Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 164 of 170
Found at i:48804687 original size:17 final size:17
Alignment explanation
Indices: 48804665--48804700 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
48804655 GTCAGCAAAG
48804665 TTAAAAAAAAGAGTAAC
1 TTAAAAAAAAGAGTAAC
*
48804682 TTAAAAAAAAGGGTAAC
1 TTAAAAAAAAGAGTAAC
48804699 TT
1 TT
48804701 CTCTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (17 bp):
TTAAAAAAAAGAGTAAC
Found at i:48809155 original size:27 final size:27
Alignment explanation
Indices: 48809114--48809216 Score: 147
Period size: 27 Copynumber: 3.8 Consensus size: 27
48809104 TAGTATTGGC
48809114 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
* *
48809141 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
*
48809168 GCCTATCTAGG-AGGCGCCAATGGTGAT
1 GCCTATCT-GGAAGGCGCCAATGGTGGT
48809195 GCCATAT-TGGAAGGCGCCAATG
1 GCC-TATCTGGAAGGCGCCAATG
48809217 CTGTGATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
26 2 0.03
27 62 0.90
28 5 0.07
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.22
Consensus pattern (27 bp):
GCCTATCTGGAAGGCGCCAATGGTGGT
Found at i:48809942 original size:3 final size:3
Alignment explanation
Indices: 48809930--48809973 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
48809920 TTTTTTTTCT
* *
48809930 TTC TTA TTC TTC TTC -TC TTC TTC TTC TTC TCC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
48809974 CATTTCTCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:48809953 original size:14 final size:14
Alignment explanation
Indices: 48809926--48809974 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
48809916 TTACTTTTTT
*
48809926 TTCTT-TCTTATTC
1 TTCTTCTCTTCTTC
48809939 TTCTTCTCTTCTTC
1 TTCTTCTCTTCTTC
48809953 TTCTTCTCCTTC-TC
1 TTCTTCT-CTTCTTC
48809967 TTCTTCTC
1 TTCTTCTC
48809975 ATTTCTCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 6 0.18
14 23 0.70
15 4 0.12
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCTTCTCTTCTTC
Found at i:48809959 original size:20 final size:20
Alignment explanation
Indices: 48809930--48809973 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
48809920 TTTTTTTTCT
*
48809930 TTCTTATTCTTCTTCTCTTC
1 TTCTTATTCTCCTTCTCTTC
*
48809950 TTCTTCTTCTCCTTCTCTTC
1 TTCTTATTCTCCTTCTCTTC
48809970 TTCT
1 TTCT
48809974 CATTTCTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTATTCTCCTTCTCTTC
Found at i:48809983 original size:17 final size:15
Alignment explanation
Indices: 48809937--48809985 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
48809927 TCTTTCTTAT
48809937 TCTTCTTCTCTTCT-
1 TCTTCTTCTCTTCTC
*
48809951 TCTTCTTCTCCT-TC
1 TCTTCTTCTCTTCTC
48809965 TCTTCTTCTCATTTCTC
1 TCTTCTTCTC--TTCTC
48809982 TCTT
1 TCTT
48809986 TTTTTTTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 1 0.03
14 21 0.72
16 1 0.03
17 6 0.21
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (15 bp):
TCTTCTTCTCTTCTC
Found at i:48810154 original size:149 final size:152
Alignment explanation
Indices: 48809958--48810259 Score: 567
Period size: 149 Copynumber: 2.0 Consensus size: 152
48809948 TCTTCTTCTT
48809958 CTCCTTCTCTTCTTCTCATTTCTCTCTTTTTTTTTCTCTACCGTGTGGCATTGCATTGGGACCAT
1 CTCCTTCTCTTCTTCTCATTTCTCTCTTTTTTTTTCTCTACCGTGTGGCATTGCATTGGGA-CAT
48810023 TTGCCATTACTTATAGGC-AAATAAAAAAGAGCATGAAGGGA-AACATAGCAGCAGCATGCAGGG
65 TTGCCATTACTTATAGGCAAAATAAAAAAGAGCATGAAGGGACAACATAGCAGCAGCATGCAGGG
48810086 GCTGCAACAGTGGGCAGAAGACA
130 GCTGCAACAGTGGGCAGAAGACA
48810109 CTCC-TCTC-TCTTCTCATTTCTCTCTTTTTTTTTCTCTACCGTGTGGCATTGCATTGGGACATT
1 CTCCTTCTCTTCTTCTCATTTCTCTCTTTTTTTTTCTCTACCGTGTGGCATTGCATTGGGACATT
48810172 TGCCATTACTTATAGGCAAAATAAAAAAGAGCATGAAGGGACAACATAGCAGCAGCATGCAGGGG
66 TGCCATTACTTATAGGCAAAATAAAAAAGAGCATGAAGGGACAACATAGCAGCAGCATGCAGGGG
48810237 CTGCAACAGTGGGCAGAAGACA
131 CTGCAACAGTGGGCAGAAGACA
48810259 C
1 C
48810260 CATTGGCGCC
Statistics
Matches: 149, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
148 21 0.14
149 74 0.50
150 50 0.34
151 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (152 bp):
CTCCTTCTCTTCTTCTCATTTCTCTCTTTTTTTTTCTCTACCGTGTGGCATTGCATTGGGACATT
TGCCATTACTTATAGGCAAAATAAAAAAGAGCATGAAGGGACAACATAGCAGCAGCATGCAGGGG
CTGCAACAGTGGGCAGAAGACA
Found at i:48810792 original size:27 final size:27
Alignment explanation
Indices: 48810751--48810880 Score: 199
Period size: 27 Copynumber: 4.8 Consensus size: 27
48810741 TAGTATTGGC
*
48810751 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
48810778 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
48810805 GCCTATCTAGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
48810832 GCCTATCTAGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
48810859 GCCATAT-TGGAAGGCGCCAATG
1 GCC-TATCTGGGAGGCGCCAATG
48810881 CTGTGATTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 93 0.97
28 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.37, T:0.22
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:48810984 original size:18 final size:20
Alignment explanation
Indices: 48810942--48810985 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
48810932 GAAACGGAAG
48810942 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
48810962 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
48810980 AAAGAA
1 AAAGAA
48810986 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 14 0.67
19 2 0.10
20 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:48810991 original size:22 final size:22
Alignment explanation
Indices: 48810938--48810991 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
48810928 TACAGAAACG
*
48810938 GAAG-AAAGAAGAAGGAAGGAA
1 GAAGAAAAAAAGAAGGAAGGAA
* *
48810959 GCAGAAGAAAAGAAGGAAGGAA
1 GAAGAAAAAAAGAAGGAAGGAA
48810981 -AAGAATAAAAA
1 GAAGAA-AAAAA
48810992 ATTAGGTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.65, C:0.02, G:0.31, T:0.02
Consensus pattern (22 bp):
GAAGAAAAAAAGAAGGAAGGAA
Found at i:48814331 original size:89 final size:90
Alignment explanation
Indices: 48814180--48814359 Score: 344
Period size: 89 Copynumber: 2.0 Consensus size: 90
48814170 TTGGATATAC
48814180 TGTATGCAACCGAACTGTCGGAGTACTCGATTGCCATGATACCACTCCACTACGTTAAAATTGAT
1 TGTATGCAACCGAACTGTCGGAGTACTCGATTGCCATGATACCACTCCACTACGTTAAAATTGAT
48814245 AAC-GGTGCGCTAATGCACCATAGG
66 AACGGGTGCGCTAATGCACCATAGG
*
48814269 TGTATGCAACCGAACTGTCGGAGTACTCGATTGCCATGATGCCACTCCACTACGTTAAAATTGAT
1 TGTATGCAACCGAACTGTCGGAGTACTCGATTGCCATGATACCACTCCACTACGTTAAAATTGAT
48814334 AACGGGTGCGCTAATGCACCATAGG
66 AACGGGTGCGCTAATGCACCATAGG
48814359 T
1 T
48814360 TTGAGTGGAC
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 67 0.75
90 22 0.25
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (90 bp):
TGTATGCAACCGAACTGTCGGAGTACTCGATTGCCATGATACCACTCCACTACGTTAAAATTGAT
AACGGGTGCGCTAATGCACCATAGG
Found at i:48815635 original size:16 final size:15
Alignment explanation
Indices: 48815604--48815645 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
48815594 ACAAAATCAA
*
48815604 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
48815619 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
48815635 ATAAAAATTAA
1 ATAAAAGTTAA
48815646 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:48815725 original size:38 final size:38
Alignment explanation
Indices: 48815682--48815763 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
48815672 AAAAAGTCAG
*
48815682 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTATAATAAAATGATTTTTAATTTTT
*
48815720 TTATAATTAAACTTATAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTATAATAAAATGATTTTTAATTTTT
48815758 TTATAA
1 TTATAA
48815764 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTATAATAAAATGATTTTTAATTTTT
Found at i:48816036 original size:49 final size:49
Alignment explanation
Indices: 48815906--48816249 Score: 434
Period size: 49 Copynumber: 7.1 Consensus size: 49
48815896 AATTAATTAT
* *
48815906 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTGCAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** * * *
48815954 -CCCACATTACAATATTCATACAAAATTACAATATTATAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
48816002 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAT
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
48816051 AAAAAAATTGCAATATTCATAC-AAATTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
48816099 -AAAAAATAT--AATATTCATACAAAATTACAAAATTACAATATTCATAC
1 AAAAAAAT-TGCAATATTCATACAAAATTACAATATTACAATATTCATAC
* * *
48816146 AAAAAATTTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
** * *
48816195 AAAAAAATTATAATATTCATACAAAATTACGATATTACAATATTCAAAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
48816244 AAAAAA
1 AAAAAA
48816250 TTACTAATCC
Statistics
Matches: 259, Mismatches: 28, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
45 19 0.07
46 12 0.05
47 50 0.19
48 33 0.13
49 145 0.56
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (49 bp):
AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:48816141 original size:144 final size:145
Alignment explanation
Indices: 48815903--48816250 Score: 504
Period size: 144 Copynumber: 2.4 Consensus size: 145
48815893 ACAAATTAAT
* * ** * *
48815903 TATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-ATCCCCACATTACAA
1 TATAAAAAAATTACAATATTCATAC--AAAATTACAATATTACAATATTCATACAAAAAATACAA
* * *
48815966 TATTCATACAAAATTACAATATTATAATATTCATACAAAAAAATTGCAATATTCATACAAAATTA
64 TATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTA
48816031 TAATATTACAATATTCA
129 TAATATTACAATATTCA
* * *
48816048 TATAAAAAAATTGCAATATTCATAC-AAATTATAATATTACAATATTCATACAAAAAATATAATA
1 TATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATACAATA
*
48816112 TTCATACAAAATTACAAAATTACAATATTCATACAAAAAATTTGCAATATTCATACAAAACTATA
66 TTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATA
48816177 ATATTACAATATTCA
131 ATATTACAATATTCA
* * * *
48816192 TACAAAAAAATTATAATATTCATACAAAATTACGATATTACAATATTCAAACAAAAAAT
1 TATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAT
48816251 TACTAATCCA
Statistics
Matches: 181, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
142 18 0.10
143 1 0.01
144 109 0.60
145 53 0.29
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (145 bp):
TATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATACAATA
TTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATA
ATATTACAATATTCA
Found at i:48816207 original size:30 final size:27
Alignment explanation
Indices: 48816108--48816247 Score: 129
Period size: 27 Copynumber: 5.6 Consensus size: 27
48816098 CAAAAAATAT
* * *
48816108 AATATTCATACAAAATTACAAAATTAC
1 AATATTCATACAAAACTATAATATTAC
*
48816135 AATATTCATAC-AAA--A-AAT-TTGC
1 AATATTCATACAAAACTATAATATTAC
48816157 AATATTCATACAAAACTATAATATTAC
1 AATATTCATACAAAACTATAATATTAC
*
48816184 AATATTCATAC-AAA--A-AA-ATTAT
1 AATATTCATACAAAACTATAATATTAC
* **
48816206 AATATTCATACAAAATTACGATATTAC
1 AATATTCATACAAAACTATAATATTAC
*
48816233 AATATTCAAACAAAA
1 AATATTCATACAAAA
48816248 AATTACTAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
22 29 0.30
23 10 0.10
24 2 0.02
25 2 0.02
26 10 0.10
27 43 0.45
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (27 bp):
AATATTCATACAAAACTATAATATTAC
Found at i:48816316 original size:19 final size:19
Alignment explanation
Indices: 48816291--48816373 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
48816281 ATTATAAAAT
48816291 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* * *
48816310 CATTACAACATTCATAAAAA
1 AATTACAATATTCAT-ACAA
*
48816330 AATTATAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
48816351 AAGTTAAAATATTC-TACAA
1 AA-TTACAATATTCATACAA
48816370 AATT
1 AATT
48816374 CTAATCTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.04
19 18 0.35
20 15 0.29
21 7 0.13
22 10 0.19
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:48816342 original size:20 final size:20
Alignment explanation
Indices: 48815904--48816364 Score: 106
Period size: 22 Copynumber: 20.0 Consensus size: 20
48815894 CAAATTAATT
*
48815904 ATAAAATAATTACAATATTC
1 ATAAAAAAATTACAATATTC
48815924 ATACAAAAAATTACAATATTAC
1 ATA-AAAAAATTACAATATT-C
** *
48815946 AATATATCCCCACATTACAATATTC
1 -ATA-A---AAAAATTACAATATTC
*
48815971 ATACAAAATTACAATATTATAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
48815998 ATACAAAAAAATTGCAATATTC
1 AT--AAAAAAATTACAATATTC
48816020 ATACAAAATTATAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
48816047 ATATAAAAAAATTGCAATATTC
1 --ATAAAAAAATTACAATATTC
48816069 ATACAAATTATAATATTACAATATTC
1 AT--AAA--A-AA-ATTACAATATTC
*
48816095 ATACAAAAAA-TATAATATTC
1 ATA-AAAAAATTACAATATTC
48816115 ATACAAAATTACAAAATTACAATATTC
1 AT----AA--A-AAAATTACAATATTC
*
48816142 ATACAAAAAATTTGCAATATTC
1 ATA-AAAAAA-TTACAATATTC
48816164 ATACAAAACTATAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
48816191 ATACAAAAAAATTATAATATTC
1 AT--AAAAAAATTACAATATTC
48816213 ATACAAAATTACGATATTACAATATTC
1 AT--AAAA--A--A-ATTACAATATTC
* * *
48816240 AAACAAAAAATTACTA-ATCC
1 ATA-AAAAAATTACAATATTC
48816260 A-AAACTATAAA-TACAAATTTAATT-
1 ATAAA--A-AAATTAC-AA--T-ATTC
*
48816284 ATAAAATAATTACAATATTC
1 ATAAAAAAATTACAATATTC
* * *
48816304 AT-ACAACATTACAACATTC
1 ATAAAAAAATTACAATATTC
*
48816323 ATAAAAAAATTATAATATTC
1 ATAAAAAAATTACAATATTC
*
48816343 ATACAAAAAAGTTAAAATATTC
1 ATA-AAAAAA-TTACAATATTC
48816365 TACAAAATTC
Statistics
Matches: 336, Mismatches: 41, Indels: 126
0.67 0.08 0.25
Matches are distributed among these distances:
18 2 0.01
19 19 0.06
20 43 0.13
21 36 0.11
22 76 0.23
23 20 0.06
24 14 0.04
25 14 0.04
26 47 0.14
27 62 0.18
28 1 0.00
29 2 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (20 bp):
ATAAAAAAATTACAATATTC
Found at i:48816361 original size:22 final size:21
Alignment explanation
Indices: 48816286--48816371 Score: 81
Period size: 20 Copynumber: 4.2 Consensus size: 21
48816276 ATTTAATTAT
*
48816286 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
* * *
48816308 --AACATTACAACATTCATA-
1 AAAAAATTAAAATATTCATAC
*
48816326 AAAAAATTATAATATTCATAC
1 AAAAAATTAAAATATTCATAC
48816347 AAAAAAGTTAAAATATTC-TAC
1 AAAAAA-TTAAAATATTCATAC
48816368 AAAA
1 AAAA
48816372 TTCTAATCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 14 0.26
20 17 0.31
21 13 0.24
22 10 0.19
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.29
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:48816726 original size:27 final size:27
Alignment explanation
Indices: 48816695--48816760 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
48816685 GCAGAGGACA
*
48816695 CCATTGGCGCCTCTCCATGAGGCTCCT
1 CCATTGGCGCCTCTACATGAGGCTCCT
*
48816722 TCATTGGCGCCTCTACATGAGGCTCCT
1 CCATTGGCGCCTCTACATGAGGCTCCT
48816749 CCATTGGCGCCT
1 CCATTGGCGCCT
48816761 ACTAGACAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.12, C:0.38, G:0.23, T:0.27
Consensus pattern (27 bp):
CCATTGGCGCCTCTACATGAGGCTCCT
Found at i:48817138 original size:24 final size:26
Alignment explanation
Indices: 48817111--48817158 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
48817101 TCTCCTAAAA
48817111 TTATAAATTAT-AAA-TTTAAATTTT
1 TTATAAATTATAAAATTTTAAATTTT
*
48817135 TTATAATTTATAAAATTTTAAATT
1 TTATAAATTATAAAATTTTAAATT
48817159 AGTAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 3 0.14
26 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTATAAATTATAAAATTTTAAATTTT
Found at i:48821821 original size:13 final size:13
Alignment explanation
Indices: 48821803--48821828 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48821793 TTTATTGTAA
48821803 ACAAATTTAATAG
1 ACAAATTTAATAG
48821816 ACAAATTTAATAG
1 ACAAATTTAATAG
48821829 TTGGACTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
ACAAATTTAATAG
Found at i:48826913 original size:11 final size:11
Alignment explanation
Indices: 48826899--48826924 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48826889 CTATTAATTT
48826899 TTTTATTTAAA
1 TTTTATTTAAA
48826910 TTTTATTTAAA
1 TTTTATTTAAA
48826921 TTTT
1 TTTT
48826925 TTATCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATTTAAA
Found at i:48826919 original size:24 final size:26
Alignment explanation
Indices: 48826872--48826928 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
48826862 TATATACAAA
* * *
48826872 TTTTTATTTATATTTTTCTATTAATT
1 TTTTTATTTATAATTTTATATTAAAT
48826898 TTTTTATTTA-AATTTTAT-TTAAAT
1 TTTTTATTTATAATTTTATATTAAAT
48826922 TTTTTAT
1 TTTTTAT
48826929 CTATTTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 12 0.43
25 6 0.21
26 10 0.36
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTTATTTATAATTTTATATTAAAT
Found at i:48832675 original size:33 final size:33
Alignment explanation
Indices: 48832611--48832676 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
48832601 CAGACAATTT
* *
48832611 AACAAAGATACCAACATCTTAGTTTCGAGTAAC
1 AACAAAGATACCAACATCTGAGTTTCCAGTAAC
48832644 AACAAAGATACCAACATCCTGA-TTTCCAGTAAC
1 AACAAAGATACCAACAT-CTGAGTTTCCAGTAAC
48832677 CAAGGTATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (33 bp):
AACAAAGATACCAACATCTGAGTTTCCAGTAAC
Found at i:48833971 original size:15 final size:16
Alignment explanation
Indices: 48833951--48833980 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48833941 CCTTTAAAAA
48833951 TATTAAAAT-ATAAAT
1 TATTAAAATAATAAAT
48833966 TATTAAAATAATAAA
1 TATTAAAATAATAAA
48833981 ATTTGATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATTAAAATAATAAAT
Found at i:48837602 original size:11 final size:11
Alignment explanation
Indices: 48837586--48837611 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48837576 TAGAAGAGAC
48837586 GAAACAGGGGA
1 GAAACAGGGGA
48837597 GAAACAGGGGA
1 GAAACAGGGGA
48837608 GAAA
1 GAAA
48837612 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:48838285 original size:6 final size:6
Alignment explanation
Indices: 48838268--48838304 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
48838258 ATGTGAGGTA
* *
48838268 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
48838305 TTAAGATGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (6 bp):
AGTATT
Found at i:48838291 original size:18 final size:18
Alignment explanation
Indices: 48838268--48838304 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
48838258 ATGTGAGGTA
48838268 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
48838286 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
48838304 A
1 A
48838305 TTAAGATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:48838485 original size:23 final size:26
Alignment explanation
Indices: 48838459--48838507 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
48838449 ATTGCGGATT
48838459 AATTATTG-ATTGAAAA-GTG-GAAA
1 AATTATTGAATTGAAAATGTGAGAAA
48838482 AATTATTGAATTGAAAATGTGAGAAA
1 AATTATTGAATTGAAAATGTGAGAAA
48838508 TTGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.35
24 8 0.35
25 3 0.13
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (26 bp):
AATTATTGAATTGAAAATGTGAGAAA
Found at i:48838745 original size:39 final size:38
Alignment explanation
Indices: 48838625--48838758 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
48838615 GACCTCGAGT
* * *
48838625 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAT-TA-TTCTTC-GA-ACTATC
** ** * *
48838666 CGATGAGGTACTGGGTACCAACT-TTCTTCG-ACTCTGC
1 CGATGAGACACTGGGTGTCAATTATTCTTCGAACTAT-C
48838703 CGATGAGACACTGGGTGTCAATTATTGCTTCGAACTATC
1 CGATGAGACACTGGGTGTCAATTATT-CTTCGAACTATC
*
48838742 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
48838759 CCATACTGGT
Statistics
Matches: 72, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 19 0.26
38 8 0.11
39 22 0.31
40 5 0.07
41 16 0.22
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTATTCTTCGAACTATC
Found at i:48845536 original size:13 final size:13
Alignment explanation
Indices: 48845514--48845544 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
48845504 TCAAAATTTT
*
48845514 AAAAGTACTTCTC
1 AAAAGCACTTCTC
48845527 AAAAGCACTTCTC
1 AAAAGCACTTCTC
48845540 AAAAG
1 AAAAG
48845545 TATTTTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (13 bp):
AAAAGCACTTCTC
Found at i:48856318 original size:16 final size:16
Alignment explanation
Indices: 48856297--48856327 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48856287 ATTAATGTTT
48856297 TTTATTAAATTTTTAC
1 TTTATTAAATTTTTAC
48856313 TTTATTAAATTTTTA
1 TTTATTAAATTTTTA
48856328 TCATTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATTAAATTTTTAC
Found at i:48856339 original size:18 final size:16
Alignment explanation
Indices: 48856300--48856339 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
48856290 AATGTTTTTT
*
48856300 ATTAAATTTTTACTTT
1 ATTAAATTTTTACTTA
48856316 ATTAAATTTTTATCATTA
1 ATTAAATTTTTA-C-TTA
48856334 ATTAAA
1 ATTAAA
48856340 ATAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 1 0.05
18 8 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAAATTTTTACTTA
Found at i:48857700 original size:9 final size:9
Alignment explanation
Indices: 48857688--48857892 Score: 76
Period size: 10 Copynumber: 21.3 Consensus size: 9
48857678 ATTTTATGAT
48857688 TTTTTATAA
1 TTTTTATAA
*
48857697 TTTTTATTAG
1 TTTTTA-TAA
* *
48857707 TTTATATTGA
1 TTTTTA-TAA
* *
48857717 TTTTAATAC
1 TTTTTATAA
* *
48857726 TTTTAATAG
1 TTTTTATAA
* * *
48857735 TTGTTACAT
1 TTTTTATAA
*
48857744 TTTTTATGAT
1 TTTTTAT-AA
48857754 TTTTTATAGAA
1 TTTTTAT--AA
* *
48857765 TTTTAATATG
1 TTTTTATA-A
48857775 TTTTTATAA
1 TTTTTATAA
48857784 TATTTTA-AA
1 T-TTTTATAA
* *
48857793 TATTTAAATA
1 TTTTTATA-A
48857803 TATTTTATTAA
1 T-TTTTA-TAA
48857814 -TTTTATAAA
1 TTTTTAT-AA
48857823 TTTTTATAA
1 TTTTTATAA
*
48857832 TTTATTAGAA
1 TTT-TTATAA
48857842 TTTTTATAA
1 TTTTTATAA
48857851 TATTTTAT--
1 T-TTTTATAA
48857859 TTATTTAATAA
1 TT-TTT-ATAA
48857870 TTTTTATAA
1 TTTTTATAA
*
48857879 GTTTATATCAA
1 -TTTTTAT-AA
48857890 TTT
1 TTT
48857893 CTTTATTTAT
Statistics
Matches: 151, Mismatches: 26, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
7 1 0.01
8 9 0.06
9 55 0.36
10 68 0.45
11 17 0.11
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:48857703 original size:19 final size:18
Alignment explanation
Indices: 48857679--48857877 Score: 62
Period size: 19 Copynumber: 10.4 Consensus size: 18
48857669 CGGTTCAAGA
48857679 TTTTATGATTTTTTATAAT
1 TTTTAT-ATTTTTTATAAT
* * *
48857698 TTTTATTAGTTTATATTGAT
1 TTTTA-TATTTTTTA-TAAT
* * * *
48857718 TTTAATACTTTTAATAGT
1 TTTTATATTTTTTATAAT
* * *
48857736 TGTTACATTTTTTATGATT
1 TTTTATATTTTTTAT-AAT
* * *
48857755 TTTTATAGAATTTTAATATGT
1 TTTTAT--ATTTTTTATA-AT
*
48857776 TTTTATAATATTTTA-AAT
1 TTTTAT-ATTTTTTATAAT
* *
48857794 ATTTAAATATATTTTATTAA-
1 -TTT-TATATTTTTTA-TAAT
*
48857814 TTTTATAAATTTTTATAAT
1 TTTTAT-ATTTTTTATAAT
* *
48857833 TTATTAGAATTTTTATAAT
1 TT-TTATATTTTTTATAAT
*
48857852 ATTTTAT-TTATTTAATAAT
1 -TTTTATATT-TTTTATAAT
48857871 TTTTATA
1 TTTTATA
48857878 AGTTTATATC
Statistics
Matches: 131, Mismatches: 33, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
18 25 0.19
19 69 0.53
20 21 0.16
21 16 0.12
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTATATTTTTTATAAT
Found at i:48857832 original size:48 final size:47
Alignment explanation
Indices: 48857766--48857884 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 47
48857756 TTTATAGAAT
*
48857766 TTTAATATGTTTTTATAATATT-TTA-AATATTTAAATATATTTTATTAA
1 TTTAATA-ATTTTTATAAT-TTATTAGAATATTTAAA-ATATTTTATTAA
* * * *
48857814 TTTTATAAATTTTTATAATTTATTAGAATTTTTATAATATTTTATTTA
1 TTTAAT-AATTTTTATAATTTATTAGAATATTTAAAATATTTTATTAA
48857862 TTTAATAATTTTTATAAGTTTAT
1 TTTAATAATTTTTATAA-TTTAT
48857885 ATCAATTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
47 13 0.21
48 39 0.64
49 9 0.15
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (47 bp):
TTTAATAATTTTTATAATTTATTAGAATATTTAAAATATTTTATTAA
Found at i:48857930 original size:18 final size:18
Alignment explanation
Indices: 48857853--48857931 Score: 54
Period size: 18 Copynumber: 4.2 Consensus size: 18
48857843 TTTTATAATA
* *
48857853 TTTTATTTATTTAATAAT
1 TTTTATTTATTTATTCAT
*
48857871 TTTTA-TAAGTTTATATCAATT
1 TTTTATTTA-TTTAT-TC-A-T
*
48857892 TCTTTATTTATTTATTTAT
1 T-TTTATTTATTTATTCAT
48857911 TTTTATTTA-TTATATCAT
1 TTTTATTTATTTAT-TCAT
48857929 TTT
1 TTT
48857932 ATGAAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
17 6 0.12
18 23 0.48
19 3 0.06
20 2 0.04
21 3 0.06
22 9 0.19
23 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTATTTATTTATTCAT
Found at i:48866355 original size:6 final size:6
Alignment explanation
Indices: 48866344--48866369 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48866334 AATAAATAAT
48866344 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
48866370 CATTTGATTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:48875105 original size:32 final size:32
Alignment explanation
Indices: 48875064--48875128 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
48875054 AAGCCCTAAG
48875064 GATAATTTTCCTTTGCCACACATCGATACGTT
1 GATAATTTTCCTTTGCCACACATCGATACGTT
48875096 GATAATTTTCCTTTGCCACACATCGATACGTT
1 GATAATTTTCCTTTGCCACACATCGATACGTT
48875128 G
1 G
48875129 GTGGATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (32 bp):
GATAATTTTCCTTTGCCACACATCGATACGTT
Found at i:48876745 original size:32 final size:32
Alignment explanation
Indices: 48876700--48876765 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
48876690 TGGTTATAGA
* *
48876700 TTACTTCATAAAATGGGTAGAAGCCGCTTCGT
1 TTACTTCACAAAATGGGTAGAAGCCACTTCGT
48876732 TTACTTCACAAAATGGGTAGAAGCCACTTCGT
1 TTACTTCACAAAATGGGTAGAAGCCACTTCGT
48876764 TT
1 TT
48876766 GCCCATGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (32 bp):
TTACTTCACAAAATGGGTAGAAGCCACTTCGT
Found at i:48878124 original size:20 final size:20
Alignment explanation
Indices: 48878088--48878131 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48878078 GGGTTACTCG
*
48878088 CAAAACTTGAGGAGAAAAGT
1 CAAAACTAGAGGAGAAAAGT
48878108 ACAAAACTAGA-GAGAAAAGT
1 -CAAAACTAGAGGAGAAAAGT
48878128 CAAA
1 CAAA
48878132 GATTGAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 9 0.41
21 9 0.41
ACGTcount: A:0.57, C:0.11, G:0.20, T:0.11
Consensus pattern (20 bp):
CAAAACTAGAGGAGAAAAGT
Found at i:48878600 original size:76 final size:75
Alignment explanation
Indices: 48878406--48880255 Score: 1533
Period size: 76 Copynumber: 24.1 Consensus size: 75
48878396 TTTCTATTTT
* * * * * *
48878406 TTTTTCAAAAATAAACTCATAATACGAGAGGTGAGTTGAGCATCGGGCCACACGCCG-AGGTATT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTTA-T
*
48878470 TTCAATTTTTG
65 TTCAATTTCTG
* * *
48878481 TTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTCACACGCCGAAAGTT
1 -TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCG-AAGTT
*
48878546 ATTTCAATTTATG
63 ATTTCAATTTCTG
* * ** * *
48878559 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGTTGAGGTAATT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGT--TA
*
48878623 TTTAAATTTCTG
64 TTTCAATTTCTG
* * * * *
48878635 TTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAG--TTA
* *
48878699 TTTAAAATTTCTAT
64 TTT-CAATTTCT-G
* * * * * *
48878713 TTTTTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCCCGAG-CACACGCCGATGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGT-TAT
48878777 TTCAATTTCTG
65 TTCAATTTCTG
* * * *
48878788 TTTTTTCAAAAATAAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACGTGCCGATG-TAT
1 -TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTTA-
* *
48878852 TTTTAATTTCTAT
64 TTTCAATTTCT-G
* * * *
48878865 TTTTGTCAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGAGCCACACGCCG-AGTTAT
1 TTTT-TCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTTA-
*
48878929 TTTTCAATTTATG
64 -TTTCAATTTCTG
* * *
48878942 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAG--TTA
* *
48879007 TTTTAATTTTTG
64 TTTCAATTTCTG
* **
48879019 TTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACATGTAGAGGTAGT
1 TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA---AGT
*
48879084 T-TTT-AATTTATG
62 TATTTCAATTTCTG
* * * *
48879096 TTTTTCAAAAAAAAT-AACTCATAATGCGATATGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA
1 TTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGT-
* *
48879160 TTTTTCAATTTATG
62 TATTTCAATTTCTG
* * * *
48879174 TTTTTTTAAAAAAATCAACTCATAATGCGATAGGTGAGTTGAGCCTCGGGTCACGTGCCG-AGGT
1 --TTTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTT
*
48879238 ATTTTCAATTTCTA
63 A-TTTCAATTTCTG
* * ** * * * *
48879252 TTTTTCAAGAATCAACTCATAATGCGAGAGGTGAATTGAGCCTTTGGCCGCACGCCG-AGGTATT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTTA-T
48879316 TTCAA-TTCATG
65 TTCAATTTC-TG
*** * * * * * *
48879327 TTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACAAGCTGAGGT
1 TTT----TTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGT
* *
48879392 ATTTTTTAATTT-T-
62 -TATTTCAATTTCTG
* * * * * *
48879405 TTTTTCAGAAATCAACTCATAATGCGAGATGTGAGTTGAGCCTCGGGCCACACGACG-AGGTATT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTTA-T
* *
48879469 TTTAATTTTTG
65 TTCAATTTCTG
*
48879480 TTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA---TCGGG-CACATGCC-AAGGTA
1 -TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAA-G--
* *
48879540 TTTTTTTAAATTT-T-
61 -TTATTTCAATTTCTG
* ** *
48879554 TTTTTCAAAAAATCAACTCATAATGCG-GAAGTGAGTTGAGCCTCGGGTTGCATGCCG-AGGTAT
1 TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTTA-
48879617 TTTCAATTTCTG
64 TTTCAATTTCTG
* * *
48879629 TTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGT
1 TTTT-TC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGT
* * *
48879694 ATTTTTTAACTTCTG
62 -TATTTCAATTTCTG
* * * * * *
48879709 TTTTTCAAAAATAAACTCATAATGCGAGAGGTGAGTTAAGCCTTGGGCCGCATGCCG-AGGTATT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTTA-T
48879773 TTCAATTTCTG
65 TTCAATTTCTG
* * * **
48879784 TTTTTTTGAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGAA
1 --TTTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA---TGCCGAA
*
48879849 -TT-TTTTAATTTCTG
60 GTTATTTCAATTTCTG
* * * * *
48879863 TTTTTCAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTAGGGCCGCACT-CCG-AGGTAT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA-TGCCGAAGTTA-
48879926 TTTCAATTTCTG
64 TTTCAATTTCTG
* *
48879938 TTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTT-ACGCCTCGGGTCACATGCCG-AGTT
1 -TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGA-GCCTCGGGTCACATGCCGAAG-T
*
48880001 CTTTTTC-ATTTCTG
62 -TATTTCAATTTCTG
* * *
48880015 TTTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCC-CTGGGTACACA--CTGAGGT
1 --TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGGT-CACATGCCGAAGT
* *
48880077 ATTTTTCAATTTTTG
62 -TATTTCAATTTCTG
** *
48880092 TTTTTTCAAAAATCAACTCATAATGTTAGAGGTGAGTTGAGCCTCGGGTCACATACC-AAGGTAT
1 -TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAA-GT-T
*
48880156 TTTTCAATTTCTG
63 ATTTCAATTTCTG
* * * *
48880169 TTTTTCAAAAGTCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG-CACATGCCGATGTATCT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGT-TAT
*
48880233 TTCAATTTATG
65 TTCAATTTCTG
48880244 TTTTTTCAAAAA
1 -TTTTTCAAAAA
48880256 AAAAACGAAC
Statistics
Matches: 1471, Mismatches: 207, Indels: 192
0.79 0.11 0.10
Matches are distributed among these distances:
72 14 0.01
73 53 0.04
74 58 0.04
75 127 0.09
76 465 0.32
77 313 0.21
78 265 0.18
79 140 0.10
80 26 0.02
81 9 0.01
82 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (75 bp):
TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAAGTTATT
TCAATTTCTG
Found at i:48878745 original size:154 final size:153
Alignment explanation
Indices: 48878405--48880255 Score: 2067
Period size: 154 Copynumber: 12.1 Consensus size: 153
48878395 ATTTCTATTT
* * * * *
48878405 TTTTTTCAAAAATAAACTCATAATACGAGAGGTGAGTTGAGCATCGGGCCACACGCCGAGGTA-T
1 TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
* * * *
48878469 TTTCAATTTTTGTTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTCAC
66 TTTCAATTTCTG-TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCAC
* * * *
48878534 ACGCCGAAAGT-TATTTCAATTTATG
129 ATGCCG-AGGTATTTTTCAATTTCTG
* * **
48878559 -TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGTTGAGGTAAT
1 TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT-AT
* * * *
48878622 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGACACA
65 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACA
* *
48878686 TGCCGAGGTATTTTTTAAAATTTCTA
130 TGCCGAGGTA-TTTTT-CAATTTCTG
* * * * *
48878712 TTTTTTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCCCGAG-CACACGCCGATGTATT
1 TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
* * * *
48878776 TTTCAATTTCTGTTTTTTCAAAAATAAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACG
66 TTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACA
* *
48878841 TGCCGATGTATTTTT-AATTTCTA
130 TGCCGAGGTATTTTTCAATTTCTG
* * * * *
48878864 TTTTTGTCAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGAGCCACACGCCGAGTTAT
1 TTTTT-TCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
*
48878929 TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACA
65 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACA
* *
48878994 TGCCGAGGTATTTTTTTAATTTTTG
130 TGCCGAGGTA-TTTTTCAATTTCTG
* **
48879019 -TTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACATGTAGAGGTAG
1 TTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA-
* * * *
48879083 TTTTT-AATTTATGTTTTTCAAAAAAAAT-AACTCATAATGCGATATGTGAGTTGAGCCTCGGGT
64 TTTTTCAATTTCTGTTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
* *
48879146 CACACGCCGAGGTATTTTTCAATTTATG
126 CACATGCCGAGGTATTTTTCAATTTCTG
* * *
48879174 TTTTTTTAAAAAAATCAACTCATAATGCGATAGGTGAGTTGAGCCTCGGGTCACGTGCCGAGGTA
1 -TTTTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA
* * * ** *
48879239 -TTTTCAATTTCTATTTTTCAAGAATCAACTCATAATGCGAGAGGTGAATTGAGCCTTTGGCCGC
64 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCAC
*
48879303 ACGCCGAGGTA-TTTTCAA-TTCATG
129 ATGCCGAGGTATTTTTCAATTTC-TG
**** * * * * *
48879327 TTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACAAGCTGAGGT
1 TTT---TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT
* * *
48879392 ATTTTTTAATTT-T-TTTTTCAGAAATCAACTCATAATGCGAGATGTGAGTTGAGCCTCGGGCCA
63 ATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCA
* * *
48879455 CACGACGAGGTATTTTT-AATTTTTG
128 CATGCCGAGGTATTTTTCAATTTCTG
* *
48879480 TTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA---TCGGG-CACATGCCAAGGTAT
1 TTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA-
* * **
48879541 TTTTTTAAATTT-T-TTTTTCAAAAAATCAACTCATAATGCG-GAAGTGAGTTGAGCCTCGGGTT
64 -TTTTTCAATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCC
*
48879603 GCATGCCGAGGTA-TTTTCAATTTCTG
127 ACATGCCGAGGTATTTTTCAATTTCTG
* * *
48879629 TTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGT
1 TTTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT
* * * * * *
48879694 ATTTTTTAACTTCTGTTTTTCAAAAATAAACTCATAATGCGAGAGGTGAGTTAAGCCTTGGGCCG
63 ATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCA
48879759 CATGCCGAGGTA-TTTTCAATTTCTG
128 CATGCCGAGGTATTTTTCAATTTCTG
* * * * ** *
48879784 TTTTTTTGAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGAA
1 -TTTTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA
* * * *
48879849 TTTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTAGGGCCGC
64 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCAC
48879914 ACT-CCGAGGTA-TTTTCAATTTCTG
129 A-TGCCGAGGTATTTTTCAATTTCTG
* * * *
48879938 TTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTT-ACGCCTCGGGTCACATGCCGAGTTC
1 TTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGA-GCCTCGGGTCACATGCCGAGGTA
*
48880002 TTTTTC-ATTTCTGTTTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCC-CTGGGT
64 TTTTTCAATTTCTG--TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGG-
* * *
48880065 ACACA--CTGAGGTATTTTTCAATTTTTG
125 CCACATGCCGAGGTATTTTTCAATTTCTG
** * *
48880092 TTTTTTCAAAAATCAACTCATAATGTTAGAGGTGAGTTGAGCCTCGGGTCACATACCAAGGTATT
1 TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
* *
48880157 TTTCAATTTCTGTTTTTCAAAAGTCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG-CACAT
66 TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACAT
* * *
48880221 GCCGATGTATCTTTCAATTTATG
131 GCCGAGGTATTTTTCAATTTCTG
48880244 TTTTTTCAAAAA
1 TTTTTTCAAAAA
48880256 AAAAACGAAC
Statistics
Matches: 1464, Mismatches: 174, Indels: 120
0.83 0.10 0.07
Matches are distributed among these distances:
147 11 0.01
148 7 0.00
149 59 0.04
150 26 0.02
151 76 0.05
152 149 0.10
153 368 0.25
154 527 0.36
155 117 0.08
156 62 0.04
157 62 0.04
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (153 bp):
TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACAT
GCCGAGGTATTTTTCAATTTCTG
Found at i:48880401 original size:17 final size:17
Alignment explanation
Indices: 48880381--48880417 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
48880371 TTTCAAAATT
48880381 ACATTTTGAAAATAAAC
1 ACATTTTGAAAATAAAC
48880398 ACA-TTTGAAAATAAAC
1 ACATTTTGAAAATAAAC
48880414 ACAT
1 ACAT
48880418 AAACTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (17 bp):
ACATTTTGAAAATAAAC
Found at i:48880457 original size:30 final size:30
Alignment explanation
Indices: 48880423--48880480 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
48880413 CACATAAACT
*
48880423 TAGATATAACGTAAAAAAACCTATTGAACA
1 TAGATATAACGTAAAAAAAACTATTGAACA
48880453 TAGATATAACGTAAAAAAAACTATTGAA
1 TAGATATAACGTAAAAAAAACTATTGAA
48880481 AAAAGAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.24
Consensus pattern (30 bp):
TAGATATAACGTAAAAAAAACTATTGAACA
Found at i:48881629 original size:13 final size:13
Alignment explanation
Indices: 48881611--48881655 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
48881601 TTTTGATTTC
*
48881611 AATTAAAATTATA
1 AATTAAAATAATA
48881624 AATTAAAATAATA
1 AATTAAAATAATA
* * *
48881637 ATTTAAAATGATC
1 AATTAAAATAATA
48881650 AATTAA
1 AATTAA
48881656 TATATGATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
AATTAAAATAATA
Found at i:48881715 original size:27 final size:29
Alignment explanation
Indices: 48881680--48881733 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
48881670 TTTAATCCAA
*
48881680 AAAATTATT-ATTACAGTTAAT-TTATTGT
1 AAAATTATTAAATACA-TTAATATTATTGT
48881708 AAAA-TATTAAATACATTAATATTATT
1 AAAATTATTAAATACATTAATATTATT
48881734 TTAATTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
AAAATTATTAAATACATTAATATTATTGT
Found at i:48885699 original size:17 final size:17
Alignment explanation
Indices: 48885674--48885712 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
48885664 GGACAACCAT
*
48885674 TATATATATATAAATAA
1 TATAAATATATAAATAA
**
48885691 TATAAATATATTGATAA
1 TATAAATATATAAATAA
48885708 TATAA
1 TATAA
48885713 TCTACAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAAATATATAAATAA
Found at i:48886422 original size:22 final size:23
Alignment explanation
Indices: 48886397--48886441 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
48886387 TACTATATAT
48886397 ATAATATACCC-TTTATCTTTGC
1 ATAATATACCCTTTTATCTTTGC
48886419 ATAATATACCCTTTTATCTTTGC
1 ATAATATACCCTTTTATCTTTGC
48886442 TTTCTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (23 bp):
ATAATATACCCTTTTATCTTTGC
Found at i:48890087 original size:13 final size:13
Alignment explanation
Indices: 48890069--48890094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48890059 TAAATTTTAA
48890069 AAAAATTATATTT
1 AAAAATTATATTT
48890082 AAAAATTATATTT
1 AAAAATTATATTT
48890095 CATATATCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATTATATTT
Found at i:48899670 original size:17 final size:17
Alignment explanation
Indices: 48899640--48899680 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
48899630 TTTTGTCCCT
* *
48899640 GTAAATTTAGAAAATAA
1 GTAAAATTACAAAATAA
48899657 GTAAAATTACAAAATAA
1 GTAAAATTACAAAATAA
*
48899674 TTAAAAT
1 GTAAAAT
48899681 AATTTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (17 bp):
GTAAAATTACAAAATAA
Found at i:48899704 original size:19 final size:20
Alignment explanation
Indices: 48899674--48899711 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
48899664 TACAAAATAA
*
48899674 TTAAAATAATTTTTAAAAAT
1 TTAAAATAATTTATAAAAAT
48899694 TTAAAAT-ATTTATAAAAA
1 TTAAAATAATTTATAAAAA
48899712 ATCCAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAATAATTTATAAAAAT
Found at i:48899712 original size:20 final size:20
Alignment explanation
Indices: 48899674--48899713 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48899664 TACAAAATAA
*
48899674 TTAAAATAATTTTTAAAAAT
1 TTAAAATAATTTTAAAAAAT
48899694 TTAAAAT-ATTTATAAAAAAT
1 TTAAAATAATTT-TAAAAAAT
48899714 CCAAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAATAATTTTAAAAAAT
Found at i:48899976 original size:23 final size:23
Alignment explanation
Indices: 48899934--48899986 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
48899924 TAATTAACAA
*
48899934 AATTTAATTTAACAAGTTTTTTT
1 AATTTAATTTAACAAGTTTTATT
*
48899957 AATTTAATTTAA-ATGATTTTATT
1 AATTTAATTTAACAAG-TTTTATT
*
48899980 AAATTAA
1 AATTTAA
48899987 ATTCAATGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
AATTTAATTTAACAAGTTTTATT
Found at i:48899994 original size:23 final size:23
Alignment explanation
Indices: 48899950--48899994 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
48899940 ATTTAACAAG
* * *
48899950 TTTTTTTAATTTAATTTAAATGA
1 TTTTATTAAATTAAATTAAATGA
*
48899973 TTTTATTAAATTAAATTCAATG
1 TTTTATTAAATTAAATTAAATG
48899995 CTCAACCTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTTATTAAATTAAATTAAATGA
Found at i:48903804 original size:5 final size:5
Alignment explanation
Indices: 48903794--48903819 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48903784 ATTCATTTTC
48903794 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
48903820 TGCAAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:48911365 original size:25 final size:25
Alignment explanation
Indices: 48911337--48911385 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
48911327 ACTACACCAA
*
48911337 AACAGGTCTTTAGCGGCGTTTTTTT
1 AACAGGTCTTTAGCAGCGTTTTTTT
48911362 AACAGGTCTTTAGCAGCGTTTTTT
1 AACAGGTCTTTAGCAGCGTTTTTT
48911386 AGGCATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.43
Consensus pattern (25 bp):
AACAGGTCTTTAGCAGCGTTTTTTT
Found at i:48911556 original size:42 final size:41
Alignment explanation
Indices: 48911503--48911655 Score: 171
Period size: 42 Copynumber: 3.7 Consensus size: 41
48911493 CAAACAAAAA
*
48911503 CGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAG
* * * *
48911545 CGCCGCCAAAGAACATGTTCTTTCGCGGCGTTTTTTATGAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-TTAAG
* * * * *
48911587 CACCGCTACAGAACATGTTCTTTAGTGGCGATTTTTATTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTTAAG
* *
48911629 CGCCGCTAAAGAACATAATCCTTAGCG
1 CGCCGCTAAAGAACATGATCTTTAGCG
48911656 ACGCTTTGTA
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
42 85 0.93
43 6 0.07
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAG
Found at i:48912081 original size:21 final size:21
Alignment explanation
Indices: 48912043--48912082 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48912033 TTCTTTTGAA
*
48912043 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
48912064 CCTCTGTTTCCCTTGCTGC
1 CCTCTGCTTCCCTCGCTGC
48912083 CGCATCTACT
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:0.03, C:0.42, G:0.17, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:48912146 original size:87 final size:87
Alignment explanation
Indices: 48911978--48912137 Score: 230
Period size: 87 Copynumber: 1.8 Consensus size: 87
48911968 TTCTGCTCTG
* * * *
48911978 CTCTGTTTCTCTCGCTGCAGCCTCTGCTTTAAGTTGTAACTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGTTTCCCTCGCTGCAGCATCTACTTTAAGTTGTAACTGGAGTTCTTCATATTTCCTTTGAA
** *
48912043 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAACTTCGCTCGCTGCAGC
* * *
48912065 CTCTGTTTCCCTTGCTGCCGCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGTTTCCCTCGCTGCAGCATCTACTTTAAGTTGTAACTGGAGTTCTTCATATTTCCTTTGAA
48912130 CCTCAACT
66 CCTCAACT
48912138 GTGGTCGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 64 1.00
ACGTcount: A:0.14, C:0.28, G:0.16, T:0.41
Consensus pattern (87 bp):
CTCTGTTTCCCTCGCTGCAGCATCTACTTTAAGTTGTAACTGGAGTTCTTCATATTTCCTTTGAA
CCTCAACTTCGCTCGCTGCAGC
Found at i:48917574 original size:9 final size:9
Alignment explanation
Indices: 48917557--48918174 Score: 189
Period size: 9 Copynumber: 72.4 Consensus size: 9
48917547 TAAGTATAAT
*
48917557 TAAGCTATG
1 TAAGTTATG
48917566 TAAGTTATG
1 TAAGTTATG
48917575 TAAGTTATG
1 TAAGTTATG
48917584 T-A-TTATG
1 TAAGTTATG
48917591 TAAGTTATG
1 TAAGTTATG
48917600 CATTAAGTTAT-
1 ---TAAGTTATG
*
48917611 TTA-TTATG
1 TAAGTTATG
* *
48917619 AAAATTATG
1 TAAGTTATG
48917628 TAAGTTATG
1 TAAGTTATG
48917637 T-A-TTATG
1 TAAGTTATG
*
48917644 -AATATTATG
1 TAA-GTTATG
*
48917653 TAAGTTGTG
1 TAAGTTATG
48917662 -AA-TTATG
1 TAAGTTATG
* **
48917669 TTAGTGCTG
1 TAAGTTATG
48917678 T-A-TTATG
1 TAAGTTATG
48917685 ATCAA-TTATG
1 -T-AAGTTATG
48917695 TAAGTTATG
1 TAAGTTATG
48917704 T-A-TTATG
1 TAAGTTATG
* *
48917711 AAAATTATG
1 TAAGTTATG
* *
48917720 TAAGCTGTG
1 TAAGTTATG
* *
48917729 T-A-TTGTA
1 TAAGTTATG
48917736 TAAGTTATG
1 TAAGTTATG
48917745 TAAGTTATG
1 TAAGTTATG
*
48917754 TAAGTT-TT
1 TAAGTTATG
*
48917762 TTA-TTATG
1 TAAGTTATG
* ** *
48917770 AAAAATAAG
1 TAAGTTATG
*
48917779 TAACTTATG
1 TAAGTTATG
48917788 T-A-TTATG
1 TAAGTTATG
* *
48917795 AAAATTATG
1 TAAGTTATG
*
48917804 TAAGTTCA-A
1 TAAGTT-ATG
48917813 T-A-TTATG
1 TAAGTTATG
*
48917820 TAACTTATG
1 TAAGTTATG
*
48917829 T-A-CTATG
1 TAAGTTATG
* *
48917836 AAAATTATG
1 TAAGTTATG
48917845 TAAGTTATG
1 TAAGTTATG
*
48917854 TAAGTTGTG
1 TAAGTTATG
* *
48917863 T-A-TTGTA
1 TAAGTTATG
48917870 TAAGTTATTTG
1 TAAGTTA--TG
*
48917881 TAGGTTATG
1 TAAGTTATG
* * *
48917890 AAAATTTTG
1 TAAGTTATG
48917899 TAAGTTATG
1 TAAGTTATG
48917908 TAAGTTAT-
1 TAAGTTATG
**
48917916 T-TTTTATG
1 TAAGTTATG
* * *
48917924 AAAATTAAG
1 TAAGTTATG
48917933 TAAGTTATG
1 TAAGTTATG
48917942 T-A-TTATG
1 TAAGTTATG
* *
48917949 AAAATTATG
1 TAAGTTATG
*
48917958 TAAGTTCA-A
1 TAAGTT-ATG
48917967 T-A-TTATG
1 TAAGTTATG
48917974 TAAGTTATG
1 TAAGTTATG
*
48917983 T-A-CTATG
1 TAAGTTATG
* *
48917990 AAAATTATG
1 TAAGTTATG
48917999 TAAGTTATG
1 TAAGTTATG
*
48918008 TAAGTTGTG
1 TAAGTTATG
* *
48918017 T-A-TTGTA
1 TAAGTTATG
48918024 TAAGTTATG
1 TAAGTTATG
* *
48918033 TAGGTTACG
1 TAAGTTATG
* * *
48918042 AAAATTTTG
1 TAAGTTATG
48918051 TAAGTTATG
1 TAAGTTATG
48918060 TAAGTTAT-
1 TAAGTTATG
**
48918068 T-TTTTATG
1 TAAGTTATG
* * *
48918076 AAAATTAAG
1 TAAGTTATG
48918085 TAAGTTATG
1 TAAGTTATG
*
48918094 TATGTGTATAATG
1 TA--AGT-T-ATG
*
48918107 AAAGTTATG
1 TAAGTTATG
48918116 TAAG-T-TG
1 TAAGTTATG
48918123 T--G-TATG
1 TAAGTTATG
48918129 TAAGTTATG
1 TAAGTTATG
*
48918138 TAAGTTAAG
1 TAAGTTATG
*
48918147 T-A-TAAT-
1 TAAGTTATG
*
48918153 TAAGCTATG
1 TAAGTTATG
48918162 TAAGTTATG
1 TAAGTTATG
48918171 TAAG
1 TAAG
48918175 ATGTGATAGT
Statistics
Matches: 441, Mismatches: 108, Indels: 120
0.66 0.16 0.18
Matches are distributed among these distances:
5 2 0.00
6 6 0.01
7 82 0.19
8 45 0.10
9 271 0.61
10 11 0.02
11 11 0.02
12 9 0.02
13 4 0.01
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:48917590 original size:25 final size:25
Alignment explanation
Indices: 48917562--48918096 Score: 277
Period size: 25 Copynumber: 21.0 Consensus size: 25
48917552 ATAATTAAGC
48917562 TATGTAAGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
*
48917587 TATGTAAGTTATGCATTAAGTTATTTAT
1 TATGTAAGTTATG---TAAGTTATGTAT
* *
48917615 TATGAAAATTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
48917640 TATG-AATATTATGTAAGTTGTGAAT
1 TATGTAA-GTTATGTAAGTTATGTAT
* **
48917665 TATGTTAGTGCTGT-A-TTATGATCAAT
1 TATGTAAGTTATGTAAGTTATG-T--AT
*
48917691 TATGTAAGTTATGT-A-TTATGAAAAT
1 TATGTAAGTTATGTAAGTTATG--TAT
* * * *
48917716 TATGTAAGCTGTGT-ATTGTAT-AAGT
1 TATGTAAGTTATGTAAGT-TATGTA-T
* *
48917741 TATGTAAGTTATGTAAGTTTTTTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* ** * *
48917766 TATGAAAAATAAGTAACTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
48917791 TATGAAAATTATGTAAGTTCA-ATAT
1 TATGTAAGTTATGTAAGTT-ATGTAT
* * *
48917816 TATGTAACTTATGT-A-CTATGAAAAT
1 TATGTAAGTTATGTAAGTTATG--TAT
*
48917841 TATGTAAGTTATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * * *
48917866 TGTATAAGTTATTTGTAGGTTATGAAAAT
1 TATGTAAGTTA--TGTAAGTTATG--TAT
* * *
48917895 TTTGTAAGTTATGTAAGTTATTTTT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
48917920 TATGAAAATTAAGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
48917945 TATGAAAATTATGTAAGTTCA-ATAT
1 TATGTAAGTTATGTAAGTT-ATGTAT
* *
48917970 TATGTAAGTTATGT-A-CTATGAAAAT
1 TATGTAAGTTATGTAAGTTATG--TAT
*
48917995 TATGTAAGTTATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * * * *
48918020 TGTATAAGTTATGTAGGTTACGAAAAT
1 TATGTAAGTTATGTAAGTTATG--TAT
* * *
48918047 TTTGTAAGTTATGTAAGTTATTTTT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
48918072 TATGAAAATTAAGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
48918097 GTGTATAATG
Statistics
Matches: 389, Mismatches: 89, Indels: 64
0.72 0.16 0.12
Matches are distributed among these distances:
22 2 0.01
23 6 0.02
24 7 0.02
25 266 0.68
26 28 0.07
27 47 0.12
28 22 0.06
29 11 0.03
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTATGTAT
Found at i:48917591 original size:16 final size:16
Alignment explanation
Indices: 48917570--48918034 Score: 132
Period size: 16 Copynumber: 28.0 Consensus size: 16
48917560 GCTATGTAAG
48917570 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
48917586 TTATGTAAGTTATG--
1 TTATGTAAGTTATGTA
* *
48917600 -CAT-TAAGTTATTTA
1 TTATGTAAGTTATGTA
* *
48917614 TTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
48917631 GTTATGT-A-TTATGAATA
1 -TTATGTAAGTTATG--TA
* *
48917648 TTATGTAAGTTGTGAA
1 TTATGTAAGTTATGTA
* **
48917664 TTATGTTAGTGCTGTA
1 TTATGTAAGTTATGTA
48917680 TTATGATCAA-TTATGTAA
1 TTATG-T-AAGTTATGT-A
*
48917698 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
* *
48917715 TTATGTAAGCTGTGTA
1 TTATGTAAGTTATGTA
* *
48917731 TTGTATAAGTTATGTAA
1 TTATGTAAGTTATGT-A
* *
48917748 GTTATGTAAGTTTTTTA
1 -TTATGTAAGTTATGTA
* ** *
48917765 TTATGAAAAATAAGTAA
1 TTATGTAAGTTATGT-A
*
48917782 CTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
48917799 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
*
48917815 TTATGTAACTTATGTA
1 TTATGTAAGTTATGTA
* * *
48917831 CTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
*
48917848 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
48917865 TTGTATAAGTTATTTGTA
1 TTATGTAAGTTA--TGTA
* * *
48917883 GGTTATGAAAATTTTGTAA
1 --TTATGTAAGTTATGT-A
* *
48917902 GTTATGTAAGTTATTTT
1 -TTATGTAAGTTATGTA
* * *
48917919 TTATGAAAATTAAGTAA
1 TTATGTAAGTTATGT-A
*
48917936 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
48917953 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
48917969 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* * *
48917985 CTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
*
48918002 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
48918019 TTGTATAAGTTATGTA
1 TTATGTAAGTTATGTA
48918035 GGTTACGAAA
Statistics
Matches: 321, Mismatches: 83, Indels: 90
0.65 0.17 0.18
Matches are distributed among these distances:
12 8 0.02
13 2 0.01
15 4 0.01
16 186 0.58
17 24 0.07
18 82 0.26
19 8 0.02
20 7 0.02
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:48917790 original size:59 final size:59
Alignment explanation
Indices: 48917690--48917809 Score: 145
Period size: 59 Copynumber: 2.0 Consensus size: 59
48917680 TTATGATCAA
* * * * *
48917690 TTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGTATTGT-ATAAGTTATGTAAG
1 TTATGTAAGTTATGTATTATGAAAAATAAGTAAGCTATGTATTATGA-AAATTATGTAAG
* *
48917749 TTATGTAAGTTTTTTATTATGAAAAATAAGTAA-CTTATGTATTATGAAAATTATGTAAG
1 TTATGTAAGTTATGTATTATGAAAAATAAGTAAGC-TATGTATTATGAAAATTATGTAAG
48917808 TT
1 TT
48917810 CAATATTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 1 0.02
59 50 0.96
60 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (59 bp):
TTATGTAAGTTATGTATTATGAAAAATAAGTAAGCTATGTATTATGAAAATTATGTAAG
Found at i:48917941 original size:154 final size:152
Alignment explanation
Indices: 48917743--48918096 Score: 638
Period size: 154 Copynumber: 2.3 Consensus size: 152
48917733 GTATAAGTTA
* *
48917743 TGTAAGTTATGTAAGTT-TTTTATTATGAAAAATAAGTAACTTATGTATTATGAAAATTATGTAA
1 TGTAAGTTATGTAAGTTATTTT-TTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGTAA
48917807 GTTCAATATTATGTAACTTATGTACTATGAAAATTATGTAAGTTATGTAAGTTGTGTATTGTATA
65 GTTCAATATTATGTAACTTATGTACTATGAAAATTATGTAAGTTATGTAAGTTGTGTATTGTATA
*
48917872 AGTTATTTGTAGGTTATGAAAATTT
130 AGTTA--TGTAGGTTACGAAAATTT
48917897 TGTAAGTTATGTAAGTTATTTTTTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGTAAG
1 TGTAAGTTATGTAAGTTATTTTTTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGTAAG
*
48917962 TTCAATATTATGTAAGTTATGTACTATGAAAATTATGTAAGTTATGTAAGTTGTGTATTGTATAA
66 TTCAATATTATGTAACTTATGTACTATGAAAATTATGTAAGTTATGTAAGTTGTGTATTGTATAA
48918027 GTTATGTAGGTTACGAAAATTT
131 GTTATGTAGGTTACGAAAATTT
48918049 TGTAAGTTATGTAAGTTATTTTTTATGAAAATTAAGTAAGTTATGTAT
1 TGTAAGTTATGTAAGTTATTTTTTATGAAAATTAAGTAAGTTATGTAT
48918097 GTGTATAATG
Statistics
Matches: 195, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
152 65 0.33
154 126 0.65
155 4 0.02
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (152 bp):
TGTAAGTTATGTAAGTTATTTTTTATGAAAATTAAGTAAGTTATGTATTATGAAAATTATGTAAG
TTCAATATTATGTAACTTATGTACTATGAAAATTATGTAAGTTATGTAAGTTGTGTATTGTATAA
GTTATGTAGGTTACGAAAATTT
Found at i:48917977 original size:41 final size:41
Alignment explanation
Indices: 48917927--48918004 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
48917917 TTTTATGAAA
*
48917927 ATTAAGTAAGTTATGTATTATGAAAATTATGTAAGTTCAAT
1 ATTAAGTAAGTTATGTACTATGAAAATTATGTAAGTTCAAT
*
48917968 ATTATGTAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATTAAGTAAGTTATGTACTATGAAAATTATGTAAGTT
48918005 ATGTAAGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (41 bp):
ATTAAGTAAGTTATGTACTATGAAAATTATGTAAGTTCAAT
Found at i:48918034 original size:34 final size:34
Alignment explanation
Indices: 48917886--48918018 Score: 105
Period size: 34 Copynumber: 4.0 Consensus size: 34
48917876 ATTTGTAGGT
* * **
48917886 TATGAAAATTTTGTAAGTTATGTAAGTTATTTTT
1 TATGAAAATTATGTAAGTTATGTAAGTTATGTAC
* * *
48917920 TATGAAAATTAAGTAAGTTATGT-A-TTATGAAAAT
1 TATGAAAATTATGTAAGTTATGTAAGTTATG--TAC
* * *
48917954 TATGTAAGTTCA-AT-A-TTATGTAAGTTATGTAC
1 TATGAAAATT-ATGTAAGTTATGTAAGTTATGTAC
*
48917986 TATGAAAATTATGTAAGTTATGTAAGTTGTGTA
1 TATGAAAATTATGTAAGTTATGTAAGTTATGTA
48918019 TTGTATAAGT
Statistics
Matches: 77, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
31 1 0.01
32 20 0.26
33 4 0.05
34 51 0.66
35 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.44
Consensus pattern (34 bp):
TATGAAAATTATGTAAGTTATGTAAGTTATGTAC
Found at i:48918111 original size:22 final size:22
Alignment explanation
Indices: 48918086--48918143 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
48918076 AAAATTAAGT
*
48918086 AAGTTATGTATG-TGTATAATGA
1 AAGTTATGTAAGTTGTAT-ATGA
* *
48918108 AAGTTATGTAAGTTGTGTATGT
1 AAGTTATGTAAGTTGTATATGA
48918130 AAGTTATGTAAGTT
1 AAGTTATGTAAGTT
48918144 AAGTATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (22 bp):
AAGTTATGTAAGTTGTATATGA
Found at i:48918119 original size:31 final size:28
Alignment explanation
Indices: 48917840--48918129 Score: 97
Period size: 25 Copynumber: 11.0 Consensus size: 28
48917830 ACTATGAAAA
* *
48917840 TTATGTAAGTTATGTAAGTTGTGTAT-T
1 TTATGAAAGTTATGTAAGTTATGTATGT
* * * **
48917867 GTAT--AAGTTATTTGTAGGTTATGAAAAT
1 TTATGAAAGTTA--TGTAAGTTATGTATGT
*
48917895 TT-TGTAAGTTATGTAAGTTAT-T-T-T
1 TTATGAAAGTTATGTAAGTTATGTATGT
* *
48917919 TTATGAAAATTAAGTAAGTTATGTA---
1 TTATGAAAGTTATGTAAGTTATGTATGT
* *
48917944 TTATGAAAATTATGTAAGTTCA---AT-A
1 TTATGAAAGTTATGTAAGTT-ATGTATGT
* * ***
48917969 TTATGTAAGTTATGT-A-CTATG-AAAA
1 TTATGAAAGTTATGTAAGTTATGTATGT
* *
48917994 TTATGTAAGTTATGTAAGTTGTGTAT-T
1 TTATGAAAGTTATGTAAGTTATGTATGT
* * * * **
48918021 GTAT--AAGTTATGTAGGTTACGAAAAT
1 TTATGAAAGTTATGTAAGTTATGTATGT
*
48918047 TT-TGTAAGTTATGTAAGTTAT-T-T-T
1 TTATGAAAGTTATGTAAGTTATGTATGT
* *
48918071 TTATGAAAATTAAGTAAGTTATGTATGT
1 TTATGAAAGTTATGTAAGTTATGTATGT
*
48918099 GTATAATGAAAGTTATGTAAGTTGTGTATGT
1 -T-T-ATGAAAGTTATGTAAGTTATGTATGT
48918130 AAGTTATGTA
Statistics
Matches: 198, Mismatches: 38, Indels: 50
0.69 0.13 0.17
Matches are distributed among these distances:
22 1 0.01
23 2 0.01
24 8 0.04
25 102 0.52
26 6 0.03
27 44 0.22
28 4 0.02
29 7 0.04
30 1 0.01
31 23 0.12
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (28 bp):
TTATGAAAGTTATGTAAGTTATGTATGT
Found at i:48918149 original size:22 final size:23
Alignment explanation
Indices: 48918108--48918168 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
48918098 TGTATAATGA
**
48918108 AAGTTATGTAAGTTGTGTAT-GT
1 AAGTTATGTAAGTTAAGTATAGT
*
48918130 AAGTTATGTAAGTTAAGTATAATT
1 AAGTTATGTAAGTTAAGTAT-AGT
*
48918154 AAGCTATGTAAGTTA
1 AAGTTATGTAAGTTA
48918169 TGTAAGATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 18 0.55
24 15 0.45
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (23 bp):
AAGTTATGTAAGTTAAGTATAGT
Found at i:48919091 original size:367 final size:366
Alignment explanation
Indices: 48918202--48919441 Score: 2302
Period size: 365 Copynumber: 3.4 Consensus size: 366
48918192 TTAAGTTATG
*
48918202 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAAAAAAAAAACTGAACATTATTTAAATAATT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
*
48918267 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAACCTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
* * * * *
48918332 ATAATTTAAATAATATTTTAGTTGAGTGGCAAATAAAAAAGTTTACTAATATTATTAGTTCAAGT
131 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
*
48918397 TCAAATCCTACAATATTTTTATTTTTATTGATTTTTAAATTTAGAAAAACTAATATATATTAAAA
196 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
*
48918462 ATGGTATATTTACAGAGGCAAAGTCAGAAA-TTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
261 ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
48918526 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
326 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
48918567 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
*
48918632 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGAGTCAAAAAACTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
48918697 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
131 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
48918762 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
196 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
*
48918827 ATGGTATATTTATAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
261 ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
48918892 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
326 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
*
48918933 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAAACTGAGCATTATTTAAATAAT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAAC-AAAAAAACTGAACATTATTTAAATAAT
48918998 TTACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTA
65 TTACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTA
48919063 AATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAG
130 AATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAG
48919128 TTCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAA
195 TTCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAA
48919193 AATGGTATATTTACCATGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGT
260 AATGGTATATTTA-CA-GAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGT
48919258 CAAAATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
323 CAAAATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
* * *
48919302 TTTTTAAAATATAAACCAATATGACATTTTTGTTAACAAAAAAACTGAACATTATTTAAATATTT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
*
48919367 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGCCAAAAAACTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
48919432 ATAATTTAAA
131 ATAATTTAAA
48919442 ATATTCATAA
Statistics
Matches: 852, Mismatches: 19, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
365 279 0.33
366 112 0.13
367 233 0.27
368 101 0.12
369 127 0.15
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (366 bp):
TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
Found at i:48920255 original size:10 final size:10
Alignment explanation
Indices: 48920240--48920264 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48920230 TAACATTCAA
48920240 AACATAGCTT
1 AACATAGCTT
48920250 AACATAGCTT
1 AACATAGCTT
48920260 AACAT
1 AACAT
48920265 TCAAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (10 bp):
AACATAGCTT
Found at i:48920260 original size:45 final size:44
Alignment explanation
Indices: 48920206--48920309 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 44
48920196 TGCAGAATCT
*
48920206 CATATGCTTAACATTC-AAA-ATGTTTAACATTCAAAACATAGCTTAA
1 CATA-GCTTAACATTCAAAACATGATTAACATTC-AAA-AT-GCTTAA
*
48920252 CATAGCTTAACATTCAAAACTATGATTAACATTCAAAATGTTTAA
1 CATAGCTTAACATTCAAAAC-ATGATTAACATTCAAAATGCTTAA
48920297 CATAGCTTAACAT
1 CATAGCTTAACAT
48920310 AGTTTTCAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
45 29 0.55
46 9 0.17
47 3 0.06
48 12 0.23
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (44 bp):
CATAGCTTAACATTCAAAACATGATTAACATTCAAAATGCTTAA
Found at i:48921665 original size:91 final size:92
Alignment explanation
Indices: 48921387--48921675 Score: 456
Period size: 94 Copynumber: 3.1 Consensus size: 92
48921377 ACATTATTAA
* *
48921387 AAATTTTAACATTTTATAATGAAATTATCCCTTTTATTTCAATAATATTATTTAAAAATATGATA
1 AAATTTTAATATTTTATAATGAAATTATCCATTTTATTT--ATAATATTATTTAAAAATATGATA
*
48921452 CAGATTTAAGAAATTATTTTTAATTATAC
64 CAGATTTAAGATATTATTTTTAATTATAC
* ** *
48921481 AAATTTTAATATTTTATAATAAAATTATCCATTTTAATAAAATAATATTACTTAAAAATATGATA
1 AAATTTTAATATTTTATAATGAAATTATCCATTTT-AT-TTATAATATTATTTAAAAATATGATA
48921546 CAGATTTAAGATATTATTTTTAATTATAC
64 CAGATTTAAGATATTATTTTTAATTATAC
48921575 AAATTTTAATATTTTATAATGAAATTATCCATTTT-TTTATAATATTATTTAAAAATATGATACA
1 AAATTTTAATATTTTATAATGAAATTATCCATTTTATTTATAATATTATTTAAAAATATGATACA
*
48921639 GATTTAAGATATTGTTTTTAATTATAC
66 GATTTAAGATATTATTTTTAATTATAC
48921666 AAA-TTTAATA
1 AAATTTTAATA
48921676 AATTTCTAAA
Statistics
Matches: 181, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
90 7 0.04
91 54 0.30
92 1 0.01
94 117 0.65
95 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (92 bp):
AAATTTTAATATTTTATAATGAAATTATCCATTTTATTTATAATATTATTTAAAAATATGATACA
GATTTAAGATATTATTTTTAATTATAC
Found at i:48921696 original size:16 final size:16
Alignment explanation
Indices: 48921675--48921737 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
48921665 CAAATTTAAT
*
48921675 AAATTTCTAAATATTC
1 AAATTTATAAATATTC
48921691 AAATTTATAAATACTT-
1 AAATTTATAAATA-TTC
* *
48921707 AAATACTATCAATATTC
1 AAAT-TTATAAATATTC
48921724 AAATTTATAAATAT
1 AAATTTATAAATAT
48921738 GTTTGCGGCG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 26 0.67
17 13 0.33
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTATAAATATTC
Found at i:48922563 original size:15 final size:15
Alignment explanation
Indices: 48922543--48922573 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48922533 TATTAATTTA
*
48922543 TATTTATATTTATAT
1 TATTTACATTTATAT
48922558 TATTTACATTTATAT
1 TATTTACATTTATAT
48922573 T
1 T
48922574 CTAAAATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTACATTTATAT
Found at i:48922568 original size:21 final size:22
Alignment explanation
Indices: 48922532--48922573 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
48922522 ATTTTTGTAA
*
48922532 ATATTAATTTATATTTATATTT
1 ATATTAATTTACATTTATATTT
48922554 ATATT-ATTTACATTTATATT
1 ATATTAATTTACATTTATATT
48922574 CTAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATTAATTTACATTTATATTT
Found at i:48923646 original size:3 final size:3
Alignment explanation
Indices: 48923638--48923700 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
48923628 TATATATTAC
* *
48923638 ATT ATT ATT ACTGA ATT ATT ATT AGT -TT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT A-T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
48923683 ATAT ATT TTT ATT ATT AT
1 AT-T ATT ATT ATT ATT AT
48923701 ACTTACCGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 3 0.06
3 40 0.82
4 5 0.10
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:48923672 original size:17 final size:18
Alignment explanation
Indices: 48923652--48923697 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
48923642 TTATTACTGA
48923652 ATTATTATTAGT-TTAT-T
1 ATTATTATTA-TATTATAT
48923669 ATTATTATTATATTATAT
1 ATTATTATTATATTATAT
*
48923687 ATTTTTATTAT
1 ATTATTATTAT
48923698 TATACTTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 1 0.04
17 14 0.54
18 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTATTATTATATTATAT
Found at i:48923682 original size:11 final size:12
Alignment explanation
Indices: 48923627--48923700 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 12
48923617 TTTGGGTGTT
48923627 TTATATATTAC-A
1 TTAT-TATTACTA
48923639 TTATTATTACTGAA
1 TTATTATTACT--A
*
48923653 TTATTATTAGT-
1 TTATTATTACTA
*
48923664 TTATTATTATTA
1 TTATTATTACTA
48923676 TTA-TATTA-TA
1 TTATTATTACTA
* *
48923686 -TATTTTTATTA
1 TTATTATTACTA
48923697 TTAT
1 TTAT
48923701 ACTTACCGCA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
9 2 0.04
10 6 0.12
11 23 0.44
12 10 0.19
14 11 0.21
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:48923682 original size:14 final size:14
Alignment explanation
Indices: 48923627--48923700 Score: 66
Period size: 14 Copynumber: 5.3 Consensus size: 14
48923617 TTTGGGTGTT
*
48923627 TTATATATTACATTA
1 TTAT-TATTATATTA
*
48923642 TTATTACTGA-ATTA
1 TTATTA-TTATATTA
48923656 TTATTAGTT-TATTA
1 TTATTA-TTATATTA
48923670 TTATTATTATATTA
1 TTATTATTATATTA
48923684 TATATT-TT-TATTA
1 T-TATTATTATATTA
48923697 TTAT
1 TTAT
48923701 ACTTACCGCA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
12 3 0.06
13 8 0.15
14 31 0.60
15 10 0.19
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (14 bp):
TTATTATTATATTA
Found at i:48924846 original size:14 final size:14
Alignment explanation
Indices: 48924827--48924864 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
48924817 TGTAAGCCTT
48924827 AACCCTAAA-TATTA
1 AACCCTAAACTA-TA
48924841 AACCCTAAACTATA
1 AACCCTAAACTATA
*
48924855 AAACCTAAAC
1 AACCCTAAAC
48924865 CCCAACCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTAAACTATA
Found at i:48924877 original size:14 final size:14
Alignment explanation
Indices: 48924860--48924888 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48924850 CTATAAAACC
48924860 TAAACCCCAACCCG
1 TAAACCCCAACCCG
48924874 TAAACCCCAACCCG
1 TAAACCCCAACCCG
48924888 T
1 T
48924889 CAATTAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.48, G:0.07, T:0.10
Consensus pattern (14 bp):
TAAACCCCAACCCG
Found at i:48924979 original size:21 final size:22
Alignment explanation
Indices: 48924954--48925007 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
48924944 CGTAAACATT
**
48924954 AACCATAAATTTTAAA-CCGTA
1 AACCATAAACATTAAACCCGTA
48924975 AACCATAAACATTAAACCCGTA
1 AACCATAAACATTAAACCCGTA
*
48924997 AACCACAAACA
1 AACCATAAACA
48925008 ACAACCACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.19
Consensus pattern (22 bp):
AACCATAAACATTAAACCCGTA
Found at i:48928802 original size:25 final size:25
Alignment explanation
Indices: 48928757--48928805 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
48928747 TATTTGTTTA
*
48928757 ATTATAATATTATAATATAATATAT
1 ATTATAACATTATAATATAATATAT
48928782 ATTATAACATTTATAAT-TAATATA
1 ATTATAACA-TTATAATATAATATA
48928806 AAAAACTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAACATTATAATATAATATAT
Found at i:48929493 original size:130 final size:125
Alignment explanation
Indices: 48929261--48929525 Score: 401
Period size: 130 Copynumber: 2.1 Consensus size: 125
48929251 AATTAATTAA
*
48929261 TTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTTAAAAATTAGATTAGGGTTAGGT
1 TTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTTAAAAATCAGATTAGGGTTAGGT
*
48929326 TCTAGTGTGTTTTTAAGTTAAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGAGT
66 TCTAGAGTGTTTTTAAGTTAAGGGTTTTTAA-GAAAAATCAAATAAATTAGGGTTTAGAGT
48929387 TTAGGGTTTAGGGTTACTTGAGTAATTTAATT-AAAAAA-TTTAAAAATCAGATTAGGGTTAGGG
1 TTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTTAAAAATCAGATTAGGGTTA-GG
*
48929450 TTAAGGTCTAGAGTGTTTTTAAGTTAAGGGTTTTTTTAA-AAAAATCAAATAAATTAGGTTTTAG
65 -T----TCTAGAGTGTTTTTAAGTTAAGGG--TTTTTAAGAAAAATCAAATAAATTAGGGTTTAG
48929514 AGT
123 AGT
48929517 TTAGGGTTT
1 TTAGGGTTT
48929526 GTCAATTAAA
Statistics
Matches: 128, Mismatches: 3, Indels: 12
0.90 0.02 0.08
Matches are distributed among these distances:
124 21 0.16
125 8 0.06
126 33 0.26
130 59 0.46
132 7 0.05
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (125 bp):
TTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTTTAAAAATCAGATTAGGGTTAGGT
TCTAGAGTGTTTTTAAGTTAAGGGTTTTTAAGAAAAATCAAATAAATTAGGGTTTAGAGT
Found at i:48930146 original size:21 final size:21
Alignment explanation
Indices: 48930130--48930176 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
48930120 GCGGGGGTTG
*
48930130 TGGTTGCTCCGATGGGGATTC
1 TGGTTCCTCCGATGGGGATTC
*
48930151 TGGTTCCTCCGATAGGG-TATC
1 TGGTTCCTCCGATGGGGAT-TC
48930172 TGGTT
1 TGGTT
48930177 GTCGATGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.11, C:0.19, G:0.34, T:0.36
Consensus pattern (21 bp):
TGGTTCCTCCGATGGGGATTC
Found at i:48930444 original size:18 final size:18
Alignment explanation
Indices: 48930418--48930460 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
48930408 GACTCGGAAA
*
48930418 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGTT
48930436 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
*
48930454 AGAATAC
1 AGGATAC
48930461 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGTT
Found at i:48934539 original size:3 final size:3
Alignment explanation
Indices: 48934533--48934607 Score: 89
Period size: 3 Copynumber: 24.0 Consensus size: 3
48934523 TATTTAGCTA
*
48934533 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -GT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
48934578 ATT ATT ACTT ACCTT ATT ATT ATT TTT ATT
1 ATT ATT A-TT A--TT ATT ATT ATT ATT ATT
48934608 TACCCATTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.02
3 54 0.84
4 5 0.08
5 4 0.06
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:48934758 original size:16 final size:16
Alignment explanation
Indices: 48934737--48934774 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
48934727 ACTTTTGTAA
48934737 ATATATATACTTACAT
1 ATATATATACTTACAT
* *
48934753 ATATATATATTTATAT
1 ATATATATACTTACAT
48934769 ATATAT
1 ATATAT
48934775 TTAATAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATATACTTACAT
Found at i:48934767 original size:12 final size:12
Alignment explanation
Indices: 48934752--48934777 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48934742 TATACTTACA
48934752 TATATATATATT
1 TATATATATATT
48934764 TATATATATATT
1 TATATATATATT
48934776 TA
1 TA
48934778 ATAGTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATATATATT
Found at i:48936528 original size:15 final size:14
Alignment explanation
Indices: 48936499--48936539 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
48936489 AATTATACCC
48936499 TAAATAA-ATAATA
1 TAAATAATATAATA
48936512 TATAA-AATATAAGTA
1 TA-AATAATATAA-TA
48936527 TAAATAATATAAT
1 TAAATAATATAAT
48936540 TATTAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.17
14 9 0.38
15 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
TAAATAATATAATA
Found at i:48938477 original size:5 final size:5
Alignment explanation
Indices: 48938443--48938476 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
48938433 TCAATTCATT
* *
48938443 TTTAA TTTAA TTTAA TTTAA TTTAT TTTAT TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
48938477 TGCAAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTAA
Found at i:48939172 original size:13 final size:13
Alignment explanation
Indices: 48939136--48939175 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
48939126 AATTCTTCAT
48939136 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
48939149 TGATGTGGAAAAG
1 TGCTTTTGAAAAG
48939162 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
48939175 T
1 T
48939176 TTAGTTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:48953523 original size:95 final size:96
Alignment explanation
Indices: 48953407--48953585 Score: 288
Period size: 96 Copynumber: 1.9 Consensus size: 96
48953397 AAATGATTTA
* * *
48953407 CTTATGAAGTTGGTATGATTATAGAGCTACAACGA-GCTAGAATAAAAGTTTCACCTCTGTTAAA
1 CTTATGAAGTTGGTATAATTATAGAGCTACAACGATGCTAAAATAAAAGTTTCACCTCTATTAAA
*
48953471 TTAAATAGAATTGTGTTAAATTCATATTATT
66 TTAAATAGAATCGTGTTAAATTCATATTATT
* * *
48953502 CTTATGAAGTTGGTATAATTATAGAGCTATAACGATGTTAAAATAAAAGTTTCACCTCTATTAGA
1 CTTATGAAGTTGGTATAATTATAGAGCTACAACGATGCTAAAATAAAAGTTTCACCTCTATTAAA
48953567 TTAAATAGAATCGTGTTAA
66 TTAAATAGAATCGTGTTAA
48953586 GTTTAGATTA
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
95 33 0.43
96 43 0.57
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (96 bp):
CTTATGAAGTTGGTATAATTATAGAGCTACAACGATGCTAAAATAAAAGTTTCACCTCTATTAAA
TTAAATAGAATCGTGTTAAATTCATATTATT
Found at i:48956370 original size:19 final size:19
Alignment explanation
Indices: 48956336--48956373 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
48956326 AATTATATAA
48956336 AAAAACATATAAAAATATT
1 AAAAACATATAAAAATATT
48956355 AAAAA-ATATAAGAAATATT
1 AAAAACATATAA-AAATATT
48956374 TATCTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAAACATATAAAAATATT
Found at i:48956535 original size:20 final size:20
Alignment explanation
Indices: 48956501--48956542 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48956491 AACTATTTAA
** *
48956501 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
48956521 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
48956541 AT
1 AT
48956543 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:48959531 original size:72 final size:72
Alignment explanation
Indices: 48959415--48959587 Score: 195
Period size: 72 Copynumber: 2.4 Consensus size: 72
48959405 AAAGCGCCGC
* * ** * *
48959415 AAAAACCAAAGCCCAACGACGCCGTTTCCGAGCTTTTAGGGATTTAGCGACGTTTTTAATCAAGC
1 AAAAACCTAAGCCAAACGGTGCCGTTTTCGAGCTTTTAGGGATTTAGCGACGTTTTTAAGCAAGC
48959480 GCCACTA
66 GCCACTA
* * * * ** *
48959487 ATAATCCTAAGCCAAACGGTGCCGTTTTCGTAG-TTTTTGGGATTTAGCGGCGTTTTTGGGGAAG
1 AAAAACCTAAGCCAAACGGTGCCGTTTTCG-AGCTTTTAGGGATTTAGCGACGTTTTTAAGCAAG
*
48959551 CGCCGCTA
65 CGCCACTA
*
48959559 AAAAACCTAAGCCAAACGGTGTCGTTTTC
1 AAAAACCTAAGCCAAACGGTGCCGTTTTC
48959588 TCAGCTTTCG
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 81 0.98
73 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (72 bp):
AAAAACCTAAGCCAAACGGTGCCGTTTTCGAGCTTTTAGGGATTTAGCGACGTTTTTAAGCAAGC
GCCACTA
Found at i:48959742 original size:113 final size:114
Alignment explanation
Indices: 48959525--48959747 Score: 254
Period size: 113 Copynumber: 2.0 Consensus size: 114
48959515 CGTAGTTTTT
* * * *** *
48959525 GGGATTTAGCGGCGTTTTTGGGGAAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTTTCTC
1 GGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAAAAAACATAAGCCAAACGGCACCGTTTTCAC
* * *
48959590 AGCTTTCGTGGAATTAGCGGCGCTTTGACGAAAGTGCCGCTAATGTTCA
66 AGCTTTCGAGGAATTAGCGGCGCTTTAACGAAAGCGCCGCTAATGTTCA
*
48959639 GGGATTTAGCGGCGTTTTTAGGAAAGCGCCGC-AAAAAACATATGTCC-AACGGCACCGTTTTCA
1 GGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAAAAAACATAAG-CCAAACGGCACCGTTTTCA
* * ** * *
48959702 GATCTTTCGAGGCCTTAGCGGCGTTTTTAATG-AAGCGCCGCTAATG
65 CAGCTTTCGAGGAATTAGCGGCG-CTTTAACGAAAGCGCCGCTAATG
48959748 CTTGGGGGTG
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
113 53 0.59
114 37 0.41
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (114 bp):
GGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAAAAAACATAAGCCAAACGGCACCGTTTTCAC
AGCTTTCGAGGAATTAGCGGCGCTTTAACGAAAGCGCCGCTAATGTTCA
Found at i:48960417 original size:20 final size:20
Alignment explanation
Indices: 48960394--48960443 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
48960384 GTGTTAGAGA
48960394 TTGAGTTTGGGGTTTAAGGT
1 TTGAGTTTGGGGTTTAAGGT
* *
48960414 TTGAGTTTAGGGTTTTAGGGT
1 TTGAGTTT-GGGGTTTAAGGT
48960435 TT-AGTTTGG
1 TTGAGTTTGG
48960444 AAATTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 12 0.44
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (20 bp):
TTGAGTTTGGGGTTTAAGGT
Found at i:48960591 original size:7 final size:6
Alignment explanation
Indices: 48960573--48960654 Score: 56
Period size: 7 Copynumber: 12.0 Consensus size: 6
48960563 CAAAAAATAT
*
48960573 GGTTTA GGTTTA CGGTTTA GGGTTTA CGATTTA GAGTTTA GAGTTTTA
1 GGTTTA GGTTTA -GGTTTA -GGTTTA -GGTTTA G-GTTTA G-G-TTTA
*
48960621 GGTTTA GGGTTTA GGATTTA TGATTTAA GGTTTA
1 GGTTTA -GGTTTA GG-TTTA -GGTTT-A GGTTTA
48960655 CGATATATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
6 14 0.22
7 42 0.67
8 7 0.11
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.46
Consensus pattern (6 bp):
GGTTTA
Found at i:48960598 original size:14 final size:14
Alignment explanation
Indices: 48960573--48960656 Score: 66
Period size: 14 Copynumber: 6.1 Consensus size: 14
48960563 CAAAAAATAT
48960573 GGTTTA-GGTTTAC
1 GGTTTAGGGTTTAC
48960586 GGTTTAGGGTTTAC
1 GGTTTAGGGTTTAC
* *
48960600 GATTTAGAGTTTA-
1 GGTTTAGGGTTTAC
*
48960613 GAGTTTTA-GGTTTAG
1 G-G-TTTAGGGTTTAC
* *
48960628 GGTTTAGGATTTAT
1 GGTTTAGGGTTTAC
* *
48960642 GATTTAAGGTTTAC
1 GGTTTAGGGTTTAC
48960656 G
1 G
48960657 ATATATTGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
13 11 0.20
14 40 0.71
15 5 0.09
ACGTcount: A:0.21, C:0.04, G:0.30, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAC
Found at i:48960626 original size:35 final size:34
Alignment explanation
Indices: 48960576--48960656 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 34
48960566 AAAATATGGT
48960576 TTAGGTTTACGGTTTAGGGTTTACGATTTAGAGT
1 TTAGGTTTACGGTTTAGGGTTTACGATTTAGAGT
*
48960610 TTAGAGTTTTA-GGTTTAGGGTTTAGGATTTATGA-T
1 TTAG-G-TTTACGGTTTAGGGTTTACGATTTA-GAGT
48960645 TTAAGGTTTACG
1 TT-AGGTTTACG
48960657 ATATATTGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
34 8 0.20
35 25 0.61
36 8 0.20
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (34 bp):
TTAGGTTTACGGTTTAGGGTTTACGATTTAGAGT
Found at i:48960652 original size:21 final size:20
Alignment explanation
Indices: 48960575--48960654 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 20
48960565 AAAAATATGG
* * *
48960575 TTTAGGTTTACGGTTTAGGG
1 TTTAGATTTAAGGTTTAGGA
*
48960595 TTTACGATTT-AGAGTTTAGAGT
1 TTTA-GATTTAAG-GTTTAG-GA
* *
48960617 TTTAGGTTTAGGGTTTAGGA
1 TTTAGATTTAAGGTTTAGGA
48960637 TTTATGATTTAAGGTTTA
1 TTTA-GATTTAAGGTTTA
48960655 CGATATATTG
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
20 10 0.21
21 31 0.66
22 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTAGATTTAAGGTTTAGGA
Found at i:48961306 original size:115 final size:115
Alignment explanation
Indices: 48961104--48961342 Score: 406
Period size: 115 Copynumber: 2.1 Consensus size: 115
48961094 GCGCTTCAAA
* ** *
48961104 AAAAACGCCGCTAAAGGTGATATAGTACCGGCATTTTGTGAAGAAACGCGACAAATTTCCTTTAA
1 AAAAACGCCGCTAAAAGTGATATAGTACCGGCATTTTACGAAGAAACGCCACAAATTTCCTTTAA
*
48961169 CTGTAACAAAGACGGTGTCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTG
66 CTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTG
* *
48961219 AAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTTCCTTTAA
1 AAAAACGCCGCTAAAAGTGATATAGTACCGGCATTTTACGAAGAAACGCCACAAATTTCCTTTAA
*
48961284 CTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
66 CTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTG
48961334 AAAAACGCC
1 AAAAACGCC
48961343 ATAAATATTT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (115 bp):
AAAAACGCCGCTAAAAGTGATATAGTACCGGCATTTTACGAAGAAACGCCACAAATTTCCTTTAA
CTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTG
Found at i:48962138 original size:173 final size:169
Alignment explanation
Indices: 48961853--48962192 Score: 506
Period size: 173 Copynumber: 2.0 Consensus size: 169
48961843 ATCATTTTTT
*
48961853 CCCATACATTTTACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
1 CCCATACATTTAACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
* * * *
48961918 AAATCCCTAAACTTCCCCTAATCCAGATTTCCCCAAAGCCGACCTCTTGCAACGTTGCCGTTTCC
66 AAAACACTAAACTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCC
*
48961983 TCTGGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
131 TCTAGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
*
48962022 CCCATACATTTAACCGAAACTTAAACCCCAACTATTGTGACTTAT-CCCCAAAAT-CCATT-TCT
1 CCCATACATTTAACCGAAACTTAAA-CCC--CTATCGTGACTTATCCCCCAAAATCCCATTCTC-
* * *
48962084 CCCTAAAACATTGAGAAATTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGC
62 CCCCAAAACACT---AAACTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGC
48962149 CGTTTCCTCTAGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCT
124 CGTTTCCTCTAGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCT
48962193 ACCGCAACAA
Statistics
Matches: 154, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
169 26 0.17
170 16 0.10
171 9 0.06
172 13 0.08
173 90 0.58
ACGTcount: A:0.23, C:0.39, G:0.10, T:0.27
Consensus pattern (169 bp):
CCCATACATTTAACCGAAACTTAAACCCCTATCGTGACTTATCCCCCAAAATCCCATTCTCCCCC
AAAACACTAAACTTCCCCTAATCCACATTTCCCCAAACCCGACCTCTTGCAACGTTGCCGTTTCC
TCTAGCGCATCACCGTCTCCCTCCGTCGGTCTCCTCTGC
Found at i:48963819 original size:9 final size:9
Alignment explanation
Indices: 48963805--48964168 Score: 186
Period size: 9 Copynumber: 40.6 Consensus size: 9
48963795 TTTAATTTAA
*
48963805 TACATAATT
1 TACATAACT
48963814 TACATAACT
1 TACATAACT
*
48963823 CACATAACT
1 TACATAACT
* *
48963832 TACAAAAGT
1 TACATAACT
* *
48963841 CACAT-ACA
1 TACATAACT
48963849 TACATAACT
1 TACATAACT
*
48963858 TA-ATAAAT
1 TACATAACT
*
48963866 GGTACATAGCT
1 --TACATAACT
*
48963877 TATATAACT
1 TACATAACT
48963886 TACATAA--
1 TACATAACT
48963893 TACATAACT
1 TACATAACT
* *
48963902 TAAATAA-A
1 TACATAACT
48963910 TACATAACT
1 TACATAACT
**
48963919 TATTTAA--
1 TACATAACT
*
48963926 TACATTACT
1 TACATAACT
48963935 TACATAATAACT
1 TAC---ATAACT
*
48963947 TACATAGCT
1 TACATAACT
* *
48963956 TATATAACG
1 TACATAACT
48963965 TACATAACT
1 TACATAACT
*
48963974 TATATAACT
1 TACATAACT
48963983 TACAT-AC-
1 TACATAACT
*
48963990 TCCATAACT
1 TACATAACT
*
48963999 TACATAATT
1 TACATAACT
*
48964008 TACTTAA--
1 TACATAACT
48964015 TACATAA-T
1 TACATAACT
*
48964023 CTACATATATT
1 -TACATA-ACT
*
48964034 ATATCTTAACT
1 -TA-CATAACT
48964045 TACATAATAACT
1 TAC---ATAACT
*
48964057 TACATAGCT
1 TACATAACT
* *
48964066 TATAATAACC
1 TA-CATAACT
48964076 TACATAACT
1 TACATAACT
48964085 TACATAACT
1 TACATAACT
48964094 TACATAA--
1 TACATAACT
48964101 TACATAACT
1 TACATAACT
*
48964110 TACATATCT
1 TACATAACT
**
48964119 TTTAT-ACTAT
1 TACATAAC--T
48964129 ATACATAACT
1 -TACATAACT
*
48964139 TACATAATT
1 TACATAACT
*
48964148 TACTTAA--
1 TACATAACT
48964155 TACATAACT
1 TACATAACT
48964164 TACAT
1 TACAT
48964169 TGAGAAAAAT
Statistics
Matches: 265, Mismatches: 59, Indels: 62
0.69 0.15 0.16
Matches are distributed among these distances:
7 34 0.13
8 21 0.08
9 164 0.62
10 13 0.05
11 12 0.05
12 21 0.08
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:48963903 original size:25 final size:25
Alignment explanation
Indices: 48963868--48964168 Score: 119
Period size: 25 Copynumber: 12.6 Consensus size: 25
48963858 TAATAAATGG
* *
48963868 TACATAGCTTATATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
48963893 TACATAACTTAAATAA-ATACAT-A
1 TACATAACTTACATAACTTACATAA
* * *
48963916 -AC-TTATTTA-AT-ACATTACTTACA
1 TACATAACTTACATAAC-TTACATA-A
* *
48963939 TA-ATAACTTACATAGCTTATATAA
1 TACATAACTTACATAACTTACATAA
* *
48963963 CGTACATAACTTATATAACTTACATAC
1 --TACATAACTTACATAACTTACATAA
* * *
48963990 TCCATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
48964015 TACATAA-TCTACATATA-TT--AT-A
1 TACATAACT-TACATA-ACTTACATAA
* *
48964037 T-CTTAACTTACATAA-TAAC-T--
1 TACATAACTTACATAACTTACATAA
* * *
48964057 TACATAGCTTATAATAACCTACATAA
1 TACATAACTTA-CATAACTTACATAA
48964083 CTTACATAACTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
* **
48964108 CTTACATATCTTTTAT-AC-T--AT-A
1 --TACATAACTTACATAACTTACATAA
* *
48964130 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
48964155 TACATAACTTACAT
1 TACATAACTTACAT
48964169 TGAGAAAAAT
Statistics
Matches: 206, Mismatches: 40, Indels: 60
0.67 0.13 0.20
Matches are distributed among these distances:
19 1 0.00
20 16 0.08
21 28 0.14
22 11 0.05
23 7 0.03
24 16 0.08
25 91 0.44
26 4 0.02
27 22 0.11
28 10 0.05
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.38
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:48963968 original size:18 final size:18
Alignment explanation
Indices: 48963875--48964168 Score: 125
Period size: 16 Copynumber: 16.4 Consensus size: 18
48963865 TGGTACATAG
* *
48963875 CTTATATAACTTACATAA
1 CTTACATAACTTATATAA
*
48963893 --TACATAACTTAAATAA
1 CTTACATAACTTATATAA
* *
48963909 -ATACATAACTTATTTAA
1 CTTACATAACTTATATAA
*
48963926 --TACATTACTTACATAATAA
1 CTTACATAACTT--AT-ATAA
*
48963945 CTTACATAGCTTATATAA
1 CTTACATAACTTATATAA
*
48963963 CGTACATAACTTATATAA
1 CTTACATAACTTATATAA
**
48963981 CTTACAT-AC-TCCATAA
1 CTTACATAACTTATATAA
*
48963997 CTTACATAATTTACT-TAA
1 CTTACATAACTTA-TATAA
*
48964015 --TACATAA-TCTACATATA
1 CTTACATAACT-TATATA-A
* *
48964032 TTATATCTTAACTTACATAATAA
1 CT-TA-CATAACTT--AT-ATAA
*
48964055 CTTACATAGCTTATAATAA
1 CTTACATAACTTAT-ATAA
* *
48964074 CCTACATAACTTACATAA
1 CTTACATAACTTATATAA
*
48964092 CTTACATAA--TACATAA
1 CTTACATAACTTATATAA
* *
48964108 CTTACATATCTTTTAT-A
1 CTTACATAACTTATATAA
*
48964125 CTATATACATAACTTACATAA
1 C--T-TACATAACTTATATAA
* * *
48964146 TTTACTTAA--TACATAA
1 CTTACATAACTTATATAA
48964162 CTTACAT
1 CTTACAT
48964169 TGAGAAAAAT
Statistics
Matches: 214, Mismatches: 36, Indels: 54
0.70 0.12 0.18
Matches are distributed among these distances:
15 1 0.00
16 73 0.34
17 20 0.09
18 53 0.25
19 25 0.12
20 13 0.06
21 20 0.09
22 3 0.01
23 3 0.01
24 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.38
Consensus pattern (18 bp):
CTTACATAACTTATATAA
Found at i:48964072 original size:19 final size:19
Alignment explanation
Indices: 48964048--48964100 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
48964038 CTTAACTTAC
*
48964048 ATAATAACTTACATAGCTT
1 ATAATAACTTACATAACTT
*
48964067 ATAATAACCTACATAACTT
1 ATAATAACTTACATAACTT
*
48964086 A-CATAACTTACATAA
1 ATAATAACTTACATAA
48964101 TACATAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAACTTACATAACTT
Found at i:48964079 original size:52 final size:49
Alignment explanation
Indices: 48963932--48964102 Score: 150
Period size: 52 Copynumber: 3.2 Consensus size: 49
48963922 TTAATACATT
*
48963932 ACTTACATAATAACTTACATAGCTTAT-ATAACGTACATAACTTATA-TA
1 ACTTACATAATAACTTACATAGCTTATAATAACCTACATAA-TTATACTA
* *
48963980 ACTTACATACTCCATAACTTACATAATTTACTTAATACATAATCTACATATATTATATCTTA
1 ACTTACATA----ATAACTTACAT-A---GCTT-ATA-ATAACCTACATA-ATTATA-C-TA
*
48964042 ACTTACATAATAACTTACATAGCTTATAATAACCTACATAACT-TACATA
1 ACTTACATAATAACTTACATAGCTTATAATAACCTACATAATTATAC-TA
48964091 ACTTACATAATA
1 ACTTACATAATA
48964103 CATAACTTAC
Statistics
Matches: 101, Mismatches: 7, Indels: 29
0.74 0.05 0.21
Matches are distributed among these distances:
48 9 0.09
49 15 0.15
50 2 0.02
51 2 0.02
52 22 0.22
53 4 0.04
54 3 0.03
56 3 0.03
57 3 0.03
58 11 0.11
59 15 0.15
60 1 0.01
62 11 0.11
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (49 bp):
ACTTACATAATAACTTACATAGCTTATAATAACCTACATAATTATACTA
Found at i:48969680 original size:21 final size:21
Alignment explanation
Indices: 48969656--48969699 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
48969646 CAACTTAAAA
* *
48969656 CAGAAGCGGCAGCGAGGGAAG
1 CAGAAGCGACAGCGAGAGAAG
* *
48969677 CAGAGGCTACAGCGAGAGAAG
1 CAGAAGCGACAGCGAGAGAAG
48969698 CA
1 CA
48969700 AAGGCTGTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.41, T:0.02
Consensus pattern (21 bp):
CAGAAGCGACAGCGAGAGAAG
Found at i:48969704 original size:21 final size:21
Alignment explanation
Indices: 48969665--48969705 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48969655 ACAGAAGCGG
* *
48969665 CAGCGAGGGAAGCAGAGGCTA
1 CAGCGAGAGAAGCAAAGGCTA
48969686 CAGCGAGAGAAGCAAAGGCT
1 CAGCGAGAGAAGCAAAGGCT
48969706 GTAACAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.39, T:0.05
Consensus pattern (21 bp):
CAGCGAGAGAAGCAAAGGCTA
Found at i:48969729 original size:12 final size:12
Alignment explanation
Indices: 48969712--48969745 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48969702 GGCTGTAACA
*
48969712 AGAGAAGCAGGG
1 AGAGAAGCAGCG
48969724 AGAGAAGCAGCG
1 AGAGAAGCAGCG
*
48969736 ATAGAAGCAG
1 AGAGAAGCAG
48969746 AGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.41, T:0.03
Consensus pattern (12 bp):
AGAGAAGCAGCG
Found at i:48970283 original size:42 final size:42
Alignment explanation
Indices: 48970185--48970371 Score: 234
Period size: 43 Copynumber: 4.4 Consensus size: 42
48970175 GTTTGTGAAA
* *
48970185 TAAGCACCGCTAAAGAACACT-A-CTTTTAGCAGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTT-TTCC
48970228 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
48970270 TAAGCGCCGCTAAAGAACATGATCTTTAACGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* * * *
48970313 TTAGCGCCGCTAAAGAACATGATCTTTAGCGACATTTTTTTCTA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTTC-C
*
48970357 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
48970372 TTAACGACGT
Statistics
Matches: 129, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
42 41 0.32
43 71 0.55
44 17 0.13
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:48970313 original size:85 final size:87
Alignment explanation
Indices: 48970184--48970371 Score: 242
Period size: 85 Copynumber: 2.2 Consensus size: 87
48970174 CGTTTGTGAA
* *
48970184 ATAAGCACCGCTAAAGAACACTACTTTTAGCAGCGTTTTCTTCCTAAGCGCCGCTAAAGAACATG
1 ATAAGCGCCGCTAAAGAACACTACTTTTAACAGCGTTTTCTTCCTAAGCGCCGCTAAAGAACATG
*
48970249 ATCTTTAGCGGC-GTTTTTTC-
66 ATCTTTAGCGACAGTTTTTTCT
* * *
48970269 CTAAGCGCCGCTAAAGAACA-TGA-TCTTTAACGGCGTTTAT-TTCCTTAGCGCCGCTAAAGAAC
1 ATAAGCGCCGCTAAAGAACACT-ACT-TTTAACAGCGTTT-TCTTCCTAAGCGCCGCTAAAGAAC
*
48970331 ATGATCTTTAGCGACATTTTTTTCT
63 ATGATCTTTAGCGACAGTTTTTTCT
*
48970356 ATAAGCGCCGCAAAAG
1 ATAAGCGCCGCTAAAG
48970372 TTAACGACGT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
84 2 0.02
85 65 0.73
86 8 0.09
87 14 0.16
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (87 bp):
ATAAGCGCCGCTAAAGAACACTACTTTTAACAGCGTTTTCTTCCTAAGCGCCGCTAAAGAACATG
ATCTTTAGCGACAGTTTTTTCT
Found at i:48976228 original size:102 final size:95
Alignment explanation
Indices: 48976128--48976304 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 95
48976118 GATTATAGAC
* * *
48976128 TATAGAGCTACAACGA-GCTAGAATAAAAGTTTCACCTCTATTAAATTAAATAGGATTGTGTTAA
1 TATAGAGCTACAACGATGCTAAAATAAAAGTTTCACCTCTATTAAATTAAATAGAATCGTGTTAA
*
48976192 ATTCATATTATTCTTATAAAGTTGGTATGAT
66 ATTCAGATTATT-TTATAAAGTTGGTATGAT
* * *
48976223 TATAGAGCTATAACGATGTTAAAATAAAAGTTTCACCTCTATTAGATTAAATAGAATCGTGTTAA
1 TATAGAGCTACAACGATGCTAAAATAAAAGTTTCACCTCTATTAAATTAAATAGAATCGTGTTAA
* *
48976288 GTTTAGATTATTTTATA
66 ATTCAGATTATTTTATA
48976305 TCTTAATTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 20 0.28
96 52 0.72
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (95 bp):
TATAGAGCTACAACGATGCTAAAATAAAAGTTTCACCTCTATTAAATTAAATAGAATCGTGTTAA
ATTCAGATTATTTTATAAAGTTGGTATGAT
Found at i:48979027 original size:55 final size:55
Alignment explanation
Indices: 48978943--48979103 Score: 220
Period size: 55 Copynumber: 3.0 Consensus size: 55
48978933 ACGTGTTATG
* * *
48978943 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGTAATATTCCAACA
1 TAACAATCGAATTAAACATATAAAAAATCGATTCAAAAGAAGCAATATTCCAACA
* * *
48978998 TAACAATCGAATTAAACATATAAAAAATCGCTTCAGAAGAAGCAGTATTCCAACA
1 TAACAATCGAATTAAACATATAAAAAATCGATTCAAAAGAAGCAATATTCCAACA
* *
48979053 TGACAATC-AATTTAAAC--GTAAAAAATCGATTCAAAAGAAGCAATATTCCAA
1 TAACAATCGAA-TTAAACATATAAAAAATCGATTCAAAAGAAGCAATATTCCAA
48979104 AAATTAAGAA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 30 0.32
54 2 0.02
55 62 0.66
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24
Consensus pattern (55 bp):
TAACAATCGAATTAAACATATAAAAAATCGATTCAAAAGAAGCAATATTCCAACA
Found at i:48980207 original size:34 final size:37
Alignment explanation
Indices: 48980168--48980319 Score: 117
Period size: 35 Copynumber: 4.3 Consensus size: 37
48980158 TACAAGAATT
* * *
48980168 TTTTTTTAAAACACGATAA-TTTTG-AAACAC-AATA
1 TTTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
*
48980202 TTTTTTGAAGACACGAAAATTTTTGAAAACACGAAAA
1 TTTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
* *
48980239 -TTTTTG-AAACACAAAAACTTTTGAAAACAC-AGAAA
1 TTTTTTGAAAACACGAAAATTTTTGAAAACACGA-AAA
* **
48980274 -TTTATG-AAACACGGGATATTTTTTTGAAAACACG--AA
1 TTTTTTGAAAACAC--GA-AAATTTTTGAAAACACGAAAA
48980310 TTTTTTGAAA
1 TTTTTTGAAA
48980320 CATGAATTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
34 17 0.18
35 40 0.42
36 14 0.15
37 9 0.09
38 15 0.16
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (37 bp):
TTTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
Done.