Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 89
Found at i:441942 original size:20 final size:22
Alignment explanation
Indices: 441911--441956 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
441901 TATTTTGTTT
441911 TTTTAGGCCTTTAAAGTTC-TG
1 TTTTAGGCCTTTAAAGTTCTTG
*
441932 TTTTA-GCCTTTTAAGTTCTTG
1 TTTTAGGCCTTTAAAGTTCTTG
441953 TTTT
1 TTTT
441957 GTTTTTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (22 bp):
TTTTAGGCCTTTAAAGTTCTTG
Found at i:442113 original size:4 final size:4
Alignment explanation
Indices: 442106--442245 Score: 55
Period size: 4 Copynumber: 34.5 Consensus size: 4
442096 ATCATCATTA
* *
442106 TTAT TTAT GTAT TTAT TTAT TTAT TTAT TTACCT TT-T TTAT CTTAT TTCCCT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA--T TTAT TTAT -TTAT TT--AT
* **
442158 TTA- TTA- TTAT TT-T ATTATT TTCACT TT-T GT-T TTCG TT-T TTAT
1 TTAT TTAT TTAT TTAT -TTA-T TT-A-T TTAT TTAT TTAT TTAT TTAT
* *
442200 TTA- ATAT TT-T TTAT TTAT TCAT TTATT TTATT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTA-T TTAT TTAT TTAT TT
442246 TCCTCTCCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
3 21 0.20
4 60 0.56
5 15 0.14
6 11 0.10
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:442153 original size:18 final size:17
Alignment explanation
Indices: 442125--442169 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
442115 TATTTATTTA
442125 TTTATTTATTTACCTTT
1 TTTATTTATTTACCTTT
*
442142 TTTATCTTATTTCCCTTT
1 TTTAT-TTATTTACCTTT
*
442160 ATTA-TTATTT
1 TTTATTTATTT
442170 TATTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 5 0.20
18 14 0.56
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTTATTTACCTTT
Found at i:442224 original size:26 final size:26
Alignment explanation
Indices: 442195--442244 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
442185 TGTTTTCGTT
442195 TTTATTTAATATTT-TTTATTTATTCA
1 TTTATTTAAT-TTTATTTATTTATTCA
*
442221 TTTATTTTATTTTATTTATTTATT
1 TTTATTTAATTTTATTTATTTATT
442245 TTCCTCTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTATTTAATTTTATTTATTTATTCA
Found at i:442228 original size:18 final size:19
Alignment explanation
Indices: 442207--442246 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
442197 TATTTAATAT
442207 TTTTTA-TTTATTCATTTA
1 TTTTTATTTTATTCATTTA
*
442225 -TTTTATTTTATTTATTTA
1 TTTTTATTTTATTCATTTA
442243 TTTT
1 TTTT
442247 CCTCTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 5 0.26
18 11 0.58
19 3 0.16
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTATTCATTTA
Found at i:442313 original size:11 final size:11
Alignment explanation
Indices: 442297--442326 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
442287 TTATTATTGT
442297 TATTTATTTAA
1 TATTTATTTAA
442308 TATTTATTTAA
1 TATTTATTTAA
442319 TA-TTATTT
1 TATTTATTT
442327 TTATCTAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:443616 original size:2 final size:2
Alignment explanation
Indices: 443611--443646 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
443601 TTAAAAAACT
*
443611 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
443647 AGCCCAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:444874 original size:20 final size:19
Alignment explanation
Indices: 444840--444891 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
444830 AATTTGATGT
444840 TGAGTATCG-TACCCTAGG
1 TGAGTATCGATACCCTAGG
*
444858 TGGAGTATCGATACCCTATG
1 T-GAGTATCGATACCCTAGG
444878 TGAGTATCGATACC
1 TGAGTATCGATACC
444892 GAGAACCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 1 0.03
19 21 0.68
20 9 0.29
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (19 bp):
TGAGTATCGATACCCTAGG
Found at i:448168 original size:20 final size:21
Alignment explanation
Indices: 448112--448169 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
448102 TTTTGAAATT
*
448112 AATATGAAA-AATATTTTGAA
1 AATATTAAATAATATTTTGAA
* *
448132 AATATTGAAT-ATGATTTTG-G
1 AATATTAAATAAT-ATTTTGAA
448152 AATATTAAATAATATTTT
1 AATATTAAATAATATTTT
448170 AATAAGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
AATATTAAATAATATTTTGAA
Found at i:449691 original size:28 final size:28
Alignment explanation
Indices: 449660--449724 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
449650 TTTAGTTTAG
449660 GGATGAGTAGAGATAGTTTACTATTGAT
1 GGATGAGTAGAGATAGTTTACTATTGAT
449688 GGATGAGTAGAGATAGTTTACTATTGAT
1 GGATGAGTAGAGATAGTTTACTATTGAT
449716 GGATGAGTA
1 GGATGAGTA
449725 AAAACACTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.34
Consensus pattern (28 bp):
GGATGAGTAGAGATAGTTTACTATTGAT
Found at i:449739 original size:28 final size:28
Alignment explanation
Indices: 449676--449739 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
449666 GTAGAGATAG
* * * *
449676 TTTACTATTGATGGATGAGTAGAGATAG
1 TTTACTATTGATGGATGAGTAAAAACAC
449704 TTTACTATTGATGGATGAGTAAAAACAC
1 TTTACTATTGATGGATGAGTAAAAACAC
*
449732 TTTGCTAT
1 TTTACTAT
449740 CCAATAAGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (28 bp):
TTTACTATTGATGGATGAGTAAAAACAC
Found at i:449807 original size:2 final size:2
Alignment explanation
Indices: 449802--449835 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
449792 AAGAAAAAAG
449802 AT AT AT AT AT AT A- AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
449836 GTTATGCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:449820 original size:13 final size:13
Alignment explanation
Indices: 449802--449835 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
449792 AAGAAAAAAG
449802 ATATATATATATA
1 ATATATATATATA
449815 ATATATATATATA
1 ATATATATATATA
449828 ATATATAT
1 ATATATAT
449836 GTTATGCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATATATATA
Found at i:454756 original size:14 final size:14
Alignment explanation
Indices: 454737--454780 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
454727 ATTATCATCA
* *
454737 CCTTTCAGGGTTGT
1 CCTTTCTGGGTTCT
454751 CCTTTCTGGGTTCT
1 CCTTTCTGGGTTCT
*
454765 CCTTTCTGGGTCCT
1 CCTTTCTGGGTTCT
454779 CC
1 CC
454781 ATAAATCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.02, C:0.32, G:0.23, T:0.43
Consensus pattern (14 bp):
CCTTTCTGGGTTCT
Found at i:455257 original size:184 final size:185
Alignment explanation
Indices: 455022--455392 Score: 584
Period size: 184 Copynumber: 2.0 Consensus size: 185
455012 ATTAAATTTT
* *
455022 AAATTTTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACTCAATGAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACCCAATGAATAA
* *
455087 TTTAAGATCTAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
66 TTTAAGATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* *
455152 TTATTTTATAATTATATGTTATTTAAATTAATTGTAAACTATTTTTT-AATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTGAATTAAA
** * *
455206 AAATATTAAATATATTATATATAACATATG-GACTCAGTCCAAACTATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAACATATGAG-CTCAACCCAAACCATTTAAAACCCAATGAATA
* * *
455270 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATCTGAAATT
65 ATTTAAGATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATT
* *
455335 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAGTTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTGAATTAAA
455391 AA
1 AA
455393 CATTTAATTT
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
183 1 0.01
184 161 0.95
185 8 0.05
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACCCAATGAATAA
TTTAAGATCCAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTGAATTAAA
Found at i:455881 original size:2 final size:2
Alignment explanation
Indices: 455810--455866 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
455800 TTTAATTCTG
455810 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
455851 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
455867 AAAGAATCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:461855 original size:2 final size:2
Alignment explanation
Indices: 461848--461889 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
461838 AATAATATGC
461848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
461890 TACAAACCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:464063 original size:12 final size:11
Alignment explanation
Indices: 464034--464076 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
464024 TGAAATCACC
464034 ATTTT-TTATTT
1 ATTTTATTA-TT
464045 ATTTTATTATT
1 ATTTTATTATT
464056 ATTGTTATTATT
1 ATT-TTATTATT
*
464068 ATTATATTA
1 ATTTTATTA
464077 CAAAATACGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 15 0.52
12 14 0.48
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:465373 original size:32 final size:31
Alignment explanation
Indices: 465337--465401 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 31
465327 TAATCTAAAA
*
465337 TTTATTTATTTAATTACAATTTTGTCCTTGAT
1 TTTATTTATTTAATTACAATTTTATCCTT-AT
*
465369 TTTATTTATTTAATTCCAATTTTATCCTTAT
1 TTTATTTATTTAATTACAATTTTATCCTTAT
465400 TT
1 TT
465402 AAAATTAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTATTTATTTAATTACAATTTTATCCTTAT
Found at i:465875 original size:29 final size:29
Alignment explanation
Indices: 465833--465928 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
465823 CTAGGATTAC
* * *
465833 ATTTTTATACTTAGGTCCCTAGATTTTAG
1 ATTTTTACACTTAGGTCCCTACACTTTAG
*
465862 ATTTTTACAGTTAGG-CCCTTACACTTTAG
1 ATTTTTACACTTAGGTCCC-TACACTTTAG
* *
465891 ATCTTTTACACTTTA-GTCCATATACTTTAG
1 AT-TTTTACAC-TTAGGTCCCTACACTTTAG
465921 ATTTTTAC
1 ATTTTTAC
465929 CATCTTAGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
28 3 0.05
29 29 0.52
30 19 0.34
31 5 0.09
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.47
Consensus pattern (29 bp):
ATTTTTACACTTAGGTCCCTACACTTTAG
Found at i:465918 original size:30 final size:30
Alignment explanation
Indices: 465884--465941 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
465874 AGGCCCTTAC
465884 ACTTTAGATCTTTTA-CA-CTTTAGTCCATAT
1 ACTTTAGAT-TTTTACCATC-TTAGTCCATAT
465914 ACTTTAGATTTTTACCATCTTAGTCCAT
1 ACTTTAGATTTTTACCATCTTAGTCCAT
465942 TAATTAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 5 0.19
30 20 0.77
31 1 0.04
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.47
Consensus pattern (30 bp):
ACTTTAGATTTTTACCATCTTAGTCCATAT
Found at i:470404 original size:32 final size:31
Alignment explanation
Indices: 470347--470408 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
470337 TATGAAATTG
470347 ATTTATTTAATTACAATTTAGTCCTTGATTTT
1 ATTTATTTAATTACAATTTAGTCCTT-ATTTT
* *
470379 ATTTATTTTATTTCAATTTTA-TCCTTATTT
1 ATTTATTTAATTACAA-TTTAGTCCTTATTT
470409 AAAATTAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 4 0.15
32 19 0.70
33 4 0.15
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.61
Consensus pattern (31 bp):
ATTTATTTAATTACAATTTAGTCCTTATTTT
Found at i:470901 original size:29 final size:29
Alignment explanation
Indices: 470866--470965 Score: 141
Period size: 29 Copynumber: 3.4 Consensus size: 29
470856 CCCTATAGGA
*
470866 TTAGATTTTTACACTTAGGTCCCTATACT
1 TTAGATTTTTACACTTAGGTCCCTAGACT
*
470895 TTAGATTTTGACACTTAGG-CCCTTAGACT
1 TTAGATTTTTACACTTAGGTCCC-TAGACT
470924 TTAGATCTTTTACACTTTA-GTCCCTAGACT
1 TTAGAT-TTTTACAC-TTAGGTCCCTAGACT
470954 TTAGATTTTTAC
1 TTAGATTTTTAC
470966 CATCTTAATC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
28 3 0.05
29 35 0.55
30 20 0.31
31 6 0.09
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (29 bp):
TTAGATTTTTACACTTAGGTCCCTAGACT
Found at i:475116 original size:18 final size:18
Alignment explanation
Indices: 475093--475127 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
475083 AAATGAAGGT
*
475093 TTTCAAAGTTTGGGTTTA
1 TTTCAAAATTTGGGTTTA
*
475111 TTTCAAAATTTGTGTTT
1 TTTCAAAATTTGGGTTT
475128 TCTTTTTAAA
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:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (18 bp):
TTTCAAAATTTGGGTTTA
Found at i:475466 original size:30 final size:30
Alignment explanation
Indices: 475398--475471 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
475388 TTTTAGAAAA
* * *
475398 TCCTTAAACTTTAATTTGTATTCAAATAAG
1 TCCTTAAACTTTAATTTGCACTCAAACAAG
*
475428 -CCTATAAACTTTAGTTTGCAC-CTAAACAAG
1 TCCT-TAAACTTTAATTTGCACTC-AAACAAG
475458 TCCTTAAACTTTAA
1 TCCTTAAACTTTAA
475472 CTTATGCATC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
29 4 0.11
30 29 0.81
31 3 0.08
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (30 bp):
TCCTTAAACTTTAATTTGCACTCAAACAAG
Found at i:487449 original size:182 final size:182
Alignment explanation
Indices: 487134--488337 Score: 1709
Period size: 182 Copynumber: 6.6 Consensus size: 182
487124 CGAGCTGATA
* * * * * *** *
487134 GACACTTTCAATATATCCGGTAGCGCTTTATCGATTTTGT-TATTTAAAGACCGGTTTTATCATA
1 GACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCT-TTTCCTGACCGGTTTTGTCATA
* * * * * *
487198 TTTTTACCCGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTAAAGGTGCT
65 TTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCT
* * * *
487263 AAAACAACTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAATTATC
130 AAAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
* * * * * ** *
487316 GGCACTTTCAATGTATCCGGTAGCTCTTTACCAGTTTTGTCTTTTCAAGACCGGTTTTATCATAT
1 GACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATAT
*
487381 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCACTA
66 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTA
**
487446 AAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
131 AAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
* *
487498 GACACTTGCAATATATCCAGTATCTCTTTACCGGTTTTGTCTTTTCCTAACCGGTTTTGTCATAT
1 GACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATAT
* *
487563 TTTTACATGTTATATCGTTGTGGATCGAT--ATATTTATAAAGAATCGACACTTTCTAGGCGCTA
66 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTA
*
487626 AAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
131 AAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
* * *
487678 GACACTTGCAATATATCCAGTATCTCTTTACCGGTTTTATCTTTTCCTGACTGGTTTTGTCATAT
1 GACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATAT
* * * *
487743 TTTTACCTGTTATATCGTTGTGGGTCGATACATATTTATAAAGAATCAACACTTTCTAGGAGCTA
66 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTA
* *
487808 AAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATC
131 AAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
** *
487860 GACACTTGCAATATATATGGTATCTCTTTACCGGTTTTATCTTTTCCTGACCGGTTTTGTCATAT
1 GACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATAT
*
487925 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGTTA
66 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTA
* * *
487990 AAACTGA-TTCTCCTTTAAATTCACAATGTGTTGGTACTTATATTAAACTATC
131 AAACT-ACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
*
488042 GACACTTGCAATATATCCGGTATCTCTTTACCGG--TTGTCTTTTCCTGACCGGTTTTGTCATGT
1 GACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATAT
*
488105 TTTTACCTGTTATATCGTTGAGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTA
66 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTA
* * *
488170 AAACTATTTCACCTTTAAATTCACTATGTGTCGATACTTATATTAAAGTATC
131 AAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
* * * * ** * * *
488222 GACACGTGCAATATATTCGGTAGCGCTTTATTGGTCTTGTCTTTTCGTGATCGGTTTTGTCATAT
1 GACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATAT
* * * * * *
488287 TTTTTCCTGTTATATTGATGTGGATTGATACATTTTTATAAAGTATCGACA
66 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACA
488338 TAAACCGACA
Statistics
Matches: 932, Mismatches: 83, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
179 1 0.00
180 335 0.36
182 595 0.64
183 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (182 bp):
GACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCATAT
TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTA
AAACTACTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
Found at i:487811 original size:362 final size:363
Alignment explanation
Indices: 487182--488337 Score: 1699
Period size: 362 Copynumber: 3.2 Consensus size: 363
487172 GTTATTTAAA
* * * * *
487182 GACCGGTTTTATCATATTTTTACCCGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCG
1 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATA-ATATTTATAAAGAATCG
* * ** * * *
487247 ACACTTTAAAGGTGCTAAAACAACTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAT
65 ACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAC
* * * * * ** *
487312 TATCGGCACTTTCAATGTATCCGGTAGCTCTTTACCAGTTTTGTCTTTTCAAGACCGGTTTTATC
130 TATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTC
487377 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGC
195 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGG-
487442 A-CTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTG
259 AGCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTG
* *
487506 CAATATATCCAGTATCTCTTTACCGGTTTTGTCTTTTCCT
324 CAATATATACGGTATCTCTTTACCGGTTTTGTCTTTTCCT
* *
487546 AACCGGTTTTGTCATATTTTTACATGTTATATCGTTGTGGATCGAT-ATATTTATAAAGAATCGA
1 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATAATATTTATAAAGAATCGA
* *
487610 CACTTTCTAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGT
66 CACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAACT
* * *
487675 ATCGACACTTGCAATATATCCAGTATCTCTTTACCGGTTTTATCTTTTCCTGACTGGTTTTGTCA
131 ATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCA
* * *
487740 TATTTTTACCTGTTATATCGTTGTGGGTCGATACATATTTATAAAGAATCAACACTTTCTAGGAG
196 TATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGAG
* *
487805 CTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCGACACTTGCA
261 CTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCA
* *
487870 ATATATATGGTATCTCTTTACCGGTTTTATCTTTTCCT
326 ATATATACGGTATCTCTTTACCGGTTTTGTCTTTTCCT
487908 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCG
1 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATA-ATATTTATAAAGAATCG
* * * *
487973 ACACTTTATAGGCGTTAAAACTGATTCTCCTTTAAATTCACAATGTGTTGGTACTTATATTAAAC
65 ACACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAC
488038 TATCGACACTTGCAATATATCCGGTATCTCTTTACCGG--TTGTCTTTTCCTGACCGGTTTTGTC
130 TATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTC
* * *
488101 ATGTTTTTACCTGTTATATCGTTGAGGATCGATACATATTTATAAAGAATCGACACTTTATAGGC
195 ATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGA
* * * *
488166 GCTAAAACTATTTCACCTTTAAATTCACTATGTGTCGATACTTATATTAAAGTATCGACACGTGC
260 GCTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGC
* * * ** * *
488231 AATATATTCGGTAGCGCTTTATTGGTCTTGTCTTTTCGT
325 AATATATACGGTATCTCTTTACCGGTTTTGTCTTTTCCT
* * * * * * *
488270 GATCGGTTTTGTCATATTTTTTCCTGTTATATTGATGTGGATTGATACATTTTTATAAAGTATCG
1 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATA-ATATTTATAAAGAATCG
488335 ACA
65 ACA
488338 TAAACCGACA
Statistics
Matches: 715, Mismatches: 74, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
361 1 0.00
362 560 0.78
364 154 0.22
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (363 bp):
GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATAATATTTATAAAGAATCGA
CACTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAACT
ATCGACACTTGCAATATATCCGGTATCTCTTTACCGGTTTTGTCTTTTCCTGACCGGTTTTGTCA
TATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGAG
CTAAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCA
ATATATACGGTATCTCTTTACCGGTTTTGTCTTTTCCT
Found at i:488167 original size:544 final size:543
Alignment explanation
Indices: 487185--488329 Score: 1745
Period size: 544 Copynumber: 2.1 Consensus size: 543
487175 ATTTAAAGAC
* * * * *
487185 CGGTTTTATCATATTTTTACCCGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACA
1 CGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGAATCAACA
* * *
487250 CTTTAAAGGTGCTAAAACAACTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAATTAT
66 CTTTAAAGGAGCTAAAACAACTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTAT
* * * * *
487315 CGGCACTTTCAATGTATCCGGTAGCTCTTTACCAGTTTTGTCTTTTCAAGACCGGTTTTATCATA
131 CGACACTTGCAATATATACGGTAGCTCTTTACCAGTTTTATCTTTTCAAGACCGGTTTTATCATA
487380 TTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCACT
196 TTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCACT
* *
487445 AAAACTGTTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
261 AAAACTGATTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAACTATCGACACTTGCAAT
487510 ATATCCAGTATCTCTTTACCGGTTTTGTCTTTTCCTAACCGGTTTTGTCATATTTTTACATGTTA
326 ATATCCAGTATCTCTTTACCGG-TTTGTCTTTTCCTAACCGGTTTTGTCATATTTTTACATGTTA
* * * *
487575 TATCGTTGTGGATCGATATATTTATAAAGAATCGACACTTTCTAGGCGCTAAAACTGCTTCTCCT
390 TATCGTTGAGGATCGATATATTTATAAAGAATCGACACTTTATAGGCGCTAAAACTACTTCACCT
* * *
487640 TTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAATATATCCAGTATCTCT
455 TTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACGTGCAATATATCCAGTAGCGCT
*
487705 TTACCGGTTTTATCTTTTCCTGA-
520 TTACCGGTCTTATCTTTTCCTGAT
* *
487728 CTGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGGTCGATACATATTTATAAAGAATCAAC
1 C-GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGAATCAAC
** **
487793 ACTTTCTAGGAGCTAAAACTGCTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTA
65 ACTTTAAAGGAGCTAAAACAACTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTA
* * * ** *
487858 TCGACACTTGCAATATATATGGTATCTCTTTACCGGTTTTATCTTTTCCTGACCGGTTTTGTCAT
130 TCGACACTTGCAATATATACGGTAGCTCTTTACCAGTTTTATCTTTTCAAGACCGGTTTTATCAT
**
487923 ATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGT
195 ATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCAC
* *
487988 TAAAACTGATTCTCCTTTAAATTCACAATGTGTTGGTACTTATATTAAACTATCGACACTTGCAA
260 TAAAACTGATTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAACTATCGACACTTGCAA
* * * *
488053 TATATCCGGTATCTCTTTACCGG-TTGTCTTTTCCTGACCGGTTTTGTCATGTTTTTACCTGTTA
325 TATATCCAGTATCTCTTTACCGGTTTGTCTTTTCCTAACCGGTTTTGTCATATTTTTACATGTTA
*
488117 TATCGTTGAGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTAAAACTATTTCAC
390 TATCGTTGAGGATCGAT--ATATTTATAAAGAATCGACACTTTATAGGCGCTAAAACTACTTCAC
* * *
488182 CTTTAAATTCACTATGTGTCGATACTTATATTAAAGTATCGACACGTGCAATATATTCGGTAGCG
453 CTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACGTGCAATATATCCAGTAGCG
** * *
488247 CTTTATTGGTCTTGTCTTTTCGTGAT
518 CTTTACCGGTCTTATCTTTTCCTGAT
* * * *
488273 CGGTTTTGTCATATTTTTTCCTGTTATATTGATGTGGATTGATACATTTTTATAAAG
1 CGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAG
488330 TATCGACATA
Statistics
Matches: 541, Mismatches: 57, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
542 54 0.10
543 1 0.00
544 485 0.90
545 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (543 bp):
CGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGAATCAACA
CTTTAAAGGAGCTAAAACAACTTCTCCTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTAT
CGACACTTGCAATATATACGGTAGCTCTTTACCAGTTTTATCTTTTCAAGACCGGTTTTATCATA
TTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCACT
AAAACTGATTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAACTATCGACACTTGCAAT
ATATCCAGTATCTCTTTACCGGTTTGTCTTTTCCTAACCGGTTTTGTCATATTTTTACATGTTAT
ATCGTTGAGGATCGATATATTTATAAAGAATCGACACTTTATAGGCGCTAAAACTACTTCACCTT
TAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACGTGCAATATATCCAGTAGCGCTT
TACCGGTCTTATCTTTTCCTGAT
Found at i:490196 original size:18 final size:18
Alignment explanation
Indices: 490166--490200 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
490156 GTCAAATTTG
490166 AATATTAACAAAAAACAT
1 AATATTAACAAAAAACAT
490184 AATATGTAA-AAAAAACA
1 AATAT-TAACAAAAAACA
490201 GGACTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (18 bp):
AATATTAACAAAAAACAT
Found at i:491397 original size:3 final size:3
Alignment explanation
Indices: 491391--491431 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
491381 TAATAAGCAG
491391 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
491432 TTTTTTGACC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:499005 original size:3 final size:3
Alignment explanation
Indices: 498997--499041 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
498987 TAATGTAATG
498997 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
499042 ATATAATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:503974 original size:15 final size:15
Alignment explanation
Indices: 503949--503984 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
503939 ACAATCATCA
503949 TCATC-AATTTTCAT
1 TCATCTAATTTTCAT
503963 TCATCTAATTTTCAT
1 TCATCTAATTTTCAT
503978 TCATCTA
1 TCATCTA
503985 CTGATAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (15 bp):
TCATCTAATTTTCAT
Found at i:507327 original size:2 final size:2
Alignment explanation
Indices: 507320--507368 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
507310 ATAACTAAAG
507320 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
507362 TA TA TA T
1 TA TA TA T
507369 TGTTTTTATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:507647 original size:14 final size:14
Alignment explanation
Indices: 507630--507668 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
507620 AAAAAATAGA
507630 AAATTAAAGTAA-TG
1 AAATTAAA-TAACTG
*
507644 AAATTAAATAACTT
1 AAATTAAATAACTG
507658 AAATTAAATAA
1 AAATTAAATAA
507669 ATAAAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (14 bp):
AAATTAAATAACTG
Found at i:507727 original size:33 final size:33
Alignment explanation
Indices: 507689--507753 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
507679 AATAGCATAA
*
507689 ATTAAAATATAAAGTAAAGGACTAAAATAAAAT
1 ATTAAAATATAAAGTAAAGAACTAAAATAAAAT
507722 ATTAAAATATAAAGTAAAGAACTAAAATAAAA
1 ATTAAAATATAAAGTAAAGAACTAAAATAAAA
507754 GATATCAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.23
Consensus pattern (33 bp):
ATTAAAATATAAAGTAAAGAACTAAAATAAAAT
Found at i:509819 original size:20 final size:20
Alignment explanation
Indices: 509759--509821 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
509749 AAGGCTTATA
509759 GATGACCCGAAGGATTTAAGCAT
1 GATGACCCGAAGGATTT-A-C-T
* * * *
509782 CATG-CACGAAAGACTTACT
1 GATGACCCGAAGGATTTACT
509801 GATGACCCGAAGGATTTACT
1 GATGACCCGAAGGATTTACT
509821 G
1 G
509822 TAATCTCAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
19 4 0.13
20 14 0.45
21 1 0.03
22 9 0.29
23 3 0.10
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (20 bp):
GATGACCCGAAGGATTTACT
Found at i:518353 original size:3 final size:3
Alignment explanation
Indices: 518336--518378 Score: 68
Period size: 3 Copynumber: 13.7 Consensus size: 3
518326 CATCTATTTC
518336 CAT CAT CCAT CCAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT -CAT -CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
518379 AGTCACCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.82
4 7 0.18
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:518627 original size:16 final size:16
Alignment explanation
Indices: 518596--518628 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
518586 GTTTTTCATC
518596 AGAAAGAAAAGAAAAA
1 AGAAAGAAAAGAAAAA
518612 AGAAA-AAAAGAGAAAA
1 AGAAAGAAAAGA-AAAA
518628 A
1 A
518629 ACTAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAAGAAAAA
Found at i:518627 original size:17 final size:16
Alignment explanation
Indices: 518596--518651 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
518586 GTTTTTCATC
*
518596 AGAAAGAAAAGAAAAA
1 AGAAAAAAAAGAAAAA
518612 AGAAAAAAAGAGAAAAA
1 AGAAAAAAA-AGAAAAA
*
518629 ACTAAAAATTAAA-AAAAA
1 A-GAAAAA--AAAGAAAAA
518647 AGAAA
1 AGAAA
518652 TTGTAAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 8 0.24
17 11 0.33
18 11 0.33
19 1 0.03
20 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (16 bp):
AGAAAAAAAAGAAAAA
Found at i:540638 original size:2 final size:2
Alignment explanation
Indices: 540624--540671 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
540614 ACCATGTAAA
*
540624 AC AC AC A- AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
540665 AC AC AC A
1 AC AC AC A
540672 TATATAGTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:547088 original size:20 final size:20
Alignment explanation
Indices: 547062--547113 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
547052 TTTATAATCC
*
547062 TAGTATCGATATC-ACCCTG
1 TAGTATCGATACCAACCCTG
547081 TGAGTATCGATACCAACCCTG
1 T-AGTATCGATACCAACCCTG
547102 TAGTATCGATAC
1 TAGTATCGATAC
547114 TCCTCTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.03
20 22 0.73
21 7 0.23
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (20 bp):
TAGTATCGATACCAACCCTG
Found at i:549731 original size:18 final size:18
Alignment explanation
Indices: 549708--549742 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
549698 AAGATAAAAG
549708 GAGAAAGAAATATGGAAT
1 GAGAAAGAAATATGGAAT
549726 GAGAAAGAAATATGGAA
1 GAGAAAGAAATATGGAA
549743 GCTTTAGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (18 bp):
GAGAAAGAAATATGGAAT
Found at i:551852 original size:46 final size:46
Alignment explanation
Indices: 551798--551894 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
551788 AAGTGCAACA
* *
551798 TAGAAATGTCCTGAA-GTACCAAATAGTATTATCCCGAAAGATCACG
1 TAGAAATGTCCCGAATG-ACCAAATAGAATTATCCCGAAAGATCACG
* * * *
551844 TAGAAATGTCCCGAATGACCAAGTAGAATTGTCCCGAATGATCGCG
1 TAGAAATGTCCCGAATGACCAAATAGAATTATCCCGAAAGATCACG
551890 TAGAA
1 TAGAA
551895 CCCTCAACTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
46 43 0.98
47 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (46 bp):
TAGAAATGTCCCGAATGACCAAATAGAATTATCCCGAAAGATCACG
Found at i:551869 original size:23 final size:23
Alignment explanation
Indices: 551798--551884 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 23
551788 AAGTGCAACA
* *
551798 TAGAAATGTCCTGAA-GTACCAAA
1 TAGAAATGTCCCGAATG-ACCAAG
* * * * * *
551821 TAGTATTATCCCGAAAGATCACG
1 TAGAAATGTCCCGAATGACCAAG
551844 TAGAAATGTCCCGAATGACCAAG
1 TAGAAATGTCCCGAATGACCAAG
*
551867 TAGAATTGTCCCGAATGA
1 TAGAAATGTCCCGAATGA
551885 TCGCGTAGAA
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 48 0.98
24 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (23 bp):
TAGAAATGTCCCGAATGACCAAG
Found at i:551892 original size:23 final size:23
Alignment explanation
Indices: 551829--551894 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
551819 AATAGTATTA
*
551829 TCCCGAAAGATCACGTAGAAATG
1 TCCCGAATGATCACGTAGAAATG
* * *
551852 TCCCGAATGACCAAGTAGAATTG
1 TCCCGAATGATCACGTAGAAATG
*
551875 TCCCGAATGATCGCGTAGAA
1 TCCCGAATGATCACGTAGAA
551895 CCCTCAACTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (23 bp):
TCCCGAATGATCACGTAGAAATG
Found at i:552001 original size:14 final size:14
Alignment explanation
Indices: 551982--552133 Score: 55
Period size: 14 Copynumber: 10.4 Consensus size: 14
551972 ACATAGTTCA
551982 ATATCACATAGCTT
1 ATATCACATAGCTT
551996 ATATCACAT-G-TT
1 ATATCACATAGCTT
* * *
552008 CACATAATCATATAGATC
1 ---AT-ATCACATAGCTT
*
552026 ATATCATATAGCTT
1 ATATCACATAGCTT
552040 ATATCACAT-G-TT
1 ATATCACATAGCTT
* *
552052 CACATAATCACATAGATC
1 ---AT-ATCACATAGCTT
* *
552070 ATATCATATAACTT
1 ATATCACATAGCTT
552084 ATATCACAT-G-TT
1 ATATCACATAGCTT
* *
552096 CACATAATCACATAGATC
1 ---AT-ATCACATAGCTT
*
552114 ATATCATATAGCTT
1 ATATCACATAGCTT
552128 ATATCA
1 ATATCA
552134 TTTTCATTTG
Statistics
Matches: 104, Mismatches: 16, Indels: 36
0.67 0.10 0.23
Matches are distributed among these distances:
12 6 0.06
13 2 0.02
14 58 0.56
15 12 0.12
16 20 0.19
17 3 0.03
18 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (14 bp):
ATATCACATAGCTT
Found at i:552010 original size:22 final size:22
Alignment explanation
Indices: 551985--552057 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
551975 TAGTTCAATA
551985 TCACATAGCTTATATCACATGT
1 TCACATAGCTTATATCACATGT
* * * *
552007 TCACATA-ATCATATAGATCAT-A
1 TCACATAGCTTATAT-CA-CATGT
*
552029 TCATATAGCTTATATCACATGT
1 TCACATAGCTTATATCACATGT
552051 TCACATA
1 TCACATA
552058 ATCACATAGA
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
21 8 0.22
22 21 0.57
23 8 0.22
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.36
Consensus pattern (22 bp):
TCACATAGCTTATATCACATGT
Found at i:552030 original size:44 final size:44
Alignment explanation
Indices: 551970--552133 Score: 283
Period size: 44 Copynumber: 3.7 Consensus size: 44
551960 TTTACACATT
* *
551970 TCACATAGTTCAATATCACATAGCTTATATCACATGTTCACATAA
1 TCACATAGATC-ATATCATATAGCTTATATCACATGTTCACATAA
*
552015 TCATATAGATCATATCATATAGCTTATATCACATGTTCACATAA
1 TCACATAGATCATATCATATAGCTTATATCACATGTTCACATAA
*
552059 TCACATAGATCATATCATATAACTTATATCACATGTTCACATAA
1 TCACATAGATCATATCATATAGCTTATATCACATGTTCACATAA
552103 TCACATAGATCATATCATATAGCTTATATCA
1 TCACATAGATCATATCATATAGCTTATATCA
552134 TTTTCATTTG
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 104 0.92
45 9 0.08
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (44 bp):
TCACATAGATCATATCATATAGCTTATATCACATGTTCACATAA
Found at i:575991 original size:37 final size:35
Alignment explanation
Indices: 575950--576226 Score: 140
Period size: 37 Copynumber: 7.9 Consensus size: 35
575940 CTTTTTTCTC
*
575950 AAAACATTTTTGACAAAGTATAATATATAGTTTTCAG
1 AAAACATTTTT-ACAAAATATAATATATAGTTTTC-G
* * *
575987 AAAACGGTTTTT-CAAAATATATATTGTATAATTTT-G
1 AAAAC-ATTTTTACAAAATATA-A-TATATAGTTTTCG
*
576023 AAAACATTTTTAAAAAATTATATAATATATAG-TTTCG
1 AAAACATTTTT-ACAAA--ATATAATATATAGTTTTCG
* *
576060 AAAACA--TTT-----ATATATTATATAGTTTT-T
1 AAAACATTTTTACAAAATATAATATATAGTTTTCG
* * *
576087 AAAAGTCATTTTGAAAATATATATAATATATAGTTTT-T
1 AAAA--CATTTTTACAA-A-ATATAATATATAGTTTTCG
*
576125 AAAACATTTTGA-AAATTATATATAGTATATAGTTTT-G
1 AAAACATTTTTACAAA--ATATA-A-TATATAGTTTTCG
* * *
576162 AAAACGTTTTGA-AAATTATAATATATAGTTTT-G
1 AAAACATTTTTACAAAATATAATATATAGTTTTCG
*
576195 AAAACA-TTTTA-AAAATTATAATATATAATTTT
1 AAAACATTTTTACAAAA-TATAATATATAGTTTT
576227 TAAAAAATAT
Statistics
Matches: 197, Mismatches: 19, Indels: 52
0.74 0.07 0.19
Matches are distributed among these distances:
27 16 0.08
28 3 0.02
29 2 0.01
31 2 0.01
32 7 0.04
33 32 0.16
34 2 0.01
35 20 0.10
36 26 0.13
37 46 0.23
38 36 0.18
39 5 0.03
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.43
Consensus pattern (35 bp):
AAAACATTTTTACAAAATATAATATATAGTTTTCG
Found at i:576090 original size:27 final size:26
Alignment explanation
Indices: 576029--576090 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
576019 TTTGAAAACA
576029 TTTTTAAAAAATTATATAATATATAG
1 TTTTTAAAAAATTATATAATATATAG
** * *
576055 TTTCGAAAACATTTATATATTATATAG
1 TTTTTAAAA-AATTATATAATATATAG
576082 TTTTTAAAA
1 TTTTTAAAA
576091 GTCATTTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (26 bp):
TTTTTAAAAAATTATATAATATATAG
Found at i:576118 original size:38 final size:36
Alignment explanation
Indices: 576068--576349 Score: 229
Period size: 33 Copynumber: 7.6 Consensus size: 36
576058 CGAAAACATT
*
576068 TATATATTATATAGTTTTTAAAAGTCATTTTGAAAATA
1 TATATAATATATAGTTTTTAAAA--CATTTTGAAAATA
576106 TATATAATATATAGTTTTTAAAACATTTTGAAAATTA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAA-TA
* * *
576143 TATATAGTATATAGTTTTGAAAACGTTTTG-AAA-A
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATA
*
576177 T-TATAATATATAGTTTTGAAAACATTTT-AAAA-A
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATA
* * **
576210 T-TATAATATATAATTTTTAAAAAATATTTTTGAAGTTA
1 TATATAATATATAGTTTTT--AAAACA-TTTTGAAAATA
* * *
576248 TATATATTGTATATGTTTTTAAAAACGTTTCTGAAAATA
1 TATATAATATATA-GTTTTT-AAAACATTT-TGAAAATA
** *
576287 CGTATAATATATAGTTTTAAAAAAAAGCATTTTGAAAAGT-
1 TATATAATATATAGTTTT---TAAAA-CATTTTGAAAA-TA
*
576327 TATATATTATAT-GTTTTTGAAAA
1 TATATAATATATAGTTTTT-AAAA
576350 AAAATTATAT
Statistics
Matches: 200, Mismatches: 28, Indels: 33
0.77 0.11 0.13
Matches are distributed among these distances:
33 45 0.22
34 2 0.01
35 5 0.03
36 18 0.09
37 35 0.17
38 32 0.16
39 34 0.17
40 24 0.12
41 5 0.03
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAATA
Found at i:576118 original size:65 final size:64
Alignment explanation
Indices: 576004--576203 Score: 176
Period size: 65 Copynumber: 3.0 Consensus size: 64
575994 TTTTTCAAAA
* *
576004 TATATATTGTATAATTTTGAAAACATTTTTAAAAAATTATATAATATATAGTTTCGAAAACATT
1 TATATATTATATAATTTTGAAAACATTTTGAAAAAATTATATAATATATAGTTTCGAAAACATT
* * * **
576068 TATATATTATATAGTTTTTAAAAGTCATTTTGAAAATA-TATATAATATATAGTTTTTAAAACAT
1 TATATATTATATAATTTTGAAAA--CATTTTGAAAAAATTATATAATATATAGTTTCGAAAACA-
576132 TT
63 TT
* *
576134 TGAAAATTATATATAGTATATAGTTTTGAAAACGTTTTG--AAAA-T-TATAATATATAGTTTTG
1 T----A-TATAT-TA-TATA-A-TTTTGAAAACATTTTGAAAAAATTATATAATATATAGTTTCG
576195 AAAACATT
57 AAAACATT
576203 T
1 T
576204 TAAAAATTAT
Statistics
Matches: 112, Mismatches: 12, Indels: 19
0.78 0.08 0.13
Matches are distributed among these distances:
64 20 0.18
65 23 0.21
66 14 0.12
69 3 0.03
70 23 0.21
71 9 0.08
72 2 0.02
73 10 0.09
75 8 0.07
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (64 bp):
TATATATTATATAATTTTGAAAACATTTTGAAAAAATTATATAATATATAGTTTCGAAAACATT
Found at i:576129 original size:102 final size:102
Alignment explanation
Indices: 575968--576231 Score: 267
Period size: 102 Copynumber: 2.5 Consensus size: 102
575958 TTTGACAAAG
* * *
575968 TATAATATATAGTTTTCAGAAAACGGTTTTTCAAAATATATAT--TGTATAATTTTGAAAACATT
1 TATAATATATAGTTTT--GAAAAC--ATTTT-AAAATATATATAATATATAATTTTTAAAACA-T
576031 TTTAAAAAATTATATA-A-TATATAGTTTCGAAAAC-ATTT-A-
60 TTT-AAAAATTATATATAGTATATAGTTTCGAAAACGATTTAAT
* * *
576070 TATATTATATAGTTTTTAAAAGTCATTTTGAAAATATATATAATATATAGTTTTTAAAACATTTT
1 TATAATATATAGTTTTGAAAA--CATTTT-AAAATATATATAATATATAATTTTTAAAACATTTT
* * *
576135 GAAAATTATATATAGTATATAGTTTTGAAAACGTTTTGAAAAT
63 AAAAATTATATATAGTATATAGTTTCGAAAACGATTT---AAT
576178 TATAATATATAGTTTTGAAAACATTTTAAAA-AT-TATAATATATAATTTTTAAAA
1 TATAATATATAGTTTTGAAAACATTTTAAAATATATATAATATATAATTTTTAAAA
576232 AATATTTTTG
Statistics
Matches: 137, Mismatches: 13, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
100 30 0.22
101 5 0.04
102 47 0.34
103 23 0.17
104 2 0.01
105 4 0.03
106 6 0.04
107 1 0.01
108 19 0.14
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.44
Consensus pattern (102 bp):
TATAATATATAGTTTTGAAAACATTTTAAAATATATATAATATATAATTTTTAAAACATTTTAAA
AATTATATATAGTATATAGTTTCGAAAACGATTTAAT
Found at i:576305 original size:37 final size:36
Alignment explanation
Indices: 576068--576343 Score: 217
Period size: 37 Copynumber: 7.5 Consensus size: 36
576058 CGAAAACATT
* *
576068 TATATATTATATAGTTTTTAAAAGTCATTTTGAAAATA
1 TATATAATATATAG-TTTTAAAA-ACATTTTGAAAATA
*
576106 TATATAATATATAGTTTTTAAAACATTTTGAAAATTA
1 TATATAATATATAGTTTTAAAAACATTTTGAAAA-TA
* * *
576143 TATATAGTATATAGTTTTGAAAACGTTTTG-AAA-A
1 TATATAATATATAGTTTTAAAAACATTTTGAAAATA
*
576177 T-TATAATATATAGTTTTGAAAACATTTT-AAAA-A
1 TATATAATATATAGTTTTAAAAACATTTTGAAAATA
* * **
576210 T-TATAATATATAATTTTTAAAAAATATTTTTGAAGTTA
1 TATATAATATAT-AGTTTT-AAAAACA-TTTTGAAAATA
* * *
576248 TATATATTGTATATGTTTTTAAAAACGTTTCTGAAAATA
1 TATATAATATATA-G-TTTTAAAAACATTT-TGAAAATA
**
576287 CGTATAATATATAGTTTTAAAAAAAAGCATTTTGAAAAGT-
1 TATATAATATATAGTTTT---AAAAA-CATTTTGAAAA-TA
*
576327 TATATATTATAT-GTTTT
1 TATATAATATATAGTTTT
576344 TGAAAAAAAA
Statistics
Matches: 194, Mismatches: 28, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
33 40 0.21
34 7 0.04
35 5 0.03
36 18 0.09
37 42 0.22
38 20 0.10
39 33 0.17
40 24 0.12
41 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (36 bp):
TATATAATATATAGTTTTAAAAACATTTTGAAAATA
Found at i:576368 original size:3 final size:3
Alignment explanation
Indices: 576362--576395 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
576352 AATTATATAG
*
576362 ATT ATT ATT ATTT ATT ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
576396 TTTTTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:577693 original size:13 final size:13
Alignment explanation
Indices: 577675--577704 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
577665 CGAACCGAAT
577675 TTTTAAATTTCAA
1 TTTTAAATTTCAA
*
577688 TTTTAAATTTTAA
1 TTTTAAATTTCAA
577701 TTTT
1 TTTT
577705 CGCAATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAAATTTCAA
Found at i:579338 original size:19 final size:19
Alignment explanation
Indices: 579304--579348 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
579294 ATTTAGACAT
579304 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
579322 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
579341 TTTGCATT
1 TTTGCATT
579349 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:582761 original size:38 final size:38
Alignment explanation
Indices: 582706--582781 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
582696 TTAAAACAAA
*
582706 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG
1 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTG
* * *
582744 TCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTG
1 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTG
582782 CCAACAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (38 bp):
TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTG
Found at i:582856 original size:84 final size:83
Alignment explanation
Indices: 582744--583283 Score: 515
Period size: 84 Copynumber: 6.5 Consensus size: 83
582734 GGGTTATCTG
* * *
582744 TCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGTATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
582809 CGCTCAGCTCAACGGCACA
66 CGCTCAGCTCAA-GGCACA
* * * * ** *
582828 TCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTA
1 TCATTTGCAGTATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
582889 CACTCAGCTGCGAGGGCACA
66 CGCTCAGCT-C-AAGGCACA
* * * * ** * *
582909 TCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTA
1 TCATTTGCAGTATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
*
582974 CGCTCAGCTCCAAGGCATA
66 CGCTCAGCT-CAAGGCACA
* * * *
582993 TCATTTGCAGTACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAA-ACCTTTGAGATCGAC
1 TCATTTGCAGTATAACTT-AAGTCTAGAAGGGTTATCTGCCAA-CAAAAGACCTTCGAGTTCGAC
583056 TACGCTCAGCTCAACGGCACA
64 TACGCTCAGCTCAA-GGCACA
* * * ** *
583077 TCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTA
1 TCATTTGCAGTATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
583138 CACTCAGCTTCGAGGGCACA
66 CGCTCAGC-TC-AAGGCACA
* * * * ** *
583158 TCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAGTATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
* *
583223 CGCTCATCTCTAAGGCGCA
66 CGCTCAGCTC-AAGGCACA
* * *
583242 TCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
1 TCATTTGCAGTATAACTTAAGTCTAGAAGGGTTATCTGCCAA
583284 AGATCCTCGA
Statistics
Matches: 359, Mismatches: 80, Indels: 34
0.76 0.17 0.07
Matches are distributed among these distances:
79 3 0.01
80 45 0.13
81 77 0.21
82 2 0.01
83 7 0.02
84 168 0.47
85 57 0.16
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (83 bp):
TCATTTGCAGTATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCAAGGCACA
Found at i:583163 original size:165 final size:165
Alignment explanation
Indices: 582962--583379 Score: 504
Period size: 165 Copynumber: 2.5 Consensus size: 165
582952 AAAAGATCTT
* * * * * * * * *
582962 CGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGTACAACTTGAA-TCTAGAAGGGT
1 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAAC-TCAAGGCTAGAAGGGT
* *
583025 TGTCTGCCAACCAAAA-ACCTTTGAGATCGACTACGCTCAGCTC-AACGGCACATCATTTGCAGT
65 TATCTG-CAACCAAAAGACCTTCGAGATCGACTACGCTCAGCTCTAA-GGCACATCATTTGCAGT
583088 ATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCC
128 ATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCC
*
583126 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
1 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGGCTAGAAGGGTT
** * * *
583191 ATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCATCTCTAAGGCGCATCATTTGCAGTATA
66 ATCTGCAACCAAAAGACCTTCGAGATCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGTATA
* *
583256 GCTTAAGTCGAGAAGGGCTATCTGCCAAAGATCCT
131 GCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCC
* * * * * ** *
583291 CGAGTTCAATTACTCTCAGCTTGGAGGGAACATCATTCACAATATAACTCAAGGCTAGAAGGGTT
1 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGGCTAGAAGGGTT
* *
583356 ATCTGTCAACC-GAAGACCTCCGAG
66 ATCTG-CAACCAAAAGACCTTCGAG
583380 TCCAATTATA
Statistics
Matches: 219, Mismatches: 30, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
164 28 0.13
165 186 0.85
166 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCACAACTCAAGGCTAGAAGGGTT
ATCTGCAACCAAAAGACCTTCGAGATCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGTATA
GCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCC
Found at i:583182 original size:249 final size:249
Alignment explanation
Indices: 582744--583283 Score: 931
Period size: 249 Copynumber: 2.2 Consensus size: 249
582734 GGGTTATCTG
*
582744 TCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGATCGACTA
*
582809 CGCTCAGCTCAACGGCACATCATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
582874 CCCCGAGTTCGATTACACTCAGCTGCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
131 CCCCGAGTTCGATTACACTCAGCTGCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
* *
582939 GTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATA
196 GTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACA
582993 TCATTTGCAGTACAACTTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAA-ACCTTTGAGATCGAC
1 TCATTTGCAGTACAACTT-AAGTCTAGAAGGGTTGTCTGCCAA-CAAAAGACCTTTGAGATCGAC
583056 TACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG
64 TACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG
*
583121 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
129 ACCCCCGAGTTCGATTACACTCAGCTGCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
* * *
583186 GGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCATCTCTAAGGCGCA
194 GGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACA
* * * * *
583242 TCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
1 TCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAA
583284 AGATCCTCGA
Statistics
Matches: 275, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
248 2 0.01
249 266 0.97
250 7 0.03
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (249 bp):
TCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGATCGACTA
CGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
CCCCGAGTTCGATTACACTCAGCTGCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
GTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACA
Found at i:583957 original size:37 final size:35
Alignment explanation
Indices: 583916--584189 Score: 138
Period size: 33 Copynumber: 7.9 Consensus size: 35
583906 CTTTTTTCTC
*
583916 AAAACATTTTTGACAAAGTATAATATATAGTTTTCAG
1 AAAACATTTTT-ACAAAATATAATATATAGTTTTC-G
* * *
583953 AAAACGGTTTTT-CAAAATATATATTGTATAATTTT-G
1 AAAAC-ATTTTTACAAAATATA-A-TATATAGTTTTCG
*
583989 AAAACATTTTTAAAAAATTATATAATATATAG-TTTCG
1 AAAACATTTTT-ACAAA--ATATAATATATAGTTTTCG
* *
584026 AAAACA--TTT-----ATATATTATATAGTTTT-T
1 AAAACATTTTTACAAAATATAATATATAGTTTTCG
* *
584053 AAAAGTCATTTTGA-AATATATATATATATAGTTTT--
1 AAAA--CATTTTTACAAAATATA-ATATATAGTTTTCG
*
584088 AAAACATTTTGA-AAATTATATATAGTATATAGTTTT-G
1 AAAACATTTTTACAAA--ATATA-A-TATATAGTTTTCG
* * *
584125 AAAACGTTTTGA-AAATTATAATATATAGTTTT-G
1 AAAACATTTTTACAAAATATAATATATAGTTTTCG
*
584158 AAAACA-TTTTA-AAAATTATAATATATAATTTT
1 AAAACATTTTTACAAAA-TATAATATATAGTTTT
584190 TAAAAAATAT
Statistics
Matches: 195, Mismatches: 19, Indels: 50
0.74 0.07 0.19
Matches are distributed among these distances:
27 16 0.08
28 3 0.02
29 2 0.01
31 2 0.01
32 7 0.04
33 42 0.22
34 1 0.01
35 28 0.14
36 39 0.20
37 35 0.18
38 15 0.08
39 5 0.03
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.43
Consensus pattern (35 bp):
AAAACATTTTTACAAAATATAATATATAGTTTTCG
Found at i:584056 original size:27 final size:26
Alignment explanation
Indices: 583995--584056 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
583985 TTTGAAAACA
583995 TTTTTAAAAAATTATATAATATATAG
1 TTTTTAAAAAATTATATAATATATAG
** * *
584021 TTTCGAAAACATTTATATATTATATAG
1 TTTTTAAAA-AATTATATAATATATAG
584048 TTTTTAAAA
1 TTTTTAAAA
584057 GTCATTTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (26 bp):
TTTTTAAAAAATTATATAATATATAG
Found at i:584096 original size:33 final size:34
Alignment explanation
Indices: 584034--584272 Score: 177
Period size: 33 Copynumber: 6.7 Consensus size: 34
584024 CGAAAACATT
*
584034 TATATAT-TATATAGTTTTTAAAAGTCATTTTGAAA
1 TATATATATATATAG-TTTTAAAA-ACATTTTGAAA
584069 TATATATATATATAGTTTT-AAAACATTTTGAAAA
1 TATATATATATATAGTTTTAAAAACATTTTG-AAA
* *
584103 TTATATATAGTATATAGTTTTGAAAACGTTTTGAAA
1 -TATATATA-TATATAGTTTTAAAAACATTTTGAAA
*
584139 -AT-TATAATATATAGTTTTGAAAACATTTT-AAA
1 TATATAT-ATATATAGTTTTAAAAACATTTTGAAA
* * * *
584171 AAT-TATAATATATAATTTTTAAAAAATATTTTTGAAGT
1 TATATAT-ATATAT-AGTTTT-AAAAACA-TTTTGAA-A
* *
584209 TATATATATTGTATATGTTTTTAAAAACGTTTCTGAAA
1 TATATATA-TATATA-G-TTTTAAAAACATTT-TGAAA
584247 -ATACGTATAATATATAGTTTTAAAAA
1 TATA--TAT-ATATATAGTTTTAAAAA
584273 AAAGCATTTT
Statistics
Matches: 170, Mismatches: 14, Indels: 38
0.77 0.06 0.17
Matches are distributed among these distances:
32 3 0.02
33 43 0.25
34 14 0.08
35 24 0.14
36 25 0.15
37 24 0.14
38 8 0.05
39 24 0.14
40 5 0.03
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (34 bp):
TATATATATATATAGTTTTAAAAACATTTTGAAA
Found at i:584108 original size:70 final size:68
Alignment explanation
Indices: 584033--584194 Score: 206
Period size: 70 Copynumber: 2.4 Consensus size: 68
584023 TCGAAAACAT
584033 TTATATATTATATAGTTTTTAAAAGTCATTTTG-AAATATATATATATATAGTTTT-AAAACATT
1 TTATATATTATATAGTTTTTAAAA--CATTTTGAAAAT-TATA-ATATATAGTTTTGAAAACATT
*
584096 TTGAAAA
62 TTAAAAA
* *
584103 TTATATATAGTATATAGTTTTGAAAACGTTTTGAAAATTATAATATATAGTTTTGAAAACATTTT
1 TTATATAT--TATATAGTTTTTAAAACATTTTGAAAATTATAATATATAGTTTTGAAAACATTTT
584168 AAAAA
64 AAAAA
*
584173 TTATA-A-TATATAATTTTTAAAA
1 TTATATATTATATAGTTTTTAAAA
584195 AATATTTTTG
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
66 14 0.17
69 13 0.16
70 37 0.45
71 4 0.05
72 15 0.18
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (68 bp):
TTATATATTATATAGTTTTTAAAACATTTTGAAAATTATAATATATAGTTTTGAAAACATTTTAA
AAA
Found at i:584327 original size:3 final size:3
Alignment explanation
Indices: 584321--584367 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
584311 AATTATATAG
*
584321 ATT ATT ATT ATTT ATT ATT ACT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
584366 AT
1 AT
584368 ATTTCTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:584376 original size:14 final size:13
Alignment explanation
Indices: 584321--584385 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 13
584311 AATTATATAG
584321 ATTATTAT-TATTT
1 ATTATTATAT-TTT
*
584334 ATTATTACTATATT
1 ATTATTA-TATTTT
*
584348 ATTATTAT-TATT
1 ATTATTATATTTT
584360 ATTATTATATTTCT
1 ATTATTATATTT-T
584374 ATTTATT-TATTT
1 A-TTATTATATTT
584386 ATTTATTTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
12 12 0.27
13 10 0.22
14 17 0.38
15 6 0.13
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTATATTTT
Found at i:584376 original size:23 final size:24
Alignment explanation
Indices: 584321--584384 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
584311 AATTATATAG
584321 ATTATTATTATTTATTATTACTAT
1 ATTATTATTATTTATTATTACTAT
*
584345 ATTATTATTA-TTATTATTATTAT
1 ATTATTATTATTTATTATTACTAT
584368 ATT-TCTATTTATTTATT
1 ATTAT-TA-TTATTTATT
584385 TATTTATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 1 0.03
23 17 0.47
24 13 0.36
25 5 0.14
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTATTATTATTTATTATTACTAT
Found at i:589148 original size:2 final size:2
Alignment explanation
Indices: 589084--589137 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
589074 ATTTCTCAGG
589084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
589125 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
589138 AATCTTATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:592395 original size:38 final size:38
Alignment explanation
Indices: 592353--592431 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
592343 TTTTGAAATT
592353 TTTTTTGAAAA-ATATAATATATAATTTTCAGAAAACAA
1 TTTTTTGAAAATATATAATATATAATTTT-AGAAAACAA
* * * *
592391 -TTTTTGAAAATATATATTATATAGTTTTTGAAAACAC
1 TTTTTTGAAAATATATAATATATAATTTTAGAAAACAA
592428 TTTT
1 TTTT
592432 AAAATATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 17 0.49
38 18 0.51
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTTTTGAAAATATATAATATATAATTTTAGAAAACAA
Found at i:592424 original size:37 final size:35
Alignment explanation
Indices: 592354--592745 Score: 247
Period size: 36 Copynumber: 10.9 Consensus size: 35
592344 TTTGAAATTT
* * *
592354 TTTTTGAAAA-ATATAATATATAATTTTCAGAAAACAA
1 TTTTTGAAAATATATATTATATAGTTTT--TAAAAC-A
592391 TTTTTGAAAATATATATTATATAGTTTTTGAAAACA
1 TTTTTGAAAATATATATTATATAGTTTTT-AAAACA
* *
592427 CTTTT--AAA-ATATA-TGTA-A-TTTTTAAAACA
1 TTTTTGAAAATATATATTATATAGTTTTTAAAACA
* *
592456 -TTTTGAAAACATTTATATATTATGTAGTTTTAAAAAAAACA
1 TTTTTG-AAA-A--TATATATTATATAGTTTT---TAAAACA
592497 -TTTTGAAAATATATATATTATATAGTTTTTAAAACA
1 TTTTTG-AAA-ATATATATTATATAGTTTTTAAAACA
592533 -TTTTGAAAATATATATATAATATATAGGTTTTTAAAACA
1 TTTTTG-AAA-ATATATAT--TATATA-GTTTTTAAAACA
592572 -TTTTGAAAATATATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAATATATAT--TATATAGTTTTTAAAACA
592608 TTTTTTTTTTGAAAACTTATATATAATATATAGTTTTTAAAACA
1 -----TTTTTGAAAA--TATATAT--TATATAGTTTTTAAAACA
592652 TTTTTG-AAA-AT-TA-TA-A-A------AAAACA
1 TTTTTGAAAATATATATTATATAGTTTTTAAAACA
*
592675 TTTTTGAAAATTTATATAATATATAGTTTTTAAAAAACA
1 TTTTTGAAAA--TATATATTATATAGTTTTT--AAAACA
592714 TTTTT-AAAATATATATTATATAGTTTTTAAAA
1 TTTTTGAAAATATATATTATATAGTTTTTAAAA
592746 ATATTTTTTA
Statistics
Matches: 301, Mismatches: 12, Indels: 87
0.75 0.03 0.22
Matches are distributed among these distances:
23 12 0.04
24 3 0.01
27 2 0.01
28 6 0.02
29 9 0.03
30 7 0.02
31 6 0.02
32 4 0.01
33 5 0.02
34 9 0.03
35 7 0.02
36 61 0.20
37 32 0.11
38 35 0.12
39 51 0.17
41 16 0.05
42 9 0.03
44 27 0.09
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
TTTTTGAAAATATATATTATATAGTTTTTAAAACA
Found at i:592523 original size:39 final size:36
Alignment explanation
Indices: 592355--592666 Score: 220
Period size: 39 Copynumber: 8.4 Consensus size: 36
592345 TTGAAATTTT
*
592355 TTTTGAAAA-ATATA-A-TATATAATTTTCAGAAAACAA
1 TTTTGAAAATATATATATTATATAGTTTT-A-AAAAC-A
*
592391 TTTTTG-AAA-ATATATATTATATAGTTTTTGAAAACA
1 -TTTTGAAAATATATATATTATATAG-TTTTAAAAACA
*
592427 CTTTT--AAA-ATATAT-GTA-AT--TTTT-AAAACA
1 -TTTTGAAAATATATATATTATATAGTTTTAAAAACA
* *
592456 TTTTGAAAACATTTATATATTATGTAGTTTTAAAAAAAACA
1 TTTTG-AAA-ATATATATATTATATAGTTTT---AAAAACA
*
592497 TTTTGAAAATATATATATTATATAGTTTTTAAAACA
1 TTTTGAAAATATATATATTATATAGTTTTAAAAACA
*
592533 TTTTGAAAATATATATATAATATATAGGTTTTTAAAACA
1 TTTTGAAAATATATATAT--TATATA-GTTTTAAAAACA
* *
592572 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
1 TTTTGAAAATATATATATTATATAGTTTTAAAAACA
* *
592608 TTTTTTTTTTGAAAACTTATATATAATATATAGTTTTTAAAACA
1 ------TTTTGAAAA--TATATATATTATATAGTTTTAAAAACA
592652 TTTTTGAAAAT-TATA
1 -TTTTGAAAATATATA
592667 AAAAAACATT
Statistics
Matches: 237, Mismatches: 11, Indels: 55
0.78 0.04 0.18
Matches are distributed among these distances:
28 4 0.02
29 6 0.03
30 4 0.02
31 2 0.01
32 1 0.00
33 7 0.03
34 4 0.02
35 10 0.04
36 53 0.22
37 22 0.09
38 12 0.05
39 62 0.26
40 3 0.01
41 11 0.05
42 9 0.04
44 27 0.11
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTGAAAATATATATATTATATAGTTTTAAAAACA
Found at i:592584 original size:75 final size:74
Alignment explanation
Indices: 592445--592666 Score: 268
Period size: 75 Copynumber: 2.9 Consensus size: 74
592435 ATATATGTAA
* * * * *
592445 TTTTTAAAACATTTTGAAAACATTTATATATTATGTAGTTTTAAAAAAAACATTTTGAAAATATA
1 TTTTTAAAACATTTTGAAAATATATATATAATATATAGTTTT---TAAAACATTTTGAAAATATA
*
592510 TATATTATATAG
63 TATAATATATAG
592522 TTTTTAAAACATTTTGAAAATATATATATAATATATAGGTTTTTAAAACATTTTGAAAATATATA
1 TTTTTAAAACATTTTGAAAATATATATATAATATATA-GTTTTTAAAACATTTTGAAAATATATA
592587 TAATATATAG
65 TAATATATAG
592597 TTTTTAAAACATTTTTTTTTTGAAAACT-TATATATAATATATAGTTTTTAAAACATTTTTGAAA
1 TTTTTAAAACA------TTTTGAAAA-TATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
592661 AT-TATA
58 ATATATA
592667 AAAAAACATT
Statistics
Matches: 130, Mismatches: 6, Indels: 15
0.86 0.04 0.10
Matches are distributed among these distances:
75 41 0.32
77 33 0.25
78 5 0.04
80 16 0.12
81 34 0.26
82 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (74 bp):
TTTTTAAAACATTTTGAAAATATATATATAATATATAGTTTTTAAAACATTTTGAAAATATATAT
AATATATAG
Found at i:592768 original size:27 final size:28
Alignment explanation
Indices: 592738--592796 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
592728 ATTATATAGT
592738 TTTTAAAAATATT-TTTTATTT-TTATTA
1 TTTT-AAAATATTATTTTATTTATTATTA
* *
592765 TTTT-TATTATTATTTTATTTATTATTA
1 TTTTAAAATATTATTTTATTTATTATTA
592792 TTTTA
1 TTTTA
592797 TTACTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.19
26 8 0.30
27 14 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTAAAATATTATTTTATTTATTATTA
Found at i:592774 original size:3 final size:3
Alignment explanation
Indices: 592753--592805 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
592743 AAAATATTTT
* *
592753 TTA TTT TTA TTA TTT TTA TTA TTA TT- TTA TTTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
592797 TTA CTTA TT
1 TTA -TTA TT
592806 TTTTATCTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 4 0.10
3 32 0.76
4 6 0.14
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:592776 original size:12 final size:12
Alignment explanation
Indices: 592753--592808 Score: 64
Period size: 12 Copynumber: 4.7 Consensus size: 12
592743 AAAATATTTT
592753 TTATTTTTATTA
1 TTATTTTTATTA
592765 TT-TTTATTATTA
1 TTATTT-TTATTA
592777 TT-TTATTTATTA
1 TTATT-TTTATTA
592789 TTA-TTTTATTA
1 TTATTTTTATTA
592800 CTTATTTTT
1 -TTATTTTT
592809 TATCTTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.26
12 24 0.62
13 5 0.13
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:592796 original size:15 final size:15
Alignment explanation
Indices: 592752--592811 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
592742 AAAAATATTT
*
592752 TTTATTTTTATTATT-
1 TTTATTATTATT-TTA
592767 TTTATTATTATTTTA
1 TTTATTATTATTTTA
592782 TTTATTATTATTTTA
1 TTTATTATTATTTTA
592797 -TTACTTATT-TTTTA
1 TTTA-TTATTATTTTA
592811 T
1 T
592812 CTTTTGTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
14 10 0.24
15 31 0.76
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:592804 original size:27 final size:26
Alignment explanation
Indices: 592747--592807 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
592737 TTTTTAAAAA
592747 TATT-TTTTATTTTTATTATTTTTAT
1 TATTATTTTATTTTTATTATTTTTAT
592772 TATTATTTTATTTATTATTA-TTTTAT
1 TATTATTTTATTT-TTATTATTTTTAT
592798 TACTTATTTT
1 TA-TTATTTT
592808 TTATCTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 4 0.12
26 16 0.48
27 13 0.39
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (26 bp):
TATTATTTTATTTTTATTATTTTTAT
Found at i:598309 original size:23 final size:23
Alignment explanation
Indices: 598283--598327 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
598273 CACCACAGCT
*
598283 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
598306 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
598328 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:598578 original size:149 final size:149
Alignment explanation
Indices: 598308--598609 Score: 568
Period size: 149 Copynumber: 2.0 Consensus size: 149
598298 AAGTGCCCCG
* * *
598308 TAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCCTTAAGAATCA
1 TAGAATTGCACAGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
*
598373 TATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
598438 TATGTCCTAAAGAACCGAA
131 TATGTCCTAAAGAACCGAA
598457 TAGAATTGCACAGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
1 TAGAATTGCACAGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
598522 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
598587 TATGTCCTAAAGAACCGAA
131 TATGTCCTAAAGAACCGAA
598606 TAGA
1 TAGA
598610 CCATCTACTC
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (149 bp):
TAGAATTGCACAGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACA
TATGTCCTAAAGAACCGAA
Found at i:598847 original size:29 final size:29
Alignment explanation
Indices: 598778--598849 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
598768 TTTTCTGCAT
* *
598778 ATTCATGTCATATAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
598807 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
598836 ATTCATGTCATGTA
1 ATTCATGTCATGTA
598850 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:598857 original size:34 final size:33
Alignment explanation
Indices: 598780--598857 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 33
598770 TTCTGCATAT
*
598780 TCATGTCATATAATACATATAATATGAATTCATG
1 TCATGT-ATATAATACATATAATATAAATTCATG
*
598814 TCATG----TAATACATTTAATATAAATTCATG
1 TCATGTATATAATACATATAATATAAATTCATG
598843 TCATGTATCATAATA
1 TCATGTAT-ATAATA
598858 TGGAATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
29 27 0.73
34 10 0.27
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (33 bp):
TCATGTATATAATACATATAATATAAATTCATG
Found at i:599286 original size:67 final size:66
Alignment explanation
Indices: 599149--599298 Score: 219
Period size: 66 Copynumber: 2.3 Consensus size: 66
599139 TTTTTCTCAT
* * *
599149 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCCTTCTGGAATTCATATGCGTT
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATGCGTT
599214 GA
65 GA
* * * *
599216 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTATCATTCTGGAAATCATGTTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATGCGTTG
599281 A
66 A
*
599282 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
599299 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 63 0.84
67 12 0.16
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATGCGTTG
A
Found at i:599302 original size:21 final size:21
Alignment explanation
Indices: 599278--599320 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
599268 ATCATGTTCG
* *
599278 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
599299 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
599320 T
1 T
599321 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:605367 original size:22 final size:23
Alignment explanation
Indices: 605342--605385 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
605332 CACCACAGCT
*
605342 CGTATAAATGCA-CGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
605364 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
605386 ATATAATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:605857 original size:28 final size:28
Alignment explanation
Indices: 605822--605896 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
605812 CTTTTTCTGC
*
605822 ATTCATGTCATATAATACATAT-ATATGA
1 ATTCATGTCATAT-ATACATATAATATAA
* *
605850 ATTCATGTCATGTATACATTTAATATAA
1 ATTCATGTCATATATACATATAATATAA
*
605878 ATTCATGTCATGTAT-CATA
1 ATTCATGTCATATATACATA
605897 ATATGGAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 10 0.24
28 32 0.76
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (28 bp):
ATTCATGTCATATATACATATAATATAA
Found at i:606331 original size:67 final size:66
Alignment explanation
Indices: 606194--606343 Score: 219
Period size: 66 Copynumber: 2.3 Consensus size: 66
606184 TTTTTCTCAT
* * *
606194 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCCTTCTGGAATTCATATGCGTT
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATGCGTT
606259 GA
65 GA
* * * *
606261 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTATCATTCTGGAAATCATGTTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATGCGTTG
606326 A
66 A
*
606327 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
606344 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 63 0.84
67 12 0.16
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAAATCATATGCGTTG
A
Found at i:606347 original size:21 final size:21
Alignment explanation
Indices: 606323--606365 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
606313 ATCATGTTCG
* *
606323 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
606344 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
606365 T
1 T
606366 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:608252 original size:84 final size:84
Alignment explanation
Indices: 608106--608968 Score: 1095
Period size: 84 Copynumber: 10.2 Consensus size: 84
608096 CACCTTCAAT
* * * * *
608106 AAAGACCTTCGAATTCGATTACACTCAGCTCAAAGGCGCATCATTTGCAGCATAGCTTAAGGCGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
* * * *
608171 TAAGGGCTATCTACCAACT
66 GAAGGGTTATCTGCCAACA
* * *
608190 AAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
* **
608255 GAAGGGTTATTTGTTAAC-
66 GAAGGGTTATCTGCCAACA
* *
608273 AAATACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
* *
608338 GAAGGGCTATCTGCTAACA
66 GAAGGGTTATCTGCCAACA
* * *
608357 AAAGACCTTCGAGTTCGATTACACTTAGCTTAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
608422 GAAGGGTTATCTGCCAACA
66 GAAGGGTTATCTGCCAACA
* * * *
608441 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGT
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAACTCAAGGC
* *
608506 GAGAAGGGTTATCTGTCAAC-
64 AAGAAGGGTTATCTGCCAACA
* * *
608526 CAAGATCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
*
608591 GAAGGGTTATATGCCAACA
66 GAAGGGTTATCTGCCAACA
* * * * * * * *
608610 AAAGACCTTTGAGTTCGATTAAATTCAACTTAAATGCATATCAAATTTACAGCATAACTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAACTCAAGGC
* **
608675 AAGAAGGGTTATTTATCAAC-
64 AAGAAGGGTTATCTGCCAACA
* ** * *
608695 CAAGACCTTCGAGTTTAATTACACTCAGCTCAAAGGCACATTATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
*
608760 GAAGGATTATCTGCCAACA
66 GAAGGGTTATCTGCCAACA
* *
608779 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGTATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
608844 GAAGGGTTATCTGCCAACA
66 GAAGGGTTATCTGCCAACA
* * * * *
608863 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACACCATAACTCAAGAC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAACTCAAGGC
* * * * *
608928 GAGAAGGTTTATTTGTCATC-
64 AAGAAGGGTTATCTGCCAACA
608948 AAAGACCTTCGAGTTCGATTA
1 AAAGACCTTCGAGTTCGATTA
608969 TATTCAACTT
Statistics
Matches: 675, Mismatches: 95, Indels: 17
0.86 0.12 0.02
Matches are distributed among these distances:
83 146 0.22
84 336 0.50
85 89 0.13
86 104 0.15
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (84 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
GAAGGGTTATCTGCCAACA
Found at i:608578 original size:253 final size:253
Alignment explanation
Indices: 608106--609011 Score: 1137
Period size: 253 Copynumber: 3.6 Consensus size: 253
608096 CACCTTCAAT
* * * * *
608106 AAAGACCTTCGAATTCGATTACAC-TCAGCTCAAAGGCGCATC-ATTTGCAGCATAGCTTAAGGC
1 AAAGACCTTCGAGTTCGATTACACTTCAGCTCAAAGGCACATCAATTTACAGCATAACTCAAGGC
* * *
608169 GATAAGGGCTATCTACCAACTAAAGACCTTCGAGTTCGATTACACTT-AGCTCAAAGGCACATC-
66 AAGAAGGGTTATCTACCAAC-AAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATCA
* * *
608232 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTTAACAAATACCTTCGAGTTCGATTACAC
129 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* * *
608297 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCTAACA
194 TCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
* * *
608357 AAAGACCTTCGAGTTCGATTACACTT-AGCTTAAAGGCACATC-ATTTGCAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTTCAGCTCAAAGGCACATCAATTTACAGCATAACTCAAGGC
* *
608420 AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAA
66 AAGAAGGGTTATCTACCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATC-A
* * * *
608485 ATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACCAAGATCTTCGAGTTTGATTACAC
129 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
*
608550 TCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATATGCCAACA
194 TCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
* * * * * *
608610 AAAGACCTTTGAGTTCGATTA-AATTCAACTTAAATGCATATCAAATTTACAGCATAACTCAAGG
1 AAAGACCTTCGAGTTCGATTACACTTCAGCTCAAAGGCACATC-AATTTACAGCATAACTCAAGG
* * * ** * *
608674 CAAGAAGGGTTATTTATCAACCAAGACCTTCGAGTTTAATTACACTCAGCTCAAAGGCACAT-TA
65 CAAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAA
* * * * *
608738 TTTGCAGCATAGCTCAAGGCAAGAAGGATTATCTGCCAACAAAAGACCTTCGAGTTCGATTACAC
130 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACAC
* *
608803 TCAGCTCAAAGGCACATCATTTGTAGTATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
194 TCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
* * *
608863 AAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGGCATATCAAATTTACACCATAACTCAAGA
1 AAAGACCTTCGAGTTCGATTACACTTCAGCTCAAAGGCACATC-AATTTACAGCATAACTCAAGG
* * * ** * * * * ** *
608927 CGAGAAGGTTTATTTGTCATCAAAGACCTTCGAGTTCGATTATATTCAACTTAGTGGCAAATCAA
65 CAAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATC-A
*
608992 ATTTACAGCATAGCTCAAGG
129 ATTTACAGCATAACTCAAGG
609012 AAAAAAGGGC
Statistics
Matches: 573, Mismatches: 71, Indels: 18
0.87 0.11 0.03
Matches are distributed among these distances:
250 2 0.00
251 111 0.19
252 39 0.07
253 329 0.57
254 37 0.06
255 55 0.10
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (253 bp):
AAAGACCTTCGAGTTCGATTACACTTCAGCTCAAAGGCACATCAATTTACAGCATAACTCAAGGC
AAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAT
TTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTC
AGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
Found at i:608904 original size:422 final size:420
Alignment explanation
Indices: 608101--608968 Score: 1324
Period size: 422 Copynumber: 2.1 Consensus size: 420
608091 AAAAGCACCT
* * * * *
608101 TCAATAAAGACCTTCGAATTCGATTACACTCAGCTCAAAGGCGCATCATTTGCAGCATAGCTTAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAA
* * * * * *
608166 GGCGATAAGGGCTATCTACCAACTAAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGCACAT
66 GGCAAGAAGGGCTATATACCAACAAAAGACCTTCGAGTTCGATTACAATTAACTCAAAGGCACAT
* * * * *
608231 CATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTTAACAAATACCTTCGAGTTCGATTACA
131 CATTTACAGCATAACTCAAGGCAAGAAGGGTTATTTATCAACAAAGACCTTCGAGTTCAATTACA
* *
608296 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCTAACAAAAG
196 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGACTATCTGCCAACAAAAG
* * *
608361 ACCTTCGAGTTCGATTACACTTAGCTTAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAG
261 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAG
608426 GGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
326 GGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* **
608491 AGCATAACTCAAGGTGAGAAGGGTTATCTG
391 ACCATAACTCAAGACGAGAAGGGTTATCTG
* * *
608521 TCAACCAAGATCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAA
* * * * * *
608586 GGCAAGAAGGGTTATATGCCAACAAAAGACCTTTGAGTTCGATTA-AATTCAACTTAAATGCATA
66 GGCAAGAAGGGCTATATACCAACAAAAGACCTTCGAGTTCGATTACAATT-AACTCAAAGGCACA
* *
608650 TCAAATTTACAGCATAACTCAAGGCAAGAAGGGTTATTTATCAACCAAGACCTTCGAGTTTAATT
130 TC--ATTTACAGCATAACTCAAGGCAAGAAGGGTTATTTATCAACAAAGACCTTCGAGTTCAATT
* *
608715 ACACTCAGCTCAAAGGCACATTATTTGCAGCATAGCTCAAGGCAAGAAGGATTATCTGCCAACAA
193 ACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGACTATCTGCCAACAA
* *
608780 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGTATAACTCAAGGCAAG
258 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAG
608845 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
323 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
* *
608910 TACACCATAACTCAAGACGAGAAGGTTTATTTG
388 TACACCATAACTCAAGACGAGAAGGGTTATCTG
*
608943 TCATCAAAGACCTTCGAGTTCGATTA
1 TCAACAAAGACCTTCGAGTTCGATTA
608969 TATTCAACTT
Statistics
Matches: 400, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
419 3 0.01
420 107 0.27
422 290 0.73
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (420 bp):
TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAA
GGCAAGAAGGGCTATATACCAACAAAAGACCTTCGAGTTCGATTACAATTAACTCAAAGGCACAT
CATTTACAGCATAACTCAAGGCAAGAAGGGTTATTTATCAACAAAGACCTTCGAGTTCAATTACA
CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGACTATCTGCCAACAAAAG
ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAG
GGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
ACCATAACTCAAGACGAGAAGGGTTATCTG
Found at i:609046 original size:169 final size:167
Alignment explanation
Indices: 608106--609062 Score: 1004
Period size: 169 Copynumber: 5.7 Consensus size: 167
608096 CACCTTCAAT
* * * * * *
608106 AAAGACCTTCGAATTCGATTACACTCAGCTCAAAGGCGCATC--ATTTGCAGCATAGCTTAAGGC
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGC
* * *
608169 GATAAGGGCTATCTAC-CAACTAAAGACCTTCGAGTTCGATTACACTT-AGCTCAAAGGCACATC
66 AAGAAGGGTTATCT-CTCAAC-AAA-A-CTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATC
* * * **
608232 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATTTGTTAAC-
126 ATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
* * * *
608273 AAATACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGC
* *
608336 AAGAAGGGCTATCTGCT-AACAAAAGACCTTCGAGTTCGATTACACTT-AGCTTAAAGGCACATC
66 AAGAAGGGTTATCT-CTCAAC-AAA-A-CTTCGAGTTCGATTACA-TTCAGCTCAAAGGCACATC
*
608399 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACA
126 ATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
* *
608441 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGT
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGC
* * * * *
608506 GAGAAGGGTTATCTGTCAACCAAGATCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATT
66 AAGAAGGGTTATCTCTCAA-CAA-AACTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATT
*
608571 TGCAGCATAACTCAAGGCAAGAAGGGTTATATGCCAACA
129 TGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
* * * * * *
608610 AAAGACCTTTGAGTTCGATTAAATTCAACTTAAATGCATATCAAATTTACAGCATAACTCAAGGC
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGC
* * * ** * *
608675 AAGAAGGGTTATTTATCAACCAAGACCTTCGAGTTTAATTACACTCAGCTCAAAGGCACATTATT
66 AAGAAGGGTTATCTCTCAA-CAA-AACTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATT
* *
608740 TGCAGCATAGCTCAAGGCAAGAAGGATTATCTGCCAACA
129 TGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
* ** *
608779 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGTAGTATAACTCAAGGC
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGC
*
608842 AAGAAGGGTTATCTGC-CAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCA
66 AAGAAGGGTTATCT-CTCAAC-AAA-A-CTTCGAGTTCGATTACATTCAGCTCAAAGGCACATC-
* * * * * * * *
608906 AATTTACACCATAACTCAAGACGAGAAGGTTTATTTGTCATC-
126 -ATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
* * * ** * * *
608948 AAAGACCTTCGAGTTCGATTATATTCAACTTAGTGGCAAATCAAATTTACAGCATAGCTCAAGGA
1 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGC
* * * * *
609013 AAAAAGGGCTATCTCTTAACAAAATTGTCGAGTTCGATTCCATTCAGCTC
66 AAGAAGGGTTATCTCTCAACAAAACT-TCGAGTTCGATTACATTCAGCTC
609063 GATGACACAT
Statistics
Matches: 683, Mismatches: 89, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
166 2 0.00
167 187 0.27
168 72 0.11
169 319 0.47
170 70 0.10
171 33 0.05
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (167 bp):
AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGC
AAGAAGGGTTATCTCTCAACAAAACTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTG
CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACA
Found at i:609593 original size:2 final size:2
Alignment explanation
Indices: 609581--609661 Score: 148
Period size: 2 Copynumber: 41.5 Consensus size: 2
609571 GGTTTTTAAT
609581 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
609622 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
609662 TGTAAATAGT
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 75 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:609863 original size:77 final size:76
Alignment explanation
Indices: 609732--610034 Score: 350
Period size: 77 Copynumber: 4.0 Consensus size: 76
609722 ACGGTTTTCG
* * * * *
609732 AAAATATATATATTATATAGGTTTT-GAAATCACTTTT-AAAA-TATATATAATATATAATTTTT
1 AAAATATATATAATATATAGTTTTTAAAAAACA-TTTTGAAAACTATATATAATATATAGTTTTT
*
609794 GAAACATTTTGA
65 AAAACATTTTGA
* * *
609806 AAACATTTATATATTATATAGTTTTTAAAAAAACATTTTGAAAA-TATATATATTATATAGTTTT
1 AAA-ATATATATAATATATAGTTTTT-AAAAAACATTTTGAAAACTATATATAATATATAGTTTT
609870 TAAAACATTTTGA
64 TAAAACATTTTGA
*
609883 AAATATATGTATAATATATAGTTTTT--AAAACATTTTGAAAACTTATATATAATATATAGTTTT
1 AAA-ATATATATAATATATAGTTTTTAAAAAACATTTTGAAAAC-TATATATAATATATAG-TTT
609946 TTAAAACATTTTGA
63 TTAAAACATTTTGA
* * **
609960 AAAA-ATATATAATATTATAGTTTTTCAAATATTTTTTGAAAACTTATATATAATATATAGTTTT
1 AAAATATATATAATA-TATAGTTTTTAAAAAACATTTTGAAAAC-TATATATAATATATAGTTTT
*
610024 TAAAATATTTT
64 TAAAACATTTT
610035 TTTGAAATTA
Statistics
Matches: 202, Mismatches: 17, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
74 18 0.09
75 29 0.14
76 30 0.15
77 95 0.47
78 30 0.15
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (76 bp):
AAAATATATATAATATATAGTTTTTAAAAAACATTTTGAAAACTATATATAATATATAGTTTTTA
AAACATTTTGA
Found at i:610046 original size:39 final size:37
Alignment explanation
Indices: 609726--610192 Score: 348
Period size: 38 Copynumber: 12.9 Consensus size: 37
609716 AGACAAACGG
* * *
609726 TTTTCGAAAA-TATATATATTATATAGGTTTTGAAATCA
1 TTTT-GAAAATTATATATAATATATA-GTTTTTAAAACA
* *
609764 CTTTT-AAAA-TATATATAATATATAATTTTTGAAACA
1 -TTTTGAAAATTATATATAATATATAGTTTTTAAAACA
*
609800 TTTTGAAAACATT-TATATATTATATAGTTTTTAAAAAAACA
1 TTTTG-AAA-ATTATATATAATATATAGTTTTT---AAAACA
*
609841 TTTTGAAAA-TATATATATTATATAGTTTTTAAAACA
1 TTTTGAAAATTATATATAATATATAGTTTTTAAAACA
*
609877 TTTTGAAAATATATGTATAATATATAGTTTTTAAAACA
1 TTTTGAAAAT-TATATATAATATATAGTTTTTAAAACA
609915 TTTTGAAAACTTATATATAATATATAGTTTTTTAAAACA
1 TTTTGAAAA-TTATATATAATATATAG-TTTTTAAAACA
* **
609954 TTTTGAAAA-AATATATAATATTATAGTTTTTCAAATATT
1 TTTTGAAAATTATATATAATA-TATAGTTTTT-AAA-ACA
*
609993 TTTTGAAAACTTATATATAATATATAGTTTTTAAAATA
1 TTTTGAAAA-TTATATATAATATATAGTTTTTAAAACA
* *
610031 TTTT-----TT-TGA-A-ATTATATAGTTTTTAAAATA
1 TTTTGAAAATTAT-ATATAATATATAGTTTTTAAAACA
*
610061 TTTT-----TT-TA-ATATTATATAGTTTTTAAAACA
1 TTTTGAAAATTATATATAATATATAGTTTTTAAAACA
* ***
610091 TTTTTGAAAATTAT-T-TAGT-T-T--TTAAAAAAAACA
1 -TTTTGAAAATTATATATAATATATAGTT-TTTAAAACA
610124 TTTTTGAAAATT-TATATAATATATAGTTTTTAAAACA
1 -TTTTGAAAATTATATATAATATATAGTTTTTAAAACA
* * *
610161 TTTTTAAAA--A-ATATATTATATATTTTTTAAAA
1 TTTTGAAAATTATATATAATATATAGTTTTTAAAA
610193 AAAATTATTT
Statistics
Matches: 364, Mismatches: 29, Indels: 75
0.78 0.06 0.16
Matches are distributed among these distances:
29 2 0.01
30 45 0.12
31 6 0.02
32 6 0.02
33 19 0.05
34 24 0.07
35 6 0.02
36 37 0.10
37 43 0.12
38 84 0.23
39 59 0.16
40 13 0.04
41 20 0.05
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (37 bp):
TTTTGAAAATTATATATAATATATAGTTTTTAAAACA
Found at i:610047 original size:16 final size:15
Alignment explanation
Indices: 610020--610087 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 15
610010 TAATATATAG
610020 TTTTTAAA--ATATT
1 TTTTTAAATTATATT
*
610033 TTTTTGAAATTATATAG
1 TTTTT-AAATTATAT-T
610050 TTTTTAAA--ATATT
1 TTTTTAAATTATATT
*
610063 TTTTTAATATTATATAG
1 TTTTTAA-ATTATAT-T
610080 TTTTTAAA
1 TTTTTAAA
610088 ACATTTTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 12 0.27
14 8 0.18
16 12 0.27
17 12 0.27
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
TTTTTAAATTATATT
Found at i:610047 original size:78 final size:74
Alignment explanation
Indices: 609733--610192 Score: 284
Period size: 77 Copynumber: 6.4 Consensus size: 74
609723 CGGTTTTCGA
* * * * *
609733 AAATATATATATTATATAGGTTTTGAAATCACTTTT-AAAA--TATATATAATATATAATTTTTG
1 AAAT-TATATAATATATA-GTTTTTAAAACA-TTTTGAAAACTTATATATAATATATAGTTTTTA
***
609795 AAACATTTTGAA
63 AAACATTTTTTG
* *
609807 AACATTTATATATTATATAGTTTTTAAAAAAACATTTTGAAAA--TATATATATTATATAGTTTT
1 AA-A-TTATATAATATATAGTTTTT---AAAACATTTTGAAAACTTATATATAATATATAGTTTT
609870 TAAAACA--TTTTG
61 TAAAACATTTTTTG
609882 AAAATATATGTATAATATATAGTTTTTAAAACATTTTGAAAACTTATATATAATATATAGTTTTT
1 -AAAT-TA--TATAATATATAGTTTTTAAAACATTTTGAAAACTTATATATAATATATAG-TTTT
***
609947 TAAAACATTTTGAA
61 TAAAACATTTTTTG
* **
609961 AAAATATATAATATTATAGTTTTTCAAATATTTTTTGAAAACTTATATATAATATATAGTTTTTA
1 AAATTATATAATA-TATAGTTTTT-AAA-ACATTTTGAAAACTTATATATAATATATAGTTTTTA
*
610026 AAATATTTTTTTG
63 AAACA-TTTTTTG
* *
610039 --A--A-AT--TATATAGTTTTTAAAATATTTT------TT-TA-ATATTATATAGTTTTTAAAA
1 AAATTATATAATATATAGTTTTTAAAACATTTTGAAAACTTATATATAATATATAGTTTTTAAAA
610089 CA-TTTTTG
66 CATTTTTTG
610097 AAA--AT-T-AT-T-TAGTTTTTAAAAAAAACATTTTTGAAAA-TT-TATATAATATATAGTTTT
1 AAATTATATAATATATAGTTTTT----AAAACA-TTTTGAAAACTTATATATAATATATAGTTTT
610154 TAAAACA-TTTTT-
61 TAAAACATTTTTTG
** * *
610166 AAAAAATATATTATATATTTTTTAAAA
1 AAATTATATAATATATAGTTTTTAAAA
610193 AAAATTATTT
Statistics
Matches: 319, Mismatches: 27, Indels: 83
0.74 0.06 0.19
Matches are distributed among these distances:
58 6 0.02
59 8 0.03
60 24 0.08
61 3 0.01
62 2 0.01
63 5 0.02
64 4 0.01
68 6 0.02
69 10 0.03
70 36 0.11
71 8 0.03
72 1 0.00
73 3 0.01
74 25 0.08
75 33 0.10
76 33 0.10
77 75 0.24
78 35 0.11
79 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (74 bp):
AAATTATATAATATATAGTTTTTAAAACATTTTGAAAACTTATATATAATATATAGTTTTTAAAA
CATTTTTTG
Found at i:610049 original size:30 final size:30
Alignment explanation
Indices: 610013--610117 Score: 153
Period size: 30 Copynumber: 3.5 Consensus size: 30
610003 TTATATATAA
610013 TATATAGTTTTTAAAATATTTTTTTGAAAT
1 TATATAGTTTTTAAAATATTTTTTTGAAAT
610043 TATATAGTTTTTAAAATATTTTTTT-AATAT
1 TATATAGTTTTTAAAATATTTTTTTGAA-AT
*
610073 TATATAGTTTTTAAAACA--TTTTTGAAAAT
1 TATATAGTTTTTAAAATATTTTTTTG-AAAT
*
610102 TATTTAGTTTTTAAAA
1 TATATAGTTTTTAAAA
610118 AAAACATTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
28 5 0.07
29 19 0.27
30 46 0.66
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (30 bp):
TATATAGTTTTTAAAATATTTTTTTGAAAT
Found at i:610061 original size:70 final size:69
Alignment explanation
Indices: 609975--610165 Score: 208
Period size: 70 Copynumber: 2.9 Consensus size: 69
609965 TATATAATAT
* *
609975 TATAGTTTTTCAAATATTTTTTGAAAACTTATATATAATATATAGTTTTTAAAATATTTTTTTG-
1 TATAGTTTTTAAAATA-TTTTTGAAAA-TTATATATAATATATAGTTTTTAAAACATTTTTTTGA
610039 AAATTA
64 AAATTA
610045 TATAGTTTTTAAAATATTTTT-----TTA-ATAT--TATATAGTTTTTAAAACA--TTTTTGAAA
1 TATAGTTTTTAAAATATTTTTGAAAATTATATATAATATATAGTTTTTAAAACATTTTTTTGAAA
610100 ATTA
66 ATTA
* *
610104 TTTAGTTTTTAAAAAAAACATTTTTGAAAATT-TATATAATATATAGTTTTTAAAACATTTTT
1 TATAGTTTTT----AAAATATTTTTGAAAATTATATATAATATATAGTTTTTAAAACATTTTT
610166 AAAAAATATA
Statistics
Matches: 102, Mismatches: 4, Indels: 28
0.76 0.03 0.21
Matches are distributed among these distances:
58 6 0.06
59 15 0.15
60 17 0.17
62 4 0.04
63 13 0.13
68 6 0.06
69 5 0.05
70 33 0.32
72 3 0.03
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (69 bp):
TATAGTTTTTAAAATATTTTTGAAAATTATATATAATATATAGTTTTTAAAACATTTTTTTGAAA
ATTA
Found at i:610174 original size:27 final size:25
Alignment explanation
Indices: 610109--610177 Score: 66
Period size: 27 Copynumber: 2.7 Consensus size: 25
610099 AATTATTTAG
* * *
610109 TTTTTAAAAAAAACATTTTTGAAAA
1 TTTTTAAAAAATATATTTTTAAAAA
* * *
610134 TTTATATAATATATAGTTTTTAAAACA
1 TTTTTAAAAAATATA-TTTTTAAAA-A
610161 TTTTTAAAAAATATATT
1 TTTTTAAAAAATATATT
610178 ATATATTTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
25 10 0.30
26 10 0.30
27 13 0.39
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (25 bp):
TTTTTAAAAAATATATTTTTAAAAA
Found at i:610213 original size:3 final size:3
Alignment explanation
Indices: 610196--610279 Score: 98
Period size: 3 Copynumber: 26.7 Consensus size: 3
610186 TTTAAAAAAA
*
610196 ATT ATT TTT ATTT ATT ATT ATT ATT ATTT ATT -TT ACTT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT A-TT ATT ATT A-TT ATT ATT ATT
*
610243 ATT ATT ATT ATT ATT ATT ATTT ATT ACTT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT ATT AT
610280 CTTTTGTTTG
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.03
3 54 0.76
4 15 0.21
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:611962 original size:3 final size:3
Alignment explanation
Indices: 611956--611995 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
611946 ATAATAATAA
611956 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
611996 GTATAATATA
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:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:615780 original size:21 final size:21
Alignment explanation
Indices: 615756--615795 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
615746 CGTCGCGAGC
615756 GCTATTGCAGCCATCGCGGAT
1 GCTATTGCAGCCATCGCGGAT
* *
615777 GCTATTGCGGCCGTCGCGG
1 GCTATTGCAGCCATCGCGG
615796 GTAACTGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.30, G:0.35, T:0.23
Consensus pattern (21 bp):
GCTATTGCAGCCATCGCGGAT
Found at i:621429 original size:26 final size:26
Alignment explanation
Indices: 621399--621449 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
621389 GGCGACCAAG
*
621399 CTGGCAACCAAACTTAACCCTGCTCA
1 CTGGCAACCAAACTTAACCATGCTCA
*
621425 CTGGCGACCAAACTTAACCATGCTC
1 CTGGCAACCAAACTTAACCATGCTC
621450 CCTTGTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.37, G:0.14, T:0.20
Consensus pattern (26 bp):
CTGGCAACCAAACTTAACCATGCTCA
Found at i:621714 original size:29 final size:29
Alignment explanation
Indices: 621692--621808 Score: 164
Period size: 29 Copynumber: 3.9 Consensus size: 29
621682 GCGACCTACA
*
621692 AGGTCGCTGGGAGTGCATTGCGACCTTGT
1 AGGTCGCTGGGAGTGCATGGCGACCTTGT
621721 AGGTCGCTGGGAGTGCATGGCGACCTTGT
1 AGGTCGCTGGGAGTGCATGGCGACCTTGT
621750 AGGTCGCTGGGAGTGCATGGCGACCTGTGTT
1 AGGTCGCTGGGAGTGCATGGCGACCT-TG-T
* *
621781 GGGGT-GTTGGGGAGTGCATGGCGACCTT
1 -AGGTCGCT-GGGAGTGCATGGCGACCTT
621809 TGTTGGGTGT
Statistics
Matches: 81, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
29 54 0.67
30 2 0.02
31 4 0.05
32 21 0.26
ACGTcount: A:0.13, C:0.19, G:0.43, T:0.26
Consensus pattern (29 bp):
AGGTCGCTGGGAGTGCATGGCGACCTTGT
Found at i:621799 original size:32 final size:30
Alignment explanation
Indices: 621700--621834 Score: 143
Period size: 29 Copynumber: 4.4 Consensus size: 30
621690 CAAGGTCGCT
* * *
621700 GGGAGTGCATTGCGACCTTG-TAGGTCGCT-
1 GGGAGTGCATGGCGACCTTGTTGGGT-GTTG
* *
621729 GGGAGTGCATGGCGACCTTG-TAGGTCGCT-
1 GGGAGTGCATGGCGACCTTGTTGGGT-GTTG
621758 GGGAGTGCATGGCGACCTGTGTTGGGGTGTTG
1 GGGAGTGCATGGCGACCT-TGTT-GGGTGTTG
621790 GGGAGTGCATGGCGACCTTTGTTGGGTGTTG
1 GGGAGTGCATGGCGACC-TTGTTGGGTGTTG
621821 GGGACGTGCATGGC
1 GGGA-GTGCATGGC
621835 ACATGCAGAC
Statistics
Matches: 97, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
29 46 0.47
30 2 0.02
31 15 0.15
32 33 0.34
33 1 0.01
ACGTcount: A:0.12, C:0.17, G:0.44, T:0.27
Consensus pattern (30 bp):
GGGAGTGCATGGCGACCTTGTTGGGTGTTG
Found at i:623053 original size:465 final size:458
Alignment explanation
Indices: 622189--623113 Score: 1625
Period size: 465 Copynumber: 2.0 Consensus size: 458
622179 CAAGGTCTCC
622189 TTCAATGGAGAAAGGGAAACAGAGGTGTGTTGAGGGTTAGGGAAAGACGTGGTATTACGGTGAAG
1 TTCAATGGAGAAAGGGAAACAGAGGTGTGTTGAGGGTTAGGGAAAGACGTGGTATTACGGTGAAG
622254 GTGAGGTTGGAGAAAAGAGATGAGGTTAATTTTGGTATTTTATTTTATTTAGATAAAACTAAAAG
66 GTGAGGTTGGAGAAAAGAGATGAGGTTAATTTTGGTATTTTATTTTATTTAGATAAAACTAAAAG
*
622319 TTAGGAGGTGATGTAATGATTGGTTTGTATTTTTTAATGGGGTTAACAATTTGGGCAAATGGAGT
131 TTAGGAGGTGATGTAATGATTGGTTTGTATTTTTTAATGGGGTTAACAATTTGGGCAAACGGAGT
* * * *
622384 AACAATTTATAGTTGAAAGGGCAAGACATCCCTAAAAACATTTTAAGGGACAATTCGGTAAAAAG
196 AACAATTTATAGTTGAAAGGGCAAAACATCCCGAAAAACACTTTAAGGGACAACTCGGTAAAAAG
*
622449 GTATAGTTCAGGGGGAAAATATACATTTAAGCCTATTCAAATTATAATCATAAGATTGTGACATG
261 GTATAGTTCAGGGGGAAAATATAAATTTAAGCCTATTCAAATTATAATCATAAGATTGTGACATG
*
622514 TTTCACAATTTGATTGGAAAAATAAATTTATTAAATTAAATTGAAATTAGGACCTAATTAAGAAT
326 TGTCACAATTTGATTGGAAAAATAAATTTATTAAATTAAATTGAAATTAGGACCTAATTAAGAAT
622579 TAAGAATTAAAGTTAATCTTGGTAATCAAATTGATTAAATATAAAATCTAGGGGATTTAATCTAC
391 TAAGAATTAAAGTTAATCTTGGTAATCAAATTGATTAAATATAAAATCTAGGGGATTTAATCTAC
622644 AAA
456 AAA
**
622647 TTCAATGGAGAAAGGGAAACAGAGGTGTGTTGAGGGTTAGGGAAAGGTGTGGTATTACGGTGAAG
1 TTCAATGGAGAAAGGGAAACAGAGGTGTGTTGAGGGTTAGGGAAAGACGTGGTATTACGGTGAAG
*
622712 GTGAGGTTGGGGAAAAGAGATGAGGTTAATTTTGGTATTTTATTTTATTTAGATAAAACTAAAAG
66 GTGAGGTTGGAGAAAAGAGATGAGGTTAATTTTGGTATTTTATTTTATTTAGATAAAACTAAAAG
* *
622777 TTAGGAGGTGATGTAGCGTGTTCTGATTGGTTTGTATTTTTTAATGGGGTTAACAATTTGGGTAA
131 TTAGGAGGTGATGTA-------ATGATTGGTTTGTATTTTTTAATGGGGTTAACAATTTGGGCAA
** *
622842 ACGGAGTAACAATTTATAGTTGAGGGGGCAAAACATCCCGAAAAATACTTTAAGGGACAACTCGG
189 ACGGAGTAACAATTTATAGTTGAAAGGGCAAAACATCCCGAAAAACACTTTAAGGGACAACTCGG
622907 TAAAAAGGTATAGTTCAGGGGGAAAATATAAATTTAAGCCTATTCAAATTATAATCATAAGATTG
254 TAAAAAGGTATAGTTCAGGGGGAAAATATAAATTTAAGCCTATTCAAATTATAATCATAAGATTG
*
622972 TGACATGTGTCACAATTTGATTGGAGAAATAAATTTATTAAATTAAATTGAAATTAGGACCTAAT
319 TGACATGTGTCACAATTTGATTGGAAAAATAAATTTATTAAATTAAATTGAAATTAGGACCTAAT
* *
623037 TAATAATTAAGAATTAAAGTTAATCTTGGTGATCAAATTGATTAAATATAAAATCTAGGGGATTT
384 TAAGAATTAAGAATTAAAGTTAATCTTGGTAATCAAATTGATTAAATATAAAATCTAGGGGATTT
623102 AATCTACAAA
449 AATCTACAAA
623112 TT
1 TT
623114 TAATACATGA
Statistics
Matches: 442, Mismatches: 18, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
458 142 0.32
465 300 0.68
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (458 bp):
TTCAATGGAGAAAGGGAAACAGAGGTGTGTTGAGGGTTAGGGAAAGACGTGGTATTACGGTGAAG
GTGAGGTTGGAGAAAAGAGATGAGGTTAATTTTGGTATTTTATTTTATTTAGATAAAACTAAAAG
TTAGGAGGTGATGTAATGATTGGTTTGTATTTTTTAATGGGGTTAACAATTTGGGCAAACGGAGT
AACAATTTATAGTTGAAAGGGCAAAACATCCCGAAAAACACTTTAAGGGACAACTCGGTAAAAAG
GTATAGTTCAGGGGGAAAATATAAATTTAAGCCTATTCAAATTATAATCATAAGATTGTGACATG
TGTCACAATTTGATTGGAAAAATAAATTTATTAAATTAAATTGAAATTAGGACCTAATTAAGAAT
TAAGAATTAAAGTTAATCTTGGTAATCAAATTGATTAAATATAAAATCTAGGGGATTTAATCTAC
AAA
Found at i:627074 original size:75 final size:76
Alignment explanation
Indices: 626940--627087 Score: 180
Period size: 75 Copynumber: 2.0 Consensus size: 76
626930 ACATGCTCAC
*
626940 TTTGAAATTCGAATTTTCTTCGATTAATCATCTATTTTATTGATGATGTCCACTTTGAAATTTTA
1 TTTGAAATTCGAATTTTCTTCGATTAATCATCTATTTTATTGATGATGTCCACTCTGAAATTTTA
627005 TTT-TGTCCAT
66 TTTATGTCCAT
* * * *
627015 TTTGAAATAT-GAATTTTCTTCGATTAGTGA-C-ATGTCTTATTGATGTTGTTCA-TCCTGAAAT
1 TTTGAAAT-TCGAATTTTCTTCGATTAATCATCTAT-T-TTATTGATGATGTCCACT-CTGAAAT
627076 TTTATTTATGTC
62 TTTATTTATGTC
627088 TACATCATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
73 2 0.03
74 3 0.05
75 53 0.84
76 5 0.08
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (76 bp):
TTTGAAATTCGAATTTTCTTCGATTAATCATCTATTTTATTGATGATGTCCACTCTGAAATTTTA
TTTATGTCCAT
Found at i:631060 original size:20 final size:20
Alignment explanation
Indices: 631031--631082 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
631021 TGATCTAATC
*
631031 AGTATCGATACTGAAGGGGG
1 AGTATCGATACCGAAGGGGG
* *
631051 AGTATTGATACCGAA-GGGA
1 AGTATCGATACCGAAGGGGG
631070 AGGTATCGATACC
1 A-GTATCGATACC
631083 ATTTCGAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (20 bp):
AGTATCGATACCGAAGGGGG
Found at i:631173 original size:20 final size:21
Alignment explanation
Indices: 631133--631177 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
631123 ATAGTACTGG
631133 TACCATGGTATGGTAGTATCGA
1 TACCATGGTATGG-AGTATCGA
631155 TACCATGGTATGG-GTATCGA
1 TACCATGGTATGGAGTATCGA
631175 TAC
1 TAC
631178 TGAGGAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.43
22 13 0.57
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (21 bp):
TACCATGGTATGGAGTATCGA
Found at i:631598 original size:55 final size:55
Alignment explanation
Indices: 631518--631941 Score: 588
Period size: 55 Copynumber: 7.7 Consensus size: 55
631508 AGGCACTATA
* *** **
631518 TATGTGTGCAAATCCACATAATTCATCATGAGTTGATGAATAAATGTACATGCAC
1 TATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTACATGCAC
* * *
631573 TATGTGTGTAAACCCACGAGATTCATCATGAGTTGATGAATAACCATACA-GACAC
1 TATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTACATG-CAC
* * *
631628 TATGTGTCCAAACCCACGGGATTCATTATGAGTTGATGAATAACCGTACAGGCAC
1 TATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTACATGCAC
* *
631683 TATGTGTCCAAACCTACGGGATTCATCATGAGTTGATGAATAACCGTACATGCAC
1 TATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTACATGCAC
** *
631738 TATGTGTGCAAACCCATAGGATTCATCATGAGTTGATGAATAACCGTGCATGCAC
1 TATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTACATGCAC
*
631793 TATGTATGCAAACCCACGGGATTCATCACT-AGTTGATGAATAACCGTACATGCAC
1 TATGTGTGCAAACCCACGGGATTCATCA-TGAGTTGATGAATAACCGTACATGCAC
*
631848 TATGTGTGC-AACCCACGGGATTCATCATGAGTTGATGAATAATCGTACA-GACAC
1 TATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTACATG-CAC
* **
631902 TATATGTGC-AACCCACGAAATTCATCATGAGTTGATGAAT
1 TATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAAT
631942 TACTGTATAG
Statistics
Matches: 334, Mismatches: 30, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
53 2 0.01
54 78 0.23
55 252 0.75
56 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (55 bp):
TATGTGTGCAAACCCACGGGATTCATCATGAGTTGATGAATAACCGTACATGCAC
Found at i:634571 original size:20 final size:20
Alignment explanation
Indices: 634508--634577 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
634498 TTACCTTTGG
* *
634508 TATCGATACCATATGAACAA
1 TATCGATACTATAAGAACAA
* * * **
634528 TATCGATACTGTTCATAA-GG
1 TATCGATACT-ATAAGAACAA
634548 TATCGATACTATAAGAACAA
1 TATCGATACTATAAGAACAA
634568 TATCGATACT
1 TATCGATACT
634578 TATTGTACGT
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 4 0.11
20 29 0.81
21 3 0.08
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (20 bp):
TATCGATACTATAAGAACAA
Found at i:634982 original size:21 final size:21
Alignment explanation
Indices: 634952--635004 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
634942 TGGGTACTAG
634952 TATCGATACTAGTTGGGTCAA
1 TATCGATACTAGTTGGGTCAA
*
634973 TATCGGTACTAGTTGGGTCAA
1 TATCGATACTAGTTGGGTCAA
634994 TATCGATACTA
1 TATCGATACTA
635005 TTTTTATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (21 bp):
TATCGATACTAGTTGGGTCAA
Found at i:636823 original size:19 final size:19
Alignment explanation
Indices: 636799--636845 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
636789 ATTAAGTTAA
636799 TAATTTTTATAATTGTGAT
1 TAATTTTTATAATTGTGAT
636818 TAATTTTTATAATTGTGAT
1 TAATTTTTATAATTGTGAT
636837 TAATGTTTT
1 TAAT-TTTT
636846 TCGATAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (19 bp):
TAATTTTTATAATTGTGAT
Found at i:637556 original size:41 final size:41
Alignment explanation
Indices: 637511--637602 Score: 175
Period size: 41 Copynumber: 2.2 Consensus size: 41
637501 ACTTAGGTGA
*
637511 GTATCGATACCAAGGGTTGAGTATCCATATTCCCTATAGGG
1 GTATCGATACCAAGGGCTGAGTATCCATATTCCCTATAGGG
637552 GTATCGATACCAAGGGCTGAGTATCCATATTCCCTATAGGG
1 GTATCGATACCAAGGGCTGAGTATCCATATTCCCTATAGGG
637593 GTATCGATAC
1 GTATCGATAC
637603 TACCCTAGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (41 bp):
GTATCGATACCAAGGGCTGAGTATCCATATTCCCTATAGGG
Found at i:639054 original size:52 final size:50
Alignment explanation
Indices: 638968--639102 Score: 143
Period size: 52 Copynumber: 2.7 Consensus size: 50
638958 TATGTAACGT
* * * * *
638968 AATTTCTTTAGTTATTTATTTATTTGCTA-T-ATAATATTTCTATTAAGATTTG
1 AATTTTTTTAATTATTTATTTATTT--TATTGATAATATATC--TTAAAATCTG
* *
639020 AATTTTTTTAATTAGTTATTTATTTTATTGATAATCTATCTTAAAATCTG
1 AATTTTTTTAATTATTTATTTATTTTATTGATAATATATCTTAAAATCTG
639070 AA-TTTTTT-ATTATTTATTTATTTTATTGATAAT
1 AATTTTTTTAATTATTTATTTATTTTATTGATAAT
639103 TTCTATAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
48 24 0.33
49 6 0.08
50 12 0.16
51 1 0.01
52 30 0.41
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.59
Consensus pattern (50 bp):
AATTTTTTTAATTATTTATTTATTTTATTGATAATATATCTTAAAATCTG
Found at i:647814 original size:22 final size:20
Alignment explanation
Indices: 647778--647834 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
647768 AACTTATCTC
*
647778 ATATATTCTTATTCTTATTCAT-
1 ATATATTATT-TTCTTATT--TG
647800 ATATATATATTTTC-TATTTG
1 ATATAT-TATTTTCTTATTTG
647820 ATATATTATTTTCTT
1 ATATATTATTTTCTT
647835 TGTATATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
21 4 0.13
22 9 0.29
23 3 0.10
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (20 bp):
ATATATTATTTTCTTATTTG
Found at i:647840 original size:16 final size:19
Alignment explanation
Indices: 647800--647843 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
647790 TCTTATTCAT
647800 ATATATATATTTTCTATTTG
1 ATATATATATTTTC-ATTTG
647820 ATATAT-TATTTTC-TTTG
1 ATATATATATTTTCATTTG
647837 -TATATAT
1 ATATATAT
647844 TCTAATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 5 0.22
19 7 0.30
20 6 0.26
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (19 bp):
ATATATATATTTTCATTTG
Found at i:648293 original size:18 final size:18
Alignment explanation
Indices: 648270--648304 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
648260 ACTGAATATT
648270 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
648288 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
648305 GAAAATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:650080 original size:13 final size:13
Alignment explanation
Indices: 650062--650102 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
650052 CTAAATCTCT
650062 TTTAATATCTAAA
1 TTTAATATCTAAA
*
650075 TTTAATCTCT---
1 TTTAATATCTAAA
650085 TTTAATATCTAAA
1 TTTAATATCTAAA
650098 TTTAA
1 TTTAA
650103 ATAGATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
10 9 0.39
13 14 0.61
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTAATATCTAAA
Done.