Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 311 of 362
Found at i:104004442 original size:18 final size:18
Alignment explanation
Indices: 104004419--104004453 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104004409 TTGTCTTCAC
*
104004419 TATCGATACCAAAAATGT
1 TATCGATACAAAAAATGT
104004437 TATCGATACAAAAAATG
1 TATCGATACAAAAAATG
104004454 CATTCTAACT
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:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (18 bp):
TATCGATACAAAAAATGT
Found at i:104006030 original size:19 final size:20
Alignment explanation
Indices: 104005983--104006031 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
104005973 TACAATATTT
*
104005983 ATATATTCTTATATTTTTCA
1 ATATATTCTTATATTTTCCA
* *
104006003 CTATCTTCTT-TATTTTCCA
1 ATATATTCTTATATTTTCCA
*
104006022 ATATTTTCTT
1 ATATATTCTT
104006032 GTAAACTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATATTCTTATATTTTCCA
Found at i:104006163 original size:14 final size:14
Alignment explanation
Indices: 104006141--104006175 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
104006131 GTTTACATGT
*
104006141 AAAAGGTTTTACGG
1 AAAATGTTTTACGG
104006155 AAAATGTTTTACGG
1 AAAATGTTTTACGG
104006169 AAAATGT
1 AAAATGT
104006176 ATTCTGCATT
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:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (14 bp):
AAAATGTTTTACGG
Found at i:104006496 original size:16 final size:14
Alignment explanation
Indices: 104006475--104006509 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
104006465 ATATTTAGTC
104006475 ATATAATAAATTATTA
1 ATATAATAAA-TA-TA
104006491 ATATAATAAATATA
1 ATATAATAAATATA
104006505 ATATA
1 ATATA
104006510 TCATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 2 0.11
16 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAATAAATATA
Found at i:104007152 original size:14 final size:14
Alignment explanation
Indices: 104007130--104007168 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
104007120 CTAGAAAAAT
*
104007130 AAATCATTTTCCAG
1 AAATTATTTTCCAG
*
104007144 AAATTATTTTCCGG
1 AAATTATTTTCCAG
*
104007158 AAGTTATTTTC
1 AAATTATTTTC
104007169 AATTAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:104008475 original size:25 final size:25
Alignment explanation
Indices: 104008428--104008476 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
104008418 TTGGCTTAAC
**
104008428 ATTTACTAAGCAATATCGGATATTT
1 ATTTACTAAGCAATATCAAATATTT
* *
104008453 ATTTATTAGGCAATATCAAATATT
1 ATTTACTAAGCAATATCAAATATT
104008477 CAAATTATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (25 bp):
ATTTACTAAGCAATATCAAATATTT
Found at i:104009768 original size:37 final size:39
Alignment explanation
Indices: 104009681--104009777 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 39
104009671 CACACCAGAA
104009681 TGGCGACCAACGCCTCATCGGATAGCTCGAAGCAAATAAG
1 TGGCGACCAACGCCTCATCGGATAGCTCGAAGC-AATAAG
* * * *
104009721 TGACAACCAACGTCTCATCGGCTAAGC-CGAAGC-A-AAG
1 TGGCGACCAACGCCTCATCGGAT-AGCTCGAAGCAATAAG
104009758 TGGCGACCAACGCCTCATCG
1 TGGCGACCAACGCCTCATCG
104009778 AATCTATCCG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 20 0.41
38 1 0.02
40 25 0.51
41 3 0.06
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.14
Consensus pattern (39 bp):
TGGCGACCAACGCCTCATCGGATAGCTCGAAGCAATAAG
Found at i:104010048 original size:29 final size:27
Alignment explanation
Indices: 104009983--104010053 Score: 65
Period size: 28 Copynumber: 2.6 Consensus size: 27
104009973 TAACAATTCA
104009983 ATCA-CAATTTCAAATTCACCACAAATC
1 ATCATCAA-TTCAAATTCACCACAAATC
* * *
104010010 ATTATACAATTCAATTTCACACATAAATAC
1 ATCAT-CAATTCAAATTCAC-CACAAAT-C
104010040 ATCATCAA-TCAAAT
1 ATCATCAATTCAAAT
104010054 CCGATTCTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.09
28 15 0.43
29 12 0.34
30 5 0.14
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (27 bp):
ATCATCAATTCAAATTCACCACAAATC
Found at i:104010814 original size:16 final size:16
Alignment explanation
Indices: 104010793--104010823 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104010783 TTTCTTTTGT
*
104010793 TTCTTTATTTTATTTA
1 TTCTTTATTTCATTTA
104010809 TTCTTTATTTCATTT
1 TTCTTTATTTCATTT
104010824 TATTTACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTATTTCATTTA
Found at i:104013981 original size:13 final size:14
Alignment explanation
Indices: 104013954--104013980 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
104013944 CATATTTTTT
104013954 TTATTTTTAAAAAA
1 TTATTTTTAAAAAA
104013968 TTATTTTTAAAAA
1 TTATTTTTAAAAA
104013981 TGTCAACCAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATTTTTAAAAAA
Found at i:104014550 original size:33 final size:33
Alignment explanation
Indices: 104014505--104014569 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
104014495 TTTATTTACC
*
104014505 AAAAATAAAAAATATTTTTTTAAAAATGAAATT
1 AAAAATAAAAAATATTTTTTTAAAAATAAAATT
*
104014538 AAAAATAGAAAATATTTTTTTAAAAATAAAAT
1 AAAAATAAAAAATATTTTTTTAAAAATAAAAT
104014570 GTGCCTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (33 bp):
AAAAATAAAAAATATTTTTTTAAAAATAAAATT
Found at i:104015084 original size:174 final size:174
Alignment explanation
Indices: 104014794--104015118 Score: 490
Period size: 174 Copynumber: 1.9 Consensus size: 174
104014784 AATTTTCCAA
* * * * *
104014794 ATTTTAGTTGCTTTTTTTACATTGTAAAACAATGGTTAAATTTTAATTTTGGCCCTTAAACTATA
1 ATTTTAGCTGCTTTTTTTACATTATAAAACAATGGTTAAATTTTAAATTTAGCCCCTAAACTATA
*
104014859 CTTAACTTAAGATTCAATCTATTTACTTTAATTTTTAACATAATTTGGTCCCTCTAGTTTTTAAT
66 CTTAACTTAAGATTCAATCTATTTACTTTAATTTTTAACATAATTTGGTCCCTCTACTTTTTAAT
*
104014924 GTAATTAGTTAGTCTAAATAGTTAATATTGTTCAATCTATTTAC
131 GTAATTAGTTAATCTAAATAGTTAATATTGTTCAATCTATTTAC
* * * *
104014968 ATTTTAGCTGC-TTTTTTACCTTATAAAACAATGGTTAAATTTTAAATTTAGCCCCTAAGCTTTG
1 ATTTTAGCTGCTTTTTTTACATTATAAAACAATGGTTAAATTTTAAATTTAGCCCCTAAACTATA
* * * *
104015032 CTTAAACTTGAGATTTAATCTATTTACTTTAATTTTTTACATAATTTGGTCCCTTTACTTTTTAA
66 CTT-AACTTAAGATTCAATCTATTTACTTTAATTTTTAACATAATTTGGTCCCTCTACTTTTTAA
*
104015097 TGTCATTAGTTAATCTAAATAG
130 TGTAATTAGTTAATCTAAATAG
104015119 ATCATTTCAC
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
173 48 0.36
174 86 0.64
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (174 bp):
ATTTTAGCTGCTTTTTTTACATTATAAAACAATGGTTAAATTTTAAATTTAGCCCCTAAACTATA
CTTAACTTAAGATTCAATCTATTTACTTTAATTTTTAACATAATTTGGTCCCTCTACTTTTTAAT
GTAATTAGTTAATCTAAATAGTTAATATTGTTCAATCTATTTAC
Found at i:104016378 original size:3 final size:3
Alignment explanation
Indices: 104016370--104016448 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
104016360 CATGGAAAAC
104016370 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
104016418 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
104016449 AGACCTTGAC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:104016772 original size:16 final size:17
Alignment explanation
Indices: 104016751--104016795 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
104016741 ATTTACCGAG
104016751 CCCAAAACTCAACTA-C
1 CCCAAAACTCAACTATC
*
104016767 CCCAAAACCCAACTATC
1 CCCAAAACTCAACTATC
*
104016784 CCAAAAACTCAA
1 CCCAAAACTCAA
104016796 ATTAGCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.47, C:0.42, G:0.00, T:0.11
Consensus pattern (17 bp):
CCCAAAACTCAACTATC
Found at i:104018025 original size:3 final size:3
Alignment explanation
Indices: 104018017--104018091 Score: 66
Period size: 3 Copynumber: 25.0 Consensus size: 3
104018007 AACTTAAACA
* *
104018017 TAT TAT TAT TACT T-T TAT TTT TAT TAT TAT TAT CAT T-T ATAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
104018062 TAT TAT TAT TAC TACT T-T TAT TAC TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
104018092 ATTTTCATCT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
2 5 0.09
3 49 0.84
4 4 0.07
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:104018084 original size:24 final size:23
Alignment explanation
Indices: 104018017--104018091 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 23
104018007 AACTTAAACA
*
104018017 TATTATTATTACTTTTATTTTTAT
1 TATTATTA-TACTTTTATTATTAT
104018041 TATTATTAT-CATTTATATTATTAT
1 TATTATTATAC-TTT-TATTATTAT
*
104018065 TATTATTACTACTTTTATTACTAT
1 TATTATTA-TACTTTTATTATTAT
104018089 TAT
1 TAT
104018092 ATTTTCATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
22 1 0.02
23 4 0.09
24 35 0.78
25 4 0.09
26 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATACTTTTATTATTAT
Found at i:104018254 original size:3 final size:3
Alignment explanation
Indices: 104018248--104018355 Score: 55
Period size: 3 Copynumber: 36.0 Consensus size: 3
104018238 ACTATTAACC
* *
104018248 TAT TAT TAT TCT TAT TAG TA- TAT TAT TAT T-T CCTAT T-T T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT
* * * * * * *
104018290 TAT TAT TGT TGT TAT TAA CAT ATAT TAT TAT TAAT GTAC TGT TAT TCT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT -TAT TAT TAT TAT
104018338 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
104018356 AATACTATTA
Statistics
Matches: 81, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
2 9 0.11
3 64 0.79
4 6 0.07
5 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:104021788 original size:26 final size:26
Alignment explanation
Indices: 104021759--104021840 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
104021749 TAATACAAAT
*
104021759 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104021785 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104021811 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104021837 TGAT
1 TGAT
104021841 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104024195 original size:19 final size:19
Alignment explanation
Indices: 104024154--104024195 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
104024144 CGCCTCTTTT
*
104024154 TGCATTCATTTCATTCATT
1 TGCATTCATTTCATTCATA
104024173 TGCATTACATTTCA-TCATA
1 TGCATT-CATTTCATTCATA
104024192 TGCA
1 TGCA
104024196 CGAAAAGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (19 bp):
TGCATTCATTTCATTCATA
Found at i:104032573 original size:51 final size:45
Alignment explanation
Indices: 104032234--104032814 Score: 348
Period size: 45 Copynumber: 12.8 Consensus size: 45
104032224 ATTATGGCGG
* * ** *
104032234 ATCTTATCTTCCTGAAGTTGCAGT-GAAGCAGATTAAAGCCATC-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGATAGCAA
* * *
104032278 ATCTCATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
* * * *
104032323 ATCTTATTTCCCTAAAGTTGCGGTGGAACAGATTGAAGCTATAAATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AT--AGCA-A
** * * ** *
104032373 GATCTTATCTATCTGAAGTTGCAATAGAGTAGA-TCAA-A-A-CAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
* ** * * *
104032415 A-CATTATCTCCCTAAAGTTGTTGTGGAGCAGGTTGAAG-TCA-CTA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAT-AGCAA
* * *
104032459 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
* * *
104032504 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGGAGTTATAAATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AT--AGCA-A
* * *
104032554 GATCTTATCTCTCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
* * * *
104032600 ATCTTATTTCCCTGAAGTTGCAGTGAAACAGATTAAAGCTATAAATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AT--AGCA-A
* * * * *
104032650 GATCTTATCTCTCTGAAGTTGTAGT-AAAGTAGA-TCAA-A-A-CAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGATAGCAA
* * ** * **
104032692 ACCTTATCTCCCTGAAGTTGCTGTGGAGTAGGTTGAAG-TCA-CTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAT-AGCAA
* * **
104032736 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
*
104032781 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT
104032815 AAAGCTATAA
Statistics
Matches: 412, Mismatches: 89, Indels: 71
0.72 0.16 0.12
Matches are distributed among these distances:
40 1 0.00
41 44 0.11
42 9 0.02
43 4 0.01
44 104 0.25
45 135 0.33
46 1 0.00
47 11 0.03
49 11 0.03
50 12 0.03
51 80 0.19
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
Found at i:104032580 original size:96 final size:95
Alignment explanation
Indices: 104032290--104032862 Score: 562
Period size: 96 Copynumber: 6.2 Consensus size: 95
104032280 CTCATCTCCA
* *
104032290 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTAAAGTTGCGGTGGAACAGA
1 TGAAGTTGCAGTGGAGCAGA-TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
* *
104032355 TTGAAGCTATAAATCACAGATCTTATCTATC
65 TTAAAGCTATAAATCACAGATCTTATCTCTC
* * * * * * ** * *
104032386 TGAAGTTGCAATAGAGTAGATCAA-A-A-CAAA-CATTATCTCCCTAAAGTTGTTGTGGAGCAGG
1 TGAAGTTGCAGTGGAGCAGATGAAGATAGCAAATC-TTATTTCCCTGAAGTTGCAGTGGAACAGA
* *
104032447 TT---G----AAGTCACTAG-TCTTATCTCCC
65 TTAAAGCTATAAATCAC-AGATCTTATCTCTC
*
104032471 TAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
1 TGAAGTTGCAGTGGAGCAGA-TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
** *
104032536 TTGGAGTTATAAATCACAGATCTTATCTCTC
65 TTAAAGCTATAAATCACAGATCTTATCTCTC
* * *
104032567 TAAAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGAAACAGA
1 TGAAGTTGCAGTGGAGCAGA-TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
104032632 TTAAAGCTATAAATCACAGATCTTATCTCTC
65 TTAAAGCTATAAATCACAGATCTTATCTCTC
* ** * * * * *
104032663 TGAAGTTGTAGTAAAGTAGATCAA-A-A-CAAACCTTATCTCCCTGAAGTTGCTGTGG---AG--
1 TGAAGTTGCAGTGGAGCAGATGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGAT
* * * * *
104032720 T--AGGT-TGAAGTCACTGGTCTTATCTCCC
66 TAAAGCTAT-AAATCACAGATCTTATCTCTC
*
104032748 TGAAGTTGCAGTGGAGCAGACAGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
1 TGAAGTTGCAGTGGAGCAGA-TGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA
*
104032813 TTAAAGCTATAAATAAACAGATCTTATCTCTC
65 TTAAAGCTATAAAT-CACAGATCTTATCTCTC
*
104032845 TGAAGTTGCAGTAGAGCA
1 TGAAGTTGCAGTGGAGCA
104032863 AATCATAGCA
Statistics
Matches: 385, Mismatches: 63, Indels: 57
0.76 0.12 0.11
Matches are distributed among these distances:
84 1 0.00
85 67 0.17
86 7 0.02
87 3 0.01
88 2 0.01
89 58 0.15
90 1 0.00
91 1 0.00
92 58 0.15
93 2 0.01
94 3 0.01
95 8 0.02
96 143 0.37
97 31 0.08
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (95 bp):
TGAAGTTGCAGTGGAGCAGATGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGAT
TAAAGCTATAAATCACAGATCTTATCTCTC
Found at i:104032786 original size:277 final size:278
Alignment explanation
Indices: 104032292--104032856 Score: 916
Period size: 277 Copynumber: 2.0 Consensus size: 278
104032282 CATCTCCATG
* * * *
104032292 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTAAAGTTGCGGTGGAACAGATT
1 AAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGAAACAGATT
* *
104032357 GAAGCTATAAATCACAGATCTTATCTATCTGAAGTTGCAATAGAGTAGATCAAAACAAACATTAT
66 AAAGCTATAAATCACAGATCTTATCTATCTGAAGTTGCAATAAAGTAGATCAAAACAAACATTAT
*
104032422 CTCCCTAAAGTTGTTGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTAAAGTTGCAGTGGAG
131 CTCCCTAAAGTTGCTGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTAAAGTTGCAGTGGAG
** ** * *
104032487 CAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGGAGTTATAAAT-C
196 CAGACAGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAA
104032551 ACAGATCTTATCTCTCTA
261 ACAGATCTTATCTCTCTA
*
104032569 AAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGAAACAGATT
1 AAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGAAACAGATT
* * * *
104032634 AAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGTAGTAAAGTAGATCAAAACAAACCTTAT
66 AAAGCTATAAATCACAGATCTTATCTATCTGAAGTTGCAATAAAGTAGATCAAAACAAACATTAT
* * * *
104032699 CTCCCTGAAGTTGCTGTGGAGTAGGTTGAAGTCACTGGTCTTATCTCCCTGAAGTTGCAGTGGAG
131 CTCCCTAAAGTTGCTGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTAAAGTTGCAGTGGAG
104032764 CAGACAGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAA
196 CAGACAGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAA
*
104032829 ACAGATCTTATCTCTCTG
261 ACAGATCTTATCTCTCTA
104032847 AAGTTGCAGT
1 AAGTTGCAGT
104032857 AGAGCAAATC
Statistics
Matches: 264, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
277 237 0.90
278 27 0.10
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (278 bp):
AAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGAAACAGATT
AAAGCTATAAATCACAGATCTTATCTATCTGAAGTTGCAATAAAGTAGATCAAAACAAACATTAT
CTCCCTAAAGTTGCTGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTAAAGTTGCAGTGGAG
CAGACAGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAA
ACAGATCTTATCTCTCTA
Found at i:104033166 original size:17 final size:16
Alignment explanation
Indices: 104033125--104033169 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
104033115 ATTTGCCCGG
104033125 CCCAAAACCCAACTAC
1 CCCAAAACCCAACTAC
*
104033141 CCCAAAACCTAACTAC
1 CCCAAAACCCAACTAC
104033157 CCCAAAAACCCAA
1 CCC-AAAACCCAA
104033170 ATTAGCCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
CCCAAAACCCAACTAC
Found at i:104034318 original size:6 final size:6
Alignment explanation
Indices: 104034297--104034347 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
104034287 AACTTAAACA
* *
104034297 TATTAT TATTACT T-TTAT TTTTAT TATTAT TATTACT T-TTAT TACTAT
1 TATTAT TATTA-T TATTAT TATTAT TATTAT TATTA-T TATTAT TATTAT
104034345 TAT
1 TAT
104034348 ATTTTCATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.11
6 30 0.79
7 4 0.11
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTAT
Found at i:104034322 original size:18 final size:18
Alignment explanation
Indices: 104034299--104034347 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
104034289 CTTAAACATA
*
104034299 TTATTATTACTT-TTATTT
1 TTATTATTA-TTATTACTT
104034317 TTATTATTATTATTACTT
1 TTATTATTATTATTACTT
*
104034335 TTATTACTATTAT
1 TTATTATTATTAT
104034348 ATTTTCATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATTATTATTATTACTT
Found at i:104034345 original size:24 final size:24
Alignment explanation
Indices: 104034297--104034347 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
104034287 AACTTAAACA
**
104034297 TATTATTATTACTTTTATTTTTAT
1 TATTATTATTACTTTTATTACTAT
104034321 TATTATTATTACTTTTATTACTAT
1 TATTATTATTACTTTTATTACTAT
104034345 TAT
1 TAT
104034348 ATTTTCATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTATTATTACTTTTATTACTAT
Found at i:104034387 original size:50 final size:52
Alignment explanation
Indices: 104034333--104034431 Score: 118
Period size: 50 Copynumber: 1.9 Consensus size: 52
104034323 TTATTATTAC
*
104034333 TTTTA-TTA-CTA-TTATATTTTCATCTATATTTATTTTGT-TATT-TATCTTAT
1 TTTTATTTATCTATTTACATTTTC-TCT-TA-TTATTTTGTGTATTATATCTTAT
*
104034383 TTTTATTTATCTATTTACATTTTCTGTTATTATTTTGTGTATTATATCT
1 TTTTATTTATCTATTTACATTTTCTCTTATTATTTTGTGTATTATATCT
104034432 ACATTTATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
50 14 0.33
51 9 0.21
52 10 0.24
53 9 0.21
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (52 bp):
TTTTATTTATCTATTTACATTTTCTCTTATTATTTTGTGTATTATATCTTAT
Found at i:104034510 original size:3 final size:3
Alignment explanation
Indices: 104034504--104034605 Score: 52
Period size: 3 Copynumber: 34.0 Consensus size: 3
104034494 ACTATTAACC
* *
104034504 TAT TAT TAT TCT TAT TAG TA- TAT TAT TAT T-T CCTAT T-T T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT
* * * * * *
104034546 TAT TAT TGT TGT TAT TAA CAT ATAT TAT TAT TAT TAAT GTAC TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T-AT -TAT TAT TAT
104034594 TAT TAT TAT TAT
1 TAT TAT TAT TAT
104034606 ACTATTAAAC
Statistics
Matches: 77, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
2 9 0.12
3 60 0.78
4 6 0.08
5 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:104034608 original size:20 final size:20
Alignment explanation
Indices: 104034557--104034608 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
104034547 ATTATTGTTG
* *
104034557 TTATTAACATA-TATTATTA
1 TTATTAATATACTGTTATTA
*
104034576 TTATTAATGTACTGTTATTA
1 TTATTAATATACTGTTATTA
*
104034596 TTATTATTATACT
1 TTATTAATATACT
104034609 ATTAAACTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (20 bp):
TTATTAATATACTGTTATTA
Found at i:104036582 original size:21 final size:19
Alignment explanation
Indices: 104036548--104036609 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
104036538 TAAGTTATAT
104036548 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
104036570 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
104036592 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
104036610 GTAATTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:104036661 original size:22 final size:22
Alignment explanation
Indices: 104036633--104036675 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
104036623 AAAATATAGT
*
104036633 AAAATAAATAGTATAAAAAAAC
1 AAAATAAATAATATAAAAAAAC
*
104036655 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATAAAAAAA
104036676 TATAGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAATAATATAAAAAAAC
Found at i:104039105 original size:206 final size:206
Alignment explanation
Indices: 104038744--104039299 Score: 898
Period size: 206 Copynumber: 2.7 Consensus size: 206
104038734 AAATCTACTT
* *
104038744 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
** * * * * * *
104038809 ACGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTAAGCACAAGGATACCGAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * * **
104038874 GGATCTGCTTTAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
104038939 GAGATGCCAAA
196 GAGATGCCAAA
*
104038950 CTTCGATTTGTTCTCTGACAATACAGAGATGCCACATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
104039015 GTGAAAGCCAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
104039080 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
104039145 GAGATGCCAAA
196 GAGATGCCAAA
*
104039156 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCGTCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
104039221 GT-ACAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATTT
66 GTGA-AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
104039285 TGGATCTTGCTTCAG
130 TGGATC-TGCTTCAG
104039300 CCAGATCTGC
Statistics
Matches: 324, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
205 1 0.00
206 315 0.97
207 8 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
GAGATGCCAAA
Found at i:104044518 original size:30 final size:30
Alignment explanation
Indices: 104044482--104044542 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
104044472 TCCTCTTCCG
104044482 CATTGATGGTTATTAACCGTCCATCTGTCA
1 CATTGATGGTTATTAACCGTCCATCTGTCA
*
104044512 CATTGATGGTTATTAACCGTCCATTTGTCA
1 CATTGATGGTTATTAACCGTCCATCTGTCA
104044542 C
1 C
104044543 TAACTTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (30 bp):
CATTGATGGTTATTAACCGTCCATCTGTCA
Found at i:104050979 original size:2 final size:2
Alignment explanation
Indices: 104050974--104051004 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104050964 TTTGACACAC
104050974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104051005 AAATACAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104051229 original size:21 final size:19
Alignment explanation
Indices: 104051195--104051256 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
104051185 TAAGTTACAT
104051195 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
104051217 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
104051239 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
104051257 GTAATTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:104051308 original size:22 final size:22
Alignment explanation
Indices: 104051280--104051322 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
104051270 AAAATATAGT
*
104051280 AAAATAAATAGTATAAAAAAAC
1 AAAATAAATAATATAAAAAAAC
*
104051302 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATAAAAAAA
104051323 TATAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAATAATATAAAAAAAC
Found at i:104051671 original size:14 final size:14
Alignment explanation
Indices: 104051641--104051705 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
104051631 CAATTTTATA
104051641 AAAATATAT-AAA-
1 AAAATATATAAAAT
*
104051653 GAAATATATAAAAT
1 AAAATATATAAAAT
*
104051667 AAAATATATAATAT
1 AAAATATATAAAAT
* * *
104051681 AATATAATTTATAGAT
1 AAAAT-ATATA-AAAT
104051697 AAAATATAT
1 AAAATATAT
104051706 GATAAAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
12 8 0.20
13 3 0.07
14 16 0.39
15 7 0.17
16 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAATATATAAAAT
Found at i:104060555 original size:27 final size:26
Alignment explanation
Indices: 104060468--104060563 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 26
104060458 AATAACTGAT
*
104060468 TTCGCACACTTAGTGCTCAAAAAT-TAA
1 TTCGCACACTTAGTGCTC--AAATCAAA
* * * *
104060495 TTCACACACATAGTGCTTAAATCCAA
1 TTCGCACACTTAGTGCTCAAATCAAA
* *
104060521 CTCGCACACTTAGTGCTCAGTATCAAA
1 TTCGCACACTTAGTGCTCA-AATCAAA
104060548 TTCGCACACTTAGTGC
1 TTCGCACACTTAGTGC
104060564 ATCCCTCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 4 0.07
26 17 0.30
27 35 0.62
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (26 bp):
TTCGCACACTTAGTGCTCAAATCAAA
Found at i:104062272 original size:19 final size:19
Alignment explanation
Indices: 104062244--104062283 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
104062234 TGATGCTTTA
*
104062244 ATATGATGTAGTACTAATT
1 ATATGATGTAATACTAATT
* *
104062263 ATATGGTGTAATACTAGTT
1 ATATGATGTAATACTAATT
104062282 AT
1 AT
104062284 GCACTTGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (19 bp):
ATATGATGTAATACTAATT
Found at i:104062765 original size:14 final size:14
Alignment explanation
Indices: 104062746--104062781 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
104062736 TAAAAGTAAG
104062746 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
104062760 TCATTTTCTAGAAA
1 TCATTTTCCAGAAA
*
104062774 CCATTTTC
1 TCATTTTC
104062782 AGTCAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:104064049 original size:30 final size:30
Alignment explanation
Indices: 104063987--104064050 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
104063977 TAAAATTTTA
** * *
104063987 AAAAGTACATAGACTGAAATTGACCAATTT
1 AAAAGTACATAGACAAAAACTGACCAAATT
* *
104064017 AAAAGTACATGGACAAAAACTGATCAAATT
1 AAAAGTACATAGACAAAAACTGACCAAATT
104064047 AAAA
1 AAAA
104064051 TATAAAGACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (30 bp):
AAAAGTACATAGACAAAAACTGACCAAATT
Found at i:104068537 original size:2 final size:2
Alignment explanation
Indices: 104068526--104068566 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
104068516 GAAAAAAGAA
104068526 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104068567 TTTTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:104071468 original size:21 final size:20
Alignment explanation
Indices: 104071444--104071483 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
104071434 TTTTTAAAAA
104071444 AATATAAAATTTGGAATTTTT
1 AATA-AAAATTTGGAATTTTT
* *
104071465 AATAAATATTTTGAATTTT
1 AATAAAAATTTGGAATTTT
104071484 AAAATTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
AATAAAAATTTGGAATTTTT
Found at i:104076315 original size:67 final size:67
Alignment explanation
Indices: 104076207--104076336 Score: 215
Period size: 67 Copynumber: 1.9 Consensus size: 67
104076197 AACATCCTCC
*
104076207 GAACCACAAATATTTAGCTCTTGTATTAAAATAAAATTGATATATATATTTAAAAAGGAAAAGAG
1 GAACCACAAATATTTAGCTCTTGTATTAAAATAAAATTGATATATATATATAAAAAGGAAAAGAG
104076272 GG
66 GG
* * * *
104076274 GAACCACAAATATTTAGTTCTTGTATTAATATAAAATTGATATGTATATATATAAAGGAAAAG
1 GAACCACAAATATTTAGCTCTTGTATTAAAATAAAATTGATATATATATATAAAAAGGAAAAG
104076337 GGGATGTTCC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.32
Consensus pattern (67 bp):
GAACCACAAATATTTAGCTCTTGTATTAAAATAAAATTGATATATATATATAAAAAGGAAAAGAG
GG
Found at i:104083332 original size:4 final size:4
Alignment explanation
Indices: 104083325--104083649 Score: 90
Period size: 4 Copynumber: 75.2 Consensus size: 4
104083315 ACTGTTTATT
* * ** *
104083325 TATG TATG TATG TATG TTATG TTTT TAAA T-TG TTATG TATAT TATG TATG
1 TATG TATG TATG TATG -TATG TATG TATG TATG -TATG TAT-G TATG TATG
* * * * * * * *
104083375 TAATG TACTG TTAAG CATG TATG TTATA TTTG TATA TTTG TATA TTTG
1 T-ATG TA-TG -TATG TATG TATG -TATG TATG TATG TATG TATG TATG
104083423 TATG TATG TTATG TTATG TTATG TATG TATG TTATG T-T- TACTG TTATG
1 TATG TATG -TATG -TATG -TATG TATG TATG -TATG TATG TA-TG -TATG
* * * * *
104083471 TTTG TATA TTTG TATG TTATG TATTG TTATG TATAT TATG TATG TTTG
1 TATG TATG TATG TATG -TATG TA-TG -TATG TAT-G TATG TATG TATG
* * *
104083519 TTATG TGT- TATAT TACTG TTATG TTTG TAAAT- TATG TATG TCATG T-T-
1 -TATG TATG TAT-G TA-TG -TATG TATG T--ATG TATG TATG T-ATG TATG
* * *
104083566 TAATG TATG TATAC TATG T-GG TATAT TATTG TTATGCG TATG TATG TATG
1 T-ATG TATG TAT-G TATG TATG TAT-G TA-TG -TAT--G TATG TATG TATG
104083616 TATG TATG TATG TATG TATG TATG TATG TTATG T
1 TATG TATG TATG TATG TATG TATG TATG -TATG T
104083650 GTAGCACTGT
Statistics
Matches: 237, Mismatches: 46, Indels: 76
0.66 0.13 0.21
Matches are distributed among these distances:
2 2 0.01
3 8 0.03
4 137 0.58
5 73 0.31
6 16 0.07
7 1 0.00
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.54
Consensus pattern (4 bp):
TATG
Found at i:104083437 original size:5 final size:5
Alignment explanation
Indices: 104083423--104083543 Score: 87
Period size: 5 Copynumber: 24.2 Consensus size: 5
104083413 TGTATATTTG
104083423 TATG- TATGT TATGT TATGT TATG- TATG- TATGT TATGTT TACTGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATG-T TA-TGT TATGT
* *
104083472 T-TGT ATATTT GTATGT TATG- TATTGT TATG- TATAT TATG- TATGT
1 TATGT -TATGT -TATGT TATGT TA-TGT TATGT TATGT TATGT TATGT
*
104083516 T-TGT TATGTGT TATAT TACTGT TATGT T
1 TATGT TA--TGT TATGT TA-TGT TATGT T
104083544 TGTAAATTAT
Statistics
Matches: 96, Mismatches: 7, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
4 28 0.29
5 43 0.45
6 18 0.19
7 7 0.07
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.59
Consensus pattern (5 bp):
TATGT
Found at i:104083529 original size:60 final size:60
Alignment explanation
Indices: 104083320--104083520 Score: 173
Period size: 56 Copynumber: 3.5 Consensus size: 60
104083310 TCTTTACTGT
*
104083320 TTAT-TTATG-TATGTATGTATGTTATGTTT--T-TAAATTGTTATGTATA--T-TATGTATG
1 TTATGTTATGTTATGTATGTATGTTATGTTTACTGT-TA-TGTT-TGTATATTTGTATGTATG
* * * * *
104083375 TAATG-TACTGTTAAGCATGTATGTTAT-ATT--TG-TATATTTGTATATTTGTATGTATG
1 TTATGTTA-TGTTATGTATGTATGTTATGTTTACTGTTATGTTTGTATATTTGTATGTATG
104083431 TTATGTTATGTTATGTATGTATGTTATGTTTACTGTTATGTTTGTATATTTGTATGTTATG
1 TTATGTTATGTTATGTATGTATGTTATGTTTACTGTTATGTTTGTATATTTGTATG-TATG
104083492 -TATTGTTATGTATAT-TATGTATGTT-TGTT
1 TTA-TGTTATGT-TATGTATGTATGTTATGTT
104083521 ATGTGTTATA
Statistics
Matches: 120, Mismatches: 11, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
53 6 0.05
54 3 0.03
55 7 0.06
56 34 0.28
57 18 0.15
59 2 0.02
60 25 0.21
61 22 0.18
62 3 0.03
ACGTcount: A:0.23, C:0.01, G:0.18, T:0.57
Consensus pattern (60 bp):
TTATGTTATGTTATGTATGTATGTTATGTTTACTGTTATGTTTGTATATTTGTATGTATG
Found at i:104083599 original size:71 final size:71
Alignment explanation
Indices: 104083460--104083600 Score: 171
Period size: 71 Copynumber: 2.0 Consensus size: 71
104083450 TATGTTATGT
* * * * * * *
104083460 TTACTGTTATGTTTGTATATTTGTATGTTATGTATTGTTATGTATATTATGTATGTTTGTTATGT
1 TTACTGTTATGTTTGTAAATTTGTATGTCATGTAATGTTATGTATACTATGTAGGTATATTATGT
104083525 GTTATA
66 GTTATA
104083531 TTACTGTTATGTTTGTAAATTATGTATGTCATGTTTAATG-TATGTATACTATGT-GGTATATTA
1 TTACTGTTATGTTTGTAAATT-TGTATGTCATG--TAATGTTATGTATACTATGTAGGTATATTA
104083594 T-TGTTAT
63 TGTGTTAT
104083601 GCGTATGTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
71 26 0.43
72 17 0.28
73 13 0.22
74 4 0.07
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.56
Consensus pattern (71 bp):
TTACTGTTATGTTTGTAAATTTGTATGTCATGTAATGTTATGTATACTATGTAGGTATATTATGT
GTTATA
Found at i:104084032 original size:24 final size:26
Alignment explanation
Indices: 104083996--104084044 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
104083986 GCGACTCTTT
*
104083996 TTTTTATATTAAAATATT-TTTTTTG
1 TTTTTATAATAAAATATTATTTTTTG
104084021 TTTTTA-AATAAAATATTATTTTTT
1 TTTTTATAATAAAATATTATTTTTT
104084045 TTATTTTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTATAATAAAATATTATTTTTTG
Found at i:104087412 original size:17 final size:18
Alignment explanation
Indices: 104087390--104087425 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
104087380 AGTTGACTAT
104087390 TTAAATTGA-AAAAAAAA
1 TTAAATTGATAAAAAAAA
*
104087407 TTAAATTGATAAATAAAA
1 TTAAATTGATAAAAAAAA
104087425 T
1 T
104087426 GCCAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
TTAAATTGATAAAAAAAA
Found at i:104087718 original size:33 final size:32
Alignment explanation
Indices: 104087644--104087756 Score: 118
Period size: 33 Copynumber: 3.4 Consensus size: 32
104087634 CTTGAGTCGA
* ** *
104087644 GAGGAGTGGAGTACGGCGATTGATACGGGTCAG
1 GAGGAGTGGAGTACGGCG-TGGATACGGACCGG
* *
104087677 GAGAAGTGGAGTACGGCAGTGGAGACGGACCGG
1 GAGGAGTGGAGTACGGC-GTGGATACGGACCGG
* *
104087710 GAGGAGTGGAGTATGGCGGTGTATACGGACCGG
1 GAGGAGTGGAGTACGGC-GTGGATACGGACCGG
*
104087743 AAGGAGTGGAGTAC
1 GAGGAGTGGAGTAC
104087757 TGAGATAGAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
33 65 0.98
34 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.47, T:0.15
Consensus pattern (32 bp):
GAGGAGTGGAGTACGGCGTGGATACGGACCGG
Found at i:104090377 original size:20 final size:21
Alignment explanation
Indices: 104090352--104090416 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 21
104090342 AATACATTAC
104090352 CTTTTT-TTTTCTTTCTTCTT
1 CTTTTTCTTTTCTTTCTTCTT
* *
104090372 CTTTTTCTCTT-TTTCTTCTC
1 CTTTTTCTTTTCTTTCTTCTT
104090392 CTTTCTCTCTTTTCTTTCTCTCTT
1 CTTT-T-TCTTTTCTTTCT-TCTT
104090416 C
1 C
104090417 CGGTGACTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 18 0.50
21 4 0.11
22 5 0.14
23 5 0.14
24 4 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTTTTCTTTTCTTTCTTCTT
Found at i:104092574 original size:42 final size:42
Alignment explanation
Indices: 104092528--104092666 Score: 152
Period size: 42 Copynumber: 3.3 Consensus size: 42
104092518 CGAAGGTTGC
* * *
104092528 ACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAA
* * * * *
104092570 ACAGAAGCTCGTAGGAGTTGAACAAAAACCCATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAA
* * * * *
104092612 ACTGAAGCTTAAAAGAGCTAAACGGAAACCCATTAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAA
*
104092654 ACAGAAACTCATA
1 ACAGAAGCTCATA
104092667 CGAGTTAACA
Statistics
Matches: 75, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.17
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAA
Found at i:104092673 original size:21 final size:21
Alignment explanation
Indices: 104092528--104092674 Score: 78
Period size: 21 Copynumber: 7.0 Consensus size: 21
104092518 CGAAGGTTGC
* * * *
104092528 ACAGAAGCACATAAGTGCTAA
1 ACAGAAACCCATAAGAGTTAA
* *
104092549 ACAGAAACCCATAAGGGTTGA
1 ACAGAAACCCATAAGAGTTAA
* * * * *
104092570 ACAGAAGCTCGTAGGAGTTGA
1 ACAGAAACCCATAAGAGTTAA
* *
104092591 ACAAAAACCCATAAGGGTTAA
1 ACAGAAACCCATAAGAGTTAA
* * ** * *
104092612 ACTGAAGCTTAAAAGAGCTAA
1 ACAGAAACCCATAAGAGTTAA
* * *
104092633 ACGGAAACCCATTAGGGTTAA
1 ACAGAAACCCATAAGAGTTAA
* *
104092654 ACAGAAACTCATACGAGTTAA
1 ACAGAAACCCATAAGAGTTAA
104092675 CAAAAGCTAA
Statistics
Matches: 88, Mismatches: 38, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 88 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (21 bp):
ACAGAAACCCATAAGAGTTAA
Found at i:104092778 original size:24 final size:24
Alignment explanation
Indices: 104092751--104092798 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
104092741 TACTTGAGTA
104092751 ATTTACCGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
* *
104092775 ATTTACCGTCACTTTATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
104092799 CACAGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.08, T:0.44
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCCTTTGC
Found at i:104103530 original size:19 final size:19
Alignment explanation
Indices: 104103498--104103538 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
104103488 AACGGTTTTG
104103498 AAATAATTTATAA-TGATA
1 AAATAATTTATAATTGATA
*
104103516 AAATAAATTTTTAATTGATA
1 AAAT-AATTTATAATTGATA
104103536 AAA
1 AAA
104103539 ATTAGTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
AAATAATTTATAATTGATA
Found at i:104104055 original size:40 final size:37
Alignment explanation
Indices: 104103989--104104123 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
104103979 CATGGCAAAG
*
104103989 TGTGAAATGTAGGTATGGTA-TT-ATCCATATTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
104104024 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * * *
104104064 TAAGAAACGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
*
104104099 TGTAAAATGTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
104104124 ATGAGGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 49 0.59
36 1 0.01
37 1 0.01
39 2 0.02
40 30 0.36
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:104112449 original size:20 final size:20
Alignment explanation
Indices: 104112424--104112467 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
104112414 GCAACCCAAT
104112424 TTTTAT-TT-TTATTTTATTTA
1 TTTTATCTTATTA-TTTA-TTA
104112444 TTTTATCTTATTATTTATTA
1 TTTTATCTTATTATTTATTA
104112464 TTTT
1 TTTT
104112468 CAGATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 13 0.59
21 6 0.27
22 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATCTTATTATTTATTA
Found at i:104113398 original size:98 final size:99
Alignment explanation
Indices: 104113216--104113408 Score: 270
Period size: 97 Copynumber: 1.9 Consensus size: 99
104113206 TTAAGAATGC
*
104113216 GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGGTTGTCATCACTCTTCGCGTCAAAAGGTTCGAC
1 GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGGTTGTCATCACTCTTCGCGTCAAAAGGTTCAAC
* * *
104113281 ATGTTCTTAGGAAAAAT-AA-AAAATAAAAAGTAT
66 A-GTACATAGCAAAAATAAATAAAATAAAAAGTAT
104113314 GTTGGGCTGAGTAACCGGGGTTTGGTGCTT-GGTTGTCATCACTCTTCGCGTCAAAAGGTTCAAC
1 GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGGTTGTCATCACTCTTCGCGTCAAAAGGTTCAAC
104113378 A-TACATA-CACACATACATAAATAAAATAAAA
66 AGTACATAGCA-A-A-A-ATAAATAAAATAAAA
104113409 TAAAAAGTAA
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
94 1 0.01
95 5 0.06
96 1 0.01
97 35 0.41
98 32 0.38
99 2 0.02
100 9 0.11
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (99 bp):
GTTGGGCTGAGTAACCGGGGTTTGGTGCTTGGGTTGTCATCACTCTTCGCGTCAAAAGGTTCAAC
AGTACATAGCAAAAATAAATAAAATAAAAAGTAT
Found at i:104114721 original size:54 final size:54
Alignment explanation
Indices: 104114645--104114785 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 54
104114635 GTGACGAAGT
104114645 CACCAGATACAGA-AATTGTGGCAGT-GCCACCAGAACAGATATATATGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCA-TAGCCACCAGAACAGATATATATGGCAGAGC
** *
104114699 CACCAGATCAGATAATCATGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
*
104114753 CACCAGGTCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
104114786 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:104114786 original size:27 final size:27
Alignment explanation
Indices: 104114645--104114785 Score: 146
Period size: 27 Copynumber: 5.2 Consensus size: 27
104114635 GTGACGAAGT
104114645 CACCAGATACAGA-AATTGTGGCAGT-GC
1 CACCAGAT-CAGATAATTGTGGCA-TAGC
* * *
104114672 CACCAGAACAGAT-ATATATGGCAGAGC
1 CACCAGATCAGATAAT-TGTGGCATAGC
**
104114699 CACCAGATCAGATAATCATGGCATAGC
1 CACCAGATCAGATAATTGTGGCATAGC
* *
104114726 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAAT-TGTGGCATAGC
*
104114753 CACCAGGTCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCATAGC
104114780 CACCAG
1 CACCAG
104114786 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
26 8 0.08
27 83 0.87
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCATAGC
Found at i:104116422 original size:26 final size:26
Alignment explanation
Indices: 104116391--104116472 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
104116381 TGAAATGCCC
*
104116391 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
104116417 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104116443 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104116469 ATCA
1 ATCA
104116473 ATTTTTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104116833 original size:24 final size:24
Alignment explanation
Indices: 104116805--104116855 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
104116795 AGTTGAGGGT
104116805 ATTGTTGACGCATAGTCTCTTCTG
1 ATTGTTGACGCATAGTCTCTTCTG
104116829 ATTGTTGACGCATAGTCTCTTCTG
1 ATTGTTGACGCATAGTCTCTTCTG
104116853 ATT
1 ATT
104116856 CCCAAGTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (24 bp):
ATTGTTGACGCATAGTCTCTTCTG
Found at i:104121741 original size:27 final size:27
Alignment explanation
Indices: 104121691--104121849 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
104121681 GCGAGACTGC
* *
104121691 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
104121718 CAGATATTGTGGCAGAGCCGCCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
104121744 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
104121771 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
104121798 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
104121825 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
104121850 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:104121784 original size:54 final size:54
Alignment explanation
Indices: 104121709--104121849 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
104121699 GTGACGAAGT
* *
104121709 CACCAGATACAGAT-ATTGTGGCAGAGCCGCCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
104121763 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
104121817 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
104121850 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:104123491 original size:26 final size:26
Alignment explanation
Indices: 104123455--104123536 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
104123445 TGAAATGCCC
* *
104123455 ATCATGGAACATTTACCTAAACTATT
1 ATCATGGAACATTTACCTAACCCATT
104123481 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
104123507 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104123533 ATCA
1 ATCA
104123537 ATTTTTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104123543 original size:22 final size:23
Alignment explanation
Indices: 104123491--104123543 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
104123481 ATCATGGAAC
104123491 ATTTACCTAACCCATTATCATGGAAT
1 ATTTACCTAACCCATTATC---GAAT
104123517 ATTTACCTAACCCATTATC-AAT
1 ATTTACCTAACCCATTATCGAAT
*
104123539 TTTTA
1 ATTTA
104123544 TCAATTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
26 19 0.73
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTACCTAACCCATTATCGAAT
Found at i:104124138 original size:15 final size:15
Alignment explanation
Indices: 104124118--104124147 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
104124108 CATTTTATTT
104124118 ATATTAGGATAATTA
1 ATATTAGGATAATTA
104124133 ATATTAGGATAATTA
1 ATATTAGGATAATTA
104124148 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:104133939 original size:30 final size:30
Alignment explanation
Indices: 104133882--104133939 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
104133872 CACGGCCATG
* *
104133882 ACACATGGGAGTGTGGTCTACCTGTGTGTC
1 ACACACGGGAGTGTGGTCTACCCGTGTGTC
*
104133912 ACACACGGGTGTGTGGATC-ACCCGTGTG
1 ACACACGGGAGTGTGG-TCTACCCGTGTG
104133940 AAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.26
Consensus pattern (30 bp):
ACACACGGGAGTGTGGTCTACCCGTGTGTC
Found at i:104135575 original size:22 final size:23
Alignment explanation
Indices: 104135532--104135575 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
104135522 TAATAAATCA
* *
104135532 TAAACAGAAACAAATCTCTTTTC
1 TAAACAGAAAAAAATATCTTTTC
*
104135555 TAAA-AGAAAAAAATATGTTTT
1 TAAACAGAAAAAAATATCTTTT
104135576 AAAAAATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (23 bp):
TAAACAGAAAAAAATATCTTTTC
Found at i:104138271 original size:20 final size:19
Alignment explanation
Indices: 104138242--104138280 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
104138232 ATATTCTTTG
104138242 AAAATTTCAATTATGTAAT
1 AAAATTTCAATTATGTAAT
104138261 AAAAGTTTCAATTATGTAAT
1 AAAA-TTTCAATTATGTAAT
104138281 GATGTAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
AAAATTTCAATTATGTAAT
Found at i:104138409 original size:18 final size:18
Alignment explanation
Indices: 104138386--104138425 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
104138376 ATCAAAACTT
104138386 GTTTCTCCAAATTCTTAA
1 GTTTCTCCAAATTCTTAA
*
104138404 GTTTCTCCAAATTTTTAA
1 GTTTCTCCAAATTCTTAA
104138422 GTTT
1 GTTT
104138426 TTAAAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.50
Consensus pattern (18 bp):
GTTTCTCCAAATTCTTAA
Found at i:104147399 original size:18 final size:18
Alignment explanation
Indices: 104147365--104147400 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
104147355 ATTTTTAATA
* *
104147365 ATTTTATAGAGTTTATAT
1 ATTTTATAGACTGTATAT
104147383 ATTTTATAGACTGTATAT
1 ATTTTATAGACTGTATAT
104147401 TTTCAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTTATAGACTGTATAT
Found at i:104147468 original size:17 final size:19
Alignment explanation
Indices: 104147442--104147479 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
104147432 TATTTCAGAC
104147442 TTTTTATATTT-T-TAATT
1 TTTTTATATTTCTATAATT
*
104147459 TTTTTCTATTTCTATAATT
1 TTTTTATATTTCTATAATT
104147478 TT
1 TT
104147480 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTATATTTCTATAATT
Found at i:104147514 original size:29 final size:27
Alignment explanation
Indices: 104147442--104147529 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 27
104147432 TATTTCAGAC
* * *
104147442 TTTTTATATTTTTAATTTTTT-TCT-A
1 TTTTTAGATTTTAAATTTTTTATATAA
104147467 TTTCTATA-ATTTTAAATTTTTTAATATATA
1 TTT-T-TAGATTTTAAATTTTTT-ATATA-A
* *
104147497 TTTTTAGATTTTAGATTTTTTTTATAA
1 TTTTTAGATTTTAAATTTTTTATATAA
104147524 TTTTTA
1 TTTTTA
104147530 AAATTTGTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 3 0.06
26 14 0.27
27 9 0.17
28 8 0.15
29 14 0.27
30 4 0.08
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTTAGATTTTAAATTTTTTATATAA
Found at i:104147535 original size:28 final size:28
Alignment explanation
Indices: 104147449--104147535 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 28
104147439 GACTTTTTAT
* * * *
104147449 ATTTTTAA-TTTTTTTCT-ATTTCTATA
1 ATTTTAAATTTTTTTTATAATTTTTAAA
* *
104147475 ATTTTAAATTTTTTAATATATATTTTT-AG
1 ATTTTAAATTTTTT-TTATA-ATTTTTAAA
*
104147504 ATTTTAGATTTTTTTTATAATTTTTAAA
1 ATTTTAAATTTTTTTTATAATTTTTAAA
104147532 ATTT
1 ATTT
104147536 GTATATATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
26 7 0.15
27 11 0.23
28 11 0.23
29 13 0.28
30 5 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (28 bp):
ATTTTAAATTTTTTTTATAATTTTTAAA
Found at i:104148516 original size:27 final size:27
Alignment explanation
Indices: 104148478--104148552 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
104148468 GAGTATGGTG
*
104148478 CCTATCTGATAGGTGGCACCAATGACC
1 CCTATCTGATAGGCGGCACCAATGACC
* * ***
104148505 CCTATCTAATAGGCAGCACTGGTGACC
1 CCTATCTGATAGGCGGCACCAATGACC
104148532 CCTATCTGATAGGCGGCACCA
1 CCTATCTGATAGGCGGCACCA
104148553 GTACCATTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACCAATGACC
Found at i:104153209 original size:3 final size:3
Alignment explanation
Indices: 104153201--104153238 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
104153191 AGATATTTAC
104153201 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
104153239 TACAAATGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:104160739 original size:3 final size:3
Alignment explanation
Indices: 104160731--104160774 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
104160721 AGATATTTAC
* *
104160731 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
104160775 TACAAATGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:104160923 original size:16 final size:16
Alignment explanation
Indices: 104160899--104160929 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104160889 TAAGTAAATA
*
104160899 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
104160915 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
104160930 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:104163419 original size:13 final size:13
Alignment explanation
Indices: 104163401--104163427 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
104163391 TCAGTAATCG
104163401 CACACGGGCGTGT
1 CACACGGGCGTGT
104163414 CACACGGGCGTGT
1 CACACGGGCGTGT
104163427 C
1 C
104163428 CCTGCTGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:104168095 original size:65 final size:62
Alignment explanation
Indices: 104167932--104168096 Score: 174
Period size: 62 Copynumber: 2.6 Consensus size: 62
104167922 CAATGTTACT
** *
104167932 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATTTAATTTATATAACAA
1 AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAATTTATATAACAA
** * *
104167994 AATTTATATTACAAAGTATGTTCCAAGTTTTAATGTTGTAATGT-TGTAATGTTGCA-ATTAATC
1 AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAAT-TT--ATA-TAA-C
*
104168057 -T
61 AA
*
104168058 AATTTATGACCATAAAGTTTGTTCCAAGTTTTAATGTTG
1 AATTTAT-ACCACAAAGTTTGTTCCAAGTTTTAATGTTG
104168097 CAATTAATCT
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
61 5 0.06
62 44 0.49
63 1 0.01
64 11 0.12
65 28 0.31
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (62 bp):
AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAATTTATATAACAA
Found at i:104168580 original size:6 final size:6
Alignment explanation
Indices: 104168566--104168625 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
104168556 GTATGCGACC
* * * * *
104168566 GCTCGG GCTCAG GCTCGG GCTCGG GCTCAG GCTCGA GCTCTG GCTCTG
1 GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG
*
104168614 GCTCTG GCTCGG
1 GCTCGG GCTCGG
104168626 CCTCTATCTC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.05, C:0.33, G:0.40, T:0.22
Consensus pattern (6 bp):
GCTCGG
Found at i:104168589 original size:18 final size:18
Alignment explanation
Indices: 104168566--104168625 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
104168556 GTATGCGACC
104168566 GCTCGGGCTCAGGCTCGG
1 GCTCGGGCTCAGGCTCGG
*
104168584 GCTCGGGCTCAGGCTCGA
1 GCTCGGGCTCAGGCTCGG
* * *
104168602 GCTCTGGCTCTGGCTCTG
1 GCTCGGGCTCAGGCTCGG
104168620 GCTCGG
1 GCTCGG
104168626 CCTCTATCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.05, C:0.33, G:0.40, T:0.22
Consensus pattern (18 bp):
GCTCGGGCTCAGGCTCGG
Found at i:104169283 original size:14 final size:14
Alignment explanation
Indices: 104169264--104169300 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
104169254 TAAATTACAT
*
104169264 GTTAGAGTAGTATC
1 GTTAGAATAGTATC
104169278 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
104169292 ATTAGAATA
1 GTTAGAATA
104169301 AAATGTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:104171337 original size:19 final size:18
Alignment explanation
Indices: 104171304--104171342 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
104171294 ATTTTTTTCC
104171304 TTCTCTTTCTCCTTCCCT
1 TTCTCTTTCTCCTTCCCT
* *
104171322 TTCTCTATTCTGCTTCTCT
1 TTCTCT-TTCTCCTTCCCT
104171341 TT
1 TT
104171343 TTTTCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.36, G:0.03, T:0.59
Consensus pattern (18 bp):
TTCTCTTTCTCCTTCCCT
Found at i:104175277 original size:24 final size:25
Alignment explanation
Indices: 104175250--104175298 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
104175240 CTTTTTTTAT
*
104175250 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
104175274 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
104175299 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:104175291 original size:25 final size:23
Alignment explanation
Indices: 104175262--104175307 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
104175252 AATAAAAAAC
*
104175262 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
104175287 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
104175308 TTAAAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:104181895 original size:70 final size:72
Alignment explanation
Indices: 104181781--104181931 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
104181771 GGGGAATCAT
* *
104181781 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
104181845 GATATCG
66 GATATCG
***
104181852 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
104181916 GATATCG
66 GATATCG
104181923 CACTTAGCA
1 CACTTAGCA
104181932 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:104182035 original size:104 final size:103
Alignment explanation
Indices: 104181851--104182073 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
104181841 AATGGATATC
104181851 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
104181916 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
104181954 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
104182019 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
104182058 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
104182074 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:104182495 original size:49 final size:52
Alignment explanation
Indices: 104182390--104182501 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 52
104182380 ATTTATTAAA
*
104182390 ATAATCCACCACCCAACTTTTTGAAAATTACAATTTTGCCCCCAAACTTTTGC
1 ATAATCTA-CACCCAACTTTTTGAAAATTACAATTTTGCCCCCAAACTTTTGC
104182443 ATAATCTACACCCAAC-TTTTGAAAATTACAA-TTTG-CCCCAAACTTTTGC
1 ATAATCTACACCCAACTTTTTGAAAATTACAATTTTGCCCCCAAACTTTTGC
104182492 ATAAT-TACAC
1 ATAATCTACAC
104182502 TTTGTCCCCA
Statistics
Matches: 58, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
48 5 0.09
49 19 0.33
50 4 0.07
51 15 0.26
52 8 0.14
53 7 0.12
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (52 bp):
ATAATCTACACCCAACTTTTTGAAAATTACAATTTTGCCCCCAAACTTTTGC
Found at i:104182505 original size:28 final size:28
Alignment explanation
Indices: 104182456--104182512 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
104182446 ATCTACACCC
104182456 AACTTTTGAAAATTACAATTTG-CCCCA
1 AACTTTTGAAAATTACAATTTGTCCCCA
* *
104182483 AACTTTTGCATAATTACACTTTGTCCCCA
1 AACTTTTG-AAAATTACAATTTGTCCCCA
104182512 A
1 A
104182513 GCTCGGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.31
28 12 0.46
29 6 0.23
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (28 bp):
AACTTTTGAAAATTACAATTTGTCCCCA
Found at i:104184497 original size:21 final size:21
Alignment explanation
Indices: 104184471--104184516 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
104184461 CCGATGGCAC
104184471 TTGATGCTCAGCCTTCACTTG
1 TTGATGCTCAGCCTTCACTTG
104184492 TTGATGCTCAGCCTTCACTTG
1 TTGATGCTCAGCCTTCACTTG
104184513 TTGA
1 TTGA
104184517 CAGATTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (21 bp):
TTGATGCTCAGCCTTCACTTG
Found at i:104189599 original size:26 final size:26
Alignment explanation
Indices: 104189569--104189619 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
104189559 ACCAATGAAC
*
104189569 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
104189595 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
104189620 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:104189659 original size:103 final size:104
Alignment explanation
Indices: 104189475--104189697 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
104189465 AATGGATATC
104189475 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
104189540 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
104189579 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
104189643 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
104189682 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
104189698 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:104190059 original size:29 final size:29
Alignment explanation
Indices: 104190026--104190089 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
104190016 TAATCCACCA
104190026 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
104190055 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
104190085 CCCAA
1 CCCAA
104190090 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:104190063 original size:30 final size:30
Alignment explanation
Indices: 104190033--104190089 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
104190023 CCACCCAACT
104190033 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
104190062 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
104190090 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:104196827 original size:25 final size:24
Alignment explanation
Indices: 104196679--104196828 Score: 65
Period size: 26 Copynumber: 6.0 Consensus size: 24
104196669 TTATGAGCGA
104196679 CCCGATACATGGCTCTTCGTGAGCTT
1 CCCGATA-ATGGCTCTTCG-GAGCTT
** * *
104196705 CCCGATTAAAAGATCTTTGTGAGCTT
1 CCCGA-TAATGGCTCTTCG-GAGCTT
* * *
104196731 CCTGATTAATTGGCTCTCCAGAGCTT
1 CCCGA-TAA-TGGCTCTTCGGAGCTT
*
104196757 CCCGAT-ATGGCTCACTT--GAACTT
1 CCCGATAATGGCT--CTTCGGAGCTT
* * * *
104196780 TCTGATATATGGCT-ATCTAGAGCTT
1 CCCGATA-ATGGCTCTTC-GGAGCTT
104196805 CCCGATTAATGGCTCTTCGGAGCT
1 CCCGA-TAATGGCTCTTCGGAGCT
104196829 ACCTGTTATT
Statistics
Matches: 91, Mismatches: 22, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
22 1 0.01
23 14 0.15
24 1 0.01
25 28 0.31
26 41 0.45
27 6 0.07
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (24 bp):
CCCGATAATGGCTCTTCGGAGCTT
Found at i:104196842 original size:74 final size:73
Alignment explanation
Indices: 104196725--104196866 Score: 169
Period size: 74 Copynumber: 1.9 Consensus size: 73
104196715 AGATCTTTGT
* * * *
104196725 GAGCTTCCTGATTAATTGGCTCTCCAGAGCTTCCCGATATGGCTCACTTGAACTTTCTGATATAT
1 GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCCTGAT-TAT
104196790 GGCTATCTA
65 GGCTATCTA
* * * * * *
104196799 GAGCTTCCCGATTAA-TGGCTCTTCGGAGCTACCTGTTATTGGCTCGCATGAGCTTCCTGATTAT
1 GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATA-TGGCTCACATGAACTTCCTGATTAT
104196863 GGCT
65 GGCT
104196867 CTTATGAGTT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
73 25 0.44
74 32 0.56
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (73 bp):
GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCCTGATTATG
GCTATCTA
Found at i:104196873 original size:24 final size:24
Alignment explanation
Indices: 104196724--104196879 Score: 88
Period size: 25 Copynumber: 6.4 Consensus size: 24
104196714 AAGATCTTTG
*
104196724 TGAGCTTCCTGATTAATTGGCTCTCCA
1 TGAGCTTCCTGATT-A-TGGCTCT-TA
* *
104196751 -GAGCTTCCCGA-TATGGCTCACT-
1 TGAGCTTCCTGATTATGGCTC-TTA
* * *
104196773 TGAACTTTCTGATATATGGCTATCTA
1 TGAGCTTCCTGAT-TATGGCTCT-TA
* *
104196799 -GAGCTTCCCGATTAATGGCTCTTC
1 TGAGCTTCCTGATT-ATGGCTCTTA
* * **
104196823 GGAGCTACCTG-TTATTGGCTCGCA
1 TGAGCTTCCTGATTA-TGGCTCTTA
104196847 TGAGCTTCCTGATTATGGCTCTTA
1 TGAGCTTCCTGATTATGGCTCTTA
*
104196871 TGAGTTTCC
1 TGAGCTTCC
104196880 CGTTATACAG
Statistics
Matches: 96, Mismatches: 23, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
23 15 0.16
24 35 0.36
25 36 0.38
26 10 0.10
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (24 bp):
TGAGCTTCCTGATTATGGCTCTTA
Found at i:104196939 original size:25 final size:25
Alignment explanation
Indices: 104196751--104196942 Score: 94
Period size: 25 Copynumber: 7.8 Consensus size: 25
104196741 TGGCTCTCCA
*
104196751 GAGCTTCCCG--ATATGGCTCACTT
1 GAGCTTCCCGTTATATGGCTCACAT
* * * *
104196774 GAACTTTCTGATATATGGCT-ATC-T
1 GAGCTTCCCGTTATATGGCTCA-CAT
* *
104196798 AGAGCTTCCCGATTA-ATGGCTCTTC-G
1 -GAGCTTCCCG-TTATATGGCTC-ACAT
* * *
104196824 GAGCTACCTGTTAT-TGGCTCGCAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
104196848 GAGCTTCCTGAT-TATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* ** *
104196872 GAGTTTCCCGTTATACAGCTCAGAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *
104196897 AAGCTTCCTGTTACATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
104196922 GAGCTTCCCATTATATGGCTC
1 GAGCTTCCCGTTATATGGCTC
104196943 GAGAGAGAGC
Statistics
Matches: 123, Mismatches: 35, Indels: 20
0.69 0.20 0.11
Matches are distributed among these distances:
23 9 0.07
24 38 0.31
25 73 0.59
26 3 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:104199356 original size:27 final size:27
Alignment explanation
Indices: 104199295--104199356 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
104199285 CCAACGTCAG
**
104199295 TCTCCACATCAATCACCACAAAGTTCG
1 TCTCCACATCAATCACCACAAAGTTAA
* *
104199322 TCTCCACATCAATCACCATAGAGTTAA
1 TCTCCACATCAATCACCACAAAGTTAA
*
104199349 TCTTCACA
1 TCTCCACA
104199357 AATTCAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (27 bp):
TCTCCACATCAATCACCACAAAGTTAA
Found at i:104203886 original size:30 final size:30
Alignment explanation
Indices: 104203806--104203896 Score: 123
Period size: 29 Copynumber: 3.1 Consensus size: 30
104203796 AAAATTTTTT
* *
104203806 ATTTT-CCCCTAAAATTTTTGCACCCTCCC
1 ATTTTCCCCCTAAAATTTTTACTCCCTCCC
*
104203835 ACTTTCCCCCTAAAA-TTTTACTCCCTCCC
1 ATTTTCCCCCTAAAATTTTTACTCCCTCCC
*
104203864 ATTTTCCCCCTAAAATTTTTACTTCCTTCCC
1 ATTTTCCCCCTAAAATTTTTAC-TCCCTCCC
104203895 AT
1 AT
104203897 CCCACCTCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 30 0.56
30 15 0.28
31 9 0.17
ACGTcount: A:0.21, C:0.38, G:0.01, T:0.40
Consensus pattern (30 bp):
ATTTTCCCCCTAAAATTTTTACTCCCTCCC
Found at i:104204339 original size:16 final size:18
Alignment explanation
Indices: 104204306--104204340 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
104204296 AAAAATCATA
104204306 TTTTTACATTTAATATAT
1 TTTTTACATTTAATATAT
104204324 TTTTTA-ATTTCAATATA
1 TTTTTACATTT-AATATA
104204341 CATAGTGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTACATTTAATATAT
Found at i:104207490 original size:2 final size:2
Alignment explanation
Indices: 104207483--104207521 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
104207473 TTCAAGGTAA
104207483 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
104207522 TATATATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:104211275 original size:27 final size:27
Alignment explanation
Indices: 104211243--104211327 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
104211233 CCTAATTATT
*
104211243 TGAATTATGTTAGAATCCATGATTGAG
1 TGAATTATGTTAGAATCCATGATTGAA
* *
104211270 TGAATTA--TTAG-GTCCTTGATT-ATA
1 TGAATTATGTTAGAATCCATGATTGA-A
*
104211294 TGAATTATGTTAGAATCCATGATTGAC
1 TGAATTATGTTAGAATCCATGATTGAA
104211321 TGAATTA
1 TGAATTA
104211328 ATTCGGTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
23 1 0.02
24 15 0.32
25 4 0.09
26 4 0.09
27 22 0.47
28 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
TGAATTATGTTAGAATCCATGATTGAA
Found at i:104211292 original size:51 final size:51
Alignment explanation
Indices: 104211225--104211327 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
104211215 AAATTATACA
* *
104211225 ATTAGGTCCCTAATTATTTGAATTATGTTAGAATCCATGATTGAGTGAATT
1 ATTAGGTCCCTAATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
* *
104211276 ATTAGGTCCTTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
1 ATTAGGTCCCTAATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
104211327 A
1 A
104211328 ATTCGGTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (51 bp):
ATTAGGTCCCTAATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
Found at i:104214375 original size:6 final size:6
Alignment explanation
Indices: 104214366--104214393 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
104214356 AATAAAATAA
104214366 ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATAT
104214394 ATTTTATAAT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:104214401 original size:21 final size:20
Alignment explanation
Indices: 104214371--104214411 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
104214361 AATAAATATT
* *
104214371 TATATTTATATTTATATTTA
1 TATATTTATAATTAAATTTA
104214391 TATATTTTATAATTAAATTTA
1 TATA-TTTATAATTAAATTTA
104214412 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTTATAATTAAATTTA
Found at i:104220894 original size:20 final size:20
Alignment explanation
Indices: 104220869--104220909 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
104220859 ATTGGATGTG
104220869 ATACACCACAGTTTCCAGGA
1 ATACACCACAGTTTCCAGGA
104220889 ATACACCACAGTTTCCAGGA
1 ATACACCACAGTTTCCAGGA
104220909 A
1 A
104220910 AGACTACTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.20
Consensus pattern (20 bp):
ATACACCACAGTTTCCAGGA
Found at i:104223116 original size:9 final size:9
Alignment explanation
Indices: 104223102--104223126 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
104223092 TAATAATATC
104223102 TTCTTCATA
1 TTCTTCATA
104223111 TTCTTCATA
1 TTCTTCATA
104223120 TTCTTCA
1 TTCTTCA
104223127 CAGGTTTAGG
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:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (9 bp):
TTCTTCATA
Found at i:104224073 original size:19 final size:20
Alignment explanation
Indices: 104224051--104224091 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
104224041 TATTTATACA
*
104224051 AAATGTAATA-ATTAAGAAT
1 AAATGTAATATATTAAAAAT
*
104224070 AAATTTAATATATTAAAAAT
1 AAATGTAATATATTAAAAAT
104224090 AA
1 AA
104224092 TAGTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATGTAATATATTAAAAAT
Found at i:104224476 original size:29 final size:25
Alignment explanation
Indices: 104224415--104224479 Score: 67
Period size: 29 Copynumber: 2.4 Consensus size: 25
104224405 ACTCTCTTTA
*
104224415 TTTTATTTTAATTTATAATTTAATC
1 TTTTATTTTTATTTATAATTTAATC
*
104224440 TCTATATTTTTATTTATACAAATTTAATTC
1 T-TTTATTTTTATTTAT---AATTTAA-TC
104224470 TTTTATTTTT
1 TTTTATTTTT
104224480 TTTTTTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 1 0.03
26 13 0.41
29 15 0.47
30 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTATTTTTATTTATAATTTAATC
Found at i:104225317 original size:20 final size:21
Alignment explanation
Indices: 104225283--104225329 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
104225273 TAAGAAATAC
104225283 CATAAAATTCTTAAAAATTTT
1 CATAAAATTCTTAAAAATTTT
*
104225304 CATAATATTC-TAAAAATTTT
1 CATAAAATTCTTAAAAATTTT
104225324 C-TAAAA
1 CATAAAA
104225330 ACAATACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 9 0.38
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (21 bp):
CATAAAATTCTTAAAAATTTT
Found at i:104232277 original size:35 final size:35
Alignment explanation
Indices: 104232229--104232393 Score: 188
Period size: 35 Copynumber: 4.6 Consensus size: 35
104232219 CTCATTGAAG
** *
104232229 TACCATACCTACATTTTTCAACTCGGTATGGGA-AA
1 TACCATACCTACATTTCACAACTCAGTAT-GGATAA
* **
104232264 TGCCATACCTACATTTCTTAACTCAGTATGGATTTGATAA
1 TACCATACCTACATTTCACAACTCAGTAT-G----GATAA
*
104232304 TACCATACCTACATTTCACAGCTCAGTATGGATAA
1 TACCATACCTACATTTCACAACTCAGTATGGATAA
* *
104232339 TACCATACCTACATTTCACAACTTAGTATGGATGA
1 TACCATACCTACATTTCACAACTCAGTATGGATAA
104232374 TACCATACCTACATTTCACA
1 TACCATACCTACATTTCACA
104232394 CTTTGCCATG
Statistics
Matches: 114, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
35 84 0.74
39 3 0.03
40 27 0.24
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
TACCATACCTACATTTCACAACTCAGTATGGATAA
Found at i:104232310 original size:75 final size:70
Alignment explanation
Indices: 104232229--104232393 Score: 197
Period size: 75 Copynumber: 2.3 Consensus size: 70
104232219 CTCATTGAAG
** * * **
104232229 TACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACTCAGTAT
1 TACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACTCAGTAT
104232293 GGATTTGATAA
65 GGA--TG---A
* *
104232304 TACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACTTAGTATG
1 TACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTCAGTATG
104232369 GATGA
66 GATGA
104232374 TACCATACCTACATTTCACA
1 TACCATACCTACATTTCACA
104232394 CTTTGCCATG
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
70 21 0.26
73 2 0.02
74 3 0.04
75 55 0.68
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (70 bp):
TACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTCAGTATG
GATGA
Found at i:104233085 original size:61 final size:61
Alignment explanation
Indices: 104233010--104233131 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
104233000 AATTAGAACT
*
104233010 TAAATTTCATAATAATTCATCATAAAATTTCCTTATCCATCCAGGGTAACTTCCAATTTCA
1 TAAATTTCATAATAATTCATCATAAAATTCCCTTATCCATCCAGGGTAACTTCCAATTTCA
104233071 TAAATTTCATAATAATTCATCATAAAATTCCCTTATCCATCCAGGGTAACTTCCAATTTCA
1 TAAATTTCATAATAATTCATCATAAAATTCCCTTATCCATCCAGGGTAACTTCCAATTTCA
104233132 CCCATAAAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.37
Consensus pattern (61 bp):
TAAATTTCATAATAATTCATCATAAAATTCCCTTATCCATCCAGGGTAACTTCCAATTTCA
Found at i:104237574 original size:42 final size:42
Alignment explanation
Indices: 104237525--104237652 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
104237515 CTTCGTTTTC
** *
104237525 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
104237568 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
104237609 TCGATGCCATAGCCCAACTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
104237650 TCG
1 TCG
104237653 CACTGATGCC
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 11 0.14
42 63 0.83
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:104237677 original size:46 final size:46
Alignment explanation
Indices: 104237610--104237729 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 46
104237600 ATTCATATAT
* * *
104237610 CGATGCCATAGCCCA-ACTATGGTCTTA-CACGAATCACATATCGCAC
1 CGATGCCATATCCCAGA-TATGGTCTTAGCA-GAAGCACATATCACAC
* * *
104237656 TGATGCCATATCCCAGATATGGTCTTATGCAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTA-GCAGAAGCACATATCACAC
104237703 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
104237730 TATGGAAATC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
46 23 0.36
47 39 0.61
48 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTAGCAGAAGCACATATCACAC
Found at i:104237793 original size:31 final size:31
Alignment explanation
Indices: 104237758--104237844 Score: 140
Period size: 31 Copynumber: 2.8 Consensus size: 31
104237748 CTTGTCACTT
*
104237758 GTAGCC-GACGCTACCACTATTCACTGATCAG
1 GTAGCCGGA-GCTACCACTTTTCACTGATCAG
*
104237789 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
104237820 GTAGCCGGAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
104237845 TTTCATTTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
31 50 0.96
32 2 0.04
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Done.