Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 148 of 195
Found at i:24871456 original size:127 final size:127
Alignment explanation
Indices: 24871229--24871463 Score: 276
Period size: 127 Copynumber: 1.9 Consensus size: 127
24871219 TCAATTGTAG
* * * * * * *
24871229 TCACTTATTTTTTACCTTGGCTTAGTCTAGGTTATTTTATTTTTTGGACTTGTGGTTCAATGTTG
1 TCACTCATCTTTTACCTTAGCTTAGTCTAGGTCATTTTATTTTTTGGACTTGCGGTTCAATCTCG
* * ** *
24871294 GTTACTCATTTTCAATCTTAGCTCGGTCTAAATCATTTTTTTTATCAGTGGTTTAATCTCGA
66 GTCACTCATATTCAATCTTAGCTCAATCTAAATCATTTATTTTATCAGTGGTTTAATCTCGA
* * *
24871356 TCACTCATCTTTTATCTTAGCTTAGTTTAGGTCATTTTATTTTTTTGA-TATGCGGTTCAATCTC
1 TCACTCATCTTTTACCTTAGCTTAGTCTAGGTCATTTTATTTTTTGGACT-TGCGGTTCAATCTC
* * *
24871420 GGTCATTCATATTCAATCTTGGTTCAATC-AAGATCATTTATTTT
65 GGTCACTCATATTCAATCTTAGCTCAATCTAA-ATCATTTATTTT
24871464 CTTGTCTATG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
126 3 0.03
127 85 0.97
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (127 bp):
TCACTCATCTTTTACCTTAGCTTAGTCTAGGTCATTTTATTTTTTGGACTTGCGGTTCAATCTCG
GTCACTCATATTCAATCTTAGCTCAATCTAAATCATTTATTTTATCAGTGGTTTAATCTCGA
Found at i:24872854 original size:16 final size:16
Alignment explanation
Indices: 24872835--24872887 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
24872825 TTTCATTTTA
24872835 TTTTCTATTTTGATTT
1 TTTTCTATTTTGATTT
*
24872851 TTTTCCATTTT-ATTT
1 TTTTCTATTTTGATTT
24872866 TCATTT-TATTTTAGATTT
1 T--TTTCTATTTT-GATTT
24872884 TTTT
1 TTTT
24872888 ATATATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 5 0.16
16 18 0.58
17 3 0.10
18 5 0.16
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTCTATTTTGATTT
Found at i:24872860 original size:28 final size:26
Alignment explanation
Indices: 24872810--24872877 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 26
24872800 CAATCATAGG
24872810 TATTTTC-TTTT-TTTTTTT-CATTT
1 TATTTTCATTTTATTTTTTTCCATTT
24872833 TATTTTCTATTTTGATTTTTTTCCATTT
1 TATTTTC-ATTTT-ATTTTTTTCCATTT
24872861 TATTTTCATTTTATTTT
1 TATTTTCATTTTATTTT
24872878 AGATTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.17
25 4 0.10
26 5 0.12
27 12 0.30
28 12 0.30
ACGTcount: A:0.13, C:0.09, G:0.01, T:0.76
Consensus pattern (26 bp):
TATTTTCATTTTATTTTTTTCCATTT
Found at i:24872866 original size:33 final size:33
Alignment explanation
Indices: 24872824--24872905 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 33
24872814 TTCTTTTTTT
*
24872824 TTTTCATTTTATTTTCTATTTT-GATTTTTTTCCA
1 TTTT-ATTTTATTTT-TATTTTAGATTTTTTTACA
*
24872858 TTTTATTTTCA-TTTTATTTTAGATTTTTTTATA
1 TTTTATTTT-ATTTTTATTTTAGATTTTTTTACA
*
24872891 TATTATTATTATTTT
1 TTTTATT-TTATTTT
24872906 AATCATTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 6 0.15
33 25 0.61
34 10 0.24
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (33 bp):
TTTTATTTTATTTTTATTTTAGATTTTTTTACA
Found at i:24872905 original size:19 final size:19
Alignment explanation
Indices: 24872893--24872935 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24872883 TTTTTATATA
24872893 TTATTATTATTTTAATCAT
1 TTATTATTATTTTAATCAT
* *
24872912 TTATTTTTATTTTATTCA-
1 TTATTATTATTTTAATCAT
24872930 TTATTA
1 TTATTA
24872936 AATAAGACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTATTATTTTAATCAT
Found at i:24872927 original size:11 final size:11
Alignment explanation
Indices: 24872818--24872927 Score: 57
Period size: 11 Copynumber: 9.6 Consensus size: 11
24872808 GGTATTTTCT
*
24872818 TTTTTTTTTTCA
1 TTTTATTTTT-A
24872830 TTTTATTTTCTA
1 TTTTATTTT-TA
24872842 TTTTGATTTTT-
1 TTTT-ATTTTTA
**
24872853 TTCCA-TTTTA
1 TTTTATTTTTA
24872863 TTTTCA-TTTTA
1 TTTT-ATTTTTA
**
24872874 TTTTAGATTT-
1 TTTTATTTTTA
*
24872884 TTTTATATATTA
1 TTTTAT-TTTTA
*
24872896 TTATTATTTTAA
1 TT-TTATTTTTA
24872908 TCATTTATTTTTA
1 T--TTTATTTTTA
24872921 TTTTATT
1 TTTTATT
24872928 CATTATTAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
9 4 0.05
10 9 0.12
11 23 0.30
12 20 0.26
13 19 0.25
14 1 0.01
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:24873026 original size:16 final size:16
Alignment explanation
Indices: 24873005--24873036 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24872995 ATAACCAAAA
24873005 AAATTTTCATGAATTT
1 AAATTTTCATGAATTT
*
24873021 AAATTTTTATGAATTT
1 AAATTTTCATGAATTT
24873037 TACCAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
AAATTTTCATGAATTT
Found at i:24874122 original size:23 final size:22
Alignment explanation
Indices: 24874077--24874129 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
24874067 TAAATAATAA
*
24874077 AAATAAAATAAAAAAGATTAAT
1 AAATAAAATAAAAAAGATAAAT
*
24874099 AAATAATAATAAAAAATATAAAT
1 AAATAA-AATAAAAAAGATAAAT
*
24874122 ATATAAAA
1 AAATAAAA
24874130 ATTATTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AAATAAAATAAAAAAGATAAAT
Found at i:24874256 original size:13 final size:13
Alignment explanation
Indices: 24874238--24874262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24874228 ACTAACAATC
24874238 TAAAATGAAACCT
1 TAAAATGAAACCT
24874251 TAAAATGAAACC
1 TAAAATGAAACC
24874263 CTAACTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (13 bp):
TAAAATGAAACCT
Found at i:24874305 original size:19 final size:19
Alignment explanation
Indices: 24874283--24874375 Score: 73
Period size: 19 Copynumber: 4.8 Consensus size: 19
24874273 ACCTCATGTG
24874283 AAACTCTAAACCCTAACTA
1 AAACTCTAAACCCTAACTA
24874302 AAACT-TAAAACCCTAAGC-A
1 AAACTCT-AAACCCTAA-CTA
* * * *
24874321 AAACCCTAAATCATAAATA
1 AAACTCTAAACCCTAACTA
* * *
24874340 AAACTCGAAACCCTAAGTC
1 AAACTCTAAACCCTAACTA
*
24874359 AAACCCTAAAACCCTAA
1 AAACTCT-AAACCCTAA
24874376 TTGAAATCTT
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.02
19 45 0.79
20 11 0.19
ACGTcount: A:0.51, C:0.29, G:0.03, T:0.17
Consensus pattern (19 bp):
AAACTCTAAACCCTAACTA
Found at i:24874330 original size:38 final size:38
Alignment explanation
Indices: 24874265--24874375 Score: 109
Period size: 38 Copynumber: 2.9 Consensus size: 38
24874255 ATGAAACCCT
* * * *
24874265 AACTCAAAA-CCTCATGTGAAACTCTAAACCCTAACTAA
1 AACTCAAAACCCT-AAGTCAAACCCTAAACCCTAAATAA
* * *
24874303 AACTTAAAACCCTAAG-CAAAACCCTAAATCATAAATAA
1 AACTCAAAACCCTAAGTC-AAACCCTAAACCCTAAATAA
*
24874341 AACTCGAAACCCTAAGTCAAACCCTAAAACCCTAA
1 AACTCAAAACCCTAAGTCAAACCCT-AAACCCTAA
24874376 TTGAAATCTT
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
38 47 0.81
39 11 0.19
ACGTcount: A:0.49, C:0.29, G:0.05, T:0.18
Consensus pattern (38 bp):
AACTCAAAACCCTAAGTCAAACCCTAAACCCTAAATAA
Found at i:24880104 original size:33 final size:32
Alignment explanation
Indices: 24879978--24880276 Score: 155
Period size: 31 Copynumber: 9.4 Consensus size: 32
24879968 TTTGAAAAAA
* *
24879978 GATGAGATTTAAGCCC-ATTTTAGCTAACA-CT
1 GATGAGATTTAA-CCCTAGTTTAGCTAGCACCT
* * * *
24880009 AATGAGATTTAAGCCTAGTTTAGTTGGCACC-
1 GATGAGATTTAACCCTAGTTTAGCTAGCACCT
* * *
24880040 GATGAGATTTAAGCCC-AATTTAACTAACACCT
1 GATGAGATTTAA-CCCTAGTTTAGCTAGCACCT
*
24880072 TATGAAGATTTAACCCTAGTTTAGCTAGCACCT
1 GATG-AGATTTAACCCTAGTTTAGCTAGCACCT
* ***
24880105 AGATGAGATTTTAGGTTAGTTTAGCTAGCACC-
1 -GATGAGATTTAACCCTAGTTTAGCTAGCACCT
* * * * ** * *
24880137 AATGAGAATTAAACCC-AGCTCATATGGCATCT
1 GATGAG-ATTTAACCCTAGTTTAGCTAGCACCT
* * * * * *
24880169 AGATAAAAATTAAGCCTAGTTTAGCTAGTACTT
1 -GATGAGATTTAACCCTAGTTTAGCTAGCACCT
* * * *
24880202 AGATGAGATTTAAACCAAGTTTAGTTAGCATC-
1 -GATGAGATTTAACCCTAGTTTAGCTAGCACCT
* * * *
24880234 GATGAGAATTAAGCCTAGTTTAGCTGGCAAC-
1 GATGAGATTTAACCCTAGTTTAGCTAGCACCT
24880265 GATGAGATTTAA
1 GATGAGATTTAA
24880277 GCTCAATTTA
Statistics
Matches: 193, Mismatches: 64, Indels: 22
0.69 0.23 0.08
Matches are distributed among these distances:
30 2 0.01
31 91 0.47
32 19 0.10
33 78 0.40
34 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (32 bp):
GATGAGATTTAACCCTAGTTTAGCTAGCACCT
Found at i:24880240 original size:31 final size:31
Alignment explanation
Indices: 24880203--24880289 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
24880193 CTAGTACTTA
* *
24880203 GATGAGATTTAAACCAAGTTTAGTTAGCATC
1 GATGAGATTTAAGCCAAGTTTAGTTAGCAAC
* * * *
24880234 GATGAGAATTAAGCCTAGTTTAGCTGGCAAC
1 GATGAGATTTAAGCCAAGTTTAGTTAGCAAC
24880265 GATGAGATTTAAGCTCAA-TTTAGTT
1 GATGAGATTTAAGC-CAAGTTTAGTT
24880290 GGCACCAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 44 0.96
32 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (31 bp):
GATGAGATTTAAGCCAAGTTTAGTTAGCAAC
Found at i:24880262 original size:97 final size:97
Alignment explanation
Indices: 24879996--24880262 Score: 254
Period size: 97 Copynumber: 2.8 Consensus size: 97
24879986 TTAAGCCCAT
* * * *
24879996 TTTAGCTAACA-CTA-ATGAGATTTAAGCCTAGTTTAGTTGGCACCGATGAGATTTAAGCCCAAT
1 TTTAGCTAGCACCTAGATGAGATTTAAGCCTAGTTTAGTTAGCACCGATGAGAATTAAGCCCAGT
** * * *
24880059 TTAACTAACACCTTATGAAGATTTAACCCTAG
66 TTAACTGGCACCTGATGAAAAATTAACCCTAG
* ** * * * *
24880091 TTTAGCTAGCACCTAGATGAGATTTTAGGTTAGTTTAGCTAGCACCAATGAGAATTAAACCCAGC
1 TTTAGCTAGCACCTAGATGAGATTTAAGCCTAGTTTAGTTAGCACCGATGAGAATTAAGCCCAGT
* * *
24880156 TCATA-TGGCATCTAGAT-AAAAATTAAGCCTAG
66 TTA-ACTGGCACCT-GATGAAAAATTAACCCTAG
* * * * * *
24880188 TTTAGCTAGTACTTAGATGAGATTTAAACCAAGTTTAGTTAGCATCGATGAGAATTAAGCCTAGT
1 TTTAGCTAGCACCTAGATGAGATTTAAGCCTAGTTTAGTTAGCACCGATGAGAATTAAGCCCAGT
*
24880253 TTAGCTGGCA
66 TTAACTGGCA
24880263 ACGATGAGAT
Statistics
Matches: 133, Mismatches: 34, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
95 10 0.08
96 3 0.02
97 117 0.88
98 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (97 bp):
TTTAGCTAGCACCTAGATGAGATTTAAGCCTAGTTTAGTTAGCACCGATGAGAATTAAGCCCAGT
TTAACTGGCACCTGATGAAAAATTAACCCTAG
Found at i:24880476 original size:46 final size:46
Alignment explanation
Indices: 24880387--24880538 Score: 171
Period size: 46 Copynumber: 3.3 Consensus size: 46
24880377 CCAAGATGAG
* * * * * * *
24880387 ATTTACTTTCAAAAGTTGTTGAGCTTTTAGCTAAAGAAACTTTTAA
1 ATTTATTTTCAAAAGTTATTAAACTTTTACCTAAATAAGCTTTTAA
* *
24880433 ATTTATTTTCAAAAGTTATTAAA-TCTTTACTTAAATGAGCTTTTAA
1 ATTTATTTTCAAAAGTTATTAAACT-TTTACCTAAATAAGCTTTTAA
* * * *
24880479 ATTTGTTTTCAAAAGTTGTTGAACTTTTACCTATATAAGCTTTTAA
1 ATTTATTTTCAAAAGTTATTAAACTTTTACCTAAATAAGCTTTTAA
24880525 ATTTATTTTCAAAA
1 ATTTATTTTCAAAA
24880539 ATTGTCAAGC
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
45 1 0.01
46 86 0.98
47 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (46 bp):
ATTTATTTTCAAAAGTTATTAAACTTTTACCTAAATAAGCTTTTAA
Found at i:24880586 original size:5 final size:5
Alignment explanation
Indices: 24880576--24880624 Score: 66
Period size: 5 Copynumber: 9.8 Consensus size: 5
24880566 CCTCTAACAA
24880576 AAAAC AAAAC -AAA- AAAAC AAAAAC AAAAC AAAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC -AAAAC AAAAC AAAAC AAAA
24880625 TAGAACAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.15
5 24 0.60
6 10 0.25
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:24880590 original size:6 final size:6
Alignment explanation
Indices: 24880575--24880624 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
24880565 ACCTCTAACA
*
24880575 AAAAAC AAAACAA AAAAAC AAAAAC -AAAAC AAAAAC -AAAAC -AAAAC
1 AAAAAC AAAA-AC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
24880621 AAAA
1 AAAA
24880625 TAGAACAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 15 0.38
6 19 0.49
7 5 0.13
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:24880603 original size:11 final size:11
Alignment explanation
Indices: 24880575--24880624 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
24880565 ACCTCTAACA
24880575 AAAAACAAAAC
1 AAAAACAAAAC
24880586 --AAA-AAAAC
1 AAAAACAAAAC
24880594 AAAAACAAAAC
1 AAAAACAAAAC
24880605 AAAAACAAAAC
1 AAAAACAAAAC
24880616 -AAAACAAAA
1 AAAAACAAAA
24880625 TAGAACAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
8 5 0.14
9 3 0.08
10 12 0.33
11 16 0.44
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAC
Found at i:24880669 original size:11 final size:12
Alignment explanation
Indices: 24880574--24880671 Score: 67
Period size: 11 Copynumber: 7.8 Consensus size: 12
24880564 AACCTCTAAC
24880574 AAAAAACAAAACA
1 AAAAAAC-AAACA
24880587 AAAAAACAAA-A
1 AAAAAACAAACA
*
24880598 ACAAAACAAA-A
1 AAAAAACAAACA
*
24880609 ACAAAACAAAACA
1 AAAAAAC-AAACA
*
24880622 AAATAGAACAATATTA
1 AAA-A-AACAA-A-CA
*
24880638 AAAAAGCAAACA
1 AAAAAACAAACA
*
24880650 AGCAAAACAAA-A
1 A-AAAAACAAACA
24880662 AAAAAACAAA
1 AAAAAACAAA
24880672 TTTTATCCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
11 26 0.37
12 10 0.14
13 18 0.26
14 7 0.10
15 5 0.07
16 4 0.06
ACGTcount: A:0.79, C:0.14, G:0.03, T:0.04
Consensus pattern (12 bp):
AAAAAACAAACA
Found at i:24883467 original size:3 final size:3
Alignment explanation
Indices: 24883461--24883506 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
24883451 GATGATGATG
24883461 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24883507 GATTAAACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24885955 original size:22 final size:22
Alignment explanation
Indices: 24885927--24885973 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
24885917 TTTGGGTGGG
*
24885927 ATGATATCAGCAAATATGAGAC
1 ATGATATCAACAAATATGAGAC
24885949 ATGATATCAACAAATATGAGAC
1 ATGATATCAACAAATATGAGAC
24885971 ATG
1 ATG
24885974 TGACACTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (22 bp):
ATGATATCAACAAATATGAGAC
Found at i:24898065 original size:22 final size:22
Alignment explanation
Indices: 24898015--24898065 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
24898005 ATGCCCCTAT
* *
24898015 ATTTTTTTAAAAATATAATTCA
1 ATTTTTTTAAAAAAATAATTAA
*
24898037 ATTTTTTTAAAAAAAT-TTTAA
1 ATTTTTTTAAAAAAATAATTAA
*
24898058 ATTATTTT
1 ATTTTTTT
24898066 GTCTTTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTTTAAAAAAATAATTAA
Found at i:24906298 original size:16 final size:16
Alignment explanation
Indices: 24906229--24906302 Score: 59
Period size: 15 Copynumber: 4.8 Consensus size: 16
24906219 CCTAATTAAG
*
24906229 TATAAATATAATATTTT
1 TATAAATATAA-ATTTA
*
24906246 TATTAAAT-T-AATATA
1 TA-TAAATATAAATTTA
24906261 T-TAAATA-ACAATTT-
1 TATAAATATA-AATTTA
*
24906275 TATTAATATAAATTTA
1 TATAAATATAAATTTA
24906291 TATAAATATAAA
1 TATAAATATAAA
24906303 ATTAAATAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
13 5 0.11
14 1 0.02
15 18 0.40
16 13 0.29
17 3 0.07
18 5 0.11
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAAATATAAATTTA
Found at i:24906304 original size:17 final size:17
Alignment explanation
Indices: 24906229--24906324 Score: 55
Period size: 15 Copynumber: 6.0 Consensus size: 17
24906219 CCTAATTAAG
* *
24906229 TATAAATATAATATTTT
1 TATAAATATAAAATTTA
*
24906246 TATTAAAT-T--AATATA
1 TA-TAAATATAAAATTTA
*
24906261 T-TAAATA-ACAATTT-
1 TATAAATATAAAATTTA
*
24906275 TATTAATAT-AAATTTA
1 TATAAATATAAAATTTA
24906291 TATAAATATAAAA-TTA
1 TATAAATATAAAATTTA
* *
24906307 AATAAGTAATAAAATTTA
1 TATAAAT-ATAAAATTTA
24906325 ATTTTTTATA
Statistics
Matches: 60, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
13 5 0.08
14 1 0.02
15 18 0.30
16 16 0.27
17 12 0.20
18 8 0.13
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
TATAAATATAAAATTTA
Found at i:24906311 original size:16 final size:16
Alignment explanation
Indices: 24906279--24906322 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
24906269 CAATTTTATT
* *
24906279 AATATAAATTTATATA
1 AATATAAAATTAAATA
24906295 AATATAAAATTAAATA
1 AATATAAAATTAAATA
*
24906311 AGTAATAAAATT
1 AAT-ATAAAATT
24906323 TAATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AATATAAAATTAAATA
Found at i:24907149 original size:16 final size:17
Alignment explanation
Indices: 24907117--24907150 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24907107 TATCTTGGAT
24907117 TTAAAAGAAACTAAAAA
1 TTAAAAGAAACTAAAAA
24907134 TTAAAA-AAACTGAAAAA
1 TTAAAAGAAACT-AAAAA
24907151 ATCAAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
TTAAAAGAAACTAAAAA
Found at i:24907776 original size:16 final size:16
Alignment explanation
Indices: 24907755--24907790 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24907745 AAATATATAA
24907755 AAAATTAAAAAAAAAG
1 AAAATTAAAAAAAAAG
**
24907771 AAAATTAAAATGAAAG
1 AAAATTAAAAAAAAAG
24907787 AAAA
1 AAAA
24907791 AATAAATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (16 bp):
AAAATTAAAAAAAAAG
Found at i:24907853 original size:16 final size:16
Alignment explanation
Indices: 24907832--24907870 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
24907822 TGAGTCTCAC
24907832 AAAAAAATTAA-AATTT
1 AAAAAAATTAATAA-TT
*
24907848 AAAAAATTTAATAATT
1 AAAAAAATTAATAATT
24907864 AAAAAAA
1 AAAAAAA
24907871 AGGTAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAAATTAATAATT
Found at i:24908069 original size:46 final size:44
Alignment explanation
Indices: 24907993--24908097 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 44
24907983 GAAATTAATT
* * *
24907993 AAATATTA-AAAAGTAAGAAAAAAAAAAGAAATCGAAAATACAA
1 AAATATTATAAAATTAAAAAAAAAAAAAGAAATCCAAAATACAA
* *
24908036 AAATATTTATAAAATTAAAAAAAAAAAAGAGAAATCCAAATTGCAAA
1 AAATA-TTATAAAATTAAAAAAAAAAAA-AGAAATCCAAAATAC-AA
*
24908083 AAAAATTATAAAATT
1 AAATATTATAAAATT
24908098 TATAAAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
43 5 0.10
44 3 0.06
45 16 0.31
46 22 0.42
47 6 0.12
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.20
Consensus pattern (44 bp):
AAATATTATAAAATTAAAAAAAAAAAAAGAAATCCAAAATACAA
Found at i:24908159 original size:19 final size:19
Alignment explanation
Indices: 24908130--24908173 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
24908120 TTTTAAATCC
24908130 AAAAAATTAAAAAATC-TGA
1 AAAAAATT-AAAAATCATGA
24908149 ACAAAAA-TAAAAATCATGA
1 A-AAAAATTAAAAATCATGA
24908168 AAAAAA
1 AAAAAA
24908174 AATTTGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 12 0.52
19 6 0.26
20 5 0.22
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAAATTAAAAATCATGA
Found at i:24908174 original size:19 final size:18
Alignment explanation
Indices: 24908139--24908174 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24908129 CAAAAAATTA
*
24908139 AAAAATCTGAACAAAAAT
1 AAAAATCTGAAAAAAAAT
24908157 AAAAATCATGAAAAAAAA
1 AAAAATC-TGAAAAAAAA
24908175 ATTTGAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAAATCTGAAAAAAAAT
Found at i:24908950 original size:21 final size:20
Alignment explanation
Indices: 24908914--24908952 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24908904 GAGGCGTTTG
*
24908914 TTTTTTTTTTTTTTTTCTAA
1 TTTTTTTTTTTGTTTTCTAA
24908934 TTTTTTTTTTTAGTTTTCT
1 TTTTTTTTTTT-GTTTTCT
24908953 GAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTTTGTTTTCTAA
Found at i:24922481 original size:10 final size:10
Alignment explanation
Indices: 24922414--24922481 Score: 95
Period size: 10 Copynumber: 7.0 Consensus size: 10
24922404 GTATGAAGAC
**
24922414 TATATATAAA
1 TATATATATG
24922424 TATATATATG
1 TATATATATG
24922434 --TATATATG
1 TATATATATG
24922442 TATATATATG
1 TATATATATG
24922452 TATATATATG
1 TATATATATG
*
24922462 TATCTATATG
1 TATATATATG
24922472 TATATATATG
1 TATATATATG
24922482 GCATTAATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
8 8 0.15
10 44 0.85
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (10 bp):
TATATATATG
Found at i:24923253 original size:2 final size:2
Alignment explanation
Indices: 24923246--24923279 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24923236 GTTTTTCCAA
24923246 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
24923280 TGTAGTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24923537 original size:12 final size:12
Alignment explanation
Indices: 24923517--24923604 Score: 58
Period size: 12 Copynumber: 7.2 Consensus size: 12
24923507 TTTTTGTATT
*
24923517 TTATGTATTGTA
1 TTATTTATTGTA
*
24923529 TTATTTATTATTA
1 TTATTTATT-GTA
24923542 TTA-TTA-TGTA
1 TTATTTATTGTA
*
24923552 TTA-ATATATGTA
1 TTATTTAT-TGTA
24923564 TATATTTATT-TA
1 T-TATTTATTGTA
24923576 TTTATTTATTGTTA
1 -TTATTTATTG-TA
*
24923590 ATATTTATGTGTA
1 TTATTTAT-TGTA
24923603 TT
1 TT
24923605 TTATTATTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
10 7 0.12
11 1 0.02
12 26 0.43
13 19 0.32
14 7 0.12
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATTTATTGTA
Found at i:24923578 original size:61 final size:58
Alignment explanation
Indices: 24923507--24923711 Score: 166
Period size: 61 Copynumber: 3.3 Consensus size: 58
24923497 TTTCTTCTTT
* *
24923507 TTTTTGTATTTTATGTATTGTATTATTTAT-TATTATTATTATGTATTAATATATGTATATA
1 TTTTT-TATTTTATTTATTGTATTATTTATGTATT-TTATTATCTATT-ATATAT-TATATA
* *
24923568 TTTATTTA-TTTATTTATTGTTAATATTTATGTGTATTTTATTATTTATGTATATA-TATATA
1 TTT-TTTATTTTATTTATTG-TATTATTTA--TGTATTTTATTATCTAT-TATATATTATATA
* *
24923629 TTTTTTATCTTT-TTTATTTTATTCATTTTTGTATTTTTACTTATCTAATTATATATCTGATATA
1 TTTTTTAT-TTTATTTATTGTATT-ATTTATGTA-TTTTA-TTATCT-ATTATATAT-T-ATATA
24923693 TTTTTTTATTATTATTTAT
1 -TTTTTTATT-TTATTTAT
24923712 CCTATAATAT
Statistics
Matches: 119, Mismatches: 7, Indels: 31
0.76 0.04 0.20
Matches are distributed among these distances:
59 4 0.03
60 22 0.18
61 43 0.36
62 7 0.06
63 17 0.14
64 11 0.09
65 10 0.08
66 5 0.04
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (58 bp):
TTTTTTATTTTATTTATTGTATTATTTATGTATTTTATTATCTATTATATATTATATA
Found at i:24923585 original size:16 final size:15
Alignment explanation
Indices: 24923516--24923619 Score: 70
Period size: 16 Copynumber: 6.6 Consensus size: 15
24923506 TTTTTTGTAT
24923516 TTTATGTATTGTATTA
1 TTTATGTATT-TATTA
24923532 TTTAT-TA-TTATTA
1 TTTATGTATTTATTA
*
24923545 -TTATGTATTAATATA
1 TTTATGTATTTAT-TA
* *
24923560 TGTATATATTTATTTA
1 TTTATGTATTTA-TTA
* *
24923576 TTTATTTATTGTTAATA
1 TTTATGTA-T-TTATTA
24923593 TTTATGTGTATTTTATTA
1 TTTA--TGTA-TTTATTA
24923611 TTTATGTAT
1 TTTATGTAT
24923620 ATATATATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
12 4 0.06
13 7 0.10
14 4 0.06
15 5 0.07
16 25 0.36
17 8 0.11
18 12 0.17
19 5 0.07
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (15 bp):
TTTATGTATTTATTA
Found at i:24923630 original size:18 final size:17
Alignment explanation
Indices: 24923537--24923631 Score: 56
Period size: 16 Copynumber: 5.7 Consensus size: 17
24923527 TATTATTTAT
24923537 TATTAT-TA-TTATGTA
1 TATTATATATTTATGTA
* * *
24923552 T-TAATATATGTATATA
1 TATTATATATTTATGTA
* *
24923568 T-TTATTTATTTATTTA
1 TATTATATATTTATGTA
* *
24923584 TTGTTA-ATATTTATGTG
1 -TATTATATATTTATGTA
*
24923601 TATTTTATTATTTATGTA
1 TATTATA-TATTTATGTA
24923619 TATATATATATTT
1 TAT-TATATATTT
24923632 TTTATCTTTT
Statistics
Matches: 59, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
14 3 0.05
15 3 0.05
16 20 0.34
17 10 0.17
18 20 0.34
19 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTATATATTTATGTA
Found at i:24924139 original size:31 final size:31
Alignment explanation
Indices: 24924095--24924162 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
24924085 ATTTCCAGAA
* *
24924095 TCCGGCGAA-AATTCCGGCGAAATTTGAATTT
1 TCCGGC-AACAATTCCGGCGAAAATTGAAGTT
*
24924126 TTCGGCAACAATTCCGGCGAAAATTGAAGTT
1 TCCGGCAACAATTCCGGCGAAAATTGAAGTT
24924157 TCCGGC
1 TCCGGC
24924163 GACCTACCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (31 bp):
TCCGGCAACAATTCCGGCGAAAATTGAAGTT
Found at i:24924245 original size:19 final size:20
Alignment explanation
Indices: 24924217--24924262 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
24924207 TCCGGCCAAC
*
24924217 TTCCGACGAAA-TTTCCAGA
1 TTCCGGCGAAATTTTCCAGA
24924236 TTCCGGCGAAATTTTCCAGA
1 TTCCGGCGAAATTTTCCAGA
*
24924256 ATCCGGC
1 TTCCGGC
24924263 ATCGGTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (20 bp):
TTCCGGCGAAATTTTCCAGA
Found at i:24924613 original size:21 final size:21
Alignment explanation
Indices: 24924587--24924626 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24924577 GCTCCAGGTT
* *
24924587 TTTTTTTTTTTTTTGTTTGAA
1 TTTTTTTTTTATTTCTTTGAA
24924608 TTTTTTTTTTATTTCTTTG
1 TTTTTTTTTTATTTCTTTG
24924627 TTTATTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTTATTTCTTTGAA
Found at i:24924626 original size:25 final size:22
Alignment explanation
Indices: 24924585--24924657 Score: 76
Period size: 25 Copynumber: 3.1 Consensus size: 22
24924575 CCGCTCCAGG
24924585 TTTTTTTTTT-TTTTTTGTTTGAA
1 TTTTTTTTTTATTTTTTGTTT--A
24924608 TTTTTTTTTTATTTCTTTGTTTA
1 TTTTTTTTTTATTT-TTTGTTTA
*
24924631 TTTGTTTATTTTATTTGTTTATTTA
1 TTT-TTT-TTTTATTT-TTTGTTTA
24924656 TT
1 TT
24924658 AGATTAGGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
23 14 0.32
24 6 0.14
25 24 0.55
ACGTcount: A:0.11, C:0.01, G:0.07, T:0.81
Consensus pattern (22 bp):
TTTTTTTTTTATTTTTTGTTTA
Found at i:24924645 original size:13 final size:13
Alignment explanation
Indices: 24924614--24924654 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
24924604 TGAATTTTTT
*
24924614 TTTTATTTCTTT-
1 TTTTATTTGTTTA
*
24924626 GTTTATTTGTTTA
1 TTTTATTTGTTTA
24924639 TTTTATTTGTTTA
1 TTTTATTTGTTTA
24924652 TTT
1 TTT
24924655 ATTAGATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:24924954 original size:59 final size:60
Alignment explanation
Indices: 24924729--24924961 Score: 324
Period size: 60 Copynumber: 3.8 Consensus size: 60
24924719 AAGAGAAATG
* * * * **
24924729 AATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATA
1 AATTTCCAAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAA-AATCA-A
* *
24924792 AATTTCCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAA
1 AATTTCC--AAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
*
24924854 AATTTCAAAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
1 AATTTCCAAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
*
24924914 AATTTCCAAAAAA-TATTTTTGGGGAAAAGTTGAAAATATCAATTTTCC
1 AATTTCCAAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
24924962 CTACAAAAAA
Statistics
Matches: 156, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
59 34 0.22
60 63 0.40
62 7 0.04
63 9 0.06
64 2 0.01
65 41 0.26
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (60 bp):
AATTTCCAAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
Found at i:24928421 original size:9 final size:9
Alignment explanation
Indices: 24928407--24928447 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
24928397 AAAAGGTCTC
24928407 AAAAATAAA
1 AAAAATAAA
24928416 AAAAATAAA
1 AAAAATAAA
24928425 AAAAATAAA
1 AAAAATAAA
*
24928434 AAAAA-AGA
1 AAAAATAAA
24928442 AAAAAT
1 AAAAAT
24928448 GCCACACATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:24928780 original size:13 final size:13
Alignment explanation
Indices: 24928762--24928786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24928752 ATCAACAATG
24928762 GATGAAAAAAAAT
1 GATGAAAAAAAAT
24928775 GATGAAAAAAAA
1 GATGAAAAAAAA
24928787 AAGAAAAAAA
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GATGAAAAAAAAT
Found at i:24928793 original size:9 final size:9
Alignment explanation
Indices: 24928781--24928832 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
24928771 AAATGATGAA
24928781 AAAAAAAAG
1 AAAAAAAAG
24928790 AAAAAAAAG
1 AAAAAAAAG
24928799 -AAAAAAAG
1 AAAAAAAAG
**
24928807 AAAAATGAG
1 AAAAAAAAG
24928816 AAAAAAGAAGG
1 AAAAAA-AA-G
24928827 AAAAAA
1 AAAAAA
24928833 TGAGAAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
10 1 0.03
11 7 0.19
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:24928794 original size:21 final size:20
Alignment explanation
Indices: 24928769--24928840 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
24928759 ATGGATGAAA
24928769 AAAAATGATGAAAAAAAAAAG
1 AAAAATGA-GAAAAAAAAAAG
*
24928790 AAAAA--A-AAGAAAAAAAG
1 AAAAATGAGAAAAAAAAAAG
* *
24928807 AAAAATGAGAAAAAAGAAGG
1 AAAAATGAGAAAAAAAAAAG
24928827 AAAAAATGAGAAAA
1 -AAAAATGAGAAAA
24928841 TGAAAAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 15 0.35
19 2 0.05
20 8 0.19
21 18 0.42
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (20 bp):
AAAAATGAGAAAAAAAAAAG
Found at i:24928795 original size:8 final size:8
Alignment explanation
Indices: 24928782--24928851 Score: 59
Period size: 8 Copynumber: 8.1 Consensus size: 8
24928772 AATGATGAAA
24928782 AAAAAAAG
1 AAAAAAAG
24928790 AAAAAAAAG
1 -AAAAAAAG
24928799 AAAAAAAG
1 AAAAAAAG
*
24928807 AAAAATGAG
1 AAAAA-AAG
24928816 AAAAAAGAAGG
1 -AAAAA-AA-G
*
24928827 AAAAAATG
1 AAAAAAAG
* *
24928835 AGAAAATG
1 AAAAAAAG
24928843 AAAAAAAG
1 AAAAAAAG
24928851 A
1 A
24928852 GATTCAAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
8 28 0.55
9 11 0.22
10 11 0.22
11 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:24928850 original size:28 final size:27
Alignment explanation
Indices: 24928788--24928851 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
24928778 GAAAAAAAAA
24928788 AGAAAAAA-AAGAAAAAAAGAAAAATG
1 AGAAAAAAGAAGAAAAAAAGAAAAATG
*
24928814 AGAAAAAAGAAGGAAAAAATGAGAAAATG
1 AGAAAAAAGAA-GAAAAAAAGA-AAAATG
24928843 A-AAAAAAGA
1 AGAAAAAAGA
24928852 GATTCAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.24
27 2 0.06
28 17 0.50
29 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (27 bp):
AGAAAAAAGAAGAAAAAAAGAAAAATG
Found at i:24930139 original size:42 final size:41
Alignment explanation
Indices: 24930066--24930637 Score: 828
Period size: 42 Copynumber: 14.0 Consensus size: 41
24930056 GTCTAGGAGT
24930066 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
24930106 ATTTATTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
24930148 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930188 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
24930230 ATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930271 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930313 ATTTACTTTTCAAAGTTCGT--TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930353 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930393 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930434 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930476 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCG
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930516 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
24930556 ATTTA-TTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
24930597 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
24930638 TTTGGTAAAA
Statistics
Matches: 488, Mismatches: 26, Indels: 34
0.89 0.05 0.06
Matches are distributed among these distances:
39 12 0.02
40 171 0.35
41 133 0.27
42 172 0.35
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:24930169 original size:82 final size:81
Alignment explanation
Indices: 24930066--24930637 Score: 818
Period size: 82 Copynumber: 7.0 Consensus size: 81
24930056 GTCTAGGAGT
*
24930066 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTCGTGGTGC
24930131 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
24930148 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTCGTGGTGC
24930213 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
* * *
24930230 ATTTACTTTCCAAAG-TCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAGTTC--GTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTCGTGGT
*
24930294 ACCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* * *
24930313 ATTTACTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCCAAGTTCGT--TGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG-TCGTGGTGC
24930376 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
* *
24930393 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTCGTGGT
*
24930457 ACCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* * *
24930476 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCGATTTACTTTTCCAAGTTCGT--TGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG-TCGTGGTGC
24930539 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
* *
24930556 ATTTA-TTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGG
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTC-AAAGTCGTGG
24930619 TGCCTCTGTTTAGAGGAGC
62 TGCCTCTGTTTAGAGGAGC
24930638 TTTGGTAAAA
Statistics
Matches: 445, Mismatches: 28, Indels: 33
0.88 0.06 0.07
Matches are distributed among these distances:
79 12 0.03
80 62 0.14
81 77 0.17
82 162 0.36
83 126 0.28
84 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (81 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCC
TCTGTTTAGAGGAGCA
Found at i:24930448 original size:163 final size:163
Alignment explanation
Indices: 24930066--24930637 Score: 979
Period size: 163 Copynumber: 3.5 Consensus size: 163
24930056 GTCTAGGAGT
* * *
24930066 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGT
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
24930129 ACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAT
65 ACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-
* *
24930194 TTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
129 CTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
24930230 ATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
*
24930295 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCAATTTACT
66 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
24930360 TTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
131 TTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
24930393 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
*
24930458 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCGATTTACT
66 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
24930523 TTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
131 TTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* * * *
24930556 ATTTATTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTG
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
24930621 CCTCTGTTTAGAGGAGC
66 CCTCTGTTTAGAGGAGC
24930638 TTTGGTAAAA
Statistics
Matches: 391, Mismatches: 14, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
163 261 0.67
164 22 0.06
165 108 0.28
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (163 bp):
ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACT
TTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:24930658 original size:8 final size:8
Alignment explanation
Indices: 24930645--24930718 Score: 87
Period size: 8 Copynumber: 8.8 Consensus size: 8
24930635 AGCTTTGGTA
24930645 AAAAAAAC
1 AAAAAAAC
24930653 AAAAAAAC
1 AAAAAAAC
24930661 -AAAAAAC
1 AAAAAAAC
*
24930668 AAAAAAAT
1 AAAAAAAC
24930676 AAAAAAAC
1 AAAAAAAC
24930684 AAAAAAAAAC
1 --AAAAAAAC
24930694 AAAAAAAAAC
1 --AAAAAAAC
24930704 AAAAAAATC
1 AAAAAAA-C
24930713 AAAAAA
1 AAAAAA
24930719 TGTTGAGTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
7 7 0.12
8 28 0.47
9 7 0.12
10 18 0.30
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:24930718 original size:1 final size:1
Alignment explanation
Indices: 24930644--24930710 Score: 71
Period size: 1 Copynumber: 67.0 Consensus size: 1
24930634 GAGCTTTGGT
* * * * * * *
24930644 AAAAAAAACAAAAAAACAAAAAACAAAAAAATAAAAAAACAAAAAAAAACAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24930709 AA
1 AA
24930711 TCAAAAAATG
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.90, C:0.09, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:24930718 original size:10 final size:10
Alignment explanation
Indices: 24930644--24930710 Score: 93
Period size: 10 Copynumber: 6.6 Consensus size: 10
24930634 GAGCTTTGGT
24930644 AAAAAAAACA
1 AAAAAAAACA
24930654 AAAAAACAA-A
1 AAAAAA-AACA
24930664 AAACAAAAA-A
1 AAA-AAAAACA
24930674 ATAAAAAAACA
1 A-AAAAAAACA
24930685 AAAAAAAACA
1 AAAAAAAACA
24930695 AAAAAAAACA
1 AAAAAAAACA
24930705 AAAAAA
1 AAAAAA
24930711 TCAAAAAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
10 44 0.83
11 9 0.17
ACGTcount: A:0.90, C:0.09, G:0.00, T:0.01
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:24930927 original size:12 final size:12
Alignment explanation
Indices: 24930907--24930995 Score: 51
Period size: 12 Copynumber: 7.2 Consensus size: 12
24930897 TCTTTGTATT
*
24930907 TTATGTATTGTA
1 TTATTTATTGTA
*
24930919 TTATTTATTATTA
1 TTATTTATT-GTA
24930932 TTA-TTATTATGTA
1 TTATTTA-T-TGTA
*
24930945 TTA-ATATATGTA
1 TTATTTAT-TGTA
24930957 TATATTTATT-TA
1 T-TATTTATTGTA
24930969 TTTATTTATTGTTA
1 -TTATTTATTG-TA
*
24930983 ATATTTA-TGTA
1 TTATTTATTGTA
24930994 TT
1 TT
24930996 TATTATTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
11 3 0.05
12 30 0.48
13 23 0.37
14 6 0.10
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (12 bp):
TTATTTATTGTA
Found at i:24930936 original size:16 final size:16
Alignment explanation
Indices: 24930917--24931005 Score: 55
Period size: 16 Copynumber: 5.6 Consensus size: 16
24930907 TTATGTATTG
24930917 TATTATTTATTATTAT
1 TATTATTTATTATTAT
*
24930933 TATTA-TTATGTATTAA
1 TATTATTTAT-TATTAT
*
24930949 TA-TATGTA-TA-TATT
1 TATTATTTATTATTA-T
*
24930963 TATTTATTTATTTATTGT
1 TA-TTATTTA-TTATTAT
*
24930981 TAATATTTATGTA-T-T
1 TATTATTTAT-TATTAT
24930996 TATTATTTAT
1 TATTATTTAT
24931006 GTATATATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
13 2 0.04
14 4 0.07
15 16 0.28
16 21 0.37
17 8 0.14
18 5 0.09
19 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TATTATTTATTATTAT
Found at i:24931011 original size:25 final size:25
Alignment explanation
Indices: 24930906--24931026 Score: 73
Period size: 25 Copynumber: 5.0 Consensus size: 25
24930896 TTCTTTGTAT
*
24930906 TTTATGTAT-TGTAT-TATTTATTA
1 TTTATGTATATTTATGTATTTATTA
24930929 -TTAT-TAT-TATTATGTA-TTA--A
1 TTTATGTATAT-TTATGTATTTATTA
* *
24930949 TATATGTATA--TATTTATTTATTTA
1 TTTATGTATATTTATGTATTTA-TTA
24930973 TTTATTGTTAATATTTATGTATTTATTA
1 TTTA-TG-T-ATATTTATGTATTTATTA
* * *
24931001 TTTATGTATATATATATATTTTTTA
1 TTTATGTATATTTATGTATTTATTA
24931026 T
1 T
24931027 CTTTTTTATT
Statistics
Matches: 76, Mismatches: 8, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
20 6 0.08
21 10 0.13
22 13 0.17
23 2 0.03
24 4 0.05
25 18 0.24
26 2 0.03
27 5 0.07
28 7 0.09
29 9 0.12
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (25 bp):
TTTATGTATATTTATGTATTTATTA
Found at i:24931516 original size:31 final size:32
Alignment explanation
Indices: 24931481--24931550 Score: 101
Period size: 31 Copynumber: 2.2 Consensus size: 32
24931471 ATTTCCAGAA
*
24931481 TCCGGCGAA-AATTCCGGCGAA-ATTTGAATTT
1 TCCGGCGAACAATTCCGGCGAACA-TTGAAGTT
24931512 TCCGGC-AACAATTCCGGCGAACATTGAAGTT
1 TCCGGCGAACAATTCCGGCGAACATTGAAGTT
24931543 TCCGGCGA
1 TCCGGCGA
24931551 CCTACCCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 2 0.06
31 31 0.89
32 2 0.06
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (32 bp):
TCCGGCGAACAATTCCGGCGAACATTGAAGTT
Found at i:24931627 original size:19 final size:20
Alignment explanation
Indices: 24931603--24931648 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
24931593 TCCGGCCAAC
24931603 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
24931622 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
24931642 ATCCGGC
1 TTCCGGC
24931649 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:24932144 original size:58 final size:56
Alignment explanation
Indices: 24932075--24932338 Score: 430
Period size: 58 Copynumber: 4.7 Consensus size: 56
24932065 AAAAAATTCA
24932075 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT-C
24932133 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAAATTTC
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTC
24932190 AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 -AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
24932247 -AAAAAA-ATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATAAATTTC
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTC
24932301 AAAAAAATA-TTTTGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTT
24932339 TCCCTACAAA
Statistics
Matches: 197, Mismatches: 3, Indels: 15
0.92 0.01 0.07
Matches are distributed among these distances:
53 1 0.01
54 45 0.23
55 40 0.20
56 1 0.01
57 42 0.21
58 68 0.35
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (56 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:24932943 original size:13 final size:13
Alignment explanation
Indices: 24932927--24932967 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
24932917 AATTTATGTT
*
24932927 TTATTTTTATATA
1 TTATTTTAATATA
24932940 TTATTTTAATATA
1 TTATTTTAATATA
**
24932953 AAATTTTAATATA
1 TTATTTTAATATA
24932966 TT
1 TT
24932968 TAAATAGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:24933876 original size:56 final size:55
Alignment explanation
Indices: 24933710--24933897 Score: 143
Period size: 55 Copynumber: 3.4 Consensus size: 55
24933700 CTTATCAGTG
* * * * ** * *
24933710 TAGACTTGTATGTTTTAATTTTTATTACCTATACCGATGATTAACGTCCGTCAATA
1 TAGACTTATATATTTTAATTTTTCTTA-CTATACTGACAATTAATGCCCGTCAATA
* ** * * * *
24933766 TAGATTTACCT-TTTTAATTGTTCTTACTATA-T--CAATGGCTAGTACCCGTTAATA
1 TAGACTTATATATTTTAATTTTTCTTACTATACTGACAAT---TAATGCCCGTCAATA
* *
24933820 TAGATTTGTATATTTTAATTTTTCTTATCTATACTGACAATTAATGCCCGTCAATA
1 TAGACTTATATATTTTAATTTTTCTTA-CTATACTGACAATTAATGCCCGTCAATA
24933876 TAGACTTATATA-TTTAATTTTT
1 TAGACTTATATATTTTAATTTTT
24933898 TATTATATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
51 2 0.02
54 23 0.23
55 37 0.37
56 34 0.34
57 1 0.01
59 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.46
Consensus pattern (55 bp):
TAGACTTATATATTTTAATTTTTCTTACTATACTGACAATTAATGCCCGTCAATA
Found at i:24939384 original size:27 final size:27
Alignment explanation
Indices: 24939323--24939375 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24939313 GTTATTTTGT
* *
24939323 TAACCCTAAACCTTAAACTTTAAATCC
1 TAACCCTAAACCATAAACCTTAAATCC
24939350 TAACCCTAAACCATAAACCTTAAATC
1 TAACCCTAAACCATAAACCTTAAATC
24939376 TAAATCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.26
Consensus pattern (27 bp):
TAACCCTAAACCATAAACCTTAAATCC
Found at i:24939399 original size:7 final size:7
Alignment explanation
Indices: 24939324--24939443 Score: 51
Period size: 7 Copynumber: 18.3 Consensus size: 7
24939314 TTATTTTGTT
24939324 AACCCTA
1 AACCCTA
*
24939331 AACCTTA
1 AACCCTA
**
24939338 AACTTTA
1 AACCCTA
*
24939345 AATCCT-
1 AACCCTA
24939351 AACCCTA
1 AACCCTA
*
24939358 AACCATA
1 AACCCTA
*
24939365 AACCTTA
1 AACCCTA
*
24939372 AA-TCTA
1 AACCCTA
*
24939378 AATCCT-
1 AACCCTA
**
24939384 AACATTA
1 AACCCTA
24939391 AACCCTA
1 AACCCTA
*
24939398 AA--TTGA
1 AACCCT-A
24939404 AACCCT-
1 AACCCTA
*
24939410 AACTCTA
1 AACCCTA
24939417 AA-CC-A
1 AACCCTA
24939422 AACCCTA
1 AACCCTA
24939429 AA-CCTA
1 AACCCTA
*
24939435 AACCTTA
1 AACCCTA
24939442 AA
1 AA
24939444 TTGTCATGCA
Statistics
Matches: 82, Mismatches: 21, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
5 4 0.05
6 29 0.35
7 48 0.59
8 1 0.01
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (7 bp):
AACCCTA
Found at i:24939410 original size:26 final size:26
Alignment explanation
Indices: 24939363--24939420 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
24939353 CCCTAAACCA
* *
24939363 TAAACCTTAAATCTAAATCCTAACAT-
1 TAAACCCTAAATCTAAACCCTAAC-TC
24939389 TAAACCCTAAAT-TGAAACCCTAACTC
1 TAAACCCTAAATCT-AAACCCTAACTC
24939415 TAAACC
1 TAAACC
24939421 AAACCCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.26
Consensus pattern (26 bp):
TAAACCCTAAATCTAAACCCTAACTC
Found at i:24939426 original size:18 final size:18
Alignment explanation
Indices: 24939403--24939438 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
24939393 CCCTAAATTG
24939403 AAACCCT-AACTCTAAACC
1 AAACCCTAAAC-CTAAACC
24939421 AAACCCTAAACCTAAACC
1 AAACCCTAAACCTAAACC
24939439 TTAAATTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (18 bp):
AAACCCTAAACCTAAACC
Found at i:24939437 original size:13 final size:13
Alignment explanation
Indices: 24939324--24939439 Score: 57
Period size: 13 Copynumber: 8.9 Consensus size: 13
24939314 TTATTTTGTT
24939324 AACCCTAAACCTTA
1 AACCCTAAACC-TA
**
24939338 AACTTTAAATCCT-
1 AACCCTAAA-CCTA
24939351 AACCCTAAACCATA
1 AACCCTAAACC-TA
* *
24939365 AACCTTAAATCTA
1 AACCCTAAACCTA
* *
24939378 AATCCT-AACATTA
1 AACCCTAAAC-CTA
*
24939391 AACCCTAAA-TTGA
1 AACCCTAAACCT-A
24939404 AACCCT-AACTCTA
1 AACCCTAAAC-CTA
24939417 AA-CC-AAACCCTA
1 AACCCTAAA-CCTA
24939429 AA-CCTAAACCT
1 AACCCTAAACCT
24939440 TAAATTGTCA
Statistics
Matches: 79, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
12 22 0.28
13 35 0.44
14 20 0.25
15 2 0.03
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (13 bp):
AACCCTAAACCTA
Found at i:24940300 original size:17 final size:17
Alignment explanation
Indices: 24940271--24940315 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
24940261 TTAGAATAAA
24940271 ATATTAA-ATAATA-ACT
1 ATATTAATATAATACA-T
24940287 ATATTAATATAATACAT
1 ATATTAATATAATACAT
*
24940304 ATATAAATATAA
1 ATATTAATATAA
24940316 AAATAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 7 0.27
17 18 0.69
18 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATTAATATAATACAT
Found at i:24941559 original size:10 final size:10
Alignment explanation
Indices: 24941538--24941568 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
24941528 CAACCCAACT
24941538 TTTAAAAA-A
1 TTTAAAAATA
24941547 TTTAAAAATA
1 TTTAAAAATA
24941557 TTTAAAAATA
1 TTTAAAAATA
24941567 TT
1 TT
24941569 AATCAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:24942005 original size:17 final size:17
Alignment explanation
Indices: 24941975--24942029 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
24941965 TTTAAAGTTT
**
24941975 AAAAAAATTTAAAAAGA
1 AAAAAAATGAAAAAAGA
*
24941992 AAAAAAATGAAAAAAGTT
1 AAAAAAATGAAAAAAG-A
24942010 AAAAAAA-GCAAAAAA-A
1 AAAAAAATG-AAAAAAGA
24942026 AAAA
1 AAAA
24942030 TTGTCGACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 4 0.12
17 15 0.47
18 13 0.41
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (17 bp):
AAAAAAATGAAAAAAGA
Found at i:24944120 original size:20 final size:21
Alignment explanation
Indices: 24944082--24944121 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24944072 GCCATGCGAC
24944082 ACTTCAAAAAATTTATTAAAT
1 ACTTCAAAAAATTTATTAAAT
24944103 ACTT-AAAAGAATTT-TTAAA
1 ACTTCAAAA-AATTTATTAAA
24944122 AATGCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (21 bp):
ACTTCAAAAAATTTATTAAAT
Found at i:24944472 original size:16 final size:15
Alignment explanation
Indices: 24944434--24944472 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
24944424 AATATTAATC
*
24944434 AAATAAAAGAAAGTT
1 AAATAAAAGAAAATT
*
24944449 AAAAAAAAGAAAATAT
1 AAATAAAAGAAAAT-T
24944465 AAATAAAA
1 AAATAAAA
24944473 AATCAATTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (15 bp):
AAATAAAAGAAAATT
Found at i:24944862 original size:17 final size:17
Alignment explanation
Indices: 24944832--24944889 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
24944822 TTTAAAGTTT
**
24944832 AAAAAAATTTAAAAAGA
1 AAAAAAATGAAAAAAGA
*
24944849 AAAAAAATGAAAAAAGTT
1 AAAAAAATGAAAAAAG-A
*
24944867 AAAAAAA-GCAAAAA-A
1 AAAAAAATGAAAAAAGA
24944882 AAAAAAAT
1 AAAAAAAT
24944890 TGTCGACACA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 7 0.21
17 20 0.59
18 7 0.21
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAAAATGAAAAAAGA
Found at i:24945036 original size:15 final size:16
Alignment explanation
Indices: 24945016--24945054 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
24945006 AGTCCCACAC
24945016 AAAAAAAATT-ATAAT
1 AAAAAAAATTAATAAT
* *
24945031 AAAAAATATTAATATT
1 AAAAAAAATTAATAAT
24945047 AAAAAAAA
1 AAAAAAAA
24945055 AACGAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAAATTAATAAT
Found at i:24945477 original size:16 final size:15
Alignment explanation
Indices: 24945442--24945481 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 15
24945432 ATTCAAATGG
24945442 TTAGGAAAAAAAAAA
1 TTAGGAAAAAAAAAA
24945457 -T--GAAAAAAGAAAA
1 TTAGGAAAAAA-AAAA
24945470 TTAGGAAAAAAA
1 TTAGGAAAAAAA
24945482 TAAAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
12 7 0.33
13 4 0.19
14 2 0.10
15 1 0.05
16 7 0.33
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (15 bp):
TTAGGAAAAAAAAAA
Found at i:24948951 original size:17 final size:19
Alignment explanation
Indices: 24948896--24948955 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
24948886 CCTCCATTAG
*
24948896 CAGTAGCTATGAACTAACAA
1 CAGTGGCTATGAAC-AACAA
24948916 CAGTGGCTATGAACTAACAA
1 CAGTGGCTATGAAC-AACAA
24948936 CAGTGGCTATGAAACAACAA
1 CAGTGGCTATG-AACAACAA
24948956 GCTTAGGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
20 35 0.92
21 3 0.08
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (19 bp):
CAGTGGCTATGAACAACAA
Found at i:24948955 original size:20 final size:20
Alignment explanation
Indices: 24948896--24948948 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
24948886 CCTCCATTAG
*
24948896 CAGTAGCTATGAACTAACAA
1 CAGTGGCTATGAACTAACAA
24948916 CAGTGGCTATGAACTAACAA
1 CAGTGGCTATGAACTAACAA
24948936 CAGTGGCTATGAA
1 CAGTGGCTATGAA
24948949 ACAACAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
CAGTGGCTATGAACTAACAA
Found at i:24950946 original size:34 final size:33
Alignment explanation
Indices: 24950908--24950985 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 33
24950898 ACGAATCACA
*
24950908 AAACTTTTGAATGCTCATT-TAATCAGAGGCCATG
1 AAAC-TTTGAATGCT-ATTCTAATCAAAGGCCATG
*
24950942 AAACTTT-AAGTGCTTTTCTAATCAAAGGCCATG
1 AAACTTTGAA-TGCTATTCTAATCAAAGGCCATG
24950975 AAACTTTGAAT
1 AAACTTTGAAT
24950986 TTAAAATGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 4 0.10
33 29 0.74
34 6 0.15
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (33 bp):
AAACTTTGAATGCTATTCTAATCAAAGGCCATG
Found at i:24951079 original size:33 final size:33
Alignment explanation
Indices: 24951033--24951135 Score: 152
Period size: 33 Copynumber: 3.1 Consensus size: 33
24951023 ATCTCAAAAT
* *
24951033 CTTTAAATGCTCCTCTAATTAGAGGCCATGAAA
1 CTTTAAGTGCTCCTCTAATTAAAGGCCATGAAA
*
24951066 CTTTAAGTTCTCCTCTAATTAAAGGCCATGAAA
1 CTTTAAGTGCTCCTCTAATTAAAGGCCATGAAA
* * *
24951099 TTTTAAGTGCTCATCTAATAAAAGGCCATGAAA
1 CTTTAAGTGCTCCTCTAATTAAAGGCCATGAAA
24951132 CTTT
1 CTTT
24951136 GAATTTAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (33 bp):
CTTTAAGTGCTCCTCTAATTAAAGGCCATGAAA
Found at i:24951217 original size:154 final size:154
Alignment explanation
Indices: 24950934--24951289 Score: 475
Period size: 154 Copynumber: 2.3 Consensus size: 154
24950924 ATTTAATCAG
** *
24950934 AGGCCATGAAACTTTAAGTGCTTTTCTAATCAAAGGCCATGAAACTTTGAATTTAAAATGTTTAG
1 AGGCCATGAAACTTTAAGTGCTCATCTAATAAAAGGCCATGAAACTTTGAATTTAAAATGTTTAG
* * *
24950999 AGATTATGTCCGAAGGTTTTACAAATCTCAAAATCTTTAAATGCTCCTCTAATTAGAGGCCATGA
66 AGATTATGTCCGAAGGTCTTACAAATCTCAAAATCTTTAAATACTCCTCTAATTAGAGACCATGA
24951064 AACTTTAAGTTCTCCTCTAATTAA
131 AACTTTAAGTTCTCCTCTAATTAA
* *
24951088 AGGCCATGAAATTTTAAGTGCTCATCTAATAAAAGGCCATGAAACTTTGAATTTAAAATGTTTGG
1 AGGCCATGAAACTTTAAGTGCTCATCTAATAAAAGGCCATGAAACTTTGAATTTAAAATGTTTAG
* * *
24951153 AGATTATG-CTCGAAGGTCTTATAAATCTCAAAATCTTTAAATATTCCTCTAATTAGAGATCATG
66 AGATTATGTC-CGAAGGTCTTACAAATCTCAAAATCTTTAAATACTCCTCTAATTAGAGACCATG
* * * * * *
24951217 AAACTTTAAATGCTTCTGTAATCAG
130 AAACTTTAAGTTCTCCTCTAATTAA
* * * *
24951242 AGGTCATGAAACTTTGAA-TGCTTC-TCTAATTAGAGGTCATGAAACTTT
1 AGGCCATGAAACTTT-AAGTGC-TCATCTAATAAAAGGCCATGAAACTTT
24951290 AAGTGCTCAT
Statistics
Matches: 177, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
153 1 0.01
154 172 0.97
155 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (154 bp):
AGGCCATGAAACTTTAAGTGCTCATCTAATAAAAGGCCATGAAACTTTGAATTTAAAATGTTTAG
AGATTATGTCCGAAGGTCTTACAAATCTCAAAATCTTTAAATACTCCTCTAATTAGAGACCATGA
AACTTTAAGTTCTCCTCTAATTAA
Found at i:24951228 original size:187 final size:185
Alignment explanation
Indices: 24951033--24951589 Score: 698
Period size: 187 Copynumber: 3.0 Consensus size: 185
24951023 ATCTCAAAAT
* * * * *
24951033 CTTTAAATGCTCCTCTAATTAGAGGCCATGAAACTTTAAGTTCTCCTCTAATTAAAGGCCATGAA
1 CTTTAAATGCTCCTCTAATCAGAGGCCATGAAACTTTAAGTGCTTCTCTAATTAGAGGTCATGAA
*
24951098 ATTTTAAGTGCTCATCTAATAAAAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATGCT
66 A-TTTAAGTGCTCATCTAATCAAAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATGCT
* * **
24951163 CGAAGGTCTTATAAATCTCAAAATCTTTAAATATTCCTCTAATTAGAGATCATGAAA
130 C-AAGGTCTTACAAATCTCAAAATCTTTAAATGTTCCTCTAATTAGAGGCCATGAAA
* * *
24951220 CTTTAAATGCTTCTGTAATCAGAGGTCATGAAACTTTGAA-TGCTTCTCTAATTAGAGGTCATGA
1 CTTTAAATGCTCCTCTAATCAGAGGCCATGAAACTTT-AAGTGCTTCTCTAATTAGAGGTCATGA
* * * *
24951284 AACTTTAAGTGCTCATCTAATCAAAGGTCATAAAACTTTAAATTTAAAATGTTTTGAGATTATGC
65 AA-TTTAAGTGCTCATCTAATCAAAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATG-
*
24951349 CTCAAGGTCTTACAAATCTCAAAATCTTTAAATGTTCCTCTAATCAGAGGCCATGAAA
128 CTCAAGGTCTTACAAATCTCAAAATCTTTAAATGTTCCTCTAATTAGAGGCCATGAAA
* * * * * * *
24951407 TTTTGAGTGCTCATCTAATCAGAGGCTATGAAACTTTAAGTGCTTCTTTAATCAGAGGTCATG--
1 CTTTAAATGCTCCTCTAATCAGAGGCCATGAAACTTTAAGTGCTTCTCTAATTAGAGGTCATGAA
* * * * * *
24951470 -----AGTGCTCCTCTTATCAAAGGCCATGAAACTTTGAATTTAAAACGTGTGAAAATTATGCTC
66 ATTTAAGTGCTCATCTAATCAAAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATGCTC
* * *
24951530 AAAGGTCTTACAAATCTCAAATTCTTTAAATGTTCATCCAATTAGAGGCCATGAAA
131 -AAGGTCTTACAAATCTCAAAATCTTTAAATGTTCCTCTAATTAGAGGCCATGAAA
24951586 CTTT
1 CTTT
24951590 GAATTTAAAA
Statistics
Matches: 322, Mismatches: 44, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
178 3 0.01
179 101 0.31
186 2 0.01
187 211 0.66
188 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (185 bp):
CTTTAAATGCTCCTCTAATCAGAGGCCATGAAACTTTAAGTGCTTCTCTAATTAGAGGTCATGAA
ATTTAAGTGCTCATCTAATCAAAGGCCATGAAACTTTGAATTTAAAATGTTTGGAGATTATGCTC
AAGGTCTTACAAATCTCAAAATCTTTAAATGTTCCTCTAATTAGAGGCCATGAAA
Found at i:24951249 original size:33 final size:33
Alignment explanation
Indices: 24951199--24951326 Score: 168
Period size: 33 Copynumber: 3.9 Consensus size: 33
24951189 TTAAATATTC
* *
24951199 CTCTAATTAGAGATCATGAAACTTTAAATGCTT
1 CTCTAATCAGAGGTCATGAAACTTTAAATGCTT
* *
24951232 CTGTAATCAGAGGTCATGAAACTTTGAATGCTT
1 CTCTAATCAGAGGTCATGAAACTTTAAATGCTT
* *
24951265 CTCTAATTAGAGGTCATGAAACTTTAAGTGC-T
1 CTCTAATCAGAGGTCATGAAACTTTAAATGCTT
* *
24951297 CATCTAATCAAAGGTCATAAAACTTTAAAT
1 C-TCTAATCAGAGGTCATGAAACTTTAAAT
24951327 TTAAAATGTT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
32 2 0.02
33 80 0.98
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
CTCTAATCAGAGGTCATGAAACTTTAAATGCTT
Found at i:24951282 original size:66 final size:66
Alignment explanation
Indices: 24951199--24951322 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
24951189 TTAAATATTC
* * *
24951199 CTCTAATTAGAGATCATGAAACTTTAAATGCTTC-TGTAATCAGAGGTCATGAAACTTTGAATGC
1 CTCTAATTAGAGATCATGAAACTTTAAATGC-TCATCTAATCAAAGGTCATAAAACTTTGAATGC
24951263 TT
65 TT
* *
24951265 CTCTAATTAGAGGTCATGAAACTTTAAGTGCTCATCTAATCAAAGGTCATAAAACTTT
1 CTCTAATTAGAGATCATGAAACTTTAAATGCTCATCTAATCAAAGGTCATAAAACTTT
24951323 AAATTTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
65 2 0.04
66 50 0.96
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (66 bp):
CTCTAATTAGAGATCATGAAACTTTAAATGCTCATCTAATCAAAGGTCATAAAACTTTGAATGCT
T
Found at i:24951429 original size:33 final size:33
Alignment explanation
Indices: 24951386--24951470 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
24951376 TTAAATGTTC
* *
24951386 CTCTAATCAGAGGCCATGAAATTTTGAGTGC-T
1 CTCTAATCAGAGGCCATGAAACTTTAAGTGCTT
*
24951418 CATCTAATCAGAGGCTATGAAACTTTAAGTGCTT
1 C-TCTAATCAGAGGCCATGAAACTTTAAGTGCTT
* *
24951452 CTTTAATCAGAGGTCATGA
1 CTCTAATCAGAGGCCATGA
24951471 GTGCTCCTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.02
33 42 0.93
34 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (33 bp):
CTCTAATCAGAGGCCATGAAACTTTAAGTGCTT
Found at i:24951636 original size:88 final size:88
Alignment explanation
Indices: 24951487--24951677 Score: 328
Period size: 88 Copynumber: 2.2 Consensus size: 88
24951477 CTCTTATCAA
* *
24951487 AGGCCATGAAACTTTGAATTTAAAACGTGTGAAAATTATGCTCAAAGGTCTTACAAATCTCAAAT
1 AGGCCATGAAACTTTGAATTTAAAACGTGTGAAAATTATGCCCAAAGGTCTTACAAATCTCAAAA
24951552 TCTTTAAATGTTCATCCAATTAG
66 TCTTTAAATGTTCATCCAATTAG
* * *
24951575 AGGCCATGAAACTTTGAATTTAAAACGTTTGGAAATTATGCCCGAAGGTCTTACAAATCTCAAAA
1 AGGCCATGAAACTTTGAATTTAAAACGTGTGAAAATTATGCCCAAAGGTCTTACAAATCTCAAAA
*
24951640 TCTTTAAATGTTCCTCCAATTAG
66 TCTTTAAATGTTCATCCAATTAG
24951663 AGGCCATGAAACTTT
1 AGGCCATGAAACTTT
24951678 AAGTGCGAAG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 97 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (88 bp):
AGGCCATGAAACTTTGAATTTAAAACGTGTGAAAATTATGCCCAAAGGTCTTACAAATCTCAAAA
TCTTTAAATGTTCATCCAATTAG
Found at i:24951740 original size:79 final size:79
Alignment explanation
Indices: 24951609--24951762 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
24951599 ACGTTTGGAA
** *
24951609 ATTATGCCCGAAGGTCTTACAAATCTCAAAATCTTTAAATGTTCCTCCAATTAGAGGCCATGAAA
1 ATTATGCCCGAAAATCTTACAAATCTCAAAATCTTTAAATGTTCCTCCAATTAGAAGCCATGAAA
24951674 CTTTAAGTGCGAAG
66 CTTTAAGTGCGAAG
* * * *
24951688 ATTATGCCCGAAAATCTTACATATCTCAAAATCTTTAAATGCTT-TTTCAATTAGAAGTCATGAA
1 ATTATGCCCGAAAATCTTACAAATCTCAAAATCTTTAAATG-TTCCTCCAATTAGAAGCCATGAA
*
24951752 ACTTTGAGTGC
65 ACTTTAAGTGC
24951763 TCCTCTAATC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
79 64 0.97
80 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.32
Consensus pattern (79 bp):
ATTATGCCCGAAAATCTTACAAATCTCAAAATCTTTAAATGTTCCTCCAATTAGAAGCCATGAAA
CTTTAAGTGCGAAG
Found at i:24951784 original size:33 final size:33
Alignment explanation
Indices: 24951745--24951824 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
24951735 CAATTAGAAG
24951745 TCATGAAACTTTGAGTGCTCCTCTAATCAGAAGC
1 TCATGAAACTTTGAGTGCTCCTCTAATCAG-AGC
* * *
24951779 T-ATGAAACTTTAAGTGCTTCTCTAATCAGAGG
1 TCATGAAACTTTGAGTGCTCCTCTAATCAGAGC
24951811 TCATGAAACTTTGA
1 TCATGAAACTTTGA
24951825 ATTTATTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
32 3 0.07
33 37 0.90
34 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (33 bp):
TCATGAAACTTTGAGTGCTCCTCTAATCAGAGC
Found at i:24951907 original size:149 final size:149
Alignment explanation
Indices: 24951685--24951975 Score: 444
Period size: 149 Copynumber: 2.0 Consensus size: 149
24951675 TTTAAGTGCG
* * * *
24951685 AAGATTATGCCCGAAAATCTTACATATCTCAAAATCTTTAAATGCTTTTTCAATTAGAAGTCATG
1 AAGATTATGCCCGAAAATCTTACAAATCTCAAAATCTTTAAATGCTTTTCCAATTAGAAGCCATA
* * *
24951750 AAACTTTGAGTGCTCCTCTAATCAGAAGCTATGAAACTTTAAGTGCTTC-TCTAATCAGAGGTCA
66 AAACTTTGAGTGCTCATCTAATCAGAAGCTATGAAACTTTAAGTGC-TCATCTAATCAGAAGCCA
24951814 TGAAACTTTGAATTTATTCA
130 TGAAACTTTGAATTTATTCA
**
24951834 AAGATTATGCCCGAAGGTCTTACAAATCTCAAAATCTTTAAATG-TTCTTCCAATTAG-AGCCCA
1 AAGATTATGCCCGAAAATCTTACAAATCTCAAAATCTTTAAATGCTT-TTCCAATTAGAAG-CCA
*
24951897 TAAAACTTTGAGTGCTCATCTAATCAGAGGCTATGAAACTTTAAGTGCTCATCTAATCAGAAGCC
64 TAAAACTTTGAGTGCTCATCTAATCAGAAGCTATGAAACTTTAAGTGCTCATCTAATCAGAAGCC
24951962 ATGAAACTTTGAAT
129 ATGAAACTTTGAAT
24951976 GCTCCTCTAA
Statistics
Matches: 129, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
148 6 0.05
149 123 0.95
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (149 bp):
AAGATTATGCCCGAAAATCTTACAAATCTCAAAATCTTTAAATGCTTTTCCAATTAGAAGCCATA
AAACTTTGAGTGCTCATCTAATCAGAAGCTATGAAACTTTAAGTGCTCATCTAATCAGAAGCCAT
GAAACTTTGAATTTATTCA
Found at i:24951944 original size:33 final size:33
Alignment explanation
Indices: 24951899--24952020 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
24951889 AGAGCCCATA
*
24951899 AAACTTTGAGTGCTCATCTAATCAGAGGCTATG
1 AAACTTTAAGTGCTCATCTAATCAGAGGCTATG
* *
24951932 AAACTTTAAGTGCTCATCTAATCAGAAGCCATG
1 AAACTTTAAGTGCTCATCTAATCAGAGGCTATG
* *
24951965 AAACTTTGAA-TGCTCCTCTAATCAGAGGATATG
1 AAACTTT-AAGTGCTCATCTAATCAGAGGCTATG
*
24951998 -AACTTTAAGTGCTCCTCTAATCA
1 AAACTTTAAGTGCTCATCTAATCA
24952021 TTTTACCAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
31 2 0.03
32 20 0.25
33 56 0.70
34 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (33 bp):
AAACTTTAAGTGCTCATCTAATCAGAGGCTATG
Found at i:24951985 original size:66 final size:65
Alignment explanation
Indices: 24951894--24952020 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 65
24951884 CAATTAGAGC
* *
24951894 CCATAAAACTTTGAGTGCTCATCTAATCAGAGGCTATGAAACTTTAAGTGCTCATCTAATCAGAA
1 CCATAAAACTTTGAATGCTCATCTAATCAGAGGATATG-AACTTTAAGTGCTCATCTAATCAGAA
24951959 G
65 G
* * *
24951960 CCATGAAACTTTGAATGCTCCTCTAATCAGAGGATATGAACTTTAAGTGCTCCTCTAATCA
1 CCATAAAACTTTGAATGCTCATCTAATCAGAGGATATGAACTTTAAGTGCTCATCTAATCA
24952021 TTTTACCAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 22 0.39
66 34 0.61
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (65 bp):
CCATAAAACTTTGAATGCTCATCTAATCAGAGGATATGAACTTTAAGTGCTCATCTAATCAGAAG
Found at i:24958593 original size:17 final size:17
Alignment explanation
Indices: 24958571--24958614 Score: 79
Period size: 17 Copynumber: 2.5 Consensus size: 17
24958561 TTTGACTATT
24958571 AGATCAATATTAAATAA
1 AGATCAATATTAAATAA
24958588 AGATCAATATTAAATAA
1 AGATCAATATTAAATAA
24958605 AGATCTAATA
1 AGATC-AATA
24958615 ATCCATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (17 bp):
AGATCAATATTAAATAA
Found at i:24958969 original size:143 final size:143
Alignment explanation
Indices: 24958792--24959166 Score: 384
Period size: 144 Copynumber: 2.6 Consensus size: 143
24958782 TAGAATTATG
* * * * *
24958792 ATCTAAAAAATTTCATGAAATTTCGAGCTCGAAAATGTTAAATTACTAAAATACCCTTATGAGAG
1 ATCTGAAAAGTTTTATGAAATTTCGAGCTCGAAAATGTCAAATTA-TAAAATACCCTTATAAGAG
* * *
24958857 TATTTTGATAATTTCACATTTTTTGAGG-ACTATTATAATTTTAAA-TACATAAAAAATCATAAA
65 TATTTTGATAATTTCACA-TTTTTCAGGAACTATTATAATTTCAAACT-CACAAAAAATCATAAA
24958920 ATATTAAAAAACTAGGAC
128 ATATTAAAAAACT--GAC
* * * * * *
24958938 AT-TG-AAAGTTTTGTGAAATTT-GAGCTTGAAAATGCCAAATTAAGAAAATACCCCTCA-AAGG
1 ATCTGAAAAGTTTTATGAAATTTCGAGCTCGAAAATGTCAAATT-ATAAAATA-CCCTTATAAGA
* * *
24958999 GTATTTTGATAATTTCACACTTTTCAGGATACTATTATAATTTCAAACTCACCAAAAATCATGAA
64 GTATTTTGATAATTTCACATTTTTCAGGA-ACTATTATAATTTCAAACTCACAAAAAATCATAAA
* * * *
24959064 ATGTTACAAAAGTGAG
128 ATATTAAAAAACTGAC
** * * *
24959080 ATCTGAAAAGTTTTACAAAATTTCGAGCTCGGAAAGGTCAAATTATAAAATACCCTTATAAGAAT
1 ATCTGAAAAGTTTTATGAAATTTCGAGCTCGAAAATGTCAAATTATAAAATACCCTTATAAGAGT
* *
24959145 ATTTTGATAATTTTACACTTTT
66 ATTTTGATAATTTCACATTTTT
24959167 AAAGGTGCCA
Statistics
Matches: 187, Mismatches: 33, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
142 11 0.06
143 51 0.27
144 105 0.56
145 18 0.10
146 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.34
Consensus pattern (143 bp):
ATCTGAAAAGTTTTATGAAATTTCGAGCTCGAAAATGTCAAATTATAAAATACCCTTATAAGAGT
ATTTTGATAATTTCACATTTTTCAGGAACTATTATAATTTCAAACTCACAAAAAATCATAAAATA
TTAAAAAACTGAC
Found at i:24963918 original size:27 final size:27
Alignment explanation
Indices: 24963896--24963951 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
24963886 TTTGCTCTTG
*
24963896 GTCTAATATCATTAAGTTATGCTAATA
1 GTCTAATATCAATAAGTTATGCTAATA
* * *
24963923 GTTTAATATCAATAAGTTATTCTGATA
1 GTCTAATATCAATAAGTTATGCTAATA
24963950 GT
1 GT
24963952 AAGTAGTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (27 bp):
GTCTAATATCAATAAGTTATGCTAATA
Found at i:24969884 original size:15 final size:15
Alignment explanation
Indices: 24969864--24969895 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24969854 TATTTCAATC
24969864 GATCAAATCAATTTT
1 GATCAAATCAATTTT
*
24969879 GATCAAATGAATTTT
1 GATCAAATCAATTTT
24969894 GA
1 GA
24969896 CTTTTGCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (15 bp):
GATCAAATCAATTTT
Found at i:24973224 original size:49 final size:50
Alignment explanation
Indices: 24973171--24973266 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
24973161 GAAGCTGTTG
*
24973171 TTGCTGATTAATGGC-AATTATATGTTTATAATTATGCCTTAAGGCACTT
1 TTGCTGATTAATGGCTAATTATATGTTTATAATGATGCCTTAAGGCACTT
* * * *
24973220 TTGCTGATTAATTGCTAGTTGTATGTTTATAATGATGCCTTACGGCA
1 TTGCTGATTAATGGCTAATTATATGTTTATAATGATGCCTTAAGGCA
24973267 TTGAAGAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 14 0.34
50 27 0.66
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (50 bp):
TTGCTGATTAATGGCTAATTATATGTTTATAATGATGCCTTAAGGCACTT
Found at i:24977151 original size:46 final size:45
Alignment explanation
Indices: 24977063--24977165 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 45
24977053 TCAATTTGAA
* **
24977063 ATTAATTTAATAATTTTAATTTAATATAATATTTATAAAATATTATTT
1 ATTAATTT-A-AATTATAATTTAATATAATATGAATAAAATATT-TTT
* *
24977111 TTTAATTTAAATTATAATTTAAT-TATATATGAATATAATATTTTT
1 ATTAATTTAAATTATAATTTAATATA-ATATGAATAAAATATTTTT
*
24977156 ATTAAGTTAA
1 ATTAATTTAA
24977166 TATCTTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 13 0.28
46 26 0.55
47 1 0.02
48 7 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (45 bp):
ATTAATTTAAATTATAATTTAATATAATATGAATAAAATATTTTT
Found at i:24978562 original size:231 final size:231
Alignment explanation
Indices: 24978159--24978619 Score: 886
Period size: 231 Copynumber: 2.0 Consensus size: 231
24978149 TCAAGTTTTT
*
24978159 AATGTATCAAAATCACAAATTTATTAATTGTAAACCTTAATAATCCCATTCGATTGTGAGTTCCA
1 AATGTATCAAAATCACAAATTTATTAATCGTAAACCTTAATAATCCCATTCGATTGTGAGTTCCA
* *
24978224 AGAGTTGACCTTAATTTGATCAAATTTGATTGATTTTAACTAAATTTGACTTTGTTTGATCAAGT
66 AGAGTTGACCTTAATTTGACCAAATTTGATCGATTTTAACTAAATTTGACTTTGTTTGATCAAGT
24978289 TTGATTATGGTGCATTTTGGTCAAATTAATCCTGAATTCAATTTCAAAAATTTATCAATGCTGGA
131 TTGATTATGGTGCATTTTGGTCAAATTAATCCTGAATTCAATTTCAAAAATTTATCAATGCTGGA
24978354 TTCAAATTGAGTCGAACTTTAAAAACATCATAATTG
196 TTCAAATTGAGTCGAACTTTAAAAACATCATAATTG
*
24978390 AATGTATCAAAATCACAAATTTATTAATCGTAAACCTTAATAATCCCATTCGATTGTGAGTTTCA
1 AATGTATCAAAATCACAAATTTATTAATCGTAAACCTTAATAATCCCATTCGATTGTGAGTTCCA
24978455 AGAGTTGACCTTAATTTGACCAAATTTGATCGATTTTAACTAAATTTGACTTTGTTTGATCAAGT
66 AGAGTTGACCTTAATTTGACCAAATTTGATCGATTTTAACTAAATTTGACTTTGTTTGATCAAGT
24978520 TTGATTATGGTGCATTTTGGTCAAATTAATCCTGAATTCAATTTCAAAAATTTATCAATGCTGGA
131 TTGATTATGGTGCATTTTGGTCAAATTAATCCTGAATTCAATTTCAAAAATTTATCAATGCTGGA
24978585 TTCAAATTGAGTCGAACTTTAAAAACATCATAATT
196 TTCAAATTGAGTCGAACTTTAAAAACATCATAATT
24978620 TGTTACAATT
Statistics
Matches: 226, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 226 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (231 bp):
AATGTATCAAAATCACAAATTTATTAATCGTAAACCTTAATAATCCCATTCGATTGTGAGTTCCA
AGAGTTGACCTTAATTTGACCAAATTTGATCGATTTTAACTAAATTTGACTTTGTTTGATCAAGT
TTGATTATGGTGCATTTTGGTCAAATTAATCCTGAATTCAATTTCAAAAATTTATCAATGCTGGA
TTCAAATTGAGTCGAACTTTAAAAACATCATAATTG
Found at i:24980634 original size:120 final size:123
Alignment explanation
Indices: 24980330--24980639 Score: 342
Period size: 120 Copynumber: 2.6 Consensus size: 123
24980320 AATCCTACAT
* * * * * * * *
24980330 CTTGTGAGGTTTTTTTTGTGAGATAAAACCATGAG-TTCAATAGGATCAACGAACAATACATCAC
1 CTTGTGAGGTTTCTTTTGTGAGATAAAATCATGAGACTCAATGGGATCAAAGGATAATACCTCAC
*
24980394 AAGTAAATTATGTACTATAGTAGGTTTTGGGATATAAATGTTTATACCACTTTCGCAA
66 AAGTAAATTATGTACTAAAGTAGGTTTTGGGATATAAATGTTTATACCACTTTCGCAA
** * * * ** *
24980452 GATGT-AAGTTACTTTTGTGAGATAAAATTATGAGACTCAATGGGATCAGTGGATGATACCTCAC
1 CTTGTGAGGTTTCTTTTGTGAGATAAAATCATGAGACTCAATGGGATCAAAGGATAATACCTCAC
** * * *
24980516 AAGTCGATTGTGTGCTAAAGTAGGTTTT-GGATATAAATGTTTATATCAC-TT-GCAA
66 AAGTAAATTATGTACTAAAGTAGGTTTTGGGATATAAATGTTTATACCACTTTCGCAA
* * * * *
24980571 CTTGTGAGGTTTCTTTTATGAGATAAAATCGTAAGACTCAATGGGATCAAAGGATAATGCCTCAT
1 CTTGTGAGGTTTCTTTTGTGAGATAAAATCATGAGACTCAATGGGATCAAAGGATAATACCTCAC
24980636 AAGT
66 AAGT
24980640 TGGAGTGTGA
Statistics
Matches: 152, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
119 7 0.05
120 54 0.36
121 44 0.29
122 47 0.31
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (123 bp):
CTTGTGAGGTTTCTTTTGTGAGATAAAATCATGAGACTCAATGGGATCAAAGGATAATACCTCAC
AAGTAAATTATGTACTAAAGTAGGTTTTGGGATATAAATGTTTATACCACTTTCGCAA
Found at i:24989264 original size:24 final size:25
Alignment explanation
Indices: 24989223--24989270 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
24989213 TAATGATTAC
*
24989223 AATATAATTAATCAATCATAATTTAA
1 AATATAA-TAATCAATCAAAATTTAA
*
24989249 AATATAA-AATCTATCAAAATTT
1 AATATAATAATCAATCAAAATTT
24989271 TATATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
26 7 0.35
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATAATAATCAATCAAAATTTAA
Found at i:24991611 original size:2 final size:2
Alignment explanation
Indices: 24991604--24991629 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24991594 AACTCATAAC
24991604 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
24991630 TAGAGTAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24992431 original size:19 final size:20
Alignment explanation
Indices: 24992407--24992477 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 20
24992397 TCTTTTTACA
24992407 TAATTTATATTTTAA-AAAT
1 TAATTTATATTTTAATAAAT
* *
24992426 TAATTTACATATTAATAAAT
1 TAATTTATATTTTAATAAAT
* ** *
24992446 T-ATTTTTAAGTTAATAATT
1 TAATTTATATTTTAATAAAT
24992465 TAA-TTATATTTTA
1 TAATTTATATTTTA
24992478 TTACAAAGTA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 34 0.85
20 6 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (20 bp):
TAATTTATATTTTAATAAAT
Found at i:24994171 original size:15 final size:14
Alignment explanation
Indices: 24994151--24994197 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
24994141 ATAAAGTTAC
24994151 TTTTATTTTTGATTT
1 TTTTATTTTT-ATTT
* *
24994166 TTTTATTGTATAATT
1 TTTTATT-TTTATTT
24994181 TTTTATTTTTATTT
1 TTTTATTTTTATTT
24994195 TTT
1 TTT
24994198 GAAAACTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 8 0.30
15 17 0.63
16 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:24994274 original size:33 final size:31
Alignment explanation
Indices: 24994214--24994274 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
24994204 TGATTTATGG
* *
24994214 AATTTTCCAATAATTTGGTGGATTCCATAAA
1 AATTTTCCAATAATTTGATGAATTCCATAAA
*
24994245 AATTTTCTCAATAGTTTGATAGAATTCCAT
1 AATTTTC-CAATAATTTGAT-GAATTCCAT
24994275 GAATTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
32 10 0.40
33 8 0.32
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (31 bp):
AATTTTCCAATAATTTGATGAATTCCATAAA
Found at i:24994379 original size:27 final size:29
Alignment explanation
Indices: 24994324--24994401 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 29
24994314 TTTTTTTGTT
*
24994324 ATTTATTGAAA-GGATTTTTTTTCTAAAAA
1 ATTTATTGAAATAGATTTTTTTTCT-AAAA
* *
24994353 ATTT-TT-AAA-AGATTTTTTTTTTGAAA
1 ATTTATTGAAATAGATTTTTTTTCTAAAA
24994379 ATTTACTTGAAATAGATTTTTTT
1 ATTTA-TTGAAATAGATTTTTTT
24994402 GTTTTGTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 7 0.17
27 14 0.33
28 4 0.10
29 7 0.17
30 10 0.24
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (29 bp):
ATTTATTGAAATAGATTTTTTTTCTAAAA
Found at i:24994526 original size:7 final size:6
Alignment explanation
Indices: 24994497--24994580 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
24994487 AAAATTTCTC
* **
24994497 AAAAAT AAAACTAG AAAAAT AAAAATT AAAAAT -AAAAT -AAGTT AAAGAAT
1 AAAAAT AAAA--AT AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT AAA-AAT
*
24994547 ATAAAAT --AAAT AAAATAA AAAAAT AAAAAT AAAA
1 A-AAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAA
24994581 TGAAAAAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 26 0.43
7 16 0.26
8 7 0.11
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:24994559 original size:9 final size:9
Alignment explanation
Indices: 24994526--24994573 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
24994516 TAAAAATTAA
24994526 AAATAAAAT
1 AAATAAAAT
* * *
24994535 AAGTTAAAG
1 AAATAAAAT
24994544 AATATAAAAT
1 AA-ATAAAAT
24994554 AAATAAAAT
1 AAATAAAAT
24994563 AAA-AAAAT
1 AAATAAAAT
24994571 AAA
1 AAA
24994574 AATAAAATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 8 0.25
9 18 0.56
10 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:24994565 original size:23 final size:23
Alignment explanation
Indices: 24994512--24994579 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
24994502 TAAAACTAGA
24994512 AAAATAAAAAT-TAAAAATAAAAT
1 AAAATAAAAATATAAAAAT-AAAT
**
24994535 AAGTTAAAGAATAT-AAAATAAAT
1 AAAATAAA-AATATAAAAATAAAT
*
24994558 AAAATAAAAAAATAAAAATAAA
1 AAAATAAAAATATAAAAATAAA
24994580 ATGAAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
22 4 0.11
23 24 0.65
24 8 0.22
25 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (23 bp):
AAAATAAAAATATAAAAATAAAT
Found at i:24994589 original size:14 final size:13
Alignment explanation
Indices: 24994497--24994580 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 13
24994487 AAAATTTCTC
*
24994497 AAAAATAAAACTAG
1 AAAAATAAAA-TAA
*
24994511 AAAAATAAAA-ATT
1 AAAAATAAAATA-A
24994524 AAAAATAAAATAA
1 AAAAATAAAATAA
** * *
24994537 GTTAAAGAATATAA
1 -AAAAATAAAATAA
24994551 AATAAATAAAATAA
1 AA-AAATAAAATAA
24994565 AAAAATAAAAATAA
1 AAAAAT-AAAATAA
24994579 AA
1 AA
24994581 TGAAAAAAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
12 1 0.02
13 14 0.25
14 40 0.73
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:24995422 original size:20 final size:20
Alignment explanation
Indices: 24995397--24995436 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24995387 GACAGTTAAG
* *
24995397 AAAAAAGAAAAGAAAAATAA
1 AAAAAAAAAAAAAAAAATAA
24995417 AAAAAAAAAAAAAAAAATAA
1 AAAAAAAAAAAAAAAAATAA
24995437 TGATAATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.90, C:0.00, G:0.05, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAATAA
Found at i:24995456 original size:3 final size:3
Alignment explanation
Indices: 24995448--24995521 Score: 73
Period size: 3 Copynumber: 25.0 Consensus size: 3
24995438 GATAATCTTG
* * *
24995448 ATA ATA ATA ATA ATA ATA ATA AT- ATA CTA TTTA A-A AT- ATC ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
*
24995491 ATA ATA ATA GTA ATA ATA ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
24995522 TATTGCCATA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
2 6 0.10
3 49 0.82
4 5 0.08
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:24995536 original size:43 final size:39
Alignment explanation
Indices: 24995448--24995524 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
24995438 GATAATCTTG
*
24995448 ATAATAATAATAATAATAATAATATACTATTTAAAATATC
1 ATAATAATAAT-ATAATAATAATATACTATATAAAATATC
*
24995488 ATAATAATAATAGTAATAATAATA-A-TATATAATATAT
1 ATAATAATAATA-TAATAATAATATACTATATAAAATAT
24995525 TGCCATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 10 0.29
39 2 0.06
40 22 0.65
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (39 bp):
ATAATAATAATATAATAATAATATACTATATAAAATATC
Found at i:24995944 original size:119 final size:121
Alignment explanation
Indices: 24995747--24996019 Score: 295
Period size: 119 Copynumber: 2.3 Consensus size: 121
24995737 CCAATCGAGG
* * * *
24995747 TAAAAAATAAATGACCAAGAT-AGAACCACGAGTAATAAGAAATAATCTAGATTGAGCTAAGATC
1 TAAAAAATAAATGATCAAGATGA-AACCACGAGTAATAAGAAATAATCTAGACTGAGCCAAAATC
* * * * * ** * *
24995811 TGATGATAGGGATAAAATCATGAGTC-GAAAA-GAAGTGACCAGGACTGAGTTAATA
65 TGATAATAGAGATAAAATCACGAGTCAAAAAATAAAACGACCAGGACTGAGTCAAGA
* * * *
24995866 TAAAAAATAAATGATCGAGATGAAAGCACGAGTTATAAGAAATGATCT-GAACTGAGCCAAAATC
1 TAAAAAATAAATGATCAAGATGAAACCACGAGTAATAAGAAATAATCTAG-ACTGAGCCAAAATC
* *
24995930 TGATAACT-GAGATAAAATCACGAGTCAAAAAATAAAACGAGCAGGACTGAGTCAAGG
65 TGATAA-TAGAGATAAAATCACGAGTCAAAAAATAAAACGACCAGGACTGAGTCAAGA
**
24995987 TCGAAAATAAATGATCAAGATGAAACCACGAGT
1 TAAAAAATAAATGATCAAGATGAAACCACGAGT
24996020 CAAAAATGAA
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
118 1 0.01
119 73 0.58
120 6 0.05
121 46 0.37
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (121 bp):
TAAAAAATAAATGATCAAGATGAAACCACGAGTAATAAGAAATAATCTAGACTGAGCCAAAATCT
GATAATAGAGATAAAATCACGAGTCAAAAAATAAAACGACCAGGACTGAGTCAAGA
Found at i:24996210 original size:121 final size:121
Alignment explanation
Indices: 24996033--24996431 Score: 403
Period size: 121 Copynumber: 3.3 Consensus size: 121
24996023 AAATGAAGTA
* * * * ** *
24996033 ACCAGGATCGGGTCGAGGT-AAAAATAAATGATTAGGACAAAACCATGAGTCATAAGAAATGATC
1 ACCAGGACCGAGTCGAGATAAAAAATAAAAGACCAAGACAAAACCATGAGTCATAAGAAATGATC
* * * *
24996097 TAGACTGAGCCAAGATTAGGTGACCGAGACGAAATCACAAGTTAAAAAATGAAA-CG
66 TGGACTGAGCCAAGATCAAGTGACCGAGACGAAATCACAAGTCAAAAAAT-AAAGCG
* * * * ** * *
24996153 ACTAGGACCGAGTCGAGGTAAAAAATAAAAGATCGAGATGAAACTATGAGTCATAAGAAATGATT
1 ACCAGGACCGAGTCGAGATAAAAAATAAAAGACCAAGACAAAACCATGAGTCATAAGAAATGATC
* * * *
24996218 TGGACTGAGCCAAGATCAAGTGATCGAGATGAAATCATAAGTCAAAAAATAAAGTG
66 TGGACTGAGCCAAGATCAAGTGACCGAGACGAAATCACAAGTCAAAAAATAAAGCG
* * * *
24996274 ACCAGGACTGAGTCGAGATAGAAAATAAATGACCAAGACAAAACCACGAGTCATAAGAAATGATC
1 ACCAGGACCGAGTCGAGATAAAAAATAAAAGACCAAGACAAAACCATGAGTCATAAGAAATGATC
* * * * ** * *
24996339 TGGACTGAGTCAAGATCAAGTGA-CTAGGATGAAACCATGAGTC-AAAAATGAAGTG
66 TGGACTGAGCCAAGATCAAGTGACCGA-GACGAAATCACAAGTCAAAAAATAAAGCG
* * *
24996394 ACCA-GATCGAGTCGAGATAAAAAATAAATGATCAAGAC
1 ACCAGGACCGAGTCGAGATAAAAAATAAAAGACCAAGAC
24996432 GAGTCATAAG
Statistics
Matches: 236, Mismatches: 40, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
119 30 0.13
120 36 0.15
121 170 0.72
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (121 bp):
ACCAGGACCGAGTCGAGATAAAAAATAAAAGACCAAGACAAAACCATGAGTCATAAGAAATGATC
TGGACTGAGCCAAGATCAAGTGACCGAGACGAAATCACAAGTCAAAAAATAAAGCG
Found at i:24997279 original size:20 final size:19
Alignment explanation
Indices: 24997235--24997290 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
24997225 TCTTTTTTTG
*
24997235 TTTTTTTGTTTGTTGTTGTA
1 TTTTTTTGTTTCTT-TTGTA
*
24997255 TTTTTTTGTTTCTTTTGTC
1 TTTTTTTGTTTCTTTTGTA
24997274 TCTTTTTT-TTTGCTTTT
1 T-TTTTTTGTTT-CTTTT
24997291 TTTTTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.02, C:0.07, G:0.12, T:0.79
Consensus pattern (19 bp):
TTTTTTTGTTTCTTTTGTA
Found at i:24997281 original size:23 final size:21
Alignment explanation
Indices: 24997255--24997308 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 21
24997245 TGTTGTTGTA
24997255 TTTTTTTGTTTCTTTTGTCTC-TT
1 TTTTTTTGTTT-TTTT-T-TCATT
24997278 TTTTTTTGCTTTTTTTTTCATT
1 TTTTTTTG-TTTTTTTTTCATT
24997300 TTTTTTTGT
1 TTTTTTTGT
24997309 ACACCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.10
22 11 0.38
23 12 0.41
24 3 0.10
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.81
Consensus pattern (21 bp):
TTTTTTTGTTTTTTTTTCATT
Found at i:25001630 original size:18 final size:17
Alignment explanation
Indices: 25001587--25001638 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
25001577 AAATAAACCC
25001587 AAAAAAT-TAAA-AATT
1 AAAAAATATAAATAATT
25001602 -AAAAATA-AAATAAGTT
1 AAAAAATATAAATAA-TT
*
25001618 AAAAAATATAAATAAAT
1 AAAAAATATAAATAATT
25001635 AAAA
1 AAAA
25001639 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 9 0.29
15 2 0.06
16 2 0.06
17 12 0.39
18 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAAATATAAATAATT
Found at i:25001630 original size:23 final size:23
Alignment explanation
Indices: 25001589--25001646 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
25001579 ATAAACCCAA
*
25001589 AAAATTAAAAATTAAAAATAAA-
1 AAAATTAAAAAATAAAAATAAAT
* *
25001611 ATAAGTTAAAAAATATAAATAAAT
1 A-AAATTAAAAAATAAAAATAAAT
25001635 AAAATTAAAAAA
1 AAAATTAAAAAA
25001647 AAATAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 28 0.93
24 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAATTAAAAAATAAAAATAAAT
Found at i:25001654 original size:33 final size:31
Alignment explanation
Indices: 25001587--25001654 Score: 73
Period size: 33 Copynumber: 2.1 Consensus size: 31
25001577 AAATAAACCC
* * **
25001587 AAAAAATTAAAAATTAAAAATAAAATAAGTT
1 AAAAAATTAAAAAATAAAAATAAAAAAAAAT
*
25001618 AAAAAATATAAATAAATAAAATTAAAAAAAAAT
1 AAAAAAT-TAAA-AAATAAAAATAAAAAAAAAT
25001651 AAAA
1 AAAA
25001655 TGAAAAGGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 7 0.23
32 4 0.13
33 19 0.63
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (31 bp):
AAAAAATTAAAAAATAAAAATAAAAAAAAAT
Done.