Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 68 of 153
Found at i:21736145 original size:17 final size:17
Alignment explanation
Indices: 21736095--21736150 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
21736085 TACTTGAAAA
21736095 AAAATTATATATTTAAT
1 AAAATTATATATTTAAT
*
21736112 AATATTAT-TA-TT--T
1 AAAATTATATATTTAAT
21736125 -AAATTATATATTTAAT
1 AAAATTATATATTTAAT
21736141 AAAATT-TATA
1 AAAATTATATA
21736151 AATGTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
12 6 0.19
13 3 0.09
14 2 0.06
15 2 0.06
16 7 0.22
17 12 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAATTATATATTTAAT
Found at i:21736999 original size:14 final size:15
Alignment explanation
Indices: 21736982--21737011 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
21736972 TTGATTAAAT
21736982 TAATAAAG-TTAAGA
1 TAATAAAGATTAAGA
21736996 TAATAAAGATTAAGA
1 TAATAAAGATTAAGA
21737011 T
1 T
21737012 GTTTTGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
TAATAAAGATTAAGA
Found at i:21741922 original size:20 final size:22
Alignment explanation
Indices: 21741882--21741922 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
21741872 ATAGCAGTTG
21741882 ACAACGAAACAATCGATTGAAA
1 ACAACGAAACAATCGATTGAAA
21741904 ACAA-GAAACAATC-ATTGAA
1 ACAACGAAACAATCGATTGAA
21741923 CAGAGGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.56, C:0.17, G:0.12, T:0.15
Consensus pattern (22 bp):
ACAACGAAACAATCGATTGAAA
Found at i:21744668 original size:22 final size:22
Alignment explanation
Indices: 21744640--21744685 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21744630 AGTTTATAGT
21744640 AAAATCATCATTTCACATCATC
1 AAAATCATCATTTCACATCATC
21744662 AAAATCATCATTTCACATCATC
1 AAAATCATCATTTCACATCATC
21744684 AA
1 AA
21744686 TCATGCAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATCATCATTTCACATCATC
Found at i:21746122 original size:17 final size:18
Alignment explanation
Indices: 21746049--21746123 Score: 61
Period size: 17 Copynumber: 4.3 Consensus size: 18
21746039 GTTGTCGATT
21746049 TTGAAATGGTAAATGT-TA
1 TTGAAATGG-AAATGTGTA
* *
21746067 TTGAATTGGAAATG-CTA
1 TTGAAATGGAAATGTGTA
* *
21746084 TTGAAATAGCAA-GTG-A
1 TTGAAATGGAAATGTGTA
21746100 TATGAAAT-GAAATGTGTA
1 T-TGAAATGGAAATGTGTA
21746118 TTGAAA
1 TTGAAA
21746124 CCAAAATGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
16 6 0.13
17 30 0.65
18 10 0.22
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (18 bp):
TTGAAATGGAAATGTGTA
Found at i:21749420 original size:17 final size:17
Alignment explanation
Indices: 21749398--21749430 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21749388 GATATGATAC
21749398 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
21749415 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
21749431 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:21749431 original size:18 final size:17
Alignment explanation
Indices: 21749398--21749431 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21749388 GATATGATAC
*
21749398 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
21749415 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
21749432 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:21749722 original size:22 final size:21
Alignment explanation
Indices: 21749687--21749760 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 21
21749677 AAAAGGTATC
* *
21749687 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
21749708 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
21749731 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
21749750 TGC-AATCATAT
1 TACAAATCATAT
21749761 TGTGACAGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:21749759 original size:18 final size:19
Alignment explanation
Indices: 21749723--21749760 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
21749713 AATCATATCT
21749723 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21749742 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
21749760 T
1 T
21749761 TGTGACAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:21752034 original size:39 final size:39
Alignment explanation
Indices: 21751980--21752105 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
21751970 TTTAGTGATG
*
21751980 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
21752019 TATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
21752058 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
21752097 TATGTCCGG
1 TATATCCGG
21752106 GCTAAAGTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:21752120 original size:39 final size:39
Alignment explanation
Indices: 21751980--21752123 Score: 128
Period size: 39 Copynumber: 3.7 Consensus size: 39
21751970 TTTAGTGATG
* ** * * *
21751980 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAAT
1 TATAACCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* ** * * *
21752019 TATATCCGGACTTAGGGTCCACAGGCTATGTGCTGGAAT
1 TATAACCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
*
21752058 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATAACCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
** *
21752097 TATGTCCGGGC-TAAAGTCTCGCAGGCT
1 TATAACCGGACTTAAAGTC-CGCAGGCT
21752124 TCGAGCGGGT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 6 0.06
39 87 0.94
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
TATAACCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:21752122 original size:78 final size:78
Alignment explanation
Indices: 21751980--21752123 Score: 182
Period size: 78 Copynumber: 1.8 Consensus size: 78
21751970 TTTAGTGATG
* * * * * **
21751980 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAATTATATCCGGACTTAGGGTCCACAGGC
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCACAGGC
21752045 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * *
21752058 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCTCGCAGG
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTC-CACAGG
21752122 CT
65 CT
21752124 TCGAGCGGGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 5 0.09
78 50 0.91
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (78 bp):
TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCACAGGC
TATGTGCTGGAAT
Found at i:21752138 original size:78 final size:78
Alignment explanation
Indices: 21751980--21752143 Score: 172
Period size: 78 Copynumber: 2.1 Consensus size: 78
21751970 TTTAGTGATG
* * * * * **
21751980 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAATTATATCCGGACTTAGGGTCCACAGGC
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCACAGGC
* *
21752045 TATGTGCTGGAAT
66 TATGAGCGGGAAT
* * *
21752058 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCTCGCAGG
1 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTC-CACAGG
*
21752122 CT-TCGAGCGGGTAT
65 CTAT-GAGCGGGAAT
21752136 TAT-ACCGG
1 TATAACCGG
21752144 GTTTAAATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
77 11 0.15
78 60 0.85
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (78 bp):
TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCACAGGC
TATGAGCGGGAAT
Found at i:21754363 original size:21 final size:20
Alignment explanation
Indices: 21754326--21754364 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21754316 TTGGACTTCA
**
21754326 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
21754346 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
21754365 TCTGGGCCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:21754675 original size:44 final size:45
Alignment explanation
Indices: 21754557--21754737 Score: 238
Period size: 45 Copynumber: 4.0 Consensus size: 45
21754547 GGAAGGCGCT
* * * *
21754557 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAA
* *
21754602 ATCTGTTATCTTCGATCTGCTCCCTGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAA
** * **
21754647 ATCTACT-TCTTCAATTTGCTCCCCGTCTAATACAGAGTTGCCAA
1 ATCTGTTATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAA
* *
21754691 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAA
21754736 AT
1 AT
21754738 GATCTTGGAG
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 37 0.31
45 82 0.69
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:21754695 original size:89 final size:89
Alignment explanation
Indices: 21754574--21754737 Score: 265
Period size: 89 Copynumber: 1.8 Consensus size: 89
21754564 ATCTTTGATC
* * *
21754574 TGCTCCCCGTCTAATATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCTGTCTAATACAGA
1 TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATACAGA
21754639 GACGCCAAATCTACTTCTTCAATT
66 GACGCCAAATCTACTTCTTCAATT
** *
21754663 TGCTCCCCGTCTAATACAGAGTTGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGA
1 TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATACAGA
*
21754728 GATGCCAAAT
66 GACGCCAAAT
21754738 GATCTTGGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (89 bp):
TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCGTCTAATACAGA
GACGCCAAATCTACTTCTTCAATT
Found at i:21754817 original size:78 final size:78
Alignment explanation
Indices: 21754690--21754946 Score: 421
Period size: 78 Copynumber: 3.3 Consensus size: 78
21754680 AGAGTTGCCA
* *
21754690 AATCTGTTA--TCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATGATCTTGGAGCTGCT
1 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATGATCTTGGAGCTGCT
21754753 TCAATGAAGGTCC
66 TCAATGAAGGTCC
21754766 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATGATCTTGGAGCTGCT
1 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATGATCTTGGAGCTGCT
21754831 TCAATGAAGGTCC
66 TCAATGAAGGTCC
* *
21754844 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATGATCTTGGAGCTGCT
21754909 TCAATGAAGGT-C
66 TCAATGAAGGTCC
* * *
21754921 AGATCTGCTATGTTTTCAATCTGCTC
1 A-ATCTGTTATGTCTTCGATCTGCTC
21754947 TTCGCCAAAT
Statistics
Matches: 171, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
76 9 0.05
77 2 0.01
78 160 0.94
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (78 bp):
AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATGATCTTGGAGCTGCT
TCAATGAAGGTCC
Found at i:21755303 original size:220 final size:219
Alignment explanation
Indices: 21754914--21755506 Score: 857
Period size: 220 Copynumber: 2.7 Consensus size: 219
21754904 CTGCTTCAAT
* * * * * * *
21754914 GAAGGTCAGATCTGCTATGTTTTCAATCTGCTCTTCGCCAAATATGGAAATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * * ** ** *
21754979 TTCGATTTGTTCTCTGACAGTACAAAGATGCCAAATCATCTTAAATCTGCTTCAGCGTCAACACG
66 TTCGATTTGTTCTCTGACAATATAGAGATGTTAAATCATCTTGGATCTGCTTCAGCGT-AACACC
* * * *
21755044 TGAAAGCCAAATCTGCTATG-TCTTCGATCTGTTCCTTGTAAATGCAAGGATGCCAAATCATCTT
130 TGAAGGTCAAATCTGCTATGCT-TTCGATCTGCTCCTTGTAAATACAAGGATGCCAAATCATCTT
21755108 GGATCTACTTCGATGTGAAAACATCC
194 GGATCTACTTCGATGTGAAAACATCC
* *
21755134 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATATGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* *
21755199 TTTGATTTGTTCTCTGACAATATAGAGATGTTAAATTATCTTGGATCTGCTTCAGCGTAGACACC
66 TTCGATTTGTTCTCTGACAATATAGAGATGTTAAATCATCTTGGATCTGCTTCAGCGTA-ACACC
21755264 TGAAGGTCAAATCTGCTATGCTTTCGATCTGCTCCTTGTAAATACAAGGATGCCAAATCATCTTG
130 TGAAGGTCAAATCTGCTATGCTTTCGATCTGCTCCTTGTAAATACAAGGATGCCAAATCATCTTG
21755329 GATCTACTTCGATGTGAAAACATCC
195 GATCTACTTCGATGTGAAAACATCC
* * * * * *
21755354 GATGGTTAGATCTACTATGTCTTCGATTTACTCTCCGTTGAA-ATGGAGATGCCAAATCTATTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* *
21755418 TTCGATTTGTTCTCTGACAATATAGAGATGTTAAATCATATTGGATCTGCTTCAGCGTAAACATC
66 TTCGATTTGTTCTCTGACAATATAGAGATGTTAAATCATCTTGGATCTGCTTCAGCGT-AACACC
21755483 TGAAGGTCAAATCTGCTATGCTTT
130 TGAAGGTCAAATCTGCTATGCTTT
21755507 AGCCTGTTAC
Statistics
Matches: 335, Mismatches: 35, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
219 103 0.31
220 231 0.69
221 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (219 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAATATAGAGATGTTAAATCATCTTGGATCTGCTTCAGCGTAACACCT
GAAGGTCAAATCTGCTATGCTTTCGATCTGCTCCTTGTAAATACAAGGATGCCAAATCATCTTGG
ATCTACTTCGATGTGAAAACATCC
Found at i:21765385 original size:18 final size:19
Alignment explanation
Indices: 21765352--21765388 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21765342 GATATGATAC
*
21765352 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
21765371 TAAAA-TATATAAAAAAAT
1 TAAAATTATATAAAAAAAT
21765389 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:21765702 original size:19 final size:19
Alignment explanation
Indices: 21765678--21765749 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
21765668 AATCATATAT
21765678 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21765697 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
21765715 ACTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
21765732 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
21765750 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 15 0.31
19 18 0.38
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:21765733 original size:35 final size:37
Alignment explanation
Indices: 21765679--21765749 Score: 119
Period size: 35 Copynumber: 1.9 Consensus size: 37
21765669 ATCATATATT
21765679 CTAAGATTGCATATCATATCTAAGATTGCA-ATCATAA
1 CTAAGATTG-ATATCATATCTAAGATTGCATATCATAA
21765716 CTAAGATTG-TATCATATCTAAGATTGCATATCAT
1 CTAAGATTGATATCATATCTAAGATTGCATATCAT
21765750 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 19 0.58
36 5 0.15
37 9 0.27
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (37 bp):
CTAAGATTGATATCATATCTAAGATTGCATATCATAA
Found at i:21770817 original size:27 final size:27
Alignment explanation
Indices: 21770787--21770838 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
21770777 TAGCAACCAA
* *
21770787 GGTAGTCCACTGGGATAGTAAACACAG
1 GGTAGTCCACCGGCATAGTAAACACAG
*
21770814 GGTAGTTCACCGGCATAGTAAACAC
1 GGTAGTCCACCGGCATAGTAAACAC
21770839 GATAATTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (27 bp):
GGTAGTCCACCGGCATAGTAAACACAG
Found at i:21775562 original size:26 final size:26
Alignment explanation
Indices: 21775520--21775606 Score: 102
Period size: 26 Copynumber: 3.3 Consensus size: 26
21775510 ATTACTGGCG
*
21775520 AACCCTATGGTAGACACACTCTAGCA
1 AACCCTATGGTAAACACACTCTAGCA
* **
21775546 AACCCTATGGCAAACACACTCTAGTG
1 AACCCTATGGTAAACACACTCTAGCA
* * * *
21775572 AACCCTATAGTGAACTCACTCTAACA
1 AACCCTATGGTAAACACACTCTAGCA
21775598 AACCCTATG
1 AACCCTATG
21775607 CCTGGAGAAC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.21
Consensus pattern (26 bp):
AACCCTATGGTAAACACACTCTAGCA
Found at i:21777946 original size:47 final size:47
Alignment explanation
Indices: 21777888--21778237 Score: 558
Period size: 47 Copynumber: 7.4 Consensus size: 47
21777878 CAGCCAAGAC
21777888 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21777935 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21777982 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
21778029 AGTGTATATATGTGATAAGGCCTAATGG-CGCCTGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCG-ATGTGATGAATGTGAA
* * *
21778076 AGTGTATATATATAATAAGGCCTAATGGCCGATGTGATAAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
21778123 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
21778172 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
21778219 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
21778238 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
46 2 0.01
47 233 0.83
48 2 0.01
49 44 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:21778412 original size:37 final size:37
Alignment explanation
Indices: 21778356--21778434 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21778346 CCGAGCTCTA
* * *
21778356 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21778393 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21778430 AAGAC
1 AAGAC
21778435 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21781120 original size:21 final size:23
Alignment explanation
Indices: 21781081--21781122 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
21781071 TTCGTAACTC
21781081 AATATTTTAATTCTAATTATTTT
1 AATATTTTAATTCTAATTATTTT
21781104 AATATTTT-ATT-TAATTATT
1 AATATTTTAATTCTAATTATT
21781123 CCTAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
AATATTTTAATTCTAATTATTTT
Found at i:21781130 original size:10 final size:8
Alignment explanation
Indices: 21781110--21781143 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
21781100 TTTTAATATT
21781110 TTATTTAA
1 TTATTTAA
21781118 TTATTCCTAA
1 TTATT--TAA
21781128 TTATTTAA
1 TTATTTAA
21781136 TTATTTAA
1 TTATTTAA
21781144 CCTAAATACG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATTTAA
Found at i:21781132 original size:23 final size:23
Alignment explanation
Indices: 21781081--21781137 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
21781071 TTCGTAACTC
*
21781081 AATATTTTAATTCTAATTATTTT
1 AATATTTTAATTCTAATTATTCT
21781104 AATATTTT-ATT-TAATTATTCCT
1 AATATTTTAATTCTAATTATT-CT
21781126 AAT-TATTTAATT
1 AATAT-TTTAATT
21781138 ATTTAACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 9 0.30
22 10 0.33
23 11 0.37
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (23 bp):
AATATTTTAATTCTAATTATTCT
Found at i:21782376 original size:25 final size:26
Alignment explanation
Indices: 21782328--21782378 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
21782318 ATTTTTCAAA
* *
21782328 AGTATGAATTTTGGACTGAATTGAAT
1 AGTATGAATATTGAACTGAATTGAAT
*
21782354 AGTATGAATATT-AACTGGATTGAAT
1 AGTATGAATATTGAACTGAATTGAAT
21782379 TTACTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (26 bp):
AGTATGAATATTGAACTGAATTGAAT
Found at i:21786608 original size:32 final size:31
Alignment explanation
Indices: 21786561--21786636 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 31
21786551 ATTTTGCTTC
21786561 AATAAAAAAATATATATGTAGTGTATTTTAAA
1 AATAAAAAAA-ATATATGTAGTGTATTTTAAA
21786593 AATAATAAAAAATATATGTAGTGTATTTTAAA
1 AATAA-AAAAAATATATGTAGTGTATTTTAAA
21786625 AATAAAAAAAAT
1 AATAAAAAAAAT
21786637 TTAATCTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
31 7 0.16
32 31 0.72
33 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (31 bp):
AATAAAAAAAATATATGTAGTGTATTTTAAA
Found at i:21786748 original size:21 final size:22
Alignment explanation
Indices: 21786724--21786777 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
21786714 TACCATTGTT
21786724 TCTAATCTCACCGCTACAGT-A
1 TCTAATCTCACCGCTACAGTAA
*
21786745 TCTAATCTTACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGTAA
21786767 T-TAATCTCACC
1 TCTAATCTCACC
21786778 ACCACCGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (22 bp):
TCTAATCTCACCGCTACAGTAA
Found at i:21788071 original size:31 final size:31
Alignment explanation
Indices: 21788036--21788112 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
21788026 TGTATGATTA
*
21788036 AATCAAAATTAAAGTTTCATGTATACATTTG
1 AATCAAAATTAAAATTTCATGTATACATTTG
* * * * *
21788067 AATCATAATCAAAATTTCTTGTGTATATTTG
1 AATCAAAATTAAAATTTCATGTATACATTTG
*
21788098 CATC-AAATTAAAATT
1 AATCAAAATTAAAATT
21788113 CAGGTATCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 9 0.24
31 28 0.76
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (31 bp):
AATCAAAATTAAAATTTCATGTATACATTTG
Found at i:21789908 original size:24 final size:24
Alignment explanation
Indices: 21789881--21789927 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
21789871 AAATTTAGCA
21789881 AGTGACTAAAATA-AAAATAAATTC
1 AGTGACTAAAATACAAAA-AAATTC
* *
21789905 AGTGCCTAAATTACAAAAAAATT
1 AGTGACTAAAATACAAAAAAATT
21789928 AAATTAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.26
Consensus pattern (24 bp):
AGTGACTAAAATACAAAAAAATTC
Found at i:21794318 original size:6 final size:6
Alignment explanation
Indices: 21794307--21794335 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21794297 TAAAGCAAAT
21794307 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
21794336 TTAAGTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:21794506 original size:17 final size:17
Alignment explanation
Indices: 21794470--21794520 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
21794460 ATTTACTTTG
*
21794470 AAATTTAAT-TAATTTAT
1 AAATTTAATGTTATTT-T
21794487 AAATTTAATGTTATTTT
1 AAATTTAATGTTATTTT
*
21794504 AAAATT-ATGTT-TTTT
1 AAATTTAATGTTATTTT
21794519 AA
1 AA
21794521 TTTCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 15 0.48
18 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
AAATTTAATGTTATTTT
Found at i:21797509 original size:49 final size:46
Alignment explanation
Indices: 21797456--21797560 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 46
21797446 TAGTATAATT
*
21797456 ATGGTCTTGCACAT-AATCACATATCACAAACCAAAGCCATAGCCCAGCC
1 ATGGTCTT--ACATGAAGCACATATCAC--ACCAAAGCCATAGCCCAGCC
* * *
21797505 ATGGTCTTACATGGAAGCACATATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTACAT-GAAGCACATATCACACCAAAGCCATAGCCCAGCC
21797552 ATGGTCTTA
1 ATGGTCTTA
21797561 TACGGAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 30 0.60
49 20 0.40
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (46 bp):
ATGGTCTTACATGAAGCACATATCACACCAAAGCCATAGCCCAGCC
Found at i:21808651 original size:33 final size:33
Alignment explanation
Indices: 21808567--21808652 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
21808557 CATGGTTTAA
* * **
21808567 CTATGGTCTTACGTTCAAGGTGCCATAACCCAG
1 CTATGGTCTTACATTTAAAATGCCATAACCCAG
* * *
21808600 TTATGGTCTTTTCA-TTAAAATGCCATAGCCCAG
1 CTATGGTC-TTACATTTAAAATGCCATAACCCAG
21808633 CTATGGTCTTACATTTAAAA
1 CTATGGTCTTACATTTAAAA
21808653 ATTGCCATGG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
32 4 0.10
33 35 0.83
34 3 0.07
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (33 bp):
CTATGGTCTTACATTTAAAATGCCATAACCCAG
Found at i:21811152 original size:23 final size:23
Alignment explanation
Indices: 21811125--21811223 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
21811115 AGTGTTATTG
21811125 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
21811148 TTCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21811171 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
21811194 TTCAGTGGTAGCTTCGCCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21811217 ATCAGTG
1 ATCAGTG
21811224 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:21811178 original size:46 final size:46
Alignment explanation
Indices: 21811125--21811223 Score: 180
Period size: 46 Copynumber: 2.2 Consensus size: 46
21811115 AGTGTTATTG
*
21811125 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGCCTACAT
*
21811171 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGCCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGCCTACAT
21811217 ATCAGTG
1 ATCAGTG
21811224 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGCCTACAT
Found at i:21815823 original size:23 final size:23
Alignment explanation
Indices: 21815788--21815843 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
21815778 ATTATTTTAA
*
21815788 TAATATTTAATATTAAATTTAATC
1 TAATA-TTAATATTAAATTAAATC
* * *
21815812 TAATATTGATATTAGATTAAATT
1 TAATATTAATATTAAATTAAATC
21815835 TAATATTAA
1 TAATATTAA
21815844 AGTGATTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (23 bp):
TAATATTAATATTAAATTAAATC
Found at i:21820478 original size:210 final size:211
Alignment explanation
Indices: 21820116--21820536 Score: 808
Period size: 210 Copynumber: 2.0 Consensus size: 211
21820106 GTAACTTGAA
21820116 TTATATTCTTAAATACTTGAAATGTTTGTTATTAATGTGAATATGATTTGAATTTTCATTGTCTG
1 TTATATTCTTAAATACTTGAAATGTTTGTTATTAATGTGAATATGATTTGAATTTTCATTGTCTG
*
21820181 AAAATTGATGAAACATTGATATATTTGATAAAAAGGGGAAGAAATCTCGGTGGAATGGAAGGAAA
66 AAAATTGATGAAACATTGATATATTTGATAAAAAGGGGAAGAAATCTCGGTGGAATGAAAGGAAA
*
21820246 ATTTGATAGATCTCTGAAAAGGAATTGACGGT-AAAAAGGATCTAGCCCGAACGGGTGATCTTAT
131 ATTTGATAGATCTCTGAAAAGGAATTGACGGTAAAAAAAGATCTAGCCCGAACGGGTGATCTTAT
21820310 CCTGATATAGCCCTCT
196 CCTGATATAGCCCTCT
21820326 TTATATTCTTAAATACTTGAAATGTTTGTTATTAATGTGAATATGATTTGAATTTTCATTGTCTG
1 TTATATTCTTAAATACTTGAAATGTTTGTTATTAATGTGAATATGATTTGAATTTTCATTGTCTG
21820391 AAAATTGATGAAACATTGATATATTTGATAAAAAGGGGAAGAAATCTCGGTGGAATGAAAGGAAA
66 AAAATTGATGAAACATTGATATATTTGATAAAAAGGGGAAGAAATCTCGGTGGAATGAAAGGAAA
*
21820456 ATTTGATAGATCTCTGAAAAGGAATTGACGGTAAAAAAAGATCTAGCCCGGACGGGTGATCTTAT
131 ATTTGATAGATCTCTGAAAAGGAATTGACGGTAAAAAAAGATCTAGCCCGAACGGGTGATCTTAT
21820521 CCTGATATAGCCCTCT
196 CCTGATATAGCCCTCT
21820537 CGAAGAATAT
Statistics
Matches: 207, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
210 161 0.78
211 46 0.22
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (211 bp):
TTATATTCTTAAATACTTGAAATGTTTGTTATTAATGTGAATATGATTTGAATTTTCATTGTCTG
AAAATTGATGAAACATTGATATATTTGATAAAAAGGGGAAGAAATCTCGGTGGAATGAAAGGAAA
ATTTGATAGATCTCTGAAAAGGAATTGACGGTAAAAAAAGATCTAGCCCGAACGGGTGATCTTAT
CCTGATATAGCCCTCT
Found at i:21824796 original size:21 final size:23
Alignment explanation
Indices: 21824763--21824810 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
21824753 TGATGAGAAT
*
21824763 AAAATCTCTTTTTC-CTTATTTA
1 AAAATATCTTTTTCTCTTATTTA
*
21824785 AAAATATC-TTTTCTTTTATTTA
1 AAAATATCTTTTTCTCTTATTTA
21824807 AAAA
1 AAAA
21824811 GGAATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAATATCTTTTTCTCTTATTTA
Found at i:21838878 original size:13 final size:13
Alignment explanation
Indices: 21838862--21838894 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
21838852 AAGTGCAGCG
21838862 GAAAAGTATTTTT
1 GAAAAGTATTTTT
*
21838875 GAAAAGTGTTTTT
1 GAAAAGTATTTTT
21838888 GAAAAGT
1 GAAAAGT
21838895 TTAGTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
GAAAAGTATTTTT
Found at i:21846232 original size:20 final size:20
Alignment explanation
Indices: 21846198--21846239 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21846188 AACTAATTAA
** *
21846198 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
21846218 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
21846238 AT
1 AT
21846240 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:21846363 original size:21 final size:21
Alignment explanation
Indices: 21846337--21846381 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
21846327 ATGAGATTTC
*
21846337 ATTTGGAAACCATACCAACAA
1 ATTTGGAAACCACACCAACAA
21846358 ATTTGGAAACCACACCAACAA
1 ATTTGGAAACCACACCAACAA
21846379 ATT
1 ATT
21846382 CTAATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (21 bp):
ATTTGGAAACCACACCAACAA
Found at i:21846402 original size:30 final size:30
Alignment explanation
Indices: 21846357--21846417 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
21846347 CATACCAACA
*
21846357 AATTTGGAAACCACACCAACAAATTCTAAT
1 AATTTAGAAACCACACCAACAAATTCTAAT
*
21846387 AATTTAGAAATCACACCAACAAATTCTAAT
1 AATTTAGAAACCACACCAACAAATTCTAAT
21846417 A
1 A
21846418 TTCTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (30 bp):
AATTTAGAAACCACACCAACAAATTCTAAT
Found at i:21852860 original size:23 final size:23
Alignment explanation
Indices: 21852833--21852877 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21852823 ATGTATTCAA
*
21852833 ATTAAAT-TTTATAAATAATTAAT
1 ATTAAATATTTA-AAAAAATTAAT
*
21852856 ATTAATTATTTAAAAAAATTAA
1 ATTAAATATTTAAAAAAATTAA
21852878 AATTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTAAATATTTAAAAAAATTAAT
Found at i:21864920 original size:31 final size:31
Alignment explanation
Indices: 21864885--21864945 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
21864875 TAATAGAATC
*
21864885 ATTAAACTATT-TAAAATTTTTTATTTAAGTT
1 ATTAAACTATTCGAAAA-TTTTTATTTAAGTT
*
21864916 ATTAAATTATTCGAAAATTTTTATTTAAGT
1 ATTAAACTATTCGAAAATTTTTATTTAAGT
21864946 CATTGGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (31 bp):
ATTAAACTATTCGAAAATTTTTATTTAAGTT
Found at i:21873640 original size:17 final size:17
Alignment explanation
Indices: 21873613--21873655 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
21873603 TATTTCATTG
21873613 TTTATTTTTCTTTATTTA
1 TTTA-TTTTCTTTATTTA
*
21873631 TTTCTTTTCTTTATTTA
1 TTTATTTTCTTTATTTA
21873648 TTTATTTT
1 TTTATTTT
21873656 TATCCCTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTCTTTATTTA
Found at i:21878491 original size:103 final size:103
Alignment explanation
Indices: 21878308--21878513 Score: 403
Period size: 103 Copynumber: 2.0 Consensus size: 103
21878298 AATATAAGTA
21878308 AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
1 AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
*
21878373 CCTTAAGACTGGGGATTACCTGTAAGAAAAACAGAGGG
66 CCTTAAGACTAGGGATTACCTGTAAGAAAAACAGAGGG
21878411 AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
1 AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
21878476 CCTTAAGACTAGGGATTACCTGTAAGAAAAACAGAGGG
66 CCTTAAGACTAGGGATTACCTGTAAGAAAAACAGAGGG
21878514 GGTGAGTTTA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (103 bp):
AAAAAAATCCAGTATAGTAGCAGGTGCGGTTGTGTGGCAACCTCCGAGTCTCTCGCAGCACCGGT
CCTTAAGACTAGGGATTACCTGTAAGAAAAACAGAGGG
Found at i:21895939 original size:14 final size:15
Alignment explanation
Indices: 21895920--21895953 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21895910 ATGTAGCAGA
*
21895920 TTTTGT-TGTTTCTG
1 TTTTGTATGGTTCTG
21895934 TTTTGTATGGTTCTG
1 TTTTGTATGGTTCTG
21895949 TTTTG
1 TTTTG
21895954 GATGAACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.03, C:0.06, G:0.24, T:0.68
Consensus pattern (15 bp):
TTTTGTATGGTTCTG
Found at i:21897622 original size:6 final size:6
Alignment explanation
Indices: 21897611--21897636 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21897601 ACGAAATTAT
21897611 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
21897637 GTTCAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:21901154 original size:37 final size:39
Alignment explanation
Indices: 21901111--21901281 Score: 131
Period size: 38 Copynumber: 4.4 Consensus size: 39
21901101 TGCTTAATTG
21901111 TTTTATTAAATTATATAAGAATAT-TAAT-TATTAATAA
1 TTTTATTAAATTATATAAGAATATATAATATATTAATAA
**
21901148 TTTTATTAAATTATATATTTTAAT-TATAATATATTTAATAA
1 TTTTATTAAATTATATA--AGAATATATAATATA-TTAATAA
* * * *** * *
21901189 TTATGTTAATTTATAT-TTTATAGTATCATATATT-ATGA
1 TTTTATTAAATTATATAAGAATA-TATAATATATTAATAA
* * *
21901227 TTTGAGTAAATTCATATAAGAATAT-TAAT-TATTAAGAA
1 TTTTATTAAATT-ATATAAGAATATATAATATATTAATAA
21901265 TTTTATTAAATTATATA
1 TTTTATTAAATTATATA
21901282 TTTTAATTAA
Statistics
Matches: 103, Mismatches: 21, Indels: 20
0.72 0.15 0.14
Matches are distributed among these distances:
37 26 0.25
38 30 0.29
39 14 0.14
40 13 0.13
41 20 0.19
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (39 bp):
TTTTATTAAATTATATAAGAATATATAATATATTAATAA
Found at i:21901180 original size:18 final size:18
Alignment explanation
Indices: 21901134--21901181 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
21901124 TATAAGAATA
*
21901134 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
21901150 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
21901167 TTAATTATAATATAT
1 TTAATTATAATATAT
21901182 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:21901192 original size:18 final size:16
Alignment explanation
Indices: 21901134--21901183 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
21901124 TATAAGAATA
21901134 TTAATTATTAATA-ATT
1 TTAATTA-TAATATATT
*
21901150 TT-ATTAAATTATATATT
1 TTAATT--ATAATATATT
21901167 TTAATTATAATATATT
1 TTAATTATAATATATT
21901183 T
1 T
21901184 AATAATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.11
16 16 0.57
17 6 0.21
18 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:21901291 original size:37 final size:39
Alignment explanation
Indices: 21901111--21901296 Score: 120
Period size: 37 Copynumber: 4.8 Consensus size: 39
21901101 TGCTTAATTG
*** *
21901111 TTTTATTAAATTATATA-AGAATATTAAT-TATTAATAA
1 TTTTATTAAATTATATATTTTATATTAATATATTAAGAA
*
21901148 TTTTATTAAATTATATATTTTA-ATTATAATATATTTAATAA
1 TTTTATTAAATTATATATTTTATA-T-TAATATA-TTAAGAA
* * * *
21901189 TTATGTT-AATT-TATATTTTATAGTATCATATATTATG-A
1 TTTTATTAAATTATATATTTTATA-T-TAATATATTAAGAA
* * ***
21901227 TTTGAGTAAATTCATATA-AGAATATTAAT-TATTAAGAA
1 TTTTATTAAATT-ATATATTTTATATTAATATATTAAGAA
*
21901265 TTTTATTAAATTATATATTTTA-ATTAAAATAT
1 TTTTATTAAATTATATATTTTATATTAATATAT
21901297 ATTTAATAAT
Statistics
Matches: 113, Mismatches: 24, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
37 34 0.30
38 24 0.21
39 21 0.19
40 18 0.16
41 16 0.14
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (39 bp):
TTTTATTAAATTATATATTTTATATTAATATATTAAGAA
Found at i:21901292 original size:18 final size:17
Alignment explanation
Indices: 21901264--21901298 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21901254 ATTATTAAGA
*
21901264 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
21901281 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
21901299 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:21901489 original size:39 final size:40
Alignment explanation
Indices: 21901446--21901550 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
21901436 TTCCATTATG
21901446 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
21901485 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
21901530 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
21901551 ACAGCGAACC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:21901561 original size:45 final size:42
Alignment explanation
Indices: 21901444--21901564 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 42
21901434 TTTTCCATTA
21901444 TGCTATTACACCTCTATTCCATT---CAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACACAACCAAACACAAGAT
* * ***
21901483 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACA--CAACCAAACACAAGA-T
21901528 TGCTATTACACCTCTATTCCATTACAGCGAACCAAAC
1 TGCTATTACACCTCTATTCCATTACA-C-AACCAAAC
21901565 GTGGTGTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
39 21 0.31
44 13 0.19
45 33 0.49
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.31
Consensus pattern (42 bp):
TGCTATTACACCTCTATTCCATTACACAACCAAACACAAGAT
Found at i:21909249 original size:18 final size:19
Alignment explanation
Indices: 21909222--21909261 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
21909212 TGAAAATATC
*
21909222 ACAAAGAAAAG-CAAAATT
1 ACAAAAAAAAGACAAAATT
*
21909240 ACAAAAAAAAGACCAAATT
1 ACAAAAAAAAGACAAAATT
21909259 ACA
1 ACA
21909262 CAATGTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.68, C:0.15, G:0.07, T:0.10
Consensus pattern (19 bp):
ACAAAAAAAAGACAAAATT
Found at i:21910171 original size:24 final size:22
Alignment explanation
Indices: 21910116--21910174 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
21910106 TATCTATCAC
21910116 TTAAATTAGTTAA-TTAATTAT
1 TTAAATTAGTTAATTTAATTAT
*
21910137 TTTAATT--TTAATTTAATTTAT
1 TTAAATTAGTTAATTTAA-TTAT
21910158 TTAAATATAGTTAATTT
1 TTAAAT-TAGTTAATTT
21910175 TAACGAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 15 0.48
22 1 0.03
24 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (22 bp):
TTAAATTAGTTAATTTAATTAT
Found at i:21910302 original size:31 final size:31
Alignment explanation
Indices: 21910264--21910334 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
21910254 CATTTTCAAC
*
21910264 TTAGTCACTAACATTTTAGATAATTTCTATT
1 TTAGTCACTAACATTTTAAATAATTTCTATT
* * **
21910295 TTAGTCACTCACGTTTTAAATTGTTTCTATT
1 TTAGTCACTAACATTTTAAATAATTTCTATT
*
21910326 TTGGTCACT
1 TTAGTCACT
21910335 CTCCATTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (31 bp):
TTAGTCACTAACATTTTAAATAATTTCTATT
Found at i:21914556 original size:16 final size:16
Alignment explanation
Indices: 21914535--21914602 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
21914525 GATTTGCTAT
21914535 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21914551 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
21914567 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
21914583 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
21914599 TACA
1 TACA
21914603 GCGAACCAAA
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:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21917507 original size:16 final size:16
Alignment explanation
Indices: 21917458--21917508 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
21917448 CAGGGTGACT
*
21917458 AAATAAAAATAATTTA
1 AAATAAAAATAATCTA
* * *
21917474 AAATATAAGTGA-CTA
1 AAATAAAAATAATCTA
*
21917489 AAATACAAATAATCTA
1 AAATAAAAATAATCTA
21917505 AAAT
1 AAAT
21917509 GTTAGTAGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (16 bp):
AAATAAAAATAATCTA
Found at i:21928201 original size:39 final size:39
Alignment explanation
Indices: 21928144--21928339 Score: 279
Period size: 39 Copynumber: 5.0 Consensus size: 39
21928134 CCAAGGCACC
* *
21928144 GTGATTTTCAGGGAAGAGATTCAAGTTCTG-TGGGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCT-AGGGGCA
*
21928183 GTGATTTTCATGGCAGAGATTCAAGTTCTGCTAGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCTAGGGGCA
* *
21928222 GTGATTTTCAGGGCAAAGATTCAAGTTCAGCTAGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCTAGGGGCA
21928261 GTGATTTTCAGGGCAGAGATTCAAGTTCTG-TGAGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCT-AGGGGCA
* * * *
21928300 GTGACTTCCTGGGCAGAGATTCAAGTTTTGCTAGGGGCA
1 GTGATTTTCAGGGCAGAGATTCAAGTTCTGCTAGGGGCA
21928339 G
1 G
21928340 GTCCTCATCG
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 139 0.98
40 2 0.01
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.28
Consensus pattern (39 bp):
GTGATTTTCAGGGCAGAGATTCAAGTTCTGCTAGGGGCA
Found at i:21931472 original size:23 final size:23
Alignment explanation
Indices: 21931423--21931473 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
21931413 TCTCTTCCAC
* *
21931423 AATCCTTCAAGAATTGAAGCAAA
1 AATCCTTCAAGAATAGAAACAAA
*
21931446 AATCCTATCAAGAA-AGAAACAAG
1 AATCCT-TCAAGAATAGAAACAAA
21931469 AATCC
1 AATCC
21931474 AGTCTCTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.18
Consensus pattern (23 bp):
AATCCTTCAAGAATAGAAACAAA
Found at i:21932600 original size:13 final size:14
Alignment explanation
Indices: 21932579--21932616 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
21932569 ATATTTGAAT
21932579 TAAATATTTAATA-A
1 TAAA-ATTTAATAGA
21932593 TAAAATTTAATAGA
1 TAAAATTTAATAGA
21932607 TAAAATTTAA
1 TAAAATTTAA
21932617 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TAAAATTTAATAGA
Found at i:21937156 original size:21 final size:21
Alignment explanation
Indices: 21937132--21937171 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21937122 TATGATTTAA
*
21937132 GTCTAAAATGTTGTTATAGGT
1 GTCTAAAATGTTATTATAGGT
**
21937153 GTCTTGAATGTTATTATAG
1 GTCTAAAATGTTATTATAG
21937172 ATATATATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (21 bp):
GTCTAAAATGTTATTATAGGT
Found at i:21939294 original size:11 final size:11
Alignment explanation
Indices: 21939278--21939319 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
21939268 TGTAAAGCAA
21939278 AAAAGAATAGT
1 AAAAGAATAGT
**
21939289 AAAAGAATAAA
1 AAAAGAATAGT
21939300 AAAAGAATAGT
1 AAAAGAATAGT
21939311 AAAAGAATA
1 AAAAGAATA
21939320 TCCTATCCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (11 bp):
AAAAGAATAGT
Found at i:21939304 original size:22 final size:22
Alignment explanation
Indices: 21939276--21939319 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21939266 TGTGTAAAGC
21939276 AAAAAAGAATAGTAAAAGAATA
1 AAAAAAGAATAGTAAAAGAATA
21939298 AAAAAAGAATAGTAAAAGAATA
1 AAAAAAGAATAGTAAAAGAATA
21939320 TCCTATCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAAGAATAGTAAAAGAATA
Found at i:21940349 original size:15 final size:14
Alignment explanation
Indices: 21940328--21940363 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
21940318 ATAATCCTTA
*
21940328 ATAATTATCTTAAT
1 ATAATTATCCTAAT
21940342 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
21940357 ATAATTA
1 ATAATTA
21940364 AAATAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:21945674 original size:34 final size:33
Alignment explanation
Indices: 21945631--21945717 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 33
21945621 TCCAATGCTC
*
21945631 AAATCAATTCAGCAATATATATGTATAC-ATATAA
1 AAATCAATTCAG-AATATATATATAT-CTATATAA
* * **
21945665 AAATCAATTC-GAAAATGTATATATCTATATTT
1 AAATCAATTCAGAATATATATATATCTATATAA
21945697 AAATCAATTCAGAA-ATATATA
1 AAATCAATTCAGAATATATATA
21945718 AACATATACA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
31 1 0.02
32 30 0.67
33 4 0.09
34 10 0.22
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.34
Consensus pattern (33 bp):
AAATCAATTCAGAATATATATATATCTATATAA
Found at i:21947729 original size:29 final size:27
Alignment explanation
Indices: 21947670--21947732 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
21947660 ATTTATTATG
*
21947670 TTTTTAAGAATTAAAGCAACCACAGGG
1 TTTTTAAGAATTAAAGCAACCACAGGA
* * *
21947697 TTTTTAAGTAAATTAAAGCAGCGATAGGA
1 TTTTTAAG--AATTAAAGCAACCACAGGA
21947726 TTTTTAA
1 TTTTTAA
21947733 AAATGTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 8 0.27
29 22 0.73
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (27 bp):
TTTTTAAGAATTAAAGCAACCACAGGA
Found at i:21949686 original size:49 final size:50
Alignment explanation
Indices: 21949595--21949712 Score: 132
Period size: 49 Copynumber: 2.3 Consensus size: 50
21949585 AAACATGTTC
* * * * *
21949595 AACAGAAAAAAGAAGAGAAAAGGAAATTGGGAAGAAGAAACATCACTAGGA
1 AACAGAAAAAA-AAAAGAAAAGAAAATAGGGAAGAAGAAACATCACCAAGA
21949646 AACAGAAAAAAAAAAG-AAAGAAAATAGGGAAGGAA-AAACATCACCAAGA
1 AACAGAAAAAAAAAAGAAAAGAAAATAGGGAA-GAAGAAACATCACCAAGA
*
21949695 AAAAGAAAGACAAAAAAG
1 AACAGAAA-A-AAAAAAG
21949713 GAAATAGTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 32 0.55
50 8 0.14
51 18 0.31
ACGTcount: A:0.65, C:0.08, G:0.21, T:0.05
Consensus pattern (50 bp):
AACAGAAAAAAAAAAGAAAAGAAAATAGGGAAGAAGAAACATCACCAAGA
Found at i:21961977 original size:47 final size:47
Alignment explanation
Indices: 21961926--21962015 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
21961916 AAAATTGGAG
*
21961926 AAAAATAATTAGTGGTTAAAATTTACATGTTTAAATTATTAATGAGA
1 AAAAATAATTAGTGGTTAAAATTTAAATGTTTAAATTATTAATGAGA
21961973 AAAAATAATTAGTGGTTAAAATTTAAATGTTTAAATTATTAAT
1 AAAAATAATTAGTGGTTAAAATTTAAATGTTTAAATTATTAAT
21962016 CAGTCTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (47 bp):
AAAAATAATTAGTGGTTAAAATTTAAATGTTTAAATTATTAATGAGA
Found at i:21964928 original size:45 final size:45
Alignment explanation
Indices: 21964872--21965021 Score: 161
Period size: 45 Copynumber: 3.7 Consensus size: 45
21964862 TCATGTTTTG
*
21964872 GTTTATGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
*
21964917 GTTTCTGTTAAGTTCATGTTTTGG-TT-TCTG-T-TAA-GTTCAT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
*
21964957 G----T-TT-AG-----GTTTAGGTTTATGTGTTATAATGTTCAT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
21964991 GTTTCTGTTAAGTTCATGTTTTGGTTTATGT
1 GTTTCTGTTAAGTTCATGTTTTGGTTTATGT
21965022 TTTGGTTCAT
Statistics
Matches: 84, Mismatches: 5, Indels: 32
0.69 0.04 0.26
Matches are distributed among these distances:
29 6 0.07
30 2 0.02
31 3 0.04
32 1 0.01
33 3 0.04
34 9 0.11
35 2 0.02
36 1 0.01
38 1 0.01
39 2 0.02
40 9 0.11
41 3 0.04
42 1 0.01
43 3 0.04
44 2 0.02
45 36 0.43
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.55
Consensus pattern (45 bp):
GTTTCTGTTAAGTTCATGTTTTGGTTTATGTGTTATAATGTTCAT
Found at i:21964987 original size:51 final size:47
Alignment explanation
Indices: 21964932--21965058 Score: 157
Period size: 51 Copynumber: 2.6 Consensus size: 47
21964922 TGTTAAGTTC
21964932 ATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTTATGTGTTATA
1 ATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTT-TG-G-T-TA
* * * *
21964983 ATGTTCAT-GTTTCTGTTAAGTTCATGTTTTGGTTTATGTTTTGGTTC
1 ATGTT-TTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTTTGGTTA
*
21965030 ATGTTTTGGTTTCTGTTAAGTTGATGTTT
1 ATGTTTTGGTTTCTGTTAAGTTCATGTTT
21965059 TCTGTTTCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
46 1 0.01
47 26 0.38
48 1 0.01
49 1 0.01
50 2 0.03
51 36 0.53
52 1 0.01
ACGTcount: A:0.15, C:0.06, G:0.23, T:0.57
Consensus pattern (47 bp):
ATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTTTGGTTA
Found at i:21964988 original size:74 final size:72
Alignment explanation
Indices: 21964860--21965041 Score: 273
Period size: 74 Copynumber: 2.5 Consensus size: 72
21964850 GTGTTATAAT
21964860 GTTCATGTTTTGGTTTATGTTAAGTTCATG--T--TTTGGTTTATGTGTTATAATGTTCATGTTT
1 GTTCATGTTTTGGTTTATGTTAAGTTCATGTTTGGTTTGGTTTATGTGTTATAATGTTCATGTTT
21964921 CTGTTAA
66 CTGTTAA
*
21964928 GTTCATGTTTTGGTTTCTGTTAAGTTCATGTTTAGGTTTAGGTTTATGTGTTATAATGTTCATGT
1 GTTCATGTTTTGGTTTATGTTAAGTTCATGTTT-GGTTT-GGTTTATGTGTTATAATGTTCATGT
21964993 TTCTGTTAA
64 TTCTGTTAA
**
21965002 GTTCATGTTTTGGTTTATGTTTTGGTTCATGTTTTGGTTT
1 GTTCATGTTTTGGTTTATG-TTAAGTTCATG-TTTGGTTT
21965042 CTGTTAAGTT
Statistics
Matches: 102, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
68 29 0.28
70 1 0.01
73 3 0.03
74 52 0.51
75 14 0.14
76 3 0.03
ACGTcount: A:0.15, C:0.06, G:0.22, T:0.57
Consensus pattern (72 bp):
GTTCATGTTTTGGTTTATGTTAAGTTCATGTTTGGTTTGGTTTATGTGTTATAATGTTCATGTTT
CTGTTAA
Found at i:21965023 original size:12 final size:12
Alignment explanation
Indices: 21965006--21965046 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
21964996 TGTTAAGTTC
21965006 ATGTTTTGGTTT
1 ATGTTTTGGTTT
*
21965018 ATGTTTTGGTTC
1 ATGTTTTGGTTT
21965030 ATGTTTTGGTTT
1 ATGTTTTGGTTT
*
21965042 CTGTT
1 ATGTT
21965047 AAGTTGATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.07, C:0.05, G:0.24, T:0.63
Consensus pattern (12 bp):
ATGTTTTGGTTT
Found at i:21965065 original size:24 final size:23
Alignment explanation
Indices: 21964860--21965070 Score: 160
Period size: 23 Copynumber: 8.9 Consensus size: 23
21964850 GTGTTATAAT
*
21964860 GTTCATGTTTTGGTTTATGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* *
21964883 GTTCATGTTTTGGTTTATGTGTTA
1 GTTCATGTTTTGGTTTCTGT-TAA
* *
21964907 --TAATGTTCAT-GTTTCTGTTAA
1 GTTCATGTT-TTGGTTTCTGTTAA
21964928 GTTCATGTTTTGGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* ** *
21964951 GTTCATGTTTAGGTTTAGGTTTATGT
1 GTTCATGTTTTGGTTTCTG-TTA--A
* *
21964977 GTTATAATGTTCAT-GTTTCTGTTAA
1 G-T-TCATGTT-TTGGTTTCTGTTAA
* **
21965002 GTTCATGTTTTGGTTTATGTTTTG
1 GTTCATGTTTTGGTTTCTG-TTAA
21965026 GTTCATGTTTTGGTTTCTGTTAA
1 GTTCATGTTTTGGTTTCTGTTAA
* *
21965049 GTTGATGTTTTCTGTTTCTGTT
1 GTTCATGTTTT-GGTTTCTGTT
21965071 TATGGATTAT
Statistics
Matches: 147, Mismatches: 27, Indels: 27
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.01
22 15 0.10
23 78 0.53
24 35 0.24
25 1 0.01
26 1 0.01
27 4 0.03
28 11 0.07
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.57
Consensus pattern (23 bp):
GTTCATGTTTTGGTTTCTGTTAA
Found at i:21966024 original size:116 final size:115
Alignment explanation
Indices: 21965897--21966147 Score: 450
Period size: 116 Copynumber: 2.2 Consensus size: 115
21965887 TAAAGTTTGG
*
21965897 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
*
21965962 TGCATAAAACTAATCAAATTATATATTTACAAATTAATTAAATTATATTA
66 TGCATAAAACTAATCAAATTATATATTTACAAATTAATTAAATTAAATTA
*
21966012 TATATTTTTTATTTTTAATATTCTAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAA
1 -ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAA
*
21966077 ATGCATAAAACTAATTAAATTATATATTTACAAATTAATTAAATTAAATTA
65 ATGCATAAAACTAATCAAATTATATATTTACAAATTAATTAAATTAAATTA
21966128 A-ATTTTTTATTTTTAATATT
1 ATATTTTTTATTTTTAATATT
21966148 TTTTATTTTT
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
114 19 0.15
115 1 0.01
116 111 0.85
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (115 bp):
ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
TGCATAAAACTAATCAAATTATATATTTACAAATTAATTAAATTAAATTA
Found at i:21966150 original size:16 final size:16
Alignment explanation
Indices: 21966125--21966160 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
21966115 TTAAATTAAA
21966125 TTAA-ATTTTTTATTT
1 TTAATATTTTTTATTT
21966140 TTAATATTTTTTATTT
1 TTAATATTTTTTATTT
21966156 TTAAT
1 TTAAT
21966161 TTTCCAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTAATATTTTTTATTT
Found at i:21966151 original size:130 final size:132
Alignment explanation
Indices: 21966013--21966308 Score: 515
Period size: 130 Copynumber: 2.3 Consensus size: 132
21966003 ATTATATTAT
*
21966013 ATATTTTTTATTTTTAATATTCTAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
*
21966078 TGCATAAAACTAATTAAATTATATATTTACAAATTAATTAAATTAAATT-AAA-TTTTTTATTTT
66 TGCATAAAACTAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
21966141 TA
131 TA
* * * *
21966143 ATATTTTTTATTTTTAATTTTCCAATTTATTAAATAATGCATTTTTTAAAATAAAAATAATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
*
21966208 TGCATAAAACTAATTAAATTATGTATTAACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
66 TGCATAAAACTAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
21966273 TA
131 TA
21966275 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
1 ATATTTTTTATTTTTAATATTCCAATTTATTAAA
21966309 ATAAAAATAA
Statistics
Matches: 156, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
130 107 0.69
131 3 0.02
132 46 0.29
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (132 bp):
ATATTTTTTATTTTTAATATTCCAATTTATTAAATAATGCATCTGTTAAAAGAAAAATAATTAAA
TGCATAAAACTAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAAATTTTTTTATTTT
TA
Found at i:21966281 original size:16 final size:16
Alignment explanation
Indices: 21966262--21966295 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
21966252 AAATTAAAAT
21966262 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
21966278 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
21966294 TT
1 TT
21966296 CCAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:21966623 original size:116 final size:114
Alignment explanation
Indices: 21966485--21966725 Score: 394
Period size: 116 Copynumber: 2.1 Consensus size: 114
21966475 AAAAAGGTTG
21966485 TTTTTAATATTCCAATTTATTAAATAATGCAGCTGTTAAAATAAAAATAATTAAATGCATAAAAC
1 TTTTTAATATTCCAATTTATTAAATAATGCAGCTGTTAAAATAAAAATAATTAAATGCATAAAAC
* *
21966550 TAATTAAATTATATATTTACAAATTAATTAAA-TAATATTATATTTTTTTTA
66 TAATTAAATTATATATTAACAAATTAATTAAATTAA-ATTA-A-ATTTTTTA
**
21966601 TTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGCATAAAAC
1 TTTTTAATATTCCAATTTATTAAATAATGCAGCTGTTAAAATAAAAATAATTAAATGCATAAAAC
* *
21966666 TAATTAAATTATGTGTTAACAAATTAATTAAATTAAATTAAATTTTTTA
66 TAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAATTTTTTA
21966715 TTTTTAATATT
1 TTTTTAATATT
21966726 TTTTATTTTT
Statistics
Matches: 118, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
114 18 0.15
115 1 0.01
116 96 0.81
117 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (114 bp):
TTTTTAATATTCCAATTTATTAAATAATGCAGCTGTTAAAATAAAAATAATTAAATGCATAAAAC
TAATTAAATTATATATTAACAAATTAATTAAATTAAATTAAATTTTTTA
Found at i:21966728 original size:16 final size:16
Alignment explanation
Indices: 21966703--21966742 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
21966693 TTAAATTAAA
21966703 TTAA-ATTTTTTATTT
1 TTAATATTTTTTATTT
21966718 TTAATATTTTTTATTT
1 TTAATATTTTTTATTT
21966734 TTAATATTT
1 TTAATATTT
21966743 CAATTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTAATATTTTTTATTT
Found at i:21966787 original size:116 final size:116
Alignment explanation
Indices: 21966485--21966770 Score: 393
Period size: 116 Copynumber: 2.5 Consensus size: 116
21966475 AAAAAGGTTG
** *
21966485 TTTTTAATATTCCAATTTATTAAATAATGCAGCTGTTAAAATAAAAATAATTAAATGCATAAAAC
1 TTTTTAATATTCCAATTTATTAAATAATGCATTTATTAAAATAAAAATAATTAAATGCATAAAAC
* *
21966550 TAATTAAATTATATATTTACAAATTAATTAAATAATATTATATTTTTTTTA
66 TAATTAAATTATATATTAACAAATTAATTAAATAATATTATATATTTTTTA
*
21966601 TTTTTAATATTCCAATTTATTAAATAATGCATTTGTTAAAATAAAAATAATTAAATGCATAAAAC
1 TTTTTAATATTCCAATTTATTAAATAATGCATTTATTAAAATAAAAATAATTAAATGCATAAAAC
* *
21966666 TAATTAAATTATGTGTTAACAAATTAATTAAATTAA-ATTA-A-ATTTTTTA
66 TAATTAAATTATATATTAACAAATTAATTAAA-TAATATTATATATTTTTTA
*** * *
21966715 TTTTTAATATTTTTTATTT-TT-AATATTTCAATTTATTAAAATAAAAATAATTAAAT
1 TTTTTAATA-TTCCAATTTATTAAATAATGC-ATTTATTAAAATAAAAATAATTAAAT
21966771 TATATATTTA
Statistics
Matches: 155, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
113 6 0.04
114 43 0.28
115 7 0.05
116 96 0.62
117 3 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (116 bp):
TTTTTAATATTCCAATTTATTAAATAATGCATTTATTAAAATAAAAATAATTAAATGCATAAAAC
TAATTAAATTATATATTAACAAATTAATTAAATAATATTATATATTTTTTA
Found at i:21967043 original size:179 final size:179
Alignment explanation
Indices: 21966858--21967213 Score: 694
Period size: 179 Copynumber: 2.0 Consensus size: 179
21966848 CAAAATTTCT
21966858 AATAAATCTTAAAATTACATTAAATTTTAATTTGATGTAGAATGTGATTTAAAAATTTTATTTTG
1 AATAAATCTTAAAATTACATTAAATTTTAATTTGATGTAGAATGTGATTTAAAAATTTTATTTTG
21966923 GTGCAATTGTATAAATATAATTATAATTTTAATTTAATATATAGATGAAATTTTAATTTTAGCTC
66 GTGCAATTGTATAAATATAATTATAATTTTAATTTAATATATAGATGAAATTTTAATTTTAGCTC
**
21966988 AATTATACATATACCTACAAAGCATCAACATGATAACATGATCAAAGGA
131 AATTATACATATACCTACAAAGCATCAACACAATAACATGATCAAAGGA
21967037 AATAAATCTTAAAATTACATTAAATTTTAATTTGATGTAGAATGTGATTTAAAAATTTTATTTTG
1 AATAAATCTTAAAATTACATTAAATTTTAATTTGATGTAGAATGTGATTTAAAAATTTTATTTTG
21967102 GTGCAATTGTATAAATATAATTATAATTTTAATTTAATATATAGATGAAATTTTAATTTTAGCTC
66 GTGCAATTGTATAAATATAATTATAATTTTAATTTAATATATAGATGAAATTTTAATTTTAGCTC
21967167 AATTATACATATACCTACAAAGCATCAACACAATAACATGATCAAAG
131 AATTATACATATACCTACAAAGCATCAACACAATAACATGATCAAAG
21967214 ATTTTGAAGA
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 175 1.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (179 bp):
AATAAATCTTAAAATTACATTAAATTTTAATTTGATGTAGAATGTGATTTAAAAATTTTATTTTG
GTGCAATTGTATAAATATAATTATAATTTTAATTTAATATATAGATGAAATTTTAATTTTAGCTC
AATTATACATATACCTACAAAGCATCAACACAATAACATGATCAAAGGA
Found at i:21969174 original size:49 final size:49
Alignment explanation
Indices: 21969117--21969220 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
21969107 CCATGTGTTA
* * * * *
21969117 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGCGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
21969166 TAATTTTATAAAGCGTTCACCTTTTGCTTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGCGTTCACCTTTTGATTCATGATATTAAACTTAATTT
21969215 TAATTT
1 TAATTT
21969221 GTTTTTTCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGCGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:21970706 original size:18 final size:17
Alignment explanation
Indices: 21970685--21970722 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
21970675 ATATTAAGAA
*
21970685 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
21970703 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
21970720 TTT
1 TTT
21970723 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:21970878 original size:120 final size:120
Alignment explanation
Indices: 21970615--21971100 Score: 846
Period size: 120 Copynumber: 4.0 Consensus size: 120
21970605 AAGTAGATTA
** * *
21970615 TAAATTATATTTTATAGTACCATATATTAAGATTTTAGTAAATTCATCTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
21970680 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTT
*
21970737 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
21970802 AAGAATTTTATTAAATTATATATTTTTATTAAATTTTATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
*
21970857 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
21970922 AAGAATTTTATTAAATTATATGTTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
* *
21970977 TAAATTATATTTTATAGTATTATATATTATGATTTAAGAAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
21971042 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
21971097 TAAA
1 TAAA
21971101 ATATGATTAA
Statistics
Matches: 349, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 252 0.72
122 97 0.28
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
Found at i:21971323 original size:45 final size:44
Alignment explanation
Indices: 21971238--21971333 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
21971228 ATTACAATAT
*
21971238 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
* *
21971282 CATTACATTCAACCAAACA-ATTGAATTACTATTACGTCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
21971327 CATTACA
1 CATTACA
21971334 GCTCTATTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.45
45 25 0.53
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:21971338 original size:16 final size:16
Alignment explanation
Indices: 21971319--21971350 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21971309 ACTATTACGT
21971319 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
21971335 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
21971351 TGAACCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:21980144 original size:2 final size:2
Alignment explanation
Indices: 21980137--21980192 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
21980127 TTAATAAAAT
21980137 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21980179 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
21980193 AGGTTTCTAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22006147 original size:22 final size:23
Alignment explanation
Indices: 22006105--22006150 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22006095 TAAAGCGAAT
*
22006105 AAATATTTATGTTTTTAATTTTA
1 AAATATTTATGTATTTAATTTTA
*
22006128 AAAT-TTTATGTAATTTATTTTTA
1 AAATATTTATGT-ATTTAATTTTA
22006151 TTTTCTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
AAATATTTATGTATTTAATTTTA
Found at i:22008996 original size:7 final size:7
Alignment explanation
Indices: 22008984--22009009 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22008974 TAGTCGATTC
22008984 GTATTTA
1 GTATTTA
22008991 GTATTTA
1 GTATTTA
22008998 GTATTTA
1 GTATTTA
22009005 GTATT
1 GTATT
22009010 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:22009658 original size:18 final size:18
Alignment explanation
Indices: 22009635--22009678 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22009625 ATGCCAAGTG
* *
22009635 TGTATCCTATCCCTTTTA
1 TGTATCCTAACCCTTATA
22009653 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
22009671 TGTTTCCT
1 TGTATCCT
22009679 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:22009944 original size:21 final size:21
Alignment explanation
Indices: 22009920--22009966 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
22009910 CAACACTGAT
* *
22009920 AACCA-AATCCCTTACCGGAGG
1 AACCAGAATCCC-CACCGGAGC
22009941 AACCAGAATCCCCACCGGAGC
1 AACCAGAATCCCCACCGGAGC
22009962 AACCA
1 AACCA
22009967 CAACCCCCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.36, C:0.38, G:0.17, T:0.09
Consensus pattern (21 bp):
AACCAGAATCCCCACCGGAGC
Found at i:22009974 original size:21 final size:21
Alignment explanation
Indices: 22009933--22009974 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22009923 CAAATCCCTT
* * *
22009933 ACCGGAGGAACCAGAATCCCC
1 ACCGGAGCAACCACAACCCCC
22009954 ACCGGAGCAACCACAACCCCC
1 ACCGGAGCAACCACAACCCCC
22009975 GTCGAAAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.45, G:0.19, T:0.02
Consensus pattern (21 bp):
ACCGGAGCAACCACAACCCCC
Found at i:22012741 original size:242 final size:243
Alignment explanation
Indices: 22012316--22012771 Score: 734
Period size: 242 Copynumber: 1.9 Consensus size: 243
22012306 TTGGGGCTGA
* *
22012316 GCTCTTGAGGTGGATCCACATCGGGCTCATCTTCTAACCCACCATCATCTGCAACGTACAAGGTC
1 GCTCTTGAGGTGGATCCACATCGGACTCATATTCTAACCCACCATCATCTGCAACGTACAAGGTC
* * * * * *
22012381 CCCTCACTAATGGACGTCCTAGGGAATACATTATCCCTTCTTCTGGGCGTTTCATAACGTCTTCA
66 CCCTCACCAATAGACGTCCTAGGGAATACATCATCCCCTCTTCTGGGCGTTTCATAACATCTCCA
*
22012446 TTTGGATGTAGATTGCCAACCACTAGAAGTTGATGTCATTCCCCAGTACGTATTTTC-GCATCAA
131 ATTGGATGTAGATTGCCAACCACTAGAAGTTGATGTCATTCCCCAGTACGTATTTTCAGCATCAA
* *
22012510 ACATCAATCTACCGAGGTGTTGTGTAACTTTTGCACCATCAGGTCCGG
196 ACATCAACCCACCGAGGTGTTGTGTAACTTTTGCACCATCAGGTCCGG
* * *
22012558 GCTCTTGAGGTGGATCCACATCGGACTCATATTCTAACCCACTATCATCTGCAACGTACGAGGTT
1 GCTCTTGAGGTGGATCCACATCGGACTCATATTCTAACCCACCATCATCTGCAACGTACAAGGTC
* *
22012623 CCCTCACCGATAGACGTCGTAGGGAATACATCATCCCCTCTTCTGGGCGTTTCATAACATCTCCA
66 CCCTCACCAATAGACGTCCTAGGGAATACATCATCCCCTCTTCTGGGCGTTTCATAACATCTCCA
* *
22012688 ATTGGATGTAGATTGCCAACTACTAGAAGTTGATGTCGTTCCCCAGTACGTATTTTCAGCATCAA
131 ATTGGATGTAGATTGCCAACCACTAGAAGTTGATGTCATTCCCCAGTACGTATTTTCAGCATCAA
*
22012753 ACATCGACCCACCGAGGTG
196 ACATCAACCCACCGAGGTG
22012772 CATATCCCAT
Statistics
Matches: 194, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
242 171 0.88
243 23 0.12
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (243 bp):
GCTCTTGAGGTGGATCCACATCGGACTCATATTCTAACCCACCATCATCTGCAACGTACAAGGTC
CCCTCACCAATAGACGTCCTAGGGAATACATCATCCCCTCTTCTGGGCGTTTCATAACATCTCCA
ATTGGATGTAGATTGCCAACCACTAGAAGTTGATGTCATTCCCCAGTACGTATTTTCAGCATCAA
ACATCAACCCACCGAGGTGTTGTGTAACTTTTGCACCATCAGGTCCGG
Found at i:22013577 original size:126 final size:125
Alignment explanation
Indices: 22013349--22013764 Score: 634
Period size: 126 Copynumber: 3.3 Consensus size: 125
22013339 CAGGCCAAAT
* *
22013349 AGGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCA
1 AGGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCA
** *
22013414 TCCTGCTTGAAATGTTTTTGACACTATTTGCTCAGAAACATCTTATCAAAATTCTTTTTTT
66 TCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTATCAAAATT-TTTTTTC
* *
22013475 AGGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCA
1 AGGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCA
* * * *
22013540 TCTTGTTTGAAGCGTTTTTGACACTATTTGCTTAGAAACATCTTCTCAAAATTATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTATCAAAATT-TTTTTTC
* * * *
22013601 AGAAACTACTATAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGTTGACAATGCA
1 AGGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCA
* * * * *
22013666 TCCTACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACCTCTTTTCAAAATTATTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTATCAAAATTTTTTTTC
22013726 AGGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTT
1 AGGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTT
22013765 TTTTAAATTA
Statistics
Matches: 264, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
125 43 0.16
126 221 0.84
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (125 bp):
AGGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTATCAAAATTTTTTTTC
Found at i:22014075 original size:97 final size:97
Alignment explanation
Indices: 22013841--22014210 Score: 524
Period size: 97 Copynumber: 4.0 Consensus size: 97
22013831 CTTAAAACCT
*
22013841 TAAACCCTAATCT-ATTTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAAT
1 TAAACCCTAATCTAATTTTTTT-AAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAAT
*
22013905 TTATTTGATTTTTTCCTTAAAAACCCTAAACCC
65 TTATTTGATTTTTTCCTTAAAAACCCTAAACAC
22013938 TAAA--C--A-CTAATTTTTTT-AAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATT
1 TAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATT
22013997 TATTTGATTTTTT-CTTAAAAACCCTAAACAC
66 TATTTGATTTTTTCCTTAAAAACCCTAAACAC
22014028 TAAACCCTAATCTAATTTTTTTCAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAAT
1 TAAACCCTAATCTAATTTTTTT-AAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAAT
* *
22014093 TTATTTAATTTTTTTCCTTAAAAACCATAAACAC
65 TTATTTGA-TTTTTTCCTTAAAAACCCTAAACAC
* * *
22014127 TAAACCCTAATCTAA-TTTTTTAAAATTTATAATT-A---AC-CTA--AACCCTAAACCTTTATT
1 TAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATT
22014184 TATTT-ATTTTTTCCTT-AAAACCCTAAA
66 TATTTGATTTTTTCCTTAAAAACCCTAAA
22014211 ATCTAAAAAT
Statistics
Matches: 255, Mismatches: 8, Indels: 30
0.87 0.03 0.10
Matches are distributed among these distances:
87 10 0.04
88 10 0.04
89 1 0.00
90 41 0.16
91 54 0.21
92 5 0.02
93 11 0.04
94 1 0.00
95 12 0.05
96 1 0.00
97 65 0.25
98 12 0.05
99 32 0.13
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.41
Consensus pattern (97 bp):
TAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATT
TATTTGATTTTTTCCTTAAAAACCCTAAACAC
Found at i:22015633 original size:18 final size:18
Alignment explanation
Indices: 22015612--22015649 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22015602 GAATTGTTAT
22015612 AAATATT-TTGAGTTTTAA
1 AAATATTATT-AGTTTTAA
*
22015630 AAATATTATTATTTTTAA
1 AAATATTATTAGTTTTAA
22015648 AA
1 AA
22015650 TTTTGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
AAATATTATTAGTTTTAA
Found at i:22015875 original size:16 final size:16
Alignment explanation
Indices: 22015856--22015888 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22015846 TCGAGTTTTG
22015856 GTCACTCGTAGTTTAA
1 GTCACTCGTAGTTTAA
22015872 GTCACTCGTAGTTTAA
1 GTCACTCGTAGTTTAA
22015888 G
1 G
22015889 ATAGCTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (16 bp):
GTCACTCGTAGTTTAA
Found at i:22016526 original size:7 final size:8
Alignment explanation
Indices: 22016507--22016533 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
22016497 TTTGATTTAA
22016507 AAAAAATT
1 AAAAAATT
22016515 AAAAAATT
1 AAAAAATT
22016523 AAAAAATT
1 AAAAAATT
22016531 AAA
1 AAA
22016534 GTTTTAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAAATT
Found at i:22016729 original size:17 final size:17
Alignment explanation
Indices: 22016707--22016757 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
22016697 AAAAATTAAA
*
22016707 AAAATTATAATATTTTT
1 AAAATTATAATATTTTG
*
22016724 AAAATTCAAAATATTTATG
1 AAAATT-ATAATATTT-TG
*
22016743 AAAATT-TAAAATTTT
1 AAAATTATAATATTTT
22016758 ATATTTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 1 0.04
17 12 0.43
18 8 0.29
19 7 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AAAATTATAATATTTTG
Found at i:22016746 original size:19 final size:19
Alignment explanation
Indices: 22016715--22016759 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
22016705 AAAAAATTAT
*
22016715 AATATTT-TTAAAATTCAA
1 AATATTTATGAAAATTCAA
*
22016733 AATATTTATGAAAATTTAA
1 AATATTTATGAAAATTCAA
22016752 AAT-TTTAT
1 AATATTTAT
22016760 ATTTTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
AATATTTATGAAAATTCAA
Found at i:22016758 original size:18 final size:17
Alignment explanation
Indices: 22016707--22016760 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
22016697 AAAAATTAAA
*
22016707 AAAATTATAATATTTT-T
1 AAAATT-TAAAATTTTAT
*
22016724 AAAATTCAAAATATTTAT
1 AAAATTTAAAAT-TTTAT
22016742 GAAAATTTAAAATTTTAT
1 -AAAATTTAAAATTTTAT
22016760 A
1 A
22016761 TTTTTCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.13
17 10 0.32
18 6 0.19
19 11 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAATTTAAAATTTTAT
Found at i:22017043 original size:14 final size:14
Alignment explanation
Indices: 22017024--22017063 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
22017014 TTAATTTTTT
22017024 AATTTAACTCGAAC
1 AATTTAACTCGAAC
*
22017038 AATTTAACTTGAAC
1 AATTTAACTCGAAC
*
22017052 AATTTCACTCGA
1 AATTTAACTCGA
22017064 TTCGATTAAG
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:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (14 bp):
AATTTAACTCGAAC
Found at i:22020286 original size:58 final size:58
Alignment explanation
Indices: 22020196--22020331 Score: 236
Period size: 58 Copynumber: 2.3 Consensus size: 58
22020186 AGTAATAGCC
*
22020196 TCTTTCATCTATGGTCTTACACCGTATACCTTATACCTTTTACCATGTTGTCATGACA
1 TCTTTCATCCATGGTCTTACACCGTATACCTTATACCTTTTACCATGTTGTCATGACA
* * *
22020254 TCTTTCATCCATGGTATTACACTGTATACCTTATACCTTTTACCATGTTGTCATGGCA
1 TCTTTCATCCATGGTCTTACACCGTATACCTTATACCTTTTACCATGTTGTCATGACA
22020312 TCTTTCATCCATGGTCTTAC
1 TCTTTCATCCATGGTCTTAC
22020332 GCAACGTACC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (58 bp):
TCTTTCATCCATGGTCTTACACCGTATACCTTATACCTTTTACCATGTTGTCATGACA
Found at i:22021656 original size:85 final size:85
Alignment explanation
Indices: 22021539--22021700 Score: 225
Period size: 85 Copynumber: 1.9 Consensus size: 85
22021529 CCTGTACTTG
* * ** * *
22021539 CATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTTTATTATGGTATATGAACTATTAATA
1 CATAAAATGTCCAATGTGGTACATGTACTTTGAAAATGTCCAATATGGTATACGAACTATTAATA
22021604 TATGTTTTATTATGCTCTTT
66 TATGTTTTATTATGCTCTTT
* * * *
22021624 CATAAAATGTCCAATGTGGTACATGTAGTTTGAAAATGTCCAATGTGGTATCCGAACTATTTATA
1 CATAAAATGTCCAATGTGGTACATGTACTTTGAAAATGTCCAATATGGTATACGAACTATTAATA
*
22021689 TGTGTTTTATTA
66 TATGTTTTATTA
22021701 CGGTACTTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (85 bp):
CATAAAATGTCCAATGTGGTACATGTACTTTGAAAATGTCCAATATGGTATACGAACTATTAATA
TATGTTTTATTATGCTCTTT
Found at i:22024840 original size:14 final size:16
Alignment explanation
Indices: 22024821--22024852 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
22024811 TTAACTTCTC
22024821 ATTTAATT-TTT-AAA
1 ATTTAATTGTTTCAAA
22024835 ATTTAATTGTTTCAAA
1 ATTTAATTGTTTCAAA
22024851 AT
1 AT
22024853 AGATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTTAATTGTTTCAAA
Found at i:22025486 original size:3 final size:3
Alignment explanation
Indices: 22025431--22025469 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
22025421 TTTGGAATTG
22025431 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22025470 AAGAAACCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22033212 original size:16 final size:16
Alignment explanation
Indices: 22033191--22033227 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
22033181 TAATTAACAT
22033191 AGATAAAAA-TAATTAA
1 AGATAAAAATTAATT-A
22033207 AGATAAAAATTAATTA
1 AGATAAAAATTAATTA
22033223 AGATA
1 AGATA
22033228 TAAGATCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (16 bp):
AGATAAAAATTAATTA
Found at i:22037236 original size:13 final size:13
Alignment explanation
Indices: 22037218--22037242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22037208 ATTAAGAAAA
22037218 AAATATCAAATTC
1 AAATATCAAATTC
22037231 AAATATCAAATT
1 AAATATCAAATT
22037243 AGATGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATCAAATTC
Found at i:22041592 original size:51 final size:51
Alignment explanation
Indices: 22041475--22041734 Score: 396
Period size: 51 Copynumber: 5.1 Consensus size: 51
22041465 CTTGCGTATG
* * *
22041475 ATCACTTATCACTTGTCCCTGATAAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
22041525 ATCACTTGCCATTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
22041576 ATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
22041627 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
22041678 ATCACTTGTCATTTGTCACTGATCAGATAAGTGTAGCTAAAGTTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
22041729 ATCACT
1 ATCACT
22041735 GATCAGAAGT
Statistics
Matches: 190, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
50 32 0.17
51 158 0.83
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:22047851 original size:227 final size:228
Alignment explanation
Indices: 22047455--22047897 Score: 710
Period size: 227 Copynumber: 1.9 Consensus size: 228
22047445 AAAATAAGCA
* * * * *
22047455 TTAGCGGTGTTTCTGAAAAAGCGTCGCAAAAATACTTCAGTCCAACGATGTCGTTTTCTGAGCTG
1 TTAGCGGCGTTTCTGAAAAAGCGCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTG
22047520 AGAAGGATTTAGTGGCATTTTTATGCAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGG
66 AGAAGGATTTAGTGGCATTTTTATGCAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGG
* * * *
22047585 GAAAGCGCCGCAAAAATACTTCAGTCTAACAACGCCGTTTT-TCGAGCTGAGAAGGATTTAGTGG
131 GAAAGCCCCGCAAAAATACTTCAGCCCAACAACGCCGTTTTCT-GAGCTGAGAAGGATTTAGTAG
22047649 CGTTTTTATGTAAGCACCGCTACTGGTCAGGTCT
195 CGTTTTTATGTAAGCACCGCTACTGGTCAGGTCT
* *
22047683 TTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAATAC-TCAGCCCAACGACGCCGTTTTCTGAGCTG
1 TTAGCGGCGTTTCTGAAAAAGCGCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTG
* * * *
22047747 AGAATGATTTAGTGGCGTTTTTATGTAAGCGCCGCTAGTGGTCAGGTCTTTAGCGGCGTTTTTGG
66 AGAAGGATTTAGTGGCATTTTTATGCAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGG
*
22047812 GAAAGCCCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAAGGATTTAGTAGC
131 GAAAGCCCCGCAAAAATACTTCAGCCCAACAACGCCGTTTTCTGAGCTGAGAAGGATTTAGTAGC
*
22047877 GTTTTTATGTAAGCGCCGCTA
196 GTTTTTATGTAAGCACCGCTA
22047898 ATACTCAGGG
Statistics
Matches: 197, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
227 165 0.84
228 32 0.16
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (228 bp):
TTAGCGGCGTTTCTGAAAAAGCGCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTG
AGAAGGATTTAGTGGCATTTTTATGCAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGG
GAAAGCCCCGCAAAAATACTTCAGCCCAACAACGCCGTTTTCTGAGCTGAGAAGGATTTAGTAGC
GTTTTTATGTAAGCACCGCTACTGGTCAGGTCT
Found at i:22047906 original size:114 final size:114
Alignment explanation
Indices: 22047472--22047897 Score: 694
Period size: 114 Copynumber: 3.7 Consensus size: 114
22047462 TGTTTCTGAA
* * * * *
22047472 AAAGCGTCGCAAAAATACTTCAGTCCAACGATGTCGTTTTCTGAGCTGAGAAGGATTTAGTGGCA
1 AAAGCGCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAAGGATTTAGTGGCG
*
22047537 TTTTTATGCAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGGG
66 TTTTTATGTAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGGG
* * *
22047586 AAAGCGCCGCAAAAATACTTCAGTCTAACAACGCCGTTTT-TCGAGCTGAGAAGGATTTAGTGGC
1 AAAGCGCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCT-GAGCTGAGAAGGATTTAGTGGC
* *
22047650 GTTTTTATGTAAGCACCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGGA
65 GTTTTTATGTAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGGG
*
22047700 AAAGCGCCGCAAAAATAC-TCAGCCCAACGACGCCGTTTTCTGAGCTGAGAATGATTTAGTGGCG
1 AAAGCGCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAAGGATTTAGTGGCG
*
22047764 TTTTTATGTAAGCGCCGCTAGTGGTCAGGTCTTTAGCGGCGTTTTTGGG
66 TTTTTATGTAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGGG
* *
22047813 AAAGCCCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAAGGATTTAGTAGCG
1 AAAGCGCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAAGGATTTAGTGGCG
22047878 TTTTTATGTAAGCGCCGCTA
66 TTTTTATGTAAGCGCCGCTA
22047898 ATACTCAGGG
Statistics
Matches: 290, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
113 104 0.36
114 186 0.64
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (114 bp):
AAAGCGCCGCAAAAATACTTCAGCCCAACGACGCCGTTTTCTGAGCTGAGAAGGATTTAGTGGCG
TTTTTATGTAAGCGCCGCTACTGGTCAGGTCTTTAGCGGCGTTTTTGGG
Found at i:22048173 original size:14 final size:15
Alignment explanation
Indices: 22048140--22048173 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22048130 TAAGTTTTAT
22048140 AGATTATGGAATTAG
1 AGATTATGGAATTAG
22048155 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
22048169 GGATT
1 AGATT
22048174 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:22048215 original size:14 final size:14
Alignment explanation
Indices: 22048196--22048240 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
22048186 TTAATGTGAT
* *
22048196 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
22048210 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
22048224 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
22048238 TTA
1 TTA
22048241 GATGTTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Done.