Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_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: 5101972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 26
Found at i:217768 original size:13 final size:13
Alignment explanation
Indices: 217750--217774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217740 TTCTATTATA
217750 TTGTTTGAATTTC
1 TTGTTTGAATTTC
217763 TTGTTTGAATTT
1 TTGTTTGAATTT
217775 GTACAACTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGTTTGAATTTC
Found at i:218592 original size:56 final size:56
Alignment explanation
Indices: 218532--218659 Score: 238
Period size: 56 Copynumber: 2.3 Consensus size: 56
218522 GCAAAAATTG
218532 AAACGTTGAGGGTTAAAGTTTTCCAAAAAAATAGGAGTCAAAAAAATTATTCAAAC
1 AAACGTTGAGGGTTAAAGTTTTCCAAAAAAATAGGAGTCAAAAAAATTATTCAAAC
*
218588 AAACGTTGAGGGTTAAAGTTTTCCAAAAAAATAGGAGTCAAAATAATTATTCAAAC
1 AAACGTTGAGGGTTAAAGTTTTCCAAAAAAATAGGAGTCAAAAAAATTATTCAAAC
*
218644 AAACGTCGAGGGTTAA
1 AAACGTTGAGGGTTAA
218660 TTTTGGTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.25
Consensus pattern (56 bp):
AAACGTTGAGGGTTAAAGTTTTCCAAAAAAATAGGAGTCAAAAAAATTATTCAAAC
Found at i:219074 original size:31 final size:31
Alignment explanation
Indices: 219039--219105 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
219029 GATTTGGGGC
*
219039 TTAAAATGACATCTTATATAAAGTTTAGAGG
1 TTAAAATAACATCTTATATAAAGTTTAGAGG
* * * * *
219070 TTAAATTAATATTTTATGTAAAGTTTAGGGG
1 TTAAAATAACATCTTATATAAAGTTTAGAGG
219101 TTAAA
1 TTAAA
219106 TTAATATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (31 bp):
TTAAAATAACATCTTATATAAAGTTTAGAGG
Found at i:219106 original size:31 final size:31
Alignment explanation
Indices: 219052--219115 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
219042 AAATGACATC
219052 TTATATAAAGTTTAGAGGTTAAATTAATATT
1 TTATATAAAGTTTAGAGGTTAAATTAATATT
* *
219083 TTATGTAAAGTTTAGGGGTTAAATTAATATT
1 TTATATAAAGTTTAGAGGTTAAATTAATATT
219114 TT
1 TT
219116 GTCTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (31 bp):
TTATATAAAGTTTAGAGGTTAAATTAATATT
Found at i:227139 original size:32 final size:32
Alignment explanation
Indices: 227098--227159 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
227088 GAAGAAATTA
*
227098 TTGTTATGCTCATCTTGTAGAAATACTTCTCG
1 TTGTTATGCTCATCTCGTAGAAATACTTCTCG
* *
227130 TTGTTATGCTCATCTCGTAGAGATATTTCT
1 TTGTTATGCTCATCTCGTAGAAATACTTCT
227160 TGTGTCTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (32 bp):
TTGTTATGCTCATCTCGTAGAAATACTTCTCG
Found at i:227776 original size:1 final size:1
Alignment explanation
Indices: 227765--227827 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
227755 CTTGATTCAA
* * * * * * * *
227765 TTTTCTTTTTTTTCTTTTTCTTTTTCTTTTATTTTTATTTTTTTTTTCTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
227828 CCTTCTTCTT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:227779 original size:9 final size:9
Alignment explanation
Indices: 227765--227827 Score: 76
Period size: 9 Copynumber: 7.2 Consensus size: 9
227755 CTTGATTCAA
227765 TTTTCTTTT
1 TTTTCTTTT
227774 TTTTCTTTT
1 TTTTCTTTT
* *
227783 TCTT-TTTC
1 TTTTCTTTT
*
227791 TTTTATTTT
1 TTTTCTTTT
*
227800 TATT-TTTT
1 TTTTCTTTT
227808 TTTTCTTTT
1 TTTTCTTTT
227817 TTTTCTTTT
1 TTTTCTTTT
227826 TT
1 TT
227828 CCTTCTTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 13 0.28
9 33 0.72
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:227782 original size:6 final size:6
Alignment explanation
Indices: 227773--227838 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
227763 AATTTTCTTT
* *
227773 TTTTTC TTTTTC TTTTTC -TTTTA TTTTTA TTTTT- TTTTTC TTTTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* *
227818 TTTCTT- TTTTCC TTCTTC TTT
1 TTT-TTC TTTTTC TTTTTC TTT
227839 CTTTACTGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 13 0.25
6 38 0.75
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:227827 original size:11 final size:11
Alignment explanation
Indices: 227770--227820 Score: 75
Period size: 11 Copynumber: 4.5 Consensus size: 11
227760 TTCAATTTTC
227770 TTTTTTTTCTT
1 TTTTTTTTCTT
227781 TTTCTTTTTCTT
1 TTT-TTTTTCTT
* *
227793 TTATTTTTATT
1 TTTTTTTTCTT
227804 TTTTTTTTCTT
1 TTTTTTTTCTT
227815 TTTTTT
1 TTTTTT
227821 CTTTTTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 25 0.71
12 10 0.29
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:227833 original size:11 final size:10
Alignment explanation
Indices: 227765--227841 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 10
227755 CTTGATTCAA
227765 TTTTCTT-TT
1 TTTTCTTCTT
227774 TTTTCTT-TT
1 TTTTCTTCTT
227783 TCTTT-TTCTT
1 T-TTTCTTCTT
* *
227793 TTATTTTTATTT
1 TT-TTCTT-CTT
*
227805 TTTTTTTCTT
1 TTTTCTTCTT
227815 TTTT-TTCTT
1 TTTTCTTCTT
227824 TTTTCCTTCTT
1 TTTT-CTTCTT
*
227835 CTTTCTT
1 TTTTCTT
227842 TACTGGATGA
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
9 22 0.38
10 17 0.29
11 15 0.26
12 4 0.07
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:230412 original size:23 final size:23
Alignment explanation
Indices: 230352--230412 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
230342 AAAAAAATGT
230352 AATGT-AAATGCAAA-AATGCATA
1 AATGTCAAAT-CAAAGAATGCATA
230374 AATGTCAAAT-ATAAGAATGCA-A
1 AATGTCAAATCA-AAGAATGCATA
*
230396 AATGTGCAATTCAAAGA
1 AATGT-CAAATCAAAGA
230413 TGTAAACATA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 1 0.03
22 13 0.39
23 18 0.55
24 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (23 bp):
AATGTCAAATCAAAGAATGCATA
Found at i:232819 original size:7 final size:7
Alignment explanation
Indices: 232781--232831 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
232771 AATTAAATGA
*
232781 AAAATTT
1 AAAATAT
*
232788 AATATAT
1 AAAATAT
*
232795 GAAA-AT
1 AAAATAT
*
232801 AAAGTA-
1 AAAATAT
232807 AAAATAT
1 AAAATAT
232814 AAAATAT
1 AAAATAT
232821 AAAATAT
1 AAAATAT
232828 AAAA
1 AAAA
232832 ATTATTATGA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
6 9 0.26
7 26 0.74
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (7 bp):
AAAATAT
Found at i:232888 original size:20 final size:22
Alignment explanation
Indices: 232855--232897 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
232845 TCATAATTAA
232855 TAAAAATTTGAAATAAAAGAAT
1 TAAAAATTTGAAATAAAAGAAT
*
232877 TAAAAA-TT-AAATAAATGAAT
1 TAAAAATTTGAAATAAAAGAAT
232897 T
1 T
232898 TTTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAATTTGAAATAAAAGAAT
Found at i:234994 original size:3 final size:3
Alignment explanation
Indices: 234986--235022 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
234976 ATTTTATTTA
234986 AAT AAT AAT AAT ATAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
235023 TTTAATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:236327 original size:16 final size:15
Alignment explanation
Indices: 236278--236328 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 15
236268 GAAATCATCG
*
236278 ACCCGAAAATTCCAGGT
1 ACCCGAAAA-T-CGGGT
236295 ACCCGAAAATCGGGT
1 ACCCGAAAATCGGGT
236310 ACCCGAAAATCTGGGT
1 ACCCGAAAATC-GGGT
236326 ACC
1 ACC
236329 TGAATTTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 15 0.47
16 8 0.25
17 9 0.28
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (15 bp):
ACCCGAAAATCGGGT
Found at i:236796 original size:60 final size:60
Alignment explanation
Indices: 236716--236854 Score: 181
Period size: 60 Copynumber: 2.3 Consensus size: 60
236706 ATAAATAGTT
* * * * *
236716 GAGATCATTTTGTAACTTTTAATAGTCGAGTGACTCAACAAAATAATATCCTATAGTCGA
1 GAGACCATTTTATAATTTTTAATAGTCAAATGACTCAACAAAATAATATCCTATAGTCGA
* * * *
236776 GAGACTATTTTATAATTTTTAATAGTCAAATGACTCAATAAAATAGTATCCTATATTCGA
1 GAGACCATTTTATAATTTTTAATAGTCAAATGACTCAACAAAATAATATCCTATAGTCGA
236836 GAGACCATTTGTAT-ATTTT
1 GAGACCATTT-TATAATTTT
236855 ACCAATTAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 65 0.96
61 3 0.04
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (60 bp):
GAGACCATTTTATAATTTTTAATAGTCAAATGACTCAACAAAATAATATCCTATAGTCGA
Found at i:245618 original size:29 final size:29
Alignment explanation
Indices: 245585--245651 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
245575 TTTGTAACCG
245585 TTAAATTTTCAAATGTTAT-A-AAATAATAA
1 TTAAATTTTCAAATG--ATCACAAATAATAA
*
245614 TTAAATTTATCGAATGATCACAAATAATAA
1 TTAAATTT-TCAAATGATCACAAATAATAA
245644 -TAAATTTT
1 TTAAATTTT
245652 GATAAACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 3 0.09
29 16 0.47
30 15 0.44
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (29 bp):
TTAAATTTTCAAATGATCACAAATAATAA
Found at i:247282 original size:21 final size:21
Alignment explanation
Indices: 247258--247620 Score: 145
Period size: 21 Copynumber: 16.6 Consensus size: 21
247248 TGTCGCCTCC
247258 CCACCACCACCAGTCTACTCT
1 CCACCACCACCAGTCTACTCT
* * * * *
247279 CCACCTCCTCCAGTATATTCA
1 CCACCACCACCAGTCTACTCT
*
247300 CCACCTA-CACCAGTCTACTCA
1 CCACC-ACCACCAGTCTACTCT
247321 CCACCACCACCTCCAGT-T-CTCT
1 CCACCACCA---CCAGTCTACTCT
* * *
247343 CAGCCCCTCCACCCGTCTACTCT
1 C--CACCACCACCAGTCTACTCT
* * *
247366 CCACCACCACCACCTCCAGTTCT
1 CCACCACCACCA-GTCTA-CTCT
* * *
247389 ATCACCTCCACCAG-CT-GTCT
1 -CCACCACCACCAGTCTACTCT
247409 ACTCACCACCACCAGTCTACTCT
1 -C-CACCACCACCAGTCTACTCT
*
247432 CCACCACCACAACCTCCAGTTCTA-TCA
1 CCACCA-C-C-A---CCAG-TCTACTCT
* * *
247459 CCTCCACTACCTGTCTA--CT
1 CCACCACCACCAGTCTACTCT
247478 -CACCACCACCAGTCTACTCT
1 CCACCACCACCAGTCTACTCT
* * * * *
247498 CCACCTCCTCCAGTATATTCA
1 CCACCACCACCAGTCTACTCT
*
247519 CCACCTA-CACCAGTCTACTCA
1 CCACC-ACCACCAGTCTACTCT
* *
247540 CCTCCACCCCCAGTCTACTCT
1 CCACCACCACCAGTCTACTCT
*
247561 CCACCACCGCCACCTCCAGTTCT-CTCA
1 CCACCA---CCA---CCAG-TCTACTCT
* *
247588 CCCCCACCACCCGTCTACTCT
1 CCACCACCACCAGTCTACTCT
247609 CCACCACCACCA
1 CCACCACCACCA
247621 CCTCCAGTTC
Statistics
Matches: 252, Mismatches: 55, Indels: 70
0.67 0.15 0.19
Matches are distributed among these distances:
18 13 0.05
19 1 0.00
20 15 0.06
21 138 0.55
22 13 0.05
23 13 0.05
24 28 0.11
26 1 0.00
27 23 0.09
28 7 0.03
ACGTcount: A:0.22, C:0.52, G:0.05, T:0.21
Consensus pattern (21 bp):
CCACCACCACCAGTCTACTCT
Found at i:247331 original size:48 final size:46
Alignment explanation
Indices: 247279--247422 Score: 134
Period size: 48 Copynumber: 3.1 Consensus size: 46
247269 AGTCTACTCT
*
247279 CCACCTCCTCCAG-TATATTCACCACCTACACCAGTCTACTCACCACCA
1 CCACC-CCTCCAGTTCTA-TCACC-CCTACACCAGTCTACTCACCACCA
* * * *
247327 CCA--CCTCCAGTTCTCTCAGCCCCTCCACCCGTCTACTCTCCACCA
1 CCACCCCTCCAGTTCTATCA-CCCCTACACCAGTCTACTCACCACCA
* *
247372 CCACCACCTCCAGTTCTATCACCTCC-ACCAGCTGTCTACTCACCACCA
1 CCACC-CCTCCAGTTCTATCACC-CCTA-CACCAGTCTACTCACCACCA
247420 CCA
1 CCA
247423 GTCTACTCTC
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
45 34 0.43
46 4 0.05
47 2 0.03
48 39 0.49
ACGTcount: A:0.22, C:0.51, G:0.06, T:0.21
Consensus pattern (46 bp):
CCACCCCTCCAGTTCTATCACCCCTACACCAGTCTACTCACCACCA
Found at i:247334 original size:45 final size:44
Alignment explanation
Indices: 247258--247547 Score: 123
Period size: 45 Copynumber: 6.6 Consensus size: 44
247248 TGTCGCCTCC
* *
247258 CCACCACCACCAGTCTACT---CTCCACCTCCTCCAGTATATTCA
1 CCACCA-CACCAGTCTACTCACCACCACCACCTCCAGTATATTCA
*
247300 CCACCTACACCAGTCTACTCACCACCACCACCTCCAGT-TCTCTCA
1 CCACC-ACACCAGTCTACTCACCACCACCACCTCCAGTATAT-TCA
* * *
247345 GCC-CCTCCACCCGTCTACTCTCCACCACCACCACCTCCAGT-TCTATCA
1 -CCACC-ACACCAGTCTA--CT-CACCACCACCACCTCCAGTATAT-TCA
* * * * * *
247393 CCTCCACCAGCTGTCTACTCACCACCACCA-GT-C--TACTCTCCA
1 CCACCA-CACCAGTCTACTCACCACCACCACCTCCAGTA-TATTCA
* * * *
247435 CCACCACAACCTCCAGTTCTA-TCACCTCCACTACCT---GTCTACTCA
1 CCACCAC-A---CCAG-TCTACTCACCACCACCACCTCCAGTATATTCA
* *
247480 CCA-C-CACCAGTCTACT---CTCCACCTCCTCCAGTATATTCA
1 CCACCACACCAGTCTACTCACCACCACCACCTCCAGTATATTCA
*
247519 CCACCTACACCAGTCTACTCACCTCCACC
1 CCACC-ACACCAGTCTACTCACCACCACC
247548 CCCAGTCTAC
Statistics
Matches: 193, Mismatches: 25, Indels: 57
0.70 0.09 0.21
Matches are distributed among these distances:
36 9 0.05
38 4 0.02
39 15 0.08
40 1 0.01
41 2 0.01
42 38 0.20
43 6 0.03
44 4 0.02
45 65 0.34
46 10 0.05
47 4 0.02
48 35 0.18
ACGTcount: A:0.23, C:0.50, G:0.05, T:0.22
Consensus pattern (44 bp):
CCACCACACCAGTCTACTCACCACCACCACCTCCAGTATATTCA
Found at i:247402 original size:18 final size:20
Alignment explanation
Indices: 247373--247440 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 20
247363 TCTCCACCAC
*
247373 CACCACCTCCAGT-TCTA-T
1 CACCACCACCAGTGTCTACT
*
247391 CACCTCCACCAGCTGTCTACT
1 CACCACCACCAG-TGTCTACT
247412 CACCACCACCA--GTCTACT
1 CACCACCACCAGTGTCTACT
*
247430 CTCCACCACCA
1 CACCACCACCA
247441 CAACCTCCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
18 27 0.63
19 1 0.02
20 4 0.09
21 11 0.26
ACGTcount: A:0.24, C:0.50, G:0.06, T:0.21
Consensus pattern (20 bp):
CACCACCACCAGTGTCTACT
Found at i:247427 original size:66 final size:66
Alignment explanation
Indices: 247351--247617 Score: 312
Period size: 66 Copynumber: 4.1 Consensus size: 66
247341 CTCAGCCCCT
* *
247351 CCACCCGTCTACTCTCCACCACCACCACCTCCAGTTCTATCACCTCCACCAGCTGTCTACTCACC
1 CCACCAGTCTACTCTCCACCACCACCACCTCCAGTTCTATCACCTCCACCACCTGTCTACTCACC
247416 A
66 A
* *
247417 CCACCAGTCTACTCTCCACCACCACAACCTCCAGTTCTATCACCTCCACTACCTGTCTACTCACC
1 CCACCAGTCTACTCTCCACCACCACCACCTCCAGTTCTATCACCTCCACCACCTGTCTACTCACC
247482 A
66 A
* * * ** * *
247483 CCACCAGTCTACTCTCCACCTCCTCCA-GTATA-TTC-ACCACCT--A-CACCAGTCTACTCACC
1 CCACCAGTCTACTCTCCACCACCACCACCTCCAGTTCTATCACCTCCACCACCTGTCTACTCA--
247542 TCCA
64 -CCA
* * * * * *
247546 CCCCCAGTCTACTCTCCACCACCGCCACCTCCAGTTCTCTCACCCCCACCACCCGTCTACTCTCC
1 CCACCAGTCTACTCTCCACCACCACCACCTCCAGTTCTATCACCTCCACCACCTGTCTACTCACC
247611 A
66 A
247612 CCACCA
1 CCACCA
247618 CCACCTCCAG
Statistics
Matches: 167, Mismatches: 25, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
60 12 0.07
61 1 0.01
63 33 0.20
64 5 0.03
65 5 0.03
66 98 0.59
68 1 0.01
69 12 0.07
ACGTcount: A:0.22, C:0.52, G:0.05, T:0.21
Consensus pattern (66 bp):
CCACCAGTCTACTCTCCACCACCACCACCTCCAGTTCTATCACCTCCACCACCTGTCTACTCACC
A
Found at i:247546 original size:24 final size:21
Alignment explanation
Indices: 247258--247772 Score: 120
Period size: 21 Copynumber: 23.2 Consensus size: 21
247248 TGTCGCCTCC
* *
247258 CCACCACCACCAGTCTACTCT
1 CCACCACCCCCAGTCTACTCA
* * * *
247279 CCACCTCCTCCAGTATATTCA
1 CCACCACCCCCAGTCTACTCA
*
247300 CCACCTA-CACCAGTCTACTCA
1 CCACC-ACCCCCAGTCTACTCA
247321 CCACCACCACCTCCAGTTCT-CTCA
1 CCACCA-C-CC-CCAG-TCTACTCA
*
247345 GCC-CCTCCACCC-GTCTACTCTCCA
1 -CCACCACC-CCCAGTCTA--CT-CA
247369 CCACCACCACCTCCAGTTCTA-TCA
1 CCACCA-C-CC-CCAG-TCTACTCA
* ** *
247393 CCTCCACCAGCTGTCTACTCA
1 CCACCACCCCCAGTCTACTCA
247414 CCACCA---CCAGTCTACTCTCCA
1 CCACCACCCCCAGTCTA--CT-CA
247435 CCACCACAACCTCCAGTTCTA-TCA
1 CCACCAC--CC-CCAG-TCTACTCA
* ** *
247459 CCTCCACTACCTGTCTACTCA
1 CCACCACCCCCAGTCTACTCA
*
247480 CCACCA---CCAGTCTACTCT
1 CCACCACCCCCAGTCTACTCA
* * * *
247498 CCACCTCCTCCAGTATATTCA
1 CCACCACCCCCAGTCTACTCA
*
247519 CCACCTA-CACCAGTCTACTCA
1 CCACC-ACCCCCAGTCTACTCA
*
247540 CCTCCACCCCCAGTCTACTCTCCA
1 CCACCACCCCCAGTCTA--CT-CA
*
247564 CCACCGCCACCTCCAGTTCT-CTCA
1 CCA---CCACCCCCAG-TCTACTCA
*
247588 CCCCCACCACCC-GTCTACTCTCCA
1 CCACCACC-CCCAGTCTA--CT-CA
247612 CCACCACCACCTCCAGTTCTA-TCA
1 CCACCA-C-CC-CCAG-TCTACTCA
* * *
247636 CCTCCACCACCTGTCTACTCA
1 CCACCACCCCCAGTCTACTCA
247657 CCACAACCACCCCCTCCAGTTCTA-TCA
1 -C-C-ACCA--CCC-CCAG-TCTACTCA
* * *
247684 CCTCCACCACCC-GTCCATTC-
1 CCACCACC-CCCAGTCTACTCA
* *
247704 TCAGCCACCCCCAGT-TGTCTCA
1 CCA-CCACCCCCAGTCT-ACTCA
*
247726 CCACCACCTCCAGTTCT-CTCA
1 CCACCACCCCCAG-TCTACTCA
*
247747 CCACCACCACCC-GTCCACTCA
1 CCACCACC-CCCAGTCTACTCA
247768 CCACC
1 CCACC
247773 TCCACCTAAA
Statistics
Matches: 366, Mismatches: 58, Indels: 140
0.65 0.10 0.25
Matches are distributed among these distances:
18 21 0.06
20 31 0.08
21 160 0.44
22 17 0.05
23 16 0.04
24 57 0.16
25 15 0.04
26 9 0.02
27 21 0.06
28 19 0.05
ACGTcount: A:0.22, C:0.52, G:0.05, T:0.21
Consensus pattern (21 bp):
CCACCACCCCCAGTCTACTCA
Found at i:247568 original size:27 final size:27
Alignment explanation
Indices: 247538--247647 Score: 90
Period size: 27 Copynumber: 4.2 Consensus size: 27
247528 CCAGTCTACT
247538 CACCTCCACCCCCAGTCTACTCTCCAC
1 CACCTCCACCCCCAGTCTACTCTCCAC
* *
247565 CACCGCCACCTCCAGT-T-CTCT-CA-
1 CACCTCCACCCCCAGTCTACTCTCCAC
247588 C-CC-CCACCACCC-GTCTACTCTCCAC
1 CACCTCCACC-CCCAGTCTACTCTCCAC
* * *
247613 CACCACCACCTCCAGTTCTATCACCTCCAC
1 CACCTCCACCCCCAG-TCTA-C-TCTCCAC
247643 CACCT
1 CACCT
247648 GTCTACTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
21 7 0.11
22 5 0.08
23 5 0.08
24 4 0.06
25 5 0.08
26 5 0.08
27 20 0.30
28 4 0.06
29 1 0.02
30 10 0.15
ACGTcount: A:0.19, C:0.57, G:0.05, T:0.19
Consensus pattern (27 bp):
CACCTCCACCCCCAGTCTACTCTCCAC
Found at i:247595 original size:48 final size:47
Alignment explanation
Indices: 247528--247698 Score: 227
Period size: 48 Copynumber: 3.6 Consensus size: 47
247518 ACCACCTACA
*
247528 CCAG-TCTACTCACCTCCACCCCCAGTCTACTCTCCACCACCGCCACCT
1 CCAGTTCTA-TCACCTCCACCCCC-GTCTACTCTCCACCACCACCACCT
* *
247576 CCAGTTCTCTCACCCCCACCACCCGTCTACTCTCCACCACCACCACCT
1 CCAGTTCTATCACCTCCACC-CCCGTCTACTCTCCACCACCACCACCT
* * * *
247624 CCAGTTCTATCACCTCCACCACCTGTCTACTCACCACAACCACCCCCT
1 CCAGTTCTATCACCTCCACC-CCCGTCTACTCTCCACCACCACCACCT
247672 CCAGTTCTATCACCTCCACCACCCGTC
1 CCAGTTCTATCACCTCCACC-CCCGTC
247699 CATTCTCAGC
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
48 105 0.95
49 6 0.05
ACGTcount: A:0.20, C:0.55, G:0.05, T:0.20
Consensus pattern (47 bp):
CCAGTTCTATCACCTCCACCCCCGTCTACTCTCCACCACCACCACCT
Found at i:247712 original size:96 final size:96
Alignment explanation
Indices: 247528--247705 Score: 250
Period size: 96 Copynumber: 1.9 Consensus size: 96
247518 ACCACCTACA
* * * * *
247528 CCAGTCTACTCACCTCCACCCCCAGTCTACTCTCCACCACCGCCACCTCCAGTTCTCTCACCCCC
1 CCAGTCTACTCACCTCCACCACCAGTCTACTCACCACAACCACCACCTCCAGTTCTATCACCCCC
*
247593 ACCACCCGTCTACTCTCCACCACCACCACCT
66 ACCACCCGTCCACTCTCCACCACCACCACCT
* * *
247624 CCAGTTCTA-TCACCTCCACCACCTGTCTACTCACCACAACCACCCCCTCCAGTTCTATCACCTC
1 CCAG-TCTACTCACCTCCACCACCAGTCTACTCACCACAACCACCACCTCCAGTTCTATCACCCC
*
247688 CACCACCCGTCCATTCTC
65 CACCACCCGTCCACTCTC
247706 AGCCACCCCC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 67 0.94
97 4 0.06
ACGTcount: A:0.20, C:0.54, G:0.05, T:0.21
Consensus pattern (96 bp):
CCAGTCTACTCACCTCCACCACCAGTCTACTCACCACAACCACCACCTCCAGTTCTATCACCCCC
ACCACCCGTCCACTCTCCACCACCACCACCT
Found at i:247767 original size:21 final size:21
Alignment explanation
Indices: 247722--247778 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
247712 CCCCAGTTGT
* * *
247722 CTCACCACCACCTCCAGTTCT
1 CTCACCACCACCACCAGTCCA
*
247743 CTCACCACCACCACCCGTCCA
1 CTCACCACCACCACCAGTCCA
*
247764 CTCACCACCTCCACC
1 CTCACCACCACCACC
247779 TAAACCGGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.60, G:0.04, T:0.16
Consensus pattern (21 bp):
CTCACCACCACCACCAGTCCA
Found at i:248129 original size:31 final size:31
Alignment explanation
Indices: 248094--248161 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
248084 TTGTCAAATT
* * * *
248094 ACTCATTCGTACTAATGAATTATATTTTACA
1 ACTCATTCATACTAATGAATCACACTTTACA
*
248125 ACTCATTCATACTAATTAATCACACTTTACA
1 ACTCATTCATACTAATGAATCACACTTTACA
248156 ACTCAT
1 ACTCAT
248162 AAATGACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (31 bp):
ACTCATTCATACTAATGAATCACACTTTACA
Found at i:251508 original size:60 final size:61
Alignment explanation
Indices: 251372--251508 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 61
251362 TATTCAGGTA
** * *
251372 ACCATTTTATAACTTTTAATAGTTCGGAGGACTCAATAAAAAAACATCCTATAGTCGAAGG
1 ACCATTTTATAACTTTTAATAGTTCAAAGGACTCAACAAAAAAACATCCTATAATCGAAGG
* * *
251433 ATCATTTTATAACTTTTAATAG-TCAAAGGACTCAACAAAACACCA-CCTTATAATCAGAA-G
1 ACCATTTTATAACTTTTAATAGTTCAAAGGACTCAACAAAAAAACATCC-TATAATC-GAAGG
251493 ACCATTTGTAT-ACTTT
1 ACCATTT-TATAACTTT
251509 ATCCTATATA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 2 0.03
60 36 0.55
61 27 0.42
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (61 bp):
ACCATTTTATAACTTTTAATAGTTCAAAGGACTCAACAAAAAAACATCCTATAATCGAAGG
Found at i:255919 original size:34 final size:33
Alignment explanation
Indices: 255877--255947 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 33
255867 AATAGTAATA
*
255877 AACAAAATTAAGCAAAATAAATTAACAA-AAAGTCC
1 AACAAATTTAA-CAAAATAAATTAA-AATAAA-TCC
255912 AACAAATTTAACAAAATAAATTAAAATAAATCC
1 AACAAATTTAACAAAATAAATTAAAATAAATCC
255945 AAC
1 AAC
255948 CATATTAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 8 0.24
34 16 0.47
35 10 0.29
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (33 bp):
AACAAATTTAACAAAATAAATTAAAATAAATCC
Found at i:256004 original size:13 final size:13
Alignment explanation
Indices: 255986--256029 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
255976 TGATAAATAA
*
255986 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
255999 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
256012 AAACAACTACAAT
1 AAAAAACTACAAT
256025 AAAAA
1 AAAAA
256030 GTACTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:256171 original size:15 final size:15
Alignment explanation
Indices: 256151--256182 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
256141 TTGTGACTCC
256151 TCGCTGTCATCGTCG
1 TCGCTGTCATCGTCG
256166 TCGCTGTCATCGTCG
1 TCGCTGTCATCGTCG
256181 TC
1 TC
256183 CTGAGCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.34, G:0.25, T:0.34
Consensus pattern (15 bp):
TCGCTGTCATCGTCG
Found at i:260145 original size:22 final size:23
Alignment explanation
Indices: 260098--260155 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
260088 TTCCCTAAAA
* *
260098 GGGAATTGGTTCTCATTCAAAGG
1 GGGAATCGGTTCCCATTCAAAGG
*
260121 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGGTTCCCATTCAAAGG
* *
260143 GGGTATCGATTCC
1 GGGAATCGGTTCC
260156 ATCTGCCTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (23 bp):
GGGAATCGGTTCCCATTCAAAGG
Found at i:262485 original size:89 final size:89
Alignment explanation
Indices: 262324--262497 Score: 271
Period size: 89 Copynumber: 2.0 Consensus size: 89
262314 CCTAACACAC
* *
262324 CCTTTTATAGCCAAGTTACCCCAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCCAGTCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
262389 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
* *
262414 CCTTTT-TATCCAAGTTACCCGTA-TCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCC-CAGTCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
262477 TATTTAATTAATTGAAATTAA
65 TATTTAATTAATTGAAATTAA
262498 ATATTCGGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
88 7 0.09
89 64 0.82
90 7 0.09
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCCAGTCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:265884 original size:64 final size:65
Alignment explanation
Indices: 265816--265972 Score: 162
Period size: 64 Copynumber: 2.4 Consensus size: 65
265806 TTGAAGGTGT
* *** *
265816 ATCGATGCATAAGTAGTGCATCGATGCACT-CTTTTAATCTAA-AAACATCGAATGCA-ATTAGT
1 ATCGATGCATAGGTAGTGCATCGATGCACTCCCAGTAAT-AAACAAACATCGAATGCATATTA-T
265878 GC
64 GC
* * *
265880 ATCGATGCATATGGCA-TGCATCGATGCA-TCCCAGTAATAAACAAACATCGAATGTATTTTATG
1 ATCGATGCATA-GGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCATATTATG
265943 C
65 C
* *
265944 ATCGATGCACAGGTAGTGCATCGTTGCAC
1 ATCGATGCATAGGTAGTGCATCGATGCAC
265973 CGATAGGGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
63 6 0.08
64 65 0.86
65 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (65 bp):
ATCGATGCATAGGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCATATTATGC
Found at i:267012 original size:103 final size:103
Alignment explanation
Indices: 266684--267004 Score: 561
Period size: 103 Copynumber: 3.1 Consensus size: 103
266674 GTTGAGGGTC
*
266684 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
266749 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
266787 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
266852 TTGATCATTGGCATATGTATATGATTTTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
266890 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGATACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
266955 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
266993 TATGTGGTCCTT
1 TATGTGGTCCTT
267005 ATGGACATTA
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 206 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:267054 original size:23 final size:23
Alignment explanation
Indices: 267021--267086 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
267011 ATTATTATAT
*
267021 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
267044 GGCACTCCGGTGCAATTATACGT
1 GGCACTACGGTGCAATTATACGC
*
267067 GGCACTTCGGTGCAATTATA
1 GGCACTACGGTGCAATTATA
267087 TGAGCTGTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:272678 original size:103 final size:103
Alignment explanation
Indices: 272352--272670 Score: 552
Period size: 103 Copynumber: 3.1 Consensus size: 103
272342 GTCGAGGGTC
272352 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
272417 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
272455 TATGTGGTCTTTCGGGACATATA--TATTCTTTGGAACATGTGTAAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
272518 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
272556 CATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* ***
272621 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
272659 TATGTGGTCATT
1 TATGTGGTCATT
272671 ATGGACATTA
Statistics
Matches: 203, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
101 98 0.48
103 105 0.52
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:272720 original size:23 final size:23
Alignment explanation
Indices: 272687--272752 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
272677 ATTATTATAT
* *
272687 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
272710 GGCACTCCGGTGCAATTATACGT
1 GGCACTACGGTGCAATTATACGC
*
272733 GGCACTTCGGTGCAATTATA
1 GGCACTACGGTGCAATTATA
272753 TGAGCTGTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:275915 original size:90 final size:89
Alignment explanation
Indices: 275762--275936 Score: 280
Period size: 90 Copynumber: 2.0 Consensus size: 89
275752 CCTAACACAC
* * *
275762 CCTTTTATAGCCAAGTTACCCTAGACATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCATAGACATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
275827 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
*
275852 CCTTTTATATCCAAGTTACCATA-ATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCATAGA-CATATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
275916 TATTTAATTAATTGAAATTAA
65 TATTTAATTAATTGAAATTAA
275937 ATATTCGGGA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
89 8 0.10
90 71 0.90
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCATAGACATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:281886 original size:9 final size:9
Alignment explanation
Indices: 281872--281905 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
281862 TAAGTTTTAT
281872 ATTAAATAA
1 ATTAAATAA
281881 ATTAAAT-A
1 ATTAAATAA
*
281889 CTTAAATAA
1 ATTAAATAA
281898 ATTAAATA
1 ATTAAATA
281906 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:281895 original size:17 final size:17
Alignment explanation
Indices: 281873--281906 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
281863 AAGTTTTATA
281873 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
281890 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
281907 AAAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:281919 original size:24 final size:24
Alignment explanation
Indices: 281884--281929 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
281874 TAAATAAATT
*
281884 AAATACTTAAATAAATTAAATACA
1 AAATACTTAAATAAATAAAATACA
*
281908 AAATA-TTAAAATTAATAAAATA
1 AAATACTT-AAATAAATAAAATA
281930 TACCTTAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATACTTAAATAAATAAAATACA
Found at i:282856 original size:14 final size:16
Alignment explanation
Indices: 282837--282873 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
282827 GTAAGAAATT
282837 TATTTTT-AT-GTTAG
1 TATTTTTAATAGTTAG
*
282851 TATTTTTAATAGTTAT
1 TATTTTTAATAGTTAG
282867 TATTTTT
1 TATTTTT
282874 TATATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
16 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (16 bp):
TATTTTTAATAGTTAG
Found at i:282931 original size:30 final size:31
Alignment explanation
Indices: 282864--282936 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
282854 TTTTAATAGT
* *
282864 TATTATTTTTTATATTAATATATTATGTAAA
1 TATTATTTTTTATATTAAAATAATATGTAAA
*
282895 TATTATTTTTT-TATTAAAATAATATTTATAA
1 TATTATTTTTTATATTAAAATAATATGTA-AA
*
282926 T-TTATTATTTA
1 TATTATTTTTTA
282937 GAGAATTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 22 0.61
31 14 0.39
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (31 bp):
TATTATTTTTTATATTAAAATAATATGTAAA
Found at i:284371 original size:18 final size:18
Alignment explanation
Indices: 284337--284372 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
284327 TCAATAAAAA
*
284337 ATATAAAAATTTTAAATT
1 ATATAAAAATTTAAAATT
*
284355 ATATAAGAATTTAAAATT
1 ATATAAAAATTTAAAATT
284373 TTCAAGGGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATATAAAAATTTAAAATT
Found at i:288955 original size:17 final size:18
Alignment explanation
Indices: 288929--288963 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
288919 AAATTTAAAT
*
288929 TATTTGTAT-CAAACATA
1 TATTTATATCCAAACATA
288946 TATTTATATCCAAACATA
1 TATTTATATCCAAACATA
288964 GATCGAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (18 bp):
TATTTATATCCAAACATA
Found at i:291887 original size:2 final size:2
Alignment explanation
Indices: 291880--291914 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
291870 TTAATCCCTA
291880 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
291915 ATTTTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:301492 original size:36 final size:36
Alignment explanation
Indices: 301442--301512 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
301432 CGCGGCATGA
*
301442 ACTCTTTACGTTACTATGGTTTATGACGACTTTGCC
1 ACTCTTTACATTACTATGGTTTATGACGACTTTGCC
* *
301478 ACTCTTTACATTACTATGGTTTATTATGACTTTGC
1 ACTCTTTACATTACTATGGTTTATGACGACTTTGC
301513 TATTTCATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (36 bp):
ACTCTTTACATTACTATGGTTTATGACGACTTTGCC
Found at i:302044 original size:2 final size:2
Alignment explanation
Indices: 302037--302066 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
302027 TGAATGTTGA
302037 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
302067 GCACACGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:302135 original size:3 final size:3
Alignment explanation
Indices: 302127--302155 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
302117 TTAGGAGGTA
302127 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
302156 AATGTGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:304322 original size:29 final size:29
Alignment explanation
Indices: 304283--304348 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
304273 AGCTTAAACT
304283 AAAATTCAGTGTTATAATTGAAGCAATTG
1 AAAATTCAGTGTTATAATTGAAGCAATTG
*
304312 AAAGTTCAGTGTTATAATTGAAGCAATTG
1 AAAATTCAGTGTTATAATTGAAGCAATTG
304341 AAAATTCA
1 AAAATTCA
304349 ATGATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (29 bp):
AAAATTCAGTGTTATAATTGAAGCAATTG
Found at i:306554 original size:20 final size:20
Alignment explanation
Indices: 306529--306568 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
306519 TCTTAATTTT
306529 TAAATTTAATTAAATATTAG
1 TAAATTTAATTAAATATTAG
*
306549 TAAATTTAATTACATATTAG
1 TAAATTTAATTAAATATTAG
306569 CCGAAGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAATTTAATTAAATATTAG
Found at i:306973 original size:20 final size:20
Alignment explanation
Indices: 306945--307060 Score: 52
Period size: 18 Copynumber: 6.1 Consensus size: 20
306935 TTTATTAAAA
*
306945 TATTGTAAAAATTTAATAAT
1 TATTTTAAAAATTTAATAAT
*
306965 TATTTT--AAA--TGATAAT
1 TATTTTAAAAATTTAATAAT
** *
306981 T-TGAT-AAAATTTAGTAAT
1 TATTTTAAAAATTTAATAAT
*
306999 TATTTCATAATAATTTAATAGAT
1 TATTT--TAAAAATTTAATA-AT
* * *
307022 T-TTATAATAATTTTATAA-
1 TATTTTAAAAATTTAATAAT
*
307040 TA-TTTAAAAATATAATAAT
1 TATTTTAAAAATTTAATAAT
307059 TA
1 TA
307061 AAATAATTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 21
0.65 0.15 0.20
Matches are distributed among these distances:
15 2 0.03
16 10 0.14
18 22 0.31
19 4 0.06
20 17 0.24
21 1 0.01
22 11 0.16
23 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (20 bp):
TATTTTAAAAATTTAATAAT
Found at i:307044 original size:10 final size:11
Alignment explanation
Indices: 306976--307041 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
306966 ATTTTAAATG
*
306976 ATAATTTGATA
1 ATAATTTTATA
306987 A-AA-TTTAGTA
1 ATAATTTTA-TA
* *
306997 ATTATTTCATA
1 ATAATTTTATA
307008 ATAA--TT-TA
1 ATAATTTTATA
307016 ATAGATTTTATA
1 ATA-ATTTTATA
307028 ATAATTTTATA
1 ATAATTTTATA
307039 ATA
1 ATA
307042 TTTAAAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
8 5 0.12
9 5 0.12
10 5 0.12
11 20 0.47
12 8 0.19
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (11 bp):
ATAATTTTATA
Found at i:313400 original size:37 final size:37
Alignment explanation
Indices: 313272--313410 Score: 169
Period size: 37 Copynumber: 3.8 Consensus size: 37
313262 CCTTTTCGTC
313272 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
*
313309 -T--TAGGATTCAAACTCCTAAAAATAGGATA-ACATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAGA-ATT
* * * *
313343 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
313380 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
313411 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
33 1 0.01
34 30 0.34
35 1 0.01
36 1 0.01
37 55 0.62
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:313970 original size:15 final size:16
Alignment explanation
Indices: 313950--313979 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
313940 TATATTCTTA
313950 ATTA-TTTTTTATTTG
1 ATTATTTTTTTATTTG
313965 ATTATTTTTTTATTT
1 ATTATTTTTTTATTT
313980 ACGTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
ATTATTTTTTTATTTG
Found at i:314314 original size:9 final size:9
Alignment explanation
Indices: 314282--314332 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
314272 ATTACTTTAC
314282 TATTTT-TT
1 TATTTTATT
*
314290 TCTTTTATCT
1 TATTTTAT-T
314300 TA-TTTATT
1 TATTTTATT
314308 TATTTTATT
1 TATTTTATT
314317 TATTTTATTT
1 TATTTTA-TT
314327 TATTTT
1 TATTTT
314333 TTCCTTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 8 0.22
9 19 0.51
10 10 0.27
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (9 bp):
TATTTTATT
Found at i:314332 original size:5 final size:5
Alignment explanation
Indices: 314287--314332 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
314277 TTTACTATTT
* *
314287 TTTTC TTTTA TCTTA -TTTA -TTTA TTTTA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
314333 TTCCTTTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 11 0.31
5 25 0.69
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:316979 original size:14 final size:14
Alignment explanation
Indices: 316960--316992 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
316950 AAAGAAGAAG
*
316960 AATTCATCTGAAAT
1 AATTCATCCGAAAT
316974 AATTCATCCGAAAT
1 AATTCATCCGAAAT
316988 AATTC
1 AATTC
316993 TATCATGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (14 bp):
AATTCATCCGAAAT
Found at i:317313 original size:10 final size:10
Alignment explanation
Indices: 317298--317370 Score: 67
Period size: 11 Copynumber: 7.0 Consensus size: 10
317288 AGATCCAATC
317298 AAGAAAAAAA
1 AAGAAAAAAA
*
317308 AAGAAAAAGCA
1 AAGAAAAA-AA
317319 AAGAAAAAAA
1 AAGAAAAAAA
317329 AAG-AAAAAA
1 AAGAAAAAAA
* *
317338 GAGAAACAAAG
1 AAGAAA-AAAA
*
317349 AACAAAAAAGA
1 AAGAAAAAA-A
317360 AAGAACAAAAA
1 AAGAA-AAAAA
317371 TAAAAAAGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
9 8 0.16
10 17 0.34
11 21 0.42
12 4 0.08
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:317347 original size:27 final size:28
Alignment explanation
Indices: 317304--317370 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
317294 AATCAAGAAA
317304 AAAAAAGAAAAAGCAAAGAAAAAAAAAG
1 AAAAAAGAAAAAGCAAAGAAAAAAAAAG
* *
317332 AAAAAAGAGAAA-CAAAGAACAAAAAAG
1 AAAAAAGAAAAAGCAAAGAAAAAAAAAG
* *
317359 AAAGAACAAAAA
1 AAAAAAGAAAAA
317371 TAAAAAAGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (28 bp):
AAAAAAGAAAAAGCAAAGAAAAAAAAAG
Found at i:317357 original size:20 final size:20
Alignment explanation
Indices: 317298--317378 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
317288 AGATCCAATC
*
317298 AAGAA-AAAAAAAGAAAAAGCA
1 AAGAACAAAAACA-AAAAAG-A
* *
317319 AAGAAAAAAAAAGAAAAAAGA
1 AAG-AACAAAAACAAAAAAGA
*
317340 GA-AACAAAGAACAAAAAAGA
1 AAGAACAAA-AACAAAAAAGA
*
317360 AAGAACAAAAATAAAAAAG
1 AAGAACAAAAACAAAAAAG
317379 GGAACAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.10
20 20 0.40
21 11 0.22
22 8 0.16
23 6 0.12
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.01
Consensus pattern (20 bp):
AAGAACAAAAACAAAAAAGA
Found at i:317364 original size:14 final size:14
Alignment explanation
Indices: 317311--317370 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
317301 AAAAAAAAAG
*
317311 AAAAAGCAAAGAAAA
1 AAAAAG-AAAGAACA
317326 AAAAAGAAA-AA-A
1 AAAAAGAAAGAACA
* *
317338 GAGAAACAAAGAACA
1 -AAAAAGAAAGAACA
317353 AAAAAGAAAGAACA
1 AAAAAGAAAGAACA
317367 AAAA
1 AAAA
317371 TAAAAAAGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 1 0.03
13 9 0.24
14 21 0.55
15 7 0.18
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAACA
Found at i:318892 original size:36 final size:36
Alignment explanation
Indices: 318852--318973 Score: 106
Period size: 36 Copynumber: 3.4 Consensus size: 36
318842 ACTCATGATT
* * *
318852 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTCTCTTAAAACAAGATTTGTCTCCCTTGAGACA
* * * * *
318888 GTTT-TCACTAGAA-GAGTTTTGTCTCTCTTGAGACA
1 GTTTCTC-TTAAAACAAGATTTGTCTCCCTTGAGACA
* *
318923 GTTTCCCTTGAAACAA-ATTTTGTCTCCCTTGAGACA
1 GTTTCTCTTAAAACAAGA-TTTGTCTCCCTTGAGACA
*
318959 GTTTCTCTTGAAACA
1 GTTTCTCTTAAAACA
318974 TAAACATTGA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
35 27 0.40
36 41 0.60
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (36 bp):
GTTTCTCTTAAAACAAGATTTGTCTCCCTTGAGACA
Found at i:319057 original size:138 final size:138
Alignment explanation
Indices: 318902--319176 Score: 374
Period size: 138 Copynumber: 2.0 Consensus size: 138
318892 TCACTAGAAG
* * *
318902 AGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTC
1 AGTTTTATCTCTCTTGAGACAGTTTCCCTTGAAAC-AATTTTCGTCTACCTTGAGACAGTTTCCC
* * * * * *
318966 TTGAAACATAAA-CATTGAAAACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCT
65 TTGAAACA-AAATCATTGAAAACATTTCCCCTAAAACAAATTTCGTCTCCCTTGAGACAGTTACT
319030 CTTGAAACAA
129 CTTGAAACAA
* *
319040 AGTTTTATCTCTCTTGAGACAGTTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAGTTTCCCT
1 AGTTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAATTTTCGTCTACCTTGAGACAGTTTCCCT
* *** *
319105 TGAAACAAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCT
66 TGAAACAAAATCATTGAAAACATTTCCCCTAAAACAAATTTCGTCTCCCTTGAGACAGTTACTCT
319170 TGAAACA
131 TGAAACA
319177 CAAAATCTTC
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
137 9 0.08
138 110 0.92
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (138 bp):
AGTTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAATTTTCGTCTACCTTGAGACAGTTTCCCT
TGAAACAAAATCATTGAAAACATTTCCCCTAAAACAAATTTCGTCTCCCTTGAGACAGTTACTCT
TGAAACAA
Found at i:319098 original size:36 final size:36
Alignment explanation
Indices: 318989--319112 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
318979 ATTGAAAACA
* * *
318989 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
319025 TTTCTCTTGAAACAAAGTTTT-ATCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
* *
319062 TTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
319098 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
319113 AATCTTTGAA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
35 4 0.05
36 41 0.53
37 29 0.38
38 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:319175 original size:65 final size:65
Alignment explanation
Indices: 319071--319245 Score: 217
Period size: 67 Copynumber: 2.6 Consensus size: 65
319061 GTTTCTCTTG
** * **
319071 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCT
1 AAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCT
319135 A
65 A
* *
319136 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
319201 TA
64 TA
* * *
319203 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
319246 CAGATATCTT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
65 25 0.26
66 12 0.13
67 31 0.33
68 27 0.28
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:319205 original size:67 final size:67
Alignment explanation
Indices: 319062--319244 Score: 219
Period size: 68 Copynumber: 2.7 Consensus size: 67
319052 CTTGAGACAG
* * ** * **
319062 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAAT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAAT
319124 TTA
65 TTA
* *
319127 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATT
319192 TA
66 TA
* * *
319194 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACA
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
319245 ACAGATATCT
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
65 31 0.31
66 8 0.08
67 29 0.29
68 32 0.32
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (67 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATT
TA
Found at i:320087 original size:105 final size:105
Alignment explanation
Indices: 319849--320328 Score: 751
Period size: 105 Copynumber: 4.6 Consensus size: 105
319839 GCCATCCGCG
* * * * * *
319849 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACGATGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
319914 GGGATCGCTGGTTGTCAACAAC-ACTTCCCAATCTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
*
319956 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
320021 ACCGATGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
320061 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
320126 ACCGCTGCTTGTCAACAA-AA--TT-C-AT-TCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
* *
320160 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
320225 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
320265 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-AGCGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGG
320329 ATATTGGACT
Statistics
Matches: 348, Mismatches: 17, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
99 90 0.26
100 4 0.01
101 1 0.00
102 4 0.01
103 1 0.00
104 54 0.16
105 172 0.49
107 22 0.06
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
Found at i:320240 original size:204 final size:208
Alignment explanation
Indices: 319849--320328 Score: 781
Period size: 204 Copynumber: 2.3 Consensus size: 208
319839 GCCATCCGCG
* * * * * *
319849 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACGATGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
319914 GGGATCGCTGGTTGTCAACAACACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGAT
63 GGGACCGCTGCTTGTCAACAACAATT-CCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGAT
319979 ATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGATGCTTGTCAACAACAACT
127 ATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGATGCTTGTCAACAACAACT
320044 TTCCAATCTCAGAGCCA
192 TTCCAATCTCAGAGCCA
320061 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
320126 ACCGCTGCTTGTCAACAA-AATT-C-AT-TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
66 ACCGCTGCTTGTCAACAACAATTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
320187 GACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCC
131 GACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGATGCTTGTCAACAACAACTTTCC
320252 AATCTCAGAGCCA
196 AATCTCAGAGCCA
320265 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-AGCGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGG
320329 ATATTGGACT
Statistics
Matches: 256, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
203 1 0.00
204 174 0.68
205 2 0.01
206 1 0.00
208 3 0.01
209 50 0.20
210 3 0.01
212 22 0.09
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (208 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAATTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGATGCTTGTCAACAACAACTTTCC
AATCTCAGAGCCA
Found at i:320328 original size:43 final size:43
Alignment explanation
Indices: 320267--320371 Score: 176
Period size: 43 Copynumber: 2.4 Consensus size: 43
320257 CAGAGCCAAT
*
320267 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*
320310 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
320353 TTCAACTTCAC-GACGAAGG
1 TTCAACTTCACAG-CGAAGG
320372 GACCGCTGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (43 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:320344 original size:148 final size:148
Alignment explanation
Indices: 320162--320476 Score: 578
Period size: 148 Copynumber: 2.1 Consensus size: 148
320152 CAGAGCCAAT
320162 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
* * *
320227 CGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CGCTGCTTGTCAACAACAACTTCCCAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTG
320292 GACTCCAGACAACGCAAG
131 GACTCCAGACAACGCAAG
320310 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
*
320375 CGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTG
66 CGCTGCTTGTCAACAACAACTTCCCAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTG
320440 GACTCCAGACAACGCAAG
131 GACTCCAGACAACGCAAG
320458 TTCAACTTCAC-GACGAAGG
1 TTCAACTTCACAG-CGAAGG
320477 GACCGCTGCT
Statistics
Matches: 162, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
147 1 0.01
148 161 0.99
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (148 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
CGCTGCTTGTCAACAACAACTTCCCAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATATTG
GACTCCAGACAACGCAAG
Found at i:320419 original size:105 final size:102
Alignment explanation
Indices: 320310--320646 Score: 441
Period size: 105 Copynumber: 3.3 Consensus size: 102
320300 ACAACGCAAG
*
320310 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
320375 CGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCAAT
66 CGCTGCTTGTCAACAACAA-TTCCC-AT-CCAGAGCCAAT
* *
320415 TTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * **
320480 CGCTGCTTGTCAAC-A-AATT-TCATTCAGATTCAAT
66 CGCTGCTTGTCAACAACAATTCCCATCCAGAGCCAAT
* * *
320514 TTCAACTTCACA-CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
320578 GGCTGGTTGTCAACAACAATTTCCCGGTTCCAGAGCCAAT
66 CGCTGCTTGTCAACAACAA-TTCCC--ATCCAGAGCCAAT
*
320618 TTCAACTTCAC-GACGGAGGATATTGGACT
1 TTCAACTTCACAG-CGAAGGATATTGGACT
320647 TGGAACAATC
Statistics
Matches: 204, Mismatches: 20, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
98 60 0.29
99 21 0.10
100 4 0.02
101 3 0.01
102 3 0.01
103 2 0.01
104 21 0.10
105 90 0.44
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (102 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGCTGCTTGTCAACAACAATTCCCATCCAGAGCCAAT
Found at i:321232 original size:33 final size:36
Alignment explanation
Indices: 321189--321287 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 36
321179 TTTCGTCCTA
321189 CTAGGATTCAAACTCCTAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAATAGGATAGACATTTT
321223 -TAGGATTCAAACTCCTAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAATAGGATAGACATTTT
321257 GCTAGGATTCAAACTCCTAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAATAGGATAGA
321288 GTTCTACTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
32 1 0.02
33 28 0.47
34 3 0.05
36 27 0.45
37 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAATAGGATAGACATTTT
Found at i:321270 original size:36 final size:34
Alignment explanation
Indices: 321189--321321 Score: 162
Period size: 36 Copynumber: 3.8 Consensus size: 34
321179 TTTCGTCCTA
321189 CTAGGATTCAAACTCCTAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAATAGGATAGAATTT
321223 -TAGGATTCAAACTCCTAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAATAGGATAGA-A-TTT
*
321257 GCTAGGATTCAAACTCCTAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAATAGGATAGAATT-T
* * *
321293 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAA-ATAGGAT
321322 CCACAAGCAC
Statistics
Matches: 87, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
32 1 0.01
33 28 0.32
34 3 0.03
35 2 0.02
36 45 0.52
37 8 0.09
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (34 bp):
CTAGGATTCAAACTCCTAAAATAGGATAGAATTT
Found at i:321893 original size:2 final size:2
Alignment explanation
Indices: 321888--321919 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
321878 CTTATAACTT
321888 TA TA TA TA TA -A 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 T
321920 TTTCGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:322170 original size:8 final size:8
Alignment explanation
Indices: 322159--322199 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
322149 TTACTTTTAC
322159 TATTTTTT
1 TATTTTTT
*
322167 TATTTATT
1 TATTTTTT
*
322175 TATTATTT
1 TATTTTTT
322183 TATTTATTT
1 TATTT-TTT
322192 TATTTTTT
1 TATTTTTT
322200 CCTTTTACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TATTTTTT
Found at i:327406 original size:31 final size:31
Alignment explanation
Indices: 327368--327433 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
327358 AGTTACGTCG
* *
327368 GGGACCATATTGCAAATAGACTAAATGTTGA
1 GGGACCATATCGCAAACAGACTAAATGTTGA
*
327399 GGGACCATATCGCAAACAGACTAAATGTTGG
1 GGGACCATATCGCAAACAGACTAAATGTTGA
327430 GGGA
1 GGGA
327434 TTAAATTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (31 bp):
GGGACCATATCGCAAACAGACTAAATGTTGA
Found at i:328498 original size:27 final size:27
Alignment explanation
Indices: 328460--328516 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
328450 ATCAAAGGAA
*
328460 AACTTTTCCAACAAACCAACCAGACAT
1 AACTATTCCAACAAACCAACCAGACAT
328487 AACTATTCCAACAAACCAACCAGACAT
1 AACTATTCCAACAAACCAACCAGACAT
328514 AAC
1 AAC
328517 AACAGACGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (27 bp):
AACTATTCCAACAAACCAACCAGACAT
Found at i:330590 original size:31 final size:31
Alignment explanation
Indices: 330522--330596 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
330512 TTAAAACTTA
* *
330522 CAATATAATCCCCCAACATTTAGTCCATTTG
1 CAATATGATCCCCCAACATTTAGTCCATTTC
* *
330553 CAATATGATCCCTCAACATTTAGTCCGTTTC
1 CAATATGATCCCCCAACATTTAGTCCATTTC
*
330584 CAATATGGTCCCC
1 CAATATGATCCCC
330597 GACGTAACTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (31 bp):
CAATATGATCCCCCAACATTTAGTCCATTTC
Found at i:332008 original size:35 final size:35
Alignment explanation
Indices: 331962--332041 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
331952 AACATAGTCA
*
331962 TCAATTACATTCTAAACCCCAAATTCC-AAAATACT
1 TCAATTACATTCTAAA-CACAAATTCCAAAAATACT
*
331997 TCAATTACATTCTAAACATAAATTCCAAAAATACT
1 TCAATTACATTCTAAACACAAATTCCAAAAATACT
332032 TCAATTACAT
1 TCAATTACAT
332042 GACCAATCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 8 0.19
35 34 0.81
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (35 bp):
TCAATTACATTCTAAACACAAATTCCAAAAATACT
Found at i:332793 original size:35 final size:35
Alignment explanation
Indices: 332753--332846 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
332743 AATGGATTGT
** *
332753 GAATTTGGGGTTGGACATGTAATTGAAGAATTTTG
1 GAATTTGGGGTTCAAAATGTAATTGAAGAATTTTG
* *
332788 GAATTTGAGGTTCAAAATGTAATTGAAGCATTTTG
1 GAATTTGGGGTTCAAAATGTAATTGAAGAATTTTG
* *
332823 G-ATTTTGGGTT-TAAATGTAATTGA
1 GAATTTGGGGTTCAAAATGTAATTGA
332847 TGACTTTCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 12 0.24
34 8 0.16
35 31 0.61
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (35 bp):
GAATTTGGGGTTCAAAATGTAATTGAAGAATTTTG
Found at i:332844 original size:33 final size:35
Alignment explanation
Indices: 332769--332846 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
332759 GGGGTTGGAC
332769 ATGTAATTGAAGAATTTTGGAATTTGAGGTTCAAA
1 ATGTAATTGAAGAATTTTGGAATTTGAGGTTCAAA
* * *
332804 ATGTAATTGAAGCATTTTGGATTTTG-GGTT-TAA
1 ATGTAATTGAAGAATTTTGGAATTTGAGGTTCAAA
332837 ATGTAATTGA
1 ATGTAATTGA
332847 TGACTTTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 12 0.30
34 4 0.10
35 24 0.60
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (35 bp):
ATGTAATTGAAGAATTTTGGAATTTGAGGTTCAAA
Found at i:353987 original size:2 final size:2
Alignment explanation
Indices: 353980--354021 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
353970 ATAGTTACTC
353980 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT A- 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
354020 AT
1 AT
354022 TGAGGATGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:354002 original size:17 final size:17
Alignment explanation
Indices: 353980--354021 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
353970 ATAGTTACTC
*
353980 ATATATATATATATATT
1 ATATATATATATATATA
353997 ATATATATATATATATA
1 ATATATATATATATATA
354014 ATATATAT
1 ATATATAT
354022 TGAGGATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:355988 original size:31 final size:32
Alignment explanation
Indices: 355950--356011 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
355940 CTACCAAAAT
*
355950 TTACCAAACTTTG-AAAACATTTTTCAAAGAA
1 TTACCAAACTTTGAAAAACATTTTCCAAAGAA
355981 TTACCAAACTTTGAAAAAACATTTTCCAAAG
1 TTACCAAACTTTG-AAAAACATTTTCCAAAG
356012 TTGGTTGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 13 0.46
33 15 0.54
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (32 bp):
TTACCAAACTTTGAAAAACATTTTCCAAAGAA
Found at i:356714 original size:20 final size:21
Alignment explanation
Indices: 356678--356719 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
356668 TAAAAGCTCC
356678 CACTGCATGAGCATATCTGGT
1 CACTGCATGAGCATATCTGGT
356699 CACTGCATGA-CATATCTGGT
1 CACTGCATGAGCATATCTGGT
356719 C
1 C
356720 TGGTACAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (21 bp):
CACTGCATGAGCATATCTGGT
Found at i:360080 original size:16 final size:16
Alignment explanation
Indices: 360056--360089 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
360046 TATCGCCGAC
*
360056 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
360072 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
360088 CG
1 CG
360090 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:361459 original size:22 final size:22
Alignment explanation
Indices: 361434--361476 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
361424 AAAATATGAC
361434 ATACAATATAGAGAGAGATAAT
1 ATACAATATAGAGAGAGATAAT
* *
361456 ATACAGTATAGAGAGATATAA
1 ATACAATATAGAGAGAGATAA
361477 ATCCATAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.19, T:0.23
Consensus pattern (22 bp):
ATACAATATAGAGAGAGATAAT
Found at i:362109 original size:2 final size:2
Alignment explanation
Indices: 362102--362163 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
362092 AGTCTGATTG
362102 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
362144 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
362164 GTTAATTATA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:363695 original size:3 final size:3
Alignment explanation
Indices: 363689--363741 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
363679 GCAAAAAAAC
363689 ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
363734 AT- ATA ATA
1 ATA ATA ATA
363742 TATATATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:363746 original size:2 final size:2
Alignment explanation
Indices: 363734--363772 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
363724 TAATAATAAA
363734 AT AT A- 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
363773 TTATGATATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:363820 original size:15 final size:15
Alignment explanation
Indices: 363802--363841 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
363792 AAACAATTGT
*
363802 TTTTCAAATAATATA
1 TTTTCAAAAAATATA
*
363817 TTTTCAAAAAATATC
1 TTTTCAAAAAATATA
*
363832 TTTTTAAAAA
1 TTTTCAAAAA
363842 CAATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTTCAAAAAATATA
Found at i:363936 original size:37 final size:37
Alignment explanation
Indices: 363812--364144 Score: 285
Period size: 37 Copynumber: 8.9 Consensus size: 37
363802 TTTTCAAATA
* * *
363812 ATATATTTTCAAAAAATATCTTTTTAAAAACAATATATAT
1 ATATATTTTC--AAAA-ATGTTTTCAAAAACTATATATAT
* * *
363852 ATATTTTTTTAAAAATGTTTT-AAAAAC--CATATA-
1 ATATATTTTCAAAAATGTTTTCAAAAACTATATATAT
* *
363885 ATATGTTTTAAAAAATGTTTTCCAAAAACTATATA-AT
1 ATATATTTTCAAAAATGTTTT-CAAAAACTATATATAT
*
363922 ATATGTTTTCAAAAATGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAATGTTTTCAAAAACTATATA-TAT
*
363960 ATATAATTT-AAAAATGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAATGTTTTCAAAAACTATATA-TAT
***
363997 ATATATTTTCAAAAGCATTTTCAAAAACTATATATATT
1 ATATATTTTCAAAAATGTTTTCAAAAACTATATATA-T
364035 ATATATGTTTTC--AAAT-TTTTC-AAAACTATATAATACAT
1 ATATA--TTTTCAAAAATGTTTTCAAAAACTATAT-AT--AT
** *
364073 ATATATTTT-TGAAATATTTTC-AAAACTATACATATAT
1 ATATATTTTCAAAAATGTTTTCAAAAACTAT--ATATAT
*
364110 ATATATTTTCAAAAATCGTTTTCTAAAAATTATAT
1 ATATATTTTCAAAAAT-GTTTTC-AAAAACTATAT
364145 TTTTTTAAAA
Statistics
Matches: 250, Mismatches: 20, Indels: 47
0.79 0.06 0.15
Matches are distributed among these distances:
33 19 0.08
34 5 0.02
35 6 0.02
36 34 0.14
37 89 0.36
38 65 0.26
39 10 0.04
40 15 0.06
41 7 0.03
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (37 bp):
ATATATTTTCAAAAATGTTTTCAAAAACTATATATAT
Found at i:363941 original size:12 final size:12
Alignment explanation
Indices: 363924--363948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
363914 TATATAATAT
363924 ATGTTTTCAAAA
1 ATGTTTTCAAAA
363936 ATGTTTTCAAAA
1 ATGTTTTCAAAA
363948 A
1 A
363949 CTATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:365091 original size:81 final size:80
Alignment explanation
Indices: 364748--365667 Score: 699
Period size: 83 Copynumber: 11.2 Consensus size: 80
364738 TACCTTGGGC
* * * * * *
364748 TATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTATTGGCAGAT
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA-TCGAACTCGAGGGTC--T-TTGGCAGAT
364812 AACCCTTCTCGACTTAAGT
62 AACCCTTCTCGACTTAAGT
* * * * * * *
364831 TATGCTGCAAATGATATG-CCTTGGAGATGAGCGTAGTCGAACTTGAAGGTCTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA-TCGAACTCGAGGGTCTTT-G-G-CAGAT
* *
364895 AACCCTTC-CAGCCTTGAGT
62 AACCCTTCTC-GACTTAAGT
* * * * * * *
364914 TATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTCTGGTGACAAA
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA-TCGAACTCGAGGGTCTT-T-G-G-CAGA
* * *
364978 TAACCCTTCTAGCCTTGAGT
61 TAACCCTTCTCGACTTAAGT
* * * * * * * *
364998 TATACTGTAAATGATGTGTCCTCAAAGCTGAATGTGACCAAACTCGAGGGTCTTTGGCAGATAGC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGT-ATCGAACTCGAGGGTCTTTGGCAGATAAC
* *
365063 CCTTATCGACTTAAGC
65 CCTTCTCGACTTAAGT
* * * * *
365079 TATACTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTGGAAGAT
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA-TCGAACTCGAGGGTC-TT--TGGCAGAT
* * *
365143 AACCCTTCTAGCCTTTAGT
62 AACCCTTCTCGACTTAAGT
* * * *
365162 TATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATTGAACTCGGGGGTCTTTGGCAGATAAC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGT-ATCGAACTCGAGGGTCTTTGGCAGATAAC
365227 CCTTCTCGACTTAAGT
65 CCTTCTCGACTTAAGT
* * * * * * *
365243 TATGCTGCAAATGATGT-ACATTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTCGTGGCAAAT
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA-TCGAACTCGAGGGTC-TT--TGGCAGAT
* *
365307 AACCCTTC-CAGCCTTGAGT
62 AACCCTTCTC-GACTTAAGT
* * * * *
365326 TATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGTCAGATAGC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGT-ATCGAACTCGAGGGTCTTTGGCAGATAAC
*
365391 CCTTCTCGACTTAAGC
65 CCTTCTCGACTTAAGT
* * * * *
365407 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCGTTGGTTGGCAGA
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA-TCGAACTCGAGGGTC--T--TTGGCAGA
* * *
365471 TAACCCTTATTGATTTAAGT
61 TAACCCTTCTCGACTTAAGT
* * *
365491 TATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTTTTTGGCAGATAAC
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGT-ATCGAACTCGAGGGTCTTTGGCAGATAAC
*
365556 CCTTCTCGACTTAAGC
65 CCTTCTCGACTTAAGT
* * * * *
365572 TATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTATGGTTGGCAGA
1 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA-TCGAACTCGAGGGTC--T--TTGGCAGA
365636 TAACCCTTCTC-AGCTTAAGT
61 TAACCCTTCTCGA-CTTAAGT
* *
365656 TATACTTCAAAT
1 TATGCTGCAAAT
365668 AGTTTGTATA
Statistics
Matches: 680, Mismatches: 122, Indels: 69
0.78 0.14 0.08
Matches are distributed among these distances:
79 4 0.01
80 100 0.15
81 153 0.22
82 7 0.01
83 193 0.28
84 171 0.25
85 50 0.07
86 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (80 bp):
TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTATCGAACTCGAGGGTCTTTGGCAGATAACC
CTTCTCGACTTAAGT
Found at i:365521 original size:329 final size:328
Alignment explanation
Indices: 364724--365667 Score: 1243
Period size: 329 Copynumber: 2.9 Consensus size: 328
364714 ATTTTATTGA
* ** *
364724 CAGATAGCCCTTCT-TACCTTGGGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 CAGATAGCCCTTCTCGA-CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* ** * * *
364788 ACTCAAAGGTCTTTATTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCT
65 ACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTAGATTTAAGTTATGCTACAAATGATATGCCCT
* * * * * * ** * *
364852 TGGAGATGAGCGTAGTCGAACTTGAAGGTCTTTGGTGACAGATAACCCTTC-CAGCCTTGAGTTA
130 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAGATAACCCTTCTC-GACTTAAGTTA
* * *
364916 TGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTCTGGTGACAAATAA
191 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGGTGGCAAATAA
* ** * * *
364981 CCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGTCCTCAAAGCTGAATGTGACCAAACTCGAG
255 CCCTTCCAGCCTTGAGTTATACTACAAATGATATGCCCTCAAAGCTGAATGTAACCAAACTCGAG
365046 GGTCTTTGG
320 GGTCTTTGG
* * *
365055 CAGATAGCCCTTATCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
365120 CTCGAAGGTCTTTGG-TGGAAGATAACCCTTCTAGCCTTT-AGTTATGCTACAAATGATATGCCC
66 CTCGAAGGTC-TTGGTTGGCAGATAACCCTTCTAG-ATTTAAGTTATGCTACAAATGATATGCCC
*
365183 TCGAAGCTGAGTGTAATTGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
129 TCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* * *
365248 TGCAAATGATGTACATTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTCGTGGCAAATAACCCT
194 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAAATAACCCT
* * * * * *
365313 TCCAGCCTTGAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC
259 TCCAGCCTTGAGTTATACTACAAATGATATGCCCTCAAAGCTGAATGTAACCAAACTCGAGGGTC
*
365378 TTTGT
324 TTTGG
*
365383 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * *
365448 CTCGAAGGTCGTTGGTTGGCAGATAACCCTTATTGATTTAAGTTATGCTACAAATGATGTGCCCT
66 CTCGAAGGTC-TTGGTTGGCAGATAACCCTTCTAGATTTAAGTTATGCTACAAATGATATGCCCT
* * *
365513 CGAAGCTGAGTGTAATCGAACTCGGGGGTTTTTGGCAGATAACCCTTCTCGACTTAAGCTATACT
130 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
* *
365578 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTATGGTTGGCAGATAACCCT
195 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAAATAACCCT
* *
365643 TCTCAG-CTTAAGTTATACTTCAAAT
259 TC-CAGCCTTGAGTTATACTACAAAT
365668 AGTTTGTATA
Statistics
Matches: 537, Mismatches: 67, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
328 150 0.28
329 216 0.40
330 33 0.06
331 106 0.20
332 32 0.06
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (328 bp):
CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTGGTTGGCAGATAACCCTTCTAGATTTAAGTTATGCTACAAATGATATGCCCTC
GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
CAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAAATAACCCTTC
CAGCCTTGAGTTATACTACAAATGATATGCCCTCAAAGCTGAATGTAACCAAACTCGAGGGTCTT
TGG
Found at i:365561 original size:165 final size:164
Alignment explanation
Indices: 364746--365667 Score: 1193
Period size: 164 Copynumber: 5.6 Consensus size: 164
364736 CTTACCTTGG
* * **
364746 GCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTATTGGCAGA
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGA
* * * * * * * * *
364811 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGATGAGCGTAGTCGAACTT
66 TAACCCTTCTAGCCTTAAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
** * *
364875 GAAGGTCTTTGGTGACAGATAACCCTTC-CAGCCTTGA
131 GGGGGTCTTT-G-G-CAGATAACCCTTCTC-GACTTAA
* * * * *
364912 GTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTCTGGTGACAA
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGGTGGCAG
* * ** * * * * * * *
364977 ATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGTCCTCAAAGCTGAATGTGACCAAACT
65 ATAACCCTTCTAGCCTTAAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
* * *
365042 CGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAA
130 CGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAA
* * *
365077 GCTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTGGAAGA
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGA
* *
365142 TAACCCTTCTAGCCTTTAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATTGAACTC
66 TAACCCTTCTAGCCTTAAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
365207 GGGGGTCTTTGGCAGATAACCCTTCTCGACTTAA
131 GGGGGTCTTTGGCAGATAACCCTTCTCGACTTAA
* * * * *
365241 GTTATGCTGCAAATGATGTACATTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTCGTGGCAAA
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGA
* *
365306 TAACCCTTCCAGCCTTGAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
66 TAACCCTTCTAGCCTTAAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
* *
365371 GGGGGTCTTTGTCAGATAGCCCTTCTCGACTTAA
131 GGGGGTCTTTGGCAGATAACCCTTCTCGACTTAA
* *
365405 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCGTTGGTTGGCAG
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAG
* * ** *
365470 ATAACCCTTATTGATTTAAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
65 ATAACCCTTCTAGCCTTAAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACT
*
365535 CGGGGGTTTTTGGCAGATAACCCTTCTCGACTTAA
130 CGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAA
* *
365570 GCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTATGGTTGGCAG
1 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAG
* *
365635 ATAACCCTTCTCAG-CTTAAGTTATACTTCAAAT
65 ATAACCCTTCT-AGCCTTAAGTTATGCTACAAAT
365668 AGTTTGTATA
Statistics
Matches: 662, Mismatches: 89, Indels: 11
0.87 0.12 0.01
Matches are distributed among these distances:
164 294 0.44
165 248 0.37
166 57 0.09
167 39 0.06
168 24 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (164 bp):
GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGA
TAACCCTTCTAGCCTTAAGTTATGCTACAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTC
GGGGGTCTTTGGCAGATAACCCTTCTCGACTTAA
Found at i:367002 original size:2 final size:2
Alignment explanation
Indices: 366995--367040 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
366985 TCGTCTCATT
366995 TA TA TA TA TA TA TA TA TA TA TA TA TA -A 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
367036 T- TA TA
1 TA TA TA
367041 GTTTAAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:367086 original size:37 final size:34
Alignment explanation
Indices: 367025--367207 Score: 162
Period size: 37 Copynumber: 5.2 Consensus size: 34
367015 TATATAATAT
*
367025 ATATATATATATTATAG-TTTAAAACAATTTTTAAA
1 ATATATA-ATA-TATAGTTTTAAAACAATTTTGAAA
367060 ACCTATATAATATATAGTTTTGAAAAC-ATGTTTGAAA
1 A--TATATAATATATAGTTTT-AAAACAAT-TTTGAAA
* *
367097 ATTTATATATTATATAGTTTTTAAAA-TATTTTGAAA
1 A--TATATAATATATAG-TTTTAAAACAATTTTGAAA
*
367133 ATAATATAATATATAATTTTAAAACAATTTT-AAA
1 AT-ATATAATATATAGTTTTAAAACAATTTTGAAA
* *
367167 AAATATAAATTATATAGTTTTTAAAC-A-TTTGAAA
1 ATATAT-AA-TATATAGTTTTAAAACAATTTTGAAA
367201 ATATATA
1 ATATATA
367208 GTTTTTAAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
33 8 0.06
34 24 0.19
35 36 0.29
36 16 0.13
37 37 0.30
38 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (34 bp):
ATATATAATATATAGTTTTAAAACAATTTTGAAA
Found at i:367188 original size:70 final size:69
Alignment explanation
Indices: 367063--367207 Score: 188
Period size: 70 Copynumber: 2.1 Consensus size: 69
367053 TTTTAAAACC
* ** * *
367063 TATATAATATATAGTTTTGAAAACATGTTTGAAAATTTATATATTATATAGTTTTTAAAATATTT
1 TATATAATATATAATTTTGAAAACATGTTTGAAAAAATATAAATTATATAGTTTTT-AAACA-TT
367128 TGAAAA
64 TGAAAA
367134 TAATATAATATATAATTTT-AAAACAAT-TTT-AAAAAATATAAATTATATAGTTTTTAAACATT
1 T-ATATAATATATAATTTTGAAAAC-ATGTTTGAAAAAATATAAATTATATAGTTTTTAAACATT
367196 TGAAAA
64 TGAAAA
367202 TATATA
1 TATATA
367208 GTTTTTAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
67 5 0.07
68 9 0.13
69 4 0.06
70 22 0.33
71 9 0.13
72 18 0.27
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (69 bp):
TATATAATATATAATTTTGAAAACATGTTTGAAAAAATATAAATTATATAGTTTTTAAACATTTG
AAAA
Found at i:367190 original size:25 final size:26
Alignment explanation
Indices: 367160--367218 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
367150 TTTAAAACAA
*
367160 TTTTAAAAAATAT-AAATTATATAGT
1 TTTTAAAAAATATGAAAATATATAGT
* *
367185 TTTT-AAACATTTGAAAATATATAGT
1 TTTTAAAAAATATGAAAATATATAGT
367210 TTTTAAAAA
1 TTTTAAAAA
367219 TATTTTGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.21
25 19 0.68
26 3 0.11
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (26 bp):
TTTTAAAAAATATGAAAATATATAGT
Found at i:367338 original size:24 final size:22
Alignment explanation
Indices: 367295--367342 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
367285 AAAACATTTT
*
367295 AAAAACTATATAATTTTTTTTAA
1 AAAAACTATATAA-TTATTTTAA
367318 AAAAAC-ATATATATATATTTTAA
1 AAAAACTATATA-AT-TATTTTAA
367341 AA
1 AA
367343 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAACTATATAATTATTTTAA
Found at i:367410 original size:14 final size:12
Alignment explanation
Indices: 367381--367451 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 12
367371 TTGGAAACTG
367381 TTTTTTAGTTTAT
1 TTTTTTA-TTTAT
367394 TTTTTTATTTACCT
1 TTTTTTATTTA--T
*
367408 TTTGTTATTTA-
1 TTTTTTATTTAT
*
367419 TTTATTATTTA-
1 TTTTTTATTTAT
*
367430 TTATTTATTT-T
1 TTTTTTATTTAT
367441 TATTTTTATTT
1 T-TTTTTATTT
367452 TGTTGCAGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 19 0.39
12 12 0.24
13 7 0.14
14 11 0.22
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:367426 original size:25 final size:26
Alignment explanation
Indices: 367381--367429 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
367371 TTGGAAACTG
*
367381 TTTTTTAGTTTATTTTTTTATTTACC
1 TTTTTTAGTTTATTTTATTATTTACC
367407 TTTTGTTA-TTTA-TTTATTATTTA
1 TTTT-TTAGTTTATTTTATTATTTA
367430 TTATTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 8 0.38
27 3 0.14
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (26 bp):
TTTTTTAGTTTATTTTATTATTTACC
Found at i:367428 original size:7 final size:7
Alignment explanation
Indices: 367416--367450 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
367406 CTTTTGTTAT
367416 TTATTTA
1 TTATTTA
367423 TTATTTA
1 TTATTTA
367430 TTATTTA
1 TTATTTA
367437 TT-TTTA
1 TTATTTA
367443 TT-TTTA
1 TTATTTA
367449 TT
1 TT
367451 TTGTTGCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTATTTA
Found at i:367452 original size:5 final size:6
Alignment explanation
Indices: 367419--367452 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
367409 TTGTTATTTA
367419 TTTATT ATTTATT ATTTATT TTTATT TTTATT TT
1 TTTATT -TTTATT -TTTATT TTTATT TTTATT TT
367453 GTTGCAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:368755 original size:25 final size:25
Alignment explanation
Indices: 368706--368756 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
368696 TTTTCTTCTC
* **
368706 TCTATTTTATTTATTTATTTTTTTT
1 TCTATTTTATTTATTTAATGATTTT
368731 TCTATTTTATTTATTTAATGATTTT
1 TCTATTTTATTTATTTAATGATTTT
368756 T
1 T
368757 TATCTATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (25 bp):
TCTATTTTATTTATTTAATGATTTT
Found at i:374047 original size:81 final size:80
Alignment explanation
Indices: 373815--374574 Score: 622
Period size: 81 Copynumber: 9.5 Consensus size: 80
373805 TTTGCCAGCT
*** * *
373815 AAAGACCTTCGAGTTCGACTACG-TCAGCTTTGAGGGA-A-CA-TTACAGCATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
373876 GAAGGGTTATCTGCAAC
66 GAAGGGTTATCTGC--C
* * *
373893 AAAAGACCTTCGAGTTTGA-TACGCTCAGCTCCAAGG--CA-CATTTGCAGTATAGCTTAAGTCG
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* *
373954 AGAATGGCTATCTGCC
65 AGAAGGGTTATCTGCC
** * * ** * *
373970 AAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGCAGCATAACTTAAGTCA
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
374035 AGAAGGGTTATCTGCCAAC
65 AGAAGGGTTATCTG-C--C
* *
374054 AAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCA-TTGCAG--TAGCTTAAGTCG
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
*
374116 AGAAGGGCTATCTGCC
65 AGAAGGGTTATCTGCC
** * * * *
374132 AAAGACCCCCGAGTTCGATTACACTCAGCT-TAGAGGGCACATCATTTGCAGTATAACTTAAGTC
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCA-A-GGCACATCATTTGCAGCATAACTTAAGTC
374196 GAGAAGGGTTATCTGCCAACC
64 GAGAAGGGTTATCTG----CC
* * * * * *
374217 AAAGGCCTTCGAGTTCAACTACGCTTAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
374282 GAAGGGTTGTCTGCC
66 GAAGGGTTATCTGCC
* * * *
374297 AATAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATCA-TTGCAGCACAGCTTAA
1 ----AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAA
374360 GTC-AGAAGGGTTATCTGCC
61 GTCGAGAAGGGTTATCTGCC
* * * * ** * * * * *
374379 AAAGACC-CCGAGTTCGATTACACTCAGCTTCGGGGCACATCA-TTACATCATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
374442 GAAGGGTTATCTGTGACC
66 GAAGGGTTATC--TG-CC
* * * * * *
374460 AAA-ACATTCGAGTTCGACTACGTTTAGCTCCAAGGCACATCATTTACAGCATAGCTTAACTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
* *
374524 GAAAGGCTATCTGCC
66 GAAGGGTTATCTGCC
** * * * *
374539 -AAGACCCCCGAGTTCGATTACACTCAGATCGAAGGC
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
374575 CTATCAACCA
Statistics
Matches: 546, Mismatches: 100, Indels: 70
0.76 0.14 0.10
Matches are distributed among these distances:
76 16 0.03
77 75 0.14
78 43 0.08
79 88 0.16
80 11 0.02
81 111 0.20
82 40 0.07
83 27 0.05
84 84 0.15
85 50 0.09
86 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (80 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
GAAGGGTTATCTGCC
Found at i:374297 original size:246 final size:242
Alignment explanation
Indices: 373767--374540 Score: 770
Period size: 246 Copynumber: 3.2 Consensus size: 242
373757 TTTTCTTAAA
* * * * * * * * * *
373767 CACATCATTTGCAACATAGCTCAAGGCAATAAGGGCTATTTGCCAGCTAAAGACCTTCGAGTTCG
1 CACATCATTTGCAGCACAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCG
** * * *
373832 ACTACGTCAGCTTTGAGGGA-A-CATTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACAA
66 ACTACGTCAGC-TCAAGGCACATCATTGCAG-ATAGCTTAAGTCGAGAAGGGTTATCTGC--C-A
** * * * *
373895 AAGACCTTCGAGTTTGA-TACGCTCAGCTCCA-A-GG--CA-CATTTGCAGTATAGCTTAAGTCG
126 AAGACCCCCGAGTTCGATTACACTCAGCT-TAGAGGGCACATCATTTGCAGTATAACTTAAGTCG
* * ** * * * ** *
373954 AGAATGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGG
190 AGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTTAGC-TCCAAGG
*
374007 CACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCG
1 CACATCATTTGCAGCACAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCG
*
374072 ACTACGTTCAGCTCCAAGGCACATCATTGCAG-TAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG
66 ACTACG-TCAGCT-CAAGGCACATCATTGCAGATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAG
374136 ACCCCCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAA
129 ACCCCCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAA
* *
374201 GGGTTATCTGCCAACCAAAGGCCTTCGAGTTCAACTACGCTTAGCTCCAAGG
194 GGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGG
* * * * *
374253 CATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCG
1 CACATCATTTGCAGCACAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCG
* *
374318 ACTACGCTCAGCTCAACGACACATCATTGCAGCACAGCTTAAGTC-AGAAGGGTTATCTGCCAAA
66 ACTACG-TCAGCTCAA-GGCACATCATTGCAG-ATAGCTTAAGTCGAGAAGGGTTATCTGCCAAA
* * * * *
374382 GA-CCCCGAGTTCGATTACACTCAGCTTCG-GGGCACATCA-TTACA-TCATAACTCAAGGCTAG
128 GACCCCCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGT-ATAACTTAAGTCGAG
* *
374443 AAGGGTTATCTGTGACCAAA-ACATTCGAGTTCGACTACGTTTAGCTCCAAGG
192 AAGGGTTATC--TGACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGG
* * * * * * *
374495 CACATCATTTACAGCATAGCTTAACTCGAGAAAGGCTATCTGCCAA
1 CACATCATTTGCAGCACAACTTAAGTCAAGAAGGGTTATCTGCCAA
374541 GACCCCCGAG
Statistics
Matches: 453, Mismatches: 61, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
238 16 0.04
239 12 0.03
240 65 0.14
241 34 0.08
242 68 0.15
243 48 0.11
244 26 0.06
245 13 0.03
246 117 0.26
247 44 0.10
248 10 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (242 bp):
CACATCATTTGCAGCACAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCG
ACTACGTCAGCTCAAGGCACATCATTGCAGATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGAC
CCCCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGG
GTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGG
Found at i:374927 original size:24 final size:24
Alignment explanation
Indices: 374900--374946 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
374890 TATATATATA
*
374900 TATATTAA-AAATATTTTTAAAACC
1 TATA-TAATAAATATTTTGAAAACC
*
374924 TATATAATATATATTTTGAAAAC
1 TATATAATAAATATTTTGAAAAC
374947 ATTTTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (24 bp):
TATATAATAAATATTTTGAAAACC
Found at i:374928 original size:34 final size:34
Alignment explanation
Indices: 374889--375063 Score: 146
Period size: 34 Copynumber: 5.1 Consensus size: 34
374879 CGTCTCATAT
* *
374889 ATATATATATATATATTAAAAATATTTTTAAAAC
1 ATATATATATATATATTTAAAATATTTTGAAAAC
* *
374923 CTATATA-ATATATATTTTGAAAACATTTTGAAAAC
1 ATATATATATATATA-TTT-AAAATATTTTGAAAAC
* * *
374958 ATTTATATATATAGT-TTTTAAATATTTTGAAAAT
1 ATATATATATATA-TATTTAAAATATTTTGAAAAC
* *
374992 AAATATA-ATATATAATTTTAAAATATTTT-AAAAA
1 ATATATATATATAT-A-TTTAAAATATTTTGAAAAC
* * *
375026 ATATAT-TATATAGT-TTTTAAACATTTTGAAAAT
1 ATATATATATATA-TATTTAAAATATTTTGAAAAC
375059 ATATA
1 ATATA
375064 GTTTTTAAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
32 12 0.11
33 21 0.18
34 40 0.35
35 35 0.31
36 5 0.04
37 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (34 bp):
ATATATATATATATATTTAAAATATTTTGAAAAC
Found at i:374998 original size:32 final size:33
Alignment explanation
Indices: 374891--375063 Score: 133
Period size: 35 Copynumber: 5.2 Consensus size: 33
374881 TCTCATATAT
** *
374891 ATATATATATA-TATTAAAAATATTTTTAAAACCT-
1 ATATATATATAGT-TTTTAAATATTTTGAAAA--TA
* * *
374925 ATATAATATATA-TTTTGAAAACATTTTGAAAACA
1 ATAT-ATATATAGTTTT-TAAATATTTTGAAAATA
*
374959 TTTATATATATAGTTTTTAAATATTTTGAAAATAA
1 -ATATATATATAGTTTTTAAATATTTTGAAAAT-A
* *
374994 ATATAATATATAATTTTAAAATATTTT-AAAA-A
1 ATAT-ATATATAGTTTTTAAATATTTTGAAAATA
*
375026 ATATATTATATAGTTTTTAAACATTTTGAAAAT-
1 ATATA-TATATAGTTTTTAAATATTTTGAAAATA
375059 ATATA
1 ATATA
375064 GTTTTTAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
31 1 0.01
32 23 0.20
33 9 0.08
34 33 0.29
35 49 0.43
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (33 bp):
ATATATATATAGTTTTTAAATATTTTGAAAATA
Found at i:375064 original size:26 final size:28
Alignment explanation
Indices: 375032--375092 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 28
375022 AAAAATATAT
375032 TATATAGTTTTT-AAACATTTTGAA-AA
1 TATATAGTTTTTAAAACATTTTGAAGAA
375058 TATATAGTTTTTAAAAACATTTTGAAGAA
1 TATATAGTTTTT-AAAACATTTTGAAGAA
*
375087 CATATA
1 TATATA
375093 TCTATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 12 0.39
28 12 0.39
29 7 0.23
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (28 bp):
TATATAGTTTTTAAAACATTTTGAAGAA
Found at i:375173 original size:29 final size:27
Alignment explanation
Indices: 375129--375192 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
375119 CAAAACTTAT
*
375129 AATATAGTTTTAAAAACATTTTTAAAAA
1 AATATAATTTTAAAAAC-TTTTTAAAAA
* *
375157 CTATATAATTTTGAAAACTTTTTAAAAA
1 -AATATAATTTTAAAAACTTTTTAAAAA
375185 AATATAAT
1 AATATAAT
375193 ATATAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 7 0.23
28 10 0.32
29 14 0.45
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (27 bp):
AATATAATTTTAAAAACTTTTTAAAAA
Found at i:375219 original size:31 final size:32
Alignment explanation
Indices: 374924--375243 Score: 98
Period size: 34 Copynumber: 9.8 Consensus size: 32
374914 TTTTAAAACC
* **
374924 TATATAATATATATTTTGAAAACATTTTGAAAACATT
1 TATAT-ATATA-ATTTTTAAAAC-TTTT-AAAA-AAA
*
374961 TATATATATAGTTTTTAAATA-TTTTGAAAATAAA
1 TATATATATAATTTTTAAA-ACTTTT-AAAA-AAA
*
374995 TATAATATATAA-TTTTAAAA-TATTTTAAAAAA
1 TAT-ATATATAATTTTTAAAACT-TTTAAAAAAA
* *
375027 TATATTATATAGTTTTT-AAACATTTT--GAAAA
1 TATA-TATATAATTTTTAAAAC-TTTTAAAAAAA
* *
375058 TATATA-GT--TTTTAAAAACATTTTGAAGAACATATA
1 TATATATATAATTTTTAAAAC-TTTT-AA-AA-A-A-A
* * * * * **
375093 TCTATTATATAGTTTTTAAATCATTTCAAAACT
1 TATA-TATATAATTTTTAAAACTTTTAAAAAAA
* * *
375126 TATA-ATATAGTTTTAAAAACATTTT--TAAAA
1 TATATATATAATTTTTAAAAC-TTTTAAAAAAA
* *
375156 -A-CTATATAATTTTGAAAACTTTTTAAAAAAA
1 TATATATATAATTTTTAAAAC-TTTTAAAAAAA
*
375187 TATAATATATAATTTTTAATA-TTTT-AAAAAA
1 TAT-ATATATAATTTTTAAAACTTTTAAAAAAA
*
375218 TATAT-TATAGATTTTTGGAAACTTTT
1 TATATATATA-ATTTTT-AAAACTTTT
375244 TTAGTTTATT
Statistics
Matches: 217, Mismatches: 37, Indels: 63
0.68 0.12 0.20
Matches are distributed among these distances:
27 4 0.02
28 9 0.04
29 24 0.11
30 12 0.06
31 38 0.18
32 28 0.13
33 16 0.07
34 39 0.18
35 19 0.09
36 10 0.05
37 7 0.03
38 3 0.01
39 8 0.04
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (32 bp):
TATATATATAATTTTTAAAACTTTTAAAAAAA
Found at i:375284 original size:3 final size:3
Alignment explanation
Indices: 375276--375317 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
375266 TTGTATTTAT
*
375276 TTA TTA TTA TTA TTA TTA TTA CTTA TTTA TT- TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TT
375318 TGTTGCAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:379840 original size:19 final size:17
Alignment explanation
Indices: 379822--379856 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
379812 AAAAAAATGA
379822 AAAATCCTACCCCACATG
1 AAAAT-CTACCCCACATG
*
379840 ATAATCTACCCCACATG
1 AAAATCTACCCCACATG
379857 CTTTAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.37, C:0.37, G:0.06, T:0.20
Consensus pattern (17 bp):
AAAATCTACCCCACATG
Found at i:381961 original size:2 final size:2
Alignment explanation
Indices: 381941--381993 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
381931 TAATAATAAA
* *
381941 AT AT AA AT AT A- AA 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
381982 AT AT AT AT AT AT
1 AT AT AT AT AT AT
381994 TTACGATATG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Done.