAATTTGACTTCTGTG
* * *
6143948 TTGCGAATTTGACTATCGCGTTGTGAATTTAACTTCTGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
6143988 TTGCGAATTTGACTT
1 TTGCGAATTTGACTT
6144003 CTGTGTTGCG
Statistics
Matches: 178, Mismatches: 24, Indels: 24
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.02
39 47 0.26
40 111 0.62
41 15 0.08
42 2 0.01
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.42
Consensus pattern (40 bp):
TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
Found at i:6144009 original size:60 final size:59
Alignment explanation
Indices: 6143749--6144013 Score: 252
Period size: 60 Copynumber: 4.4 Consensus size: 59
6143739 TAATCGGGCT
* * **
6143749 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATC-ACG
1 TTGCGAATTTGACTTT-GTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-TCTGTG
* *
6143809 TTGCGAATTTGACTTTTGTGTTGTGAA-TTGACTTTCGCGTTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGAC-TTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTG
* * ** * ** * *
6143868 TTGCG-ATTTAAAATTTCGCATTGC-AATTT-ACAGATTCTTGTTGCAAATTTGACTTCAGTG
1 TTGCGAATTT-GACTTT-GTGTTGCGAATTTGAC-TA-TCGCGTTGCGAATTTGACTTCTGTG
* * *
6143928 TTGCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGCGTTGTGAATTTAACTTCTGTG
1 TTGCGAATTTGACTT-TGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTG
6143988 TTGCGAATTTGACTTCTGTGTTGCGA
1 TTGCGAATTTGACTT-TGTGTTGCGA
6144014 TTTACAAATT
Statistics
Matches: 164, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
58 13 0.08
59 37 0.23
60 99 0.60
61 13 0.08
62 2 0.01
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (59 bp):
TTGCGAATTTGACTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTG
Found at i:6144030 original size:20 final size:20
Alignment explanation
Indices: 6144007--6144053 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6143997 TGACTTCTGT
6144007 GTTGCGATTTACAAATTCGA
1 GTTGCGATTTACAAATTCGA
** * *
6144027 GTTGAAATTTACAGATTCGT
1 GTTGCGATTTACAAATTCGA
6144047 GTTGCGA
1 GTTGCGA
6144054 ATTTGTAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGA
Found at i:6144049 original size:60 final size:60
Alignment explanation
Indices: 6143907--6144058 Score: 159
Period size: 60 Copynumber: 2.5 Consensus size: 60
6143897 ACAGATTCTT
* * * * * *
6143907 GTTGCAAATTTGACTTCAGTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGC
1 GTTGTAAATTTAAATTCTGTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACAATCGA
* * *
6143967 GTTGTGAATTTAACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAAATTCGA
1 GTTGTAAATTTAAATTCTGTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGAC-AA-TCGA
6144027 GTTG-AAATTTACAGATTC-GTGTTGCGAATTTG
1 GTTGTAAATTTA-A-ATTCTGTGTTGCGAATTTG
6144059 TAAAATCGCA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
58 2 0.03
59 11 0.14
60 63 0.80
61 3 0.04
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (60 bp):
GTTGTAAATTTAAATTCTGTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACAATCGA
Found at i:6145200 original size:16 final size:15
Alignment explanation
Indices: 6145111--6145207 Score: 84
Period size: 16 Copynumber: 6.8 Consensus size: 15
6145101 CGATGGTTAG
* *
6145111 AGAGAGGGGGAGAG-
1 AGAGAGGGAGAGGGA
*
6145125 AGAGAGGGGGAGGGA
1 AGAGAGGGAGAGGGA
6145140 GAGAGAGGG-GAGGG-
1 -AGAGAGGGAGAGGGA
6145154 -G-GAGGGAGAGGGA
1 AGAGAGGGAGAGGGA
6145167 GAGAGAGGGAGA-GG-
1 -AGAGAGGGAGAGGGA
6145181 -GAGAGGGAGAGGGAA
1 AGAGAGGGAGAGGG-A
6145196 AGAGAGGGAGAG
1 AGAGAGGGAGAG
6145208 AGAGCGAAGA
Statistics
Matches: 71, Mismatches: 1, Indels: 20
0.77 0.01 0.22
Matches are distributed among these distances:
11 5 0.07
12 16 0.23
13 2 0.03
14 13 0.18
15 8 0.11
16 27 0.38
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (15 bp):
AGAGAGGGAGAGGGA
Found at i:6145206 original size:6 final size:6
Alignment explanation
Indices: 6145118--6145207 Score: 95
Period size: 6 Copynumber: 16.2 Consensus size: 6
6145108 TAGAGAGAGG
* * *
6145118 GGGAGA GAGAGA GGGGGA GGGAGA --GAGA GGG-GA GGGGGA GGGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
*
6145163 GGGAGA --GAGA GGGAGA GGGAGA GGGAGA GGGA-A -AGAGA GGGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
6145207 G
1 G
6145208 AGAGCGAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
4 10 0.14
5 7 0.10
6 53 0.76
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:6145719 original size:3 final size:3
Alignment explanation
Indices: 6145711--6145798 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
6145701 AGTTGGGATT
6145711 GAA GAA GAA GAA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
6145758 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
6145799 GTCGATGTGG
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6147713 original size:24 final size:24
Alignment explanation
Indices: 6147653--6147699 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6147643 GCACAAATAG
*
6147653 TGCCGCGTAGAATTGCACATAAAC
1 TGCCACGTAGAATTGCACATAAAC
6147677 TGCCACGTAGAATTGCACATAAA
1 TGCCACGTAGAATTGCACATAAA
6147700 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (24 bp):
TGCCACGTAGAATTGCACATAAAC
Found at i:6156498 original size:19 final size:19
Alignment explanation
Indices: 6156474--6156510 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6156464 TTAGATCGAA
6156474 GTGGCTCGGACCATTTAAG
1 GTGGCTCGGACCATTTAAG
6156493 GTGGCTCGGACCATTTAA
1 GTGGCTCGGACCATTTAA
6156511 ATTGACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (19 bp):
GTGGCTCGGACCATTTAAG
Found at i:6157352 original size:29 final size:29
Alignment explanation
Indices: 6157308--6157367 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
6157298 GTATTGCCGT
6157308 AGGTCGCCATGCCATCCAGGCGACCTTGG
1 AGGTCGCCATGCCATCCAGGCGACCTTGG
* * *
6157337 AGGTCGCCATGGCATCCGGGCGAGCTTGG
1 AGGTCGCCATGCCATCCAGGCGACCTTGG
6157366 AG
1 AG
6157368 TCTTTGCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.30, G:0.37, T:0.17
Consensus pattern (29 bp):
AGGTCGCCATGCCATCCAGGCGACCTTGG
Found at i:6157435 original size:13 final size:13
Alignment explanation
Indices: 6157417--6157442 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6157407 TGGGTCTGGT
6157417 GGCAGCATGGCAA
1 GGCAGCATGGCAA
6157430 GGCAGCATGGCAA
1 GGCAGCATGGCAA
6157443 CGTGGGTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.38, T:0.08
Consensus pattern (13 bp):
GGCAGCATGGCAA
Found at i:6157531 original size:29 final size:28
Alignment explanation
Indices: 6157448--6157531 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 28
6157438 GGCAACGTGG
6157448 GTAGGTCGCCAGGGAATCCCAGA-GACATT
1 GTAGGTCGCCAGGG-ATCCCA-ACGACATT
* *
6157477 GTAGGTCGCCCAGGCATCCCAGCGACATT
1 GTAGGTCG-CCAGGGATCCCAACGACATT
*
6157506 GTAGGTTGCCAAGGGATCCCAACGAC
1 GTAGGTCGCC-AGGGATCCCAACGAC
6157532 CTATGCCTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 2 0.04
29 40 0.85
30 5 0.11
ACGTcount: A:0.25, C:0.29, G:0.30, T:0.17
Consensus pattern (28 bp):
GTAGGTCGCCAGGGATCCCAACGACATT
Found at i:6157862 original size:8 final size:9
Alignment explanation
Indices: 6157832--6157869 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
6157822 GAGGTAAGTT
6157832 TTTTAATTA
1 TTTTAATTA
6157841 TTTTAATTA
1 TTTTAATTA
*
6157850 GTTT-ATTA
1 TTTTAATTA
6157858 TTTTAAATTA
1 TTTT-AATTA
6157868 TT
1 TT
6157870 AGTTTGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 12 0.48
10 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTAATTA
Found at i:6158009 original size:27 final size:28
Alignment explanation
Indices: 6157951--6158015 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 28
6157941 TATATTAAAA
6157951 AAATAATTAATTAGTGTGTTAGTTAGTC
1 AAATAATTAATTAGTGTGTTAGTTAGTC
* * *
6157979 AAATATTTAATTAGTTTG-TAGTTAGTT
1 AAATAATTAATTAGTGTGTTAGTTAGTC
*
6158006 AAATAGTTAA
1 AAATAATTAA
6158016 GTTATATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 17 0.52
28 16 0.48
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (28 bp):
AAATAATTAATTAGTGTGTTAGTTAGTC
Found at i:6158109 original size:34 final size:37
Alignment explanation
Indices: 6158040--6158110 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
6158030 GTTGAATTTA
6158040 TATTATATAAAAAATTAGTTTATTAGTAGTTTAAGTTT
1 TATTATATAAAAAATTAGTTTATTA-TAGTTTAAGTTT
6158078 TATTATA-ATAAAAA-TAGTTTA-T-TAGTTTAAGTT
1 TATTATATA-AAAAATTAGTTTATTATAGTTTAAGTT
6158111 ATATAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
34 11 0.34
36 1 0.03
37 8 0.25
38 12 0.38
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (37 bp):
TATTATATAAAAAATTAGTTTATTATAGTTTAAGTTT
Found at i:6158153 original size:18 final size:18
Alignment explanation
Indices: 6158130--6158184 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
6158120 AATAATTATT
6158130 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
6158148 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
6158160 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
6158177 TAAATTAG
1 TAAATTAG
6158185 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:6158237 original size:21 final size:21
Alignment explanation
Indices: 6158212--6158251 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
6158202 GTTAATTAGT
6158212 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
6158233 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
6158252 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:6158494 original size:22 final size:22
Alignment explanation
Indices: 6158469--6158549 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
6158459 AATCATTTAT
6158469 TAGTTTAAGTTATATTAAAGAA
1 TAGTTTAAGTTATATTAAAGAA
6158491 TAGTTTATTAGTTAACGTTATATTAAAGAA
1 TAG-----T--TTAA-GTTATATTAAAGAA
* *
6158521 TAATTAAAGTTATATTAAAGAA
1 TAGTTTAAGTTATATTAAAGAA
*
6158543 TATTTTA
1 TAGTTTA
6158550 TTAGTTGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
22 22 0.47
23 3 0.06
25 1 0.02
27 1 0.02
29 4 0.09
30 16 0.34
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.43
Consensus pattern (22 bp):
TAGTTTAAGTTATATTAAAGAA
Found at i:6158498 original size:30 final size:29
Alignment explanation
Indices: 6158448--6158555 Score: 108
Period size: 30 Copynumber: 3.9 Consensus size: 29
6158438 TAGTAGTAAA
6158448 TTATAATTAAA-AATCATTTATTAGTTTAAG
1 TTAT-ATTAAAGAAT-ATTTATTAGTTTAAG
6158478 TTATATTAAAGAATAGTTTATTAG-TTAACG
1 TTATATTAAAGAATA-TTTATTAGTTTAA-G
6158508 TTATATTAAAGAATA---ATTA----AAG
1 TTATATTAAAGAATATTTATTAGTTTAAG
6158530 TTATATTAAAGAATATTTTATTAGTT
1 TTATATTAAAGAATA-TTTATTAGTT
6158556 GTTTAAGGGA
Statistics
Matches: 68, Mismatches: 0, Indels: 21
0.76 0.00 0.24
Matches are distributed among these distances:
22 16 0.24
23 2 0.03
26 8 0.12
29 11 0.16
30 31 0.46
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (29 bp):
TTATATTAAAGAATATTTATTAGTTTAAG
Found at i:6158526 original size:11 final size:12
Alignment explanation
Indices: 6158509--6158545 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
6158499 TAGTTAACGT
6158509 TATATTAAAGAA
1 TATATTAAAGAA
*
6158521 TA-ATTAAAG-T
1 TATATTAAAGAA
6158531 TATATTAAAGAA
1 TATATTAAAGAA
6158543 TAT
1 TAT
6158546 TTTATTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 2 0.10
11 14 0.67
12 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (12 bp):
TATATTAAAGAA
Found at i:6160960 original size:24 final size:23
Alignment explanation
Indices: 6160917--6160961 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
6160907 CAAATAATTG
6160917 AATAATAATAATAAATCATTATT
1 AATAATAATAATAAATCATTATT
*
6160940 AATAATAATTAGTAAATCATTA
1 AATAATAA-TAATAAATCATTA
6160962 GTATCAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (23 bp):
AATAATAATAATAAATCATTATT
Found at i:6161146 original size:14 final size:14
Alignment explanation
Indices: 6161125--6161352 Score: 180
Period size: 14 Copynumber: 17.3 Consensus size: 14
6161115 ATTAGTAATA
6161125 ATTATTAAATCATT
1 ATTATTAAATCATT
*
6161139 AGTATTAAATCATT
1 ATTATTAAATCATT
*
6161153 ATTA-TAAA--ATC
1 ATTATTAAATCATT
* *
6161164 ATTACTAAATAATT
1 ATTATTAAATCATT
* *
6161178 ACTATTAAATTATT
1 ATTATTAAATCATT
* *
6161192 ATTA-T-CATTATT
1 ATTATTAAATCATT
6161204 ATTATTAAATCATT
1 ATTATTAAATCATT
6161218 ATTATTAAATCATT
1 ATTATTAAATCATT
*
6161232 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
6161244 ATTACTAAATCATT
1 ATTATTAAATCATT
*
6161258 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
6161270 ATTATCAAATCATT
1 ATTATTAAATCATT
* *
6161284 ACTA--AAATGATT
1 ATTATTAAATCATT
*
6161296 ATTATCAAATCATT
1 ATTATTAAATCATT
*
6161310 AAATATTAAAT--TT
1 -ATTATTAAATCATT
*
6161323 ATTATTAAATTATT
1 ATTATTAAATCATT
*
6161337 A-T-TTAAATTATT
1 ATTATTAAATCATT
6161349 ATTA
1 ATTA
6161353 AATAATTTTT
Statistics
Matches: 175, Mismatches: 23, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
11 6 0.03
12 64 0.37
13 13 0.07
14 84 0.48
15 8 0.05
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:6161244 original size:26 final size:25
Alignment explanation
Indices: 6161112--6161364 Score: 185
Period size: 26 Copynumber: 9.9 Consensus size: 25
6161102 TTATTCTATA
* *
6161112 ATTATTAGT-AATAATTATTA-AAT
1 ATTATTATTAAATCATTATTATAAT
* *
6161135 CATTAGTATTAAATCATTATTATAAA
1 -ATTATTATTAAATCATTATTATAAT
* * * *
6161161 ATCATTACTAAATAATTACTATTAA-
1 ATTATTATTAAATCATTATTA-TAAT
* *
6161186 ATTATTATTATCATTATTATTATTAAAT
1 ATTATTATTA-AATCATTATTA-T-AAT
6161214 CATTATTATTAAATCATTATTATAAT
1 -ATTATTATTAAATCATTATTATAAT
*
6161240 GATTATTACTAAATCATTATTATAAT
1 -ATTATTATTAAATCATTATTATAAT
* * *
6161266 GATTATTATCAAATCATTACTAAAAT
1 -ATTATTATTAAATCATTATTATAAT
* *
6161292 GATTATTATCAAATCATTAAATATTAA-
1 -ATTATTATTAAATCATT-ATTA-TAAT
*
6161319 ATTTATTATTAAATTATTATT-TAA-
1 A-TTATTATTAAATCATTATTATAAT
* *
6161343 ATTATTATTAAATAATTTTTAT
1 ATTATTATTAAATCATTATTAT
6161365 GGTTAATTGA
Statistics
Matches: 189, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
23 17 0.09
24 12 0.06
25 34 0.18
26 85 0.45
27 20 0.11
28 11 0.06
29 10 0.05
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTATTATTAAATCATTATTATAAT
Found at i:6161501 original size:49 final size:49
Alignment explanation
Indices: 6161442--6161785 Score: 553
Period size: 49 Copynumber: 7.0 Consensus size: 49
6161432 GGTCCCTCCA
6161442 TTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT
1 TTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT
* *
6161491 TTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATGATAAT
1 TTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT
* * *
6161540 TTTATTATTACTAATCATTACTATAAAATTATTAAAAATTAATAATAAT
1 TTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT
* *
6161589 TTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATGATAAT
1 TTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT
*
6161638 TTCATTATTACTAATCATTACTATCAAATCATTAAAAAATAATAATAATATT
1 TTCATTATTACTAATCATTACTATCAAATCATT-AAAAAT--TAATAATAAT
*
6161690 TTTATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT
1 TTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT
* * *
6161739 TTCATTATTACTAATCATTACTATCAAATAATTAAATATTATTAATA
1 TTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATA
6161786 GATGGGTGCC
Statistics
Matches: 271, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
49 220 0.81
50 5 0.02
51 6 0.02
52 40 0.15
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.43
Consensus pattern (49 bp):
TTCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT
Found at i:6165133 original size:21 final size:21
Alignment explanation
Indices: 6165091--6165133 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6165081 TATATCTTAA
*
6165091 ACTAACAAACTAATAATTTAT
1 ACTAACAAACTAATAATCTAT
6165112 ACTAACAAACTAATTAA-CTAT
1 ACTAACAAACTAA-TAATCTAT
6165133 A
1 A
6165134 TTTTAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.30
Consensus pattern (21 bp):
ACTAACAAACTAATAATCTAT
Found at i:6165595 original size:65 final size:65
Alignment explanation
Indices: 6165526--6165677 Score: 268
Period size: 65 Copynumber: 2.3 Consensus size: 65
6165516 TGCAGCTACG
*
6165526 GATGCAGGAATCTCCCAGCTATGGATGCAACGCATGCATGAGTGATAGGGTTAAAGCTTGGTCGC
1 GATGCAGGAATCTCCCAGCTATGGATGCAACGCATGCATGAGGGATAGGGTTAAAGCTTGGTCGC
6165591 GATGCAGGAATCTCCCAGCTATGGATGCAACGCATGCATGAGGGATAGGGTTAAAGCTTGGTCGC
1 GATGCAGGAATCTCCCAGCTATGGATGCAACGCATGCATGAGGGATAGGGTTAAAGCTTGGTCGC
*
6165656 GGTGCAGGAATCTACCACAGCT
1 GATGCAGGAATCT-CC-CAGCT
6165678 TGGTCGTCGG
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
65 76 0.92
66 2 0.02
67 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (65 bp):
GATGCAGGAATCTCCCAGCTATGGATGCAACGCATGCATGAGGGATAGGGTTAAAGCTTGGTCGC
Found at i:6170274 original size:23 final size:23
Alignment explanation
Indices: 6170248--6170291 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6170238 AGAATTTTCA
6170248 TCTTTACTTTCTTTAAATTAATT
1 TCTTTACTTTCTTTAAATTAATT
** *
6170271 TCTTTGTTTTCTTTAGATTAA
1 TCTTTACTTTCTTTAAATTAA
6170292 ATATTTCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (23 bp):
TCTTTACTTTCTTTAAATTAATT
Found at i:6172508 original size:27 final size:27
Alignment explanation
Indices: 6172463--6172516 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6172453 CAGTGTTTTA
*
6172463 CTGCTTTCGAATAGAAAAATAATAGAT
1 CTGCTTTCGAAAAGAAAAATAATAGAT
*
6172490 CTGCTTTCGAAAAGGAAAATAATAGAT
1 CTGCTTTCGAAAAGAAAAATAATAGAT
6172517 TTTGAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (27 bp):
CTGCTTTCGAAAAGAAAAATAATAGAT
Found at i:6182155 original size:21 final size:21
Alignment explanation
Indices: 6182139--6182181 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6182129 AGGGAAATAG
6182139 AGAGAGCAGCAGCGGAAACAC
1 AGAGAGCAGCAGCGGAAACAC
*
6182160 AGAGAGTAGCAGC-GAAAGCAC
1 AGAGAGCAGCAGCGGAAA-CAC
6182181 A
1 A
6182182 AAAAGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.44, C:0.21, G:0.33, T:0.02
Consensus pattern (21 bp):
AGAGAGCAGCAGCGGAAACAC
Found at i:6186134 original size:442 final size:443
Alignment explanation
Indices: 6185297--6186179 Score: 1376
Period size: 442 Copynumber: 2.0 Consensus size: 443
6185287 TGATGATATC
* * *
6185297 CATGTGTTCATACATGTCGTTAATCAAGAAGTGAGTCTAGAATCTCAATAAGATTTTTTTCAACA
1 CATGTGTTCATACATGTCGTTAATAAAGAAATGAGTCTAGAATCTCAATAAGATTATTTTCAACA
*
6185362 ATTCTCCAATTAAGAAAAAAATATTGTTACGGAAGATCAAACTCAACAATATCAAAGAATAAGTG
66 ATTCTCCAATTAAGAAAAAAATATTGTTACGGAAGATCAAACTCAACAATATCAAAGAACAAGTG
*
6185427 TCATTAGGAAGATCCACAAGATGAGAGAAATATTATTTTAGATTATTATGTTTCAACAAGAAATA
131 TCATTAGGAAGATCCACAAGATGAGAGAAATATTATTTTAGATTATGATGTTTCAACAAGAAATA
* * *
6185492 AGGATGATAGTAGAATGATGAAAGAATATCTAATCAACTTTCTTCATGTCAGAAAAGTTATGACT
196 AGAATGATACTAGAATGATGAAAGAATATCTAATCAACTTTCATCATGTCAGAAAAGTTATGACT
*
6185557 CTCAAAAGTGGATTAATGTCAAGTAAGAATAGTATAAGTTTTATACAAGATAATAAAATTAGAGA
261 CTCAAAAGTGGATTAATGTCAAGTAAGAAGAGTATAAGTTTTATACAAGATAATAAAATTAGAGA
* ** *
6185622 CTTATCTCATTACCTAAAGGTGCAAAGTTAATTGGTTATAAATGAGTATTTATAATGAAGATGGA
326 CTTATCCCATTACCTAAAGGTGCAAAGTTAATTGACTATAAATGAGTATTTATAATCAAGATGGA
* *
6185687 TGCAAATGGTGACATTGATAAGTGTAAGACATGTCATGTATATAAAGGATAAT
391 TGCAAATGGTGACATTGATAAGAGTAAGACATGTCATGTATATAAAAGATAAT
* * *
6185740 CATGTGTTCATACATGTCGTTAATAAAGAAATGAGTCTAGAATCTCAATAAGCTTATTTTGAATA
1 CATGTGTTCATACATGTCGTTAATAAAGAAATGAGTCTAGAATCTCAATAAGATTATTTTCAACA
* * * *
6185805 ATTCTCCATTTAAGAAAAGAA-ATTGTTACGGAAGATCAAACTCAATAATCTCAAAGAACAAGTG
66 ATTCTCCAATTAAGAAAAAAATATTGTTACGGAAGATCAAACTCAACAATATCAAAGAACAAGTG
* * * * * *
6185869 TCATTTGGAAGATCCACGAGATGAGATAAATGTTATTTTAGATTATGATGTTTCTATAAG-AATA
131 TCATTAGGAAGATCCACAAGATGAGAGAAATATTATTTTAGATTATGATGTTTCAACAAGAAATA
* *
6185933 AGAATGATACTAGAATGATGAAAG-ATGATCTAATCAACTTTCATCATGTCATAAAATTTATGAC
196 AGAATGATACTAGAATGATGAAAGAAT-ATCTAATCAACTTTCATCATGTCAGAAAAGTTATGAC
* * *
6185997 TCTCAAAAGTGGATTAATGTCAAGTAAGAAGAGTATACGTTTTATACAAGATAATAAAGTTTGAG
260 TCTCAAAAGTGGATTAATGTCAAGTAAGAAGAGTATAAGTTTTATACAAGATAATAAAATTAGA-
* *
6186062 GACTTATCCCATTACCTGAAGGTGCAAAGTTAATTGACTATAAATGAGTATTTATAGTCAAGATG
324 GACTTATCCCATTACCTAAAGGTGCAAAGTTAATTGACTATAAATGAGTATTTATAATCAAGATG
* ** *
6186127 TATGCAAATGGTGATGTTGATAAGAGTAAGACATGTCTTGTATATAAAAGATA
389 GATGCAAATGGTGACATTGATAAGAGTAAGACATGTCATGTATATAAAAGATA
6186180 TACTAAAAAA
Statistics
Matches: 399, Mismatches: 39, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
440 2 0.01
441 120 0.30
442 199 0.50
443 78 0.20
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.32
Consensus pattern (443 bp):
CATGTGTTCATACATGTCGTTAATAAAGAAATGAGTCTAGAATCTCAATAAGATTATTTTCAACA
ATTCTCCAATTAAGAAAAAAATATTGTTACGGAAGATCAAACTCAACAATATCAAAGAACAAGTG
TCATTAGGAAGATCCACAAGATGAGAGAAATATTATTTTAGATTATGATGTTTCAACAAGAAATA
AGAATGATACTAGAATGATGAAAGAATATCTAATCAACTTTCATCATGTCAGAAAAGTTATGACT
CTCAAAAGTGGATTAATGTCAAGTAAGAAGAGTATAAGTTTTATACAAGATAATAAAATTAGAGA
CTTATCCCATTACCTAAAGGTGCAAAGTTAATTGACTATAAATGAGTATTTATAATCAAGATGGA
TGCAAATGGTGACATTGATAAGAGTAAGACATGTCATGTATATAAAAGATAAT
Found at i:6188423 original size:11 final size:12
Alignment explanation
Indices: 6188399--6188424 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6188389 ATTATTATTA
6188399 TTATTAATTTTT
1 TTATTAATTTTT
6188411 TTATTAATTTTT
1 TTATTAATTTTT
6188423 TT
1 TT
6188425 TCTTTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTAATTTTT
Found at i:6189290 original size:43 final size:43
Alignment explanation
Indices: 6189200--6189321 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
6189190 AAGGGGCCAT
* * * * ** *
6189200 CCACAATTTCAACTCCACGACGGAGGATATTGTACCCACGGAT
1 CCACGATTTCAACTCCACGACAGAGGATATCGTGCCCACACAA
*
6189243 CCACGATTTCAACTCCACGACAGAGGATATCGTGCCCATACAA
1 CCACGATTTCAACTCCACGACAGAGGATATCGTGCCCACACAA
* * * *
6189286 CCACGATTTCAACTTCACAACAAAGGATATCATGCC
1 CCACGATTTCAACTCCACGACAGAGGATATCGTGCC
6189322 AACTCTAGAT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (43 bp):
CCACGATTTCAACTCCACGACAGAGGATATCGTGCCCACACAA
Found at i:6189700 original size:124 final size:124
Alignment explanation
Indices: 6189461--6189704 Score: 319
Period size: 124 Copynumber: 2.0 Consensus size: 124
6189451 CAGTACAAGC
* * * *
6189461 TTGGATTTCAACTTCACGACGAAAGATATTCAAGTCAAGGCTCAACTTCACGACGAATGGGCCAT
1 TTGGATTTCAACTTCACGACGAAAGATATCCAAGTCAAGGCTCAACTTCACAACAAAGGGGCCAT
* * ** * *
6189526 CAATGGTTTCAACTTCACGACGAAGGGAATCGGGCACACAAGCAGCATTCATCTTTAGA
66 CAACGATTTCAACTTCACGACGAAAAGAATCGGACACACAAGCAACATTCATCTTTAGA
* *
6189585 TTGGATTTCAACTTCACGAC-AAAGGATATCCAATTCAAGGCTCAACTTCACAACAAAGGGGTCA
1 TTGGATTTCAACTTCACGACGAAA-GATATCCAAGTCAAGGCTCAACTTCACAACAAAGGGGCCA
* * * * *
6189649 TCCACGATTTCAACTTCACGACGAAAAGAATCGTACCCACCAGCAATATTCATCTT
65 TCAACGATTTCAACTTCACGACGAAAAGAATCGGACACACAAGCAACATTCATCTT
6189705 AAGGAATAAG
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
123 3 0.03
124 99 0.97
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (124 bp):
TTGGATTTCAACTTCACGACGAAAGATATCCAAGTCAAGGCTCAACTTCACAACAAAGGGGCCAT
CAACGATTTCAACTTCACGACGAAAAGAATCGGACACACAAGCAACATTCATCTTTAGA
Found at i:6189810 original size:36 final size:36
Alignment explanation
Indices: 6189750--6190080 Score: 299
Period size: 36 Copynumber: 9.2 Consensus size: 36
6189740 AATTTACTCA
6189750 AAACAAACTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
6189787 AAACAAATTTTATCTCTTTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
6189823 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
6189859 AAACAAA-----AC-CT-TTGA-ATATGTTT-TACATT-
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCT-C-TTG
* * *
6189888 AAACAAATTTCGTCTC-CATTAAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTC-TTGAGACAGTTTCTCTTG
* * * *
6189924 GAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCATG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
6189961 AAACAAATTTTGTCTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-----T-TTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
6190003 AAACAAATTTTGTCTCTTTTGAGACAGTTTCCCTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
6190039 AAACAAATTTTGTCTCT-TTGAGACAATTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
6190074 AAACAAA
1 AAACAAA
6190081 ATCTTTGAAT
Statistics
Matches: 244, Mismatches: 28, Indels: 46
0.77 0.09 0.14
Matches are distributed among these distances:
28 3 0.01
29 16 0.07
30 4 0.02
31 1 0.00
34 1 0.00
35 26 0.11
36 120 0.49
37 38 0.16
38 1 0.00
41 1 0.00
42 33 0.14
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:6189996 original size:42 final size:42
Alignment explanation
Indices: 6189933--6190053 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
6189923 GGAACTAAGT
* *
6189933 TTTGTCTCTCTTGAGATAGTTTCTCATGAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
6189975 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
* *
6190017 ----TCT-T-TTGAGACAGTTTCCCTTAAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
6190053 T
1 T
6190054 CTTTGAGACA
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
36 30 0.41
37 1 0.01
38 3 0.04
42 40 0.54
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (42 bp):
TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
Found at i:6190160 original size:215 final size:210
Alignment explanation
Indices: 6189750--6190239 Score: 759
Period size: 215 Copynumber: 2.3 Consensus size: 210
6189740 AATTTACTCA
*
6189750 AAACAAACTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTTTTGAGACAGT
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTTTTGAGACAGT
* * *
6189815 TTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAACCTTTGAATATGT
65 TTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAACCTTTGAATATGT
*
6189880 TTTACATTAAACAAATTTCGTCTCCATTAAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
130 TTTACATTAAACAAATTTCGTCTCCATTAAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTT
*
6189945 GAGATAGTTTCTCATG
195 GAGACAGTTTCTCATG
6189961 AAACAAATTTTGTCTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTTTTGAG
1 AAACAAA-----T-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTTTTGAG
*
6190026 ACAGTTTCCCTTAAAACAAATTTTGTCTCT-TTGAGACAATTTCCCTTGAAACAAAATCTTTGAA
60 ACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAACCTTTGAA
* * * *
6190090 TATGTTTT-CCTTGAAACAAATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAATTTTTGTC
125 TATGTTTTACATT-AAACAAATTTCGTCTCCATTAAGACAATTTCTTTTGGAACTAAGTTTTGTC
*
6190154 TCTCTTGAGACAGTTTCTCTTG
189 TCTCTTGAGACAGTTTCTCATG
* *
6190176 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA-TTTTGTCTCTTTTGAGACAG
6190240 ATTCTTTTGA
Statistics
Matches: 257, Mismatches: 15, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
209 34 0.13
210 20 0.08
211 7 0.03
214 3 0.01
215 114 0.44
216 79 0.31
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (210 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTTTTGAGACAGTT
TCCCTTAAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAACCTTTGAATATGTT
TTACATTAAACAAATTTCGTCTCCATTAAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTG
AGACAGTTTCTCATG
Found at i:6190185 original size:173 final size:176
Alignment explanation
Indices: 6189975--6190311 Score: 542
Period size: 173 Copynumber: 1.9 Consensus size: 176
6189965 AAATTTTGTC
*
6189975 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTTTTGAGACAGTTTCCCTTAA
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAA
6190040 AACAAA-TTTTGTCTCT-TTGAGACA-ATTTCCCTTGAAACA-AAATCTTTGAATATGTTT-TCC
66 AACAAAGTTTTGTCTCTCTTGAGACAGA-TTCCCTTGAAACACAAA-CTTTGAATATGTTTCT-C
*
6190100 TTGAAAC-AAATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAATT
128 TTGAAACAAAATTTCGCCTCCCTTGAGACAATTTCTTTTGGAACTAATT
*
6190148 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAA
**
6190213 AACAAAGTTTTGTCTCTCTTGAGACAGATTCTTTTGAAACACCAAACTTTGAATATGTTTCTCTT
66 AACAAAGTTTTGTCTCTCTTGAGACAGATTCCCTTGAAACA-CAAACTTTGAATATGTTTCTCTT
*
6190278 GAAACAAAATTTTGCCTCCCTTGAGACAATTTCT
130 GAAACAAAATTTCGCCTCCCTTGAGACAATTTCT
6190312 CTTGAAACAC
Statistics
Matches: 151, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
173 69 0.46
174 10 0.07
175 19 0.13
176 23 0.15
177 30 0.20
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (176 bp):
TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAA
AACAAAGTTTTGTCTCTCTTGAGACAGATTCCCTTGAAACACAAACTTTGAATATGTTTCTCTTG
AAACAAAATTTCGCCTCCCTTGAGACAATTTCTTTTGGAACTAATT
Found at i:6190194 original size:36 final size:36
Alignment explanation
Indices: 6190095--6190253 Score: 212
Period size: 37 Copynumber: 4.4 Consensus size: 36
6190085 TTGAATATGT
* * *
6190095 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAA
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
6190130 TTTCTTTTGGAACTAATTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
6190167 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
6190203 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAG
* *
6190240 ATTCTTTTGAAACA
1 TTTCTCTTGAAACA
6190254 CCAAACTTTG
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
35 4 0.04
36 43 0.40
37 61 0.56
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:6190224 original size:73 final size:73
Alignment explanation
Indices: 6190095--6190253 Score: 221
Period size: 73 Copynumber: 2.2 Consensus size: 73
6190085 TTGAATATGT
** * * *
6190095 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAATTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAATTTCCCTTGAAACAAAGTTTTGTCTCTCT
6190159 TGAGACAG
66 TGAGACAG
* * *
6190167 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAATTTCCCTTGAAACAAAGTTTTGTCTCTCT
6190232 TGAGACAG
66 TGAGACAG
* *
6190240 ATTCTTTTGAAACA
1 TTTCTCTTGAAACA
6190254 CCAAACTTTG
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
72 4 0.05
73 72 0.95
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (73 bp):
TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAATTTCCCTTGAAACAAAGTTTTGTCTCTCT
TGAGACAG
Found at i:6190317 original size:67 final size:70
Alignment explanation
Indices: 6190202--6190355 Score: 190
Period size: 67 Copynumber: 2.2 Consensus size: 70
6190192 TCTTGAGACA
* * * * * *
6190202 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGATTCTTTTGAAACAC-CAA-A-CTTTG
1 GTTTCTCTTGAAACAAAATTTTGCCTCCCTTGAGACAGATTCTCTTGAAACACAAAATATCTTTG
*
6190264 AATAT
66 AAAAT
6190269 GTTTCTCTTGAAACAAAATTTTGCCTCCCTTGAGACA-ATTTCTCTTGAAACACAAAAAATATCT
1 GTTTCTCTTGAAACAAAATTTTGCCTCCCTTGAGACAGA-TTCTCTTGAAACAC--AAAATATCT
6190333 TTGAAAAT
63 TTGAAAAT
6190341 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
6190356 CCAAACCTTC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
66 1 0.01
67 46 0.62
70 2 0.03
71 1 0.01
72 24 0.32
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (70 bp):
GTTTCTCTTGAAACAAAATTTTGCCTCCCTTGAGACAGATTCTCTTGAAACACAAAATATCTTTG
AAAAT
Found at i:6191986 original size:28 final size:30
Alignment explanation
Indices: 6191953--6192014 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
6191943 TTGATTTCTA
6191953 ATTTTCTGCATGTT-TTAATTTAGTCACT-
1 ATTTTCTGCATGTTCTTAATTTAGTCACTG
* * * *
6191981 ATTTTCTTCTTTTTCTTGATTTAGTCACTG
1 ATTTTCTGCATGTTCTTAATTTAGTCACTG
6192011 ATTT
1 ATTT
6192015 CGGTTGTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.39
29 13 0.46
30 4 0.14
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.58
Consensus pattern (30 bp):
ATTTTCTGCATGTTCTTAATTTAGTCACTG
Found at i:6192225 original size:8 final size:8
Alignment explanation
Indices: 6192213--6192277 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 8
6192203 TTTTCCTTTA
6192213 TTTTATTT
1 TTTTATTT
*
6192221 CTTTATTT
1 TTTTATTT
6192229 ATTTTATTT
1 -TTTTATTT
*
6192238 TATTATTT
1 TTTTATTT
6192246 TTTTATTT
1 TTTTATTT
**
6192254 TACTATTT
1 TTTTATTT
*
6192262 TTATTATTA
1 TT-TTATTT
6192271 TTTTATT
1 TTTTATT
6192278 CATTTTTACA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 33 0.72
9 13 0.28
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTT
Found at i:6192229 original size:17 final size:17
Alignment explanation
Indices: 6192209--6192282 Score: 80
Period size: 17 Copynumber: 4.2 Consensus size: 17
6192199 CATCTTTTCC
6192209 TTTATTTTATTTCT-TTA
1 TTTATTTTATTT-TATTA
6192226 TTTATTTTATTTTATTA
1 TTTATTTTATTTTATTA
*
6192243 TTT-TTTTATTTTACTATT
1 TTTATTTTATTTTA-T-TA
6192261 TTTATTATTATTTTATTCA
1 TTTATT-TTATTTTATT-A
6192280 TTT
1 TTT
6192283 TTACAATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
16 11 0.22
17 19 0.39
18 5 0.10
19 6 0.12
20 8 0.16
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTTTATTA
Found at i:6192250 original size:25 final size:26
Alignment explanation
Indices: 6192215--6192283 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
6192205 TTCCTTTATT
*
6192215 TTATTTCTTTATTTATTTTA-TTTTA
1 TTATTTTTTTATTTATTTTATTTTTA
**
6192240 TTATTTTTTTATTT-TACTATTTTTA
1 TTATTTTTTTATTTATTTTATTTTTA
* *
6192265 TTATTATTTTATTCATTTT
1 TTATTTTTTTATTTATTTT
6192284 TACAATTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 3 0.09
25 30 0.86
26 2 0.06
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (26 bp):
TTATTTTTTTATTTATTTTATTTTTA
Found at i:6192268 original size:3 final size:3
Alignment explanation
Indices: 6192227--6192338 Score: 67
Period size: 3 Copynumber: 38.7 Consensus size: 3
6192217 ATTTCTTTAT
* * *
6192227 TTA TT- TTA TT- TTA TTA TT- TTT TTA TT- TTA CTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * *
6192271 TT- TTA TTCA TTT TTA CAA TT- TTC TTC TTC TT- TTGA TTTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA
6192316 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
6192339 TCATTCTTAT
Statistics
Matches: 88, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 14 0.16
3 68 0.77
4 4 0.05
5 2 0.02
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:6195480 original size:14 final size:15
Alignment explanation
Indices: 6195457--6195494 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
6195447 AGATCCAATC
6195457 AAGAAC-AAAAAGAG
1 AAGAACAAAAAAGAG
*
6195471 AAGAAGAAAAAAGAG
1 AAGAACAAAAAAGAG
*
6195486 AAAAACAAA
1 AAGAACAAA
6195495 GAAAAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.76, C:0.05, G:0.18, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAG
Found at i:6195515 original size:20 final size:21
Alignment explanation
Indices: 6195477--6195521 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
6195467 AGAGAAGAAG
*
6195477 AAAAAAGAGAAAAACAAAG-A
1 AAAAAAGAGAAAAAAAAAGCA
6195497 AAAAAAGA-AAATAAAAAAGCA
1 AAAAAAGAGAAA-AAAAAAGCA
6195518 AAAA
1 AAAA
6195522 GCAAAAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAAAGAGAAAAAAAAAGCA
Found at i:6195520 original size:6 final size:7
Alignment explanation
Indices: 6195510--6195539 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6195500 AAAGAAAATA
6195510 AAAAAGC
1 AAAAAGC
6195517 AAAAAGC
1 AAAAAGC
6195524 AAAAAGC
1 AAAAAGC
6195531 AAAAA-C
1 AAAAAGC
6195537 AAA
1 AAA
6195540 GGAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.77, C:0.13, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAGC
Found at i:6195521 original size:14 final size:14
Alignment explanation
Indices: 6195462--6195535 Score: 57
Period size: 14 Copynumber: 5.4 Consensus size: 14
6195452 CAATCAAGAA
*
6195462 CAAAAAGAGAAGAAG
1 CAAAAAGA-AAAAAG
*
6195477 AAAAAAGAGAAAAA-
1 CAAAAAGA-AAAAAG
*
6195491 CAAAGA-AAAAAAG
1 CAAAAAGAAAAAAG
*
6195504 --AAAATAAAAAAG
1 CAAAAAGAAAAAAG
*
6195516 CAAAAAGCAAAAAG
1 CAAAAAGAAAAAAG
6195530 CAAAAA
1 CAAAAA
6195536 CAAAGGAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 3 0.06
12 12 0.25
13 1 0.02
14 20 0.42
15 12 0.25
ACGTcount: A:0.77, C:0.07, G:0.15, T:0.01
Consensus pattern (14 bp):
CAAAAAGAAAAAAG
Found at i:6195539 original size:13 final size:12
Alignment explanation
Indices: 6195486--6195549 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
6195476 GAAAAAAGAG
6195486 AAAAA-CAAAGAA
1 AAAAAGCAAA-AA
6195498 AAAAAG-AAAATA
1 AAAAAGCAAAA-A
6195510 AAAAAGCAAAAA
1 AAAAAGCAAAAA
6195522 GCAAAAAGC-AAAA
1 --AAAAAGCAAAAA
* *
6195535 ACAAAGGAAAAA
1 AAAAAGCAAAAA
6195547 AAA
1 AAA
6195550 CAAGACGCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
11 6 0.14
12 22 0.51
13 8 0.19
14 7 0.16
ACGTcount: A:0.80, C:0.08, G:0.11, T:0.02
Consensus pattern (12 bp):
AAAAAGCAAAAA
Done.