Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 102 of 172
Found at i:29461174 original size:13 final size:13
Alignment explanation
Indices: 29461156--29461201 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
29461146 CAAACACGCT
29461156 AATAAAAAGTAAA
1 AATAAAAAGTAAA
29461169 AATAAAAAGT-AA
1 AATAAAAAGTAAA
*
29461181 AA-AAAAACTAAA
1 AATAAAAAGTAAA
29461193 ATATAAAAA
1 A-ATAAAAA
29461202 AAACTAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 6 0.21
12 7 0.24
13 11 0.38
14 5 0.17
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (13 bp):
AATAAAAAGTAAA
Found at i:29461192 original size:18 final size:18
Alignment explanation
Indices: 29461166--29461208 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
29461156 AATAAAAAGT
29461166 AAAAA-TAAAAAGTA-AAA
1 AAAAACTAAAAA-TATAAA
29461183 AAAAACT-AAAATATAAA
1 AAAAACTAAAAATATAAA
29461200 AAAAACTAA
1 AAAAACTAA
29461209 TGGAACGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAAACTAAAAATATAAA
Found at i:29467371 original size:28 final size:27
Alignment explanation
Indices: 29467338--29467436 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
29467328 TAATGAGATT
*
29467338 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTATAATTGAA
*
29467365 ATGCACTAAGTGTGCGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATTG-AA
* *
29467394 AGCACTAAGTGTGCGAGTGTGATT-ATTA
1 AGCACTAAGTGTGCGAGTATAATTGA--A
29467422 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29467437 TACTTATTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 58 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTATAATTGAA
Found at i:29469476 original size:28 final size:30
Alignment explanation
Indices: 29469444--29469514 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
29469434 ATTTTTTTAA
29469444 TAAAAATTAAAAAATTATTTT-AAAA-ATT
1 TAAAAATTAAAAAATTATTTTAAAAAGATT
29469472 TAAAAA-T-AAAAA-TATTTTAAAAAGTATT
1 TAAAAATTAAAAAATTATTTTAAAAAG-ATT
*
29469500 TTAAAATTAAAAAAT
1 TAAAAATTAAAAAAT
29469515 AAAATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
25 6 0.17
26 9 0.25
27 1 0.03
28 14 0.39
29 1 0.03
30 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (30 bp):
TAAAAATTAAAAAATTATTTTAAAAAGATT
Found at i:29469513 original size:36 final size:39
Alignment explanation
Indices: 29469453--29469528 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 39
29469443 ATAAAAATTA
* *
29469453 AAAAATTATTTTAAAAATTTAAAAATAAAA-ATAT-TTT
1 AAAAAGTATTTTAAAAATTAAAAAATAAAATATATATTT
29469490 AAAAAGTATTTT-AAAATTAAAAAATAAAATATATATTT
1 AAAAAGTATTTTAAAAATTAAAAAATAAAATATATATTT
29469528 A
1 A
29469529 TTATATTCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 16 0.46
37 15 0.43
38 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (39 bp):
AAAAAGTATTTTAAAAATTAAAAAATAAAATATATATTT
Found at i:29475917 original size:52 final size:49
Alignment explanation
Indices: 29475832--29476198 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
29475822 TTTGAGTACT
* **
29475832 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
29475878 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29475930 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29475976 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
29476022 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29476074 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
29476126 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29476172 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
29476199 GCTACACTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:29475952 original size:98 final size:97
Alignment explanation
Indices: 29475832--29476198 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
29475822 TTTGAGTACT
* *
29475832 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
29475897 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
29475930 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
29475990 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
29476022 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
29476087 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
29476126 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
29476191 GATAAGTG
65 GA-AAGTG
29476199 GCTACACTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:29476180 original size:196 final size:196
Alignment explanation
Indices: 29475846--29476198 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
29475836 ATCAAGTGAT
* * *
29475846 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
29475911 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
29475976 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
29476041 G
196 G
* *
29476042 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
29476107 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
29476172 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
29476199 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:29476206 original size:37 final size:37
Alignment explanation
Indices: 29476162--29476270 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
29476152 GATAGCTTTA
29476162 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
29476199 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
29476236 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
29476271 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:29477588 original size:49 final size:49
Alignment explanation
Indices: 29477527--29477719 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
29477517 ATGTGAACAT
29477527 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
29477577 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
29477626 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
29477675 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
29477720 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 133 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:29480914 original size:52 final size:49
Alignment explanation
Indices: 29480843--29481307 Score: 561
Period size: 46 Copynumber: 9.6 Consensus size: 49
29480833 TTTGAGTACT
* * **
29480843 TCTGATCAAGTG---ATAAAGTGATAATTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
29480889 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29480941 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29480987 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
29481033 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29481085 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29481137 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29481183 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
29481235 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
29481281 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
29481308 GCTACACTTA
Statistics
Matches: 379, Mismatches: 20, Indels: 40
0.86 0.05 0.09
Matches are distributed among these distances:
46 199 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 176 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:29480973 original size:98 final size:98
Alignment explanation
Indices: 29480843--29481307 Score: 672
Period size: 98 Copynumber: 4.7 Consensus size: 98
29480833 TTTGAGTACT
* * **
29480843 TCTGATCAAGTGATAAAGTGATAATTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
29480908 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
29480941 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
29481001 -AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
29481033 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
29481098 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
29481137 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
29481202 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * ** *
29481235 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGT
*
29481300 GATAAGTG
65 GAAAAGTG
29481308 GCTACACTTA
Statistics
Matches: 337, Mismatches: 17, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
92 41 0.12
95 1 0.00
96 1 0.00
98 241 0.72
99 11 0.03
101 1 0.00
104 41 0.12
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:29481315 original size:37 final size:37
Alignment explanation
Indices: 29481271--29481416 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
29481261 GATAGCTTTA
29481271 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
29481308 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
29481345 GCTACACTTATCTGATCAAGA-AGCAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGA-CAAAGTGATAAGTG
*
29481382 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
29481417 ATCATACGTA
Statistics
Matches: 103, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:29484232 original size:9 final size:9
Alignment explanation
Indices: 29484220--29484251 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
29484210 ATAATAAATA
29484220 TATTTTTTT
1 TATTTTTTT
29484229 TA--TTTTT
1 TATTTTTTT
29484236 TATTTTTTT
1 TATTTTTTT
29484245 TATTTTT
1 TATTTTT
29484252 AAATTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:29484257 original size:8 final size:8
Alignment explanation
Indices: 29484246--29484275 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
29484236 TATTTTTTTT
29484246 ATTTTTAA
1 ATTTTTAA
29484254 ATTTTTAA
1 ATTTTTAA
29484262 ATTTTTAA
1 ATTTTTAA
29484270 ATTTTT
1 ATTTTT
29484276 TTTGTGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTTAA
Found at i:29484258 original size:16 final size:16
Alignment explanation
Indices: 29484223--29484277 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
29484213 ATAAATATAT
* *
29484223 TTTTTTTATTTTTTAT
1 TTTTTTTATTTTTAAA
29484239 TTTTTTTATTTTTAAA
1 TTTTTTTATTTTTAAA
**
29484255 TTTTTAAATTTTTAAA
1 TTTTTTTATTTTTAAA
29484271 TTTTTTT
1 TTTTTTT
29484278 TGTGTTTATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTATTTTTAAA
Found at i:29491107 original size:44 final size:45
Alignment explanation
Indices: 29491029--29491113 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
29491019 ATCATACTTG
29491029 ACCTGAATCTAACCCCACCCGACCTAACCGATTAGCACTAATTTA
1 ACCTGAATCTAACCCCACCCGACCTAACCGATTAGCACTAATTTA
* * *
29491074 ACCTGAATCTAGCCCC-GCCGACCTAGCTC-ATTAGCACTAA
1 ACCTGAATCTAACCCCACCCGACCTAAC-CGATTAGCACTAA
29491114 GGGCCAGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 20 0.56
45 16 0.44
ACGTcount: A:0.31, C:0.36, G:0.12, T:0.21
Consensus pattern (45 bp):
ACCTGAATCTAACCCCACCCGACCTAACCGATTAGCACTAATTTA
Found at i:29491147 original size:13 final size:13
Alignment explanation
Indices: 29491129--29491194 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
29491119 AGTTCTTCAT
29491129 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
29491142 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
** *
29491155 TGCCGTGGAAAAG
1 TGCTTTTGAAAAG
* *
29491168 TGATTTTGAGAAG
1 TGCTTTTGAAAAG
29491181 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
29491194 T
1 T
29491195 TTGGTTTAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:29491418 original size:31 final size:29
Alignment explanation
Indices: 29491365--29491426 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
29491355 TTATAACTTG
*
29491365 TTGTTAATATTTTAATATATAAAATATAAA
1 TTGTAAATATTTTAATATAT-AAATATAAA
*
29491395 TTGTAAATATTTTTAAT-TAATAAATATTAA
1 TTGTAAATA-TTTTAATAT-ATAAATATAAA
29491425 TT
1 TT
29491427 ATTTATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
TTGTAAATATTTTAATATATAAATATAAA
Found at i:29491442 original size:31 final size:33
Alignment explanation
Indices: 29491377--29491481 Score: 92
Period size: 33 Copynumber: 3.1 Consensus size: 33
29491367 GTTAATATTT
* *
29491377 TAATATATAAAATATAAATTGTAAATATTTTTAATTAA
1 TAATATATAAACTAT--ATTTTAAATA--TTTAATT-A
*
29491415 TAA-ATATTAA-T-TATTTATAAA-ATTTAATTA
1 TAATATATAAACTATATTT-TAAATATTTAATTA
*
29491445 TAATATATAAACTATATTTTAAATATTTAAATA
1 TAATATATAAACTATATTTTAAATATTTAATTA
29491478 TAAT
1 TAAT
29491482 CATTAAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
30 4 0.07
31 13 0.22
32 5 0.09
33 21 0.36
34 4 0.07
35 1 0.02
36 1 0.02
37 6 0.10
38 3 0.05
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (33 bp):
TAATATATAAACTATATTTTAAATATTTAATTA
Found at i:29491463 original size:33 final size:31
Alignment explanation
Indices: 29491406--29491493 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 31
29491396 TGTAAATATT
*
29491406 TTTAATTAATAA-ATATTAATTATTTATAAA-A
1 TTTAATT-ATAATATATAAATTATTT-TAAATA
29491437 TTTAATTATAATATATAAACTATATTTTAAATA
1 TTTAATTATAATATATAAA-T-TATTTTAAATA
*
29491470 TTTAAATATAATCAT-TAAA-TATTT
1 TTTAATTATAAT-ATATAAATTATTT
29491494 GTAATTAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
30 9 0.18
31 13 0.26
32 5 0.10
33 21 0.42
34 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
TTTAATTATAATATATAAATTATTTTAAATA
Found at i:29495951 original size:22 final size:22
Alignment explanation
Indices: 29495913--29495960 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
29495903 ATTATTTAAT
*
29495913 AAAAATATCATTCAAAAATTCAA
1 AAAAATATCATTCAAAAAAT-AA
*
29495936 AAAAATAT-ATTTAAAAAATAA
1 AAAAATATCATTCAAAAAATAA
29495957 AAAA
1 AAAA
29495961 TTCAAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 9 0.39
23 8 0.35
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAAATATCATTCAAAAAATAA
Found at i:29500520 original size:24 final size:24
Alignment explanation
Indices: 29500462--29500520 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
29500452 TTTTATGTCC
29500462 TAAA-ATTACAGCGGACTTAACCT
1 TAAAGATTACAGCGGACTTAACCT
* *
29500485 TAAAGATCACAGCGGA-TTGAACTT
1 TAAAGATTACAGCGGACTT-AACCT
*
29500509 TGAAGATTACAG
1 TAAAGATTACAG
29500521 TGGGGGCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (24 bp):
TAAAGATTACAGCGGACTTAACCT
Found at i:29501045 original size:89 final size:89
Alignment explanation
Indices: 29500926--29501141 Score: 353
Period size: 89 Copynumber: 2.4 Consensus size: 89
29500916 GCAGCAAAGC
* * *
29500926 AGATCGAAGACACCAGCCTCG-CCTCTCTGAGTTTGCAGCAGAGCAGACTGAATATGGAAGATCT
1 AGATCAAAGACACAAGCCT-GACCTCCCTGAGTTTGCAGCAGAGCAGACTGAATATGGAAGATCT
29500990 TGTCTTCCTACACCGATAGCGAAGT
65 TGTCTTCCTACACCGATAGCGAAGT
* *
29501015 AGATCAAAGACACAAGCCTGACCTCCCTGAGTTTGCAGCGGAGCAGACTGAATATGGCAGATCTT
1 AGATCAAAGACACAAGCCTGACCTCCCTGAGTTTGCAGCAGAGCAGACTGAATATGGAAGATCTT
29501080 GTCTTCCTACACCGATAGCGAAGT
66 GTCTTCCTACACCGATAGCGAAGT
* *
29501104 AGATCAAAGACACACGCCTGATCTCCCTGAGTTTGCAG
1 AGATCAAAGACACAAGCCTGACCTCCCTGAGTTTGCAG
29501142 AGGAGTAGAC
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 1 0.01
89 118 0.99
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (89 bp):
AGATCAAAGACACAAGCCTGACCTCCCTGAGTTTGCAGCAGAGCAGACTGAATATGGAAGATCTT
GTCTTCCTACACCGATAGCGAAGT
Found at i:29501173 original size:89 final size:89
Alignment explanation
Indices: 29500894--29501152 Score: 335
Period size: 89 Copynumber: 2.9 Consensus size: 89
29500884 ACTAGAAGCA
** ** * * * * *
29500894 GCAGATCTTGTCTTCCTGTA-CGGCAGCAAAGCAGATCGAAGACACCAGCCTCG-CCTCTCTGAG
1 GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCT-GACCTCCCTGAG
*
29500957 TTTGCAGCA-GAGCAGACTGAATATG
65 TTTGCAG-AGGAGCAGACTGAATAAG
*
29500982 GAAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCTGACCTCCCTGAGT
1 GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCTGACCTCCCTGAGT
* *
29501047 TTGCAGCGGAGCAGACTGAATATG
66 TTGCAGAGGAGCAGACTGAATAAG
* *
29501071 GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACACGCCTGATCTCCCTGAGT
1 GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCTGACCTCCCTGAGT
*
29501136 TTGCAGAGGAGTAGACT
66 TTGCAGAGGAGCAGACT
29501153 AAAAGCAGTA
Statistics
Matches: 152, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
88 18 0.12
89 134 0.88
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (89 bp):
GCAGATCTTGTCTTCCTACACCGATAGCGAAGTAGATCAAAGACACAAGCCTGACCTCCCTGAGT
TTGCAGAGGAGCAGACTGAATAAG
Found at i:29501537 original size:44 final size:44
Alignment explanation
Indices: 29501472--29501717 Score: 162
Period size: 44 Copynumber: 5.6 Consensus size: 44
29501462 CAGATCATAT
* * *
29501472 CAAACTTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA
* * *
29501515 GCAAACCTTATC-CCCATGAAGTTGCAGTGGGGCAAGTTGAAGATA
1 -CAAACCTTATCTCCC-TGAAGTTGCAGTAGAGCAGGTTGAAGATA
** * * *
29501560 CAAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGATTGAAGTTA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA
** * * * *
29501604 CTAGTCC-AATCTTCCTGAAGTTGCAGTGGAGC-GGATTAAAATGATA
1 C-AAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGG-TT-GAA-GATA
* * ** *
29501650 -GATCC-TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA
* * *
29501692 GCAAATCGTATTTCCCTGAAGTTGCA
1 -CAAACCTTATCTCCCTGAAGTTGCA
29501718 ATGGAACAGA
Statistics
Matches: 158, Mismatches: 33, Indels: 21
0.75 0.16 0.10
Matches are distributed among these distances:
42 4 0.03
43 6 0.04
44 118 0.75
45 27 0.17
46 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATA
Found at i:29501863 original size:44 final size:44
Alignment explanation
Indices: 29501793--29501944 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 44
29501783 TCAAACTTTG
* * ** * *
29501793 TCTCTCTGAAGTTGCAGTAGAACAAGTTGAAA-TTACAATTCTTA
1 TCTCCCTGAAGTTGCAGTGGGGCAAGTT-AAAGATACAAGTCTTA
*
29501837 TC-CCCTTGAAGTTGCAGTGGGGCAAGTTAAAGATACGAGTCTTA
1 TCTCCC-TGAAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCTTA
** *
29501881 TCTCCCTGAAGTTAAAGTGGGGCAAGTCAAA-AT-CATGAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGGGCAAGTTAAAGATACA--AGTCTTA
* *
29501925 TCTCTCTGATGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTGG
29501945 AGTAGACTAG
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 7 0.08
44 77 0.88
45 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCTTA
Found at i:29501941 original size:312 final size:312
Alignment explanation
Indices: 29501343--29501946 Score: 919
Period size: 312 Copynumber: 1.9 Consensus size: 312
29501333 CCACCAATCT
* * *
29501343 TATCTCCCTGAAGTTGTAGTGGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAAT
* * *
29501408 GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTGAAGTTGCAGTAAAGCAGATCATATC
66 GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTAAAGTTCCAGCAAAGCAGATCATATC
* *
29501473 AAACTTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTT
131 AAACTTTGTCTCTCTGAAGTTGCAGTAGAACAAGTTGAAATAGCAAACCTTATCCCCATGAAGTT
* ** ** * *
29501538 GCAGTGGGGCAAGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTCGAGCAGATTGAAGTT
196 GCAGTGGGGCAAGTTAAAGATACAAGTCTTATCTCCCTGAAGTTAAAGTCGAGCAGATCAAAATC
29501603 ACTAGTCCAATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATGATAGATCC
261 ACTAGTCCAATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATGATAGATCC
29501655 TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAAT
1 TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAAT
*
29501720 GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTAAAGTTCCAGCAGAGCAGATCATATC
66 GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTAAAGTTCCAGCAAAGCAGATCATATC
** *
29501785 AAACTTTGTCTCTCTGAAGTTGCAGTAGAACAAGTTGAAATTA-CAATTCTTATCCCCTTGAAGT
131 AAACTTTGTCTCTCTGAAGTTGCAGTAGAACAAGTTGAAA-TAGCAAACCTTATCCCCATGAAGT
* * *
29501849 TGCAGTGGGGCAAGTTAAAGATACGAGTCTTATCTCCCTGAAGTTAAAGTGGGGCA-AGTCAAAA
195 TGCAGTGGGGCAAGTTAAAGATACAAGTCTTATCTCCCTGAAGTTAAAGTCGAGCAGA-TCAAAA
** *
29501913 TCA-TGAGTCTTATC-TCTCTGATGTTGCAGTGGAG
259 TCACT-AGTCCAATCTTC-CTGAAGTTGCAGTGGAG
29501947 TAGACTAGAA
Statistics
Matches: 263, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
311 4 0.02
312 257 0.98
313 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (312 bp):
TATCTCCCTGAAGTTGCAGTAGAGCATATTAAAGATAGCAAATCGTATTTCCCTGAAGTTGCAAT
GGAACAGATTAAATCTATCATAACAGATCTCGTCTCTCTAAAGTTCCAGCAAAGCAGATCATATC
AAACTTTGTCTCTCTGAAGTTGCAGTAGAACAAGTTGAAATAGCAAACCTTATCCCCATGAAGTT
GCAGTGGGGCAAGTTAAAGATACAAGTCTTATCTCCCTGAAGTTAAAGTCGAGCAGATCAAAATC
ACTAGTCCAATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATGATAGATCC
Found at i:29502309 original size:44 final size:45
Alignment explanation
Indices: 29502261--29502354 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
29502251 TGGGGCAGGT
* * * **
29502261 TGAAGATA-CAAGTTTTATCTCACTGAGGTTGCAGTAGAGTAGAC
1 TGAAGATAGCAAGTCTTATCTCACTAAAGTTGCAGTAGAACAGAC
* * *
29502305 TGAAGATAGCGAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGAC
1 TGAAGATAGCAAGTCTTATCTCACTAAAGTTGCAGTAGAACAGAC
29502350 TGAAG
1 TGAAG
29502355 CTACTAATCC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 8 0.20
45 33 0.80
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (45 bp):
TGAAGATAGCAAGTCTTATCTCACTAAAGTTGCAGTAGAACAGAC
Found at i:29502339 original size:45 final size:44
Alignment explanation
Indices: 29502230--29502392 Score: 157
Period size: 44 Copynumber: 3.7 Consensus size: 44
29502220 CATTTCAAAC
* * **
29502230 CTTATCTCCCCAAAGTTGCAGTGGGGCAGGTTGAAGATACAAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAGT
* * * * * * *
29502274 TTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGCGAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA-CAAGT
* *
29502319 CTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGCTACTAA-T
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAC-AAGT
* * *
29502363 CCTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGA
29502393 TTAAAATGAT
Statistics
Matches: 93, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
44 57 0.61
45 36 0.39
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAGT
Found at i:29502450 original size:228 final size:225
Alignment explanation
Indices: 29502035--29502532 Score: 606
Period size: 228 Copynumber: 2.2 Consensus size: 225
29502025 GGAAAACAAA
* * *
29502035 TTGAAGCTACAAGTCTTATCCCACTGAGGTTGCAGTAGAATAGACTGAAGATAGCAGATATTACC
1 TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGCAGATATTACC
** * * * * * * *
29502100 TCTTTGAAGTTACAGTAGAGCAGATCACGATGAGTCTTATCTCCCTGAAGTTACAGTGGATCGGA
66 TCCCTAAAGTTACAGTAGAACAGATAACGATGAATCCTATCTCCCTGAAGTTACAGTGGAGCAGA
* * * *
29502165 CCATAATAATAAATCATATACCTCTGAAGTTGCAGTAGGTCGACTTAGATTTTATCATTTCAAAC
131 CCAAAATAATAAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATATCAAAC
**
29502230 CTTATCTCCCCAAAGTTGCAGTGGGGCAGG
196 CTTATCTCCCCAAAGTTGCAGTGGAACAGG
* * *
29502260 TTGAAGATACAAGTTTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGC-GAGTCTTAT
1 TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGCAGA-TATTAC
* * * **
29502324 CTCCCTAAAGTTGCAGTGGAACAGACTGAAGCTACT-AATCCTATCTCCCTGAAGTTGTAGTGGA
65 CTCCCTAAAGTTACAGTAGAACAGA-T-AA-CGA-TGAATCCTATCTCCCTGAAGTTACAGTGGA
** * *
29502388 GCAGATTAAAATGATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATAT
126 GCAGACCAAAATAATAAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATAT
** *
29502453 CAAACCTTATCTCCCTGAAGTTGCGGTGGAACAGG
191 CAAACCTTATCTCCCCAAAGTTGCAGTGGAACAGG
* * *
29502488 TTG-AGATACAAGTCTTATCTCCCTGACGTTGCAGTGGAGTAGACT
1 TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACT
29502533 AAAACCACAA
Statistics
Matches: 231, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
224 2 0.01
225 74 0.32
226 1 0.00
227 39 0.17
228 114 0.49
229 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (225 bp):
TTGAAGATACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGATAGCAGATATTACC
TCCCTAAAGTTACAGTAGAACAGATAACGATGAATCCTATCTCCCTGAAGTTACAGTGGAGCAGA
CCAAAATAATAAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTAGATCTTATCATATCAAAC
CTTATCTCCCCAAAGTTGCAGTGGAACAGG
Found at i:29509321 original size:12 final size:12
Alignment explanation
Indices: 29509303--29509332 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29509293 GATGGAAGGG
29509303 ATATTTTTATTT
1 ATATTTTTATTT
*
29509315 TTATTTTTATTT
1 ATATTTTTATTT
29509327 ATATTT
1 ATATTT
29509333 AAATTTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
ATATTTTTATTT
Found at i:29513033 original size:16 final size:16
Alignment explanation
Indices: 29513001--29513033 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29512991 TTCGTACATA
29513001 ATTTTATAAATAGATT
1 ATTTTATAAATAGATT
29513017 ATTTTCATAAATA-ATT
1 ATTTT-ATAAATAGATT
29513033 A
1 A
29513034 AATTATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTTTATAAATAGATT
Found at i:29523010 original size:25 final size:25
Alignment explanation
Indices: 29522981--29523029 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
29522971 TATTATTTTC
*
29522981 TGTGTTAATAATTT-GTGAATTAATA
1 TGTGTGAA-AATTTCGTGAATTAATA
*
29523006 TGTGTGAAAATTTCGTGATTTAAT
1 TGTGTGAAAATTTCGTGAATTAAT
29523030 TTTATTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (25 bp):
TGTGTGAAAATTTCGTGAATTAATA
Found at i:29524167 original size:42 final size:42
Alignment explanation
Indices: 29524117--29524216 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
29524107 CTATACGAGT
** * *
29524117 GGCACTAAGTGTGCGAAATTAAAATGACGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACA
29524159 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACA
1 GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACA
29524201 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
29524217 TACTAAGATC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACA
Found at i:29528690 original size:3 final size:3
Alignment explanation
Indices: 29528684--29528715 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
29528674 CAAAAAAATG
29528684 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
29528716 ATATGGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:29544345 original size:64 final size:64
Alignment explanation
Indices: 29544154--29544627 Score: 428
Period size: 62 Copynumber: 7.4 Consensus size: 64
29544144 AGTTTCAGGC
* * * * ** *
29544154 TTTCAGCTAAAAGATAAAGCGATATAGCGTC-AAACTGAGTG-AAAAAACATAAAGAAATTAAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
* * * * *** * *
29544216 TTTCAGCTAAAAGATAGAGCTGAATAGCATCAAAACCAAGT--TAAAAACATAAAAATTTTCAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
* * *
29544278 TTTCAGATAAAAGATAAA-CTAAATAGCGTAAAAAATGAGTGAAAAAAAACATAATGATTTTCAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTG-AAAAAAACATAAAGATTTTCAG
* * * *
29544342 TTTCAGCTAAAAGGTAAAGCTAAATAGCGTAAAAATTAAGTG-AAAAAACA-AAACGATTTTCAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAA-GATTTTCAG
* * * * * * * *
29544405 TTTCAGCTGAAAAGATAAAGCTAAATAGAGTCAAATTTTAGTTAAAAATACATTAAGATTTACAG
1 TTTCAGAT-AAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
**
29544470 TTTCAGACTTTCAGCTCAAAGATAAAGCTAAATAGCGTCAAAATTTTGTGGAAAAAAA-ATAAAG
1 TTTCAGA---T-A----AAAGATAAAGCTAAATAGCGTCAAAATTGAGT-GAAAAAAACATAAAG
29544534 ATTTTCAG
57 ATTTTCAG
* * *
29544542 -TTCAGATAAAAGATAAA-CTAAATAGCATCAAAATTGAGTGAAAAAGACGTAAAGATTTTCAG
1 TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
* *
29544604 TTTCAGTTAAAAGATAAAGATAAA
1 TTTCAGATAAAAGATAAAGCTAAA
29544628 GATAAATAAC
Statistics
Matches: 339, Mismatches: 53, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
61 23 0.07
62 92 0.27
63 57 0.17
64 66 0.19
65 42 0.12
66 2 0.01
67 1 0.00
68 3 0.01
71 6 0.02
72 41 0.12
73 6 0.02
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.26
Consensus pattern (64 bp):
TTTCAGATAAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAAACATAAAGATTTTCAG
Found at i:29544535 original size:72 final size:70
Alignment explanation
Indices: 29544399--29544665 Score: 216
Period size: 72 Copynumber: 3.9 Consensus size: 70
29544389 ACAAAACGAT
* * * * * * *
29544399 TTTCAG-TTTCAGCTGAAAAGATAAAGCTAAATAGAGTCAAATTTTAGTTAAAAATACATTAAGA
1 TTTCAGATTTCAGCT--AAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAGAAATAAAGA
*
29544463 TTTACAG
64 TTTTCAG
**
29544470 TTTCAGACTTTCAGCTCAAAGATAAAGCTAAATAGCGTCAAAATTTTGTGGAAAAA-AAATAAAG
1 TTTCAGA-TTTCAGCT-AAAGATAAAGCTAAATAGCGTCAAAATTGAGT-GAAAAAGAAATAAAG
29544534 ATTTTCAG
63 ATTTTCAG
* **
29544542 -TTCAGA--T-A---AAAGATAAA-CTAAATAGCATCAAAATTGAGTGAAAAAGACGTAAAGATT
1 TTTCAGATTTCAGCTAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAGAAATAAAGATT
29544599 TTCAG
66 TTCAG
** * * *
29544604 TTTCAG-TTAAAAGATAAAGATAAAGATAAATAACGTCAAAATTGAGTGGAAAAA-ATAATAAA
1 TTTCAGATT-TCAGCTAAAGATAAAGCTAAATAGCGTCAAAATTGAGT-GAAAAAGA-AATAAA
29544666 ATAAAAATGA
Statistics
Matches: 162, Mismatches: 19, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
61 6 0.04
62 33 0.20
63 14 0.09
66 1 0.01
67 1 0.01
68 1 0.01
69 9 0.06
70 20 0.12
71 22 0.14
72 42 0.26
73 13 0.08
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (70 bp):
TTTCAGATTTCAGCTAAAGATAAAGCTAAATAGCGTCAAAATTGAGTGAAAAAGAAATAAAGATT
TTCAG
Found at i:29546371 original size:91 final size:91
Alignment explanation
Indices: 29546255--29546542 Score: 371
Period size: 91 Copynumber: 3.2 Consensus size: 91
29546245 AGTAACTATT
* * *
29546255 CAATAACATGCCAGTTTG-TTCATAAGAGCTTTCCAACCAATAACATGCCAGATGCACATAGTGC
1 CAATAACACGCCAGATTGCTT-ATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGC
*
29546319 AAAGCTTGTAGACTGAATATTCTCCCC
65 AAAGCTTGTAGGCTGAATATTCTCCCC
* * * *
29546346 CAATAACACGCCAGATTGCTTATAAGAGCTTTCCAACCGATAGCATGCCATACGCACGTAGTGCA
1 CAATAACACGCCAGATTGCTTATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCA
*** * *
29546411 AAGCCCATAGGTTGACTATTCTCCCC
66 AAGCTTGTAGGCTGAATATTCTCCCC
** * * * * *
29546437 CAATAACACTTCATATTGCTCATAAGAGCTTTCCAACCGATAACACGCTAGATGCACATAGTGTA
1 CAATAACACGCCAGATTGCTTATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCA
29546502 AAGCTTGTAGGCTGAATATTCTCCCC
66 AAGCTTGTAGGCTGAATATTCTCCCC
*
29546528 CGATAACACGCCAGA
1 CAATAACACGCCAGA
29546543 ATCTCCGAAG
Statistics
Matches: 163, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
91 161 0.99
92 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (91 bp):
CAATAACACGCCAGATTGCTTATAAGAGCTTTCCAACCGATAACATGCCAGATGCACATAGTGCA
AAGCTTGTAGGCTGAATATTCTCCCC
Found at i:29568298 original size:18 final size:19
Alignment explanation
Indices: 29568275--29568323 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
29568265 AATCGTGTCG
*
29568275 TTCATTTTCAAAAT-ATTA
1 TTCATTTTCAAAATCATAA
*
29568293 TTCATTTAC-AAATCATAA
1 TTCATTTTCAAAATCATAA
*
29568311 TTCAATTTCAAAA
1 TTCATTTTCAAAA
29568324 CATTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 18 0.72
19 3 0.12
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (19 bp):
TTCATTTTCAAAATCATAA
Found at i:29573534 original size:10 final size:10
Alignment explanation
Indices: 29573521--29573546 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
29573511 TTTTTTGAAC
29573521 ATTAAAATAA
1 ATTAAAATAA
29573531 ATTAAAATAA
1 ATTAAAATAA
29573541 ATTAAA
1 ATTAAA
29573547 GTTAGAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATTAAAATAA
Found at i:29575437 original size:21 final size:22
Alignment explanation
Indices: 29575407--29575448 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
29575397 CACTTCACAA
*
29575407 TCATAAGTCATACATCATCATC
1 TCATAAGTCAAACATCATCATC
29575429 TCAT-AGTCAAACATCATCAT
1 TCATAAGTCAAACATCATCAT
29575449 AAAGTCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (22 bp):
TCATAAGTCAAACATCATCATC
Found at i:29577618 original size:42 final size:42
Alignment explanation
Indices: 29577551--29577674 Score: 180
Period size: 42 Copynumber: 3.0 Consensus size: 42
29577541 ATGCTATCAT
*
29577551 ATATCGATGCCAATAG--CCAGTTATGGTCTTACACGAATCTC
1 ATATCGATGCCAAT-GTCCCAGATATGGTCTTACACGAATCTC
* *
29577592 ATATCAATGCCAATGTCCCAGATATGGTCTTACACAAATCTC
1 ATATCGATGCCAATGTCCCAGATATGGTCTTACACGAATCTC
*
29577634 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGTAATC
1 ATATCGATGCCAATGTCCCAGATATGGTCTTACACG-AATC
29577675 ACATCTCAGT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.01
41 13 0.18
42 56 0.76
43 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGATATGGTCTTACACGAATCTC
Found at i:29585450 original size:13 final size:13
Alignment explanation
Indices: 29585432--29585456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29585422 AGTTTTTCAT
29585432 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
29585445 TGCTTTTGAAAA
1 TGCTTTTGAAAA
29585457 TTTTGAGTGT
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:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:29588056 original size:53 final size:53
Alignment explanation
Indices: 29587993--29588099 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
29587983 ATAATTTGAT
29587993 GTACTAATTTTCCAAGACATCACCAGCAGTAAAAGAAATCTGAAAAAAAAATG
1 GTACTAATTTTCCAAGACATCACCAGCAGTAAAAGAAATCTGAAAAAAAAATG
29588046 GTACTAATTTTCCAAGACATCACCAGCAGTAAAAGAAATCTGAAAAAAAAATG
1 GTACTAATTTTCCAAGACATCACCAGCAGTAAAAGAAATCTGAAAAAAAAATG
29588099 G
1 G
29588100 AGTTATCTAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (53 bp):
GTACTAATTTTCCAAGACATCACCAGCAGTAAAAGAAATCTGAAAAAAAAATG
Found at i:29588168 original size:19 final size:19
Alignment explanation
Indices: 29588144--29588182 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
29588134 GTGGTGGAGA
*
29588144 AGAGGAACAAAGAAGCAGC
1 AGAGGAACAAAGAACCAGC
29588163 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
29588182 A
1 A
29588183 CCAGCAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.18, G:0.28, T:0.00
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:29588187 original size:25 final size:25
Alignment explanation
Indices: 29588159--29588206 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
29588149 AACAAAGAAG
29588159 CAGCAGAGGAACAAAGAACCAGCAC
1 CAGCAGAGGAACAAAGAACCAGCAC
*
29588184 CAGCAGAGGAACAAATAACCAGC
1 CAGCAGAGGAACAAAGAACCAGC
29588207 GATGGGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.27, G:0.23, T:0.02
Consensus pattern (25 bp):
CAGCAGAGGAACAAAGAACCAGCAC
Found at i:29609270 original size:17 final size:18
Alignment explanation
Indices: 29609225--29609272 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
29609215 TGAATGATCA
* *
29609225 TTTTGAGTTTAAGTCACT
1 TTTTGAGTTTAAATTACT
29609243 TTTT-A-TTTAAATTA-T
1 TTTTGAGTTTAAATTACT
29609258 TTTTGAGTTTAAATT
1 TTTTGAGTTTAAATT
29609273 TGATAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 8 0.31
17 9 0.35
18 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.58
Consensus pattern (18 bp):
TTTTGAGTTTAAATTACT
Found at i:29610089 original size:20 final size:20
Alignment explanation
Indices: 29610055--29610096 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
29610045 AACTATTTAA
** *
29610055 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
29610075 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
29610095 AT
1 AT
29610097 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:29618151 original size:609 final size:610
Alignment explanation
Indices: 29617023--29618225 Score: 2228
Period size: 609 Copynumber: 2.0 Consensus size: 610
29617013 TTTAACCACA
29617023 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
1 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
*
29617088 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATGGATTCAACAATTATTAAATT
66 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATGAATTCAACAATTATTAAATT
29617153 CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
131 CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
29617218 CATGTACTAGTTCGTATTGAACTTGTGTAATATCGTAATAACACTATGCCCATTGAACCACTTAG
196 CATGTACTAGTTCGTATTGAACTTGTGTAATATCGTAATAACACTATGCCCATTGAACCACTTAG
* * *
29617283 AATATCGTTAGATACGCGAGTAGTACACGTGAGATGTACTAAACTGTAAATTTGTCAATTCTTGT
261 AATACCATTAGATACGCGAGTAGTACACGCGAGATGTACTAAACTGTAAATTTGTCAATTCTTGT
*
29617348 ACACGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGCTGTGAATTAGTAAGCTCTCAC
326 ACACGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGCTGTGAATCAGTAAGCTCTCAC
*
29617413 GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCGCAACACATGCAGGACCACAACCAA
391 GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCACAACACATGCAGGACCACAACCAA
*
29617478 ATCGGTAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGGACTCTGT
456 ATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGGACTCTGT
*
29617543 ATTCTTCATACTACCTCGATTATGCGTTCGATAATTTTACATTGTGATTACACAATCCAAATACA
521 ATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACA
29617608 TATATTTCAGAGCATAACATAATTC
586 TATATTTCAGAGCATAACATAATTC
*
29617633 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAATCATT
1 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
*
29617698 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATGAATTTAACAATTATTAAATT
66 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATGAATTCAACAATTATTAAATT
*
29617763 CCATGTACATATACCATCTATACCGTATATCTGTATATCATATATAAACCATTTTCATGTAAATA
131 CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
* * *
29617828 CCTGTACTAGTTCGTATTGAACTTGTGTAATCTCGTAATAA-ACTATGCCCGTTGAACCACTTAG
196 CATGTACTAGTTCGTATTGAACTTGTGTAATATCGTAATAACACTATGCCCATTGAACCACTTAG
*
29617892 AATACCATTAGATACGCGGGTAGTACACGCGAGATGTACTAAACTGTAAATTTGTCAATTCTTGT
261 AATACCATTAGATACGCGAGTAGTACACGCGAGATGTACTAAACTGTAAATTTGTCAATTCTTGT
* *
29617957 ACATGTATGCTCATACGAGCGATAAACGGTAGGCTCCTCCGAGCTGTGAATCAGTAAGCTCTCAC
326 ACACGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGCTGTGAATCAGTAAGCTCTCAC
* *
29618022 GAGTTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTTCACAACACATGCAGGACCACAACCAA
391 GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCACAACACATGCAGGACCACAACCAA
29618087 ATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGGACTCTGT
456 ATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGGACTCTGT
29618152 ATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACA
521 ATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACA
29618217 TATATTTCA
586 TATATTTCA
29618226 ATTAAAGTAT
Statistics
Matches: 574, Mismatches: 19, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
609 344 0.60
610 230 0.40
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (610 bp):
AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATGAATTCAACAATTATTAAATT
CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
CATGTACTAGTTCGTATTGAACTTGTGTAATATCGTAATAACACTATGCCCATTGAACCACTTAG
AATACCATTAGATACGCGAGTAGTACACGCGAGATGTACTAAACTGTAAATTTGTCAATTCTTGT
ACACGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGCTGTGAATCAGTAAGCTCTCAC
GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCACAACACATGCAGGACCACAACCAA
ATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGGACTCTGT
ATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACA
TATATTTCAGAGCATAACATAATTC
Found at i:29622743 original size:62 final size:59
Alignment explanation
Indices: 29622636--29622752 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
29622626 ATCACTTTAA
* *
29622636 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
1 TATTAAAATAATATAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
29622695 TATTAAAATAATATAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAA
29622753 GATAATCACT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 20 0.38
61 1 0.02
62 31 0.60
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATATAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:29626255 original size:4 final size:4
Alignment explanation
Indices: 29626246--29626307 Score: 58
Period size: 4 Copynumber: 15.8 Consensus size: 4
29626236 GCAAAGTATC
* * *
29626246 AAAT AAAT AAA- AATAT GAAA- ACAT AAAT CAAC AA-T AAAT AAAT AAAT
1 AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
29626293 AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAA
29626308 GAAAAGAGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
3 6 0.13
4 38 0.81
5 1 0.02
6 2 0.04
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:29626681 original size:23 final size:22
Alignment explanation
Indices: 29626634--29626679 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
29626624 AAACATTAGT
29626634 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
29626657 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
29626678 TA
1 TA
29626680 TATATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:29634897 original size:26 final size:26
Alignment explanation
Indices: 29634867--29634926 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
29634857 TTTTATCCCT
* *
29634867 ATTTTACCCCCAATGAAATTTTGACG
1 ATTTTACCCCCAATAAAATTTTAACG
* *
29634893 ATTTTATCCCCGATAAAATTTTAACG
1 ATTTTACCCCCAATAAAATTTTAACG
29634919 ATTTTACC
1 ATTTTACC
29634927 ATTGGTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (26 bp):
ATTTTACCCCCAATAAAATTTTAACG
Found at i:29638344 original size:33 final size:31
Alignment explanation
Indices: 29638300--29638366 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
29638290 GGAAGCACCC
29638300 AAAAATCGAATATAGTTAAGTCACCAAAAAAGA
1 AAAAATCG-A-ATAGTTAAGTCACCAAAAAAGA
* * *
29638333 AAAAATTGAATAGTTGAGTGACCAAAAAAGA
1 AAAAATCGAATAGTTAAGTCACCAAAAAAGA
29638364 AAA
1 AAA
29638367 TTACTAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 23 0.74
32 1 0.03
33 7 0.23
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (31 bp):
AAAAATCGAATAGTTAAGTCACCAAAAAAGA
Found at i:29638376 original size:31 final size:31
Alignment explanation
Indices: 29638311--29638385 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
29638301 AAAATCGAAT
* * *
29638311 ATAGTTAAGTCACCAAAAAAGAAAAAATTGA
1 ATAGTTGAGTGACCAAAAAAGAAAAAACTGA
*
29638342 ATAGTTGAGTGACCAAAAAAGAAAATTACT-A
1 ATAGTTGAGTGACCAAAAAAGAAAA-AACTGA
*
29638373 ATAGTTGGGTGAC
1 ATAGTTGAGTGAC
29638386 TACTAATGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (31 bp):
ATAGTTGAGTGACCAAAAAAGAAAAAACTGA
Found at i:29649928 original size:23 final size:21
Alignment explanation
Indices: 29649885--29649926 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29649875 GAAAGAGAAT
29649885 CAAAAAAAAAGGAAACAAAAG
1 CAAAAAAAAAGGAAACAAAAG
29649906 CAAAAAAAGGAAGG-AACAAAA
1 CAAAAAAA--AAGGAAACAAAA
29649927 AGGGAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.74, C:0.10, G:0.17, T:0.00
Consensus pattern (21 bp):
CAAAAAAAAAGGAAACAAAAG
Found at i:29650491 original size:14 final size:14
Alignment explanation
Indices: 29650472--29650505 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
29650462 TCCCTAAAAG
29650472 AAATTTCAGCTTCA
1 AAATTTCAGCTTCA
*
29650486 AAATTTCGGCTTCA
1 AAATTTCAGCTTCA
29650500 AAATTT
1 AAATTT
29650506 TACCTGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (14 bp):
AAATTTCAGCTTCA
Found at i:29652209 original size:21 final size:21
Alignment explanation
Indices: 29652185--29652227 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
29652175 CGTAGGTCTC
29652185 ATATACTAAACAAGTCTTTTA
1 ATATACTAAACAAGTCTTTTA
29652206 ATATACTAAACAAGTCTTTTA
1 ATATACTAAACAAGTCTTTTA
29652227 A
1 A
29652228 CGTTGTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATACTAAACAAGTCTTTTA
Found at i:29660324 original size:74 final size:74
Alignment explanation
Indices: 29660191--29660346 Score: 170
Period size: 74 Copynumber: 2.1 Consensus size: 74
29660181 ATTTTTATGT
* * * * * * *
29660191 TAAAATGGTAAGTAATTGTGACAAAATTAAATTGTTACACGTATTTCATTTCCTAGTGACCAAGT
1 TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACACGTATTTCATTTCCTAGTGACAAAAT
29660256 TTCCGACAC
66 TTCCGACAC
** ** *
29660265 TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACATTTATTT-AGTTTTTTGGTGACAAAA
1 TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACACGTATTTCA-TTTCCTAGTGACAAAA
**
29660329 TTTTTGACAC
65 TTTCCGACAC
29660339 TAAAATGA
1 TAAAATGA
29660347 CAGACAATTG
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
73 1 0.01
74 66 0.99
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (74 bp):
TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACACGTATTTCATTTCCTAGTGACAAAAT
TTCCGACAC
Found at i:29660359 original size:74 final size:70
Alignment explanation
Indices: 29660267--29660449 Score: 183
Period size: 74 Copynumber: 2.5 Consensus size: 70
29660257 TCCGACACTA
* * * *
29660267 AAATGATAAGGAACTGTGACAAAATTAAATAGTCACATTTA-TTTAGTTTTTTGGTGACAAAATT
1 AAATG-TAAGCAATTGTGACAAAATTAAATAGTCACAATTATTTTA-TTTTTT-GTGACAAAACT
29660331 TTTGACACT
63 TTTGACA-T
* *
29660340 AAAATG-ACAGACAATTGTGATAAAATTTAAAT-GATCACAATTATTTTATTTTTTGTGATAAAA
1 -AAATGTA-AG-CAATTGTGACAAAA-TTAAATAG-TCACAATTATTTTATTTTTTGTGACAAAA
29660403 CTTTTGACAT
61 CTTTTGACAT
* * *
29660413 TATTGTAAGTAATTGTGACAAAATTAAATAGTCACAA
1 AAATGTAAGCAATTGTGACAAAATTAAATAGTCACAA
29660450 GTAACCTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
70 12 0.13
71 13 0.14
72 6 0.07
73 4 0.04
74 33 0.36
75 20 0.22
76 4 0.04
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (70 bp):
AAATGTAAGCAATTGTGACAAAATTAAATAGTCACAATTATTTTATTTTTTGTGACAAAACTTTT
GACAT
Found at i:29664677 original size:951 final size:942
Alignment explanation
Indices: 29662826--29664732 Score: 2592
Period size: 951 Copynumber: 2.0 Consensus size: 942
29662816 CTAGATGACG
* * * * * * *
29662826 GATACATTGTTTCATTTTGGGTCTTGTTGGGTTTTTGAGCCTTCTTGTGAAGAGGAGATTCGAAG
1 GATACATTCTTTTATTTTGAGTCTTGTTGGGTTTTTGAACCTTCTTATGAAGAGGAGATCCAAAG
* * *
29662891 GGTGTGGACGTCAAGTATAGGGTCAATTCCTATTCGATTGGGTTCGTTAGGGTTTACTTTATCTA
66 GGTGTGGACGTCAAGTACAGGGTCAATACCTATTCGATTGGGTTCGTTAGGGATTACTTTATCTA
* * *
29662956 CGTAGGGCCAAACACTTTATAGACATAGGCATCGATTTGTTTGATAGGCTACAGTTCGGTTGGAA
131 CGTAGGGCCAAACACTTCATAGACATAGGCATAGATTTGTTTGATAGGCTACAGTTCAGTTGGAA
* * *
29663021 CGATTGCATCCTTCGATGACATCTTGGCCAAGATAATCAAGGTCAAATTGACTCTCAATATGGAA
196 CGATTGCATCCCTCGATGACATCTTGGCCAAGATAATCAAGGTAAAATTAACTCTCAATATGGAA
* * *
29663086 GGTGATAAAGAGGAATTGTTCTAGGGCCAACGAGCATGGGTGAATTGGTTATACTATGGTGATCG
261 GGTAATAAAGAGGAATTGTTCTAGGGCCAACGAGCATGGGTGAATTGGCTATACTATGGTGATCA
* *
29663151 AAATACATCGTTTTACCACAAATTTGCCACTTTTCAGAAGCATATGAATTTAGTAACTTCTTTGG
326 AAATACATCATTTTACCACAAATTTGCAACTTTTCAGAAGCATATGAATTTAGTAACTTCTTTGG
* * *
29663216 TGGATGATGATGGTCGTATTTGTACAGACATGGATACTATGTTTGGGGTTGCCGCTAGATATTTT
391 TGGATAATGATGGTCGTACTTGTACAGACATGGATACTATGTTTGGGGTTGCCACTAGATATTTT
* * *
29663281 CAGGGCCTTTTTACTTCGTCTAGGCCGGTGAATTTTGATCATTTTTTGGAGGACATTTAGGTGTG
456 CAGGGCCTTTTTACTTCGTCTAGGCCGGTGAATTTTGATCATTTTTTGGACGACATTGAGGTGCG
*
29663346 TATTACTCATTAGAAAATGAGGGTTTTTCTATCCGATTTTACACCTCTAGAGATTAGGTCTACCA
521 TATTACTCATTAGAAAATGAGGGTTTTGCTATCCGATTTTACACCTCTAGAGATTAGGTCTACCA
* * * *
29663411 TTGACGGGATGTCTCCTTTGAAATCCCCGGGTAGGGATGGATTGCCAGATTTGTTTTTTCAGTAG
586 TTGACGGGATGTCTCCTTTGAAATCCCCAGATAGGGATGGATTCCCAGATTTGTTTTTTCAGAAG
* * * *
29663476 TATTGGCATACCATTGATGCTGATGTCACAAATTATTATTTGCAGGTGCTTTGAAGGGAGCTACT
651 TATAGGCATACCATTGACGCTGATGTCACAAATTATTATTTGCAGGTGCTTCGAAGGGAGCTACC
* * **
29663541 TTTTTTTATATTAATGCCACAAACCTCATTCTTCTTCCCAAGGTGCATAATCCTGTGAAAATGTC
716 TTTTTTGATATTAATGCCACAAACCTCATTCTTCTTCCCAAGGTGCATAACCCTACGAAAATGTC
29663606 ACAATTCCACCTGATTAGTCTCTGTTCTGTTCTTTACAAGATTATTTCTACAGTTTCGGGGAACA
781 ACAATTCCACCTGATTAGTCTCTGTTCTGTTCTTTACAAGATTATTTCTACAGTTTCGGGGAACA
* * * * *
29663671 CGTTTAAAGGGGTTTTGTCCACTTGTATTGAAGAGGCACAGAGTGCGTTTGTTCCTAGCTGTTTT
846 AGTTTAAAAGAGTTTTGTCCACTTGTATTGAAGAGGCACAGAGTGCATTTGTTCCTAGCCGTTTT
*
29663736 ATCACTAACAACTTCCTAATTGCTTATGAGGT
911 ATCACTAACAACTTCCTAAATGCTTATGAGGT
*
29663768 GATACATTCTTTTGTTTTGAGTCTTGTTGGGTTTTCT-AACCTTCTTATGAAGAGGAGATCCAAA
1 GATACATTCTTTTATTTTGAGTCTTGTTGGGTTTT-TGAACCTTCTTATGAAGAGGAGATCCAAA
* * *** * * * * *
29663832 GGGTGTGGGCTTCAAGTACAGGGTTGGTACCTATTTGATTGGGTTTGTTCGGGATTATTTTGTCT
65 GGGTGTGGACGTCAAGTACAGGGTCAATACCTATTCGATTGGGTTCGTTAGGGATTACTTTATCT
* * * * *
29663897 ACTTGGGGCCGAACACTTCATAGATATAGGCGTTAG-TTTGTTTGATAGGCTACAGCTT-AGTTG
130 ACGTAGGGCCAAACACTTCATAGACATAGGC-ATAGATTTGTTTGATAGGCTACAG-TTCAGTTG
* *
29663960 GAACGATTGCATCAGGTTGATCCCTCTGGTGACATCTTGGCCGAGATAATCAAGGTAAAATTAAC
193 GAACGATTG---C------ATCCCTC-GATGACATCTTGGCCAAGATAATCAAGGTAAAATTAAC
* * * * *
29664025 TCTCAATATGGAGGGTAATAGAA-AGGAATTGTTTTGGGGCCAACGGGCATGGGTGAATTGGCTG
248 TCTCAATATGGAAGGTAATA-AAGAGGAATTGTTCTAGGGCCAACGAGCATGGGTGAATTGGCTA
* *
29664089 TACTATGGTGATCAAAATACATCATTTTACCGCAAATTTGCAACTTTTCGGAAGCATATGAATTT
312 TACTATGGTGATCAAAATACATCATTTTACCACAAATTTGCAACTTTTCAGAAGCATATGAATTT
* * * **
29664154 GGTAAGTTCTTTGGTGGATAATGATGGTCGTACTTGTATAGACATGGATGTTATGTTTGGGGTTG
377 AGTAACTTCTTTGGTGGATAATGATGGTCGTACTTGTACAGACATGGATACTATGTTTGGGGTTG
*
29664219 CCACTAGATATTTTCAGGGCCTTTTTACTTTGTCTAGGCCGGTGAATTTTGATCATTTGTTT-GA
442 CCACTAGATATTTTCAGGGCCTTTTTACTTCGTCTAGGCCGGTGAATTTTGATCATTT-TTTGGA
* * * * *
29664283 CGACATTGATGTGCGTATTACT-ATTCGAATAATG-GGGTTTTGCTCTCTGATTTTACATCTCTA
506 CGACATTGAGGTGCGTATTACTCATTAGAA-AATGAGGGTTTTGCTATCCGATTTTACACCTCTA
* ** *
29664346 GAGATTAGGTTTGTCATTGACGGGATGTCTCCTTTGAAATCCCCAGATAGGGATGGATTCCCAGC
570 GAGATTAGGTCTACCATTGACGGGATGTCTCCTTTGAAATCCCCAGATAGGGATGGATTCCCAGA
* * * * *
29664411 TTTGTTTTTTTAGAAGTATAGGTATATCATTGACGCTGATGTCACAGATTATTCTTTGCAGGT-C
635 TTTGTTTTTTCAGAAGTATAGGCATACCATTGACGCTGATGTCACAAATTATTATTTGCAGGTGC
* * * *
29664475 GTTCGAAGGGAGCTCCCTTTTTTGATATTAATGCCACAAACTTCATTCTTTTTCCCAAGGTGTAT
700 -TTCGAAGGGAGCTACCTTTTTTGATATTAATGCCACAAACCTCATTCTTCTTCCCAAGGTGCAT
* * * *
29664540 AACCCTACGTAGATGTCACAATTCCGCCTGATTAGTCTTTGTTCCT-TTCTTTACAAGATTATTT
764 AACCCTACGAAAATGTCACAATTCCACCTGATTAGTCTCTGTT-CTGTTCTTTACAAGATTATTT
* * ***
29664604 CTATAGTTTCGGGGAAGAAGTTTAAAAGAGTTTTGTCTGTTTGTATTGACA-AGGCACAGAGTGC
828 CTACAGTTTCGGGGAACAAGTTTAAAAGAGTTTTGTCCACTTGTATTGA-AGAGGCACAGAGTGC
* * * *
29664668 ATTTGTTCCTGGCCGTTTTATCACTAATAACTTTCTAAATGCTTATGATGT
892 ATTTGTTCCTAGCCGTTTTATCACTAACAACTTCCTAAATGCTTATGAGGT
*
29664719 GTTACATTCTTTTA
1 GATACATTCTTTTA
29664733 AACACAAGCG
Statistics
Matches: 836, Mismatches: 110, Indels: 29
0.86 0.11 0.03
Matches are distributed among these distances:
942 164 0.20
943 5 0.01
945 1 0.00
950 1 0.00
951 371 0.44
952 289 0.35
953 5 0.01
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (942 bp):
GATACATTCTTTTATTTTGAGTCTTGTTGGGTTTTTGAACCTTCTTATGAAGAGGAGATCCAAAG
GGTGTGGACGTCAAGTACAGGGTCAATACCTATTCGATTGGGTTCGTTAGGGATTACTTTATCTA
CGTAGGGCCAAACACTTCATAGACATAGGCATAGATTTGTTTGATAGGCTACAGTTCAGTTGGAA
CGATTGCATCCCTCGATGACATCTTGGCCAAGATAATCAAGGTAAAATTAACTCTCAATATGGAA
GGTAATAAAGAGGAATTGTTCTAGGGCCAACGAGCATGGGTGAATTGGCTATACTATGGTGATCA
AAATACATCATTTTACCACAAATTTGCAACTTTTCAGAAGCATATGAATTTAGTAACTTCTTTGG
TGGATAATGATGGTCGTACTTGTACAGACATGGATACTATGTTTGGGGTTGCCACTAGATATTTT
CAGGGCCTTTTTACTTCGTCTAGGCCGGTGAATTTTGATCATTTTTTGGACGACATTGAGGTGCG
TATTACTCATTAGAAAATGAGGGTTTTGCTATCCGATTTTACACCTCTAGAGATTAGGTCTACCA
TTGACGGGATGTCTCCTTTGAAATCCCCAGATAGGGATGGATTCCCAGATTTGTTTTTTCAGAAG
TATAGGCATACCATTGACGCTGATGTCACAAATTATTATTTGCAGGTGCTTCGAAGGGAGCTACC
TTTTTTGATATTAATGCCACAAACCTCATTCTTCTTCCCAAGGTGCATAACCCTACGAAAATGTC
ACAATTCCACCTGATTAGTCTCTGTTCTGTTCTTTACAAGATTATTTCTACAGTTTCGGGGAACA
AGTTTAAAAGAGTTTTGTCCACTTGTATTGAAGAGGCACAGAGTGCATTTGTTCCTAGCCGTTTT
ATCACTAACAACTTCCTAAATGCTTATGAGGT
Found at i:29667554 original size:20 final size:20
Alignment explanation
Indices: 29667505--29667554 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
29667495 TAAACCACTT
*
29667505 CATTTACATACTTACCATTC
1 CATTTACTTACTTACCATTC
*
29667525 CATTTACTTACTTTCCATTC
1 CATTTACTTACTTACCATTC
* *
29667545 TATTTGCTTA
1 CATTTACTTA
29667555 GCATAAGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.02, T:0.48
Consensus pattern (20 bp):
CATTTACTTACTTACCATTC
Found at i:29670915 original size:18 final size:18
Alignment explanation
Indices: 29670881--29670915 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29670871 TTTGGGTTTC
*
29670881 TTTTTCTTTTGTCTTTTG
1 TTTTTCTTTGGTCTTTTG
*
29670899 TTTTTCTTTGGTGTTTT
1 TTTTTCTTTGGTCTTTT
29670916 TCTGATTCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.14, T:0.77
Consensus pattern (18 bp):
TTTTTCTTTGGTCTTTTG
Found at i:29695455 original size:20 final size:20
Alignment explanation
Indices: 29695432--29695478 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
29695422 ATATTTTTAT
29695432 TTTTTTTAATT-TATTGATGC
1 TTTTTTTAATTATATTGAT-C
** *
29695452 TTTTTAGAATTATATTTATC
1 TTTTTTTAATTATATTGATC
29695472 TTTTTTT
1 TTTTTTT
29695479 TTCTTTCAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTTTTTAATTATATTGATC
Found at i:29701641 original size:19 final size:19
Alignment explanation
Indices: 29701617--29701656 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
29701607 CTTAGTGAGT
29701617 TACATAAAGAAAACATAAC
1 TACATAAAGAAAACATAAC
29701636 TACATAAAGAAAACATAAC
1 TACATAAAGAAAACATAAC
29701655 TA
1 TA
29701657 ACTTACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.17
Consensus pattern (19 bp):
TACATAAAGAAAACATAAC
Found at i:29703995 original size:43 final size:43
Alignment explanation
Indices: 29703932--29704014 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
29703922 ATGTTCCAAT
* *
29703932 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGATATTGGC
1 ATCGATTTGAGATTTAGTGTAAGAACATAGCTGGGATATTGGC
*
29703975 ATCGATTTGAGATTTAGTGTAAGAACATAGCTGGGGTATT
1 ATCGATTTGAGATTTAGTGTAAGAACATAGCTGGGATATT
29704015 CACATCAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.34
Consensus pattern (43 bp):
ATCGATTTGAGATTTAGTGTAAGAACATAGCTGGGATATTGGC
Found at i:29704030 original size:43 final size:43
Alignment explanation
Indices: 29703940--29704032 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 43
29703930 ATATCGATTT
* * ** * **
29703940 GAGATTTCGTGTAAGACCATAGCTGGGATATTGGCATCGATTT
1 GAGATTTAGTGTAAGAACATAGCTGGGATATTCACATCAATAC
*
29703983 GAGATTTAGTGTAAGAACATAGCTGGGGTATTCACATCAATAC
1 GAGATTTAGTGTAAGAACATAGCTGGGATATTCACATCAATAC
29704026 GAGATTT
1 GAGATTT
29704033 CCATGTAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (43 bp):
GAGATTTAGTGTAAGAACATAGCTGGGATATTCACATCAATAC
Found at i:29707026 original size:22 final size:22
Alignment explanation
Indices: 29707001--29707042 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
29706991 CAAAATTTGG
29707001 AATACATAA-ATAATAAAATAAT
1 AATACATAATA-AATAAAATAAT
*
29707023 AATACCTAATAAATAAAATA
1 AATACATAATAAATAAAATA
29707043 TTGGACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (22 bp):
AATACATAATAAATAAAATAAT
Found at i:29716106 original size:13 final size:14
Alignment explanation
Indices: 29716078--29716118 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
29716068 ACCTAAGTCC
*
29716078 ATAACAG-TAACAG
1 ATAACAGATATCAG
*
29716091 ATATCAGA-ATCAG
1 ATAACAGATATCAG
29716104 ATAACAGATATCAG
1 ATAACAGATATCAG
29716118 A
1 A
29716119 ATCCTACCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (14 bp):
ATAACAGATATCAG
Found at i:29720914 original size:20 final size:20
Alignment explanation
Indices: 29720891--29720941 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
29720881 TTGTTATTCC
29720891 TAGAAAATAAAATTTATACT
1 TAGAAAATAAAATTTATACT
*
29720911 TAGAAAATAGAATTTATACT
1 TAGAAAATAAAATTTATACT
29720931 TAGAAAATAAA
1 TAGAAAATAAA
29720942 TTCTCTCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (20 bp):
TAGAAAATAAAATTTATACT
Found at i:29721334 original size:21 final size:22
Alignment explanation
Indices: 29721299--29721350 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
29721289 AATATTATTG
*
29721299 ATTAATTAATTTAATTAGATAA
1 ATTAATTAATTTAATTAAATAA
*
29721321 ATTAATT-TTTTAATTAAATAA
1 ATTAATTAATTTAATTAAATAA
* *
29721342 TTTTATTAA
1 ATTAATTAA
29721351 CCCAATTCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTAATTAATTTAATTAAATAA
Found at i:29722788 original size:8 final size:8
Alignment explanation
Indices: 29722775--29722807 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
29722765 TAAGTTTATC
29722775 TTTTAAAT
1 TTTTAAAT
29722783 TTTTAAAT
1 TTTTAAAT
29722791 TTTTAAAT
1 TTTTAAAT
*
29722799 TTTAAAAT
1 TTTTAAAT
29722807 T
1 T
29722808 CATGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTTAAAT
Found at i:29724639 original size:19 final size:18
Alignment explanation
Indices: 29724606--29724641 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
29724596 ACATTTTTAT
*
29724606 TATTTGCTGCTATTTTTC
1 TATTTGCTGCAATTTTTC
29724624 TATTTGCTGTCAATTTTT
1 TATTTGCTG-CAATTTTT
29724642 GCTTTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61
Consensus pattern (18 bp):
TATTTGCTGCAATTTTTC
Found at i:29734997 original size:49 final size:49
Alignment explanation
Indices: 29734940--29735043 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
29734930 TCATGTGTTA
* * * *
29734940 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAATTT
29734989 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAATTT
29735038 TAATTT
1 TAATTT
29735044 GTTTTTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTAACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:29736567 original size:120 final size:120
Alignment explanation
Indices: 29736428--29736815 Score: 672
Period size: 120 Copynumber: 3.2 Consensus size: 120
29736418 AAGTAGATTA
* * *
29736428 TAAAATATATTTAATAATAACTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
29736493 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTAT
*
29736548 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGG
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
29736613 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTCTAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTAT
*
29736668 TAAATTATATTTAAAAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
* * *
29736733 AAATTCATATAAGAATATTTATTATTAAGACTTTTATTAAATTATATATTTTAAT
66 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTAT
29736788 TCAAA-TATATTTAATAATAATTAT-TTAA
1 T-AAATTATATTTAATAATAATTATGTTAA
29736816 GATATGATTA
Statistics
Matches: 255, Mismatches: 12, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
119 4 0.02
120 248 0.97
121 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTAT
Found at i:29736668 original size:18 final size:17
Alignment explanation
Indices: 29736643--29736677 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
29736633 AATATTAAGA
29736643 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
29736660 ATTTCTATTAAATTATAT
1 ATTT-TATTAAATTATAT
29736678 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:29737055 original size:16 final size:16
Alignment explanation
Indices: 29737030--29737067 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
29737020 AGGATTACCT
*
29737030 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
29737046 GTTACACCTCTATTCC
1 ATTACACCTCTATTCC
29737062 ATTACA
1 ATTACA
29737068 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.34, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:29738052 original size:22 final size:20
Alignment explanation
Indices: 29738007--29738052 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
29737997 GGGGGGGTCA
*
29738007 ACACGCCTATGCGGAGGGGC
1 ACACGCCTAAGCGGAGGGGC
*
29738027 ACACGCCTAAGTGGAAGGAGGC
1 ACACGCCTAAGCGG-AGG-GGC
29738049 ACAC
1 ACAC
29738053 ACCCGTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 3 0.14
22 7 0.32
ACGTcount: A:0.28, C:0.28, G:0.35, T:0.09
Consensus pattern (20 bp):
ACACGCCTAAGCGGAGGGGC
Found at i:29740959 original size:39 final size:39
Alignment explanation
Indices: 29740901--29741004 Score: 190
Period size: 39 Copynumber: 2.6 Consensus size: 39
29740891 ACAAAAAACG
*
29740901 CCGCTAAAGATCGAGCATTAGCGGCGCTTTCAGGAAAGCA
1 CCGCTAAAAAT-GAGCATTAGCGGCGCTTTCAGGAAAGCA
29740941 CCGCTAAAAATGAGCATTAGCGGCGCTTTCAGGAAAGCA
1 CCGCTAAAAATGAGCATTAGCGGCGCTTTCAGGAAAGCA
29740980 CCGCTAAAAATGAGCATTAGCGGCG
1 CCGCTAAAAATGAGCATTAGCGGCG
29741005 TTTTTACAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
39 53 0.84
40 10 0.16
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (39 bp):
CCGCTAAAAATGAGCATTAGCGGCGCTTTCAGGAAAGCA
Found at i:29741122 original size:41 final size:41
Alignment explanation
Indices: 29741065--29741382 Score: 429
Period size: 41 Copynumber: 7.8 Consensus size: 41
29741055 GACCTTTCAA
* * * *
29741065 GGCTTTAGTGGCGTTTTTAAAAAACCGTCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
* * *
29741106 GGCTTTAGCGTCGTTTTTGGAGAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
* * * *
29741147 GGCTTTAGCGGCGTTTTTGGAGAAGCTCCGCTAATGCTTAG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
* * * *
29741188 GGCTTTAGCGTCGTTTTTGAAAAAGCGCTGCTAATCCTCAA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
* *
29741229 GGATTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
* * *
29741270 GGCTTTAGCGGTGTTTTTGTAAAAGCGCCGCTAATGCTTAG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
* *
29741311 GGCGTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
*
29741352 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
29741383 AAAAACATTT
Statistics
Matches: 242, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 242 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG
Found at i:29741286 original size:123 final size:123
Alignment explanation
Indices: 29741065--29741382 Score: 476
Period size: 123 Copynumber: 2.6 Consensus size: 123
29741055 GACCTTTCAA
* * * * *
29741065 GGCTTTAGTGGCGTTTTTAAAAAACCGTCGCTAATGCTCAGGGCTTTAGCGTCGTTTTTGGAGAA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAAA
* * *
29741130 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAGAAGCTCCGCTAATGCTTAG
66 GCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTAG
* * * * *
29741188 GGCTTTAGCGTCGTTTTTGAAAAAGCG-CTGCTAATCCTCAAGGATTTAGCGGCGTTTTTGAAAA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGTC-GCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAA
* *
29741252 AGCGCCGCTAATGCTCAAGGCTTTAGCGGTGTTTTTGTAAAAGCGCCGCTAATGCTTAG
65 AGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTAG
*
29741311 GGCGTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAAA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAAA
29741376 GCGCCGC
66 GCGCCGC
29741383 AAAAACATTT
Statistics
Matches: 172, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
122 1 0.01
123 170 0.99
124 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (123 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAAA
GCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTAG
Found at i:29741728 original size:14 final size:14
Alignment explanation
Indices: 29741711--29741744 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
29741701 GGGTTTAATA
29741711 TATATGGTTT-AGGG
1 TATATGGTTTGA-GG
29741725 TATATGGTTTGAGG
1 TATATGGTTTGAGG
29741739 TATATG
1 TATATG
29741745 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
TATATGGTTTGAGG
Found at i:29741983 original size:7 final size:7
Alignment explanation
Indices: 29741961--29741995 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
29741951 TATTAAATAA
29741961 GGTTTATG
1 GGTTTA-G
29741969 GG-TTAG
1 GGTTTAG
29741975 GGTTTAG
1 GGTTTAG
29741982 GGTTTAG
1 GGTTTAG
29741989 GGTTTAG
1 GGTTTAG
29741996 ATTAATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 3 0.12
7 21 0.81
8 2 0.08
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:29742058 original size:69 final size:68
Alignment explanation
Indices: 29741917--29742065 Score: 203
Period size: 69 Copynumber: 2.2 Consensus size: 68
29741907 AGGTTAAGGT
* * *
29741917 TTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAGGTTTATGGGTTAGGGTTTAG
1 TTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAAGTTTAGGGGTTAGAGTTTAG
*
29741982 GGT
66 GGG
*
29741985 TTAGGGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAAATTTTAGGGGTTAGTAG-T
1 TTAGGGTTTAGATTAATTAGTGTATTTTAA-TT-TATATTAAATAAAGTTTAGGGGTTAG-AGTT
29742048 TAGGGG
63 TAGGGG
*
29742054 TTAGGGGTTAGA
1 TTAGGGTTTAGA
29742066 GGTTACGAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
67 6 0.08
68 25 0.35
69 40 0.56
70 1 0.01
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (68 bp):
TTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAAGTTTAGGGGTTAGAGTTTAG
GGG
Found at i:29742063 original size:14 final size:14
Alignment explanation
Indices: 29742033--29742077 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
29742023 TAAATAAATT
*
29742033 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
29742047 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
29742061 TTAGAGGTTACGAG
1 TTAGGGGTTAGGAG
29742075 TTA
1 TTA
29742078 CTGATTTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:29742077 original size:21 final size:21
Alignment explanation
Indices: 29742033--29742077 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29742023 TAAATAAATT
* *
29742033 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTACGAG
29742054 TTAGGGGTTAG-AGGTTACGAG
1 TTAGGGGTTAGTA-GTTACGAG
29742075 TTA
1 TTA
29742078 CTGATTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTACGAG
Found at i:29747001 original size:43 final size:43
Alignment explanation
Indices: 29746915--29747097 Score: 233
Period size: 43 Copynumber: 4.3 Consensus size: 43
29746905 GTCAATGTTA
* * * *
29746915 TAGCGGCGTTTGTAGAAAAAGCGTCGCTAAAGGTCTTGTTCTT
1 TAGCGGCGTTTCTAGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
* * * * * * *
29746958 TAACGGCTTTTTTTGGGAAAA-TGCTGCTAAAGGTATTGGTCTT
1 TAGCGGC-GTTTCTAGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
*
29747001 TAGCGGCGTTTCTAGGAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTCTAGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
29747044 TAGCGGCGTTTCTAGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTCTAGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
*
29747087 TAGCAGCGTTT
1 TAGCGGCGTTT
29747098 TTTTCTAAAA
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 10 0.08
43 99 0.84
44 9 0.08
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
TAGCGGCGTTTCTAGGAAAAGCGCCGCTAAAGGTCTTGGTCTT
Found at i:29751369 original size:25 final size:25
Alignment explanation
Indices: 29751338--29751385 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29751328 AAATTCATTG
* * *
29751338 TCTATTAAAGATTTCATTCATTTCT
1 TCTATTAAAAATATCATCCATTTCT
29751363 TCTATTAAAAATATCATCCATTT
1 TCTATTAAAAATATCATCCATTT
29751386 TGCTTGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (25 bp):
TCTATTAAAAATATCATCCATTTCT
Found at i:29755071 original size:14 final size:15
Alignment explanation
Indices: 29755054--29755086 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
29755044 TTATATAGTT
29755054 TATTTAATATTT-AA
1 TATTTAATATTTAAA
*
29755068 TATTTTATATTTAAA
1 TATTTAATATTTAAA
29755083 TATT
1 TATT
29755087 ATTCTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTAATATTTAAA
Found at i:29755124 original size:20 final size:21
Alignment explanation
Indices: 29755079--29755124 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
29755069 ATTTTATATT
*
29755079 TAAATATTATTCTTTTGATAG
1 TAAATATTATTCTTTTAATAG
*
29755100 AAAATATTATTC-TTTAATAG
1 TAAATATTATTCTTTTAATAG
29755120 TAAAT
1 TAAAT
29755125 TGATGTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAATATTATTCTTTTAATAG
Found at i:29755590 original size:43 final size:43
Alignment explanation
Indices: 29755479--29755661 Score: 273
Period size: 42 Copynumber: 4.3 Consensus size: 43
29755469 GTTTACAAAC
*
29755479 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-CAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
* *
29755521 AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AAA
*
29755565 AAAAACGCCTCTAAAGACCAT-TTCTTTAGCGGCGCTTAG-AA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
* * *
29755606 AAAAACGCTGCTAAAGACCATGTTCGTTAGCGGGGCTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
29755649 AAAAACGCCGCTA
1 AAAAACGCCGCTA
29755662 GGCGTTTTTA
Statistics
Matches: 126, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
41 21 0.17
42 53 0.42
43 32 0.25
44 20 0.16
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
Found at i:29755600 original size:85 final size:85
Alignment explanation
Indices: 29755479--29755661 Score: 287
Period size: 85 Copynumber: 2.2 Consensus size: 85
29755469 GTTTACAAAC
*
29755479 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAATGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGAACATGT
*
29755544 TCTTTAGCGGCGCTTAGAAAA
66 TCGTTAGCGGCGCTTAG-AAA
* * * *
29755565 AAAAACGCCTCTAAAGACCAT-TTCTTTAGCGGCGCTTAGAAAAAAACGCTGCTAAAGACCATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGAACATGT
*
29755629 TCGTTAGCGGGGCTTAGAAA
66 TCGTTAGCGGCGCTTAGAAA
29755649 AAAAACGCCGCTA
1 AAAAACGCCGCTA
29755662 GGCGTTTTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 15 0.17
85 54 0.61
86 20 0.22
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGAACATGT
TCGTTAGCGGCGCTTAGAAA
Found at i:29761588 original size:9 final size:9
Alignment explanation
Indices: 29761574--29761649 Score: 52
Period size: 9 Copynumber: 8.9 Consensus size: 9
29761564 AAGTTATACA
29761574 TTATGTAAG
1 TTATGTAAG
29761583 TTATGTAAG
1 TTATGTAAG
* *
29761592 TTGTGCAAG
1 TTATGTAAG
*
29761601 TTGTGT-A-
1 TTATGTAAG
* *
29761608 TTATGAAAC
1 TTATGTAAG
29761617 TTATGTAAG
1 TTATGTAAG
**
29761626 TTGCGTAAG
1 TTATGTAAG
*
29761635 TTGTGT-A-
1 TTATGTAAG
29761642 TTATGTAA
1 TTATGTAA
29761650 CTTACCCTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
7 9 0.17
8 4 0.08
9 40 0.75
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (9 bp):
TTATGTAAG
Found at i:29761611 original size:34 final size:34
Alignment explanation
Indices: 29761573--29761653 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
29761563 TAAGTTATAC
* *
29761573 ATTATGTAAGTTATGTAAGTTGTGCAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGCGCAAGTTGTGT
* *
29761607 ATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGCGCAAGTTGTGT
29761641 ATTATGTAACTTA
1 ATTATGTAACTTA
29761654 CCCTTGACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (34 bp):
ATTATGTAACTTATGTAAGTTGCGCAAGTTGTGT
Found at i:29761768 original size:9 final size:9
Alignment explanation
Indices: 29761754--29762127 Score: 150
Period size: 9 Copynumber: 43.9 Consensus size: 9
29761744 AAGTTATACA
29761754 TTATGTAAG
1 TTATGTAAG
29761763 TTATGTAAG
1 TTATGTAAG
*
29761772 TTGTGTAAG
1 TTATGTAAG
*
29761781 TTGTGT-A-
1 TTATGTAAG
* *
29761788 TTATGAAAC
1 TTATGTAAG
29761797 TTATGTAAG
1 TTATGTAAG
**
29761806 TTGCGTAAG
1 TTATGTAAG
*
29761815 TTGTGT-A-
1 TTATGTAAG
*
29761822 TTATGTAAC
1 TTATGTAAG
* *
29761831 TTATTTAAC
1 TTATGTAAG
*
29761840 TTATGTAGG
1 TTATGTAAG
*
29761849 GTATGTATTA-
1 TTATGTA--AG
*
29761859 TTATGTAAC
1 TTATGTAAG
* *
29761868 TTATTTAAA
1 TTATGTAAG
*
29761877 TTATGTAGG
1 TTATGTAAG
*
29761886 GTATGTAAG
1 TTATGTAAG
*
29761895 TTATGTAGG
1 TTATGTAAG
*
29761904 TTTTGT-A-
1 TTATGTAAG
*
29761911 TTATTTACA-
1 TTATGTA-AG
*
29761920 -CATGTAAG
1 TTATGTAAG
*
29761928 TTATGT--C
1 TTATGTAAG
29761935 TTATGTAAG
1 TTATGTAAG
**
29761944 TTGCGTAAG
1 TTATGTAAG
*
29761953 TTGTGT-A-
1 TTATGTAAG
* *
29761960 TTATGAAAC
1 TTATGTAAG
29761969 TTATGTAAG
1 TTATGTAAG
**
29761978 TTGCGTAAG
1 TTATGTAAG
*
29761987 TTGTGT-A-
1 TTATGTAAG
*
29761994 TTATGTAAC
1 TTATGTAAG
* *
29762003 TTATTTAAT
1 TTATGTAAG
*
29762012 TTATGTAGG
1 TTATGTAAG
*
29762021 GTATGTAAG
1 TTATGTAAG
29762030 TTATGTAAG
1 TTATGTAAG
*
29762039 TTTTGT-A-
1 TTATGTAAG
*
29762046 TTATTTACA-
1 TTATGTA-AG
*
29762055 -CATGTAAG
1 TTATGTAAG
*
29762063 TTGTGT-A-
1 TTATGTAAG
*
29762070 TTATGTAGG
1 TTATGTAAG
*
29762079 TTATGCAAG
1 TTATGTAAG
29762088 TTATGT-A-
1 TTATGTAAG
* *
29762095 TTAAGTAGG
1 TTATGTAAG
29762104 TTATGTAAG
1 TTATGTAAG
29762113 TTATGT--G
1 TTATGTAAG
29762120 TTATGTAA
1 TTATGTAA
29762128 ATGAATATAT
Statistics
Matches: 269, Mismatches: 69, Indels: 54
0.69 0.18 0.14
Matches are distributed among these distances:
7 51 0.19
8 20 0.07
9 192 0.71
10 6 0.02
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:29761772 original size:180 final size:180
Alignment explanation
Indices: 29761470--29761833 Score: 710
Period size: 180 Copynumber: 2.0 Consensus size: 180
29761460 ATAACTGTCG
29761470 CTTACCCTTGACAAATTCATCCAAGAACGGTCCATTTCTTAATTCTTGAAGTCTGACATTAACAA
1 CTTACCCTTGACAAATTCATCCAAGAACGGTCCATTTCTTAATTCTTGAAGTCTGACATTAACAA
29761535 TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATACATTATGTAAGTTATGTAAGTTGTGCAA
66 TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATACATTATGTAAGTTATGTAAGTTGTGCAA
29761600 GTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
131 GTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
*
29761650 CTTACCCTTGACAAATTCATCCAAGAACGGTCCATTTCTTAATTCTTGAAGTCTGACATTGACAA
1 CTTACCCTTGACAAATTCATCCAAGAACGGTCCATTTCTTAATTCTTGAAGTCTGACATTAACAA
*
29761715 TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATACATTATGTAAGTTATGTAAGTTGTGTAA
66 TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATACATTATGTAAGTTATGTAAGTTGTGCAA
29761780 GTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
131 GTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
29761830 CTTA
1 CTTA
29761834 TTTAACTTAT
Statistics
Matches: 182, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 182 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (180 bp):
CTTACCCTTGACAAATTCATCCAAGAACGGTCCATTTCTTAATTCTTGAAGTCTGACATTAACAA
TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATACATTATGTAAGTTATGTAAGTTGTGCAA
GTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
Found at i:29761791 original size:34 final size:34
Alignment explanation
Indices: 29761753--29762006 Score: 185
Period size: 34 Copynumber: 7.4 Consensus size: 34
29761743 TAAGTTATAC
*
29761753 ATTATGTAAGTTATGTAAGTTGTGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
* *
29761787 ATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
* * * * *
29761821 ATTATGTAACTTATTTAACTTATGTAGGGTATGTATT
1 ATTATGTAACTTATGTAAGTTGTGTA-AGT-TGT-GT
* * * * * *
29761858 ATTATGTAACTTATTTAAATTATGTAGGGTATGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
** * * * ** *
29761892 AAGTTATGTAGGTTTTGT-A-TTATTTACACATGT-A
1 -A-TTATGTAACTTATGTAAGTTGTGTA-AGTTGTGT
*
29761926 AGTTATGT--CTTATGTAAGTTGCGTAAGTTGTGT
1 A-TTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
* *
29761959 ATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
29761993 ATTATGTAACTTAT
1 ATTATGTAACTTAT
29762007 TTAATTTATG
Statistics
Matches: 175, Mismatches: 34, Indels: 22
0.76 0.15 0.10
Matches are distributed among these distances:
31 5 0.03
32 10 0.06
33 13 0.07
34 97 0.55
35 8 0.05
36 16 0.09
37 26 0.15
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.46
Consensus pattern (34 bp):
ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
Found at i:29761868 original size:37 final size:37
Alignment explanation
Indices: 29761820--29761892 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
29761810 GTAAGTTGTG
*
29761820 TATTATGTAACTTATTTAACTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTAT
29761857 TATTATGTAACTTATTTAAATTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTA
29761893 AGTTATGTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (37 bp):
TATTATGTAACTTATTTAAATTATGTAGGGTATGTAT
Found at i:29761976 original size:25 final size:25
Alignment explanation
Indices: 29761921--29761980 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
29761911 TTATTTACAC
* * * *
29761921 ATGTAAGTTATGTCTTATGTAAGTT
1 ATGTAAGTTGTGTATTATGAAACTT
**
29761946 GCGTAAGTTGTGTATTATGAAACTT
1 ATGTAAGTTGTGTATTATGAAACTT
29761971 ATGTAAGTTG
1 ATGTAAGTTG
29761981 CGTAAGTTGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.43
Consensus pattern (25 bp):
ATGTAAGTTGTGTATTATGAAACTT
Found at i:29762094 original size:25 final size:25
Alignment explanation
Indices: 29762060--29762126 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
29762050 TTACACATGT
*
29762060 AAGTTGTGTATTATGTAGGTTATGC
1 AAGTTATGTATTATGTAGGTTATGC
* *
29762085 AAGTTATGTATTAAGTAGGTTATGT
1 AAGTTATGTATTATGTAGGTTATGC
*
29762110 AAGTTATGTGTTATGTA
1 AAGTTATGTATTATGTA
29762127 AATGAATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.45
Consensus pattern (25 bp):
AAGTTATGTATTATGTAGGTTATGC
Found at i:29762108 original size:135 final size:135
Alignment explanation
Indices: 29761857--29762114 Score: 399
Period size: 135 Copynumber: 1.9 Consensus size: 135
29761847 GGGTATGTAT
*
29761857 TATTATGTAACTTATTTAAATTATGTAGGGTATGTAAGTTATGTAGGTTTTGTATTATTTACACA
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTAAGTTATGTAAGTTTTGTATTATTTACACA
* * * * *
29761922 TGTAAGTTATGTCTTATGTAAGTTGCGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAG
66 TGTAAGTTATGTATTATGTAAGTTACGCAAGTTATGTATTAAGAAACTTATGTAAGTTGCGTAAG
29761987 TTGTG
131 TTGTG
*
29761992 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAAGTTATGTAAGTTTTGTATTATTTACACA
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTAAGTTATGTAAGTTTTGTATTATTTACACA
* * * * **
29762057 TGTAAGTTGTGTATTATGTAGGTTATGCAAGTTATGTATTAAGTAGGTTATGTAAGTT
66 TGTAAGTTATGTATTATGTAAGTTACGCAAGTTATGTATTAAGAAACTTATGTAAGTT
29762115 ATGTGTTATG
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 110 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (135 bp):
TATTATGTAACTTATTTAAATTATGTAGGGTATGTAAGTTATGTAAGTTTTGTATTATTTACACA
TGTAAGTTATGTATTATGTAAGTTACGCAAGTTATGTATTAAGAAACTTATGTAAGTTGCGTAAG
TTGTG
Found at i:29762681 original size:425 final size:426
Alignment explanation
Indices: 29762124--29762898 Score: 1455
Period size: 425 Copynumber: 1.8 Consensus size: 426
29762114 TATGTGTTAT
29762124 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
*
29762189 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTTAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATATTCCACTTAATTAT
29762254 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATAT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAAT-T
*
29762319 GAAATATAGCTTACATACGTAAATGAATATATGTATAATATT-AAAATATAGTAATACTTATTTA
195 GAAATATAGCTTACATACATAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTA
29762383 AGTTGTCAATTTATTATTAATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACT
260 AGTTGTCAATTTATTATTAATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACT
* *
29762448 AATC-TTCCACTGAATTATTCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTA
325 AACCGGTCCACTGAATTATTCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTA
29762512 AATATTATTAATAAAATCTGAAATATAGCTTACATAC
390 AATATTATTAATAAAATCTGAAATATAGCTTACATAC
*
29762549 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
29762614 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATATTCCACTTAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATATTCCACTTAATTAT
*
29762679 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTG
*
29762744 AAGTATAGCTTACATACATAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAA
196 AAATATAGCTTACATACATAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAA
*
29762809 GTTGTCAATTTATTATTAATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTT
261 GTTGTCAATTTATTATTAATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTA
29762874 ACCGGTCCACTGAATTATTCGTGGA
326 ACCGGTCCACTGAATTATTCGTGGA
29762899 AAGTGAATAT
Statistics
Matches: 340, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
424 40 0.12
425 280 0.82
426 20 0.06
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (426 bp):
GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATATTCCACTTAATTAT
TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTG
AAATATAGCTTACATACATAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAA
GTTGTCAATTTATTATTAATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTA
ACCGGTCCACTGAATTATTCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAA
ATATTATTAATAAAATCTGAAATATAGCTTACATAC
Found at i:29762691 original size:213 final size:212
Alignment explanation
Indices: 29762124--29762898 Score: 1426
Period size: 212 Copynumber: 3.6 Consensus size: 212
29762114 TATGTGTTAT
*
29762124 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
29762189 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTTAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTTAATTAT
29762254 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATAT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAAT-T
29762319 GAAATATAGCTTACATAC
195 GAAATATAGCTTACATAC
29762337 GTAAATGAATATATGTATAATATT-AAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
*
29762401 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTTAATTAT
29762466 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATCT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAAT-T
29762531 GAAATATAGCTTACATAC
195 GAAATATAGCTTACATAC
29762549 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
*
29762614 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATATTCCACTTAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTTAATTAT
*
29762679 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTG
*
29762744 AAGTATAGCTTACATAC
196 AAATATAGCTTACATAC
*
29762761 ATAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
* * * *
29762826 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTTACCGGTCCACTGAATTA
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATC-TTCCACTTAATTA
29762891 TTCGTGGA
130 TTCGTGGA
29762899 AAGTGAATAT
Statistics
Matches: 547, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
212 338 0.62
213 209 0.38
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (212 bp):
GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTTAATTAT
TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTG
AAATATAGCTTACATAC
Found at i:29770639 original size:25 final size:26
Alignment explanation
Indices: 29770593--29770644 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
29770583 TAAACATATG
29770593 AATTATAAAACATGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
29770618 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
29770644 A
1 A
29770645 TATATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:29770799 original size:21 final size:19
Alignment explanation
Indices: 29770772--29770827 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
29770762 ACATACAATA
*
29770772 ATAATAAAATAATAATTAAC
1 ATAATAAAATAA-AAATAAC
29770792 AGTAATAAACAATAAAAATAAC
1 A-TAAT-AA-AATAAAAATAAC
29770814 ATAATAAAAATAAA
1 ATAAT-AAAATAAA
29770828 CTAAAAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.22
21 11 0.34
22 9 0.28
23 5 0.16
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
ATAATAAAATAAAAATAAC
Found at i:29770836 original size:14 final size:14
Alignment explanation
Indices: 29770795--29770836 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
29770785 AATTAACAGT
29770795 AATAAAC-AATAAA
1 AATAAACTAATAAA
29770808 AAT-AACATAATAAA
1 AATAAAC-TAATAAA
29770822 AATAAACTAA-AAA
1 AATAAACTAATAAA
29770835 AA
1 AA
29770837 CAAATGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 8 0.31
14 12 0.46
15 3 0.12
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAACTAATAAA
Found at i:29772457 original size:131 final size:132
Alignment explanation
Indices: 29772185--29772538 Score: 458
Period size: 131 Copynumber: 2.7 Consensus size: 132
29772175 AGGAAACAAG
* * * * * * *
29772185 ATCCGCCGTCATCAGTCTACTCCACTACTGCTTAGGGAGATAAGATCTGTTATTCTTCGATCAAT
1 ATCCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTG-AAATCTTCAATCTAT
*** * *
29772250 TCCACTGTTGACCAGGGAGATAGAATTACTAGCTTCAATGTACTTCACTGTAACCCCAGGGAGGT
65 TCCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTATAACCCCAGGGAGGT
29772315 AAA
130 AAA
* * *
29772318 ATCCGCCATCTTCAATCTGCTCCACTACCGCTTAGGGAAATAAGATCTGAAATCTTCAATCTATT
1 ATCCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATT
* * *
29772383 CCACTGCCAACCAGGGGGATAGAATTAC-GGCTTCAATGTACTCCACTATAACCTCAGGGAGGTA
66 CCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTATAACCCCAGGGAGGTA
29772447 AA
131 AA
* ** * * * *
29772449 ATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATT
1 ATCCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATT
*
29772514 CCACTGCCAACGAGGGAGATAGAAT
66 CCACTGCCAACCAGGGAGATAGAAT
29772539 CTGAAATCTT
Statistics
Matches: 191, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
131 112 0.59
132 36 0.19
133 43 0.23
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (132 bp):
ATCCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATT
CCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTATAACCCCAGGGAGGTA
AA
Found at i:29772566 original size:175 final size:175
Alignment explanation
Indices: 29772362--29773082 Score: 1181
Period size: 175 Copynumber: 4.0 Consensus size: 175
29772352 GGGAAATAAG
*
29772362 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACGGCTTCAATGTACTCC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTCC
*
29772427 ACTATAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
66 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
*
29772492 GATCTGAAATCTTCAATCTATTCCACTGCCAACGAGGGAGATAGA
131 GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
29772537 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTCC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTCC
*
29772602 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAATGAGATAA
66 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
*
29772667 GATCTGAAATCTTCAATCTATTCTACTGCCAACCAGGGAGATAGAATCTGAACTCTTCATAGA
131 GATCTGAAATCTTCAATCTATTCCACTGCCAACCA--G-G---G-A---G--------ATAGA
29772730 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTAC-GGCTTCAATGTACTC
29772795 CACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATA
65 CACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATA
* *
29772860 AGATCTGAAATCTTTAATCTATTCTACTGCCAACCAGGGAGATAGA
130 AGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
*
29772906 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGCAGATAGAATTACGGCTTCAATGTACTCC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTCC
* *
29772971 ACTGTAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTACTCTACTAATGCCTAGGGAGATAA
66 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
29773036 GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
131 GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
29773081 AT
1 AT
29773083 TAGTATCTTC
Statistics
Matches: 515, Mismatches: 12, Indels: 38
0.91 0.02 0.07
Matches are distributed among these distances:
175 284 0.55
176 53 0.10
177 1 0.00
178 1 0.00
181 1 0.00
182 1 0.00
184 1 0.00
185 1 0.00
187 1 0.00
188 1 0.00
191 1 0.00
192 1 0.00
193 54 0.10
194 114 0.22
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (175 bp):
ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTCC
ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
Found at i:29772605 original size:42 final size:44
Alignment explanation
Indices: 29772484--29772718 Score: 162
Period size: 44 Copynumber: 5.4 Consensus size: 44
29772474 TAATGCCTAA
* *
29772484 GGAGATA-AGATCTGAAATCTTCAATCTATTCCACTGCCAACGAG
1 GGAGATAGA-ATCTGAAAGCTTCAATCTATTCCACTGCCAACCAG
*
29772528 GGAGATAGAATCTGAAATCTTCAATCTATTCCACTGCCAACCAG
1 GGAGATAGAATCTGAAAGCTTCAATCTATTCCACTGCCAACCAG
** * * *
29772572 GGAGATAGAAT-T-ACGGCTTCAATGTACTCCACTG-TAACCTCAG
1 GGAGATAGAATCTGAAAGCTTCAATCTATTCCACTGCCAA-C-CAG
* * ** * ** * * *
29772615 GGAGGTAAAATCTGCCATCTTTGATCTACTCTACT---AATGCCTAA
1 GGAGATAGAATCTGAAAGCTTCAATCTATTCCACTGCCAA--CC-AG
* * *
29772659 TGAGATA-AGATCTGAAATCTTCAATCTATTCTACTGCCAACCAG
1 GGAGATAGA-ATCTGAAAGCTTCAATCTATTCCACTGCCAACCAG
29772703 GGAGATAGAATCTGAA
1 GGAGATAGAATCTGAA
29772719 CTCTTCATAG
Statistics
Matches: 152, Mismatches: 27, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.01
42 18 0.12
43 17 0.11
44 95 0.62
45 18 0.12
47 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (44 bp):
GGAGATAGAATCTGAAAGCTTCAATCTATTCCACTGCCAACCAG
Found at i:29772664 original size:87 final size:87
Alignment explanation
Indices: 29772400--29772665 Score: 265
Period size: 87 Copynumber: 3.0 Consensus size: 87
29772390 CAACCAGGGG
*
29772400 GATAGAATTACGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCTGCCATCTTTGAT
1 GATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGAT
29772465 CTACTCTACTAATGCCTAAGGA
66 CTACTCTACTAATGCCTAAGGA
*** * * * * * * **
29772487 GATA-AGATCTGAAATCTTCAATCTATTCCACTGCCAA-C-GAGGGAGATAGAATCTGAAATCTT
1 GATAGA-AT-T-ACGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCTGCCATCTT
** * * *
29772549 CAATCTATTCCACTGCCAA--CC-AGGGA
62 TGATCTACTCTACT---AATGCCTAAGGA
29772575 GATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGAT
1 GATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGAT
*
29772640 CTACTCTACTAATGCCTAATGA
66 CTACTCTACTAATGCCTAAGGA
29772662 GATA
1 GATA
29772666 AGATCTGAAA
Statistics
Matches: 132, Mismatches: 34, Indels: 26
0.69 0.18 0.14
Matches are distributed among these distances:
84 2 0.02
85 2 0.02
86 21 0.16
87 43 0.33
88 40 0.30
89 20 0.15
90 2 0.02
91 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (87 bp):
GATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGAT
CTACTCTACTAATGCCTAAGGA
Found at i:29772730 original size:18 final size:18
Alignment explanation
Indices: 29772707--29772743 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
29772697 AACCAGGGAG
*
29772707 ATAGAATCTGAACTCTTC
1 ATAGAATCTGAAATCTTC
29772725 ATAGAATCTGAAATCTTC
1 ATAGAATCTGAAATCTTC
29772743 A
1 A
29772744 ATCTATTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (18 bp):
ATAGAATCTGAAATCTTC
Found at i:29772775 original size:44 final size:44
Alignment explanation
Indices: 29772725--29773082 Score: 197
Period size: 44 Copynumber: 8.2 Consensus size: 44
29772715 TGAACTCTTC
*
29772725 ATAGAATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGGGAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTG-CAACCCAGGGAG
* * *
29772769 ATAGAATTACTG---GCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATAGAA-T-CTGAAATCTTCAATCTACTCCACTGCAACC-CAGGGAG
* * ** ** * * *
29772813 GTAAAATCTGCCATCTTTGATCTACTCTACT--AATGCCTAAGGAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTGCAA--CCCAGGGAG
* * *
29772857 ATA-AGATCTGAAATCTTTAATCTATTCTACTGCCAA-CCAGGGAG
1 ATAGA-ATCTGAAATCTTCAATCTACTCCACTG-CAACCCAGGGAG
* *
29772901 ATAGAATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGGCAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTG-CAACCCAGGGAG
*** * *
29772945 ATAGAAT-T-ACGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTGCAACC-CAGGGAG
* * ** ** * *
29772988 GTAAAATCTGTCATCTTTGATCTACTCTACT--AATGCCTAGGGAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTGCAA--CCCAGGGAG
*
29773032 ATA-AGATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGGGAG
1 ATAGA-ATCTGAAATCTTCAATCTACTCCACTG-CAACCCAGGGAG
29773076 ATAGAAT
1 ATAGAAT
29773083 TAGTATCTTC
Statistics
Matches: 241, Mismatches: 48, Indels: 50
0.71 0.14 0.15
Matches are distributed among these distances:
41 2 0.01
42 23 0.10
43 36 0.15
44 139 0.58
45 34 0.14
46 3 0.01
47 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
ATAGAATCTGAAATCTTCAATCTACTCCACTGCAACCCAGGGAG
Found at i:29773040 original size:369 final size:368
Alignment explanation
Indices: 29772362--29773082 Score: 1343
Period size: 369 Copynumber: 2.0 Consensus size: 368
29772352 GGGAAATAAG
*
29772362 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACGGCTTCAATGTACTCC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTCC
29772427 ACTATAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
66 ACTATAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
*
29772492 GATCTGAAATCTTCAATCTATTCCACTGCCAACGAGGGAGATAGAATCTGAAATCTTCAATCTAT
131 GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATCTGAAATCTTCAATCTAT
*
29772557 TCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTA
196 TCCACTGCCAACCAGGCAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTA
*
29772622 AAATCTGCCATCTTTGATCTACTCTACTAATGCCTAATGAGATAAGATCTGAAATCTTCAATCTA
261 AAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTA
*
29772687 TTCTACTGCCAACCAGGGAGATAGAATCTGAACTCTTCATAGA
326 TTCCACTGCCAACCAGGGAGATAGAATCTGAACTCTTCATAGA
29772730 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTAC-GGCTTCAATGTACTC
*
29772795 CACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATA
65 CACTATAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATA
* *
29772860 AGATCTGAAATCTTTAATCTATTCTACTGCCAACCAGGGAGATAGAATCTGAAATCTTCAATCTA
130 AGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATCTGAAATCTTCAATCTA
29772925 TTCCACTGCCAACCAGGCAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
195 TTCCACTGCCAACCAGGCAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
* *
29772990 AAAATCTGTCATCTTTGATCTACTCTACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCT
260 AAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCT
29773055 ATTCCACTGCCAACCAGGGAGATAGAAT
325 ATTCCACTGCCAACCAGGGAGATAGAAT
29773083 TAGTATCTTC
Statistics
Matches: 342, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
368 48 0.14
369 294 0.86
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (368 bp):
ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTCC
ACTATAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATCTGAAATCTTCAATCTAT
TCCACTGCCAACCAGGCAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTA
AAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTA
TTCCACTGCCAACCAGGGAGATAGAATCTGAACTCTTCATAGA
Found at i:29774883 original size:6 final size:6
Alignment explanation
Indices: 29774872--29774911 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
29774862 CCCAGCGAGG
*
29774872 TTCTTT TTCTTT TTCTTT TTCTCTT TTTTTT TTCTTT TTC
1 TTCTTT TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TTC
29774912 CCCTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:29774903 original size:19 final size:20
Alignment explanation
Indices: 29774873--29774921 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
29774863 CCAGCGAGGT
29774873 TCTTTTTCTTTTTCTTTTT-C
1 TCTTTTT-TTTTTCTTTTTCC
29774893 TCTTTTTTTTTTCTTTTTCC
1 TCTTTTTTTTTTCTTTTTCC
*
29774913 CCTTTTTTT
1 TCTTTTTTT
29774922 GTTTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TCTTTTTTTTTTCTTTTTCC
Found at i:29779812 original size:25 final size:26
Alignment explanation
Indices: 29779766--29779817 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
29779756 TAAACATATG
29779766 AATTATAAAACATGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
29779791 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
29779817 A
1 A
29779818 TATATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:29784668 original size:25 final size:24
Alignment explanation
Indices: 29784613--29784670 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
29784603 AATTATAAAG
*
29784613 TATATAAAAAATATATATTTGCAT
1 TATATAAAAAATAAATATTTGCAT
*
29784637 T-TTTAAAAAATAAATATGTT-CAT
1 TATATAAAAAATAAATAT-TTGCAT
29784660 ATATATAAAAA
1 -TATATAAAAA
29784671 TTAGTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 17 0.61
24 4 0.14
25 7 0.25
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (24 bp):
TATATAAAAAATAAATATTTGCAT
Found at i:29784731 original size:22 final size:22
Alignment explanation
Indices: 29784706--29784789 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 22
29784696 CATACATATG
*
29784706 TATACTAAAATAAATATATACA
1 TATAATAAAATAAATATATACA
29784728 TATAGATAAAA-AAATA-ATTACA
1 TATA-ATAAAATAAATATA-TACA
*
29784750 TATAAAAAAATAATTATATTATAC-
1 TATAATAAAATAA--ATA-TATACA
*
29784774 TACAA-AAAATAAATAT
1 TATAATAAAATAAATAT
29784790 GCGTATATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
20 1 0.02
21 9 0.17
22 19 0.37
23 12 0.23
24 7 0.13
25 3 0.06
26 1 0.02
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (22 bp):
TATAATAAAATAAATATATACA
Found at i:29784817 original size:21 final size:21
Alignment explanation
Indices: 29784712--29784818 Score: 58
Period size: 21 Copynumber: 4.9 Consensus size: 21
29784702 TATGTATACT
29784712 AAAATAAATATATACATATA-GA
1 AAAAT-AA-ATATACATATATGA
*
29784734 TAAAA-AAATAATTACATATA-AA
1 -AAAATAAAT-A-TACATATATGA
* * **
29784756 AAAATAATTATATTATACTACAA
1 AAAATAAATATA-CATA-TATGA
* *
29784779 AAAATAAATATGCGTATATGA
1 AAAATAAATATACATATATGA
*
29784800 AAAATATATATACATATAT
1 AAAATAAATATACATATAT
29784819 TTTTTTAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
20 4 0.06
21 30 0.45
22 16 0.24
23 16 0.24
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAATAAATATACATATATGA
Done.