Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 37 of 163
Found at i:12113710 original size:20 final size:20
Alignment explanation
Indices: 12113685--12113728 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
12113675 AGGATCCATT
*
12113685 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATC
**
12113705 AAATCAAATTGATTGGAATC
1 AAATCAAATTGATTAAAATC
12113725 AAAT
1 AAAT
12113729 AAAACAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:12115077 original size:25 final size:25
Alignment explanation
Indices: 12115043--12115137 Score: 110
Period size: 24 Copynumber: 3.9 Consensus size: 25
12115033 TTAAGTCTCG
*
12115043 TTTATGGCTCTTATGAGCTTCCTAA
1 TTTATGGCTCTCATGAGCTTCCTAA
12115068 TTTATGGCTCTCCA-GAGCTTCCTAA
1 TTTATGGCTCT-CATGAGCTTCCTAA
*
12115093 TAT-TGGCTCGT-ATGAGCTTCC-AGA
1 TTTATGGCTC-TCATGAGCTTCCTA-A
12115117 -TTATGGCTCTCATGAGCTTCC
1 TTTATGGCTCTCATGAGCTTCC
12115138 CGTTATATGG
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
23 4 0.07
24 31 0.51
25 25 0.41
26 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (25 bp):
TTTATGGCTCTCATGAGCTTCCTAA
Found at i:12115107 original size:49 final size:50
Alignment explanation
Indices: 12115045--12115163 Score: 140
Period size: 49 Copynumber: 2.4 Consensus size: 50
12115035 AAGTCTCGTT
*
12115045 TATGGCTCTTATGAGCTTCCTA-ATTTATGGCTCTCCA-GAGCTT-CC-TAA
1 TATGGCTCGTATGAGCTTCCTAGA-TTATGGCTCT-CATGAGCTTCCCGTAA
*
12115093 TATTGGCTCGTATGAGCTTCC-AGATTATGGCTCTCATGAGCTTCCCGTTA
1 TA-TGGCTCGTATGAGCTTCCTAGATTATGGCTCTCATGAGCTTCCCGTAA
* *
12115143 TATGGCTCGGAAGAGCTTCCT
1 TATGGCTCGTATGAGCTTCCT
12115164 GTTATATGGC
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
47 2 0.03
48 19 0.31
49 36 0.59
50 4 0.07
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (50 bp):
TATGGCTCGTATGAGCTTCCTAGATTATGGCTCTCATGAGCTTCCCGTAA
Found at i:12115158 original size:25 final size:25
Alignment explanation
Indices: 12115130--12115188 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
12115120 TGGCTCTCAT
12115130 GAGCTTCCCGTTATATGGCTCGGAA
1 GAGCTTCCCGTTATATGGCTCGGAA
*
12115155 GAGCTTCCTGTTATATGGCTCGGAA
1 GAGCTTCCCGTTATATGGCTCGGAA
12115180 GAGCTTCCC
1 GAGCTTCCC
12115189 ATTTATGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGGAA
Found at i:12115163 original size:73 final size:74
Alignment explanation
Indices: 12115044--12115187 Score: 175
Period size: 73 Copynumber: 2.0 Consensus size: 74
12115034 TAAGTCTCGT
* * * * *
12115044 TTATGGCTCTTATGAGCTTCCTAATTTATGGCTCTCCAGAGCTTCCTAATAT-TGGCTCGTATGA
1 TTATGGCTCTCATGAGCTTCCTAATTTATGGCTCGCAAGAGCTTCCTAATATATGGCTCGGAAGA
12115108 GCTTCCAGA
66 GCTTCCAGA
** * **
12115117 TTATGGCTCTCATGAGCTTCC-CGTTATATGGCTCGGAAGAGCTTCCTGTTATATGGCTCGGAAG
1 TTATGGCTCTCATGAGCTTCCTAATT-TATGGCTCGCAAGAGCTTCCTAATATATGGCTCGGAAG
12115181 AGCTTCC
65 AGCTTCC
12115188 CATTTATGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
72 2 0.03
73 41 0.69
74 16 0.27
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (74 bp):
TTATGGCTCTCATGAGCTTCCTAATTTATGGCTCGCAAGAGCTTCCTAATATATGGCTCGGAAGA
GCTTCCAGA
Found at i:12124405 original size:20 final size:20
Alignment explanation
Indices: 12124363--12124405 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
12124353 AATTTGGAGG
*
12124363 AGAGGAAGATAACTTTAGTA
1 AGAGGAAGATAACGTTAGTA
*
12124383 AGAGTGAAGATAAGGTTAG-A
1 AGAG-GAAGATAACGTTAGTA
12124403 AGA
1 AGA
12124406 CCTCCTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (20 bp):
AGAGGAAGATAACGTTAGTA
Found at i:12125751 original size:23 final size:23
Alignment explanation
Indices: 12125680--12125790 Score: 111
Period size: 23 Copynumber: 5.0 Consensus size: 23
12125670 GCTTTTGTAG
* *
12125680 CATTCTGTATAACTTTTGTGGCG
1 CATTCTGTATAACCTTTGTGGCA
* *
12125703 CACTCTGTATAACCTTTATGGCA
1 CATTCTGTATAACCTTTGTGGCA
*
12125726 CATTCTGTATAGCCTTTGTGGCA
1 CATTCTGTATAACCTTTGTGGCA
* * * * *
12125749 CATTTTGTGT-AGCTTTCTTG-A
1 CATTCTGTATAACCTTTGTGGCA
12125770 CATTCTGT-TAACCTTTGTGGC
1 CATTCTGTATAACCTTTGTGGC
12125791 GTATCTGGTA
Statistics
Matches: 69, Mismatches: 17, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
20 1 0.01
21 15 0.22
22 6 0.09
23 47 0.68
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (23 bp):
CATTCTGTATAACCTTTGTGGCA
Found at i:12138259 original size:3 final size:3
Alignment explanation
Indices: 12138251--12138279 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12138241 GGGACACCCT
12138251 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12138280 TAATTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12140396 original size:17 final size:18
Alignment explanation
Indices: 12140374--12140408 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12140364 TAATGTTAAT
*
12140374 ATTTTTTTGTT-AATTTG
1 ATTTTTTAGTTAAATTTG
12140391 ATTTTTTAGTTAAATTTG
1 ATTTTTTAGTTAAATTTG
12140409 GTCATCAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (18 bp):
ATTTTTTAGTTAAATTTG
Found at i:12144221 original size:3 final size:3
Alignment explanation
Indices: 12144213--12144240 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12144203 GATGTGGGTC
12144213 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12144241 GTAGAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12147038 original size:18 final size:18
Alignment explanation
Indices: 12147004--12147038 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12146994 AACAACAACC
**
12147004 TTGAAGAAAATGGAAGAA
1 TTGAAGAAAATAAAAGAA
12147022 TTGAAGAAAATAAAAGA
1 TTGAAGAAAATAAAAGA
12147039 GAAGAGAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
TTGAAGAAAATAAAAGAA
Found at i:12149951 original size:21 final size:20
Alignment explanation
Indices: 12149923--12149984 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
12149913 AAATATGTGA
12149923 AATT-ATGCTTAATTATATT
1 AATTCATGCTTAATTATATT
* * *
12149942 ATTTTCATGCATATTTTATATT
1 A-ATTCATGCTTA-ATTATATT
12149964 AATTCATG-TTAATT-TATT
1 AATTCATGCTTAATTATATT
12149982 AAT
1 AAT
12149985 GTATATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 7 0.21
19 3 0.09
20 4 0.12
21 12 0.35
22 8 0.24
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (20 bp):
AATTCATGCTTAATTATATT
Found at i:12150504 original size:21 final size:23
Alignment explanation
Indices: 12150479--12150527 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
12150469 TTACCATCTT
*
12150479 TCACTTC-TCATTCATCTCTCA-
1 TCACTTCAACATTCATCTCTCAC
*
12150500 TCAC-TCAACATTCCTCTCTCAC
1 TCACTTCAACATTCATCTCTCAC
12150522 TCACTT
1 TCACTT
12150528 TAGTTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.09
21 16 0.70
22 4 0.17
23 1 0.04
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (23 bp):
TCACTTCAACATTCATCTCTCAC
Found at i:12150760 original size:50 final size:50
Alignment explanation
Indices: 12150685--12150817 Score: 187
Period size: 50 Copynumber: 2.7 Consensus size: 50
12150675 GGAGCGCTCT
* * *
12150685 AGTCAGAATAGATCTGAAAGACTGCTGAACTGAGCAGAGTTGAGCACATC
1 AGTCAAAATAGATCTGAAAGGCTGCTGAACTGAGCAGAGTTGAACACATC
** *
12150735 AGTCAAAATAGATCCAAAAGGCTGCTGAACTGAACAGAGTTGAACACATC
1 AGTCAAAATAGATCTGAAAGGCTGCTGAACTGAGCAGAGTTGAACACATC
* *
12150785 AGTCAAAATAG-TCTGAAAGGCTACCGAACTGAG
1 AGTCAAAATAGATCTGAAAGGCTGCTGAACTGAG
12150818 TTTACTCTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 17 0.24
50 55 0.76
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (50 bp):
AGTCAAAATAGATCTGAAAGGCTGCTGAACTGAGCAGAGTTGAACACATC
Found at i:12177914 original size:5 final size:5
Alignment explanation
Indices: 12177906--12177931 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12177896 TTAAATTTTG
12177906 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
12177932 TATTTATTTC
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:12180154 original size:3 final size:3
Alignment explanation
Indices: 12180146--12180203 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
12180136 ATAAAAAGTT
12180146 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12180194 ATA ATA ATA A
1 ATA ATA ATA A
12180204 ATTTTGTGAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12180827 original size:30 final size:31
Alignment explanation
Indices: 12180793--12180852 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
12180783 AAACCTTTTA
*
12180793 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
12180823 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
12180853 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:12181894 original size:21 final size:21
Alignment explanation
Indices: 12181868--12181909 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12181858 ACGGGACAGG
*
12181868 TGACGTGGCCAGTTAACTAGC
1 TGACGTGGCCAATTAACTAGC
12181889 TGACGTGGCCAATTAACTAGC
1 TGACGTGGCCAATTAACTAGC
12181910 CATGTTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
TGACGTGGCCAATTAACTAGC
Found at i:12181984 original size:3 final size:3
Alignment explanation
Indices: 12181978--12182018 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
12181968 ACTTAATAAC
12181978 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
12182019 GACTATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12196945 original size:8 final size:8
Alignment explanation
Indices: 12196934--12196986 Score: 55
Period size: 7 Copynumber: 7.4 Consensus size: 8
12196924 AACAAAAAAT
12196934 AAAGAAGA
1 AAAGAAGA
12196942 AAAGAA-A
1 AAAGAAGA
12196949 AAAG-A-A
1 AAAGAAGA
12196955 AAA-AAGA
1 AAAGAAGA
12196962 AAAGAA-A
1 AAAGAAGA
*
12196969 TAA-AAGA
1 AAAGAAGA
12196976 AAAGAAGA
1 AAAGAAGA
12196984 AAA
1 AAA
12196987 AGAAAAAGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 8 0.21
7 15 0.39
8 15 0.39
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (8 bp):
AAAGAAGA
Found at i:12196946 original size:5 final size:5
Alignment explanation
Indices: 12196938--12196992 Score: 53
Period size: 5 Copynumber: 11.4 Consensus size: 5
12196928 AAAAATAAAG
* * *
12196938 AAGAA AAGAA AA-AA GAAAAA AAGAA AAG-A AATAA AAGAA AAGAA GA-AA
1 AAGAA AAGAA AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
12196986 AAGAA AA
1 AAGAA AA
12196993 AGGAGAGGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
4 8 0.20
5 31 0.76
6 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:12196958 original size:14 final size:14
Alignment explanation
Indices: 12196934--12196993 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 14
12196924 AACAAAAAAT
12196934 AAAGAAGAAAAGAAA
1 AAAGAA-AAAAGAAA
12196949 AAAGAAAAAAAGAAA
1 AAAG-AAAAAAGAAA
*
12196964 AGAA-ATAAAAGAAA
1 A-AAGAAAAAAGAAA
12196978 AGAAG-AAAAAGAAA
1 A-AAGAAAAAAGAAA
12196992 AA
1 AA
12196994 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 1 0.03
14 22 0.55
15 13 0.32
16 4 0.10
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAGAAAAAAGAAA
Found at i:12196994 original size:20 final size:20
Alignment explanation
Indices: 12196921--12196994 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 20
12196911 AAAATGTTAA
*
12196921 AAAAACAAAAA-ATAAAGAAG
1 AAAAAGAAAAAGA-AAAGAAG
*
12196941 -AAAAGAAAAAAGAAAAAAAG
1 AAAAAG-AAAAAGAAAAGAAG
*
12196961 AAAAGAAATAAAAGAAAAGAAG
1 AAAA-AGA-AAAAGAAAAGAAG
12196983 AAAAAGAAAAAG
1 AAAAAGAAAAAG
12196995 GAGAGGCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.09
20 16 0.36
21 7 0.16
22 17 0.39
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAGAAAAAGAAAAGAAG
Found at i:12197868 original size:24 final size:24
Alignment explanation
Indices: 12197841--12197905 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
12197831 CAGTGGACTA
12197841 AACCTTGAAGAGTACAGCGGATTG
1 AACCTTGAAGAGTACAGCGGATTG
12197865 AACCTTGAAGAGTACAGCGGATTG
1 AACCTTGAAGAGTACAGCGGATTG
* *
12197889 AACTTTGAAGATTACAG
1 AACCTTGAAGAGTACAG
12197906 TGGGGGGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.23
Consensus pattern (24 bp):
AACCTTGAAGAGTACAGCGGATTG
Found at i:12198354 original size:44 final size:44
Alignment explanation
Indices: 12198291--12198948 Score: 232
Period size: 44 Copynumber: 14.8 Consensus size: 44
12198281 AGCCACCAGC
** *
12198291 CTTATCTCCCTAAGCAGTAGTAGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGAT
* * * *
12198335 CTTATCTCCCTAAGCAGTAGCGGAGTAGATCAAAGATGGTAAAT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGAT
* * * *
12198379 CTTATCTCCCTAAGCAGTAGCGGAGCAGATC-AAAACCATG-A-AT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGA--TTGTAGAT
* * * * *
12198422 CCTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGAT
* * ** * *
12198466 CTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACAGCAAAT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGAT
* * * ** ** * * * ** *
12198510 CTAAGCCACCAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTA-TC-TC--CC-TA-AGCAGT-AGC-GGAGTAG-GT-CGAAG-A-TT-GTAGAT
* *
12198567 CTTATCTCCCTAAGCAGTAGCGGAG-CGGATCGAAGATGGTAGAT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGG-TCGAAGATTGTAGAT
* * * ** ** *
12198611 CTTATCTCTCTAAGCAGTAGTGGAGCAGACCGAAGACCG-CGAAT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAG-AT
** * * * * ** ****
12198655 CTTATCTTTCTAAAGTAGTAG-GAAGCAGATTTAA-ACCACCAG-T
1 CTTATCTCCCT-AAGCAGTAGCGGAGTAGGTCGAAGA-TTGTAGAT
* * * * * * *
12198698 C-CATACT-CCTGAGTAGCAGCGGAATAGGTTGAAGATTGCAGAT
1 CTTAT-CTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGAT
* * * * * *
12198741 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-A--GCACCAGC
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTA-GA-T
* *
12198784 CTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGAT
* * * * * *
12198828 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-A--GCACCAAC
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTA--GAT
* * * *
12198871 CTTATATCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGAT
* *
12198915 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAA
1 CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAA
12198949 AGCACCAGCC
Statistics
Matches: 442, Mismatches: 132, Indels: 80
0.68 0.20 0.12
Matches are distributed among these distances:
41 12 0.03
42 18 0.04
43 101 0.23
44 249 0.56
45 13 0.03
46 6 0.01
47 3 0.01
48 4 0.01
49 5 0.01
50 5 0.01
51 5 0.01
52 6 0.01
53 3 0.01
54 2 0.00
55 2 0.00
56 1 0.00
57 7 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGCGGAGTAGGTCGAAGATTGTAGAT
Found at i:12198448 original size:87 final size:87
Alignment explanation
Indices: 12198337--12198945 Score: 367
Period size: 87 Copynumber: 6.8 Consensus size: 87
12198327 TTGTAGATCT
* * * * * *
12198337 TATCTCCCTAAGCAGTAGCGGAGTAGATCAAAGATGGTAAATCTTATCTCCCTAAGCAGTAGCGG
1 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCGG
*
12198402 AGCAGATCAAAACCATGAATCC
66 AGCAGATCAAAACCATCAATCC
* *
12198424 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGCGG
1 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCGG
* *
12198489 AGCAGATCGAAGACAGCAAATCTAAGCC
66 AGCAGATC-AA-A-A-C-CATC-AATCC
* ** * * ** * *
12198517 -ACCAACCTTATCTCCCTAAGC--AGTA-GTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
1 TATCTCCCTGAGC-AGC--AGCGGAGTAGGTCGA--AGATT---G----TAGATCTTATCTCCCT
* * *** *
12198578 AAGCAGTAGCGGAGCGGATCGAAGATGGT-AGATCT
54 AAGCAGTAGCGGAGCAGATC-AAAACCATCA-ATCC
* * * * * ** ** * ** *
12198613 TATCTCTCTAAGCAGTAGTGGAGCAGACCGAAGACCG-CGAATCTTATCTTTCTAAAGTAGTAG-
1 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAG-ATCTTATCTCCCT-AAGCAGTAGC
* ** * *
12198676 GAAGCAGATTTAAACCACCAGTCC
64 GGAGCAGATCAAAACCATCAATCC
* * * * *
12198700 -ATACT-CCTGAGTAGCAGCGGAATAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 TAT-CTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCG
* * * *
12198763 GAGCAGATCGAAAGCA-CCAGCC
65 GAGCAGATCAAAACCATCAATCC
*
12198785 TTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
1 -TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCG
* * *
12198850 GAGCAGATCGAAAGCACCAA-CC
65 GAGCAGATCAAAACCATCAATCC
* * *
12198872 TTATATCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
1 -TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCG
*
12198937 GAGTAGATC
65 GAGCAGATC
12198946 GAAAGCACCA
Statistics
Matches: 397, Mismatches: 92, Indels: 66
0.72 0.17 0.12
Matches are distributed among these distances:
85 11 0.03
86 47 0.12
87 218 0.55
88 23 0.06
89 9 0.02
90 1 0.00
91 1 0.00
92 14 0.04
93 9 0.02
94 6 0.02
95 5 0.01
96 5 0.01
97 10 0.03
99 1 0.00
101 37 0.09
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (87 bp):
TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCGG
AGCAGATCAAAACCATCAATCC
Found at i:12198627 original size:232 final size:233
Alignment explanation
Indices: 12198189--12198639 Score: 735
Period size: 232 Copynumber: 1.9 Consensus size: 233
12198179 AATGAAGTTA
* *
12198189 CCTATACTCCTGAAGCAGAAGTGGAATAGATTGAAGATTGCAGATCTTATCTTCCTAAGCAGTAG
1 CCTATACTCCTGAAGCAGAAGTGGAATAGATCGAAGATTGCAGATCTTATCTCCCTAAGCAGTAG
* *
12198254 CGGAACAGATCGAAGATAGCAAATCGAAGCCACCAGCCTTATCTCCCTAAGCAGTAGTAGAGTAG
66 CGGAACAGATCGAAGACAGCAAATCGAAGCCACCAACCTTATCTCCCTAAGCAGTAGTAGAGTAG
*
12198319 GTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCGGAGTAGATCAAAGATGGTAAATCTTAT
131 GTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGTAAATCTTAT
12198384 CTCCCTAAGCAGTAGCGGAGCAGATCAAAACCATGAAT
196 CTCCCTAAGCAGTAGCGGAGCAGATCAAAACCATGAAT
* * *
12198422 CCTAT-CTCCCTG-AGCAGCAGTGGAGTAGGTCGAAGATTGCAGATCTTATCTCCCTAAGCAGTA
1 CCTATACT-CCTGAAGCAGAAGTGGAATAGATCGAAGATTGCAGATCTTATCTCCCTAAGCAGTA
* * *
12198485 GCGGAGCAGATCGAAGACAGCAAATCTAAGCCACCAACCTTATCTCCCTAAGCAGTAGTGGAGTA
65 GCGGAACAGATCGAAGACAGCAAATCGAAGCCACCAACCTTATCTCCCTAAGCAGTAGTAGAGTA
* * *
12198550 GGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCGGAGCGGATCGAAGATGGTAGATCTTA
130 GGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGTAAATCTTA
* *
12198615 TCTCTCTAAGCAGTAGTGGAGCAGA
195 TCTCCCTAAGCAGTAGCGGAGCAGA
12198640 CCGAAGACCG
Statistics
Matches: 201, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
232 192 0.96
233 9 0.04
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (233 bp):
CCTATACTCCTGAAGCAGAAGTGGAATAGATCGAAGATTGCAGATCTTATCTCCCTAAGCAGTAG
CGGAACAGATCGAAGACAGCAAATCGAAGCCACCAACCTTATCTCCCTAAGCAGTAGTAGAGTAG
GTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGTAAATCTTAT
CTCCCTAAGCAGTAGCGGAGCAGATCAAAACCATGAAT
Found at i:12198789 original size:43 final size:43
Alignment explanation
Indices: 12198741--12198986 Score: 212
Period size: 43 Copynumber: 5.7 Consensus size: 43
12198731 GATTGCAGAT
12198741 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGC
* * * * * ** *
12198784 CTTATCTCCCTGAGCAGCAGCGGAGTAGGTCG-AAG-ATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCA--CCAG-C
*
12198828 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAAC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGC
* * * * * * * ** *
12198871 CTTATATCCCTGAGCAGCAGCGGAGTAGGTTG-AAG-ATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCA--CCAG-C
*
12198915 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAAGCACCAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGC
**
12198958 CTTATCTCCCTAAATAGTAGTGGAGCAGA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA
12198987 CAGAAGAAAC
Statistics
Matches: 153, Mismatches: 40, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
41 2 0.01
42 6 0.04
43 81 0.53
44 56 0.37
45 6 0.04
46 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGC
Found at i:12198946 original size:87 final size:87
Alignment explanation
Indices: 12198516--12198968 Score: 497
Period size: 87 Copynumber: 5.2 Consensus size: 87
12198506 AAATCTAAGC
* * * *
12198516 CACCAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* *
12198581 CAGTAGCGGAGCGGATCG-AAG
66 CAGTAGTGGAGCAGATCGAAAG
** * * * * * * *** ** * **
12198602 -ATGGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGACCGAAGACCG-CGAATCTTATCTTTC
1 CA--CCAG-CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAG-ATCTTATCTCCC
** *
12198665 TAA--AGTAGTAGGAAGCAGATTTAAAC
62 TAAGCAGTAGT-GG-AGCAGATCGAAAG
* * * *
12198691 CACCAGTCCATA-CT-CCTGAGTAGCAGCGGAATAGGTTGAAGATTGCAGATCTTATCTCCCTAA
1 CACCAG-CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
12198754 GCAGTAGTGGAGCAGATCGAAAG
65 GCAGTAGTGGAGCAGATCGAAAG
*
12198777 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
12198842 CAGTAGTGGAGCAGATCGAAAG
66 CAGTAGTGGAGCAGATCGAAAG
* *
12198864 CACCAACCTTATATCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
*
12198929 CAGTAGTGGAGTAGATCGAAAG
66 CAGTAGTGGAGCAGATCGAAAG
12198951 CACCAGCCTTATCTCCCT
1 CACCAGCCTTATCTCCCT
12198969 AAATAGTAGT
Statistics
Matches: 301, Mismatches: 53, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
85 5 0.02
86 55 0.18
87 176 0.58
88 62 0.21
89 2 0.01
90 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAAG
Found at i:12199025 original size:44 final size:44
Alignment explanation
Indices: 12198976--12199172 Score: 120
Period size: 44 Copynumber: 4.5 Consensus size: 44
12198966 CCTAAATAGT
*
12198976 AGTGGAGCAGA-CAGAAGAA-ACTAATCATATCTCTCTGAAGTTGC
1 AGTGGAGCAGATCA-AA-AACACAAATCATATCTCTCTGAAGTTGC
* * * *
12199020 AGTGGAGCGGATTAAAAACACAAATCTTATCTCTCTGCAGTTGC
1 AGTGGAGCAGATCAAAAACACAAATCATATCTCTCTGAAGTTGC
* ** * * * *
12199064 AGTAGAGCAGATC-GCATC-C-AACCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATCAAAAACACAAATCATATCTCTCTGAAGTTGC
* ** * * * * *
12199105 AGTGGAGCAGGTTGAAAATATAAGTCTTATCTC-CTTGACGTTGC
1 AGTGGAGCAGATCAAAAACACAAATCATATCTCTC-TGAAGTTGC
*
12199149 AGTGGAGCAGA-CTAAAACCACAAA
1 AGTGGAGCAGATC-AAAAACACAAA
12199173 CCTCACCCCC
Statistics
Matches: 114, Mismatches: 32, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
41 29 0.25
42 2 0.02
43 5 0.04
44 77 0.68
45 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (44 bp):
AGTGGAGCAGATCAAAAACACAAATCATATCTCTCTGAAGTTGC
Found at i:12199026 original size:174 final size:172
Alignment explanation
Indices: 12198515--12199027 Score: 534
Period size: 174 Copynumber: 2.9 Consensus size: 172
12198505 CAAATCTAAG
* * * *
12198515 CCACCAACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CCACCAACCTTATATCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * ** * *
12198580 GCAGTAGCGGAGCGGATCG-AAG-ATGGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGACCG
66 GCAGTAGTGGAGCAGATCGAAAGCA--CCAG-CCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CG
** * * * **
12198643 AAGACCGCGAATCTTATCTTTCTAAAGTAGTAG-GAAGCAGATTTAAA
127 AAGA-AACTAATCTTATCTCTCT-AAGTAGTAGTGGAGCAGATCGAAA
* * * *
12198690 CCACCAGTCC--ATA-CTCCTGAGTAGCAGCGGAATAGGTTGAAGATTGCAGATCTTATCTCCCT
1 CCACCA-ACCTTATATC-CCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
* * * * *
12198752 AAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGA
64 AAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCTTATCTCCCTAAGCAGTAGTGGAGCA-GACGA
*** * *
12198817 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
128 AGAAACTA-ATCTTATCTCTCTAAGTAGTAGTGGAGCAGATCGAAA
*
12198863 GCACCAACCTTATATCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CCACCAACCTTATATCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* **
12198928 GCAGTAGTGGAGTAGATCGAAAGCACCAGCCTTATCTCCCTAAATAGTAGTGGAGCAGACAGAAG
66 GCAGTAGTGGAGCAGATCGAAAGCACCAGCCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-GAAG
* * *
12198993 AAACTAATCATATCTCTCTGAAGTTGCAGTGGAGC
130 AAACTAATCTTATCTCTCT-AAGTAGTAGTGGAGC
12199028 GGATTAAAAA
Statistics
Matches: 276, Mismatches: 50, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
172 11 0.04
173 69 0.25
174 183 0.66
175 10 0.04
176 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (172 bp):
CCACCAACCTTATATCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAAGCACCAGCCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAGA
AACTAATCTTATCTCTCTAAGTAGTAGTGGAGCAGATCGAAA
Found at i:12199103 original size:85 final size:85
Alignment explanation
Indices: 12199003--12199159 Score: 212
Period size: 85 Copynumber: 1.8 Consensus size: 85
12198993 AAACTAATCA
*
12199003 TATCTCTCTGAAGTTGCAGTGGAGC-GGATTAAAAACACAAATCTTATCT-CTCTG-CAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGG-TTAAAAACACAAATCTTATCTCCT-TGAC-GTTGCA
12199065 GTAGAGCAGATCGCATCCAACCT
63 GTAGAGCAGATCGCATCCAACCT
* * * * *
12199088 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATATAAGTCTTATCTCCTTGACGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAACACAAATCTTATCTCCTTGACGTTGCAGTA
12199153 GAGCAGA
66 GAGCAGA
12199160 CTAAAACCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 58 0.92
86 5 0.08
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAACACAAATCTTATCTCCTTGACGTTGCAGTA
GAGCAGATCGCATCCAACCT
Found at i:12200671 original size:3 final size:3
Alignment explanation
Indices: 12200663--12200702 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
12200653 GTTATGTTAT
12200663 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
12200703 TATTATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:12201013 original size:3 final size:3
Alignment explanation
Indices: 12201000--12201033 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
12200990 TCTTTTACTG
12201000 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12201034 CATCATCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:12201420 original size:20 final size:19
Alignment explanation
Indices: 12201388--12201436 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
12201378 CTTTATATTT
*
12201388 TACATATTTTATAACTGTA
1 TACATATTTTATAACTATA
*
12201407 TACATATATTTATATCTATA
1 TACATAT-TTTATAACTATA
12201427 TACATATTTT
1 TACATATTTT
12201437 TTTAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (19 bp):
TACATATTTTATAACTATA
Found at i:12212030 original size:36 final size:36
Alignment explanation
Indices: 12211983--12212055 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
12211973 TTTTTTGGAC
12211983 AAGCTTATTTTTGAGGAAGTGAAATATCATGCCCTA
1 AAGCTTATTTTTGAGGAAGTGAAATATCATGCCCTA
12212019 AAGCTTATTTTTGAGGAAGTGAAATATCATGCCCTA
1 AAGCTTATTTTTGAGGAAGTGAAATATCATGCCCTA
12212055 A
1 A
12212056 CTCATTAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (36 bp):
AAGCTTATTTTTGAGGAAGTGAAATATCATGCCCTA
Found at i:12214560 original size:21 final size:21
Alignment explanation
Indices: 12214534--12214596 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
12214524 AAAAACTTAG
12214534 CCTTTGTTCTTCAAATCTTTA
1 CCTTTGTTCTTCAAATCTTTA
* *
12214555 CTTTTGTTCTTCAAATCTTTG
1 CCTTTGTTCTTCAAATCTTTA
*
12214576 CCTTAGTTCTTCAAATACTTT
1 CCTTTGTTCTTCAAAT-CTTT
12214597 CTGGGCTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 33 0.89
22 4 0.11
ACGTcount: A:0.19, C:0.22, G:0.06, T:0.52
Consensus pattern (21 bp):
CCTTTGTTCTTCAAATCTTTA
Found at i:12214814 original size:29 final size:28
Alignment explanation
Indices: 12214770--12214836 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
12214760 TCTATGTAAA
12214770 TATATTACTTTAGTAAATAATT-TTCATTC
1 TATATTA-TTTAGTAAATAATTGTT-ATTC
* *
12214799 TATATTATTTAGGTAATTAATTGTTTTTC
1 TATATTATTTA-GTAAATAATTGTTATTC
12214828 -ATATTATTT
1 TATATTATTT
12214837 CAATAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 13 0.38
29 19 0.56
30 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (28 bp):
TATATTATTTAGTAAATAATTGTTATTC
Found at i:12219821 original size:32 final size:32
Alignment explanation
Indices: 12219716--12219822 Score: 135
Period size: 32 Copynumber: 3.4 Consensus size: 32
12219706 GAATGACTAC
* *
12219716 AAGCCATAAGT-ACAGTAATATGATTGACACA
1 AAGCCATCAGTAATAGTAATATGATTGACACA
* * *
12219747 AAGCCATCAGCAATAGTGATATGATCGACACA
1 AAGCCATCAGTAATAGTAATATGATTGACACA
* * *
12219779 CAGCCATCAGTAATGGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGACACA
12219811 AAGCCATCAGTA
1 AAGCCATCAGTA
12219823 GCATTGTAGC
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
31 9 0.14
32 54 0.86
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATTGACACA
Found at i:12219990 original size:24 final size:24
Alignment explanation
Indices: 12219963--12220044 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
12219953 CCATACTCAG
* *
12219963 AATCAGTCATACAAATCATAGACA
1 AATCAGTCATACAAATCACAAACA
*
12219987 AATCAGTCATACCAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
** *
12220011 AATCAGTCATTTAAATCACAAAAA
1 AATCAGTCATACAAATCACAAACA
12220035 AATCAGTCAT
1 AATCAGTCAT
12220045 TTACATCACG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:12220045 original size:24 final size:24
Alignment explanation
Indices: 12219963--12220071 Score: 92
Period size: 24 Copynumber: 4.5 Consensus size: 24
12219953 CCATACTCAG
** * * *
12219963 AATCAGTCATACAAATCATAGACA
1 AATCAGTCATTTAAATCACAAAAA
*** *
12219987 AATCAGTCATACCAATCACAAACA
1 AATCAGTCATTTAAATCACAAAAA
12220011 AATCAGTCATTTAAATCACAAAAA
1 AATCAGTCATTTAAATCACAAAAA
* **
12220035 AATCAGTCATTTACATCACGGAAA
1 AATCAGTCATTTAAATCACAAAAA
* *
12220059 AATAAATCATTTA
1 AATCAGTCATTTA
12220072 CACTCGAGGG
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.50, C:0.20, G:0.06, T:0.24
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAAAAA
Found at i:12220134 original size:27 final size:27
Alignment explanation
Indices: 12220090--12220423 Score: 238
Period size: 27 Copynumber: 12.4 Consensus size: 27
12220080 GGGCAAAATA
**
12220090 GTCA-TTTACCCTTTAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTATG
* *
12220116 GTCATTTTACCTTACAGGGGTACTTCA--
1 GTCATTTTACCCTACAGGGGCA-TT-ATG
* *
12220143 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTATG
* * * *
12220170 ATCATTTTACCCTA-TGAGGG-TTTTTCG
1 GTCATTTTACCCTACAG-GGGCATTAT-G
* * *
12220197 ATCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTATG
* * *
12220224 GTTATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTATG
*
12220251 GTCATTTTACCCTAC-GAGGGCATTACG
1 GTCATTTTACCCTACAG-GGGCATTATG
* ** *
12220278 GTCATTTTACCTTATGGGGGC-TTTTCG
1 GTCATTTTACCCTACAGGGGCATTAT-G
*
12220305 GTCATTTTACCCTATAGGGGCATTACT-
1 GTCATTTTACCCTACAGGGGCATTA-TG
* *
12220332 GTCATTTTTACCTTACAGGGGCATTACG
1 GTCA-TTTTACCCTACAGGGGCATTATG
* * * *
12220360 GTCATTTTACGCTA-TGTGGG-TTTTTCG
1 GTCATTTTACCCTACAG-GGGCATTAT-G
* *
12220387 GTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTATG
12220414 GTCATTTTAC
1 GTCATTTTAC
12220424 AAATATTGGG
Statistics
Matches: 245, Mismatches: 43, Indels: 39
0.75 0.13 0.12
Matches are distributed among these distances:
25 1 0.00
26 14 0.06
27 193 0.79
28 35 0.14
29 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTATG
Found at i:12220175 original size:54 final size:53
Alignment explanation
Indices: 12220090--12220423 Score: 314
Period size: 54 Copynumber: 6.2 Consensus size: 53
12220080 GGGCAAAATA
** * *
12220090 GTCA-TTTACCCTTTAGGGGCATTATGGTCATTTTACCTTACAGGGGTACTTCA
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGGTA-TTCG
* * * * * *
12220143 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTATGAGGGTTTTTCG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTA-CAGGGGTATTCG
* * * *
12220197 ATCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGGTATT-CG
** *
12220251 GTCATTTTACCCTAC-GAGGGCATTACGGTCATTTTACCTTATGGGGGCTTTTCG
1 GTCATTTTACCCTACAG-GGGCATTACGGTCATTTTACCTTACAGGGG-TATTCG
* * *
12220305 GTCATTTTACCCTATAGGGGCATTACTGTCATTTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACGGTCA-TTTTACCTTACAGGGGTATT-CG
* * ** * * * *
12220360 GTCATTTTACGCTA-TGTGGGTTTTTCGGTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTACAG-GGGCATTACGGTCATTTTACCTTACAGGGGTATT-CG
12220414 GTCATTTTAC
1 GTCATTTTAC
12220424 AAATATTGGG
Statistics
Matches: 229, Mismatches: 43, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
53 11 0.05
54 171 0.75
55 47 0.21
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (53 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTCG
Found at i:12220205 original size:81 final size:79
Alignment explanation
Indices: 12220106--12220423 Score: 300
Period size: 81 Copynumber: 3.9 Consensus size: 79
12220096 TACCCTTTAG
* * * *
12220106 GGGCATTATGGTCATTTTACCTTACAGGGGTACTTCAGTCATTTTACCCTACAAGGGCATTACGA
1 GGGCATTACGATCATTTTACCTTACAGGGGTA-TTCGGTCATTTTACCCTACAGGGGCATTACG-
*
12220171 TCATTTTACCCTATGA
64 TCATTTTACCCTACGA
** * * * *
12220187 GGGTTTTTCGATCATTTTACCCTACAGGGGTATTACGGTTATTTTACCTTACAGGGGCATTACGG
1 GGGCATTACGATCATTTTACCTTACAGGGGTATT-CGGTCATTTTACCCTACAGGGGCATTAC-G
12220252 TCATTTTACCCTACGA
64 TCATTTTACCCTACGA
* ** * *
12220268 GGGCATTACGGTCATTTTACCTTATGGGGGCTTTTCGGTCATTTTACCCTATAGGGGCATTACTG
1 GGGCATTACGATCATTTTACCTTACAGGGG-TATTCGGTCATTTTACCCTACAGGGGCATTAC-G
*
12220333 TCATTTTTACCTTAC-A
64 TCA-TTTTACCCTACGA
* * * * *
12220349 GGGGCATTACGGTCATTTTACGC-TA-TGTGGGTTTTTCGGTCATTTTACCCTATAGGGGTATTA
1 -GGGCATTACGATCATTTTAC-CTTACAG-GGG-TATTCGGTCATTTTACCCTACAGGGGCATTA
*
12220412 TGGTCATTTTAC
62 -CGTCATTTTAC
12220424 AAATATTGGG
Statistics
Matches: 201, Mismatches: 28, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
80 2 0.01
81 125 0.62
82 73 0.36
83 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (79 bp):
GGGCATTACGATCATTTTACCTTACAGGGGTATTCGGTCATTTTACCCTACAGGGGCATTACGTC
ATTTTACCCTACGA
Found at i:12220813 original size:19 final size:17
Alignment explanation
Indices: 12220773--12220815 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
12220763 TTTATCTGTG
12220773 TGGCCCACAAGCCCACT
1 TGGCCCACAAGCCCACT
* *
12220790 GGGCCCACACAGCCCATTT
1 TGGCCCACA-AGCCCA-CT
12220809 TGGCCCA
1 TGGCCCA
12220816 ATGAGGCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.14
Consensus pattern (17 bp):
TGGCCCACAAGCCCACT
Found at i:12231899 original size:28 final size:28
Alignment explanation
Indices: 12231867--12231928 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
12231857 AAAACTCAAG
*
12231867 ATCGTCATCACTTCCCTCACCAGAAGCC
1 ATCGTCATCACCTCCCTCACCAGAAGCC
12231895 ATCGTCATCACCTCCCTCACCAGAAGCC
1 ATCGTCATCACCTCCCTCACCAGAAGCC
12231923 ATCGTC
1 ATCGTC
12231929 TCCTTCTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.24, C:0.44, G:0.11, T:0.21
Consensus pattern (28 bp):
ATCGTCATCACCTCCCTCACCAGAAGCC
Found at i:12235269 original size:76 final size:76
Alignment explanation
Indices: 12235170--12235589 Score: 439
Period size: 76 Copynumber: 5.5 Consensus size: 76
12235160 TAGGACATAA
* * * ** *
12235170 CACATATTTAATATTGTCAGTTTATTTGACTAGCGTTGGGCATAAATCTTTGTCGGTTAATCCGA
1 CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
12235235 CTAGTGTTGGG
66 CTAGTGTTGGG
* * * ** * ** * *
12235246 CACACATTTAATATCGTTGGTTTATCTGACCAATGCTGGGTGCAAATATTTTTCGGTTAATCCGA
1 CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
* * *
12235311 CGACTGTTGGA
66 CTAGTGTTGGG
* * ** *
12235322 CACATATTTAGTATCGTCGGTTTATCCGACTAGCACTGGGCACAAATCTTTGTCGGTTAATCGGA
1 CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
*
12235387 CTAGTGCTGGG
66 CTAGTGTTGGG
* * * * **
12235398 CAAACATTTAATATTGTCGGTTTATCCAACTAGCACTT-GGCGTAAATCTTTGTCGGTTAATCCG
1 CACACATTTAATATCGTCGGTTTATCCGACTAGC-GTTGGGCACAAATCTTTGTCGGTTAATCCG
12235462 ACTAGT-TCTGGG
65 ACTAGTGT-TGGG
* * * * * * *
12235474 CACACACTTAATATCATCAGTTTATCCAACTAGCGTTGGGAACAAATCTTTGTCGATTAATCTGA
1 CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
*
12235539 CTAGTGATGGG
66 CTAGTGTTGGG
* *
12235550 CACACATTTAATATCGTCGGTTTATCCAACTAGCGCTGGG
1 CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGG
12235590 TGTAAAACTT
Statistics
Matches: 279, Mismatches: 61, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
75 2 0.01
76 276 0.99
77 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (76 bp):
CACACATTTAATATCGTCGGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCGA
CTAGTGTTGGG
Found at i:12235389 original size:36 final size:36
Alignment explanation
Indices: 12235337--12235477 Score: 122
Period size: 36 Copynumber: 3.8 Consensus size: 36
12235327 ATTTAGTATC
*
12235337 GTCGGTTTATCCGACTAGCACTGGGCACAAATCTTT
1 GTCGGTTAATCCGACTAGCACTGGGCACAAATCTTT
* ** *
12235373 GTCGGTTAATCGGACTAGTGCTGGGCAAACATTTAAT-ATT
1 GTCGGTTAATCCGACTAGCACTGGGC--ACA---AATCTTT
* * * **
12235413 GTCGGTTTATCCAACTAGCACTTGGCGTAAATCTTT
1 GTCGGTTAATCCGACTAGCACTGGGCACAAATCTTT
**
12235449 GTCGGTTAATCCGACTAGTTCTGGGCACA
1 GTCGGTTAATCCGACTAGCACTGGGCACA
12235478 CACTTAATAT
Statistics
Matches: 78, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
35 3 0.04
36 46 0.59
38 4 0.05
40 22 0.28
41 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (36 bp):
GTCGGTTAATCCGACTAGCACTGGGCACAAATCTTT
Found at i:12235430 original size:40 final size:39
Alignment explanation
Indices: 12235371--12235589 Score: 103
Period size: 40 Copynumber: 5.7 Consensus size: 39
12235361 GCACAAATCT
** *
12235371 TTGTCGGTTAATCGGACTAGTGCTGGGCAAACATTTAATA
1 TTGTCGGTTAATCCAACTAGCGCTGGGCAAACA-TTAATA
* * * * *
12235411 TTGTCGGTTTATCCAACTAGCACTTGGCGTAA-A-T-CT-
1 TTGTCGGTTAATCCAACTAGCGCTGGGC-AAACATTAATA
* ** *
12235447 TTGTCGGTTAATCCGACTAGTTCTGGGCACACACTTAATA
1 TTGTCGGTTAATCCAACTAGCGCTGGGCAAACA-TTAATA
** * * * *
12235487 TCATCAGTTTATCCAACTAGCGTTGGG--AACA--AATCT
1 TTGTCGGTTAATCCAACTAGCGCTGGGCAAACATTAAT-A
* ** * * *
12235523 TTGTCGATTAATCTGACTAGTGATGGGCACACATTTAATA
1 TTGTCGGTTAATCCAACTAGCGCTGGGCAAACA-TTAATA
* *
12235563 TCGTCGGTTTATCCAACTAGCGCTGGG
1 TTGTCGGTTAATCCAACTAGCGCTGGG
12235590 TGTAAAACTT
Statistics
Matches: 123, Mismatches: 44, Indels: 24
0.64 0.23 0.13
Matches are distributed among these distances:
35 4 0.03
36 42 0.34
37 1 0.01
38 8 0.07
39 1 0.01
40 62 0.50
41 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (39 bp):
TTGTCGGTTAATCCAACTAGCGCTGGGCAAACATTAATA
Found at i:12235454 original size:152 final size:152
Alignment explanation
Indices: 12235169--12235589 Score: 502
Period size: 152 Copynumber: 2.8 Consensus size: 152
12235159 GTAGGACATA
* ** *
12235169 ACACATATTTAATATTGTCAGTTTATTTGACTAGCGTTGGGCATAAATCTTTGTCGGTTAATCCG
1 ACACATATTTAATATCGTCAGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCG
* * ** * *** * *
12235234 ACTAGTGTTGGGCACACATTTAATATCGTTGGTTTATCTGACCAATGCTGGGTGCAAATATTTTT
66 ACTAGTGATGGGCACACATTTAATATCGTCGGTTTATCCAACTAGCACTGGGCGCAAATATTTGT
12235299 CGGTTAATCCGACGACTGT-TGG
131 CGGTTAATCCGACGACT-TCTGG
* * ** *
12235321 ACACATATTTAGTATCGTCGGTTTATCCGACTAGCACTGGGCACAAATCTTTGTCGGTTAATCGG
1 ACACATATTTAATATCGTCAGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCG
* * * * * *
12235386 ACTAGTGCTGGGCAAACATTTAATATTGTCGGTTTATCCAACTAGCACTTGGCGTAAATCTTTGT
66 ACTAGTGATGGGCACACATTTAATATCGTCGGTTTATCCAACTAGCACTGGGCGCAAATATTTGT
* *
12235451 CGGTTAATCCGACTAGTTCTGG
131 CGGTTAATCCGACGACTTCTGG
* * * * * * * *
12235473 GCACACACTTAATATCATCAGTTTATCCAACTAGCGTTGGGAACAAATCTTTGTCGATTAATCTG
1 ACACATATTTAATATCGTCAGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCG
*
12235538 ACTAGTGATGGGCACACATTTAATATCGTCGGTTTATCCAACTAGCGCTGGG
66 ACTAGTGATGGGCACACATTTAATATCGTCGGTTTATCCAACTAGCACTGGG
12235590 TGTAAAACTT
Statistics
Matches: 225, Mismatches: 43, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
151 1 0.00
152 224 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (152 bp):
ACACATATTTAATATCGTCAGTTTATCCGACTAGCGTTGGGCACAAATCTTTGTCGGTTAATCCG
ACTAGTGATGGGCACACATTTAATATCGTCGGTTTATCCAACTAGCACTGGGCGCAAATATTTGT
CGGTTAATCCGACGACTTCTGG
Found at i:12235572 original size:228 final size:228
Alignment explanation
Indices: 12235175--12235589 Score: 528
Period size: 228 Copynumber: 1.8 Consensus size: 228
12235165 CATAACACAT
*** *
12235175 ATTTAATATTGTCAGTTTATTTGACTAGCGTTGGGCATAAATCTTTGTCGGTTAATCCGACTAGT
1 ATTTAATATTGTCAGTTTATCCAACTAGCCTTGGGCATAAATCTTTGTCGGTTAATCCGACTAGT
* * ** ** * ** * *
12235240 GTTGGGCACACATTTAATATCGTTGGTTTATCTGACCAATGCTGGGTGCAAATATTTTTCGGTTA
66 GTTGGGCACACACTTAATATCATCAGTTTATCCAACCAACGCTGGGAACAAATATTTGTCGATTA
* * * *
12235305 ATCCGACGACTGTTGGACACATATTTAGTATCGTCGGTTTATCCGACTAGCACTGGGCACAAATC
131 ATCCGACGACTGATGGACACACATTTAATATCGTCGGTTTATCCAACTAGCACTGGGCACAAATC
12235370 TTTGTCGGTTAATCGGACTAGTGCTGGGCAAAC
196 TTTGTCGGTTAATCGGACTAGTGCTGGGCAAAC
* *
12235403 ATTTAATATTGTCGGTTTATCCAACTAGCACTT-GGCGTAAATCTTTGTCGGTTAATCCGACTAG
1 ATTTAATATTGTCAGTTTATCCAACTAGC-CTTGGGCATAAATCTTTGTCGGTTAATCCGACTAG
* * * *
12235467 T-TCTGGGCACACACTTAATATCATCAGTTTATCCAACTAGCGTTGGGAACAAATCTTTGTCGAT
65 TGT-TGGGCACACACTTAATATCATCAGTTTATCCAACCAACGCTGGGAACAAATATTTGTCGAT
* * * * *
12235531 TAATCTGACTAGTGATGGGCACACATTTAATATCGTCGGTTTATCCAACTAGCGCTGGG
129 TAATCCGACGACTGATGGACACACATTTAATATCGTCGGTTTATCCAACTAGCACTGGG
12235590 TGTAAAACTT
Statistics
Matches: 155, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
227 1 0.01
228 152 0.98
229 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (228 bp):
ATTTAATATTGTCAGTTTATCCAACTAGCCTTGGGCATAAATCTTTGTCGGTTAATCCGACTAGT
GTTGGGCACACACTTAATATCATCAGTTTATCCAACCAACGCTGGGAACAAATATTTGTCGATTA
ATCCGACGACTGATGGACACACATTTAATATCGTCGGTTTATCCAACTAGCACTGGGCACAAATC
TTTGTCGGTTAATCGGACTAGTGCTGGGCAAAC
Found at i:12242058 original size:39 final size:39
Alignment explanation
Indices: 12242004--12242085 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
12241994 CGGTAATGGA
12242004 TATGATATCCCGTAGCTCAAACCTAGCAACCAGGTTGGG
1 TATGATATCCCGTAGCTCAAACCTAGCAACCAGGTTGGG
*
12242043 TATGATATCCCGTAGCTCAGACCTAGCAACCAGGTTGGG
1 TATGATATCCCGTAGCTCAAACCTAGCAACCAGGTTGGG
12242082 TATG
1 TATG
12242086 GGGTGTTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (39 bp):
TATGATATCCCGTAGCTCAAACCTAGCAACCAGGTTGGG
Found at i:12246925 original size:16 final size:17
Alignment explanation
Indices: 12246906--12246952 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
12246896 TTTTTATGAT
12246906 TTATATATTTAT-TACC
1 TTATATATTTATGTACC
* *
12246922 TTATATATATATGTACG
1 TTATATATTTATGTACC
12246939 TATATATATGTTAT
1 T-TATATAT-TTAT
12246953 ACTTTCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 7 0.28
19 3 0.12
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TTATATATTTATGTACC
Found at i:12250930 original size:24 final size:24
Alignment explanation
Indices: 12250903--12250948 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12250893 AGAACAATCC
* *
12250903 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
12250927 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
12250949 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:12258976 original size:44 final size:44
Alignment explanation
Indices: 12258926--12259612 Score: 258
Period size: 45 Copynumber: 15.9 Consensus size: 44
12258916 AAACAGATCG
*
12258926 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-AAGTAGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGTA
* * *
12258970 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGA-GGTA
* * * *
12259015 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGTA
* * * * ** *
12259060 A-TCCTATCTCTCTGAAGTTGCAGT-GAGCGGATTAAA-ACTTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGTA
* * * ** * * **
12259101 AGATCTTATTTCTCTGAAGTTTCAG-AAAGTAGA-T--CGCATCT-
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGTA
* * * *
12259142 AGTCTTATC-CTCCTGAAGTTGTAGT-GAGGTAGACTGAAGATGGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGA-GGTA
* * *
12259187 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGTA
* * ** * ** *
12259232 A-TCCTATCTCGCT-AAGTTGCAGT-GAGTGGATTAAA-ACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGTA
* * * **
12259272 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCT-
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGTA
*
12259313 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGA-GGTA
* * *
12259358 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAA-ACTGGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGA--GGTA
** *** * * * ** *
12259403 A-TCCAATCTTGTTGAAGTTGTAGT-GAGCGGATTAAA-ACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGTA
* * * **
12259444 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCT-
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGTA
* * *
12259485 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT-AAGTGGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AGGTA
* * *
12259529 AGTCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGA-GGTA
* *
12259574 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
12259613 TCGATAATCC
Statistics
Matches: 492, Mismatches: 96, Indels: 109
0.71 0.14 0.16
Matches are distributed among these distances:
39 2 0.00
40 62 0.13
41 27 0.05
42 34 0.07
43 101 0.21
44 109 0.22
45 146 0.30
46 11 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAGGTA
Found at i:12259327 original size:171 final size:172
Alignment explanation
Indices: 12258970--12259611 Score: 879
Period size: 172 Copynumber: 3.7 Consensus size: 172
12258960 TAAGTAGGTA
*
12258970 AGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* * * *
12259035 GCAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCTCTGAAGTTGCAGTGAGCGGATTAAAACTT
66 GCAGTGGAGCAGATTAAAGACGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
* * * *
12259100 TAGATCTTATTTCTCTGAAGTTTCAGAAAGTAGATCGCATCT
131 TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* *
12259142 AGTCTTATCCTCCTGAAGTTGTAGTGAGGTAGACTGAAGATGG-AAAGTCTTATCTCCCTGAAGT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA-TCTTATCTCCCTGAAGT
* * *
12259206 TGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCGCT-AAGTTGCAGTGAGTGGATTAAAACC
65 TGCAGTGGAGCAGATTAAAGACGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACC
12259270 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
130 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* *
12259313 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTTCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* * * *
12259378 GCAGTGGAGCAGATTAAA-ACTGGTAATCCAATCTTGTTGAAGTTGTAGTGAGCGGATTAAAACC
66 GCAGTGGAGCAGATTAAAGAC-GGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACC
12259442 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
130 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
*
12259485 AGTCTTAT-CTCTCTGAAGTTGCAGTG-GAGCAGACT-AAG-TGGGCAAGTCTTATC-CTCCTGA
1 AGTCTTATCCTC-CTGAAGTTGCAGTGAG-GCAGACTGAAGAT-GGCAAATCTTATCTC-CCTGA
* * * * * * * *
12259545 AGTTGTAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
62 AGTTGCAGTGGA-GCAGATTAAAGACGG-TAATCCTATCTCGCTGAAGTTGCAGT-GAGCGGATT
12259609 AAA
124 AAA
12259612 GTCGATAATC
Statistics
Matches: 420, Mismatches: 38, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
170 4 0.01
171 195 0.46
172 210 0.50
173 11 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (172 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGACGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:12259376 original size:216 final size:214
Alignment explanation
Indices: 12259144--12259607 Score: 492
Period size: 216 Copynumber: 2.1 Consensus size: 214
12259134 TCGCATCTAG
* * * * **
12259144 TCTTATCCTCCTGAAGTTGTAGT-GAGGTAGACTGAAGA-TGGAAAGTCTTATCTCCCTGAAGTT
1 TCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TGAAAACTGGAAA-TCCAATCTCCCTGAAGTT
* * * **
12259207 GCAGTGGAGCAGATTAAAGTCGATA-ATCCTATCTCGCT-AAGTTGCAGTGAGTGGATTAAAACC
63 GCAGT-GAGCAGATTAAA-ACCATAGATCCTATCTCGCTGAAGTTGCAGAGAGCAGA-TAAAACC
* *
12259270 TTAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-T-CTAGTCTTATCCTCCTGAAGT
125 -TAG-TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-CGAAGTGCAAGTCTTATCCTCCTGAAGT
12259332 TGCAGTGAGGCAGACTAAAGATGGCAAA
187 TGCAGTGAGGCAGACTAAAGATGGCAAA
* * *** *
12259360 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACTGGTAATCCAATCTTGTTGAAGTTGTA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATGAAAACTGGAAATCCAATCTCCCTGAAGTTGCA
* * * * *** *
12259425 GTGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCT
66 GTGAGCAGATTAAAACCATAGATCCTATCTCGCTGAAGTTGCAGAGAGCAGATAAAACCTAGTCT
* * *
12259490 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTGGGCAAGTCTTATCCTCCTGAAGTTGTAGTG
131 TATCTCTCTGAAGTTGCAGTAGAGCAGACGAAGT--GCAAGTCTTATCCTCCTGAAGTTGCAGTG
*
12259555 AGGCAGACTGAAGATGGCAAA
194 AGGCAGACTAAAGATGGCAAA
*
12259576 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGAT
12259608 TAAAGTCGAT
Statistics
Matches: 207, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
212 24 0.12
213 14 0.07
214 25 0.12
215 35 0.17
216 107 0.52
217 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (214 bp):
TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATGAAAACTGGAAATCCAATCTCCCTGAAGTTGCA
GTGAGCAGATTAAAACCATAGATCCTATCTCGCTGAAGTTGCAGAGAGCAGATAAAACCTAGTCT
TATCTCTCTGAAGTTGCAGTAGAGCAGACGAAGTGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG
GCAGACTAAAGATGGCAAA
Found at i:12261235 original size:16 final size:17
Alignment explanation
Indices: 12261216--12261262 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
12261206 TTTTTATGAT
12261216 TTATATATTTAT-TACC
1 TTATATATTTATGTACC
* *
12261232 TTATATATATATGTACG
1 TTATATATTTATGTACC
12261249 TATATATATGTTAT
1 T-TATATAT-TTAT
12261263 ACTTTCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 7 0.28
19 3 0.12
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TTATATATTTATGTACC
Found at i:12264235 original size:60 final size:60
Alignment explanation
Indices: 12264142--12264264 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
12264132 GGTTTGTCCT
12264142 TTTCTGCTTTCTTCTTTCCTCTTCCCCCTCTCCTCTTATTGCCAAATCCTTCATTCTCTC
1 TTTCTGCTTTCTTCTTTCCTCTTCCCCCTCTCCTCTTATTGCCAAATCCTTCATTCTCTC
12264202 TTTCTGCTTTCTTCTTTCCTCTTCCCCCTCTCCTCTTATTGCCAAATCCTTCATTCTCTC
1 TTTCTGCTTTCTTCTTTCCTCTTCCCCCTCTCCTCTTATTGCCAAATCCTTCATTCTCTC
12264262 TTT
1 TTT
12264265 TTCTCTCTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.08, C:0.39, G:0.03, T:0.50
Consensus pattern (60 bp):
TTTCTGCTTTCTTCTTTCCTCTTCCCCCTCTCCTCTTATTGCCAAATCCTTCATTCTCTC
Found at i:12265320 original size:27 final size:27
Alignment explanation
Indices: 12265290--12265405 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
12265280 ATAAATGACT
*
12265290 GAAATACCCTCAAAAGGTAAAATAATC
1 GAAATACCCTCGAAAGGTAAAATAATC
* * * * *
12265317 GAAATAACCTTGAAGGGTAAAATGACC
1 GAAATACCCTCGAAAGGTAAAATAATC
*
12265344 GAAATACCC-CCAAAGGATAAAATAA-C
1 GAAATACCCTCGAAAGG-TAAAATAATC
*
12265370 TGAAATACCCTCGAAGGGTAAAACT-ATC
1 -GAAATACCCTCGAAAGGTAAAA-TAATC
12265398 GAAATACC
1 GAAATACC
12265406 TCCAGAGGGT
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
26 5 0.07
27 59 0.83
28 7 0.10
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.17
Consensus pattern (27 bp):
GAAATACCCTCGAAAGGTAAAATAATC
Found at i:12265414 original size:27 final size:26
Alignment explanation
Indices: 12265290--12265420 Score: 104
Period size: 27 Copynumber: 4.8 Consensus size: 26
12265280 ATAAATGACT
* *
12265290 GAAATACCCTCAAAAGGTAAAATAATC
1 GAAATA-CCTCCAAGGGTAAAATAATC
** * *
12265317 GAAATAACCTTGAAGGGTAAAATGACC
1 GAAAT-ACCTCCAAGGGTAAAATAATC
* *
12265344 GAAATACCCCCAAAGGATAAAATAA-C
1 GAAATACCTCC-AAGGGTAAAATAATC
*
12265370 TGAAATACCCTCGAAGGGTAAAACT-ATC
1 -GAAATA-CCTCCAAGGGTAAAA-TAATC
12265398 GAAATACCTCCAGAGGGTAAAAT
1 GAAATACCTCCA-AGGGTAAAAT
12265421 GATTGTTATA
Statistics
Matches: 83, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
26 10 0.12
27 67 0.81
28 6 0.07
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.18
Consensus pattern (26 bp):
GAAATACCTCCAAGGGTAAAATAATC
Found at i:12265433 original size:54 final size:54
Alignment explanation
Indices: 12265282--12265420 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 54
12265272 AGTAGTTAAT
* * * *
12265282 AAATGACTGAAATACCCTCAAAAGG-TAAAATAA-TCGAAATAACCTTGAAGGGTA
1 AAATGACCGAAATACCC-CCAAAGGATAAAATAACT-GAAATACCCTCGAAGGGTA
12265336 AAATGACCGAAATACCCCCAAAGGATAAAATAACTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCCCAAAGGATAAAATAACTGAAATACCCTCGAAGGGTA
* * * *
12265390 AAACT-ATCGAAATACCTCCAGAGGGTAAAAT
1 AAA-TGACCGAAATACCCCCAAAGGATAAAAT
12265421 GATTGTTATA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
53 6 0.08
54 66 0.89
55 2 0.03
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.18
Consensus pattern (54 bp):
AAATGACCGAAATACCCCCAAAGGATAAAATAACTGAAATACCCTCGAAGGGTA
Found at i:12265799 original size:28 final size:28
Alignment explanation
Indices: 12265759--12265850 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
12265749 GTTGCATTAT
* ***
12265759 CACACGGTTACTGTATTAAGCTAAGGCC
1 CACACTGTTACTGTATCGGGCTAAGGCC
12265787 CACACTGTTACTGTATCGGGCTAAGGCC
1 CACACTGTTACTGTATCGGGCTAAGGCC
*
12265815 CACACTGTTACTATATCGGGCTAAGGCC
1 CACACTGTTACTGTATCGGGCTAAGGCC
12265843 CACACTGT
1 CACACTGT
12265851 ACTATTACTG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (28 bp):
CACACTGTTACTGTATCGGGCTAAGGCC
Found at i:12265869 original size:33 final size:33
Alignment explanation
Indices: 12265778--12265887 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 33
12265768 ACTGTATTAA
*
12265778 GCTAAGGCCCACACTGTTACT-GTA-T-C--GG
1 GCTAAGGCCCACACTGTTACTATTACTGCATGG
12265806 GCTAAGGCCCACACTGTTACTA-TA-T-C--GG
1 GCTAAGGCCCACACTGTTACTATTACTGCATGG
12265834 GCTAAGGCCCACACTG-TACTATTACTGCATAGG
1 GCTAAGGCCCACACTGTTACTATTACTGCAT-GG
* * *
12265867 GCTCAGGCCCAGACTATTACT
1 GCTAAGGCCCACACTGTTACT
12265888 GCATGTTGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
27 5 0.07
28 45 0.63
29 1 0.01
30 1 0.01
33 15 0.21
34 4 0.06
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (33 bp):
GCTAAGGCCCACACTGTTACTATTACTGCATGG
Found at i:12273250 original size:18 final size:18
Alignment explanation
Indices: 12273202--12273250 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
12273192 GTGACGTTCG
*
12273202 TTTACAAAACATTATTCA
1 TTTACAAAACGTTATTCA
*
12273220 TTTACAAATCGTTATTCAA
1 TTTACAAAACGTTATTC-A
12273239 TTT-CAAAACGTT
1 TTTACAAAACGTT
12273251 TTTTTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (18 bp):
TTTACAAAACGTTATTCA
Found at i:12279790 original size:25 final size:25
Alignment explanation
Indices: 12279762--12279809 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
12279752 ATAGTCTATT
* *
12279762 TATAGTAATCTCAGTATATACTACC
1 TATAGCAATCTCAGGATATACTACC
* *
12279787 TATAGCAGTTTCAGGATATACTA
1 TATAGCAATCTCAGGATATACTA
12279810 TCAAAGAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (25 bp):
TATAGCAATCTCAGGATATACTACC
Found at i:12280865 original size:13 final size:13
Alignment explanation
Indices: 12280847--12280871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12280837 TCGAGGCCTT
12280847 TAAACAGGGCATG
1 TAAACAGGGCATG
12280860 TAAACAGGGCAT
1 TAAACAGGGCAT
12280872 ACAGTATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (13 bp):
TAAACAGGGCATG
Found at i:12289705 original size:18 final size:20
Alignment explanation
Indices: 12289684--12289736 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
12289674 AGGAAGTTGA
12289684 TGTTG-TAGAAGAAGAAA-T
1 TGTTGCTAGAAGAAGAAAGT
*
12289702 TGTTGCT-GAAG-CGAAAGT
1 TGTTGCTAGAAGAAGAAAGT
12289720 TGTTGCTA-AAGAAGAAA
1 TGTTGCTAGAAGAAGAAA
12289737 AAGTTGCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 4 0.14
18 20 0.69
19 5 0.17
ACGTcount: A:0.40, C:0.06, G:0.28, T:0.26
Consensus pattern (20 bp):
TGTTGCTAGAAGAAGAAAGT
Found at i:12290524 original size:13 final size:13
Alignment explanation
Indices: 12290506--12290537 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12290496 TCTTGAATGG
12290506 AACTGCCCTTTTC
1 AACTGCCCTTTTC
*
12290519 AACTGCCTTTTTC
1 AACTGCCCTTTTC
12290532 AACTGC
1 AACTGC
12290538 GTATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.34, G:0.09, T:0.38
Consensus pattern (13 bp):
AACTGCCCTTTTC
Found at i:12291258 original size:38 final size:36
Alignment explanation
Indices: 12291207--12291468 Score: 140
Period size: 36 Copynumber: 7.2 Consensus size: 36
12291197 TTTATTGAAG
* *
12291207 GGTTGGCAAAAACCTAATC-AAGACCAACCTTTAAAATA
1 GGTTGGGATAAACCTAATCTAAG-CCAACC-TTAAAA-A
* *
12291245 GGTTGGGATAAACC-CATCTAAGGCAACCTTAAAAA
1 GGTTGGGATAAACCTAATCTAAGCCAACCTTAAAAA
** **
12291280 GGTTGGGATAAACCTTGTCTAAGGTAACCTTAAAAA
1 GGTTGGGATAAACCTAATCTAAGCCAACCTTAAAAA
* * ** ** *
12291316 GGTTGGGA-CACCACTTGTCTAAGGAAACTTTTAAAAA
1 GGTTGGGATAAAC-CTAATCTAAGCCAAC-CTTAAAAA
* * * * *
12291353 TGATTGGGATAGAGCT-GTCTAAGGCAACCTTAAAAA
1 -GGTTGGGATAAACCTAATCTAAGCCAACCTTAAAAA
* * ** *
12291389 GGTTAGGATAGACCTTGTCTAAGACAACCTATAAGAAAA
1 GGTTGGGATAAACCTAATCTAAGCCAACCT-T-A-AAAA
* * * *
12291428 GGTT-GGATAGACCT-GTTTAAGACAACCTTAAAAA
1 GGTTGGGATAAACCTAATCTAAGCCAACCTTAAAAA
12291462 GGTTGGG
1 GGTTGGG
12291469 TTGCACCATG
Statistics
Matches: 190, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
34 8 0.04
35 32 0.17
36 67 0.35
37 40 0.21
38 35 0.18
39 8 0.04
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (36 bp):
GGTTGGGATAAACCTAATCTAAGCCAACCTTAAAAA
Found at i:12291418 original size:109 final size:106
Alignment explanation
Indices: 12291261--12291534 Score: 288
Period size: 109 Copynumber: 2.5 Consensus size: 106
12291251 GATAAACCCA
* * **
12291261 TCTAAGGCAACCTTAAAAAGGTTGGGATAAACCTTGTCTAAGGTAACCTTAAAAAGGTTGGGACA
1 TCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTGTCTAAGACAACCTTAAAAAGGTT-GGACA
* * *
12291326 CCACTTGTCTAAGGA-AACTTTTAAAAATGATTGGGATAG-AGC-TG
65 -CACCTGTCTAA-GACAAC-CTTAAAAA-GATTGGG-TAGCACCATG
12291370 TCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTGTCTAAGACAACCTATAAGAAAAGGTTGGA
1 TCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTGTCTAAGACAACCT-T-A-AAAAGGTTGGA
* * * * *
12291435 TAGACCTGTTTAAGACAACCTTAAAAAGGTTGGGTTGCACCATG
63 CACACCTGTCTAAGACAACCTTAAAAAGATTGGGTAGCACCATG
*
12291479 TCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACC-TGTGTAA-AGCAACCTTAAAAA
1 TCTAAGGCAACC-TT-AAAAAGGTTAGGATAGACCTTGTCTAAGA-CAACCTTAAAAA
12291535 AATTGAGATA
Statistics
Matches: 143, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
107 6 0.04
108 9 0.06
109 70 0.49
110 26 0.18
111 24 0.17
112 8 0.06
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (106 bp):
TCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTGTCTAAGACAACCTTAAAAAGGTTGGACAC
ACCTGTCTAAGACAACCTTAAAAAGATTGGGTAGCACCATG
Found at i:12291461 original size:146 final size:144
Alignment explanation
Indices: 12291261--12291556 Score: 357
Period size: 146 Copynumber: 2.0 Consensus size: 144
12291251 GATAAACCCA
* **
12291261 TCTAAGGCAACCTTAAAAAGGTTGGGATAAACCTTGTCTAAGGTAACCTTAAAAAGGTTGGG-AC
1 TCTAAGACAACCTTAAAAAGGTTGGGATAAACCTTGTCTAAGACAACCTTAAAAAGGTTGGGTAC
* * * * * *
12291325 ACCACTTGTCTAAGGAAACTTTTAAAAATGATTGGGATAGAGCTGTCTAAGGCAACCTTAAAAAG
66 ACCA--TGTCTAAGGAAACCTTTAAAAAAGATTAGGATAGACCTGTCTAAAGCAACCTTAAAAAA
*
12291390 GTT-AGGATAGACCTTG
129 ATTGA-GATAGACCTTG
* *
12291406 TCTAAGACAACCTATAAGAAAAGGTT-GGATAGACC-TGTTTAAGACAACCTTAAAAAGGTTGGG
1 TCTAAGACAACCT-T-A-AAAAGGTTGGGATAAACCTTGTCTAAGACAACCTTAAAAAGGTTGGG
* * * *
12291469 TTGCACCATGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACCTGTGTAAAGCAACCTTAAAA
63 -TACACCATGTCTAAGGAAACCTTTAAAAAAGATTAGGATAGACCTGTCTAAAGCAACCTTAAAA
12291534 AAATTGAGATAGACCTTG
127 AAATTGAGATAGACCTTG
12291552 TCTAA
1 TCTAA
12291557 AGTAATTTTA
Statistics
Matches: 129, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
145 12 0.09
146 94 0.73
147 10 0.08
148 13 0.10
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (144 bp):
TCTAAGACAACCTTAAAAAGGTTGGGATAAACCTTGTCTAAGACAACCTTAAAAAGGTTGGGTAC
ACCATGTCTAAGGAAACCTTTAAAAAAGATTAGGATAGACCTGTCTAAAGCAACCTTAAAAAAAT
TGAGATAGACCTTG
Found at i:12291554 original size:73 final size:73
Alignment explanation
Indices: 12291261--12291585 Score: 297
Period size: 73 Copynumber: 4.5 Consensus size: 73
12291251 GATAAACCCA
* * * *
12291261 TCTAAGGCAACC-TT-AAAAAGGTTGGGATAAACCTTGTCTAAGGTAACCTTAAAAAGGTTGGGA
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACC-TGTCTAAAGCAACCTTAAAAAGGTTGAGA
* *
12291324 CA-CCACTTG
65 TAGAC-CTTG
* * * * * *
12291333 TCTAAGGAAACTTTTAAAAATGATTGGGATAGAGCTGTCTAAGGCAACCTTAAAAAGGTT-AGGA
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGA-GA
12291397 TAGACCTTG
65 TAGACCTTG
* * *
12291406 TCTAAGACAACCTATAAGAAAAGGTT-GGATAGACCTGT-TTAAGACAACCTTAAAAAGGTTG-G
1 TCTAAGGCAACCTTTAA-AAAAGGTTGGGATAGACCTGTCTAAAG-CAACCTTAAAAAGGTTGAG
* * *
12291468 GTTGCACCATG
64 ATAG-ACCTTG
* * **
12291479 TCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACCTGTGTAAAGCAACCTTAAAAAAATTGAGAT
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGAGAT
12291544 AGACCTTG
66 AGACCTTG
* * * * *
12291552 TCTAAAGTAA-TTTTAAAAAAAGTTGGGTTAGACC
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACC
12291586 CGTTTTTAAT
Statistics
Matches: 206, Mismatches: 36, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
72 44 0.21
73 133 0.65
74 29 0.14
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (73 bp):
TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAAGCAACCTTAAAAAGGTTGAGAT
AGACCTTG
Found at i:12291558 original size:36 final size:36
Alignment explanation
Indices: 12291261--12291556 Score: 248
Period size: 36 Copynumber: 8.1 Consensus size: 36
12291251 GATAAACCCA
* *
12291261 TCTAAGGCAACCTTAAAAAGGTTGGGATAAACCTTG
1 TCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTTG
* * * *
12291297 TCTAAGGTAACCTTAAAAAGGTTGGGACA-CCACTTG
1 TCTAAGGCAACCTTAAAAAGGTTGAGATAGAC-CTTG
* * * * *
12291333 TCTAAGGAAACTTTTAAAAATGATTGGGATAGAGC-TG
1 TCTAAGGCAAC-CTTAAAAA-GGTTGAGATAGACCTTG
12291370 TCTAAGGCAACCTTAAAAAGGTT-AGGATAGACCTTG
1 TCTAAGGCAACCTTAAAAAGGTTGA-GATAGACCTTG
*
12291406 TCTAAGACAACCTATAAGAAAAGGTTG-GATAGACC-TG
1 TCTAAGGCAACCT-T-A-AAAAGGTTGAGATAGACCTTG
* * * * *
12291443 TTTAAGACAACCTTAAAAAGGTTG-GGTTGCACCATG
1 TCTAAGGCAACCTTAAAAAGGTTGAGATAG-ACCTTG
12291479 TCTAAGGCAACCTTTAAAAAAGGTT-AGGATAGACC-TG
1 TCTAAGGCAACC-TT-AAAAAGGTTGA-GATAGACCTTG
* * **
12291516 TGTAAAGCAACCTTAAAAAAATTGAGATAGACCTTG
1 TCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTTG
12291552 TCTAA
1 TCTAA
12291557 AGTAATTTTA
Statistics
Matches: 215, Mismatches: 27, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
34 12 0.06
35 30 0.14
36 84 0.39
37 48 0.22
38 30 0.14
39 11 0.05
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (36 bp):
TCTAAGGCAACCTTAAAAAGGTTGAGATAGACCTTG
Found at i:12292898 original size:17 final size:16
Alignment explanation
Indices: 12292876--12292907 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12292866 TTATAGATTA
12292876 TTGGAAGCTCGATCGGT
1 TTGGAAGCTCG-TCGGT
12292893 TTGGAAGCTCGTCGG
1 TTGGAAGCTCGTCGG
12292908 AGACCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.19, G:0.38, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCGTCGGT
Found at i:12298652 original size:14 final size:15
Alignment explanation
Indices: 12298635--12298665 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
12298625 GACATATGTC
12298635 TTTTTTAATATT-TA
1 TTTTTTAATATTATA
12298649 TTTTTTAATATTATA
1 TTTTTTAATATTATA
12298664 TT
1 TT
12298666 ATACATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTAATATTATA
Found at i:12300888 original size:15 final size:16
Alignment explanation
Indices: 12300870--12300901 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
12300860 TATTTATTCC
12300870 ACAAGTAT-TTATATT
1 ACAAGTATGTTATATT
12300885 ACAAGTATGTTATATT
1 ACAAGTATGTTATATT
12300901 A
1 A
12300902 GAGTAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
ACAAGTATGTTATATT
Found at i:12306772 original size:13 final size:13
Alignment explanation
Indices: 12306756--12306782 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12306746 GTAATCATGC
12306756 TTTGATTTTTATG
1 TTTGATTTTTATG
12306769 TTTGATTTTTATG
1 TTTGATTTTTATG
12306782 T
1 T
12306783 GTCTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTGATTTTTATG
Found at i:12332252 original size:17 final size:18
Alignment explanation
Indices: 12332232--12332269 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12332222 ATTTTTAGTT
12332232 AATGTT-CTAATTTAATA
1 AATGTTACTAATTTAATA
* *
12332249 AATGTTATTTATTTAATA
1 AATGTTACTAATTTAATA
12332267 AAT
1 AAT
12332270 TAAAATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (18 bp):
AATGTTACTAATTTAATA
Found at i:12333351 original size:20 final size:20
Alignment explanation
Indices: 12333320--12333375 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
12333310 ACATATATCC
12333320 TAATTT-ATTTGATTTCAAT
1 TAATTTGATTTGATTTCAAT
*
12333339 TAATTTGATTTGATTTTAAT
1 TAATTTGATTTGATTTCAAT
* * *
12333359 CAAATTGATTTAATTTC
1 TAATTTGATTTGATTTC
12333376 TCCTTTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TAATTTGATTTGATTTCAAT
Found at i:12334171 original size:65 final size:65
Alignment explanation
Indices: 12334038--12334160 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 65
12334028 CGTTTAACAG
* * * * *
12334038 ATTTTATTCCATTTTTTATTTTGTTTCCAAACGAGAATTAAAATTAAATAAGATTTGCTTAATAA
1 ATTTTATTCCATTTTTTATGTTATTTCCAAACGAGAATTAAAATTAAATAAAATCTACTTAATAA
* * *
12334103 ATTTTATTTCATTTTTTATGTTATTTCCAAAATGAGTATTAAAATTAAATAAAATCTA
1 ATTTTATTCCATTTTTTATGTTATTTCC-AAACGAGAATTAAAATTAAATAAAATCTA
12334161 TTTCAAAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
65 25 0.51
66 24 0.49
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (65 bp):
ATTTTATTCCATTTTTTATGTTATTTCCAAACGAGAATTAAAATTAAATAAAATCTACTTAATAA
Found at i:12334250 original size:87 final size:87
Alignment explanation
Indices: 12334096--12334292 Score: 213
Period size: 87 Copynumber: 2.3 Consensus size: 87
12334086 TAAGATTTGC
* * * * * * *
12334096 TTAATAAATTTTATTTCATTTTTTATGTTATTTCCAAAATGAGTATTAAAATTAAATAAAATCTA
1 TTAACAAATTTTATTCCATTTTTTATGTTATTGCCAAAACGAGAATTAAAATAAAATAAAATATA
*
12334161 TTTCAAAATTTATT-CTCGCCGT
66 TTTCAAAATTTATTCCT-GCCAT
12334183 TTAACAAATTTTATTCCAGTTTTTTAT-TTAGTTGCC-AAACGAGAAATT-AAATAAAATAAAAT
1 TTAACAAATTTTATTCCA-TTTTTTATGTTA-TTGCCAAAACGAG-AATTAAAATAAAATAAAAT
***
12334245 ATATTTCGGGATTTATTCCTGCCAT
63 ATATTTCAAAATTTATTCCTGCCAT
* *
12334270 TTAACAGATTTTATTCAATTTTT
1 TTAACAAATTTTATTCCATTTTT
12334293 ATTTTGCTCC
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
86 5 0.05
87 71 0.76
88 17 0.18
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (87 bp):
TTAACAAATTTTATTCCATTTTTTATGTTATTGCCAAAACGAGAATTAAAATAAAATAAAATATA
TTTCAAAATTTATTCCTGCCAT
Found at i:12334449 original size:83 final size:80
Alignment explanation
Indices: 12334248--12334519 Score: 282
Period size: 82 Copynumber: 3.4 Consensus size: 80
12334238 ATAAAATATA
* * * **
12334248 TTTCGGGATTTATTCCTGCCATTTAACAGATTTTATTCAATTTTTATTTTGCTCCCAAATTAGAA
1 TTTCGGGATTTATTCCTGCCATTTAACAGATTTTATTC-A-TTTGATTTTGTTTCCAAACAAGAA
* *
12334313 TTAAATTGACTAATTTT-
64 TT-AATTAAATAATTTTG
*
12334330 TTTCGGGATTTATTCCTACCATTTAACAGATTTTATTCGATCTTGATTTTGTTTCCAAACGAAGA
1 TTTCGGGATTTATTCCTGCCATTTAACAGATTTTATTC-AT-TTGATTTTGTTTCCAAAC-AAGA
* *
12334395 CTTAATCAAATAATTTTG
63 ATTAATTAAATAATTTTG
* * * * *
12334413 TTTTGGGATTTATTCCTGCCGTTTAATAAATTTTA-T--TTTGATTTTGTTTCCAAACAAGATTT
1 TTTCGGGATTTATTCCTGCCATTTAACAGATTTTATTCATTTGATTTTGTTTCCAAACAAGAATT
12334475 AATTAAATAATTTTG
66 AATTAAATAATTTTG
* * * * *
12334490 TTTCAGGATTTAATCATGTCGTTTAACAGA
1 TTTCGGGATTTATTCCTGCCATTTAACAGA
12334520 CTTGATTTTG
Statistics
Matches: 162, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
77 43 0.27
78 18 0.11
79 1 0.01
81 1 0.01
82 64 0.40
83 35 0.22
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (80 bp):
TTTCGGGATTTATTCCTGCCATTTAACAGATTTTATTCATTTGATTTTGTTTCCAAACAAGAATT
AATTAAATAATTTTG
Found at i:12334501 original size:77 final size:78
Alignment explanation
Indices: 12334323--12334539 Score: 249
Period size: 77 Copynumber: 2.7 Consensus size: 78
12334313 TTAAATTGAC
* *
12334323 TAATTTT-TTTCGGGATTTATTCCTACCATTTAACAGATTTTATTCGATCTTGATTTTGTTTCCA
1 TAATTTTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTA-T---T-TTGATTTTGTTTCCA
12334387 AACGAAGACTTAATCAAA
61 AACGAAGACTTAATCAAA
* * *
12334405 TAATTTTGTTTTGGGATTTATTCCTGCCGTTTAATAAATTTTATTTTGATTTTGTTTCCAAAC-A
1 TAATTTTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATTTTGATTTTGTTTCCAAACGA
* *
12334469 AGATTTAATTAAA
66 AGACTTAATCAAA
* * * * * * *
12334482 TAATTTTGTTTCAGGATTTAATCATGTCGTTTAACAGACTTGATTTTGATTATGTTTC
1 TAATTTTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATTTTGATTTTGTTTC
12334540 AGAATTTAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
77 60 0.51
78 18 0.15
79 1 0.01
82 8 0.07
83 30 0.26
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (78 bp):
TAATTTTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATTTTGATTTTGTTTCCAAACGA
AGACTTAATCAAA
Found at i:12338196 original size:24 final size:24
Alignment explanation
Indices: 12338142--12338196 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
12338132 TCCGGTGCAT
**
12338142 CCCGTTAATTCCACTTCGGAGCTA
1 CCCGTTAATTCCACTTCAAAGCTA
* * * *
12338166 TCTGTTAATTGCACTTTAAAGCTA
1 CCCGTTAATTCCACTTCAAAGCTA
12338190 CCCGTTA
1 CCCGTTA
12338197 TAGGCTCTTC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.35
Consensus pattern (24 bp):
CCCGTTAATTCCACTTCAAAGCTA
Found at i:12349115 original size:51 final size:50
Alignment explanation
Indices: 12348967--12349208 Score: 158
Period size: 50 Copynumber: 4.8 Consensus size: 50
12348957 ATCATTCGAT
* * * * * *
12348967 ACAC-GTAGTAACCTTCACATAGTACTACACACGTGAGCA-AACTTTTCGGT
1 ACACAGTAGTAGCCTGCACATAGTACTACACACGTGACCATAA--TATCCGA
* * *
12349017 TCAC-GTAGTAGCCTGCACATAGTACTAAACCCGTGACCATTAATATCC-A
1 ACACAGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TAATATCCGA
* * *
12349066 ACACATGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGT
1 ACACA-GTAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-ATATCC-GA
* * * * * ** *
12349119 ACGCA-TACTAGCCTGCACATAGTACTACACATGCGACCTTTCGT-TCCGGT
1 ACACAGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATAATATCC-GA
*
12349169 ACAC-GTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 ACACAGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
12349209 CACTTTCACT
Statistics
Matches: 152, Mismatches: 29, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
49 4 0.03
50 76 0.50
51 64 0.42
52 4 0.03
53 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
ACACAGTAGTAGCCTGCACATAGTACTACACACGTGACCATAATATCCGA
Found at i:12349177 original size:101 final size:101
Alignment explanation
Indices: 12348965--12349204 Score: 266
Period size: 101 Copynumber: 2.4 Consensus size: 101
12348955 TTATCATTCG
* * * * * * *
12348965 ATACACGTAGTAACCTTCACATAGTACTACACACGTGAGCAAACTTTTCGGTTCACGTAGTAGCC
1 ATACACGTAGTAGCCTACACATAGTACTACACACGTGAGCAAACTATCCGGTACACATACTAGCC
* *
12349030 TGCACATAGTACTAAACCCGTGACCATTAATATCCA
66 TGCACATAGTACTAAACACGCGACCATTAATATCCA
* * * * * *
12349066 ACACATGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATACTAGC
1 ATACACGTAGTAGCCTACACATAGTACTACACACGTGAGC-AAACTATCCGGTACACATACTAGC
* * * ** *
12349131 CTGCACATAGTACTACACATGCGACCTTTCGT-TCCG
65 CTGCACATAGTACTAAACACGCGACCATTAATATCCA
*
12349167 GTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 ATACACGTAGTAGCCTACACATAGTACTACACACGTGA
12349205 CCATCACTTT
Statistics
Matches: 114, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
101 72 0.63
102 42 0.37
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
ATACACGTAGTAGCCTACACATAGTACTACACACGTGAGCAAACTATCCGGTACACATACTAGCC
TGCACATAGTACTAAACACGCGACCATTAATATCCA
Found at i:12354324 original size:27 final size:27
Alignment explanation
Indices: 12354267--12354332 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
12354257 CACATAGTTC
* *
12354267 AGAGGCGCCAATGGTGGTGCCTATCTG
1 AGAGGCGCCAATAGTGGTGCCTATCTA
* *
12354294 AGAGGCGCCATTAGTGGTGCC-ATGTTA
1 AGAGGCGCCAATAGTGGTGCCTAT-CTA
12354321 AGAGGCGCCAAT
1 AGAGGCGCCAAT
12354333 GGTCTGATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (27 bp):
AGAGGCGCCAATAGTGGTGCCTATCTA
Found at i:12356988 original size:15 final size:15
Alignment explanation
Indices: 12356968--12357000 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
12356958 TCAAACACTT
12356968 CATTATCCATGTACA
1 CATTATCCATGTACA
12356983 CATTATCCATGTACA
1 CATTATCCATGTACA
12356998 CAT
1 CAT
12357001 GTCGTGGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (15 bp):
CATTATCCATGTACA
Found at i:12357436 original size:21 final size:22
Alignment explanation
Indices: 12357401--12357449 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
12357391 AATTAATTAT
12357401 AAAATAATTACAATATTCATAC
1 AAAATAATTACAATATTCATAC
*
12357423 AAAA-AATTAGAATATTCATAC
1 AAAATAATTACAATATTCATAC
12357444 AAAATA
1 AAAATA
12357450 CTAATCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATAATTACAATATTCATAC
Found at i:12357600 original size:17 final size:17
Alignment explanation
Indices: 12357578--12357623 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
12357568 TACATTACCT
12357578 TTCTTCTTTTTCTTCTC
1 TTCTTCTTTTTCTTCTC
12357595 TTCTTCTCTTTTC-TCTC
1 TTCTTCT-TTTTCTTCTC
*
12357612 TT-TTTTTTTTCT
1 TTCTTCTTTTTCT
12357624 CTACCGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.19
16 3 0.12
17 13 0.50
18 5 0.19
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTTCTTTTTCTTCTC
Found at i:12357796 original size:27 final size:27
Alignment explanation
Indices: 12357736--12357800 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
12357726 AGAAGGCCAC
* **
12357736 CATTGGCGCCTCCCTATGAGGTATTTT
1 CATTGGCGCCTCCCTATGAGGCACATT
* * *
12357763 TAATGGCGCCTCTCTATGAGGCACATT
1 CATTGGCGCCTCCCTATGAGGCACATT
12357790 CATTGGCGCCT
1 CATTGGCGCCT
12357801 ACCTGACAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (27 bp):
CATTGGCGCCTCCCTATGAGGCACATT
Found at i:12360725 original size:25 final size:25
Alignment explanation
Indices: 12360692--12360741 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
12360682 AAACTTAAAT
12360692 TTAAACTTAA-AATAACAAAAAAAA
1 TTAAACTTAATAATAACAAAAAAAA
* *
12360716 TTAAATCTTAATATTAATAAAAAAAA
1 TTAAA-CTTAATAATAACAAAAAAAA
12360742 GTAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 5 0.23
26 12 0.55
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (25 bp):
TTAAACTTAATAATAACAAAAAAAA
Found at i:12362270 original size:53 final size:53
Alignment explanation
Indices: 12362212--12362317 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
12362202 TTACCTATTC
*
12362212 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTGA
1 TCTCTCTCGGGCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTGA
*
12362265 TCTCTCTCGGGCTCTTTTTTCATTTTTTCCCTGTCATTTTTTGTGGTTTTTGA
1 TCTCTCTCGGGCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTGA
12362318 AATCCACTGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.06, C:0.21, G:0.15, T:0.58
Consensus pattern (53 bp):
TCTCTCTCGGGCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTGA
Found at i:12365445 original size:14 final size:15
Alignment explanation
Indices: 12365419--12365451 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
12365409 GAAGAACTTC
12365419 TATTTTCTATTAAAA
1 TATTTTCTATTAAAA
12365434 TATTTT-TATTAAAA
1 TATTTTCTATTAAAA
12365448 TATT
1 TATT
12365452 ATTAAGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTCTATTAAAA
Found at i:12367832 original size:105 final size:104
Alignment explanation
Indices: 12367624--12367936 Score: 391
Period size: 105 Copynumber: 3.0 Consensus size: 104
12367614 ATTGTTGATT
* * * *
12367624 TTGAATTGCCCAAAACCCTAAATTCA-TTTTTCTAATAGTGAAGAGGATGAAGAAAGG-GAAAAA
1 TTGAATTG-CCAAAACCCTAAA-TCATTTTTTTTAACAGTGAAGATGATGAAGAAAGGAAAAAAA
* *
12367687 T-AGGAAAATCAAATCTCCTTGATAAGAAATTAAATAGATG
64 TCAAGAAAATCAAATCTCCTTGATGAGAAATTAAATAGATG
* * * *
12367727 TTGAATTGTTCAAAACCCTAAATCATTTTTTTTAACAGTGAAGATAATAAAGAATGGAAAAAAAT
1 TTGAATTG-CCAAAACCCTAAATCATTTTTTTTAACAGTGAAGATGATGAAGAAAGGAAAAAAAT
12367792 CAAGAAAATCAAATCTCCTTGATGAGAAATTAAATAGATG
65 CAAGAAAATCAAATCTCCTTGATGAGAAATTAAATAGATG
* *
12367832 TTGAATTGCCTAAAATCCTAAATCTTTTTTTTTCTAACAGTGAAGATGATGAAGAAAAGGAAAAA
1 TTGAATTGCC-AAAACCCTAAATC-ATTTTTTT-TAACAGTGAAGATGATGAAG-AAAGG-AAAA
* *
12367897 AAATCAAGAAAATCAAATCTTCC-TGATGAGTAATTGAATA
61 AAATCAAGAAAATCAAATC-TCCTTGATGAGAAATTAAATA
12367937 ACCCAAAATC
Statistics
Matches: 182, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
102 3 0.02
103 45 0.25
104 7 0.04
105 57 0.31
106 7 0.04
107 18 0.10
108 4 0.02
109 38 0.21
110 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (104 bp):
TTGAATTGCCAAAACCCTAAATCATTTTTTTTAACAGTGAAGATGATGAAGAAAGGAAAAAAATC
AAGAAAATCAAATCTCCTTGATGAGAAATTAAATAGATG
Found at i:12371922 original size:7 final size:7
Alignment explanation
Indices: 12371900--12371964 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
12371890 TTTAGTTTTA
*
12371900 ATATCAT
1 ATATTAT
12371907 ATATATAT
1 ATAT-TAT
12371915 ATATTAT
1 ATATTAT
*
12371922 ATGTTAT
1 ATATTAT
12371929 -TATTAAAT
1 ATATT--AT
12371937 ATATTAT
1 ATATTAT
12371944 ATATT-T
1 ATATTAT
12371950 -TATTAT
1 ATATTAT
*
12371956 TTATTAT
1 ATATTAT
12371963 AT
1 AT
12371965 TATTTCTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 4 0.08
6 5 0.10
7 27 0.56
8 8 0.17
9 4 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:12371941 original size:22 final size:21
Alignment explanation
Indices: 12371913--12371954 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
12371903 TCATATATAT
*
12371913 ATATATTATATGTTATTATTAA
1 ATATATTATATATT-TTATTAA
12371935 ATATATTATATATTTTATTA
1 ATATATTATATATTTTATTA
12371955 TTTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATATTATATATTTTATTAA
Found at i:12371946 original size:24 final size:24
Alignment explanation
Indices: 12371909--12371967 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
12371899 AATATCATAT
12371909 ATATATATATTATATGTTATTATTAA
1 ATATAT-TA-TATATGTTATTATTAA
* *
12371935 ATATATTATATATTTTATTATTTA
1 ATATATTATATATGTTATTATTAA
*
12371959 TTATATTAT
1 ATATATTAT
12371968 TTCTAAACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 22 0.73
25 2 0.07
26 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
ATATATTATATATGTTATTATTAA
Found at i:12371953 original size:12 final size:12
Alignment explanation
Indices: 12371906--12371967 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
12371896 TTTAATATCA
12371906 TATATATATATAT
1 TATATAT-TATAT
*
12371919 TATATGTTATTAT
1 TATATATTA-TAT
12371932 TA-A-A-TATAT
1 TATATATTATAT
*
12371941 TATATATTTTAT
1 TATATATTATAT
*
12371953 TATTTATTATAT
1 TATATATTATAT
12371965 TAT
1 TAT
12371968 TTCTAAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
9 5 0.12
10 3 0.08
11 1 0.03
12 20 0.50
13 11 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TATATATTATAT
Found at i:12371960 original size:31 final size:30
Alignment explanation
Indices: 12371905--12371962 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
12371895 TTTTAATATC
12371905 ATATATATATATATTATATGTTATTATTAA
1 ATATATATATATATTATATGTTATTATTAA
*
12371935 ATATATTATATATTTTATTAT-TTATTAT
1 ATATA-TATATATATTA-TATGTTATTAT
12371963 ATTATTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 5 0.20
31 17 0.68
32 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
ATATATATATATATTATATGTTATTATTAA
Found at i:12379935 original size:43 final size:43
Alignment explanation
Indices: 12379784--12379942 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
12379774 AAGGCTCGTA
* *
12379784 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAC-ATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAT-T
* ** *
12379827 CGATGCCATTGTCCCAGACAG-GGTCTTACAC-TAATCA-AATG
1 CAATGCCAACGTCCCAGAC-GTGGTCTTACACGTAATCACAATT
** * *
12379868 CGTTGCCAATGTCCCAGACATGGTCTTACACGT-ATACACAATT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAAT-CACAATT
*
12379911 CAATGCCAACGTCCCAAACGTGGTCTTACACG
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG
12379943 AAAATACATA
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 29 0.31
42 11 0.12
43 54 0.57
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAATT
Found at i:12379936 original size:84 final size:84
Alignment explanation
Indices: 12379787--12379941 Score: 190
Period size: 84 Copynumber: 1.8 Consensus size: 84
12379777 GCTCGTACAA
* * * * ** *
12379787 TGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCGATGCCATTGTCCCAGACAGGGTC
1 TGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCAATGCCAACGTCCCAAACAGGGTC
12379852 TTACACTAATCAAATGCGT
66 TTACACTAATCAAATGCGT
*
12379871 TGCCAATGTCCCAGACATGGTCTTACACGT-ATACACA-ATTCAATGCCAACGTCCCAAAC-GTG
1 TGCCAACGTCCCAGACATGGTCTTACACGTAAT-CACATA-TCAATGCCAACGTCCCAAACAG-G
12379933 GTCTTACAC
63 GTCTTACAC
12379942 GAAAATACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
83 4 0.07
84 56 0.93
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (84 bp):
TGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCAATGCCAACGTCCCAAACAGGGTC
TTACACTAATCAAATGCGT
Found at i:12383008 original size:21 final size:21
Alignment explanation
Indices: 12382979--12383021 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12382969 TATTCATTTA
* *
12382979 TTAATCCAAAGGAAAATACTT
1 TTAACCCAAAAGAAAATACTT
12383000 TTAACCCAAAAGAAAATACTT
1 TTAACCCAAAAGAAAATACTT
12383021 T
1 T
12383022 GAAAAAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (21 bp):
TTAACCCAAAAGAAAATACTT
Found at i:12384792 original size:43 final size:43
Alignment explanation
Indices: 12384652--12384816 Score: 167
Period size: 42 Copynumber: 3.9 Consensus size: 43
12384642 TTACAAACAA
* *
12384652 AAACGCCGCTAAAGAGCATGTTCTTTAGCGGCG-TTTTCTT-C
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTTTAC
* * * * * **
12384693 TAAGCGCTGCTAAAGAACATGATCTTTAGTGGCAATTTTTATT--
1 -AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTT-TTAC
* * *
12384736 AAGCGCCACTAAAGATCATGTTCTTTAGCGGTGCTTTTTTTAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTTTAC
*
12384779 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTT
12384817 ATACAAAAAC
Statistics
Matches: 100, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 58 0.58
43 38 0.38
44 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTTTAC
Found at i:12384817 original size:84 final size:84
Alignment explanation
Indices: 12384655--12384818 Score: 188
Period size: 84 Copynumber: 2.0 Consensus size: 84
12384645 CAAACAAAAA
* * *
12384655 CGCCGCTAAAGAGCATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCTGCTAAAGAACATGATCTTT
1 CGCCACTAAAGAGCATGTTCTTTAGCGGCGTTTTCTTCTAAACGCCGCTAAAGAACATGATCTTT
* *
12384720 AGTGGCAATTTTTATTAAG
66 AGCGGCAACTTTTATTAAG
* * * ** *
12384739 CGCCACTAAAGATCATGTTCTTTAGCGGTGCTTTTTTTAC-AAACGCCGCTAAAGGTCATGTTCT
1 CGCCACTAAAGAGCATGTTCTTTAGCGGCG-TTTTCTT-CTAAACGCCGCTAAAGAACATGATCT
*
12384803 TTAGCGGC-GCTTTTAT
64 TTAGCGGCAACTTTTAT
12384819 ACAAAAACGC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
84 33 0.50
85 32 0.48
86 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (84 bp):
CGCCACTAAAGAGCATGTTCTTTAGCGGCGTTTTCTTCTAAACGCCGCTAAAGAACATGATCTTT
AGCGGCAACTTTTATTAAG
Found at i:12385222 original size:21 final size:21
Alignment explanation
Indices: 12385198--12385248 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
12385188 TTCTTTTGAA
*
12385198 CCTCTGCTTCTCTCACTGCCG
1 CCTCTGCTTCCCTCACTGCCG
**
12385219 CCTCTGCTTCCCTTGCTGCCG
1 CCTCTGCTTCCCTCACTGCCG
12385240 CCTCTGCTT
1 CCTCTGCTT
12385249 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.47, G:0.16, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCACTGCCG
Found at i:12394200 original size:21 final size:21
Alignment explanation
Indices: 12394139--12394206 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
12394129 ACAAAAAAGA
12394139 TTTGTCTAAGTCACTTCGTTTCTT
1 TTTGTCTAAGTCACTTC---TCTT
* **
12394163 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCTAAGTCACTTCTCTT
*
12394184 TTTGTCTAACTCACTTC-CTT
1 TTTGTCTAAGTCACTTCTCTT
12394204 TTT
1 TTT
12394207 TCTTTGTGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.16
21 17 0.46
24 14 0.38
ACGTcount: A:0.12, C:0.24, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTGTCTAAGTCACTTCTCTT
Found at i:12394982 original size:290 final size:291
Alignment explanation
Indices: 12394425--12394986 Score: 666
Period size: 290 Copynumber: 1.9 Consensus size: 291
12394415 ATCTGACCAA
* ** *
12394425 CCAAAGTTTCCATTATTCCATCCTAAAATAATTAAAAAATAAAATTATAATGGTTACCTCAAAAC
1 CCAAAATTTCCATTATTCCATCCTAAAATAATTAAAAAATAAAATTATAACAGTTACCCCAAAAC
*
12394490 ATACTTTAGGTATTATGGTTGAAAACCAAATACCCTGATTGTTAGGGTCTCCCCCCCCCCCAAAA
66 ATACTTTAGGTATTATGGTTGAAAACCAAATACCCTGATTGCTAGGGTCT--CCCCCCCCC---A
* * * * *
12394555 AAAATCATAAATGACTTGAAAAGCCACCAAAGTTATTTATCGTTGAACTGCTATCGCTACCACAA
126 AAAACCACAAATGACTTGAAAAACCACCAAAGGTATATATCGTTGAACTGCTATCGCTACCACAA
* * * * * *
12394620 GCTTTCGATGCCACCTCAGTTCACGTCATTGTCGTCAAGTCCTCTCGTTGCCATAGTCAAGTCGT
191 GCTTTCGATGCCACCTCAATTCACGTCATTATCATCAAGTCATCTCATTGCCATAGTCAAGTCGC
*
12394685 GACCGACCACCAAACATAAAATTAAATGAATCTAAG
256 AACCGACCACCAAACATAAAATTAAATGAATCTAAG
*
12394721 CCAAAATTTCCATTATTCCATCCTAAAATAGTTAAAAAAAATAAAATTATAACAGTTACCCCAAA
1 CCAAAATTTCCATTATTCCATCCTAAAATAATT--AAAAAATAAAATTATAACAGTTACCCCAAA
* * * * * **
12394786 GCCTTCTTTAGGTATTCTGGTTGAAAGCCAAATACCCTGATTGCTAGGGT-T-TTCCCCCC-AAA
64 ACATACTTTAGGTATTATGGTTGAAAACCAAATACCCTGATTGCTAGGGTCTCCCCCCCCCAAAA
* * * ***
12394848 ACCACAAATGACTTGAAAAACTACTAAAGGTATATATCGTTGAACTGTTATCGCTACCATGGGCT
129 ACCACAAATGACTTGAAAAACCACCAAAGGTATATATCGTTGAACTGCTATCGCTACCACAAGCT
* * * ** * *
12394913 TTC-ACTGTCACCTCAATTGACGTCGTTATCATC-AGTTCATCTCATTGTGATAGTCAGGTTGCA
194 TTCGA-TGCCACCTCAATTCACGTCATTATCATCAAG-TCATCTCATTGCCATAGTCAAGTCGCA
12394976 ACCGACCACCA
257 ACCGACCACCA
12394987 CCAGGTACCG
Statistics
Matches: 224, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
289 3 0.01
290 112 0.50
294 6 0.03
296 31 0.14
297 1 0.00
298 71 0.32
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (291 bp):
CCAAAATTTCCATTATTCCATCCTAAAATAATTAAAAAATAAAATTATAACAGTTACCCCAAAAC
ATACTTTAGGTATTATGGTTGAAAACCAAATACCCTGATTGCTAGGGTCTCCCCCCCCCAAAAAC
CACAAATGACTTGAAAAACCACCAAAGGTATATATCGTTGAACTGCTATCGCTACCACAAGCTTT
CGATGCCACCTCAATTCACGTCATTATCATCAAGTCATCTCATTGCCATAGTCAAGTCGCAACCG
ACCACCAAACATAAAATTAAATGAATCTAAG
Found at i:12411543 original size:9 final size:9
Alignment explanation
Indices: 12411526--12411562 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12411516 TGAGTTTTCG
12411526 AATTCGAAT
1 AATTCGAAT
*
12411535 AACTCGAAT
1 AATTCGAAT
12411544 AATTCGAAT
1 AATTCGAAT
12411553 AATTCGAAT
1 AATTCGAAT
12411562 A
1 A
12411563 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:12413502 original size:30 final size:30
Alignment explanation
Indices: 12413465--12413554 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
12413455 ATGCATATTT
12413465 TATATTAATTCATGTTAATTTATTAATGTA
1 TATATTAATTCATGTTAATTTATTAATGTA
* * * *
12413495 TGTATTAATGCATGATT--TTCATTCATAT-TT
1 TATATTAATTCATG-TTAATTTATT-A-ATGTA
12413525 TATATTAATTCATGTTAATTTATTAATGTA
1 TATATTAATTCATGTTAATTTATTAATGTA
12413555 CATGTACAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
29 9 0.20
30 28 0.61
31 9 0.20
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (30 bp):
TATATTAATTCATGTTAATTTATTAATGTA
Found at i:12414940 original size:130 final size:131
Alignment explanation
Indices: 12414707--12414967 Score: 515
Period size: 130 Copynumber: 2.0 Consensus size: 131
12414697 AAAGATCCTA
12414707 GAGGATTTAATTATGTTTCCAAACCCATAAGAGATCGAGTTGCCATGGAAGTAATTCCGAACATG
1 GAGGATTTAATTATGTTTCCAAACCCATAAGAGATCGAGTTGCCATGGAAGTAATTCCGAACATG
12414772 TTAAGCATGATGAAAGTGAATTGAATTAATTAATATAATTATCCTAGCCAATTT-ATGTTGATTG
66 TTAAGCATGATGAAAGTGAATTGAATTAATTAATATAATTATCCTAGCCAATTTAATGTTGATTG
12414836 T
131 T
12414837 GAGGATTTAATTATGTTTCCAAACCCATAAGAGATCGAGTTGCCATGGAAGTAATTCCGAACATG
1 GAGGATTTAATTATGTTTCCAAACCCATAAGAGATCGAGTTGCCATGGAAGTAATTCCGAACATG
12414902 TTAAGCATGATGAAAGTGAATTGAATTAATTAATATAATTATCCTAGCCAATTTAATGTTGATTG
66 TTAAGCATGATGAAAGTGAATTGAATTAATTAATATAATTATCCTAGCCAATTTAATGTTGATTG
12414967 T
131 T
12414968 TTTTGTTGCT
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 119 0.92
131 11 0.08
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (131 bp):
GAGGATTTAATTATGTTTCCAAACCCATAAGAGATCGAGTTGCCATGGAAGTAATTCCGAACATG
TTAAGCATGATGAAAGTGAATTGAATTAATTAATATAATTATCCTAGCCAATTTAATGTTGATTG
T
Found at i:12418796 original size:16 final size:14
Alignment explanation
Indices: 12418767--12418801 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
12418757 TTATTTGTTC
12418767 AATTAATTTAAATT
1 AATTAATTTAAATT
12418781 AATTAATTTCTAAATT
1 AATTAA-TT-TAAATT
12418797 AATTA
1 AATTA
12418802 CTTTTTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 2 0.11
16 11 0.58
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTAATTTAAATT
Found at i:12420322 original size:28 final size:27
Alignment explanation
Indices: 12420257--12420323 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
12420247 ACATGAATGT
* *
12420257 AAAACTTAAACTGTGAAGAAAAAGGCTA
1 AAAACTTAAA-AGTGAAGAAAAAGCCTA
* *
12420285 AAACCCTAAAAGATGAAGAGAAAA-CCTA
1 AAAACTTAAAAG-TGAAGA-AAAAGCCTA
12420313 AAAACTTAAAA
1 AAAACTTAAAA
12420324 TGTGTATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
27 1 0.03
28 26 0.84
29 4 0.13
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.15
Consensus pattern (27 bp):
AAAACTTAAAAGTGAAGAAAAAGCCTA
Found at i:12425219 original size:32 final size:32
Alignment explanation
Indices: 12425182--12425246 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
12425172 TATATTTTAA
*
12425182 TTGTATAATTTAACTGCTCTATTTAATTGTTC
1 TTGTATAATTTAACTGCTCCATTTAATTGTTC
12425214 TTGTATAATTTAACTGCTCCATTTAATTGTTC
1 TTGTATAATTTAACTGCTCCATTTAATTGTTC
12425246 T
1 T
12425247 CCAACTGCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (32 bp):
TTGTATAATTTAACTGCTCCATTTAATTGTTC
Found at i:12426277 original size:74 final size:74
Alignment explanation
Indices: 12426196--12426346 Score: 266
Period size: 74 Copynumber: 2.0 Consensus size: 74
12426186 AAACTTTGAA
* *
12426196 TTTTTTTTCTTTTCTTTTTAATTGTGCCATTTAATTTTAATTTGTTTCTTCTTTAGTCTTCAGAC
1 TTTTTTTTCTTTTCTTTTTAATTGTGCCATTCAATTTTAATTTGTTTCCTCTTTAGTCTTCAGAC
12426261 TATCGACCT
66 TATCGACCT
* *
12426270 TTTTTTTTCTTTTCTTTTTAATTTTTCCATTCAATTTTAATTTGTTTCCTCTTTAGTCTTCAGAC
1 TTTTTTTTCTTTTCTTTTTAATTGTGCCATTCAATTTTAATTTGTTTCCTCTTTAGTCTTCAGAC
12426335 TATCGACCT
66 TATCGACCT
12426344 TTT
1 TTT
12426347 GGGGAGTGAC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.16, C:0.17, G:0.07, T:0.60
Consensus pattern (74 bp):
TTTTTTTTCTTTTCTTTTTAATTGTGCCATTCAATTTTAATTTGTTTCCTCTTTAGTCTTCAGAC
TATCGACCT
Found at i:12435766 original size:94 final size:94
Alignment explanation
Indices: 12435602--12436715 Score: 1211
Period size: 94 Copynumber: 11.9 Consensus size: 94
12435592 CAGTAAAATC
*
12435602 ACAAATCCTATACCCATGAAGTTGTAGTGGGTC-AGATTGAAGT-TACCATAGCGAATCTTATCT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGA-ATTGAA-TCTACCATAGCGAATCTTATCT
* * * *
12435665 CCTTGAAGTTGTAGTGGAGCATATTAAAGCT
64 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * *
12435696 ACAAATCTTATACCCCTGACGTTGCAGTGGGTCGAATTGAAGT-TACCATAGCGAATCTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGAATTGAA-TCTACCATAGCGAATCTTATCTC
* *
12435760 CCTGAAGTTGTAGTGGAGCAAATTGAAGCT
65 CCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * * * *
12435790 ACAAATCCTATACCCCTAAAGTTGCAATGGGT-TACATTAAAGT-TACCATAGCGAATCTTATTT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGA-ATTGAA-TCTACCATAGCGAATCTTATCT
* * * * * *
12435853 CCCTAAAGTTACAGTAGAGTAGATTAAAGTT
64 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
** * *
12435884 ACAAATCCTATACCCCTGAAGTTAAAGTGGGTC-AGATTGAATCTACCATAGTGAATCTTATCTT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGA-ATTGAATCTACCATAGCGAATCTTATCTC
*
12435948 CCTGAAGTTGCAGTGGAGCAGA-TGAAGTT
65 CCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * *
12435977 ACAAATCCTATACCTCTGAAGTTGTAGTGGG-CTGGATTGAATCTACCATAGCAAAACTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTC-GAATTGAATCTACCATAGCGAATCTTATCTC
*
12436041 CCTGAAGTTGTAGTGGAGCAGA-TGAAGCT
65 CCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * *
12436070 ACAAATCCTATATCCCTAAAGTTGTAGTGGGTCAAATTGAATCTACCATAGCGAATCTTATCTCT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGAATTGAATCTACCATAGCGAATCTTATCTCC
* * *
12436135 CTGAAGTTGCAGTGAAGTAGATTAAAGCT
66 CTGAAGTTGCAGTGGAGCAGATTGAAGCT
* ** * * *
12436164 ACAAATCCTATACCCCTAAAGTTGTAACGGGTCGGATTGAAGT-TGCCATAGCAAATCTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGAATTGAA-TCTACCATAGCGAATCTTATCTC
* *
12436228 CTTGAAGTT-CTAGTGGAGCAAATTGAAGCT
65 CCTGAAGTTGC-AGTGGAGCAGATTGAAGCT
* *
12436258 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAATCTACCATAGCGAATCTTATCTCT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGAATTGAATCTACCATAGCGAATCTTATCTCC
* * *
12436323 CTGAAGTTGCAGTGAAGTAGATTAAAGCT
66 CTGAAGTTGCAGTGGAGCAGATTGAAGCT
* ** * * *
12436352 ACAAATCCTATACCCCTAAAGTTGTAACGGGTCGGATTGAATCTGCCATAG-AAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGAATTGAATCTACCATAGCGAATCTTATCTCC
* * * * * *
12436416 TTGAAATTGCAATGGAACAAATTTAAGCT
66 CTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * *
12436445 ACAAATCCTATACCCGTAAAGTTGCAGTGGGTC-AGATTGAATCTACCATAGCAAATCTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGA-ATTGAATCTACCATAGCGAATCTTATCTC
*
12436509 CCTGAAGTTGCAGTGGAGTAGATTGAA-CT
65 CCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * ** *
12436538 ACAAATCCTATATCCTTGAAGTTGTAGTGGGTC-AGATTGAATCTGCCATAGAAAATATTATCTC
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGA-ATTGAATCTACCATAGCGAATCTTATCTC
* *
12436602 CCTGAAGTTGCAATGGAGCA-AGGTGAAGCT
65 CCTGAAGTTGCAGTGGAGCAGA-TTGAAGCT
* * * ** *
12436632 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAGA-CTACAATA-AAAAACATTATCT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGAATTGA-ATCTACCATAGCGAATC-TTATCT
* *
12436695 CCTTGAAGTTGCAATGGAGCA
64 CCCTGAAGTTGCAGTGGAGCA
12436716 AGATGAAACT
Statistics
Matches: 869, Mismatches: 132, Indels: 38
0.84 0.13 0.04
Matches are distributed among these distances:
92 2 0.00
93 324 0.37
94 539 0.62
95 4 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGAATTGAATCTACCATAGCGAATCTTATCTCC
CTGAAGTTGCAGTGGAGCAGATTGAAGCT
Found at i:12435933 original size:188 final size:188
Alignment explanation
Indices: 12435602--12436671 Score: 1298
Period size: 187 Copynumber: 5.7 Consensus size: 188
12435592 CAGTAAAATC
* * * * *
12435602 ACAAATCCTATACCCATGAAGTTGTAGTGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTAAAGTTGTAATGGGTCGGATTGAAGTTACCATAGCAAATCTTATCTCC
* * * *
12435667 TTGAAGTTGTAGTGGAGCATATTAAAGCTACAAATCTTATACCCCTGACGTTGCAGTGGGTC-GA
66 TTGAAGTTGCAGTGGAGCAAATTAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG-
* * *
12435731 ATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGCT
130 ATTGAA-TCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
* *** * * *
12435790 ACAAATCCTATACCCCTAAAGTTGCAATGGGTTACATTAAAGTTACCATAGCGAATCTTATTTCC
1 ACAAATCCTATACCCCTAAAGTTGTAATGGGTCGGATTGAAGTTACCATAGCAAATCTTATCTCC
* * * * * * * **
12435855 CTAAAGTTACAGTAGAGTAGATTAAAGTTACAAATCCTATACCCCTGAAGTTAAAGTGGGTCAGA
66 TTGAAGTTGCAGTGGAGCAAATTAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGA
* * * *
12435920 TTGAATCTACCATAGTGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA-TGAAGTT
131 TTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
* * * *
12435977 ACAAATCCTATACCTCTGAAGTTGTAGTGGG-CTGGATTGAA-TCTACCATAGCAAAACTTATCT
1 ACAAATCCTATACCCCTAAAGTTGTAATGGGTC-GGATTGAAGT-TACCATAGCAAATCTTATCT
* * * * * * *
12436040 CCCTGAAGTTGTAGTGGAGCAGA-TGAAGCTACAAATCCTATATCCCTAAAGTTGTAGTGGGTCA
64 CCTTGAAGTTGCAGTGGAGCAAATTAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCA
* * * *
12436104 AATTGAATCTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGAAGTAGATTAAAGCT
129 GATTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
* *
12436164 ACAAATCCTATACCCCTAAAGTTGTAACGGGTCGGATTGAAGTTGCCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTAAAGTTGTAATGGGTCGGATTGAAGTTACCATAGCAAATCTTATCTCC
* * *
12436229 TTGAAGTT-CTAGTGGAGCAAATTGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAA
66 TTGAAGTTGC-AGTGGAGCAAATTAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG
* * *
12436293 ATTGAATCTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGAAGTAGATTAAAGCT
130 ATTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
* *
12436352 ACAAATCCTATACCCCTAAAGTTGTAACGGGTCGGATTGAA-TCTGCCATAG-AAATCTTATCTC
1 ACAAATCCTATACCCCTAAAGTTGTAATGGGTCGGATTGAAGT-TACCATAGCAAATCTTATCTC
* * * * * *
12436415 CTTGAAATTGCAATGGAACAAATTTAAGCTACAAATCCTATACCCGTAAAGTTGCAGTGGGTCAG
65 CTTGAAGTTGCAGTGGAGCAAATTAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG
*
12436480 ATTGAATCTACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-CT
130 ATTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
* * * * * * * *
12436538 ACAAATCCTATATCCTTGAAGTTGTAGTGGGTCAGATTGAA-TCTGCCATAGAAAATATTATCTC
1 ACAAATCCTATACCCCTAAAGTTGTAATGGGTCGGATTGAAGT-TACCATAGCAAATCTTATCTC
* * ** * *
12436602 CCTGAAGTTGCAATGGAGCAAGGTGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGG
65 CTTGAAGTTGCAGTGGAGCAAATTAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG
12436667 ATTGA
130 ATTGA
12436672 GACTACAATA
Statistics
Matches: 776, Mismatches: 94, Indels: 25
0.87 0.11 0.03
Matches are distributed among these distances:
186 129 0.17
187 343 0.44
188 303 0.39
189 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (188 bp):
ACAAATCCTATACCCCTAAAGTTGTAATGGGTCGGATTGAAGTTACCATAGCAAATCTTATCTCC
TTGAAGTTGCAGTGGAGCAAATTAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGA
TTGAATCTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
Found at i:12436279 original size:44 final size:44
Alignment explanation
Indices: 12435602--12436664 Score: 257
Period size: 50 Copynumber: 22.8 Consensus size: 44
12435592 CAGTAAAATC
* *
12435602 ACAAATCCTATACCCATGAAGTTGTAGTGGGTCAGATTGAAGTTACCAT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAG----C-T
* * * * *
12435651 AGCGAATCTTAT-CTCCTTGAAGTTGTAGTGGAG-CATATTAAAGCT
1 A-CAAATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAAATTGAAGCT
* * * *
12435696 ACAAATCTTATACCCCTGACGTTGCAGTGGGTCGAATTGAAGTTACCAT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAG----C-T
* *
12435745 AGCGAATCTTAT-CTCCCTGAAGTTGTAGTGGAG-CAAATTGAAGCT
1 A-CAAATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAAATTGAAGCT
* * * * * *
12435790 ACAAATCCTATACCCCTAAAGTTGCAATGGGTTACATTAAAGTTACCAT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAG----C-T
* * ** * ** * * * *
12435839 AGCGAATCTTATTTCCCTAAAGTTACAGTAGAGT-AGATTAAAGTT
1 A-CAAATCCTATACCCCTGAAGTTGTAGT-GGGTCAAATTGAAGCT
** * *
12435884 ACAAATCCTATACCCCTGAAGTTAAAGTGGGTCAGATTGAATCT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCT
* * * * *
12435928 ACCATAGTGAATCTTAT-CTTCCTGAAGTTGCAGTGGAG-CAGA-TGAAGTT
1 A-C--A---AATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAAATTGAAGCT
* ** *
12435977 ACAAATCCTATACCTCTGAAGTTGTAGTGGG-CTGGATTGAATCT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTC-AAATTGAAGCT
** *
12436021 ACCATAGCAAAACT-TATCTCCCTGAAGTTGTAGTGGAG-CAGA-TGAAGCT
1 A-C--A--AATCCTATA-C-CCCTGAAGTTGTAGTGG-GTCAAATTGAAGCT
* * *
12436070 ACAAATCCTATATCCCTAAAGTTGTAGTGGGTCAAATTGAATCT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCT
* * * * * *
12436114 ACCATAGCGAATCTTAT-CTCTCTGAAGTTGCAGTGAAGT-AGATTAAAGCT
1 A-C--A---AATCCTATAC-CCCTGAAGTTGTAGTG-GGTCAAATTGAAGCT
* ** **
12436164 ACAAATCCTATACCCCTAAAGTTGTAACGGGTCGGATTGAAGTTGCCAT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAA---G-C-T
* * *
12436213 AGCAAATCTTAT-CTCCTTGAAGTTCTAGTGGAG-CAAATTGAAGCT
1 A-CAAATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAAATTGAAGCT
*
12436258 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAATCT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCT
* * * * * *
12436302 ACCATAGCGAATCTTAT-CTCTCTGAAGTTGCAGTGAAGT-AGATTAAAGCT
1 A-C--A---AATCCTATAC-CCCTGAAGTTGTAGTG-GGTCAAATTGAAGCT
* ** **
12436352 ACAAATCCTATACCCCTAAAGTTGTAACGGGTCGGATTGAATCTGCCAT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAA---G-C-T
* * * * * * ** *
12436401 AGAAATCTTAT-CTCCTTGAAATTGCAATGGAACAAATTTAAGCT
1 ACAAATCCTATAC-CCCTGAAGTTGTAGTGGGTCAAATTGAAGCT
* * * * *
12436445 ACAAATCCTATACCCGTAAAGTTGCAGTGGGTCAGATTGAATCTACCAT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTG-A---AGC-T
* * *
12436494 AGCAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGT-AGATTGAA-CT
1 A-CAAATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAAATTGAAGCT
* * *
12436538 ACAAATCCTATATCCTTGAAGTTGTAGTGGGTCAGATTGAATCTGCCAT
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAA---G-C-T
* ** * * **
12436587 AGAAAATATTAT-CTCCCTGAAGTTGCAATGGAG-CAAGGTGAAGCT
1 A-CAAATCCTATAC-CCCTGAAGTTGTAGTGG-GTCAAATTGAAGCT
*
12436632 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTC
1 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTC
12436665 GGATTGAGAC
Statistics
Matches: 754, Mismatches: 157, Indels: 211
0.67 0.14 0.19
Matches are distributed among these distances:
42 5 0.01
43 85 0.11
44 245 0.32
45 26 0.03
46 8 0.01
47 10 0.01
48 12 0.02
49 66 0.09
50 281 0.37
51 16 0.02
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCT
Found at i:12436558 original size:43 final size:43
Alignment explanation
Indices: 12436496--12436679 Score: 131
Period size: 43 Copynumber: 4.1 Consensus size: 43
12436486 TCTACCATAG
* *
12436496 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGT-AGATTGAACTA
1 CAAATCCTATATCCCTGAAGTTGCAGTGG-GTCAGATTGAACTA
* *
12436539 CAAATCCTATATCCTTGAAGTTGTAGTGGGTCAGATTGAATCTGCCATA
1 CAAATCCTATATCCCTGAAGTTGCAGTGGGTCAGATTGAA-----C-TA
* ** * * *
12436588 GAAAATATTATCTCCCTGAAGTTGCAATGGAG-CA-AGGTGAAGCTA
1 -CAAATCCTATATCCCTGAAGTTGCAGTGG-GTCAGA-TTGAA-CTA
* *
12436633 CAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAGACTA
1 CAAATCCTATATCCCTGAAGTTGCAGTGGGTCAGATTGA-ACTA
12436677 CAA
1 CAA
12436680 TAAAAAACAT
Statistics
Matches: 107, Mismatches: 21, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
42 2 0.02
43 34 0.32
44 33 0.31
45 4 0.04
46 1 0.01
48 1 0.01
49 3 0.03
50 28 0.26
51 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
CAAATCCTATATCCCTGAAGTTGCAGTGGGTCAGATTGAACTA
Done.