Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 305 of 343
Found at i:99337387 original size:33 final size:31
Alignment explanation
Indices: 99337299--99337388 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 31
99337289 CTGATCGGAA
*
99337299 GGGTAGAAGCTGATGGGGAGGGTGATGTAGATG
1 GGGTAGAAGC-GAT-GGGAGGGTGATGTAGAAG
* ** *
99337332 GGGTACAAGTTATTGGGAAGGGTGATGTTGAAG
1 GGGTAGAAGCGA-TGGG-AGGGTGATGTAGAAG
99337365 GGGTAGAAGGCGATGAGGAGGGTG
1 GGGTAGAA-GCGATG-GGAGGGTG
99337389 TGACTGCTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
32 4 0.09
33 37 0.82
34 4 0.09
ACGTcount: A:0.26, C:0.03, G:0.50, T:0.21
Consensus pattern (31 bp):
GGGTAGAAGCGATGGGAGGGTGATGTAGAAG
Found at i:99340980 original size:30 final size:30
Alignment explanation
Indices: 99340946--99341006 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
99340936 TCCTTAACTC
99340946 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
99340976 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
99341006 A
1 A
99341007 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:99347479 original size:3 final size:3
Alignment explanation
Indices: 99347471--99347800 Score: 186
Period size: 3 Copynumber: 107.7 Consensus size: 3
99347461 TACTGACAAG
* * *
99347471 TAA TAA TAA TAA TAA TAA -AA GTAA TAA TAT TGA TAA TAGA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA-A TAA TAA
* * * * * * * *
99347517 TAA -AA GGAA CAA AAA TAA TAG CAA TAA TAA GAA TATT TAA TAA TAG
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *
99347563 TAA TAA TAA CAA TAA T-A TAAA TAA TAA TATA TGTA TGA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A T-AA TAA TAA TAA TAA
* *
99347610 TAA -AA TAA GTTAA TAA TAA TTA TAA TAA TAA CCTAA TAA TAA AAA T-A
1 TAA TAA TAA --TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA
* * * * * *
99347657 TAA CAG TAA TAA TAA TAG TGAA T-A TAA CAA TAG TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
99347702 TAA AAA TAA TAG CAA TAA AAA TAA AAA TAA TAA CAA TGA CAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
99347748 GAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
99347796 GAA TA
1 TAA TA
99347801 TTAAAAGTAA
Statistics
Matches: 242, Mismatches: 66, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
2 12 0.05
3 206 0.85
4 18 0.07
5 6 0.02
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:99347656 original size:20 final size:20
Alignment explanation
Indices: 99347623--99347671 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
99347613 AATAAGTTAA
* *
99347623 TAATAATTATAATAATAAC-C
1 TAATAATAAAAAT-ATAACAC
*
99347643 TAATAATAAAAATATAACAG
1 TAATAATAAAAATATAACAC
99347663 TAATAATAA
1 TAATAATAA
99347672 TAGTGAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
TAATAATAAAAATATAACAC
Found at i:99348944 original size:3 final size:3
Alignment explanation
Indices: 99348938--99349200 Score: 73
Period size: 3 Copynumber: 87.0 Consensus size: 3
99348928 TTGTTATCAC
* * * *
99348938 TAT TAT T-T T-T TAT TCT TTT TAT TAT TACT TAT TAT CAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * *
99348981 TAT TAT TAT TGT TAT CAT TAT TGT TAT TAT TAT TAT GAT TCT T-T T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
99349027 TGT TAA TA- TAGC TAT TAT AAT TA- TAC T-T TAT TTT TAT GT-T TATT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T
* * * * *
99349071 TATT TAT TCAT T-T TAT TAT TAGT CCAT TAA T-T TAT TAT TAC TAA CA-
1 TA-T TAT T-AT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
99349117 TAT TCT TAT TAT TTT TAT TAACG TAT TAT TAT TATT TGT TGCT CTACT
1 TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TA-T TAT T-AT -TA-T
* *
99349165 TTT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
99349201 CAATATTTAC
Statistics
Matches: 193, Mismatches: 44, Indels: 46
0.68 0.16 0.16
Matches are distributed among these distances:
2 20 0.10
3 145 0.75
4 24 0.12
5 4 0.02
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:99349002 original size:21 final size:23
Alignment explanation
Indices: 99348956--99349016 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 23
99348946 TTTATTCTTT
99348956 TTATTATTACTTATTATCAATATA
1 TTATTATTA-TTATTATCAATATA
*
99348980 TTATTATTATTGTTATC-AT-TA
1 TTATTATTATTATTATCAATATA
*
99349001 TTGTTATTATTATTAT
1 TTATTATTATTATTAT
99349017 GATTCTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.47
22 2 0.06
23 7 0.21
24 9 0.26
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (23 bp):
TTATTATTATTATTATCAATATA
Found at i:99349138 original size:23 final size:23
Alignment explanation
Indices: 99349102--99349153 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
99349092 GTCCATTAAT
* *
99349102 TTATTATTACTAACATATTCTTA
1 TTATTTTTACTAACATATTATTA
* *
99349125 TTATTTTTATTAACGTATTATTA
1 TTATTTTTACTAACATATTATTA
99349148 TTATTT
1 TTATTT
99349154 GTTGCTCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTTTTACTAACATATTATTA
Found at i:99349334 original size:19 final size:19
Alignment explanation
Indices: 99349307--99349343 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
99349297 TATTTCACTA
99349307 TTATCATTTTTTATTACTG
1 TTATCATTTTTTATTACTG
*
99349326 TTATTATTTTTTATTACT
1 TTATCATTTTTTATTACT
99349344 TACTATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.68
Consensus pattern (19 bp):
TTATCATTTTTTATTACTG
Found at i:99349447 original size:34 final size:34
Alignment explanation
Indices: 99349409--99349503 Score: 79
Period size: 34 Copynumber: 2.8 Consensus size: 34
99349399 TTTTTCAAAA
* *
99349409 TTATTGTTACTAATATTATTATTATTATTAATTT
1 TTATTATTACTAATATTATTATTATTACTAATTT
* *
99349443 TTATTATT--TGACATATTATTGTTATCACTAATTT
1 TTATTATTACT-A-ATATTATTATTATTACTAATTT
* *
99349477 TTCTTTCTTACT-ATCATTATTATTATT
1 TT-ATTATTACTAAT-ATTATTATTATT
99349504 TTTCTATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
32 1 0.02
33 1 0.02
34 30 0.64
35 14 0.30
37 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.60
Consensus pattern (34 bp):
TTATTATTACTAATATTATTATTATTACTAATTT
Found at i:99354113 original size:60 final size:59
Alignment explanation
Indices: 99353990--99354124 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 59
99353980 GTGTTAACTA
* * *
99353990 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGT-ACAGAGTATACTG
* * *
99354051 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAACCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAACCC-ATTAC-AGTACAGAG-TATACTG
*
99354111 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
99354125 TGACACAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 3 0.05
60 50 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGTACAGAGTATACTG
Found at i:99355485 original size:17 final size:19
Alignment explanation
Indices: 99355463--99355501 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
99355453 TGAGAGAAGG
*
99355463 ATAGAA-AA-GAATAAAAA
1 ATAGAAGAAGGAAAAAAAA
99355480 ATAGAAGAAGGAAAAAAAA
1 ATAGAAGAAGGAAAAAAAA
99355499 ATA
1 ATA
99355502 AATCCTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
ATAGAAGAAGGAAAAAAAA
Found at i:99357731 original size:30 final size:30
Alignment explanation
Indices: 99357697--99357782 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
99357687 AAAACCCTAG
99357697 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
99357727 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
99357757 CCACCTTGTCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
99357783 ACCATCAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.16, C:0.52, G:0.07, T:0.24
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:99358287 original size:3 final size:3
Alignment explanation
Indices: 99358276--99358358 Score: 68
Period size: 3 Copynumber: 27.3 Consensus size: 3
99358266 TTTATTTTTT
*
99358276 TTA TT- TTA TTA TTA TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
99358319 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
99358359 ATATACCCTA
Statistics
Matches: 67, Mismatches: 4, Indels: 18
0.75 0.04 0.20
Matches are distributed among these distances:
2 7 0.10
3 51 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:99358308 original size:18 final size:18
Alignment explanation
Indices: 99358280--99358362 Score: 96
Period size: 18 Copynumber: 4.4 Consensus size: 18
99358270 TTTTTTTTAT
*
99358280 TTTATTATTATTACTATTA
1 TTTA-TATTATTATTATTA
99358299 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
99358317 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
99358338 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
99358355 TTATATAT
1 TT-TATAT
99358363 ACCCTATCCA
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
17 4 0.07
18 27 0.47
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:99358331 original size:27 final size:26
Alignment explanation
Indices: 99358277--99358358 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
99358267 TTATTTTTTT
99358277 TATT-TTATTATTATTACTATTATTTA
1 TATTATTATTATTATTACTATTA-TTA
*
99358303 TATTATTATTATTATTTCTCATGTA-TA
1 TATTATTATTATTATTACT-AT-TATTA
*
99358330 TATTATTA-T-TTA-TATTATTATTA
1 TATTATTATTATTATTACTATTATTA
99358353 TATTAT
1 TATTAT
99358359 ATATACCCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 2 0.04
25 3 0.06
26 5 0.10
27 23 0.47
28 2 0.04
29 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (26 bp):
TATTATTATTATTATTACTATTATTA
Found at i:99358543 original size:3 final size:3
Alignment explanation
Indices: 99358519--99358563 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
99358509 TATTCTAATA
* *
99358519 TAT TAT TAA TAT TACT CA- 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
99358564 GTATATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.92
4 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:99358725 original size:26 final size:25
Alignment explanation
Indices: 99358696--99358754 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
99358686 TACATATATA
99358696 TTTATATATATAGTATTATTATTTAC
1 TTTATATA-ATAGTATTATTATTTAC
* * *
99358722 TTTACTTTAATATTATTATTATTTTC
1 TTTA-TATAATAGTATTATTATTTAC
*
99358748 ATTATAT
1 TTTATAT
99358755 CCAACCCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 2 0.07
26 22 0.81
27 3 0.11
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTATATAATAGTATTATTATTTAC
Found at i:99368835 original size:87 final size:87
Alignment explanation
Indices: 99368732--99369515 Score: 992
Period size: 87 Copynumber: 9.1 Consensus size: 87
99368722 GTGGAGCAGA
* * *
99368732 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAATG-CGATGGACCTTAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-GACGATGGGCCTTAAA
99368796 CCCCTAAGCAGTAGGGTAACAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * *
99368819 CTGAATTT-CTAGATCTTAACCCCCTAAGCAGTAGAGAAACAGATCGAAGACGAAGGGTCTTAAA
1 CTGAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAA
* **
99368883 CCCCTAAGCAGTAAGGTAACATA
65 CCCCTAAGCAGTAGGGTAACAGG
* * * * * * * * * *
99368906 C-CAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCAAAGACGAAGGGTCTTAAA
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAA
99368969 CCCCTAAGCAGTAGGGTAACAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * * *
99368992 CTGAATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGGCGAT-GGCCTTAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAA
*
99369055 CCCCTAAGCAGTAGGGTAGCAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * * * *
99369078 CTAAATTTATAGATATTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
99369143 CCCTAAGCAGTAGGGTAACAGG
66 CCCTAAGCAGTAGGGTAACAGG
* * * * **
99369165 TTGAATTTGCAGATCTTAACCCCCTAAGCAGTAGTGG-AGCAGATCGAAGGCGAT-GGCCTTAGC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAA
* *
99369228 CCCCTAAGTAGTAGGGTAGCAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * *
99369251 CTAAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
99369316 CCCTAAGCAGTAGGGTAACAGG
66 CCCTAAGCAGTAGGGTAACAGG
* * ** ***
99369338 TTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGACAAGCCTT-AAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
*
99369402 CCCTAAACAGTAGGGTAACAGG
66 CCCTAAGCAGTAGGGTAACAGG
* *
99369424 CTAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
1 CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
* *
99369489 CCCTAAGCAGTAGGGTACCAAG
66 CCCTAAGCAGTAGGGTAACAGG
99369511 CTGAA
1 CTGAA
99369516 AATTACAACT
Statistics
Matches: 599, Mismatches: 87, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
85 4 0.01
86 293 0.49
87 300 0.50
88 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (87 bp):
CTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAAC
CCCTAAGCAGTAGGGTAACAGG
Found at i:99368955 original size:86 final size:86
Alignment explanation
Indices: 99368738--99369505 Score: 854
Period size: 86 Copynumber: 8.9 Consensus size: 86
99368728 CAGACTGAAT
* * * *
99368738 TTACAGATCTTAACCCCCTAAGCAGTAG-GGAAATAGATCGAATG-CGATGGACCTTAACCCCCT
1 TTACAGATCTTAACCCCCTAAGCAGTAGTGG-AACAGATCGAA-GACGAAGGGCCTTAAACCCCT
*
99368801 AAGCAGTAGGGTAACAGGCTGAA
64 AAGCAGTAGGGTAACAGGCTAAA
* * * *
99368824 TTTCTAGATCTTAACCCCCTAAGCAGTAGAGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTA
1 TTAC-AGATCTTAACCCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGCCTTAAACCCCTA
* ** *
99368889 AGCAGTAAGGTAACATACCAAA
65 AGCAGTAGGGTAACAGGCTAAA
* * * * * * *
99368911 TTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGAAGGGTCTTAAACCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
*
99368976 GCAGTAGGGTAACAGGCTGAAT
66 GCAGTAGGGTAACAGGCT-AAA
* * * * *
99368998 TTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGGCG-ATGGCCTTAACCCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
*
99369062 GCAGTAGGGTAGCAGGCTAAA
66 GCAGTAGGGTAACAGGCTAAA
* * * * *
99369083 TTTATAGATATTAACTCCCTAAGCAGTAG-GGAAACAGATCGAAGATGATGGGCCTTAAACCCCT
1 -TTACAGATCTTAACCCCCTAAGCAGTAGTGG-AACAGATCGAAGACGAAGGGCCTTAAACCCCT
* *
99369147 AAGCAGTAGGGTAACAGGTTGAAT
64 AAGCAGTAGGGTAACAGGCT-AAA
* * * * **
99369171 TTGCAGATCTTAACCCCCTAAGCAGTAGTGGAGCAGATCGAAGGCG-ATGGCCTTAGCCCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
* *
99369235 GTAGTAGGGTAGCAGGCTAAA
66 GCAGTAGGGTAACAGGCTAAA
* * *
99369256 TTTACAGATCTTAACCCCCTAAGTAGTAG-GGAAACAGATCGAAGATGATGGGCCTTAAACCCCT
1 -TTACAGATCTTAACCCCCTAAGCAGTAGTGG-AACAGATCGAAGACGAAGGGCCTTAAACCCCT
* *
99369320 AAGCAGTAGGGTAACAGGTTGAAT
64 AAGCAGTAGGGTAACAGGCT-AAA
* ** *
99369344 TTACAGATCTTAACCCCCTAAGCAGTAG-GGAAATAGATCGAAGGTGACA-AGCCTT-AACCCCT
1 TTACAGATCTTAACCCCCTAAGCAGTAGTGG-AACAGATCGAAGACGA-AGGGCCTTAAACCCCT
*
99369406 AAACAGTAGGGTAACAGGCTAAA
64 AAGCAGTAGGGTAACAGGCTAAA
* *
99369429 TTTACAGATCTTAACACCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAACCCCT
1 -TTACAGATCTTAACCCCCTAAGCAGTAGTGG-AACAGATCGAAGACGAAGGGCCTTAAACCCCT
99369493 AAGCAGTAGGGTA
64 AAGCAGTAGGGTA
99369506 CCAAGCTGAA
Statistics
Matches: 574, Mismatches: 91, Indels: 33
0.82 0.13 0.05
Matches are distributed among these distances:
85 10 0.02
86 280 0.49
87 277 0.48
88 7 0.01
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (86 bp):
TTACAGATCTTAACCCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGCCTTAAACCCCTAA
GCAGTAGGGTAACAGGCTAAA
Found at i:99368977 original size:173 final size:173
Alignment explanation
Indices: 99368735--99369515 Score: 1050
Period size: 173 Copynumber: 4.5 Consensus size: 173
99368725 GAGCAGACTG
* * * *
99368735 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAATG-CGATGGACCTTAACCCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAA-GACGATGGGCCTTAAACCC
*
99368799 CTAAGCAGTAGGGTAACAGGCTGAATTT-CTAGATCTTAACCCCCTAAGCAGTAGAGAAACAGAT
65 CTAAGCAGTAGGGTAACAGGCTGAATTTAC-AGATCTTAACCCCCTAAGCAGTAGTGAAACAGAT
* * * * ** *
99368863 CGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAAGGTAACATACCA
129 CGAAGGCG-ATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
* * * * * * *
99368909 AA-TTGCAGATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCAAAGACGAAGGGTCTTAAACCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAG-GGAAACAGATCGAAGACGATGGGCCTTAAACCC
* * *
99368972 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATC
65 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATC
* *
99369037 GAAGGCGATGGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTA
130 GAAGGCGATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
* * *
99369081 AATTTATAGATATTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
* * * *
99369146 TAAGCAGTAGGGTAACAGGTTGAATTTGCAGATCTTAACCCCCTAAGCAGTAGTGGAGCAGATCG
66 TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATCG
** * *
99369211 AAGGCGATGGCCTTAGCCCCCTAAGTAGTAGGGTAGCAGGCTA
131 AAGGCGATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
* * *
99369254 AATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
* * *
99369319 TAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCG
66 TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATCG
* ** *
99369384 AAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAACAGGCTA
131 AAGGCGA-TGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
*
99369427 AATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
* *
99369492 TAAGCAGTAGGGTACCAAGCTGAA
66 TAAGCAGTAGGGTAACAGGCTGAA
99369516 AATTACAACT
Statistics
Matches: 539, Mismatches: 62, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
172 34 0.06
173 495 0.92
174 10 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (173 bp):
AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCC
TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGTGAAACAGATCG
AAGGCGATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
Found at i:99370059 original size:30 final size:30
Alignment explanation
Indices: 99370025--99370110 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
99370015 AAAACCCTAG
99370025 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
99370055 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
* *
99370085 CCACCTTGTCTCCCACTTGCCCCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
99370111 ACCATCAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.15, C:0.53, G:0.07, T:0.24
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:99370615 original size:3 final size:3
Alignment explanation
Indices: 99370604--99370676 Score: 55
Period size: 3 Copynumber: 23.7 Consensus size: 3
99370594 TTTTATTTTT
*
99370604 TTA TT- TTA TTA TTA TTA CTA TTA TT- TATA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A
99370649 TGTA TATA TTA TTA TT- TATA TTA TTA TT
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TT
99370677 GTATTATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
2 5 0.09
3 44 0.76
4 7 0.12
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:99370686 original size:18 final size:17
Alignment explanation
Indices: 99370612--99370687 Score: 63
Period size: 15 Copynumber: 4.6 Consensus size: 17
99370602 TTTTATTTTA
*
99370612 TTATTAT-TACTATTAT
1 TTATTATATATTATTAT
99370628 TTA-TAT-TATTATTAT
1 TTATTATATATTATTAT
* * *
99370643 TTCTCATGTATATATTA-
1 TTATTATATAT-TATTAT
99370660 TTATT-TATATTATTAT
1 TTATTATATATTATTAT
99370676 TGTATTATATAT
1 T-TATTATATAT
99370688 ACCCTCTCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
15 18 0.38
16 10 0.21
17 10 0.21
18 10 0.21
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATTATATATTATTAT
Found at i:99373114 original size:17 final size:17
Alignment explanation
Indices: 99373081--99373114 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
99373071 ATTACAAAAT
* *
99373081 CAAATCTTATCATATTA
1 CAAATCTTATAAGATTA
99373098 CAAATCTTATAAGATTA
1 CAAATCTTATAAGATTA
99373115 ATTTTCATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:99373409 original size:63 final size:65
Alignment explanation
Indices: 99373331--99373455 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 65
99373321 TTTTTTAAAA
* *
99373331 ATATATAATTTATTAAGAAACTAAAAATTA-AATTAAATATACAAGT-AAAAAATATTTAAATGT
1 ATATATAATTGATTAAGAAACTAAAAATTAGAATTAAATATACAAGTGAAAAAAAATTTAAATGT
* * * *
99373394 ATATATAATTGATTAATAAACTAAAAATTAGACTTAAATATATATGTGAAAAAAAATTTAAA
1 ATATATAATTGATTAAGAAACTAAAAATTAGAATTAAATATACAAGTGAAAAAAAATTTAAA
99373456 AATATTGATA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 28 0.52
64 13 0.24
65 13 0.24
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (65 bp):
ATATATAATTGATTAAGAAACTAAAAATTAGAATTAAATATACAAGTGAAAAAAAATTTAAATGT
Found at i:99373710 original size:27 final size:26
Alignment explanation
Indices: 99373679--99373732 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
99373669 ACTAATTAAA
99373679 TAGACTGATTTATATTAGTAATTT-TTT
1 TAGACTGATTTA-ATT-GTAATTTATTT
**
99373706 TAGACTTTTTTAATTGTAATTTATTT
1 TAGACTGATTTAATTGTAATTTATTT
99373732 T
1 T
99373733 TGGGCTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 7 0.29
27 10 0.42
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (26 bp):
TAGACTGATTTAATTGTAATTTATTT
Found at i:99376946 original size:17 final size:19
Alignment explanation
Indices: 99376918--99376964 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
99376908 TTAAAATCTA
99376918 ATTAATTATATT-TATATTT
1 ATTAA-TATATTGTATATTT
*
99376937 -TTAATATATTGTATCTTT
1 ATTAATATATTGTATATTT
99376955 ATTAATATAT
1 ATTAATATAT
99376965 AAATATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 6 0.24
18 10 0.40
19 9 0.36
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTAATATATTGTATATTT
Found at i:99378560 original size:119 final size:121
Alignment explanation
Indices: 99378365--99378602 Score: 372
Period size: 119 Copynumber: 2.0 Consensus size: 121
99378355 CTAGTGTTGG
* *
99378365 CATTGTGAATGCCGACATCTACTAAAATATTTTTTACTTTTTTATTTAAAATCCTAAAATACTAG
1 CATTGTGAATGCCGACACCTACTAAAATATTTATTA--TTTTTATTTAAAATCCTAAAATACTAG
*
99378430 TACTTTTAAAGTGTATTTGAAAAAAAATACATATTAGTGCTGACAAACACAGTGTCGA
64 TACTTTTAAAGTGTATTTGAAAAAAAATACATATTAGTGCCGACAAACACAGTGTCGA
* *
99378488 CATTGTGAATGTCGACACCTATTAAAATA-TTATTA-TTTTATTTAAAATCCTAAAATACTAGTA
1 CATTGTGAATGCCGACACCTACTAAAATATTTATTATTTTTATTTAAAATCCTAAAATACTAGTA
* * *
99378551 TTTTTAAAGTGTATTTGAAAAAAAATACATATTGGTGCCGACGAACACAGTG
66 CTTTTAAAGTGTATTTGAAAAAAAATACATATTAGTGCCGACAAACACAGTG
99378603 CCTACACAAA
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
119 76 0.71
122 5 0.05
123 26 0.24
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (121 bp):
CATTGTGAATGCCGACACCTACTAAAATATTTATTATTTTTATTTAAAATCCTAAAATACTAGTA
CTTTTAAAGTGTATTTGAAAAAAAATACATATTAGTGCCGACAAACACAGTGTCGA
Found at i:99382878 original size:26 final size:26
Alignment explanation
Indices: 99382849--99382930 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
99382839 TGATACAAAT
99382849 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
99382875 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
99382901 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
99382927 TGAT
1 TGAT
99382931 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:99387558 original size:10 final size:12
Alignment explanation
Indices: 99387532--99387561 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
99387522 TATTCATATG
99387532 TATATTTAGGCA
1 TATATTTAGGCA
*
99387544 TATATTTAGGAA
1 TATATTTAGGCA
99387556 TATATT
1 TATATT
99387562 AATATCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (12 bp):
TATATTTAGGCA
Found at i:99388606 original size:7 final size:7
Alignment explanation
Indices: 99388598--99388641 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
99388588 AACCCCAAAC
*
99388598 CCTTGAC
1 CCTTGAA
99388605 CCTTGAA
1 CCTTGAA
99388612 CC-TGAA
1 CCTTGAA
99388618 CCTTGAA
1 CCTTGAA
99388625 CCTTGAA
1 CCTTGAA
99388632 CCTTGAA
1 CCTTGAA
99388639 CCT
1 CCT
99388642 CAAATCCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (7 bp):
CCTTGAA
Found at i:99390510 original size:9 final size:9
Alignment explanation
Indices: 99390496--99390520 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
99390486 TGGATCTCTT
99390496 TTTTTTTTC
1 TTTTTTTTC
99390505 TTTTTTTTC
1 TTTTTTTTC
99390514 TTTTTTT
1 TTTTTTT
99390521 ATATGTGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:99390640 original size:26 final size:26
Alignment explanation
Indices: 99390611--99390664 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
99390601 CTGTCAATAT
99390611 TACATCATCATATTTTAATCACATTA
1 TACATCATCATATTTTAATCACATTA
99390637 TACATCATCATATTTTAATCACATTA
1 TACATCATCATATTTTAATCACATTA
99390663 TA
1 TA
99390665 AAATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.43
Consensus pattern (26 bp):
TACATCATCATATTTTAATCACATTA
Found at i:99395208 original size:3 final size:3
Alignment explanation
Indices: 99395202--99395227 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
99395192 TAAATGATGA
99395202 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
99395228 GGTTTAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:99397798 original size:15 final size:14
Alignment explanation
Indices: 99397778--99397819 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
99397768 ACATTATTAT
99397778 TATTATTATTTCTTC
1 TATTATTATTT-TTC
*
99397793 TATTATTATTTTTT
1 TATTATTATTTTTC
*
99397807 TACTATTATTTTT
1 TATTATTATTTTT
99397820 TAGACATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTATTATTTTTC
Found at i:99397798 original size:18 final size:17
Alignment explanation
Indices: 99397775--99397820 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
99397765 ATTACATTAT
99397775 TATTATTATTATTTCTT-C
1 TATTATTATT-TTT-TTAC
99397793 TATTATTATTTTTTTAC
1 TATTATTATTTTTTTAC
99397810 TATTATT-TTTT
1 TATTATTATTTT
99397821 AGACATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.22
17 11 0.41
18 10 0.37
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTATTATTTTTTTAC
Found at i:99397861 original size:3 final size:3
Alignment explanation
Indices: 99397853--99398122 Score: 149
Period size: 3 Copynumber: 89.7 Consensus size: 3
99397843 ACTAATGTCC
* * * * * * *
99397853 TTA TTA TTA CTA TTA TTT TTA TTC TTT TTA TTA TTTA TCA TCA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * *
99397899 -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA CTA CTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
99397946 TTA TTA TAA CTA TTG TT- TTA TTA CTA TTA CTA CTA CTA TTA TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * *
99397991 TTA CCA TTA TTA TTAA CCTA TTA TTA TTC TTA TTA GTA -TA TTA TTA
1 TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * **
99398037 TTTC TTA TT- TT- TTA TTA TCA TTA TTA TTA ACA TATA TTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * *
99398082 TTA TTA TTAA TGTA CTG TTA TTC TCTA TTA TTA TTA TTA TT
1 TTA TTA TT-A T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TT
99398123 GTTGTTGTTT
Statistics
Matches: 207, Mismatches: 47, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
2 14 0.07
3 177 0.86
4 14 0.07
5 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:99398015 original size:14 final size:14
Alignment explanation
Indices: 99397981--99398018 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
99397971 ATTACTACTA
* *
99397981 CTATTATTTTTTAC
1 CTATTATTATTAAC
99397995 C-ATTATTATTAAC
1 CTATTATTATTAAC
99398008 CTATTATTATT
1 CTATTATTATT
99398019 CTTATTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (14 bp):
CTATTATTATTAAC
Found at i:99398025 original size:20 final size:20
Alignment explanation
Indices: 99397996--99398084 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
99397986 ATTTTTTACC
*
99397996 ATTATTATTAACCTATTATT
1 ATTATTATTAACATATTATT
* **
99398016 ATTCTTATTAGTATATTATT
1 ATTATTATTAACATATTATT
* *** *
99398036 ATTTCTTATT-TTTTATTATC
1 A-TTATTATTAACATATTATT
99398056 ATTATTATTAACATA-TATT
1 ATTATTATTAACATATTATT
99398075 ATTATTATTA
1 ATTATTATTA
99398085 TTATTAATGT
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
19 20 0.36
20 27 0.49
21 8 0.15
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.60
Consensus pattern (20 bp):
ATTATTATTAACATATTATT
Found at i:99398127 original size:3 final size:3
Alignment explanation
Indices: 99398121--99398172 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
99398111 ATTATTATTA
*
99398121 TTG TTG TTG TTT TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTCG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT-G
99398170 TTG
1 TTG
99398173 ATAATTATCG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.00, C:0.02, G:0.31, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:99401724 original size:11 final size:12
Alignment explanation
Indices: 99401707--99401735 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
99401697 TATTATAAGG
99401707 TAAAATAAGTTA
1 TAAAATAAGTTA
99401719 -AAAATAAGTTA
1 TAAAATAAGTTA
99401730 TAAAAT
1 TAAAAT
99401736 CACTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (12 bp):
TAAAATAAGTTA
Found at i:99403023 original size:14 final size:14
Alignment explanation
Indices: 99403004--99403054 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
99402994 CCAGAAGCAA
99403004 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
* *
99403018 AAAAAT-TAAATA-
1 AAAAATAAAAAAAT
**
99403030 AAAAATATTAAAAT
1 AAAAATAAAAAAAT
99403044 AAAAATAAAAA
1 AAAAATAAAAA
99403055 TGGTTAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
12 6 0.21
13 8 0.28
14 15 0.52
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:99403052 original size:11 final size:12
Alignment explanation
Indices: 99403013--99403055 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
99403003 AAAAAATAAA
99403013 AAAATAAAAATT
1 AAAATAAAAATT
*
99403025 AAATAAAAAATATT
1 AAA-ATAAAA-ATT
*
99403039 AAAATAAAAATA
1 AAAATAAAAATT
99403051 AAAAT
1 AAAAT
99403056 GGTTAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 10 0.38
13 10 0.38
14 6 0.23
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:99420136 original size:15 final size:14
Alignment explanation
Indices: 99420116--99420157 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
99420106 CGATGAATTT
99420116 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
99420131 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
99420146 ATTGAATTATAT
1 ATTGAATTATAT
99420158 AATATATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:99420239 original size:21 final size:22
Alignment explanation
Indices: 99420213--99420254 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
99420203 ATTGAAAAAT
99420213 ATATTGAT-TGGA-AATATGAGG
1 ATATTGATATGGATAA-ATGAGG
99420234 ATATTGATATGGATAAATGAG
1 ATATTGATATGGATAAATGAG
99420255 ATTGTGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 9 0.47
23 2 0.11
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.33
Consensus pattern (22 bp):
ATATTGATATGGATAAATGAGG
Found at i:99420566 original size:23 final size:23
Alignment explanation
Indices: 99420540--99420615 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 23
99420530 CATGCACTTT
99420540 ATGTGTCGTATTTTAGGCACCTC
1 ATGTGTCGTATTTTAGGCACCTC
*
99420563 ATGTGTTGTA--TTAGGCACCTC
1 ATGTGTCGTATTTTAGGCACCTC
* * *
99420584 GTGTGTCG--TTTTAGGCACTTT
1 ATGTGTCGTATTTTAGGCACCTC
*
99420605 ATGTGTTGTAT
1 ATGTGTCGTAT
99420616 ACTGATCAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
21 32 0.76
23 10 0.24
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (23 bp):
ATGTGTCGTATTTTAGGCACCTC
Found at i:99420578 original size:21 final size:21
Alignment explanation
Indices: 99420552--99420615 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
99420542 GTGTCGTATT
99420552 TTAGGCACCTCATGTGTTGTA
1 TTAGGCACCTCATGTGTTGTA
* * *
99420573 TTAGGCACCTCGTGTGTCGTT
1 TTAGGCACCTCATGTGTTGTA
* *
99420594 TTAGGCACTTTATGTGTTGTA
1 TTAGGCACCTCATGTGTTGTA
99420615 T
1 T
99420616 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.16, C:0.17, G:0.25, T:0.42
Consensus pattern (21 bp):
TTAGGCACCTCATGTGTTGTA
Found at i:99428077 original size:21 final size:23
Alignment explanation
Indices: 99428037--99428078 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
99428027 AGGATAATGC
*
99428037 CAAAATTGCTTCTCTTCTTTTAG
1 CAAAATTGCCTCTCTTCTTTTAG
99428060 CAAAATT-CCTCT-TTCTTTT
1 CAAAATTGCCTCTCTTCTTTT
99428079 TGTGTTGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.50
Consensus pattern (23 bp):
CAAAATTGCCTCTCTTCTTTTAG
Found at i:99429089 original size:29 final size:28
Alignment explanation
Indices: 99429031--99429100 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 28
99429021 ATTGCATGAC
* **
99429031 TATGAATGTGATTGGGGTCAATGGGTCA
1 TATGAATGTGATTGGGGCCAATGGCCCA
* *
99429059 TATGTATGTGATTTGGGCCTAATGGCCCA
1 TATGAATGTGATTGGGGCC-AATGGCCCA
*
99429088 TATGAATGAGATT
1 TATGAATGTGATT
99429101 AAGCCTAGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.34
Consensus pattern (28 bp):
TATGAATGTGATTGGGGCCAATGGCCCA
Found at i:99445278 original size:18 final size:18
Alignment explanation
Indices: 99445255--99445293 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
99445245 TTTCGAAAAG
99445255 ACTTAATTTGGTTTCCAA
1 ACTTAATTTGGTTTCCAA
99445273 ACTTAATTTGGTTTCCAA
1 ACTTAATTTGGTTTCCAA
99445291 ACT
1 ACT
99445294 CATGAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (18 bp):
ACTTAATTTGGTTTCCAA
Found at i:99449345 original size:24 final size:24
Alignment explanation
Indices: 99449318--99449365 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
99449308 CATATCATAA
99449318 TCCATTCATTCACATGCACTTTGT
1 TCCATTCATTCACATGCACTTTGT
99449342 TCCATTCATTCACATGCACTTTGT
1 TCCATTCATTCACATGCACTTTGT
99449366 CCCTAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.42
Consensus pattern (24 bp):
TCCATTCATTCACATGCACTTTGT
Found at i:99450805 original size:17 final size:17
Alignment explanation
Indices: 99450783--99450820 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
99450773 AGCTCTTGAT
99450783 AATCTATAAAACAAGGA
1 AATCTATAAAACAAGGA
99450800 AATCTATAAAACAAGGA
1 AATCTATAAAACAAGGA
99450817 AATC
1 AATC
99450821 AACTACGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.18
Consensus pattern (17 bp):
AATCTATAAAACAAGGA
Found at i:99459139 original size:26 final size:26
Alignment explanation
Indices: 99459103--99459234 Score: 94
Period size: 26 Copynumber: 5.0 Consensus size: 26
99459093 TACTTTTAAA
99459103 TAAAT-AGTTAATAGAATCAATTGGT
1 TAAATCAGTTAATAGAATCAATTGGT
*
99459128 TAAATCAGTTAATAGAATCAGTT-GT
1 TAAATCAGTTAATAGAATCAATTGGT
*** *
99459153 T--ATCAGTTAAGTTTTATCAAATACT-TT
1 TAAATCAGTTAA-TAGAATC-AAT--TGGT
*
99459180 TAAATAAATAGTTAATAGAATCAATTGGT
1 TAAAT---CAGTTAATAGAATCAATTGGT
* *
99459209 TAAATTAGTTAATAGAATCAGTTGGT
1 TAAATCAGTTAATAGAATCAATTGGT
99459235 CAAACTAGCC
Statistics
Matches: 84, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
23 9 0.11
24 4 0.05
25 10 0.12
26 36 0.43
27 3 0.04
28 1 0.01
29 8 0.10
30 3 0.04
31 4 0.05
32 6 0.07
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (26 bp):
TAAATCAGTTAATAGAATCAATTGGT
Found at i:99459157 original size:81 final size:81
Alignment explanation
Indices: 99459072--99459232 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
99459062 AGCTTTCAGC
99459072 TATCAGTTAAGTTTTATCAAATACTTTTAAATAAATAGTTAATAGAATCAATTGGTTAAATCAGT
1 TATCAGTTAAGTTTTATCAAATACTTTTAAATAAATAGTTAATAGAATCAATTGGTTAAATCAGT
99459137 TAATAGAATCAGTTGT
66 TAATAGAATCAGTTGT
*
99459153 TATCAGTTAAGTTTTATCAAATACTTTTAAATAAATAGTTAATAGAATCAATTGGTTAAATTAGT
1 TATCAGTTAAGTTTTATCAAATACTTTTAAATAAATAGTTAATAGAATCAATTGGTTAAATCAGT
99459218 TAATAGAATCAGTTG
66 TAATAGAATCAGTTG
99459233 GTCAAACTAG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (81 bp):
TATCAGTTAAGTTTTATCAAATACTTTTAAATAAATAGTTAATAGAATCAATTGGTTAAATCAGT
TAATAGAATCAGTTGT
Found at i:99459955 original size:20 final size:18
Alignment explanation
Indices: 99459930--99459974 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
99459920 AATTTAAAAA
*
99459930 AAAAATCAAAATAACTTTTT
1 AAAAATCAAAA-AA-TTTAT
99459950 AAAAATTCAAAAAATTTAT
1 AAAAA-TCAAAAAATTTAT
99459969 AAAAAT
1 AAAAAT
99459975 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 7 0.30
21 6 0.26
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATCAAAAAATTTAT
Found at i:99459971 original size:19 final size:21
Alignment explanation
Indices: 99459929--99459974 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
99459919 GAATTTAAAA
* *
99459929 AAAAAATCAAAATAACTTTTT
1 AAAAATTCAAAATAACTTTAT
99459950 AAAAATTCAAAA-AA-TTTAT
1 AAAAATTCAAAATAACTTTAT
99459969 AAAAAT
1 AAAAAT
99459975 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 2 0.09
21 11 0.48
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATTCAAAATAACTTTAT
Found at i:99460853 original size:15 final size:15
Alignment explanation
Indices: 99460833--99460863 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
99460823 TATACTTATT
99460833 TTTTTAAATATTTTA
1 TTTTTAAATATTTTA
99460848 TTTTTAAATATTTTA
1 TTTTTAAATATTTTA
99460863 T
1 T
99460864 AAATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTAAATATTTTA
Found at i:99463802 original size:24 final size:25
Alignment explanation
Indices: 99463762--99463812 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
99463752 TATTAAAAAA
99463762 AAACACTTAGAGTTATTGAGATGCT
1 AAACACTTAGAGTTATTGAGATGCT
99463787 AAACACTT-GAGTTATTGAGATGCT
1 AAACACTTAGAGTTATTGAGATGCT
99463811 AA
1 AA
99463813 GGCATCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (25 bp):
AAACACTTAGAGTTATTGAGATGCT
Found at i:99464805 original size:15 final size:15
Alignment explanation
Indices: 99464785--99464834 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
99464775 TGTAGTTGAA
99464785 GATGACGACGACAAC
1 GATGACGACGACAAC
* *
99464800 GATGACGACGACGAT
1 GATGACGACGACAAC
* *
99464815 GATGACGATGACAAG
1 GATGACGACGACAAC
99464830 GATGA
1 GATGA
99464835 AGATGATGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.32, T:0.12
Consensus pattern (15 bp):
GATGACGACGACAAC
Found at i:99467168 original size:12 final size:12
Alignment explanation
Indices: 99467153--99467182 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
99467143 AAATGAACTT
99467153 AAAAATCTTTAAA
1 AAAAATC-TTAAA
99467166 AAAAATCTTAAA
1 AAAAATCTTAAA
99467178 AAAAA
1 AAAAA
99467183 ATCTCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATCTTAAA
Found at i:99467171 original size:13 final size:13
Alignment explanation
Indices: 99467153--99467186 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
99467143 AAATGAACTT
*
99467153 AAAAATCTTTAAA
1 AAAAATCTTAAAA
99467166 AAAAATCTTAAAA
1 AAAAATCTTAAAA
99467179 AAAAATCT
1 AAAAATCT
99467187 CAATATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAATCTTAAAA
Found at i:99467444 original size:20 final size:21
Alignment explanation
Indices: 99467402--99467451 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
99467392 TAGTTATATA
* *
99467402 ATGTAATATAATATTATAGTAT
1 ATGT-ATATAATATAATACTAT
*
99467424 A-GTATATAATGTAATACTAT
1 ATGTATATAATATAATACTAT
99467444 ATGTATAT
1 ATGTATAT
99467452 GTATTAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.62
21 8 0.33
22 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
ATGTATATAATATAATACTAT
Found at i:99468833 original size:20 final size:21
Alignment explanation
Indices: 99468795--99468835 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
99468785 AAATTAATAC
99468795 TAAATTTTAAAATATATTAAT
1 TAAATTTTAAAATATATTAAT
*
99468816 TAAATTTTCAAA-ATATTAAT
1 TAAATTTTAAAATATATTAAT
99468836 ATTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATTTTAAAATATATTAAT
Found at i:99468839 original size:22 final size:21
Alignment explanation
Indices: 99468787--99468844 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
99468777 TTAATTTAAA
*
99468787 ATTAATACTAAATTTTAAAAT
1 ATTAATATTAAATTTTAAAAT
*
99468808 A-TATTAATTAAATTTTCAAAAT
1 ATTAAT-ATTAAATTTT-AAAAT
*
99468830 ATTAATATTATATTT
1 ATTAATATTAAATTT
99468845 ATTTAACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.10
21 10 0.33
22 14 0.47
23 3 0.10
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAATATTAAATTTTAAAAT
Found at i:99469376 original size:5 final size:5
Alignment explanation
Indices: 99469366--99469390 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
99469356 TATATATATA
99469366 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
99469391 AATTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:99469848 original size:20 final size:20
Alignment explanation
Indices: 99469822--99469871 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
99469812 AAATGGTAAT
*
99469822 TAAATCAATTTGATTA-AAA
1 TAAATCAAATTGATTAGAAA
99469841 TCAAATCAAATTGATTAGAAA
1 T-AAATCAAATTGATTAGAAA
*
99469862 TAAATAAAAT
1 TAAATCAAAT
99469872 AATGGTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAATCAAATTGATTAGAAA
Found at i:99476580 original size:25 final size:24
Alignment explanation
Indices: 99476506--99476679 Score: 198
Period size: 25 Copynumber: 7.3 Consensus size: 24
99476496 ACTAATGAAT
*
99476506 AGAGAGCACTGAAGTGCT-ATA-C
1 AGAGAGCACTGACGTGCTAATATC
** *
99476528 AGAGAGCACAAATGTGCT-A-ATC
1 AGAGAGCACTGACGTGCTAATATC
99476550 AGAGAGCACTGACGTGCTAAATATC
1 AGAGAGCACTGACGTGCT-AATATC
** *
99476575 AGAGAGCACAAATGTGCT-A-ATC
1 AGAGAGCACTGACGTGCTAATATC
99476597 AGAGAGCACTGACGTGCTAAATATC
1 AGAGAGCACTGACGTGCT-AATATC
99476622 AGAGAGCACTGACGTGCTAAATATC
1 AGAGAGCACTGACGTGCT-AATATC
*
99476647 AGAGAGCACTGGCGTGCTAATATTC
1 AGAGAGCACTGACGTGCTAATA-TC
99476672 AGAGAGCA
1 AGAGAGCA
99476680 TGCTGAGGTC
Statistics
Matches: 131, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.01
22 50 0.38
23 1 0.01
24 6 0.05
25 73 0.56
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (24 bp):
AGAGAGCACTGACGTGCTAATATC
Found at i:99476581 original size:47 final size:46
Alignment explanation
Indices: 99476506--99476679 Score: 235
Period size: 47 Copynumber: 3.7 Consensus size: 46
99476496 ACTAATGAAT
*
99476506 AGAGAGCACTGAAGTGCT-ATA-CAGAGAGCACAAATGTGCTAATC
1 AGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAATC
99476550 AGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAATC
1 AGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAATC
** *
99476597 AGAGAGCACTGACGTGCTAAATATCAGAGAGCACTGACGTGCTAAATATC
1 AGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCT--A-ATC
*
99476647 AGAGAGCACTGGCGTGCTAATATTCAGAGAGCA
1 AGAGAGCACTGACGTGCTAATA-TCAGAGAGCA
99476680 TGCTGAGGTC
Statistics
Matches: 118, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
44 17 0.14
46 3 0.03
47 63 0.53
49 5 0.04
50 30 0.25
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (46 bp):
AGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAATC
Found at i:99476664 original size:72 final size:70
Alignment explanation
Indices: 99476506--99476679 Score: 219
Period size: 72 Copynumber: 2.4 Consensus size: 70
99476496 ACTAATGAAT
*
99476506 AGAGAGCACTGAAGTGCT-ATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCTAA
1 AGAGAGCACTGAAGTGCTAATACAGAGAGCACAAACGTGCTAATCAGAGAGCACTGACGTGCTAA
99476570 ATATC
66 ATATC
* **
99476575 AGAGAGCAC-AAATGTGCTAAT-CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACTGACGTG
1 AGAGAGCACTGAA-GTGCTAATACAGAGAGCACAAACGTGCT--A-ATCAGAGAGCACTGACGTG
99476638 CTAAATATC
62 CTAAATATC
**
99476647 AGAGAGCACTGGCGTGCTAATATTCAGAGAGCA
1 AGAGAGCACTGAAGTGCTAATA--CAGAGAGCA
99476680 TGCTGAGGTC
Statistics
Matches: 89, Mismatches: 7, Indels: 12
0.82 0.06 0.11
Matches are distributed among these distances:
68 2 0.02
69 30 0.34
70 2 0.02
71 1 0.01
72 45 0.51
75 9 0.10
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (70 bp):
AGAGAGCACTGAAGTGCTAATACAGAGAGCACAAACGTGCTAATCAGAGAGCACTGACGTGCTAA
ATATC
Found at i:99485452 original size:227 final size:227
Alignment explanation
Indices: 99485057--99485515 Score: 900
Period size: 227 Copynumber: 2.0 Consensus size: 227
99485047 GAACAAGCTA
99485057 AACAAAGAGGGTATTTCCTTAAAGTAATAAAAATTTCCTCTTTACTCCATCCTAGGCTCATAAAT
1 AACAAAGAGGGTATTTCCTTAAAGTAATAAAAATTTCCTCTTTACTCCATCCTAGGCTCATAAAT
99485122 GCTTCAACTTTTTTCTTCCAATTAGCGTTGCTAACTGAACAAATAACCCTAAGAGCATGTATAAA
66 GCTTCAACTTTTTTCTTCCAATTAGCGTTGCTAACTGAACAAATAACCCTAAGAGCATGTATAAA
* *
99485187 CCTAGATTCTGCCGGCTCTAGACCGATTTCTTTAATGGTTTTAATGGCGTAAACCATTCGAGCAT
131 CCTAGACTCTGCCGGCTCTAGACCGATTCCTTTAATGGTTTTAATGGCGTAAACCATTCGAGCAT
99485252 GGCTTTGCAAAATGACCCTAGGTTGTAATACT
196 GGCTTTGCAAAATGACCCTAGGTTGTAATACT
99485284 AACAAAGAGGGTATTTCCTTAAAGTAATAAAAATTTCCTCTTTACTCCATCCTAGGCTCATAAAT
1 AACAAAGAGGGTATTTCCTTAAAGTAATAAAAATTTCCTCTTTACTCCATCCTAGGCTCATAAAT
99485349 GCTTCAACTTTTTTCTTCCAATTAGCGTTGCTAACTGAACAAATAACCCTAAGAGCATGTATAAA
66 GCTTCAACTTTTTTCTTCCAATTAGCGTTGCTAACTGAACAAATAACCCTAAGAGCATGTATAAA
99485414 CCTAGACTCTGCCGGCTCTAGACCGATTCCTTTAATGGTTTTAATGGCGTAAACCATTCGAGCAT
131 CCTAGACTCTGCCGGCTCTAGACCGATTCCTTTAATGGTTTTAATGGCGTAAACCATTCGAGCAT
99485479 GGCTTTGCAAAATGACCCTAGGTTGTAATACT
196 GGCTTTGCAAAATGACCCTAGGTTGTAATACT
99485511 AACAA
1 AACAA
99485516 TTTCGATATC
Statistics
Matches: 230, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 230 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (227 bp):
AACAAAGAGGGTATTTCCTTAAAGTAATAAAAATTTCCTCTTTACTCCATCCTAGGCTCATAAAT
GCTTCAACTTTTTTCTTCCAATTAGCGTTGCTAACTGAACAAATAACCCTAAGAGCATGTATAAA
CCTAGACTCTGCCGGCTCTAGACCGATTCCTTTAATGGTTTTAATGGCGTAAACCATTCGAGCAT
GGCTTTGCAAAATGACCCTAGGTTGTAATACT
Found at i:99489408 original size:12 final size:12
Alignment explanation
Indices: 99489391--99489416 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99489381 ACCATGCTTA
99489391 CATGGTTATTTC
1 CATGGTTATTTC
99489403 CATGGTTATTTC
1 CATGGTTATTTC
99489415 CA
1 CA
99489417 CTCAATTCAC
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:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (12 bp):
CATGGTTATTTC
Found at i:99496540 original size:15 final size:15
Alignment explanation
Indices: 99496520--99496548 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
99496510 TAAAAGATAA
99496520 TTTTCAATATTATTT
1 TTTTCAATATTATTT
99496535 TTTTCAATATTATT
1 TTTTCAATATTATT
99496549 AATTAACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTCAATATTATTT
Found at i:99497492 original size:32 final size:32
Alignment explanation
Indices: 99497451--99497516 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
99497441 CATACATGGC
99497451 TATAGTGTTTAGATTTCAAGACTAGGATTCAA
1 TATAGTGTTTAGATTTCAAGACTAGGATTCAA
99497483 TATAGTGTTTAGATTTCAAGACTAGGATTCAA
1 TATAGTGTTTAGATTTCAAGACTAGGATTCAA
99497515 TA
1 TA
99497517 ATATTTTAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (32 bp):
TATAGTGTTTAGATTTCAAGACTAGGATTCAA
Found at i:99500457 original size:38 final size:38
Alignment explanation
Indices: 99500404--99500481 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
99500394 TGCCAGTGTA
99500404 AGACCATATTAGGAACATGACATCGAAAATGTTATGAG
1 AGACCATATTAGGAACATGACATCGAAAATGTTATGAG
* *
99500442 AGACCATGTTTGGAACATGACATCGAAAATGTTATGAG
1 AGACCATATTAGGAACATGACATCGAAAATGTTATGAG
99500480 AG
1 AG
99500482 CCAGTGTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (38 bp):
AGACCATATTAGGAACATGACATCGAAAATGTTATGAG
Found at i:99500650 original size:96 final size:96
Alignment explanation
Indices: 99500532--99500745 Score: 259
Period size: 96 Copynumber: 2.2 Consensus size: 96
99500522 TGTGTGCTAG
* * * * *
99500532 TGTAAGACCATGCCTGGGACATGACGTAGGCCACAATATGAGAGCAAGTGTAAAAAC-ATGTCTG
1 TGTAAGACCATGTCTGGGACATGACATAGGCAACAAGACGAGAGCAAGTGT-AAAACTATGTCTG
99500596 GGACATGGCATCGGCCTCAACATGTGAGCCAA
65 GGACATGGCATCGGCCTCAACATGTGAGCCAA
* * * ** * * * *
99500628 TGTAATACCATGTCTGGGACATGGCATCGGCAATGAGGCGAGAGCTAGTGTAAGACTCTGTCTGG
1 TGTAAGACCATGTCTGGGACATGACATAGGCAACAAGACGAGAGCAAGTGTAAAACTATGTCTGG
* *
99500693 GACATGGCATCGGCCTCGACATGTGAGCCAG
66 GACATGGCATCGGCCTCAACATGTGAGCCAA
*
99500724 TGTAAGACCATGTCTAGGACAT
1 TGTAAGACCATGTCTGGGACAT
99500746 AGCATCGGTA
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
95 4 0.04
96 95 0.96
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGACATAGGCAACAAGACGAGAGCAAGTGTAAAACTATGTCTGG
GACATGGCATCGGCCTCAACATGTGAGCCAA
Found at i:99500751 original size:48 final size:48
Alignment explanation
Indices: 99500479--99500753 Score: 218
Period size: 48 Copynumber: 5.8 Consensus size: 48
99500469 AATGTTATGA
* * * * * *
99500479 GAGCCAGTGTAAGACCATGT-TTGGA-ATTGACATCAGCATTGA-TTGT
1 GAGCCAGTGTAAGACCATGTCTGGGACA-TGGCATCGGCCTCGACATGT
* * * * * * * * * *
99500525 GTGCTAGTGTAAGACCATGCCTGGGACATGACGTAGGCCACAATATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT
* * * *
99500573 GAGCAAGTGTAAAAACATGTCTGGGACATGGCATCGGCCTCAACATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT
* * * *** *
99500621 GAGCCAATGTAATACCATGTCTGGGACATGGCATCGGCAAT-GAGGCGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGACATGT
*
99500669 GAGCTAGTGTAAGACTC-TGTCTGGGACATGGCATCGGCCTCGACATGT
1 GAGCCAGTGTAAGAC-CATGTCTGGGACATGGCATCGGCCTCGACATGT
* *
99500717 GAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
99500754 TAATTTACCC
Statistics
Matches: 177, Mismatches: 45, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
46 17 0.10
47 14 0.08
48 144 0.81
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGT
Found at i:99505667 original size:15 final size:15
Alignment explanation
Indices: 99505643--99505672 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99505633 TGGAGATCGA
*
99505643 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
99505658 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
99505673 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:99509028 original size:15 final size:15
Alignment explanation
Indices: 99509008--99509038 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99508998 GTCATGTAAG
99509008 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
99509023 TGAAAGGTCTAGAGT
1 TGAAAGGTCAAGAGT
99509038 T
1 T
99509039 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:99509228 original size:17 final size:17
Alignment explanation
Indices: 99509195--99509233 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
99509185 TAAGCTTTTG
99509195 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
99509212 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
99509229 ATTTT
1 ATTTT
99509234 CCACATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:99511496 original size:28 final size:28
Alignment explanation
Indices: 99511456--99511514 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
99511446 ATACTAATTA
99511456 TTTTACATTATTAATCCATTGATGGTAG
1 TTTTACATTATTAATCCATTGATGGTAG
*
99511484 TTTTACATTATTAATCTATTGATGGTAG
1 TTTTACATTATTAATCCATTGATGGTAG
99511512 TTT
1 TTT
99511515 ATCTGGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (28 bp):
TTTTACATTATTAATCCATTGATGGTAG
Found at i:99516823 original size:16 final size:16
Alignment explanation
Indices: 99516802--99516869 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
99516792 TTTGGTTCGC
*
99516802 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
*
99516818 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
99516834 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99516850 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99516866 TGTA
1 TGTA
99516870 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:99516916 original size:45 final size:44
Alignment explanation
Indices: 99516850--99516940 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
99516840 GGATTAGAGG
* * *
99516850 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
99516895 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
99516939 TG
1 TG
99516941 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:99517126 original size:18 final size:17
Alignment explanation
Indices: 99517105--99517139 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99517095 TTATTATTAA
*
99517105 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
99517123 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99517140 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99517193 original size:157 final size:157
Alignment explanation
Indices: 99516992--99517463 Score: 881
Period size: 157 Copynumber: 3.0 Consensus size: 157
99516982 TAGAATACCC
* * *
99516992 TTAGCATAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
99517057 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
99517122 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
99517149 TTAGCAGAAATTTATTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
99517214 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
99517279 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
99517306 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
99517371 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
99517436 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
99517463 T
1 T
99517464 CAATATTCTT
Statistics
Matches: 307, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 307 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:99517279 original size:16 final size:16
Alignment explanation
Indices: 99517242--99517283 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
99517232 TTAATCATAT
*
99517242 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
99517258 TT-AAATATATTATAA
1 TTAAAATATATTATAA
99517273 TTAAAATATAT
1 TTAAAATATAT
99517284 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:99517290 original size:14 final size:15
Alignment explanation
Indices: 99517251--99517292 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99517241 TTTAAACATA
*
99517251 ATTATTATTAAATAT
1 ATTATAATTAAATAT
99517266 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
99517280 A-TATAATTTAATA
1 ATTATAATTAAATA
99517293 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:99517436 original size:16 final size:16
Alignment explanation
Indices: 99517399--99517440 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
99517389 TTAATCATAT
*
99517399 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
99517415 TT-AAATATATTATAA
1 TTAAAATATATTATAA
99517430 TTAAAATATAT
1 TTAAAATATAT
99517441 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:99517447 original size:14 final size:15
Alignment explanation
Indices: 99517408--99517449 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99517398 TTTAAACATA
*
99517408 ATTATTATTAAATAT
1 ATTATAATTAAATAT
99517423 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
99517437 A-TATAATTTAATA
1 ATTATAATTAAATA
99517450 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:99517824 original size:119 final size:120
Alignment explanation
Indices: 99517695--99517995 Score: 559
Period size: 119 Copynumber: 2.5 Consensus size: 120
99517685 TAGAAAAAAA
** *
99517695 TTAATATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATT
1 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATT
*
99517760 TAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT-
66 TAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
99517814 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATT
1 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATT
99517879 TAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
66 TAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
99517934 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
1 TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
99517996 GATTAATAAT
Statistics
Matches: 177, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
119 115 0.65
120 62 0.35
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (120 bp):
TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATT
TAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
Found at i:99517943 original size:18 final size:18
Alignment explanation
Indices: 99517778--99517930 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
99517768 TTATTATTAA
99517778 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
99517796 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
* ****
99517813 -TTTAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
99517832 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
99517850 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
99517866 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
99517885 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
99517897 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
99517915 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
99517931 TTCTTAATAT
Statistics
Matches: 97, Mismatches: 23, Indels: 30
0.65 0.15 0.20
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 13 0.13
17 19 0.20
18 36 0.37
19 9 0.09
20 4 0.04
21 3 0.03
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:99528119 original size:18 final size:20
Alignment explanation
Indices: 99528096--99528140 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
99528086 AAGATGACTA
*
99528096 TTTTATTTTTATT-TTGT-T
1 TTTTATTTTTATTATTCTGT
99528114 TTTTA-TTTTATTATTCTGT
1 TTTTATTTTTATTATTCTGT
99528133 TTTTATTT
1 TTTTATTT
99528141 CGACACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 6 0.26
20 2 0.09
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTATTTTTATTATTCTGT
Found at i:99529306 original size:14 final size:14
Alignment explanation
Indices: 99529269--99529308 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
99529259 TCATTCAAGT
*
99529269 TATTTACTTTATAA
1 TATTTATTTTATAA
*
99529283 TATTTATTTTATAT
1 TATTTATTTTATAA
*
99529297 TATTTCTTTTAT
1 TATTTATTTTAT
99529309 TTTTTCCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTTATTTTATAA
Found at i:99531531 original size:21 final size:19
Alignment explanation
Indices: 99531497--99531544 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
99531487 TATATTTTTT
99531497 TAAAAATATATTAATTACT-A
1 TAAAAATATATTAA-TA-TGA
*
99531517 TAAAAATATTGTTAATATGA
1 TAAAAATA-TATTAATATGA
99531537 TAAAAATA
1 TAAAAATA
99531545 ATTTCTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 5 0.20
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAAAATATATTAATATGA
Found at i:99531947 original size:17 final size:16
Alignment explanation
Indices: 99531915--99531948 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
99531905 TTTTTTTTTA
99531915 ATGTTATAATAAGATG
1 ATGTTATAATAAGATG
*
99531931 ATGTTATTAATATGATG
1 ATGTTA-TAATAAGATG
99531948 A
1 A
99531949 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
ATGTTATAATAAGATG
Found at i:99533220 original size:3 final size:3
Alignment explanation
Indices: 99533209--99533247 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
99533199 TTTTTTCTAA
* *
99533209 TAT TGT TAT TAT TAC TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
99533248 GAGTATACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:99533571 original size:20 final size:20
Alignment explanation
Indices: 99533516--99533592 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
99533506 ATTTTCTTAT
99533516 TATATTATTATGTATATTATTC
1 TATA-TATTATGTATATT-TTC
* *
99533538 T-TTTAAATAT-TATATTTTC
1 TATAT-ATTATGTATATTTTC
* *
99533557 TATATATTATGTATATATTA
1 TATATATTATGTATATTTTC
*
99533577 TATATATTACGTATAT
1 TATATATTATGTATAT
99533593 ATCTAGTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
19 8 0.18
20 31 0.69
21 5 0.11
22 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TATATATTATGTATATTTTC
Found at i:99533752 original size:30 final size:31
Alignment explanation
Indices: 99533718--99533784 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
99533708 TAAATACCAT
99533718 CTATATTG-TGT-T-TATTTTTTTATACATATA
1 CTATATTGTTGTATGTA-TTTTTTATACATA-A
*
99533748 CTATA-TGTTGTATGTATTTTTTATATATAA
1 CTATATTGTTGTATGTATTTTTTATACATAA
99533778 CTATATT
1 CTATATT
99533785 ATACGTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
29 2 0.06
30 14 0.44
31 14 0.44
32 2 0.06
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.58
Consensus pattern (31 bp):
CTATATTGTTGTATGTATTTTTTATACATAA
Found at i:99534055 original size:26 final size:26
Alignment explanation
Indices: 99534026--99534089 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 26
99534016 CCATATTATG
99534026 TTTTTATATTTAT-TATGTATATACTT
1 TTTTTATATTTATATATGTATATA-TT
99534052 TTTTTA-ATATTATATATGTATATATT
1 TTTTTATAT-TTATATATGTATATATT
*
99534078 TTTAATATATTT
1 TTT-TTATATTT
99534090 GCGTATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 2 0.06
26 15 0.45
27 14 0.42
28 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (26 bp):
TTTTTATATTTATATATGTATATATT
Found at i:99534056 original size:27 final size:27
Alignment explanation
Indices: 99534026--99534089 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
99534016 CCATATTATG
*
99534026 TTTTTATATTTAT-TATGTATATACTT
1 TTTTTATATTTATATATGTATATATTT
99534052 TTTTTA-ATATTATATATGTATATATTT
1 TTTTTATAT-TTATATATGTATATATTT
**
99534079 TTAATATATTT
1 TTTTTATATTT
99534090 GCGTATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 2 0.06
26 10 0.31
27 18 0.56
28 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTTATATTTATATATGTATATATTT
Found at i:99542444 original size:19 final size:19
Alignment explanation
Indices: 99542420--99542459 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
99542410 AAACATGAAT
*
99542420 GAATAAATAATATTTCATA
1 GAATAAAAAATATTTCATA
99542439 GAATAAAAAATATTTCATA
1 GAATAAAAAATATTTCATA
99542458 GA
1 GA
99542460 CATCATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (19 bp):
GAATAAAAAATATTTCATA
Found at i:99543899 original size:25 final size:25
Alignment explanation
Indices: 99543865--99543915 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
99543855 GGGTTAAATT
*
99543865 AATTTGTATGTGAATTAGATTTTCA
1 AATTTGTATGTGAATAAGATTTTCA
*
99543890 AATTTGTATGTGAATAAGTTTTTCA
1 AATTTGTATGTGAATAAGATTTTCA
99543915 A
1 A
99543916 GCGATATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (25 bp):
AATTTGTATGTGAATAAGATTTTCA
Found at i:99550388 original size:21 final size:22
Alignment explanation
Indices: 99550350--99550391 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
99550340 AACTTTTTAA
*
99550350 TATTAATTATATTTAATATTTT
1 TATTAATTATATTGAATATTTT
*
99550372 TATT-ATTGTATTGAATATTT
1 TATTAATTATATTGAATATTT
99550392 AAAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TATTAATTATATTGAATATTTT
Found at i:99556131 original size:25 final size:24
Alignment explanation
Indices: 99556093--99556301 Score: 90
Period size: 25 Copynumber: 8.5 Consensus size: 24
99556083 TTTAGCTCTT
*
99556093 ATGAGCATCCCGATATATGGCTTGC
1 ATGAGCTTCCCGATATATGGCTT-C
*
99556118 ATGAGCTTCTCGAT-TAATGGCTCTC
1 ATGAGCTTCCCGATAT-ATGGCT-TC
** *
99556143 -TGGAGCTTTTCTATAT-TGGCTTAC
1 AT-GAGCTTCCCGATATATGGCTT-C
*
99556167 ATGAGTTTCCCGAT-TAATGGCTCTC
1 ATGAGCTTCCCGATAT-ATGGCT-TC
* * * *
99556192 -TAGTGCTTCCTGATAT-TGACTAGC
1 AT-GAGCTTCCCGATATATGGCT-TC
* * *
99556216 ATGAGCTTCTCGAT-TACGGCTCTT
1 ATGAGCTTCCCGATATATGGCT-TC
* * *
99556240 ATGAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCCGATATATGGCT-TC
* *
99556265 ATGAGCTTCCCGTTATATGGCTTGG
1 ATGAGCTTCCCGATATATGGCTT-C
*
99556290 AAGAGCTTCCCG
1 ATGAGCTTCCCG
99556302 GTTACATGTT
Statistics
Matches: 137, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
23 3 0.02
24 46 0.34
25 84 0.61
26 4 0.03
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (24 bp):
ATGAGCTTCCCGATATATGGCTTC
Found at i:99556163 original size:49 final size:49
Alignment explanation
Indices: 99556087--99556249 Score: 163
Period size: 49 Copynumber: 3.3 Consensus size: 49
99556077 CAGTTATTTA
* *
99556087 GCTCT-TATGAGCATCCCGATATATGGCTTGCATGAGCTTCTCGATTAATG
1 GCTCTCTA-GAGCTTCCTGATAT-TGGCTTGCATGAGCTTCTCGATTAATG
* * * * *
99556137 GCTCTCTGGAGCTTTTCT-ATATTGGCTTACATGAGTTTCCCGATTAATG
1 GCTCTCTAGAGC-TTCCTGATATTGGCTTGCATGAGCTTCTCGATTAATG
* * * *
99556186 GCTCTCTAGTGCTTCCTGATATTGACTAGCATGAGCTTCTCGATT-ACG
1 GCTCTCTAGAGCTTCCTGATATTGGCTTGCATGAGCTTCTCGATTAATG
99556234 GCTCT-TATGAGCTTCC
1 GCTCTCTA-GAGCTTCC
99556250 CGTTACATGG
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
47 2 0.02
48 18 0.20
49 56 0.61
50 13 0.14
51 3 0.03
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (49 bp):
GCTCTCTAGAGCTTCCTGATATTGGCTTGCATGAGCTTCTCGATTAATG
Found at i:99560115 original size:30 final size:31
Alignment explanation
Indices: 99560081--99560143 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
99560071 TATTTTATTA
* *
99560081 TTAA-TTTTCTTATTATTTTAAAGGCATTTG
1 TTAATTTTTATTATTATTTTAAAAGCATTTG
*
99560111 TTAATTTTTATTATTTTTTTAAAAGCATTTG
1 TTAATTTTTATTATTATTTTAAAAGCATTTG
99560142 TT
1 TT
99560144 TGTTAAGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.60
Consensus pattern (31 bp):
TTAATTTTTATTATTATTTTAAAAGCATTTG
Found at i:99560259 original size:18 final size:18
Alignment explanation
Indices: 99560224--99560263 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
99560214 GAAATATTTA
*
99560224 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
99560242 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
99560262 TT
1 TT
99560264 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:99560298 original size:13 final size:11
Alignment explanation
Indices: 99560263--99560294 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
99560253 TATATATATT
99560263 TAAAAATAATA
1 TAAAAATAATA
99560274 TAAAAATAATA
1 TAAAAATAATA
99560285 TAAAAA-AATA
1 TAAAAATAATA
99560295 ATATGGGCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:99569242 original size:14 final size:14
Alignment explanation
Indices: 99569223--99569250 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
99569213 GGCAAATTCA
99569223 AGTTTGGCAAGATT
1 AGTTTGGCAAGATT
99569237 AGTTTGGCAAGATT
1 AGTTTGGCAAGATT
99569251 TGACATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
AGTTTGGCAAGATT
Found at i:99572372 original size:6 final size:6
Alignment explanation
Indices: 99572357--99572400 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
99572347 GAATTTCAAA
* * *
99572357 CATGTC CATGTT CATGTT CATGTT CATGTC CATGTC CATGTC CA
1 CATGTC CATGTC CATGTC CATGTC CATGTC CATGTC CATGTC CA
99572401 GCTGGGGACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (6 bp):
CATGTC
Found at i:99572378 original size:12 final size:12
Alignment explanation
Indices: 99572357--99572400 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
99572347 GAATTTCAAA
99572357 CATGTCCATGTT
1 CATGTCCATGTT
*
99572369 CATGTTCATGTT
1 CATGTCCATGTT
*
99572381 CATGTCCATGTC
1 CATGTCCATGTT
99572393 CATGTCCA
1 CATGTCCA
99572401 GCTGGGGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (12 bp):
CATGTCCATGTT
Found at i:99585803 original size:24 final size:25
Alignment explanation
Indices: 99585776--99585822 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
99585766 TATTTTCTCA
99585776 TTTTAAG-TAATTTAATTTTTTTTC
1 TTTTAAGTTAATTTAATTTTTTTTC
* **
99585800 TTTTATGTTCTTTTAATTTTTTT
1 TTTTAAGTTAATTTAATTTTTTT
99585823 ATATTCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTTAAGTTAATTTAATTTTTTTTC
Found at i:99588314 original size:21 final size:22
Alignment explanation
Indices: 99588288--99588341 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
99588278 TTCCTTGTTT
99588288 CACACGGGCGTGTG-C-CTCTGC
1 CACACGGGCGTGTGTCTCTCT-C
99588309 CACAC-GGCTGTGTGTCTCTCTC
1 CACACGGGC-GTGTGTCTCTCTC
99588331 CACACGGGCGT
1 CACACGGGCGT
99588342 TTTGACTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 3 0.10
21 10 0.34
22 9 0.31
23 7 0.24
ACGTcount: A:0.11, C:0.37, G:0.30, T:0.22
Consensus pattern (22 bp):
CACACGGGCGTGTGTCTCTCTC
Found at i:99593885 original size:33 final size:33
Alignment explanation
Indices: 99593843--99593923 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
99593833 TGGCCCAGCC
* *
99593843 ATGGCCTTATATTTATAGTGCCATAACCCAATT
1 ATGGCCTTATATTTAGAATGCCATAACCCAATT
* *
99593876 ATGGCCTTATCA-TCAGAATGCCATAGCCCAATT
1 ATGGCCTTAT-ATTTAGAATGCCATAACCCAATT
*
99593909 ATGGTCTTATATTTA
1 ATGGCCTTATATTTA
99593924 ATCATTGTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 1 0.03
33 38 0.95
34 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (33 bp):
ATGGCCTTATATTTAGAATGCCATAACCCAATT
Found at i:99604343 original size:12 final size:12
Alignment explanation
Indices: 99604326--99604352 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
99604316 TACATTCTTC
99604326 TTATATATATAT
1 TTATATATATAT
99604338 TTATATATATAT
1 TTATATATATAT
99604350 TTA
1 TTA
99604353 GAATATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATATATATAT
Found at i:99607276 original size:28 final size:31
Alignment explanation
Indices: 99607221--99607282 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 31
99607211 ATAAATTATT
*
99607221 AAAATAATAAAATTATAATTTTACAATCTTA
1 AAAATAATAAAATTATAATTTTACAATCTCA
* *
99607252 AAAAT-ATATAATT-TAATTTT-GAATCTCA
1 AAAATAATAAAATTATAATTTTACAATCTCA
99607280 AAA
1 AAA
99607283 TTTTTTCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.32
29 7 0.25
30 7 0.25
31 5 0.18
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (31 bp):
AAAATAATAAAATTATAATTTTACAATCTCA
Found at i:99607891 original size:5 final size:5
Alignment explanation
Indices: 99607883--99607914 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
99607873 TTTGGAAGAC
99607883 TTTAT TTTAT TTTAT TTTAT TTTAT TTATAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT-TAT T
99607915 AGGATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:99614339 original size:118 final size:118
Alignment explanation
Indices: 99614113--99614325 Score: 381
Period size: 118 Copynumber: 1.8 Consensus size: 118
99614103 AGTTTTCCAT
*
99614113 GGTTATGAGTACAGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
99614178 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
** * *
99614231 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACGGGGGTATGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
99614296 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
99614326 TTGGGTAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 90 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:99614484 original size:9 final size:8
Alignment explanation
Indices: 99614472--99614521 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 8
99614462 AAAATTTAAA
99614472 AAAAGAAAG
1 AAAA-AAAG
99614481 AAAAAAAG
1 AAAAAAAG
*
99614489 AAAAAAAAT
1 -AAAAAAAG
99614498 AAAAAAAG
1 AAAAAAAG
*
99614506 AAGAAGAAG
1 AA-AAAAAG
99614515 AAAAAAA
1 AAAAAAA
99614522 TAAGTACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 17 0.49
9 18 0.51
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:99614501 original size:17 final size:17
Alignment explanation
Indices: 99614471--99614521 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
99614461 TAAAATTTAA
99614471 AAAAAGAAAGAAAAAAAG
1 AAAAA-AAAGAAAAAAAG
*
99614489 AAAAAAAATAAAAAAAG
1 AAAAAAAAGAAAAAAAG
* *
99614506 AAGAAGAAGAAAAAAA
1 AAAAAAAAGAAAAAAA
99614522 TAAGTACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 24 0.83
18 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:99614504 original size:20 final size:21
Alignment explanation
Indices: 99614469--99614520 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
99614459 AATAAAATTT
99614469 AAAAAAAGAAAGAAAAAAAGA
1 AAAAAAAGAAAGAAAAAAAGA
* *
99614490 AAAAAAATAAAAAAAGAAGAAGA
1 AAAAAAAGAAAGAAA-AA-AAGA
99614513 AGAAAAAA
1 A-AAAAAA
99614521 ATAAGTACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 13 0.50
22 2 0.08
23 5 0.19
24 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (21 bp):
AAAAAAAGAAAGAAAAAAAGA
Done.