Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 386 of 425
Found at i:118643495 original size:21 final size:20
Alignment explanation
Indices: 118643466--118643505 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
118643456 ACAAAACTTG
118643466 CATAACTATCATCAAACATT
1 CATAACTATCATCAAACATT
*
118643486 CATAATCTATCATTAAACAT
1 CATAA-CTATCATCAAACAT
118643506 CAAAATACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (20 bp):
CATAACTATCATCAAACATT
Found at i:118645995 original size:17 final size:16
Alignment explanation
Indices: 118645975--118646013 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
118645965 TTAATACAAT
118645975 ATATAAATTATTTTTTA
1 ATATAAA-TATTTTTTA
*
118645992 ATATTACATATTTTTTA
1 ATA-TAAATATTTTTTA
118646009 ATATA
1 ATATA
118646014 TTATTTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 15 0.75
18 3 0.15
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATAAATATTTTTTA
Found at i:118652950 original size:2 final size:2
Alignment explanation
Indices: 118652893--118652938 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
118652883 AGATTCACTA
118652893 AT AT GAT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118652935 AT AT
1 AT AT
118652939 TTACACATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118653074 original size:20 final size:20
Alignment explanation
Indices: 118653036--118653074 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
118653026 AAATAACATA
* *
118653036 TTATTTTATAATTTCATTTC
1 TTATTTAATAATTTAATTTC
*
118653056 TTATTTAATATTTTAATTT
1 TTATTTAATAATTTAATTT
118653075 AATTTTAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTAATAATTTAATTTC
Found at i:118653291 original size:173 final size:172
Alignment explanation
Indices: 118652996--118653355 Score: 594
Period size: 173 Copynumber: 2.1 Consensus size: 172
118652986 TAATAAAACG
* *
118652996 TGTATCTCATTACAATAATATTTATTTTCCAAATAACATATTATTTTATAATTTCATTTCTTATT
1 TGTATCTCATTACAATAATAGTCATTTTCCAAATAACATATTATTTTATAATTTCATTTCTTATT
*
118653061 TAATATTTTAATTTAATTTTAATAATGCATACTTTACCTGGATGAAGTATATATTAGCAGATTCA
66 TAATATTTTAATTTAATTTTAATAATGCATACTTTACCCGGATGAAGTATATATTAGCAGATTCA
* * *
118653126 CTAATATGATTATGTATATATATATAATATATATATACACGCA
131 CTAATATGATTATATATATATATAT-ATATATACACACACGCA
* * * *
118653169 TGTATCTCATTACAATAATAGTCATTTTTCAAATAACATATTGTTTTATAGTTTTATTTCTTATT
1 TGTATCTCATTACAATAATAGTCATTTTCCAAATAACATATTATTTTATAATTTCATTTCTTATT
* *
118653234 TAATATTTTAATTTAATTTTAATAATGCCTACTTTACCCGGATGAAGTATGTATTAGCAGATTCA
66 TAATATTTTAATTTAATTTTAATAATGCATACTTTACCCGGATGAAGTATATATTAGCAGATTCA
118653299 CTAATATGATTATATATATATATATATATATACACACACGCA
131 CTAATATGATTATATATATATATATATATATACACACACGCA
*
118653341 TGTATCACATTACAA
1 TGTATCTCATTACAA
118653356 AGACAAAATT
Statistics
Matches: 174, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
172 29 0.17
173 145 0.83
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (172 bp):
TGTATCTCATTACAATAATAGTCATTTTCCAAATAACATATTATTTTATAATTTCATTTCTTATT
TAATATTTTAATTTAATTTTAATAATGCATACTTTACCCGGATGAAGTATATATTAGCAGATTCA
CTAATATGATTATATATATATATATATATATACACACACGCA
Found at i:118653671 original size:2 final size:2
Alignment explanation
Indices: 118653664--118653705 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
118653654 ACATGCGTAA
118653664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
118653706 TAGTGAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118653903 original size:2 final size:2
Alignment explanation
Indices: 118653896--118653922 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
118653886 ACATGCGTAA
118653896 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
118653923 ATCATATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118661696 original size:6 final size:6
Alignment explanation
Indices: 118661685--118661712 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
118661675 GTGAAAGGGG
118661685 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
118661713 TTCCCAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:118675172 original size:13 final size:13
Alignment explanation
Indices: 118675154--118675178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118675144 TTTGGTGATG
118675154 TATATTTATAAAC
1 TATATTTATAAAC
118675167 TATATTTATAAA
1 TATATTTATAAA
118675179 GGAAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TATATTTATAAAC
Found at i:118677880 original size:6 final size:6
Alignment explanation
Indices: 118677807--118677869 Score: 81
Period size: 6 Copynumber: 10.3 Consensus size: 6
118677797 ATTGAGTCTA
* * * *
118677807 TTTATC TTTATG TTTATT TTTATTT TTTGTT TTTATC TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTATT TTTATT
118677856 TTTATT TTTATT TT
1 TTTATT TTTATT TT
118677870 GTTTTGTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
6 45 0.90
7 5 0.10
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:118680089 original size:17 final size:17
Alignment explanation
Indices: 118680047--118680089 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
118680037 GTGGACATTA
118680047 TAATTTATGAAAATGTT
1 TAATTTATGAAAATGTT
*
118680064 AAATTTATGAAAATGTT
1 TAATTTATGAAAATGTT
*
118680081 TAATATATG
1 TAATTTATG
118680090 TTTATTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TAATTTATGAAAATGTT
Found at i:118682038 original size:8 final size:8
Alignment explanation
Indices: 118682025--118682064 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
118682015 TTATGTTTAG
118682025 TATATTAT
1 TATATTAT
118682033 TATATTAT
1 TATATTAT
118682041 TATATTATAT
1 TATA-T-TAT
118682051 TATATTAT
1 TATATTAT
118682059 ATATAT
1 -TATAT
118682065 AAACTAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 15 0.52
9 7 0.24
10 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:118683520 original size:26 final size:26
Alignment explanation
Indices: 118683461--118683595 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
118683451 TGATACAAAT
118683461 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
118683486 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
118683512 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
118683538 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
118683564 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
118683590 TGATAA
1 TGATAA
118683596 GAATTTCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:118685106 original size:26 final size:26
Alignment explanation
Indices: 118685077--118685129 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
118685067 TTTACAGTTT
118685077 TACCCCTAGGTGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
118685103 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
118685129 T
1 T
118685130 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:118691275 original size:15 final size:15
Alignment explanation
Indices: 118691255--118691311 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
118691245 CGATGAATTT
118691255 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
118691270 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
118691285 ATTGAATTTATATTG
1 ATTGAATTTATATTG
118691300 ATTGAA-TTATAT
1 ATTGAATTTATAT
118691312 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:118691745 original size:21 final size:23
Alignment explanation
Indices: 118691683--118691750 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
118691673 GGCTTTATCG
118691683 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
118691706 ATCAGGTACCTCGTGTGTCGT-T
1 ATCAGGCACTTTATGTGTCGTAT
*
118691728 -TTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
118691750 A
1 A
118691751 CTGATCAGGT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 15 0.44
22 2 0.06
23 17 0.50
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.40
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:118695556 original size:40 final size:39
Alignment explanation
Indices: 118695396--118695590 Score: 264
Period size: 39 Copynumber: 4.9 Consensus size: 39
118695386 TGTGTATGAA
*
118695396 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
118695435 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
118695474 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
118695513 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* *** * *
118695553 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGCA
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCA
118695591 TTTGAACGAG
Statistics
Matches: 139, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 42 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:118702734 original size:40 final size:39
Alignment explanation
Indices: 118702574--118702736 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
118702564 TGTGTATGGA
*
118702574 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
118702613 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGTAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
118702652 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
118702691 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
118702731 TGTGCG
1 TGTGCG
118702737 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:118702752 original size:40 final size:40
Alignment explanation
Indices: 118702591--118702772 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
118702581 ATTGTGATAT
* *** *
118702591 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * * ** *
118702630 CCGGGCTAAG-CCCGAAGGTAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
118702669 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
118702708 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
118702748 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
118702773 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 79 0.64
40 45 0.36
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:118705887 original size:8 final size:8
Alignment explanation
Indices: 118705874--118705913 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
118705864 TTATGTTTAG
118705874 TATATTAT
1 TATATTAT
118705882 TATATTAT
1 TATATTAT
118705890 TATATTATAT
1 TATA-T-TAT
118705900 TATATTAT
1 TATATTAT
118705908 ATATAT
1 -TATAT
118705914 AAACTAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 15 0.52
9 7 0.24
10 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:118715551 original size:2 final size:2
Alignment explanation
Indices: 118715544--118715574 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
118715534 TAGTTATGTT
118715544 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 T
118715575 TAATAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118716607 original size:25 final size:25
Alignment explanation
Indices: 118716578--118716628 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
118716568 ATTCAGGTTA
118716578 GAAACCAGTCAAATTCATACATATT
1 GAAACCAGTCAAATTCATACATATT
118716603 GAAACCAGTCAAATTCATACATATT
1 GAAACCAGTCAAATTCATACATATT
118716628 G
1 G
118716629 TCCCTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (25 bp):
GAAACCAGTCAAATTCATACATATT
Found at i:118723319 original size:16 final size:16
Alignment explanation
Indices: 118723292--118723338 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
118723282 ATTCTTATTC
118723292 TTATTCTTATATTTTAA
1 TTATT-TTATATTTTAA
* *
118723309 TTTTTTTATATTTTTA
1 TTATTTTATATTTTAA
118723325 TTATTTT-TATTTTA
1 TTATTTTATATTTTA
118723339 CTATTTCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 6 0.23
16 16 0.62
17 4 0.15
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTATATTTTAA
Found at i:118723335 original size:9 final size:9
Alignment explanation
Indices: 118723276--118723335 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
118723266 AATTAATTAA
118723276 TTTATTATT
1 TTTATTATT
* *
118723285 CTTATTCTT
1 TTTATTATT
* *
118723294 ATTCTTATAT
1 TTTATTAT-T
118723304 TTTAATT-TT
1 TTT-ATTATT
118723313 TTTA-TATT
1 TTTATTATT
118723321 TTTATTATT
1 TTTATTATT
118723330 TTTATT
1 TTTATT
118723336 TTACTATTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
7 1 0.03
8 7 0.17
9 26 0.65
10 4 0.10
11 2 0.05
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTATTATT
Found at i:118723335 original size:45 final size:44
Alignment explanation
Indices: 118723276--118723373 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
118723266 AATTAATTAA
118723276 TTTATTATTCTTATTCTTA-T-TCTTATATTTTAATTTTTTT-ATATT
1 TTTATTATTCTTATT-TTACTAT-TTATATTTT-ATTTTTTTCAT-TT
* *
118723321 TTTATTATTTTTATTTTACTATTTCTATTTTATTTTTTTCATTT
1 TTTATTATTCTTATTTTACTATTTATATTTTATTTTTTTCATTT
*
118723365 TTTACTATT
1 TTTATTATT
118723374 ATCATTACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
44 21 0.45
45 25 0.53
46 1 0.02
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (44 bp):
TTTATTATTCTTATTTTACTATTTATATTTTATTTTTTTCATTT
Found at i:118723366 original size:9 final size:8
Alignment explanation
Indices: 118723298--118723367 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 8
118723288 ATTCTTATTC
*
118723298 TTATATTT
1 TTATTTTT
*
118723306 TAATTTTT
1 TTATTTTT
*
118723314 TTATATTT
1 TTATTTTT
118723322 TTATTATTT
1 TTATT-TTT
*
118723331 TTATTTTA
1 TTATTTTT
*
118723339 CTATTTCTATT
1 TTA-TT-T-TT
118723350 TTATTTTT
1 TTATTTTT
118723358 TTCATTTTT
1 TT-ATTTTT
118723367 T
1 T
118723368 ACTATTATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
8 24 0.50
9 18 0.38
10 3 0.06
11 3 0.06
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTTTT
Found at i:118723422 original size:3 final size:3
Alignment explanation
Indices: 118723414--118723472 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
118723404 ATCCTTGAGT
118723414 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
118723462 TTA TTA ATA TT
1 TTA TTA TTA TT
118723473 TATCTTTCTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:118724511 original size:14 final size:12
Alignment explanation
Indices: 118724476--118724506 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
118724466 CATTGTTCTC
118724476 AAAAAAAAATGA
1 AAAAAAAAATGA
118724488 AAAAAAAAATGA
1 AAAAAAAAATGA
118724500 AAAAAAA
1 AAAAAAA
118724507 TAAATTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:118727791 original size:43 final size:42
Alignment explanation
Indices: 118727721--118727879 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 42
118727711 AGCTCGTACA
** * *
118727721 ATGCCAACGTCCCAGATGTGGTTTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATAT-G
*
118727764 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAAATATG
* *
118727806 ATGCCAACGTCCTAGACATGGTCTTACACATAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCA-AA-TATG
*
118727850 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
118727880 ATAACACATA
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.28
43 40 0.40
44 31 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATG
Found at i:118729133 original size:12 final size:12
Alignment explanation
Indices: 118729116--118729161 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
118729106 TACAGTGCAC
118729116 CTATTCTTTCTT
1 CTATTCTTTCTT
118729128 CTATTCTTTCTT
1 CTATTCTTTCTT
* *
118729140 TTTTTCTTTCTT
1 CTATTCTTTCTT
118729152 -T-TTCTTTCTT
1 CTATTCTTTCTT
118729162 AATTTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 9 0.28
11 1 0.03
12 22 0.69
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (12 bp):
CTATTCTTTCTT
Found at i:118738202 original size:53 final size:53
Alignment explanation
Indices: 118738121--118738266 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
118738111 CTTACATGGT
* * *
118738121 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATATGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
118738176 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
118738229 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
118738267 AACTGGCACA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:118742388 original size:24 final size:25
Alignment explanation
Indices: 118742352--118742399 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
118742342 TTTAAAGACT
* *
118742352 TTTTATTTATTATTTATATTTTTAC
1 TTTTATCTATTATTTATATATTTAC
118742377 TTTTATCT-TTATTTATATATTTA
1 TTTTATCTATTATTTATATATTTA
118742400 AAGTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATCTATTATTTATATATTTAC
Found at i:118744468 original size:61 final size:61
Alignment explanation
Indices: 118744393--118744550 Score: 237
Period size: 61 Copynumber: 2.6 Consensus size: 61
118744383 ATGGGTAGTT
*
118744393 CACACGCCCGTGTAGTTTTAGCAAACTCTAACATGGCCTAGACTTCCTTACACGAGCAGAC
1 CACACGCCCGTGTAGTTTTAGCAAACTCTAACACGGCCTAGACTTCCTTACACGAGCAGAC
* * *
118744454 CACACGCCCGTGTAGTTTTAGCAGACTCTAACACGGCCTAGACTTCCTTACACGGGTAGAC
1 CACACGCCCGTGTAGTTTTAGCAAACTCTAACACGGCCTAGACTTCCTTACACGAGCAGAC
* * *
118744515 CACACGCCCGTGT-CTATTTAACAAACTCGAACACGG
1 CACACGCCCGTGTAGT-TTTAGCAAACTCTAACACGG
118744551 GTTGAAGCAC
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
60 1 0.01
61 87 0.99
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (61 bp):
CACACGCCCGTGTAGTTTTAGCAAACTCTAACACGGCCTAGACTTCCTTACACGAGCAGAC
Found at i:118756333 original size:17 final size:18
Alignment explanation
Indices: 118756298--118756337 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
118756288 ATATTACTTC
**
118756298 TAAAAAACATTTTTGAAA
1 TAAAAAACATTACTGAAA
118756316 TAAAAAACATTACT-AAA
1 TAAAAAACATTACTGAAA
118756333 TAAAA
1 TAAAA
118756338 TACTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAAAACATTACTGAAA
Found at i:118772329 original size:26 final size:26
Alignment explanation
Indices: 118772300--118772407 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
118772290 TGGTACAAAT
*
118772300 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
118772326 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
118772352 TGATAATGGGTTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
118772378 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
118772404 TGAT
1 TGAT
118772408 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:118779395 original size:25 final size:26
Alignment explanation
Indices: 118779365--118779470 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 26
118779355 TGGTACAAAT
118779365 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
118779390 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
118779416 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
118779441 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
118779467 TGAT
1 TGAT
118779471 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
25 45 0.61
26 29 0.39
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:118779425 original size:51 final size:51
Alignment explanation
Indices: 118779365--118779470 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
118779355 TGGTACAAAT
118779365 TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
* *
118779416 TGATAATGGGTTAGGTAAATGTTCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
118779467 TGAT
1 TGAT
118779471 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
Found at i:118795271 original size:31 final size:31
Alignment explanation
Indices: 118795233--118795296 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
118795223 TTGAAACCTT
118795233 CCATGAATAGTTTAAATATGCATTAATATGA
1 CCATGAATAGTTTAAATATGCATTAATATGA
118795264 CCATGAATAGTTTAAATATGCATTAATATGA
1 CCATGAATAGTTTAAATATGCATTAATATGA
118795295 CC
1 CC
118795297 TGTTAGCACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (31 bp):
CCATGAATAGTTTAAATATGCATTAATATGA
Found at i:118801471 original size:18 final size:18
Alignment explanation
Indices: 118801448--118801482 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
118801438 GATAAATAGC
118801448 TATAAAATAATACATAAA
1 TATAAAATAATACATAAA
*
118801466 TATAAAATAATATATAA
1 TATAAAATAATACATAA
118801483 TTTCTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAATAATACATAAA
Found at i:118808353 original size:30 final size:30
Alignment explanation
Indices: 118808317--118808376 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
118808307 ACTTAACAAG
118808317 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
118808347 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
118808377 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:118813366 original size:22 final size:20
Alignment explanation
Indices: 118813341--118813401 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 20
118813331 TCCAACTTAA
118813341 TATTATTATATTAATAATAATT
1 TATTATTATATTAA-AAT-ATT
* *
118813363 TATTTTTATTTTTAAAATATT
1 TATTATTA-TATTAAAATATT
*
118813384 TAATATTA-ATT-AAATATT
1 TATTATTATATTAAAATATT
118813402 AATATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 7 0.21
19 2 0.06
21 9 0.27
22 10 0.30
23 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTATATTAAAATATT
Found at i:118813529 original size:13 final size:14
Alignment explanation
Indices: 118813513--118813554 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
118813503 TCTCAATTTT
118813513 ATTTTAATAAT-TA
1 ATTTTAATAATATA
*
118813526 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
118813541 ATTTTAAATAATAT
1 ATTTT-AATAATAT
118813555 TCTCCATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
15 9 0.38
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:118813544 original size:15 final size:17
Alignment explanation
Indices: 118813517--118813553 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
118813507 AATTTTATTT
118813517 TAATAATTAATTTTAAA
1 TAATAATTAATTTTAAA
118813534 -AATAA-TAATTTTAAA
1 TAATAATTAATTTTAAA
118813549 TAATA
1 TAATA
118813554 TTCTCCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAATTAATTTTAAA
Found at i:118815584 original size:24 final size:24
Alignment explanation
Indices: 118815496--118815672 Score: 210
Period size: 24 Copynumber: 7.2 Consensus size: 24
118815486 CAACTCTTAT
* * *
118815496 GAGCGTCCTGTTATATGGATCTTCG
1 GAGCTTCCCGTTA-ATGGCTCTTCG
* *
118815521 TGAGCTTCCCGATTAAAGGCTCTTTG
1 -GAGCTTCCCG-TTAATGGCTCTTCG
* *
118815547 TGAGCTTCCTGTTAATAGCTCTTCG
1 -GAGCTTCCCGTTAATGGCTCTTCG
* *
118815572 GAGCTTCTCGTTAATGGCTATTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
** *
118815596 GAGCTTCTAGTTAATGGCTTTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
118815620 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
118815644 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
118815668 GAGCT
1 GAGCT
118815673 ACTGTTATTG
Statistics
Matches: 132, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
24 92 0.70
25 11 0.08
26 26 0.20
27 3 0.02
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTCG
Found at i:118818029 original size:22 final size:21
Alignment explanation
Indices: 118817986--118818030 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
118817976 ATATTTTAAC
118817986 TTAATATAAAAATATGAATAT
1 TTAATATAAAAATATGAATAT
* * *
118818007 TTAATCATATAAATCTGAGTAT
1 TTAAT-ATAAAAATATGAATAT
118818029 TT
1 TT
118818031 GTTTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (21 bp):
TTAATATAAAAATATGAATAT
Found at i:118818556 original size:114 final size:113
Alignment explanation
Indices: 118818347--118818565 Score: 366
Period size: 114 Copynumber: 1.9 Consensus size: 113
118818337 ATAAATAAAT
* *
118818347 GTGATTTGATGTAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGGACCCAGCGATCAGGT
1 GTGATTTGATGTAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGAACCCAGCGATCAAGT
118818412 TGGGTAACGAGGTGTTACAATATTAATATTTATTGAATGGGTAACGAG
66 TGGGTAACGAGGTGTTACAATATTAATATTTATTGAATGGGTAACGAG
* * * *
118818460 GTGATTTGACTGTAGTTGCTTCGGCAACGAATGTGCTACCTTGTAACTCGAACCTAGCGATCAAG
1 GTGATTTGA-TGTAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGAACCCAGCGATCAAG
*
118818525 TTGGGTAATGAGGTGTTACAATATTAATATTTATTGAATGG
65 TTGGGTAACGAGGTGTTACAATATTAATATTTATTGAATGG
118818566 TTCAAAATTT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
113 9 0.09
114 89 0.91
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (113 bp):
GTGATTTGATGTAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGAACCCAGCGATCAAGT
TGGGTAACGAGGTGTTACAATATTAATATTTATTGAATGGGTAACGAG
Found at i:118823387 original size:87 final size:87
Alignment explanation
Indices: 118823296--118823566 Score: 246
Period size: 87 Copynumber: 3.1 Consensus size: 87
118823286 TACCTTAGGA
**
118823296 AGATAAGACTCAATCTTCAACCCGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAAT
1 AGATAAGACTCAATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAAT
*
118823361 TTGCTCCATTACTGATACATGG
66 CTGCTCCATTACTGATACATGG
* * * * * * * ****
118823383 AGATAAGATTCACCATCTTCGATCTACTC-C--GCTACTGTTTAGGGAGATAAGATCTTCAATCT
1 AGATAAGACTCA--ATCTTCAACCTACTCTCTTGCTAC--CTCAGAGAGATAAG-GCTTGGGGCT
* * * * *
118823445 TAAGTCTGCTTCTTTACT-A-CCTTAGG
61 TAAATCTGCTCCATTACTGATACAT-GG
*
118823471 AAGATAAAACTCAATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAA
1 -AGATAAGACTCAATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAA
* *
118823536 TCTGCTCCATTGCCGATACATGG
65 TCTGCTCCATTACTGATACATGG
118823559 AGATAAGA
1 AGATAAGA
118823567 TTCGCCATCT
Statistics
Matches: 133, Mismatches: 39, Indels: 24
0.68 0.20 0.12
Matches are distributed among these distances:
86 5 0.04
87 51 0.38
88 30 0.23
89 42 0.32
90 5 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (87 bp):
AGATAAGACTCAATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAAT
CTGCTCCATTACTGATACATGG
Found at i:118823394 original size:176 final size:176
Alignment explanation
Indices: 118823073--118823790 Score: 951
Period size: 176 Copynumber: 4.1 Consensus size: 176
118823063 TTTTCTTAAA
* * * * * *
118823073 GAGATAAGATCTACAA---TCAATCTGTTTCCTTGTTACCTTGGGAAGATAAGACTACAAT-TGC
1 GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACT-CAATCTTC
* * * * * ** * * *
118823134 TAATCTGCTCTCTTGCTTCCTCAAAAAGATAAGGCCAGTGGTACTTTAAATCTGCTCTATTGCCT
65 -AACCTGCTCTCTTGCTACCTCAGAGAGATAAGG-C-TTGGGGC-TTAAATCTGCTCCATTACCG
*
118823199 ATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGTTTAGG
126 ATACATGGAGATAAGATTCACCATCTTCGATCTACTCCGCTACTGTTTAGG
118823250 GAGATAAGATCTTCAAT-TCTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCAATCTTC
1 GAGATAAGATCTTCAATCT-TCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCAATCTTC
* * *
118823314 AACCCGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATTTGCTCCATTACTGATAC
65 AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTACCGATAC
118823379 ATGGAGATAAGATTCACCATCTTCGATCTACTCCGCTACTGTTTAGG
130 ATGGAGATAAGATTCACCATCTTCGATCTACTCCGCTACTGTTTAGG
* * * *
118823426 GAGATAAGATCTTCAATCTTAAGTCTGCTTCTTTACTACCTTAGGAAGATAAAACTCAATCTTCA
1 GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCAATCTTCA
* *
118823491 ACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTACCGATACA
* * *
118823556 TGGAGATAAGATTCGCCATCTTCGATCTACTCTGCTACTGTTTAAG
131 TGGAGATAAGATTCACCATCTTCGATCTACTCCGCTACTGTTTAGG
* * *
118823602 GAGATAAGATCTGCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATATGACTCAATTTTCA
1 GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCAATCTTCA
* * * * *
118823667 ACCTGCTCTCTTACTACCCCAGAGAGATAAGACTTGGGGCTTAAATCTGTTCTATTACCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTACCGATACA
* * * * **
118823732 TGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTTTAGG
131 TGGAGATAAGATTCACCATCTTCGATCTACTCCGCTAC-TGTTTAGG
118823779 GAGATAAGATCT
1 GAGATAAGATCT
118823791 AACTTCACCA
Statistics
Matches: 482, Mismatches: 53, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
176 377 0.78
177 37 0.08
178 1 0.00
179 32 0.07
180 35 0.07
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (176 bp):
GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCAATCTTCA
ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTACCGATACA
TGGAGATAAGATTCACCATCTTCGATCTACTCCGCTACTGTTTAGG
Found at i:118823652 original size:89 final size:89
Alignment explanation
Indices: 118823207--118823652 Score: 226
Period size: 89 Copynumber: 5.1 Consensus size: 89
118823197 CTATACATGG
* * * * *
118823207 AGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAAT-TCTC
1 AGATAAGATTCACCATCTTCGATCTACTCTGCTACTGTTTAAGGAGATAAGATCTGCAATCT-TA
118823271 AGTCTGCTTCCTTGCTACCTTAGGA
65 AGTCTGCTTCCTTGCTACCTTAGGA
* * * ** * *** * * ***
118823296 AGATAAGACTCA--ATCTTCAACCCGCTCT-CTTGCTACCTCAGAGAGATAAG-GCTTG-GGGCT
1 AGATAAGATTCACCATCTTCGATCTACTCTGC-TACTGTTTAAG-GAGATAAGATC-TGCAATCT
* * * * *
118823356 TAAATTTGC-TCCATTACTGATACAT-GG-
63 TAAGTCTGCTTCC-TTGCT-A-CCTTAGGA
* * *
118823383 AGATAAGATTCACCATCTTCGATCTACTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTAA
1 AGATAAGATTCACCATCTTCGATCTACTCTGCTACTGTTTAAGGAGATAAGATCTGCAATCTTAA
* *
118823448 GTCTGCTTCTTTACTACCTTAGGA
66 GTCTGCTTCCTTGCTACCTTAGGA
* * * * * *** * * ***
118823472 AGATAAAACTCA--ATCTTCAACCTACTCT-CTTGCTACCTCAGAGAGATAAG-GCTTG-GGGCT
1 AGATAAGATTCACCATCTTCGATCTACTCTGC-TACTGTTTAAG-GAGATAAGATC-TGCAATCT
* *
118823532 TAAATCTGC-TCCATTGCCGATA-CAT-GG-
63 TAAGTCTGCTTCC-TTG-C--TACCTTAGGA
* *
118823559 AGATAAGATTCGCCATCTTCGATCTACTCTGCTACTGTTTAAGGAGATAAGATCTGCAATCTTCA
1 AGATAAGATTCACCATCTTCGATCTACTCTGCTACTGTTTAAGGAGATAAGATCTGCAATCTTAA
118823624 GTCTGCTTCCTTGCTACCTTAGGA
66 GTCTGCTTCCTTGCTACCTTAGGA
118823648 AGATA
1 AGATA
118823653 TGACTCAATT
Statistics
Matches: 245, Mismatches: 81, Indels: 62
0.63 0.21 0.16
Matches are distributed among these distances:
86 9 0.04
87 83 0.34
88 50 0.20
89 94 0.38
90 9 0.04
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (89 bp):
AGATAAGATTCACCATCTTCGATCTACTCTGCTACTGTTTAAGGAGATAAGATCTGCAATCTTAA
GTCTGCTTCCTTGCTACCTTAGGA
Found at i:118848885 original size:24 final size:24
Alignment explanation
Indices: 118848857--118848904 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
118848847 CCGTTTCTCG
*
118848857 CTCTTTTTACTCTCTTATGTTCAC
1 CTCTTTTTACTCTCTTATGCTCAC
118848881 CTCTTTTTACTCTCTTATGCTCAC
1 CTCTTTTTACTCTCTTATGCTCAC
118848905 GTAAGTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.31, G:0.04, T:0.52
Consensus pattern (24 bp):
CTCTTTTTACTCTCTTATGCTCAC
Found at i:118849791 original size:18 final size:18
Alignment explanation
Indices: 118849754--118849792 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
118849744 CTCAAAAGAC
* *
118849754 TTTATATCTTTTTGGAAT
1 TTTAAATCTTTTAGGAAT
*
118849772 TTTAAATCTTTTAGGGAT
1 TTTAAATCTTTTAGGAAT
118849790 TTT
1 TTT
118849793 CATATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (18 bp):
TTTAAATCTTTTAGGAAT
Found at i:118855133 original size:46 final size:46
Alignment explanation
Indices: 118855084--118855392 Score: 460
Period size: 46 Copynumber: 6.7 Consensus size: 46
118855074 GTGTGCTATC
**
118855084 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CG
**
118855130 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
118855176 TGATATGAAATGAATAAGGCCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
***
118855222 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
118855268 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
118855314 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
118855360 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGA
118855393 CACTATGACA
Statistics
Matches: 244, Mismatches: 17, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.01
46 242 0.99
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:118855709 original size:16 final size:17
Alignment explanation
Indices: 118855688--118855720 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
118855678 ATGATGGAGC
118855688 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
118855704 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
118855721 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:118857506 original size:13 final size:13
Alignment explanation
Indices: 118857488--118857553 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
118857478 AGTTTGGCAA
*
118857488 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
118857501 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
*
118857514 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
118857527 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
118857540 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
118857553 T
1 T
118857554 TTAATTTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:118863379 original size:18 final size:18
Alignment explanation
Indices: 118863356--118863423 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
118863346 AGGACGTTTC
*
118863356 ATTCATTTTCAAAACGTA
1 ATTCATTTTCAAAACGTT
*
118863374 ATTCATTATCACAAA-GTT
1 ATTCATTTTCA-AAACGTT
*
118863392 ATAC-TCTTTCAAAACGTT
1 ATTCAT-TTTCAAAACGTT
*
118863410 ATTAATTTTCAAAA
1 ATTCATTTTCAAAA
118863424 GGTCACTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 4 0.10
18 32 0.80
19 4 0.10
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (18 bp):
ATTCATTTTCAAAACGTT
Found at i:118866198 original size:25 final size:24
Alignment explanation
Indices: 118866147--118866203 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
118866137 TACATAACGG
* * *
118866147 GAAGCTCTTACGAGCCAATTATCA
1 GAAGCTCATACGAGCCAATAAACA
118866171 GAAAGCTCATACGAGCC-ATAAACGA
1 G-AAGCTCATACGAGCCAATAAAC-A
118866196 GAAGCTCA
1 GAAGCTCA
118866204 AGAGAGCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.18
Consensus pattern (24 bp):
GAAGCTCATACGAGCCAATAAACA
Found at i:118866210 original size:24 final size:24
Alignment explanation
Indices: 118866197--118866251 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
118866187 CATAAACGAG
*
118866197 AAGCTCAAGAGAGCCAAATTCAAA
1 AAGCTCAAGAGAGCCAAATACAAA
* * *
118866221 AAGCTCAAGAGAGCTAAATTCAGA
1 AAGCTCAAGAGAGCCAAATACAAA
118866245 AAGCTCA
1 AAGCTCA
118866252 TACAGGCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.15
Consensus pattern (24 bp):
AAGCTCAAGAGAGCCAAATACAAA
Found at i:118867695 original size:51 final size:50
Alignment explanation
Indices: 118867624--118867783 Score: 239
Period size: 51 Copynumber: 3.2 Consensus size: 50
118867614 CTGATCACAT
*
118867624 TTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
118867675 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
118867725 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
118867776 TTGTCACT
1 TTATCACT
118867784 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.46
51 54 0.54
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:118872324 original size:14 final size:14
Alignment explanation
Indices: 118872302--118872343 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
118872292 AGTCTTCAAT
118872302 TATAGTAAATATAA
1 TATAGTAAATATAA
* *
118872316 TATAATAAATAAAA
1 TATAGTAAATATAA
118872330 TATAGTAAAATATA
1 TATAGT-AAATATA
118872344 CCTGAAGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TATAGTAAATATAA
Found at i:118873129 original size:1 final size:1
Alignment explanation
Indices: 118873123--118873150 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
118873113 TCATAAGTTG
118873123 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
118873151 GGTGTTCGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:118878489 original size:40 final size:40
Alignment explanation
Indices: 118878434--118878514 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
118878424 TCATTCCCGC
118878434 TAGGAAATCCCATTCAACTCGATCGTATACCTTACTCATA
1 TAGGAAATCCCATTCAACTCGATCGTATACCTTACTCATA
*
118878474 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
1 TAGGAAATCCCATTCAACTCGATCGTATACCTTACTCATA
118878514 T
1 T
118878515 CGAGTTTTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (40 bp):
TAGGAAATCCCATTCAACTCGATCGTATACCTTACTCATA
Found at i:118883636 original size:33 final size:33
Alignment explanation
Indices: 118883598--118883665 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
118883588 AAGAAGTATG
118883598 AAACAAAGAATTTCAACCATCTATCTACCATGA
1 AAACAAAGAATTTCAACCATCTATCTACCATGA
*
118883631 AAACAAAGAATTTCAACCATCTATCTATCATGA
1 AAACAAAGAATTTCAACCATCTATCTACCATGA
118883664 AA
1 AA
118883666 GTCTGCACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (33 bp):
AAACAAAGAATTTCAACCATCTATCTACCATGA
Found at i:118888420 original size:2 final size:2
Alignment explanation
Indices: 118888413--118888439 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
118888403 GTTATATGCG
118888413 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 T
118888440 GTTTGTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118888563 original size:8 final size:8
Alignment explanation
Indices: 118888539--118888576 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
118888529 TACCAATGTT
118888539 TATATATG
1 TATATATG
*
118888547 T-TTTATG
1 TATATATG
118888554 TATATATG
1 TATATATG
*
118888562 TATATATA
1 TATATATG
118888570 TATATAT
1 TATATAT
118888577 ATTTACGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (8 bp):
TATATATG
Found at i:118888665 original size:3 final size:3
Alignment explanation
Indices: 118888645--118888692 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
118888635 TGTGTTTCAA
*
118888645 TAT TGT TAT TA- TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
118888690 TAT
1 TAT
118888693 AATAGTGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:118889043 original size:25 final size:22
Alignment explanation
Indices: 118889012--118889069 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
118889002 ATTATATGTG
118889012 TATATATTATGTAAAATGTTTTAA
1 TATATATTATGT-AAATGTTTT-A
* * *
118889036 TATTATATAATATATATGTTTTA
1 TA-TATATTATGTAAATGTTTTA
118889059 TATATATTATG
1 TATATATTATG
118889070 AACATGTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 10 0.36
25 8 0.29
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATATATTATGTAAATGTTTTA
Found at i:118889195 original size:25 final size:26
Alignment explanation
Indices: 118889167--118889224 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
118889157 TACTATCTTA
118889167 TGTATATACTTCAAACACTA-TA-TAT
1 TGTATATA-TTCAAACACTATTACTAT
*
118889192 TGTATAT-TTCTAACACTATTACTAT
1 TGTATATATTCAAACACTATTACTAT
118889217 T-TATATAT
1 TGTATATAT
118889225 ACATATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 10 0.34
24 7 0.24
25 12 0.41
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (26 bp):
TGTATATATTCAAACACTATTACTAT
Found at i:118889225 original size:2 final size:2
Alignment explanation
Indices: 118889218--118889264 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
118889208 TATTACTATT
* *
118889218 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118889259 TA TA TA
1 TA TA TA
118889265 CTCTTAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:118894025 original size:43 final size:43
Alignment explanation
Indices: 118893945--118894048 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 43
118893935 TAAATCCAAA
* * *
118893945 AACTGAAGTTTATCTTC-TCATTTGTTAAATTCTTTTTTCAAC
1 AACTCAAGATTATCTTCTTCATTTGTTAAATTCGTTTTTCAAC
*
118893987 AA-TCCAATATTATCTTCTTCTATTT-TTAAATTCGTTTTTCAAC
1 AACT-CAAGATTATCTTCTTC-ATTTGTTAAATTCGTTTTTCAAC
118894030 AACTCAAGATTATCTTCTT
1 AACTCAAGATTATCTTCTT
118894049 TTTAAATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 12 0.23
43 35 0.66
44 5 0.09
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (43 bp):
AACTCAAGATTATCTTCTTCATTTGTTAAATTCGTTTTTCAAC
Found at i:118894063 original size:38 final size:40
Alignment explanation
Indices: 118893962--118894064 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 40
118893952 GTTTATCTTC
*
118893962 TCATTTGTTAAATTCTTTTTTCAACAATCCAATATTATCTTCT
1 TCATTT-TTAAATTCTTTTTTCAACAATCCAAGATTA--TTCT
*
118894005 TCTATTTTTAAATTCGTTTTTCAACAA-CTCAAGATTA-TCT
1 TC-ATTTTTAAATTCTTTTTTCAACAATC-CAAGATTATTCT
*
118894045 TC-TTTTTAAATTATTTTTTC
1 TCATTTTTAAATTCTTTTTTC
118894065 TAGGATAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
38 16 0.30
40 5 0.09
42 1 0.02
43 28 0.52
44 4 0.07
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (40 bp):
TCATTTTTAAATTCTTTTTTCAACAATCCAAGATTATTCT
Found at i:118897501 original size:29 final size:29
Alignment explanation
Indices: 118897469--118897526 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
118897459 ACTTATCGAT
118897469 TAATGCAATTGGATGATTTAATGGCCTAA
1 TAATGCAATTGGATGATTTAATGGCCTAA
118897498 TAATGCAATTGGATGATTTAATGGCCTAA
1 TAATGCAATTGGATGATTTAATGGCCTAA
118897527 GTAGTAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (29 bp):
TAATGCAATTGGATGATTTAATGGCCTAA
Found at i:118906629 original size:6 final size:6
Alignment explanation
Indices: 118906618--118906678 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
118906608 GGAGGTAGAC
* * * * * * *
118906618 CCAGAG CCAGAG CCAAAG TCGGAG CCAGAG CCGGAG TCGGAG CCGGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
*
118906666 CCAGAG CCGGAG C
1 CCAGAG CCAGAG C
118906679 TACATTCCGG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.26, C:0.31, G:0.39, T:0.03
Consensus pattern (6 bp):
CCAGAG
Found at i:118906644 original size:18 final size:18
Alignment explanation
Indices: 118906621--118906678 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
118906611 GGTAGACCCA
*
118906621 GAGCCAGAGCCAAAGTCG
1 GAGCCAGAGCCAGAGTCG
*
118906639 GAGCCAGAGCCGGAGTCG
1 GAGCCAGAGCCAGAGTCG
* *
118906657 GAGCCGGAGCCAGAGCCG
1 GAGCCAGAGCCAGAGTCG
118906675 GAGC
1 GAGC
118906679 TACATTCCGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.26, C:0.29, G:0.41, T:0.03
Consensus pattern (18 bp):
GAGCCAGAGCCAGAGTCG
Found at i:118906652 original size:12 final size:12
Alignment explanation
Indices: 118906618--118906678 Score: 77
Period size: 12 Copynumber: 5.1 Consensus size: 12
118906608 GGAGGTAGAC
*
118906618 CCAGAGCCAGAG
1 CCAGAGCCGGAG
* *
118906630 CCAAAGTCGGAG
1 CCAGAGCCGGAG
118906642 CCAGAGCCGGAG
1 CCAGAGCCGGAG
* *
118906654 TCGGAGCCGGAG
1 CCAGAGCCGGAG
118906666 CCAGAGCCGGAG
1 CCAGAGCCGGAG
118906678 C
1 C
118906679 TACATTCCGG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.39, T:0.03
Consensus pattern (12 bp):
CCAGAGCCGGAG
Found at i:118907016 original size:27 final size:26
Alignment explanation
Indices: 118906977--118907035 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
118906967 ATTTTATGTA
*
118906977 AATTATTTTTTT-GCATTATATTTATC
1 AATTTTTTTTTTGGCATTATA-TTATC
*
118907003 AATTTTTTTATTTGGCATTTTATTATC
1 AATTTTTTT-TTTGGCATTATATTATC
118907030 AGATTT
1 A-ATTT
118907036 GAGTGTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.29
27 9 0.32
28 11 0.39
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (26 bp):
AATTTTTTTTTTGGCATTATATTATC
Found at i:118908513 original size:13 final size:14
Alignment explanation
Indices: 118908477--118908514 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
118908467 TTACAATTTT
118908477 CAAAATTTTTGATG
1 CAAAATTTTTGATG
*
118908491 TAAAATTTTTGATG
1 CAAAATTTTTGATG
118908505 CAAAATTTTT
1 CAAAATTTTT
118908515 CATTCAGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (14 bp):
CAAAATTTTTGATG
Found at i:118908676 original size:21 final size:18
Alignment explanation
Indices: 118908626--118908677 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 18
118908616 AAATACCTTG
118908626 TTTTTCTTCTTCTTTTCC
1 TTTTTCTTCTTCTTTTCC
118908644 TTTCTTCCCTTCTTCTTTCTCTC
1 TTT-TT--CTTCTTCTTT-TC-C
118908667 TTTTTACTTCT
1 TTTTT-CTTCT
118908678 ACTAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.11
19 2 0.07
21 15 0.54
22 4 0.14
23 4 0.14
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTCTTCTTCTTTTCC
Found at i:118908844 original size:27 final size:27
Alignment explanation
Indices: 118908787--118908844 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
118908777 CCTACCTGAC
* *
118908787 AGGCGCGACATGTTGAGCTTGTCAGGT
1 AGGCGCGACATGTGGAGCTTCTCAGGT
*
118908814 AGGCGCGACATGTGGTGCCTTCTCAGG-
1 AGGCGCGACATGTGGAG-CTTCTCAGGT
118908841 AGGC
1 AGGC
118908845 TCAACCCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.17, C:0.22, G:0.38, T:0.22
Consensus pattern (27 bp):
AGGCGCGACATGTGGAGCTTCTCAGGT
Found at i:118909556 original size:3 final size:3
Alignment explanation
Indices: 118909550--118909581 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
118909540 TTTTTAAAAT
118909550 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
118909582 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:118910091 original size:19 final size:21
Alignment explanation
Indices: 118910069--118910113 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
118910059 AATATATAAA
118910069 TATAAAATAATATT-AT-ATT
1 TATAAAATAATATTAATAATT
*
118910088 TAT--AATTATATTAATAATT
1 TATAAAATAATATTAATAATT
118910107 TATAAAA
1 TATAAAA
118910114 ATTTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 9 0.43
21 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAAAATAATATTAATAATT
Found at i:118910097 original size:25 final size:25
Alignment explanation
Indices: 118910063--118910110 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
118910053 GTATATAATA
118910063 TATAAATATA-AAATAATATTATATT
1 TATAAATATATAAATAAT-TTATATT
* *
118910088 TATAATTATATTAATAATTTATA
1 TATAAATATATAAATAATTTATA
118910111 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAAATATATAAATAATTTATATT
Found at i:118910425 original size:15 final size:16
Alignment explanation
Indices: 118910405--118910437 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
118910395 ATATATTTTT
118910405 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
118910420 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
118910437 T
1 T
118910438 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:118910522 original size:22 final size:22
Alignment explanation
Indices: 118910483--118910541 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
118910473 GTTTTAAGAA
*
118910483 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
118910504 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
118910526 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
118910542 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:118910558 original size:26 final size:24
Alignment explanation
Indices: 118910512--118910571 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
118910502 ATTTGTTTTA
*
118910512 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
118910536 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
118910562 TTTTTTATTT
1 ATATTTATTT
118910572 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:118918500 original size:21 final size:20
Alignment explanation
Indices: 118918476--118918514 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
118918466 AACCCATTAA
118918476 ACCCCAAAACCCAACTAACCC
1 ACCCCAAAACCCAA-TAACCC
118918497 ACCCCAAAACCCAATAAC
1 ACCCCAAAACCCAATAAC
118918515 TAAACCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.49, G:0.00, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCCAATAACCC
Found at i:118918539 original size:42 final size:42
Alignment explanation
Indices: 118918407--118918539 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 42
118918397 TAATTTTGGG
*
118918407 CCACCTCAAAACCCAATAACTAAACCTACTCAAAACCCATAC
1 CCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCATAC
* * ** *
118918449 CCATCTCATCCTAAA-CTAACCCATTAAACC--C-CAAAACCCAACTAAC
1 CCA-C-C--CCAAAACCCAA-TAACTAAACCTACTCAAAACCC-A-T-AC
118918495 CCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCATAC
1 CCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCATAC
118918537 CCA
1 CCA
118918540 TCTCATCCTA
Statistics
Matches: 68, Mismatches: 11, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
42 20 0.29
43 13 0.19
44 6 0.09
45 13 0.19
46 16 0.24
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.14
Consensus pattern (42 bp):
CCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCATAC
Found at i:118918590 original size:88 final size:87
Alignment explanation
Indices: 118918407--118918573 Score: 264
Period size: 88 Copynumber: 1.9 Consensus size: 87
118918397 TAATTTTGGG
*
118918407 CCACCTCAAAACCCAATAACTAAACCTACTCAAAACCCATACCCATCTCATCCTAAACTAACCCA
1 CCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCATACCCATCTCATCCTAAACTAACCCA
** *
118918472 TTAAACCCCAAAACCCAACTAAC
66 -TAAACAACAAAACCCAACCAAC
*
118918495 CCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCATACCCATCTCATCCTAAACTAAGCC-
1 CCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCATACCCATCTCATCCTAAACTAACCCA
*
118918559 TAAACAACTAAACCC
66 TAAACAACAAAACCC
118918574 GAAGCCCAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
86 12 0.16
88 62 0.84
ACGTcount: A:0.43, C:0.41, G:0.01, T:0.16
Consensus pattern (87 bp):
CCACCCCAAAACCCAATAACTAAACCTACTCAAAACCCATACCCATCTCATCCTAAACTAACCCA
TAAACAACAAAACCCAACCAAC
Found at i:118920056 original size:24 final size:24
Alignment explanation
Indices: 118920001--118920064 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
118919991 ATACTATGTA
118920001 TATATTATATTTTATTATATATTAG
1 TATA-TATATTTTATTATATATTAG
*
118920026 TACATATATTTTATTATACGTA-T-G
1 TATATATATTTTATTATA--TATTAG
118920050 TATATATACTTTTAT
1 TATATATA-TTTTAT
118920065 ATTAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 22 0.65
25 10 0.29
26 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (24 bp):
TATATATATTTTATTATATATTAG
Found at i:118922731 original size:14 final size:14
Alignment explanation
Indices: 118922712--118922746 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
118922702 GACATTTTCT
*
118922712 TTCTAATGATACTA
1 TTCTAACGATACTA
118922726 TTCTAACGATACTA
1 TTCTAACGATACTA
118922740 TTCTAAC
1 TTCTAAC
118922747 ATGTAGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:118922888 original size:24 final size:24
Alignment explanation
Indices: 118922861--118922915 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
118922851 AGCTATTCCA
118922861 ATAT-TCGTGACATATAATTATTTT
1 ATATATCG-GACATATAATTATTTT
*
118922885 ATATATCGGACATGTAATTATTTT
1 ATATATCGGACATATAATTATTTT
118922909 ATATATC
1 ATATATC
118922916 TTACTCGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (24 bp):
ATATATCGGACATATAATTATTTT
Found at i:118924048 original size:14 final size:14
Alignment explanation
Indices: 118924029--118924055 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
118924019 TGGAACAAAC
118924029 TTTGTAATATAAAT
1 TTTGTAATATAAAT
118924043 TTTGTAATATAAA
1 TTTGTAATATAAA
118924056 CAAAATACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:118926624 original size:21 final size:23
Alignment explanation
Indices: 118926582--118926624 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
118926572 AGTATTTCGG
*
118926582 AATATGTACATGGGACAATATAA
1 AATATATACATGGGACAATATAA
118926605 AATATATACAT-GGA-AATATA
1 AATATATACATGGGACAATATA
118926625 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (23 bp):
AATATATACATGGGACAATATAA
Found at i:118926669 original size:11 final size:11
Alignment explanation
Indices: 118926653--118926682 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
118926643 TAACATTAAG
118926653 AATATATATAT
1 AATATATATAT
*
118926664 AATATAAATAT
1 AATATATATAT
118926675 AATATATA
1 AATATATA
118926683 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:118927367 original size:28 final size:29
Alignment explanation
Indices: 118927336--118927401 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
118927326 GTTTTTTTAT
118927336 TTTTTTTGTTAGG-TTTTCTTTTT-TCTTC
1 TTTTTTT-TTAGGTTTTTCTTTTTCTCTTC
*
118927364 TTTTTTTTTAGGTTTTTCTTTTTCTTTTC
1 TTTTTTTTTAGGTTTTTCTTTTTCTCTTC
118927393 TTTTTTTTT
1 TTTTTTTTT
118927402 TTTTGGGTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 5 0.14
28 17 0.49
29 13 0.37
ACGTcount: A:0.03, C:0.09, G:0.08, T:0.80
Consensus pattern (29 bp):
TTTTTTTTTAGGTTTTTCTTTTTCTCTTC
Found at i:118927399 original size:27 final size:26
Alignment explanation
Indices: 118927328--118927399 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
118927318 GTGGCTAGGT
* *
118927328 TTTTTTATTTTTTTTGTTAGGTTTTC
1 TTTTTTCTTTTTTTTTTTAGGTTTTC
118927354 TTTTTTCTTCTTTTTTTTTAGGTTTT-
1 TTTTTTCTT-TTTTTTTTTAGGTTTTC
118927380 TCTTTTTCTTTTCTTTTTTT
1 T-TTTTTCTTTT-TTTTTTT
118927400 TTTTTTGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 11 0.27
27 30 0.73
ACGTcount: A:0.04, C:0.08, G:0.07, T:0.81
Consensus pattern (26 bp):
TTTTTTCTTTTTTTTTTTAGGTTTTC
Found at i:118927401 original size:29 final size:27
Alignment explanation
Indices: 118927328--118927401 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 27
118927318 GTGGCTAGGT
* *
118927328 TTTTTTATT-TTTTTTGTTAGGTTTTC
1 TTTTTTCTTCTTTTTTTTTAGGTTTTC
118927354 TTTTTTCTTCTTTTTTTTTAGGTTTTTC
1 TTTTTTCTTCTTTTTTTTTAGG-TTTTC
*
118927382 TTTTTCTTTTCTTTTTTTTT
1 TTTTT-TCTTCTTTTTTTTT
118927402 TTTTGGGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.19
27 11 0.26
28 10 0.24
29 13 0.31
ACGTcount: A:0.04, C:0.08, G:0.07, T:0.81
Consensus pattern (27 bp):
TTTTTTCTTCTTTTTTTTTAGGTTTTC
Found at i:118928318 original size:72 final size:73
Alignment explanation
Indices: 118928227--118928878 Score: 475
Period size: 77 Copynumber: 8.3 Consensus size: 73
118928217 TTTTTTTTTG
**
118928227 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
118928292 AGTTGA-A
66 AGTTGATT
* * * * ** *
118928299 TTTTGAAAACAAAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCACTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
118928364 AGCTGATTT
66 AGTTGA-TT
* * ** * *
118928373 TTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCAC
1 TTTTGAAA-ACAGAAATT---G---A-AAAT----ACCTCAAC-GTGTCTTGAGGCTCAACTCAC
*
118928438 CTCTCGCAATATGAGCTGATTTT
53 CTCTCGCAATATGAGTTGA--TT
118928461 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
118928526 GAGTTGA-T
65 GAGTTGATT
* * ** * *
118928534 TTTTGAAAAATATAAATTGAAGTAAAAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACC
1 TTTTG-AAAACAGAAATT---G------AAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACC
118928599 TCTCGCAATATGAGTTGATTTTT
54 TCTCGCAATATGAGTTGA---TT
118928622 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
118928687 GAGTTGA-T
65 GAGTTGATT
* * ** * * *
118928695 TTTTGAAAAATATAAATTGAAGTAAAAAATACCTCAGTGTGTGATCTAAAGCTCAACTCACCTCT
1 TTTTG-AAAACAGAAATT---G---AAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCT
118928760 CGCAATATGAGTTGATTTT
57 CGCAATATGAGTTGA--TT
* * * * **
118928779 TTTTGAAAGGCAGAAATTGAAAATAGCTCAGCGCGTGAGC-CCAGGCTCAACTCACCTCTCGCAA
1 TTTTGAAA-ACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAA
*
118928843 TATGAGTCGATTT
62 TATGAGTTGA-TT
*
118928856 TTTTGAAAGGCAGAAATTGAAAA
1 TTTTGAAA-ACAGAAATTGAAAA
118928879 ACGGAAATTG
Statistics
Matches: 470, Mismatches: 61, Indels: 93
0.75 0.10 0.15
Matches are distributed among these distances:
72 61 0.13
73 26 0.06
74 14 0.03
75 8 0.02
76 39 0.08
77 63 0.13
78 42 0.09
79 30 0.06
80 5 0.01
81 38 0.08
82 19 0.04
83 4 0.01
84 45 0.10
85 2 0.00
86 4 0.01
87 37 0.08
88 33 0.07
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (73 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATT
Found at i:118928512 original size:235 final size:231
Alignment explanation
Indices: 118928185--118929023 Score: 749
Period size: 235 Copynumber: 3.5 Consensus size: 231
118928175 GTGATCTGAA
*
118928185 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTTTGTTTTGAAA-ACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-------TTTT-TTTTGAAAGACAGAAATTGAAAA
** *
118928249 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAA
58 TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAA
* * *
118928314 TTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGA
123 TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTTTTG-
*
118928379 AACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAG
186 AA-ACAGAAATTGAA-AACAGAAATTGAAAACACCTCAGCGTCTTGAG
* *
118928427 GTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAA
118928492 CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATATAAATTGAAG
66 CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA-A-AAATT---G
* * * *
118928556 TAAAAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
126 ------AAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAG-TGATTTT
* *
118928621 TTT----------TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAG
182 TTTGAAACAGAAATTGAAA-ACAGAAATTGAAAACACCTC-A-GCGTCTTGAG
* * *
118928664 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAATATAAATTGAAGTAAAAAATA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATT---G---AAAATA
** * * * *
118928726 CCTCAGTGTGTGATCTAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCA
60 CCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAA-ACA
* * *
118928791 GAAATTGAAAATAGCTCAGCGCGTGAGCCC-AGGCTCAACTCACCTCTCGCAATATGAGTCGATT
119 AAAATTGAAAATACCTCA--GCGTG-TCCCGAGGCTCAACTCACCTCTCGCAATATGAGT-GATT
* * *
118928855 TTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG-AAACACCTCGGCGTGTGACCTGAG
180 TTTTTGAAA--CAGAAATTG-AAAACAGAAATTGAAAACACCTCAGC--GT--CTTGAG
* * * * * *
118928913 GCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTCGAAAGACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAA
*
118928978 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
66 CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
118929024 TTTAAAAAGT
Statistics
Matches: 490, Mismatches: 53, Indels: 109
0.75 0.08 0.17
Matches are distributed among these distances:
234 26 0.05
235 99 0.20
236 52 0.11
237 39 0.08
238 4 0.01
239 1 0.00
240 15 0.03
241 6 0.01
242 60 0.12
244 32 0.07
245 29 0.06
246 15 0.03
247 49 0.10
248 12 0.02
249 36 0.07
252 15 0.03
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (231 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAA
CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAAT
ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTTTGAAACAGAAAT
TGAAAACAGAAATTGAAAACACCTCAGCGTCTTGAG
Found at i:118928642 original size:161 final size:160
Alignment explanation
Indices: 118928268--118929023 Score: 856
Period size: 161 Copynumber: 4.7 Consensus size: 160
118928258 GTGTCTTGAG
** * * *
118928268 GCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTGAAA-ACAAAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
* * * * *
118928329 CATGTCCCGAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAA
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAA
* * * *
118928394 GAACAGAAATGGAAAACACCTCA--GCGT-CT-TGAG
129 GTA-A-AAA---AAAACACCTCAGTGTGTGATCTGAA
* * *
118928427 GTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
* * *
118928492 CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAGT
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAGT
*
118928557 AAAAAAAAATACCTCAGTGTGTGATCTGAA
131 AAAAAAAAACACCTCAGTGTGTGATCTGAA
118928587 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAGACAGAAATTGAAAATACCTCA
* * * *
118928652 ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAG
65 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAG
* *
118928717 T---AAAAAATACCTCAGTGTGTGATCTAAA
130 TAAAAAAAAACACCTCAGTGTGTGATCTGAA
* *
118928745 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAAATAGCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCA-
* * * **
118928810 CGCGTGAGCC-CAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATT
65 -GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT
* * * *
118928874 GAA--AAACGGAAATTGAAACACCTCGGCGTGTGACCTGAG
126 GAAGTAAA---AAA---AAACACCTCAGTGTGTGATCTGAA
* * * * *
118928913 GCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTCGAAAGACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
118928978 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
66 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
118929024 TTTAAAAAGT
Statistics
Matches: 522, Mismatches: 51, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
156 10 0.02
157 32 0.06
158 59 0.11
159 65 0.12
160 33 0.06
161 139 0.27
162 8 0.02
163 55 0.11
164 5 0.01
165 5 0.01
166 36 0.07
168 75 0.14
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (160 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAGT
AAAAAAAAACACCTCAGTGTGTGATCTGAA
Found at i:118928831 original size:396 final size:391
Alignment explanation
Indices: 118928157--118928878 Score: 931
Period size: 396 Copynumber: 1.8 Consensus size: 391
118928147 ATATAAATTG
118928157 AAAAAAATACCACAGTGTGTGATCTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
1 AAAAAAATACCACAGTGTGTGATCTGAAGCTCAACTCACCTCTCACAATATGAGTTGA-----TT
**
118928222 TTTTGTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
61 TTTTGTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
* * *
118928287 ATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAGCATGTCCCGAGGCTCAACTCACC
126 ATATGAGTTGAATTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCCCAAAGCTCAACTCACC
118928352 ACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCA
191 ACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAG-AAT-G-AAACACCTCA
* *
118928417 GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG-CTGATTTTTTTTGAAAGACAGAAATTGA
253 GCG-C-TCAGGCTCAACTCACCTCTCGCAATATGAGTC-GA-TTTTTTTGAAAGACAGAAATTGA
118928481 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA
314 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA
118928546 TAAATTGAAGTAA
379 TAAATTGAAGTAA
* *
118928559 AAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-
1 AAAAAAATACCACAGTGTGTGATCTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTG
118928622 TTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
* ** * *
118928687 GAGTTGATTTTTGAAAA-ATATAAATTGAAGTAAAAAATACCTCAGTGTGTGATCTAAAGCTCAA
130 GAGTTGAATTTTGAAAACA-A-AAATT---G---AAAATACCTCAGCATGT--CCCAAAGCTCAA
* * ** * * * * *
118928751 CTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAA-AATAG-CT-CAGCGC
185 CTCACCACTCGCAATATGAGCTGA-TTTTTTTGAAACACAGAAATTGAAGAACAGAATGAAACAC
* * *
118928813 GTGAGC-C-CAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGA
249 CTCAGCGCTCAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGACAGAAATTGA
118928876 AAA
314 AAA
118928879 ACGGAAATTG
Statistics
Matches: 281, Mismatches: 26, Indels: 33
0.83 0.08 0.10
Matches are distributed among these distances:
395 34 0.12
396 105 0.37
397 6 0.02
398 1 0.00
400 8 0.03
402 56 0.20
403 15 0.05
405 34 0.12
406 22 0.08
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (391 bp):
AAAAAAATACCACAGTGTGTGATCTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTG
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGAATTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCCCAAAGCTCAACTCACCACTCG
CAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAATGAAACACCTCAGCGCTCAG
GCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAAC
GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAGTA
A
Found at i:118929021 original size:76 final size:76
Alignment explanation
Indices: 118928882--118929025 Score: 218
Period size: 76 Copynumber: 1.9 Consensus size: 76
118928872 TTGAAAAACG
* *
118928882 GAAATTGAAACACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTT
1 GAAATTGAAACACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
118928947 TTTCGAAAGACA
65 TTTCGAAAGACA
* * *
118928959 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAA-CACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
118929023 TTT
65 TTT
118929026 TAAAAAGTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
76 40 0.66
77 10 0.16
78 11 0.18
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (76 bp):
GAAATTGAAACACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTT
TTCGAAAGACA
Found at i:118929106 original size:13 final size:13
Alignment explanation
Indices: 118929079--118929112 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
118929069 GAGTTGATTC
*
118929079 TTGAACAACATAAA
1 TTGAA-AACAGAAA
118929093 TTGAAAACAGAAA
1 TTGAAAACAGAAA
118929106 TTGAAAA
1 TTGAAAA
118929113 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:118929388 original size:116 final size:117
Alignment explanation
Indices: 118929109--118929422 Score: 452
Period size: 116 Copynumber: 2.6 Consensus size: 117
118929099 ACAGAAATTG
* * * * * *
118929109 AAAATACCTCAGCGTGACCTGGGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGT
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAA-C
* * *
118929174 AGAAATTAAAAGGCTTAACTCACCTCTTGCAATATGAGTCAATTTAAAACATAAATTA
65 AAAAATAAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAAC----A-TA
*
118929232 AAAATACCTCAGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACA
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACA
118929297 AAAATAAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAAC-TA
66 AAAATAAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATA
118929348 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACA
1 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACA
*
118929412 ACAATTAAAAA
66 A-AAATAAAAA
118929423 TACCTCAACG
Statistics
Matches: 178, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
115 7 0.04
116 67 0.38
122 47 0.26
123 57 0.32
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (117 bp):
AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACA
AAAATAAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATA
Found at i:118929724 original size:72 final size:72
Alignment explanation
Indices: 118929494--118929725 Score: 279
Period size: 72 Copynumber: 3.2 Consensus size: 72
118929484 AAGGCAGAAA
** * * * *
118929494 TTGAAAAACGGAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCGCTCGCAATAC
1 TTGAAAAACAAAAATTGAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATAT
118929559 GAGTTGATTTT
64 GAGTTGA--TT
* * * *
118929570 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
**
118929634 GTTGAAA
66 GTTGATT
* *
118929641 TT-AAAACACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCGACTCACCTCTAGCAATATG
1 TTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
118929705 AGTTGATT
65 AGTTGATT
118929713 TTGAAAAACAAAA
1 TTGAAAAACAAAA
118929726 TAAAAAGGCT
Statistics
Matches: 135, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
71 4 0.03
72 66 0.49
73 40 0.30
75 22 0.16
76 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (72 bp):
TTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:118929917 original size:313 final size:315
Alignment explanation
Indices: 118929549--118930148 Score: 1116
Period size: 313 Copynumber: 1.9 Consensus size: 315
118929539 CAACTCGCCG
*
118929549 CTCGCAATACGAGTTGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
1 CTCGCAATACGAGTTGATTTCTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
*
118929614 ACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGACCTG
66 ACTCACCTCTCGCAACATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGACCTG
*
118929679 AGGCTCGACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAC-AAAATAAAAAGGCTTAACTCA
131 AGGCTCGACTCACCTCTAACAATATGAGTTGATTTTGAAAAACAAAAATAAAAAGGCTTAACTCA
118929743 CCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACT
196 CCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACT
118929807 TCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCT
261 TCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCT
* *
118929862 CTCGCAATATGAGTTGA-TTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTC
1 CTCGCAATACGAGTTGATTTCTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
118929926 AACTCACCTCTCGCAACATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGACCT
65 AACTCACCTCTCGCAACATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGACCT
118929991 GAGGCTCGACTCACCTCTAACAATATGAGTTGATTTTGAAAAACAAAAATAAAAAGGCTTAACTC
130 GAGGCTCGACTCACCTCTAACAATATGAGTTGATTTTGAAAAACAAAAATAAAAAGGCTTAACTC
*
118930056 ACCTCTCGCAATATGAGTTAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAC
195 ACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAC
118930121 TTCTCGCAATATGAGTTGATTTTGAAAA
260 TTCTCGCAATATGAGTTGATTTTGAAAA
118930149 CAACAATTAA
Statistics
Matches: 278, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
312 7 0.03
313 160 0.58
314 66 0.24
315 45 0.16
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (315 bp):
CTCGCAATACGAGTTGATTTCTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
ACTCACCTCTCGCAACATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGACCTG
AGGCTCGACTCACCTCTAACAATATGAGTTGATTTTGAAAAACAAAAATAAAAAGGCTTAACTCA
CCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACT
TCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCT
Found at i:118929997 original size:72 final size:72
Alignment explanation
Indices: 118929851--118930040 Score: 238
Period size: 72 Copynumber: 2.6 Consensus size: 72
118929841 ATTAAAAGGT
* * * * * * *
118929851 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TATTGAAAAACAAAAATTGAAAATACCTCAGCGTGA
118929916 CCTGAGGC
65 CCTGAGGC
* *
118929924 TCAACTCACCTCTCGCAACATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGA
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGA
118929988 CCTGAGGC
65 CCTGAGGC
* ** *
118929996 TCGACTCACCTCTAACAATATGAGTTGATTTTGAAAAACAAAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAAT
118930041 AAAAAGGCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
71 3 0.03
72 67 0.67
73 30 0.30
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAATACCTCAGCGTGAC
CTGAGGC
Found at i:118934495 original size:20 final size:21
Alignment explanation
Indices: 118934466--118934517 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
118934456 AACTAATGGC
*
118934466 ATATATACATAATATATATAT
1 ATATACACATAATATATATAT
118934487 A-ATACACATAATATATATAT
1 ATATACACATAATATATATAT
*
118934507 ATATATACATA
1 ATATACACATA
118934518 TTAGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATACACATAATATATATAT
Found at i:118935071 original size:11 final size:11
Alignment explanation
Indices: 118935037--118935081 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
118935027 AAAAAAAGAA
118935037 AGAGAG-AGGG
1 AGAGAGAAGGG
118935047 AAGAGAGAAGGG
1 -AGAGAGAAGGG
118935059 AGAGAGAAGGG
1 AGAGAGAAGGG
* *
118935070 AGGGGGAAGGG
1 AGAGAGAAGGG
118935081 A
1 A
118935082 AATCCGGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 27 0.87
12 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:118935378 original size:13 final size:15
Alignment explanation
Indices: 118935345--118935378 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
118935335 TTTTTGGTTT
118935345 TTTTTTGCTGGAAAA
1 TTTTTTGCTGGAAAA
118935360 TTTTTT-CTGG-AAA
1 TTTTTTGCTGGAAAA
118935373 TTTTTT
1 TTTTTT
118935379 TTTGGTGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 4 0.21
15 6 0.32
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.59
Consensus pattern (15 bp):
TTTTTTGCTGGAAAA
Found at i:118935378 original size:14 final size:15
Alignment explanation
Indices: 118935344--118935379 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
118935334 TTTTTTGGTT
118935344 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
*
118935359 ATTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
118935373 TTTTTTT
1 TTTTTTT
118935380 TTGGTGCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.19, C:0.06, G:0.14, T:0.61
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:118935379 original size:33 final size:30
Alignment explanation
Indices: 118935342--118935417 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 30
118935332 TTTTTTTTGG
118935342 TTTTTTTTTGCTGGAAAATTTTTT-CTGGAAATT
1 TTTTTTTTTGCTGG--AATTTTTTGCTGG--ATT
*
118935375 TTTTTTTGGTGCTGGAATTTTTTGCTGGATT
1 TTTTTTT-TTGCTGGAATTTTTTGCTGGATT
118935406 TTTTTTTTTGCT
1 TTTTTTTTTGCT
118935418 TCCCCTCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
30 4 0.10
31 10 0.26
32 8 0.21
33 11 0.28
34 6 0.15
ACGTcount: A:0.13, C:0.07, G:0.18, T:0.62
Consensus pattern (30 bp):
TTTTTTTTTGCTGGAATTTTTTGCTGGATT
Found at i:118935380 original size:31 final size:31
Alignment explanation
Indices: 118935342--118935417 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 31
118935332 TTTTTTTTGG
118935342 TTTTTTTTTGCTGGAAAATTTTTT-CTGGAAAT
1 TTTTTTTTTGCTGG--AATTTTTTGCTGGAAAT
*
118935374 TTTTTTTTGGTGCTGGAATTTTTTGCTGG-ATT
1 TTTTTTTT--TGCTGGAATTTTTTGCTGGAAAT
118935406 TTTTTTTTTGCT
1 TTTTTTTTTGCT
118935418 TCCCCTCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 4 0.10
32 26 0.65
33 4 0.10
34 6 0.15
ACGTcount: A:0.13, C:0.07, G:0.18, T:0.62
Consensus pattern (31 bp):
TTTTTTTTTGCTGGAATTTTTTGCTGGAAAT
Found at i:118935861 original size:35 final size:35
Alignment explanation
Indices: 118935822--118935890 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
118935812 GGGTGTGTGA
118935822 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
*
118935857 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
118935891 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.13, G:0.51, T:0.16
Consensus pattern (35 bp):
TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
Found at i:118941112 original size:12 final size:12
Alignment explanation
Indices: 118941092--118941127 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
118941082 TGGGATATGC
*
118941092 AATGTATGAATG
1 AATGCATGAATG
118941104 AATGCATGAATG
1 AATGCATGAATG
118941116 AATGCATGAATG
1 AATGCATGAATG
118941128 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:118945305 original size:23 final size:21
Alignment explanation
Indices: 118945273--118945315 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
118945263 AGTATTTCGG
*
118945273 AATATGTACATGAGACAATATAA
1 AATATATACATG-GA-AATATAA
118945296 AATATATACATGGAAATATA
1 AATATATACATGGAAATATA
118945316 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (21 bp):
AATATATACATGGAAATATAA
Found at i:118945360 original size:11 final size:11
Alignment explanation
Indices: 118945344--118945373 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
118945334 TAACATTAAG
118945344 AATATATATAT
1 AATATATATAT
*
118945355 AATATAAATAT
1 AATATATATAT
118945366 AATATATA
1 AATATATA
118945374 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:118946068 original size:30 final size:30
Alignment explanation
Indices: 118946026--118946106 Score: 117
Period size: 30 Copynumber: 2.6 Consensus size: 30
118946016 GGTGGCTAGG
*
118946026 TTTTTTTATTTTTTTTGTTAGGTTTTTCTT
1 TTTTTTTCTTTTTTTTGTTAGGTTTTTCTT
* *
118946056 TTTTCTTCTTTTTTTTTTTAGGTTTTTCTTT
1 TTTTTTTCTTTTTTTTGTTAGGTTTTTC-TT
118946087 TTCTTTTTCTTTTTTTTGTT
1 TT-TTTTTCTTTTTTTTGTT
118946107 TTTTTTGGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 25 0.57
31 4 0.09
32 15 0.34
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.81
Consensus pattern (30 bp):
TTTTTTTCTTTTTTTTGTTAGGTTTTTCTT
Found at i:118946112 original size:30 final size:30
Alignment explanation
Indices: 118946028--118946112 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 30
118946018 TGGCTAGGTT
118946028 TTTTTATTTTTTTTGTTAGGTTTTTCTTTTTTC
1 TTTTT-TTTTTTTTGTT--GTTTTTCTTTTTTC
118946061 TTCTTTTTTTTTTTAG--GTTTTTC-TTTTTC
1 TT-TTTTTTTTTTT-GTTGTTTTTCTTTTTTC
*
118946090 TTTTTCTTTTTTTTGTTTTTTTT
1 TTTTT-TTTTTTTTGTTGTTTTT
118946113 GGGTTAGGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
28 4 0.09
29 16 0.35
30 12 0.26
33 10 0.22
34 4 0.09
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.82
Consensus pattern (30 bp):
TTTTTTTTTTTTTGTTGTTTTTCTTTTTTC
Found at i:118953280 original size:113 final size:113
Alignment explanation
Indices: 118953082--118953309 Score: 456
Period size: 113 Copynumber: 2.0 Consensus size: 113
118953072 TTTCCTTTCT
118953082 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
1 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
118953147 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
66 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
118953195 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
1 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
118953260 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
66 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
118953308 CC
1 CC
118953310 TCTAAGGGTT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 115 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (113 bp):
CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
Found at i:118960867 original size:24 final size:24
Alignment explanation
Indices: 118960840--118960921 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
118960830 ATAAAGCGAC
*
118960840 TTAAAATAAATAACATATAACAAT
1 TTAAAATAAATAACATATAAAAAT
118960864 TT---A-AAATAACATATAAAAGAT
1 TTAAAATAAATAACATATAAAA-AT
* *
118960885 CTAAAATAAATAATATA-AAAAAT
1 TTAAAATAAATAACATATAAAAAT
*
118960908 ATTAAAGTAAATAA
1 -TTAAAATAAATAA
118960922 TATACATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 14 0.30
21 4 0.09
23 2 0.04
24 18 0.38
25 9 0.19
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (24 bp):
TTAAAATAAATAACATATAAAAAT
Done.