Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009635.1 Hibiscus syriacus cultivar Beakdansim tig00117038_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1009897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:243955 original size:42 final size:42
Alignment explanation
Indices: 243906--243991 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
243896 AAAACACCAT
*
243906 AATGATAAAAATAACCAAGGCCAACACCTTTCAAACAAAAAG
1 AATGATAAAAATAACAAAGGCCAACACCTTTCAAACAAAAAG
*
243948 AATGATAAAAATAACAAAGGCCAACACCTTTCAAACAAACAG
1 AATGATAAAAATAACAAAGGCCAACACCTTTCAAACAAAAAG
243990 AA
1 AA
243992 GTATACTCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.56, C:0.21, G:0.09, T:0.14
Consensus pattern (42 bp):
AATGATAAAAATAACAAAGGCCAACACCTTTCAAACAAAAAG
Found at i:246340 original size:70 final size:70
Alignment explanation
Indices: 246231--246370 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
246221 TCTTTGGGAG
246231 GCACATACCTTTCAACGACTTGCACCAGACCCAAGGGAAAGGAAACTCCCAAAATTATCGCACCA
1 GCACATACCTTTCAACGACTTGCACCAGACCCAAGGGAAAGGAAACTCCCAAAATTATCGCACCA
246296 CTTGA
66 CTTGA
* *
246301 GCACATACCTTTTAACGACTTGCACTAGACCCAAGGGAAAGGAAACTCCCAAAATTATCGCACCA
1 GCACATACCTTTCAACGACTTGCACCAGACCCAAGGGAAAGGAAACTCCCAAAATTATCGCACCA
246366 CTTGA
66 CTTGA
246371 ATGTACTTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.19
Consensus pattern (70 bp):
GCACATACCTTTCAACGACTTGCACCAGACCCAAGGGAAAGGAAACTCCCAAAATTATCGCACCA
CTTGA
Found at i:253071 original size:19 final size:17
Alignment explanation
Indices: 253049--253090 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
253039 AAATTTTGGC
253049 TTTTTTGGCTCTTTTTTT
1 TTTTTTGGC-CTTTTTTT
*
253067 GTTTTTTTGCCTTTTTTT
1 -TTTTTTGGCCTTTTTTT
253085 TTTTTT
1 TTTTTT
253091 TTTTTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.81
Consensus pattern (17 bp):
TTTTTTGGCCTTTTTTT
Found at i:253094 original size:20 final size:20
Alignment explanation
Indices: 253049--253092 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
253039 AAATTTTGGC
*
253049 TTTTTTGGCTCTTTTTTTGT
1 TTTTTTGCCTCTTTTTTTGT
253069 TTTTTTGCCT-TTTTTTT-T
1 TTTTTTGCCTCTTTTTTTGT
253087 TTTTTT
1 TTTTTT
253093 TTTGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 9 0.39
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (20 bp):
TTTTTTGCCTCTTTTTTTGT
Found at i:263557 original size:24 final size:24
Alignment explanation
Indices: 263482--263563 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
263472 GAAGTACATG
*
263482 AATGTACTAATACATGAGTAC-CTA
1 AATGTACTAATACAAGAGTACAC-A
* * * *
263506 AAGGTACAAATACAGGAGTGCA-A
1 AATGTACTAATACAAGAGTACACA
*
263529 GAATGCACTAATACAAGAGTACACA
1 -AATGTACTAATACAAGAGTACACA
263554 AATGTACTAA
1 AATGTACTAA
263564 ACATGATCGA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
23 1 0.02
24 43 0.96
25 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (24 bp):
AATGTACTAATACAAGAGTACACA
Found at i:265413 original size:23 final size:23
Alignment explanation
Indices: 265347--265429 Score: 105
Period size: 23 Copynumber: 3.6 Consensus size: 23
265337 TCGTATAAAT
265347 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
** *
265370 TTTGTC-CCGAAGAACCGCGTAGAA
1 -TTG-CACCGAAGTGCCACGTAGAA
265394 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
265417 TTGCACCGTAGTG
1 TTGCACCGAAGTG
265430 ACATATAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.02
23 30 0.60
24 18 0.36
25 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:265706 original size:30 final size:31
Alignment explanation
Indices: 265672--265735 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
265662 TTATATCGCG
265672 TAGACATATCA-TTTCCATACCTTTATCACA
1 TAGACATATCATTTTCCATACCTTTATCACA
265702 TAGACATATCATTTTCCATACCTTTATCACA
1 TAGACATATCATTTTCCATACCTTTATCACA
265733 TAG
1 TAG
265736 CTCATATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (31 bp):
TAGACATATCATTTTCCATACCTTTATCACA
Found at i:266700 original size:9 final size:9
Alignment explanation
Indices: 266677--266705 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
266667 GGTTTCACGT
266677 TGAAGAAGA
1 TGAAGAAGA
266686 -GAAGAAGA
1 TGAAGAAGA
266694 TGAAGAAGA
1 TGAAGAAGA
266703 TGA
1 TGA
266706 GTCTCTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.34, T:0.10
Consensus pattern (9 bp):
TGAAGAAGA
Found at i:267629 original size:28 final size:29
Alignment explanation
Indices: 267591--267648 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
267581 CAAAATACCT
* *
267591 AACTTTTAAAA-TTATACTTTGGTCCCTA
1 AACTTTCAAAATTTATACTTTGGTCACTA
*
267619 AACTTTCAAAATTTATATTTTGGTCACTA
1 AACTTTCAAAATTTATACTTTGGTCACTA
267648 A
1 A
267649 CCAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (29 bp):
AACTTTCAAAATTTATACTTTGGTCACTA
Found at i:279314 original size:18 final size:19
Alignment explanation
Indices: 279291--279330 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
279281 GAGCGCAGAG
*
279291 AAAGA-GAAGAAAGAAAGA
1 AAAGAGGAAGAAAGAAACA
*
279309 AAAGAGGAAGAAGGAAACA
1 AAAGAGGAAGAAAGAAACA
279328 AAA
1 AAA
279331 CCCACTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.70, C:0.03, G:0.28, T:0.00
Consensus pattern (19 bp):
AAAGAGGAAGAAAGAAACA
Found at i:281330 original size:30 final size:31
Alignment explanation
Indices: 281276--281347 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
281266 CATAATACCT
*
281276 AACTTTTAAAAAATTTATATTTTGGTCC-CTA
1 AACTTTTAAAAAATTTATACTTTGG-CCACTA
**
281307 AACTTTTTCAAAATTTAT-CTTTGGCCACTA
1 AACTTTTAAAAAATTTATACTTTGGCCACTA
*
281337 AACTTTGAAAA
1 AACTTTTAAAA
281348 TTTATGTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 2 0.06
30 16 0.47
31 16 0.47
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (31 bp):
AACTTTTAAAAAATTTATACTTTGGCCACTA
Found at i:281364 original size:29 final size:29
Alignment explanation
Indices: 281276--281366 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 29
281266 CATAATACCT
* *
281276 AACTTTTAAAAAATTTATATTTTGGTCCCTA
1 AACTTTT-CAAAATTTAT-TTTTGGTCACTA
* *
281307 AACTTTTTCAAAATTTATCTTTGGCCACTA
1 AAC-TTTTCAAAATTTATTTTTGGTCACTA
*
281337 AAC-TTTGAAAATTTATGTTTTGGTCACTA
1 AACTTTTCAAAATTTAT-TTTTGGTCACTA
281366 A
1 A
281367 CCAAAATTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 12 0.24
29 11 0.22
30 12 0.24
31 12 0.24
32 4 0.08
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (29 bp):
AACTTTTCAAAATTTATTTTTGGTCACTA
Found at i:282665 original size:15 final size:16
Alignment explanation
Indices: 282645--282676 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
282635 TCGTTCCTTC
282645 TAATTTTTTTA-ATTT
1 TAATTTTTTTATATTT
282660 TAATTTTTTTATATTT
1 TAATTTTTTTATATTT
282676 T
1 T
282677 TTATTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TAATTTTTTTATATTT
Found at i:283707 original size:22 final size:22
Alignment explanation
Indices: 283682--283724 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
283672 AGTTTTGTTT
283682 TTGGTAAGAGAACCATAATGTC
1 TTGGTAAGAGAACCATAATGTC
*
283704 TTGGTAAGAGAATCATAATGT
1 TTGGTAAGAGAACCATAATGT
283725 TAATCTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.30
Consensus pattern (22 bp):
TTGGTAAGAGAACCATAATGTC
Found at i:289310 original size:17 final size:17
Alignment explanation
Indices: 289288--289321 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
289278 GATTATACAA
289288 TGTATATTCTCCAGCTT
1 TGTATATTCTCCAGCTT
289305 TGTATATTCTCCAGCTT
1 TGTATATTCTCCAGCTT
289322 GAGGGGAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.47
Consensus pattern (17 bp):
TGTATATTCTCCAGCTT
Found at i:294590 original size:234 final size:234
Alignment explanation
Indices: 294292--294715 Score: 574
Period size: 234 Copynumber: 1.8 Consensus size: 234
294282 CAAATTGTGT
*
294292 AAAACTAAAAAGTTTTACACCTTTTTATGATCATTGGATAAGGAAAAACCAAAGGCTAAGATTAA
1 AAAACTAAAAAGTTTTACACCTTTTTAGGATCATTGGATAAGGAAAAACCAAAGGCTAAGATTAA
* *
294357 CAGTAAG-AAATGAGAAGATATTCAATGGAAAAAAATAAAGAGTTAATCCCA-TCTTTTGATTTT
66 CAAT-AGTAAATGAGAAGATATTCAAT-G-AAAAAATAAAGAGTTAATCCCAGT-ATTTG-TTTT
*
294420 CT-G-TCATCCAACTATCCT-AAAAGGTGTAAAACTAAAAG-TTCTACACTAGGTGTAAGTGGAT
126 -TGGCTCATCCAACGATCCTAAAAAGGTGTAAAACTAAAAGTTTCTACACTAGGTGTAAGTGGAT
294481 CTTGACTATATATATATATATGGCTAGAATCCAATTACATAGTGG
190 CTTGACTATATATATATATATGGCTAGAATCCAATTACATAGTGG
** * * * * * *
294526 AAAACTAAAAAGTTTTACA-CTATTTTAGGATTGTTGTATGAGGGAAAATCAAAGGTTGAGATTA
1 AAAACTAAAAAGTTTTACACCT-TTTTAGGATCATTGGATAAGGAAAAACCAAAGGCTAAGATTA
* * * * *
294590 ATAATAGTAAATGAGAATATATTCACTGAAAAAATAATGAGTTAATTCCAGTATTTGTTTTTGGC
65 ACAATAGTAAATGAGAAGATATTCAATGAAAAAATAAAGAGTTAATCCCAGTATTTGTTTTTGGC
*
294655 TCATCCAACGATCCTAAAAAGGTGTAAAACTAAAAGTTTTTACACTAGGTGTAAGTGGATC
130 TCATCCAACGATCCTAAAAAGGTGTAAAACTAAAAGTTTCTACACTAGGTGTAAGTGGATC
294716 CTAACACACA
Statistics
Matches: 165, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
230 1 0.01
231 5 0.03
232 38 0.23
233 26 0.16
234 95 0.58
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (234 bp):
AAAACTAAAAAGTTTTACACCTTTTTAGGATCATTGGATAAGGAAAAACCAAAGGCTAAGATTAA
CAATAGTAAATGAGAAGATATTCAATGAAAAAATAAAGAGTTAATCCCAGTATTTGTTTTTGGCT
CATCCAACGATCCTAAAAAGGTGTAAAACTAAAAGTTTCTACACTAGGTGTAAGTGGATCTTGAC
TATATATATATATATGGCTAGAATCCAATTACATAGTGG
Found at i:295037 original size:126 final size:126
Alignment explanation
Indices: 294812--295063 Score: 486
Period size: 126 Copynumber: 2.0 Consensus size: 126
294802 TTAAATAAAT
*
294812 ATCTCGGATTTAACTAAAATTTACAACCCATAAATAAATATTTCTTTAATCCATAGTAAAATAAT
1 ATCTCAGATTTAACTAAAATTTACAACCCATAAATAAATATTTCTTTAATCCATAGTAAAATAAT
294877 ATTTTTCCTTTTTAGGGTTAGGATTAGGGTTTAGAGATTAAGCTTTAGGGTTTAAGGTTTA
66 ATTTTTCCTTTTTAGGGTTAGGATTAGGGTTTAGAGATTAAGCTTTAGGGTTTAAGGTTTA
294938 ATCTCAGATTTAACTAAAATTTACAACCCATAAATAAATATTTCTTTAATCCATAGTAAAATAAT
1 ATCTCAGATTTAACTAAAATTTACAACCCATAAATAAATATTTCTTTAATCCATAGTAAAATAAT
*
295003 ATTTTTCCTTTTTAGGGTTAGGATTAGGGTTTAGATATTAAGCTTTAGGGTTTAAGGTTTA
66 ATTTTTCCTTTTTAGGGTTAGGATTAGGGTTTAGAGATTAAGCTTTAGGGTTTAAGGTTTA
295064 TATTTTAGGC
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (126 bp):
ATCTCAGATTTAACTAAAATTTACAACCCATAAATAAATATTTCTTTAATCCATAGTAAAATAAT
ATTTTTCCTTTTTAGGGTTAGGATTAGGGTTTAGAGATTAAGCTTTAGGGTTTAAGGTTTA
Found at i:295098 original size:28 final size:28
Alignment explanation
Indices: 295067--295128 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
295057 AGGTTTATAT
*
295067 TTTAGGCTTTAAGAATTAAGCCTTAAGG
1 TTTAGGCTTTAAGAATTAAGACTTAAGG
* ** * *
295095 TTTAGGGTTTGGGATTTAAGATTTAAGG
1 TTTAGGCTTTAAGAATTAAGACTTAAGG
295123 TTTAGG
1 TTTAGG
295129 ATTTGATGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.40
Consensus pattern (28 bp):
TTTAGGCTTTAAGAATTAAGACTTAAGG
Found at i:295113 original size:21 final size:21
Alignment explanation
Indices: 295089--295132 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
295079 GAATTAAGCC
* * *
295089 TTAAGGTTTAGGGTTTGGGAT
1 TTAAGATTTAAGGTTTAGGAT
295110 TTAAGATTTAAGGTTTAGGAT
1 TTAAGATTTAAGGTTTAGGAT
295131 TT
1 TT
295133 GATGTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
TTAAGATTTAAGGTTTAGGAT
Found at i:296202 original size:20 final size:20
Alignment explanation
Indices: 296156--296202 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
296146 ACTGATACCA
* *
296156 AGCCTCTCAGTATCTATACTT
1 AGCCT-TCAGTATCGATACTC
*
296177 ACCCTTCAGTATCGATACTC
1 AGCCTTCAGTATCGATACTC
296197 AGCCTT
1 AGCCTT
296203 GGTACCAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (20 bp):
AGCCTTCAGTATCGATACTC
Found at i:298549 original size:32 final size:32
Alignment explanation
Indices: 298513--298601 Score: 124
Period size: 32 Copynumber: 2.8 Consensus size: 32
298503 ACAACAGAGT
* *
298513 CAGTATTGTATTCAGATAATGCACAATAGAAC
1 CAGTATTGTATTCAAATAATGCACAATAAAAC
* * *
298545 CAGTATTGCATTCAAATAATGCACCATAAAAT
1 CAGTATTGTATTCAAATAATGCACAATAAAAC
*
298577 CAATATTGTATTCAAATAATGCACA
1 CAGTATTGTATTCAAATAATGCACA
298602 TTATAGCCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (32 bp):
CAGTATTGTATTCAAATAATGCACAATAAAAC
Found at i:299660 original size:47 final size:47
Alignment explanation
Indices: 299592--299848 Score: 419
Period size: 47 Copynumber: 5.5 Consensus size: 47
299582 TAAAAATCTT
* * *
299592 TTACCATTT--ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
*
299637 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAACATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
*
299684 TTACCATTTAAATTCCATAAGCTTGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
*
299731 TTGCCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* *
299778 TTGCCATTTAAATTCCATAAGTTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
*
299825 TTGCCATTTAAATTCCATAAGCTC
1 TTACCATTTAAATTCCATAAGCTC
299849 ATAGACAATA
Statistics
Matches: 201, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 9 0.04
47 192 0.96
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (47 bp):
TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
Found at i:309743 original size:61 final size:61
Alignment explanation
Indices: 309629--309743 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 61
309619 GTAGTGCTAA
* * *
309629 ACCTGCACCAAGCTTACGCCATAGTGCTAATCCGGATATGCCACATAAGGTCGTGCCCACC
1 ACCTACACCAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
* * *
309690 ACCTACACTAAGCTTACGCTATAGTGCTAATCCGGACATGATACATTAA-GTCGT
1 ACCTACACCAAGCTTACGCCATAGTGCTAATCCGGACATGACACA-TAAGGTCGT
309744 ATCCACCTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
61 44 0.94
62 3 0.06
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (61 bp):
ACCTACACCAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
Found at i:313463 original size:1 final size:1
Alignment explanation
Indices: 313457--313519 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
313447 CCATTTTATG
* * * * * * * *
313457 TTTTTTTTTATTTTTTTTTTTTTTTTCTTTTCTATTTTTTTTCTTTTTCTTCTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
313520 GTTTCTTCAT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:313467 original size:12 final size:11
Alignment explanation
Indices: 313450--313498 Score: 62
Period size: 11 Copynumber: 4.2 Consensus size: 11
313440 TTTCTTTCCA
313450 TTTTATGTTTTT
1 TTTTAT-TTTTT
313462 TTTTATTTTTT
1 TTTTATTTTTT
*
313473 TTTTTTTTTTCT
1 TTTTATTTTT-T
313485 TTTCTATTTTTT
1 TTT-TATTTTTT
313497 TT
1 TT
313499 CTTTTTCTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 14 0.42
12 13 0.39
13 6 0.18
ACGTcount: A:0.06, C:0.04, G:0.02, T:0.88
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:313469 original size:17 final size:17
Alignment explanation
Indices: 313449--313498 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
313439 TTTTCTTTCC
*
313449 ATTTTATGTTTTTTTTT
1 ATTTTATATTTTTTTTT
* *
313466 ATTTTTTTTTTTTTTTT
1 ATTTTATATTTTTTTTT
* *
313483 CTTTTCTATTTTTTTT
1 ATTTTATATTTTTTTT
313499 CTTTTTCTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.08, C:0.04, G:0.02, T:0.86
Consensus pattern (17 bp):
ATTTTATATTTTTTTTT
Found at i:313503 original size:22 final size:21
Alignment explanation
Indices: 313457--313541 Score: 72
Period size: 20 Copynumber: 4.1 Consensus size: 21
313447 CCATTTTATG
*
313457 TTTTTTTTTATTTT-T-TTTT
1 TTTTTTTTTCTTTTCTATTTT
313476 -TTTTT-TTCTTTTCTATTTT
1 TTTTTTTTTCTTTTCTATTTT
313495 TTTTCTTTTTCTTCTTTCT-TTTT
1 TTTT-TTTTTC-T-TTTCTATTTT
* * *
313518 TTGTTTCTTCATTTCTATTTT
1 TTTTTTTTTCTTTTCTATTTT
313539 TTT
1 TTT
313542 ATATAATATG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
17 6 0.11
18 6 0.11
19 4 0.08
20 8 0.15
21 8 0.15
22 8 0.15
23 8 0.15
24 5 0.09
ACGTcount: A:0.05, C:0.11, G:0.01, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTCTTTTCTATTTT
Found at i:313503 original size:24 final size:24
Alignment explanation
Indices: 313457--313526 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
313447 CCATTTTATG
*
313457 TTTT-TTTT-TATTTTTTTTTTTT
1 TTTTCTTTTCTATTTTTTTTCTTT
313479 TTTTCTTTTCTATTTTTTTTCTTT
1 TTTTCTTTTCTATTTTTTTTCTTT
*
313503 TTCTTC-TTTCTTTTTTTGTTTCTT
1 TT-TTCTTTTCTATTTTT-TTTCTT
313527 CATTTCTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
22 4 0.10
23 4 0.10
24 25 0.60
25 9 0.21
ACGTcount: A:0.03, C:0.10, G:0.01, T:0.86
Consensus pattern (24 bp):
TTTTCTTTTCTATTTTTTTTCTTT
Found at i:313504 original size:17 final size:17
Alignment explanation
Indices: 313458--313506 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
313448 CATTTTATGT
* * *
313458 TTTTTTTTATTTTTTTT
1 TTTTTTTTCTTTTTCTA
313475 TTTTTTTTC-TTTTCTA
1 TTTTTTTTCTTTTTCTA
313491 TTTTTTTTCTTTTTCT
1 TTTTTTTTCTTTTTCT
313507 TCTTTCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTTCTTTTTCTA
Found at i:316413 original size:47 final size:47
Alignment explanation
Indices: 316357--316602 Score: 386
Period size: 47 Copynumber: 5.3 Consensus size: 47
316347 CCATTTATCT
* *
316357 CATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
* * *
316404 CATAAGCTCGTAAGCTTATTTTATCAACATACTTACCATTTAATTTT
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
* *
316451 CATAAGCTCGTGAGCTTATTTTATCAATATACTTGCCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
* *
316498 CATAAGCTCATAAGCTTATTTTATCAATATA-TTTCCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
**
316544 CATAAGCTCGTAAGCTTATTTTATCAATATACTTGTCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
316591 CATAAGCTCGTA
1 CATAAGCTCGTA
316603 GACAATAGCC
Statistics
Matches: 183, Mismatches: 15, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 44 0.24
47 139 0.76
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (47 bp):
CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
Found at i:316793 original size:61 final size:61
Alignment explanation
Indices: 316677--316793 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
316667 GCTAAAACTG
* * * * *
316677 CACTAAGCTTATGCCATAGTTCTAATCCGGATATGACACATAAGGTCGTGCCCACCACCTA
1 CACTAAGCTTACGCCATAGTGCTAATCCGAACATGACACATAAGGTCGTACCCACCACCTA
* * *
316738 CACTAAGCTTACGCTATAGTGCTAATCCGAACATGATACATTAA-GTCGTATCCACC
1 CACTAAGCTTACGCCATAGTGCTAATCCGAACATGACACA-TAAGGTCGTACCCACC
316794 TTACCGCACT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 44 0.94
62 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (61 bp):
CACTAAGCTTACGCCATAGTGCTAATCCGAACATGACACATAAGGTCGTACCCACCACCTA
Found at i:317826 original size:29 final size:29
Alignment explanation
Indices: 317761--317826 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
317751 GGTTCTTCAT
* * *
317761 CAATTTTCCAAAATTTACGAATTGATCTC
1 CAATTTTTCAAAAATTACGAAATGATCTC
* *
317790 CAACTTTTCAAAAATTACGAAATGGTC-C
1 CAATTTTTCAAAAATTACGAAATGATCTC
317818 CTAATTTTT
1 C-AATTTTT
317827 TTATAAGGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.38
Consensus pattern (29 bp):
CAATTTTTCAAAAATTACGAAATGATCTC
Found at i:322667 original size:21 final size:21
Alignment explanation
Indices: 322641--322695 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
322631 TACTCTCTCT
*
322641 GCAGTATCTATACTCAGGGTA
1 GCAGTATCAATACTCAGGGTA
322662 GCAGTATCAATACTCAGGGTA
1 GCAGTATCAATACTCAGGGTA
*
322683 GCAGTATCGATAC
1 GCAGTATCAATAC
322696 GGAGGCCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (21 bp):
GCAGTATCAATACTCAGGGTA
Found at i:324857 original size:866 final size:866
Alignment explanation
Indices: 323186--324919 Score: 3432
Period size: 866 Copynumber: 2.0 Consensus size: 866
323176 TTGAATCAGG
*
323186 ATAGAAGGTATGACGCCACAAGTATATGAATTATACTTTCTTAATCGATAAAGTTCACAAAAAAC
1 ATAGAAGGTATGACGCCACAAGTATATGAATTATACTTTCTTAATCCATAAAGTTCACAAAAAAC
*
323251 ATTGAAGAGAAATTAACTCACAAGAGGGCCTATGTGAGTTTCCTTGCTGTAAAGGACAAAAATGG
66 ATTGAAGAGAAACTAACTCACAAGAGGGCCTATGTGAGTTTCCTTGCTGTAAAGGACAAAAATGG
323316 CTAAAAGGGCCAGAGATACTTGTAGGAGTGGGTTACAACCAATGTAACCATAGTAGGCATAATGT
131 CTAAAAGGGCCAGAGATACTTGTAGGAGTGGGTTACAACCAATGTAACCATAGTAGGCATAATGT
323381 GTCCAAGTATCTTGAGTATGCATGTAGCAAATATTTATGGATGGAGGATCAATGTACATGGTGTA
196 GTCCAAGTATCTTGAGTATGCATGTAGCAAATATTTATGGATGGAGGATCAATGTACATGGTGTA
323446 TCGTCAAGAGGTATGACTAAGAAATCAGTTTATGAAAGAGAGTGTCGTATATTGCAAGAACGACC
261 TCGTCAAGAGGTATGACTAAGAAATCAGTTTATGAAAGAGAGTGTCGTATATTGCAAGAACGACC
323511 GAGAATGTTGGATGCATAGATATTCTTTTAATTCGATGATGGATTAAGGGGAAAGCATAGTATTA
326 GAGAATGTTGGATGCATAGATATTCTTTTAATTCGATGATGGATTAAGGGGAAAGCATAGTATTA
323576 GAGAATAAAATATCACTACCTAGAAATGAAATCGAGTCAGTTATCAGGCTAACCAGAATCTCAGC
391 GAGAATAAAATATCACTACCTAGAAATGAAATCGAGTCAGTTATCAGGCTAACCAGAATCTCAGC
*
323641 CGAAAATCAGTAACCATAATAATCACCATGAAGTCTCGAAATTGTGTATAGTTTTCCCTAAAGTC
456 CGAAAATCAGTAACCATAATAATCACCATGAAGTCTCGAAATTGTGTATAGTTTTCCCCAAAGTC
323706 AAAAATGACTAAAACATCCTTAAGTTGGGAATAACCAGATCAATACAAACCATTATAAATAACAG
521 AAAAATGACTAAAACATCCTTAAGTTGGGAATAACCAGATCAATACAAACCATTATAAATAACAG
323771 ATTAATTAACCCTCGCATAACATTCTAGATAAGAGAACAAGTGAGATATTAACTAAAATTAGAAA
586 ATTAATTAACCCTCGCATAACATTCTAGATAAGAGAACAAGTGAGATATTAACTAAAATTAGAAA
323836 TAGTAACAATAACAGTTAGAAACAGTATCGTTAATAGCTAGAAGCAGTAACAACTAGGATGTCAT
651 TAGTAACAATAACAGTTAGAAACAGTATCGTTAATAGCTAGAAGCAGTAACAACTAGGATGTCAT
*
323901 AAAACTAGCCTTTGTGATACACTCGGGAAACAGTTAGGACACTTGAGTTACTTTAGTAGTAGGGC
716 AAAACTAGCCTTTGTGATACACTCAGGAAACAGTTAGGACACTTGAGTTACTTTAGTAGTAGGGC
323966 AATTGTCTTGTTTGTTAGTATGTCTAGCTATATACCAATCAGTGCCAAGATATTTCTTTTGCCAG
781 AATTGTCTTGTTTGTTAGTATGTCTAGCTATATACCAATCAGTGCCAAGATATTTCTTTTGCCAG
324031 TTGGGCGCAGATGCCCCAAGA
846 TTGGGCGCAGATGCCCCAAGA
324052 ATAGAAGGTATGACGCCACAAGTATATGAATTATACTTTCTTAATCCATAAAGTTCACAAAAAAC
1 ATAGAAGGTATGACGCCACAAGTATATGAATTATACTTTCTTAATCCATAAAGTTCACAAAAAAC
324117 ATTGAAGAGAAACTAACTCACAAGAGGGCCTATGTGAGTTTCCTTGCTGTAAAGGACAAAAATGG
66 ATTGAAGAGAAACTAACTCACAAGAGGGCCTATGTGAGTTTCCTTGCTGTAAAGGACAAAAATGG
324182 CTAAAAGGGCCAGAGATACTTGTAGGAGTGGGTTACAACCAATGTAACCATAGTAGGCATAATGT
131 CTAAAAGGGCCAGAGATACTTGTAGGAGTGGGTTACAACCAATGTAACCATAGTAGGCATAATGT
324247 GTCCAAGTATCTTGAGTATGCATGTAGCAAATATTTATGGATGGAGGATCAATGTACATGGTGTA
196 GTCCAAGTATCTTGAGTATGCATGTAGCAAATATTTATGGATGGAGGATCAATGTACATGGTGTA
324312 TCGTCAAGAGGTATGACTAAGAAATCAGTTTATGAAAGAGAGTGTCGTATATTGCAAGAACGACC
261 TCGTCAAGAGGTATGACTAAGAAATCAGTTTATGAAAGAGAGTGTCGTATATTGCAAGAACGACC
324377 GAGAATGTTGGATGCATAGATATTCTTTTAATTCGATGATGGATTAAGGGGAAAGCATAGTATTA
326 GAGAATGTTGGATGCATAGATATTCTTTTAATTCGATGATGGATTAAGGGGAAAGCATAGTATTA
324442 GAGAATAAAATATCACTACCTAGAAATGAAATCGAGTCAGTTATCAGGCTAACCAGAATCTCAGC
391 GAGAATAAAATATCACTACCTAGAAATGAAATCGAGTCAGTTATCAGGCTAACCAGAATCTCAGC
324507 CGAAAATCAGTAACCATAATAATCACCATGAAGTCTCGAAATTGTGTATAGTTTTCCCCAAAGTC
456 CGAAAATCAGTAACCATAATAATCACCATGAAGTCTCGAAATTGTGTATAGTTTTCCCCAAAGTC
324572 AAAAATGACTAAAACATCCTTAAGTTGGGAATAACCAGATCAATACAAACCATTATAAATAACAG
521 AAAAATGACTAAAACATCCTTAAGTTGGGAATAACCAGATCAATACAAACCATTATAAATAACAG
324637 ATTAATTAACCCTCGCATAACATTCTAGATAAGAGAACAAGTGAGATATTAACTAAAATTAGAAA
586 ATTAATTAACCCTCGCATAACATTCTAGATAAGAGAACAAGTGAGATATTAACTAAAATTAGAAA
324702 TAGTAACAATAACAGTTAGAAACAGTATCGTTAATAGCTAGAAGCAGTAACAACTAGGATGTCAT
651 TAGTAACAATAACAGTTAGAAACAGTATCGTTAATAGCTAGAAGCAGTAACAACTAGGATGTCAT
324767 AAAACTAGCCTTTGTGATACACTCAGGAAACAGTTAGGACACTTGAGTTACTTTAGTAGTAGGGC
716 AAAACTAGCCTTTGTGATACACTCAGGAAACAGTTAGGACACTTGAGTTACTTTAGTAGTAGGGC
324832 AATTGTCTTGTTTGTTAGTATGTCTAGCTATATACCAATCAGTGCCAAGATATTTCTTTTGCCAG
781 AATTGTCTTGTTTGTTAGTATGTCTAGCTATATACCAATCAGTGCCAAGATATTTCTTTTGCCAG
324897 TTGGGCGCAGATGCCCCAAGA
846 TTGGGCGCAGATGCCCCAAGA
324918 AT
1 AT
324920 CTATGGAGTA
Statistics
Matches: 864, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
866 864 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (866 bp):
ATAGAAGGTATGACGCCACAAGTATATGAATTATACTTTCTTAATCCATAAAGTTCACAAAAAAC
ATTGAAGAGAAACTAACTCACAAGAGGGCCTATGTGAGTTTCCTTGCTGTAAAGGACAAAAATGG
CTAAAAGGGCCAGAGATACTTGTAGGAGTGGGTTACAACCAATGTAACCATAGTAGGCATAATGT
GTCCAAGTATCTTGAGTATGCATGTAGCAAATATTTATGGATGGAGGATCAATGTACATGGTGTA
TCGTCAAGAGGTATGACTAAGAAATCAGTTTATGAAAGAGAGTGTCGTATATTGCAAGAACGACC
GAGAATGTTGGATGCATAGATATTCTTTTAATTCGATGATGGATTAAGGGGAAAGCATAGTATTA
GAGAATAAAATATCACTACCTAGAAATGAAATCGAGTCAGTTATCAGGCTAACCAGAATCTCAGC
CGAAAATCAGTAACCATAATAATCACCATGAAGTCTCGAAATTGTGTATAGTTTTCCCCAAAGTC
AAAAATGACTAAAACATCCTTAAGTTGGGAATAACCAGATCAATACAAACCATTATAAATAACAG
ATTAATTAACCCTCGCATAACATTCTAGATAAGAGAACAAGTGAGATATTAACTAAAATTAGAAA
TAGTAACAATAACAGTTAGAAACAGTATCGTTAATAGCTAGAAGCAGTAACAACTAGGATGTCAT
AAAACTAGCCTTTGTGATACACTCAGGAAACAGTTAGGACACTTGAGTTACTTTAGTAGTAGGGC
AATTGTCTTGTTTGTTAGTATGTCTAGCTATATACCAATCAGTGCCAAGATATTTCTTTTGCCAG
TTGGGCGCAGATGCCCCAAGA
Found at i:327874 original size:21 final size:20
Alignment explanation
Indices: 327844--327883 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
327834 TCATTGCAAG
*
327844 AATTTATGGCCTCGACAAAA
1 AATTTATGGCCTCCACAAAA
327864 AATTTCATGGCCTCCACAAA
1 AATTT-ATGGCCTCCACAAA
327884 GACCTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (20 bp):
AATTTATGGCCTCCACAAAA
Found at i:341471 original size:22 final size:21
Alignment explanation
Indices: 341441--341481 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
341431 AGTTTAGTAC
*
341441 AAGCCCAAGAAGATAGAAAATA
1 AAGCACAAGAAGA-AGAAAATA
*
341463 AAGCACAAGGAGAAGAAAA
1 AAGCACAAGAAGAAGAAAA
341482 ACTCCCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.61, C:0.12, G:0.22, T:0.05
Consensus pattern (21 bp):
AAGCACAAGAAGAAGAAAATA
Found at i:342457 original size:34 final size:34
Alignment explanation
Indices: 342414--342484 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
342404 CTTAATGAAG
*
342414 TTAGAAAAATTCTAATCAAGTTCCCTATTCTGCT
1 TTAGAAAAATTCTAATCAAATTCCCTATTCTGCT
*
342448 TTAGAAAAATTCTAATCAAATTCCCTATTCTGGT
1 TTAGAAAAATTCTAATCAAATTCCCTATTCTGCT
342482 TTA
1 TTA
342485 TCATTTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (34 bp):
TTAGAAAAATTCTAATCAAATTCCCTATTCTGCT
Found at i:350624 original size:17 final size:17
Alignment explanation
Indices: 350602--350648 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
350592 TCATCAATTA
*
350602 ATCAACATTTAAAAATC
1 ATCAACATTAAAAAATC
*
350619 ATCAACCTTAAAAAATC
1 ATCAACATTAAAAAATC
*
350636 ATCATCA-TAAAAA
1 ATCAACATTAAAAA
350649 TCGTACTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (17 bp):
ATCAACATTAAAAAATC
Found at i:356331 original size:14 final size:14
Alignment explanation
Indices: 356312--356345 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
356302 ATTTGGTCCT
356312 TAAATTAACTTAAA
1 TAAATTAACTTAAA
*
356326 TAAATTAAGTTAAA
1 TAAATTAACTTAAA
*
356340 AAAATT
1 TAAATT
356346 TGGGGTGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (14 bp):
TAAATTAACTTAAA
Found at i:356493 original size:12 final size:14
Alignment explanation
Indices: 356467--356498 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
356457 TTTTTTAAAA
356467 ATAAAATATTATTT
1 ATAAAATATTATTT
356481 A-AAAATATT-TTT
1 ATAAAATATTATTT
356493 ATAAAA
1 ATAAAA
356499 AGATCTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 12 0.71
14 1 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAAAATATTATTT
Found at i:357360 original size:42 final size:43
Alignment explanation
Indices: 357286--357424 Score: 151
Period size: 42 Copynumber: 3.3 Consensus size: 43
357276 ACTATAGACT
*
357286 TGTACTTTAGTGCC-GTTTTTGT--TCAAACGCCGCAATAGTCA
1 TGTACTTTAGTGCCATTTTTTGTAAT-AAACGCCGCAATAGTCA
* *
357327 TGTACTTTAGTGTCATTTTTT-TAATAAACGCCGCAATAATCA
1 TGTACTTTAGTGCCATTTTTTGTAATAAACGCCGCAATAGTCA
* * * * *
357369 TATAATTTAGTGGCCTTTTTTTGTAATAAACACCGCAATAGTGA
1 TGTACTTTAGT-GCCATTTTTTGTAATAAACGCCGCAATAGTCA
*
357413 TGTACCTTAGTG
1 TGTACTTTAGTG
357425 GAATTTTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
41 14 0.17
42 30 0.38
43 10 0.12
44 26 0.32
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (43 bp):
TGTACTTTAGTGCCATTTTTTGTAATAAACGCCGCAATAGTCA
Found at i:357423 original size:44 final size:43
Alignment explanation
Indices: 357286--357425 Score: 144
Period size: 44 Copynumber: 3.3 Consensus size: 43
357276 ACTATAGACT
* *
357286 TGTACTTTAGT-GCCGTTTTTGTT--CAAACGCCGCAATAGTCA
1 TGTACTTTAGTGGCCATTTTT-TTAATAAACGCCGCAATAGTCA
* *
357327 TGTACTTTAGT-GTCATTTTTTTAATAAACGCCGCAATAATCA
1 TGTACTTTAGTGGCCATTTTTTTAATAAACGCCGCAATAGTCA
* * * * *
357369 TATAATTTAGTGGCCTTTTTTTGTAATAAACACCGCAATAGTGA
1 TGTACTTTAGTGGCCATTTTTT-TAATAAACGCCGCAATAGTCA
*
357413 TGTACCTTAGTGG
1 TGTACTTTAGTGG
357426 AATTTTTATT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.02
41 18 0.22
42 25 0.31
43 8 0.10
44 28 0.35
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (43 bp):
TGTACTTTAGTGGCCATTTTTTTAATAAACGCCGCAATAGTCA
Found at i:357432 original size:44 final size:44
Alignment explanation
Indices: 357310--357438 Score: 154
Period size: 44 Copynumber: 3.0 Consensus size: 44
357300 GTTTTTGTTC
*
357310 AAACGCCGCAATAGTCATGTACTTTAGTGTCA-TTTTTT-TAAT
1 AAACGCCGCAATAGTCATGTACTTTAGTGGCATTTTTTTGTAAT
* * * *
357352 AAACGCCGCAATAATCATATAATTTAGTGGCCTTTTTTTGTAAT
1 AAACGCCGCAATAGTCATGTACTTTAGTGGCATTTTTTTGTAAT
* * * *
357396 AAACACCGCAATAGTGATGTACCTTAGTGGAATTTTTATTGTA
1 AAACGCCGCAATAGTCATGTACTTTAGTGGCATTTTT-TTGTA
357439 TTATACCGCG
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 27 0.38
43 6 0.08
44 33 0.46
45 5 0.07
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (44 bp):
AAACGCCGCAATAGTCATGTACTTTAGTGGCATTTTTTTGTAAT
Found at i:357693 original size:21 final size:21
Alignment explanation
Indices: 357668--357736 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
357658 GCGACAGAAG
*
357668 CAGAGAGACCAGCGAGAAAAGT
1 CAGAGAGAGCAGCGAGAAAA-T
*
357690 -AGAGAGAGCAACGAGAAAAT
1 CAGAGAGAGCAGCGAGAAAAT
357710 CAGAGAGAGCAGCGAGAGAAA-
1 CAGAGAGAGCAGCGAGA-AAAT
357731 CAGAGA
1 CAGAGA
357737 TAGAAGTAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.02
21 38 0.90
22 3 0.07
ACGTcount: A:0.49, C:0.14, G:0.33, T:0.03
Consensus pattern (21 bp):
CAGAGAGAGCAGCGAGAAAAT
Found at i:366164 original size:27 final size:27
Alignment explanation
Indices: 366125--366176 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
366115 ATTTATTTTC
366125 TTTTTTTTTAA-TTTCAGATGTTTTAA
1 TTTTTTTTTAATTTTCAGATGTTTTAA
*
366151 TTTTTTTTTAAATTTTCAGATTTTTT
1 TTTTTTTTT-AATTTTCAGATGTTTT
366177 TTATTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 2 0.09
28 12 0.52
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (27 bp):
TTTTTTTTTAATTTTCAGATGTTTTAA
Found at i:367014 original size:309 final size:311
Alignment explanation
Indices: 366652--367272 Score: 1228
Period size: 309 Copynumber: 2.0 Consensus size: 311
366642 TCCTTGAAAT
366652 ACCACATGGTAACTTTGAGTATAGTTTGAACACTTTTTTTTTATATTAATCCATATTTGAATAAA
1 ACCACATGGTAACTTTGAGTATAGTTTGAACACTTTTTTTTTATATTAATCCATATTTGAATAAA
366717 ACATTTTAACTTAGGCGAGAGCCAAGTGCCTTATTTCATGGTGAATTTGAATCATTAATTCACTT
66 ACATTTTAACTTAGGCGAGAGCCAAGTGCCTTATTTCATGGTGAATTTGAATCATTAATTCACTT
366782 AACTTCCTTTTGCTCTCGGTTAACATCCTCAAATTTCCAAACCTTAATTTGTATATAGACGATTA
131 AACTTCCTTTTGCTCTCGGTTAACATCCTCAAATTTCCAAACCTTAATTTGTATATAGACGATTA
366847 AAATATTTGAAAATAATTCTTTTATAGATAAATGCAAAATTTATATATCCTAAAGAAAACACAAT
196 AAATATTTGAAAATAATTCTTTTATAGATAAATGCAAAATTTATATATCCTAAAGAAAACACAAT
366912 CAATACAATAAACAAACCCCTTCATCCCAACAACCTAAACATTCC-ACCCC
261 CAATACAATAAACAAACCCCTTCATCCCAACAACCTAAACATTCCAACCCC
366962 ACCACATGGTAAC-TTGAGTATAGTTTGAACACTTTTTTTTTATATTAATCCATATTTGAATAAA
1 ACCACATGGTAACTTTGAGTATAGTTTGAACACTTTTTTTTTATATTAATCCATATTTGAATAAA
367026 ACATTTTAACTTAGGCGAGAGCCAAGTGCCTTATTTCATGGTGAATTTGAATCATTAATTCACTT
66 ACATTTTAACTTAGGCGAGAGCCAAGTGCCTTATTTCATGGTGAATTTGAATCATTAATTCACTT
367091 AACTTCCTTTTGCTCTCGGTTAACATCCTCAAATTTCCAAACCTTAATTTGTATATAGACGATTA
131 AACTTCCTTTTGCTCTCGGTTAACATCCTCAAATTTCCAAACCTTAATTTGTATATAGACGATTA
367156 AAATATTTGAAAATAATTCTTTTATAGATAAATGCAAAATTTATATATCCTAAAGAAAACACAAT
196 AAATATTTGAAAATAATTCTTTTATAGATAAATGCAAAATTTATATATCCTAAAGAAAACACAAT
367221 CAATACAATAAACAAACCCCTTCATCCCAACAACCTAAACATTCCAACCCC
261 CAATACAATAAACAAACCCCTTCATCCCAACAACCTAAACATTCCAACCCC
367272 A
1 A
367273 AATGAAATGA
Statistics
Matches: 310, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
309 291 0.94
310 19 0.06
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (311 bp):
ACCACATGGTAACTTTGAGTATAGTTTGAACACTTTTTTTTTATATTAATCCATATTTGAATAAA
ACATTTTAACTTAGGCGAGAGCCAAGTGCCTTATTTCATGGTGAATTTGAATCATTAATTCACTT
AACTTCCTTTTGCTCTCGGTTAACATCCTCAAATTTCCAAACCTTAATTTGTATATAGACGATTA
AAATATTTGAAAATAATTCTTTTATAGATAAATGCAAAATTTATATATCCTAAAGAAAACACAAT
CAATACAATAAACAAACCCCTTCATCCCAACAACCTAAACATTCCAACCCC
Found at i:367768 original size:42 final size:43
Alignment explanation
Indices: 367717--367822 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 43
367707 GTTTTTGTTC
* * * *
367717 AAACCCGCAATAGTTATGTACTTTAGT-GTCATTTTTT-TAAT
1 AAACCCGCAATAGTCATATAATTTAGTGGCCATTTTTTGTAAT
* *
367758 AAACGCCGCAATAATCATATAATTTAGTGGCCTTTTTTTGTAAT
1 AAAC-CCGCAATAGTCATATAATTTAGTGGCCATTTTTTGTAAT
*
367802 AAACACCGCAATAGTGATATA
1 AAAC-CCGCAATAGTCATATA
367823 CCATAGTGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 4 0.08
42 19 0.36
43 8 0.15
44 22 0.42
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (43 bp):
AAACCCGCAATAGTCATATAATTTAGTGGCCATTTTTTGTAAT
Found at i:367838 original size:44 final size:44
Alignment explanation
Indices: 367748--367844 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
367738 TTTAGTGTCA
* ** **
367748 TTTTTT-TAATAAACGCCGCAATAATCATATAATTTAGTGGCCT
1 TTTTTTGTAATAAACACCGCAATAATCATATAACATAGTGGAAT
* * *
367791 TTTTTTGTAATAAACACCGCAATAGTGATATACCATAGTGGAAT
1 TTTTTTGTAATAAACACCGCAATAATCATATAACATAGTGGAAT
367835 TTTTATTGTA
1 TTTT-TTGTA
367845 TTATACCGCG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 6 0.14
44 33 0.75
45 5 0.11
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (44 bp):
TTTTTTGTAATAAACACCGCAATAATCATATAACATAGTGGAAT
Found at i:368853 original size:64 final size:64
Alignment explanation
Indices: 368752--368882 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
368742 TTTAGCGGCG
368752 TTTATTAGTAGAAAACGCCATTAACAGTTGTGGTGTTTGTATTACCAGTATTTTTTCGGAACTT
1 TTTATTAGTAGAAAACGCCATTAACAGTTGTGGTGTTTGTATTACCAGTATTTTTTCGGAACTT
368816 TTTATTAGTAGAAAACGCCATTAACAGTTGTGGTGTTTGTATTACCAGTATTTTTTCGGAACTT
1 TTTATTAGTAGAAAACGCCATTAACAGTTGTGGTGTTTGTATTACCAGTATTTTTTCGGAACTT
368880 TTT
1 TTT
368883 TTTTACGCCG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (64 bp):
TTTATTAGTAGAAAACGCCATTAACAGTTGTGGTGTTTGTATTACCAGTATTTTTTCGGAACTT
Found at i:370522 original size:13 final size:14
Alignment explanation
Indices: 370502--370534 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
370492 TATTTTCTAA
370502 ATAAAATATTATTT
1 ATAAAATATTATTT
*
370516 A-AAAATATTTTTT
1 ATAAAATATTATTT
370529 ATAAAA
1 ATAAAA
370535 AGATCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAAATATTATTT
Found at i:381416 original size:19 final size:19
Alignment explanation
Indices: 381392--381428 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
381382 TGTTGTTTAA
*
381392 TATTGTTTTAGACTTGATT
1 TATTGTTTGAGACTTGATT
*
381411 TATTGTTTGAGTCTTGAT
1 TATTGTTTGAGACTTGAT
381429 ATTTGATACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.57
Consensus pattern (19 bp):
TATTGTTTGAGACTTGATT
Found at i:384476 original size:17 final size:17
Alignment explanation
Indices: 384454--384514 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
384444 AATTAAGCTA
*
384454 ACATGCTTAAATGTAGT
1 ACATGCTTAAATGAAGT
*
384471 ACATGCTTGAATGAAGT
1 ACATGCTTAAATGAAGT
* *
384488 ACATGCTTGAGTGAAGT
1 ACATGCTTAAATGAAGT
384505 ACCATGCTTA
1 A-CATGCTTA
384515 TTTATTCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 32 0.82
18 7 0.18
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (17 bp):
ACATGCTTAAATGAAGT
Found at i:389008 original size:2 final size:2
Alignment explanation
Indices: 389001--389027 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
388991 GTATTTCAAA
389001 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
389028 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:401839 original size:46 final size:46
Alignment explanation
Indices: 401789--401876 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
401779 AACATATGTG
* * *
401789 TTTTAATATTCAACTTTAAACATAAA-ATAA-TTTATTTTAAAACTCC
1 TTTTAACATTCAAATTT-AA-ATAAATATAATTTTAATTTAAAACTCC
*
401835 TTTTACCATTCAAATTTAAATAAATATAATTTTAATTTAAAA
1 TTTTAACATTCAAATTTAAATAAATATAATTTTAATTTAAAA
401877 TATACAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 5 0.14
45 6 0.17
46 25 0.69
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.44
Consensus pattern (46 bp):
TTTTAACATTCAAATTTAAATAAATATAATTTTAATTTAAAACTCC
Found at i:405326 original size:33 final size:33
Alignment explanation
Indices: 405279--405343 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
405269 AATGCTCAAG
* *
405279 GGGCTTTGCCGGTTGAAATAACGCGTGCACATA
1 GGGCCTTGCCGGTTGAAATAACACGTGCACATA
*
405312 GGGCCTTGCCGGTTGCAATAACACGTGCACAT
1 GGGCCTTGCCGGTTGAAATAACACGTGCACAT
405344 GGAGATTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (33 bp):
GGGCCTTGCCGGTTGAAATAACACGTGCACATA
Found at i:405579 original size:39 final size:39
Alignment explanation
Indices: 405520--405597 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
405510 TTAATGGCAG
*
405520 TGCAAATGGGGCCACGCCATTTGAAACAATT-GCCGACCA
1 TGCAAATGGGGCCACGCCATTGGAAAC-ATTGGCCGACCA
* * *
405559 TGCACATGGGGTCACGCCATTGGAAGCATTGGCCGACCA
1 TGCAAATGGGGCCACGCCATTGGAAACATTGGCCGACCA
405598 AAATAATGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 3 0.09
39 31 0.91
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (39 bp):
TGCAAATGGGGCCACGCCATTGGAAACATTGGCCGACCA
Found at i:411058 original size:77 final size:79
Alignment explanation
Indices: 410952--411104 Score: 181
Period size: 77 Copynumber: 2.0 Consensus size: 79
410942 TTTCAAATTA
**
410952 AAAAACTTATTTAATTAATTCAAATTAAATAT-ACATT-AAAGACTTATAATCTGAATTAAAATC
1 AAAAACTTATTTAATTAATTCAAATTAAATATCA-ATTAAAAGACTTATAATCAAAATTAAAATC
411015 -TTTAATGTTTATTT
65 TTTTAATGTTTATTT
* * * * *
411029 AAAATCTTATTTAATT-ATTCTGAAA-TAAATATCAATTAAAAGAGTTGTAATCAAAATTACATT
1 AAAAACTTATTTAATTAATTC--AAATTAAATATCAATTAAAAGACTTATAATCAAAATTAAAAT
411092 CTTTTAATGTTTA
64 CTTTTAATGTTTA
411105 CTTACTATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
76 4 0.06
77 25 0.39
78 24 0.38
79 11 0.17
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (79 bp):
AAAAACTTATTTAATTAATTCAAATTAAATATCAATTAAAAGACTTATAATCAAAATTAAAATCT
TTTAATGTTTATTT
Found at i:416442 original size:20 final size:20
Alignment explanation
Indices: 416417--416454 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
416407 CCCATAAATG
416417 CACTATTTTGGGCATGAACC
1 CACTATTTTGGGCATGAACC
416437 CACTATTTTGGGCATGAA
1 CACTATTTTGGGCATGAA
416455 AAATATGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (20 bp):
CACTATTTTGGGCATGAACC
Found at i:416858 original size:20 final size:20
Alignment explanation
Indices: 416829--416907 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 20
416819 CTAAAAATGC
*
416829 ATGAACGGATGCATTAAGGA
1 ATGAAAGGATGCATTAAGGA
*
416849 ATGAAAGGATGCCATAACTAA-AA
1 ATGAAAGGATG-CAT---TAAGGA
416872 ATGCATGAACGGATGCATTAAGGA
1 ATG-A--AA-GGATGCATTAAGGA
416896 ATGAAAGGATGC
1 ATGAAAGGATGC
416908 CATAACTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 18
0.69 0.04 0.26
Matches are distributed among these distances:
20 16 0.34
21 5 0.11
23 8 0.17
24 8 0.17
26 5 0.11
27 5 0.11
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (20 bp):
ATGAAAGGATGCATTAAGGA
Found at i:416883 original size:47 final size:47
Alignment explanation
Indices: 416814--417028 Score: 360
Period size: 47 Copynumber: 4.6 Consensus size: 47
416804 AAACCGAATT
*
416814 CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATAC
*
416861 CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATAC
*
416908 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATAC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATAC
* *
416955 CATAACTAAAAATGCATGAACGGATCCATTAA-GACATGAAAAGATAC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGA-ATGAAAGGATAC
*
417002 CATAACTAAAAATGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGC
417029 CATAACTAAA
Statistics
Matches: 160, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.01
47 159 0.99
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.19
Consensus pattern (47 bp):
CATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATAC
Found at i:416887 original size:27 final size:27
Alignment explanation
Indices: 416849--416983 Score: 104
Period size: 27 Copynumber: 5.6 Consensus size: 27
416839 GCATTAAGGA
*
416849 ATGAAAGGATGCCATAACTAAAAATGC
1 ATGAACGGATGCCATAACTAAAAATGC
*
416876 ATGAACGGATG-CAT---TAAGGAATG-
1 ATGAACGGATGCCATAACTAA-AAATGC
416899 A--AA-GGATGCCATAACTAAAAATGC
1 ATGAACGGATGCCATAACTAAAAATGC
*
416923 ATGAACGGATG-CAT---T---AAGGC
1 ATGAACGGATGCCATAACTAAAAATGC
* *
416943 ATGAAAGGATACCATAACTAAAAATGC
1 ATGAACGGATGCCATAACTAAAAATGC
416970 ATGAACGGAT-CCAT
1 ATGAACGGATGCCAT
416984 TAAGACATGA
Statistics
Matches: 84, Mismatches: 8, Indels: 33
0.67 0.06 0.26
Matches are distributed among these distances:
20 18 0.21
21 8 0.10
23 9 0.11
24 9 0.11
26 12 0.14
27 28 0.33
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.19
Consensus pattern (27 bp):
ATGAACGGATGCCATAACTAAAAATGC
Found at i:417031 original size:27 final size:27
Alignment explanation
Indices: 416989--417142 Score: 147
Period size: 27 Copynumber: 6.2 Consensus size: 27
416979 TCCATTAAGA
* *
416989 CATGAAAAGATACCATAACTAAAAATG
1 CATGAAAGGATGCCATAACTAAAAATG
417016 CATGAAAGGATGCCATAACTAAAAATG
1 CATGAAAGGATGCCATAACTAAAAATG
* *
417043 CATGAATGGATG-CAT---T---AAGG
1 CATGAAAGGATGCCATAACTAAAAATG
*
417063 CATGAAAGGATACCATAACTAAAAATG
1 CATGAAAGGATGCCATAACTAAAAATG
* *
417090 CATGAACGGATG-CAT---T---AAGG
1 CATGAAAGGATGCCATAACTAAAAATG
417110 CATGAAAGGATGCCATAACTAAAAATG
1 CATGAAAGGATGCCATAACTAAAAATG
417137 CATGAA
1 CATGAA
417143 CATATGCATT
Statistics
Matches: 101, Mismatches: 12, Indels: 28
0.72 0.09 0.20
Matches are distributed among these distances:
20 27 0.27
21 6 0.06
23 2 0.02
24 2 0.02
26 6 0.06
27 58 0.57
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (27 bp):
CATGAAAGGATGCCATAACTAAAAATG
Found at i:417036 original size:74 final size:74
Alignment explanation
Indices: 416941--417102 Score: 270
Period size: 74 Copynumber: 2.2 Consensus size: 74
416931 ATGCATTAAG
*
416941 GCATGAAAGGATACCATAACTAAAAATGCATGAACGGATCCATTAAGACATGAAAAGATACCATA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATCCATTAAGACATGAAAAGATACCATA
417006 ACTAAAAAT
66 ACTAAAAAT
* * * *
417015 GCATGAAAGGATGCCATAACTAAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATACCATA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATCCATTAAGACATGAAAAGATACCATA
417080 ACTAAAAAT
66 ACTAAAAAT
*
417089 GCATGAACGGATGC
1 GCATGAAAGGATGC
417103 ATTAAGGCAT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 82 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (74 bp):
GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATCCATTAAGACATGAAAAGATACCATA
ACTAAAAAT
Found at i:417047 original size:121 final size:121
Alignment explanation
Indices: 416896--417142 Score: 449
Period size: 121 Copynumber: 2.0 Consensus size: 121
416886 GCATTAAGGA
416896 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAAC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAAC
416961 TAAAAATGCATGAACGGATCCATTAAGACATGAAAAGATACCATAACTAAAAATGC
66 TAAAAATGCATGAACGGATCCATTAAGACATGAAAAGATACCATAACTAAAAATGC
*
417017 ATGAAAGGATGCCATAACTAAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATACCATAAC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAAC
* * * *
417082 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGC
66 TAAAAATGCATGAACGGATCCATTAAGACATGAAAAGATACCATAACTAAAAATGC
417138 ATGAA
1 ATGAA
417143 CATATGCATT
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (121 bp):
ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAAC
TAAAAATGCATGAACGGATCCATTAAGACATGAAAAGATACCATAACTAAAAATGC
Found at i:417066 original size:47 final size:47
Alignment explanation
Indices: 417015--417178 Score: 292
Period size: 47 Copynumber: 3.5 Consensus size: 47
417005 AACTAAAAAT
*
417015 GCATGAAAGGATGCCATAACTAAAAATGCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
*
417062 GCATGAAAGGATACCATAACTAAAAATGCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
**
417109 GCATGAAAGGATGCCATAACTAAAAATGCATGAACATATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
417156 GCATGAAAGGATGCCATAACTAA
1 GCATGAAAGGATGCCATAACTAA
417179 GCTATCACCT
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (47 bp):
GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
Found at i:417128 original size:168 final size:168
Alignment explanation
Indices: 416849--417178 Score: 570
Period size: 168 Copynumber: 2.0 Consensus size: 168
416839 GCATTAAGGA
*
416849 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGCCATAAC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATACCATAAC
*
416914 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAAATGCATGAACGGA
66 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAAATGCATGAACAGA
416979 TCCATTAAGACATGAAAAGATACCATAACTAAAAATGC
131 TCCATTAAGACATGAAAAGATACCATAACTAAAAATGC
* *
417017 ATGAAAGGATGCCATAACTAAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATACCATAAC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATACCATAAC
* *
417082 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACATA
66 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAAATGCATGAACAGA
* * * *
417147 TGCATTAAGGCATGAAAGGATGCCATAACTAA
131 TCCATTAAGACATGAAAAGATACCATAACTAA
417179 GCTATCACCT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 152 1.00
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (168 bp):
ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATACCATAAC
TAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAAATGCATGAACAGA
TCCATTAAGACATGAAAAGATACCATAACTAAAAATGC
Found at i:419167 original size:37 final size:37
Alignment explanation
Indices: 419101--419172 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
419091 AGAGTCGAGG
*
419101 GTTTACCTATGTCTTTCGGGACATATGGACAGTTATA
1 GTTTACCTATGTCTTTCGGAACATATGGACAGTTATA
*
419138 GTTTACCTATGTTCTTT-GGAACATGTGGACAGTTA
1 GTTTACCTATG-TCTTTCGGAACATATGGACAGTTA
419173 CATAGGTCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 27 0.84
38 5 0.16
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (37 bp):
GTTTACCTATGTCTTTCGGAACATATGGACAGTTATA
Found at i:427467 original size:13 final size:13
Alignment explanation
Indices: 427446--427478 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
427436 CTAACACTCT
427446 TTCCT-CTTTTTC
1 TTCCTCCTTTTTC
*
427458 TTCTTCCTTTTTC
1 TTCCTCCTTTTTC
427471 TTCCTCCT
1 TTCCTCCT
427479 CCCCGTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TTCCTCCTTTTTC
Found at i:428813 original size:37 final size:37
Alignment explanation
Indices: 428747--428818 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
428737 AGAGTCGAGG
*
428747 GTTTACCTATGTCTTTAGGGACATATGGACAGTTATA
1 GTTTACCTATGTCTTTAGGAACATATGGACAGTTATA
*
428784 GTTTACCTATGTTCTTT-GGAACATGTGGACAGTTA
1 GTTTACCTATG-TCTTTAGGAACATATGGACAGTTA
428819 CATAGGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 27 0.84
38 5 0.16
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (37 bp):
GTTTACCTATGTCTTTAGGAACATATGGACAGTTATA
Found at i:430301 original size:64 final size:62
Alignment explanation
Indices: 430150--430304 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 62
430140 GAATAAATTG
* * *
430150 AACATCGAATGCATTT-TGCATCGATGCACATACCATGCCGATGTACTCAAGTTTTTATGAA
1 AACATCGAATGCTTTTATGCATCGATGCACATACCATGCCGATGCACTCAAGTATTTATGAA
* * *
430211 AACATCGAATGCTTTTATGTAGCGATGCACA-AGCCATGCATCGATGCACTCCAGCTATTT-T-A
1 AACATCGAATGCTTTTATGCATCGATGCACATA-CCATGC--CGATGCACTCAAG-TATTTATGA
430273 A
62 A
*
430274 AACATCGAATGTGTTTTATGCATCGATGCAC
1 AACATCGAATG-CTTTTATGCATCGATGCAC
430305 TCTTAGTTCA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
61 16 0.20
62 18 0.23
63 13 0.16
64 28 0.35
65 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (62 bp):
AACATCGAATGCTTTTATGCATCGATGCACATACCATGCCGATGCACTCAAGTATTTATGAA
Found at i:433075 original size:13 final size:13
Alignment explanation
Indices: 433054--433086 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
433044 CTAACACTCT
433054 TTCTT-CTTTTTC
1 TTCTTCCTTTTTC
433066 TTCTTCCTTTTTC
1 TTCTTCCTTTTTC
*
433079 TTCCTCCT
1 TTCTTCCT
433087 CCCCGTGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTTCCTTTTTC
Found at i:434415 original size:37 final size:37
Alignment explanation
Indices: 434349--434420 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
434339 AGAGTCGAGG
*
434349 GTTTACCTATGTCTTTAGGGACATATGGACAGTTATA
1 GTTTACCTATGTCTTTAGGAACATATGGACAGTTATA
*
434386 GTTTACCTATGTTCTTT-GGAACATGTGGACAGTTA
1 GTTTACCTATG-TCTTTAGGAACATATGGACAGTTA
434421 CATAGGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 27 0.84
38 5 0.16
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (37 bp):
GTTTACCTATGTCTTTAGGAACATATGGACAGTTATA
Found at i:435806 original size:65 final size:64
Alignment explanation
Indices: 435726--435885 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 64
435716 GAATAAATTG
*
435726 AACATCGAATGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAAG-TTTTTATG
1 AACATCGAATGCATTTTATGCATCGATGCACA-AGCCATGCATCGATGCACTCAAGCTATTT-T-
435789 AA
63 AA
* * * *
435791 AACATCGAATACATTTTATGTAGCGATGCACAAGCCATGCATCGATGCACTCCAGCTATTTTAA
1 AACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAAGCTATTTTAA
* **
435855 AACATTGAATGTGTTTTATGCATCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
435886 TCTTAGTTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 28 0.34
65 50 0.61
66 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATGCACTCAAGCTATTTTAA
Found at i:444024 original size:23 final size:23
Alignment explanation
Indices: 443994--444078 Score: 116
Period size: 23 Copynumber: 3.6 Consensus size: 23
443984 GCATGGCCTT
*
443994 GTGCATCGATGCACAATCAAGGC
1 GTGCATCGATGCACATTCAAGGC
* *
444017 GTGCATCGGTGCACCTTCAAGGC
1 GTGCATCGATGCACATTCAAGGC
*
444040 GTGCATCGATGCACATTCAAAGGG
1 GTGCATCGATGCACATTC-AAGGC
444064 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
444079 TGTTAAGTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 36 0.67
24 5 0.09
25 13 0.24
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGC
Found at i:447948 original size:22 final size:21
Alignment explanation
Indices: 447906--447945 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
447896 GAGCTTATTT
*
447906 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
447927 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
447946 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:449952 original size:45 final size:45
Alignment explanation
Indices: 449895--449992 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
449885 TCGATGTTTC
* * *
449895 AAAATAGC-CTGAGTGCATCGATGTATGGCT-TGTGTATCGATGCAT
1 AAAAT-GCACTGAGTGCATCAATGAATGG-TATGTGCATCGATGCAT
*
449940 CAAATGCACTGAGTGCATCAATGAATGGTATGTGCATCGATGCAT
1 AAAATGCACTGAGTGCATCAATGAATGGTATGTGCATCGATGCAT
449985 AAAATGCA
1 AAAATGCA
449993 GTCCATGTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 3 0.07
45 43 0.93
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (45 bp):
AAAATGCACTGAGTGCATCAATGAATGGTATGTGCATCGATGCAT
Found at i:451516 original size:15 final size:15
Alignment explanation
Indices: 451496--451525 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
451486 TAACAAAAAA
451496 GGGGAGAAGTGTTAT
1 GGGGAGAAGTGTTAT
451511 GGGGAGAAGTGTTAT
1 GGGGAGAAGTGTTAT
451526 AGTAAGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.27
Consensus pattern (15 bp):
GGGGAGAAGTGTTAT
Found at i:462719 original size:2 final size:2
Alignment explanation
Indices: 462712--462745 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
462702 TTGGGGGTAT
462712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
462746 AACGCTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:482393 original size:426 final size:427
Alignment explanation
Indices: 481578--482424 Score: 1367
Period size: 426 Copynumber: 2.0 Consensus size: 427
481568 TAGCTTCATT
* *
481578 TCTGAGTAGTTAAAAGCTTTAGCGAGGCTACTAATTCTTGGAATACCACTATCTTTGGCTCTATT
1 TCTGAGTAATTAAAAGCTTTAGCGAGGCTACTAATTCTTGGAATACCACAATCTTTGGCTCTATT
* *
481643 ACTCGTCAAAAGAAGATTATTGTGTCAAGACTTTATGGCATTCAATAAAGTATTAACCTGAGTCG
66 ACTCGTCAAAAGAAGATTATTGTGTCAAGACTTTATGGCATTCAATAAAGTATTAACCTGAGACA
* * * * *
481708 TTATCCCTTTCTCATCAATTTGGAAACTTAGCTTTAGCTTTATTTTGAGAATATTCTTGATCAGG
131 TGATCCCTTTCTCATCAATTTGGAAACTTAGCTTCAGCTTTATCTTGAGAAGATTCTTCATCAGG
* * *
481773 AAGAACTTCTCTGGAAACAAAAGTCTTGCATGGATTGGATTGTTTATGGTGATAGAAAAACATTG
196 AAGAACTTCTATAGAAACAAAAGTCTTGCATGGATTGGATTATTTATGGTGATAGAAAAACATTG
*
481838 TGCTTTCACAAGTGAACTATTTTGAATAGCCGTAACAATTGTATCTCTTCTATACAATTACCTTC
261 TGCTTCCACAAGTGAACTATTTTGAATAGCCGTAACAATTGTATCTCTTCTATACAATTACCTTC
*
481903 CGACGAGTGGTACTATGATGAAAAAGCTATACATAAGGAAGCTATACTAATCATAGATATCTTTA
326 CGACGAGTGGTACTATGATGAAAAAGCTATACATAAGGAAGCTATACTAATCATAGAAATCTTTA
481968 TTCTATTGACAACATTTCTTCGAGCAAATTCATGCTC
391 TTCTATTGACAACATTTCTTCGAGCAAATTCATGCTC
*
482005 TCTG-GTAATTAAAAGCTTTAGTGAGGCTACTAATTCTTGGAATACCACAATCTTTGGCTCTATT
1 TCTGAGTAATTAAAAGCTTTAGCGAGGCTACTAATTCTTGGAATACCACAATCTTTGGCTCTATT
* *
482069 ACTCGTCAAAAGAAGATTATTGTGTCAAGACTTTATGGCATTCAATAAAGTATTGA-TTGGAGAC
66 ACTCGTCAAAAGAAGATTATTGTGTCAAGACTTTATGGCATTCAATAAAGTATTAACCT-GAGAC
* * *
482133 ATGATCTCTTTCTCATCAATTTGGAAGCTTAGCTTCAG-TTTGATCTTGAGAAGATTCTTCATCG
130 ATGATCCCTTTCTCATCAATTTGGAAACTTAGCTTCAGCTTT-ATCTTGAGAAGATTCTTCATCA
* ** *
482197 GGAAGAACTTGTATAGAAACAAAAGTCTTGCATGGATTGGATTATTTATGGTGATAGAAGCACCT
194 GGAAGAACTTCTATAGAAACAAAAGTCTTGCATGGATTGGATTATTTATGGTGATAGAAAAACAT
* *
482262 TGTGCTTCCATAAGTGAACTATTTTGAATAGGCGTAACAATTGTATCTCTTCTATACAATTACCT
259 TGTGCTTCCACAAGTGAACTATTTTGAATAGCCGTAACAATTGTATCTCTTCTATACAATTACCT
* * * *
482327 TCCGACGAGTGGTACTATGATGAAAAAGCTATGCATAAGGAAGCTATTCTACTCGTAGAAATCTT
324 TCCGACGAGTGGTACTATGATGAAAAAGCTATACATAAGGAAGCTATACTAATCATAGAAATCTT
* *
482392 TATTCTGTTGACAATATTTCTTCGAGCAAATTC
389 TATTCTATTGACAACATTTCTTCGAGCAAATTC
482425 CTGCCCATCA
Statistics
Matches: 386, Mismatches: 32, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
425 4 0.01
426 378 0.98
427 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (427 bp):
TCTGAGTAATTAAAAGCTTTAGCGAGGCTACTAATTCTTGGAATACCACAATCTTTGGCTCTATT
ACTCGTCAAAAGAAGATTATTGTGTCAAGACTTTATGGCATTCAATAAAGTATTAACCTGAGACA
TGATCCCTTTCTCATCAATTTGGAAACTTAGCTTCAGCTTTATCTTGAGAAGATTCTTCATCAGG
AAGAACTTCTATAGAAACAAAAGTCTTGCATGGATTGGATTATTTATGGTGATAGAAAAACATTG
TGCTTCCACAAGTGAACTATTTTGAATAGCCGTAACAATTGTATCTCTTCTATACAATTACCTTC
CGACGAGTGGTACTATGATGAAAAAGCTATACATAAGGAAGCTATACTAATCATAGAAATCTTTA
TTCTATTGACAACATTTCTTCGAGCAAATTCATGCTC
Found at i:486695 original size:20 final size:20
Alignment explanation
Indices: 486652--486695 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
486642 ACATAATATG
*
486652 GATAATGTTCATCTAGTATA
1 GATAATGTTCATCTAGTACA
* * *
486672 GATATTGTTCATCTTGTACC
1 GATAATGTTCATCTAGTACA
486692 GATA
1 GATA
486696 CTATTACTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (20 bp):
GATAATGTTCATCTAGTACA
Found at i:489055 original size:93 final size:93
Alignment explanation
Indices: 488886--489136 Score: 281
Period size: 94 Copynumber: 2.7 Consensus size: 93
488876 TGAGTTATGG
* * * **
488886 TACCGATACTATCAAAACAGAATGCTAAATTGGTACCGATACCATATATAATATCGTTGCTATTT
1 TACCGATACTATCAAAACAGAATGCTAAA-TGGTA-CGATACCATATATGATATCGATACTACAT
* * ** *
488951 AGAGTTGTAGTATTGATA-CTTCTCA-GCAA
64 AAAGTAGTAGTACCGATACCGT-TCATGCAA
* * * * *
488980 TTCTGATACTGTCAAAACAGAATGCTAAAAGGTATCGATACCATATATGATATCAATACTACATA
1 TACCGATACTATCAAAACAGAATGCTAAATGGTA-CGATACCATATATGATATCGATACTACATA
* *
489045 AAGTAGTAGTACCGATACCGTTGATGCAG
65 AAGTAGTAGTACCGATACCGTTCATGCAA
489074 TACCGATACTATCAAAACAGAATGCTAGAATGGTACTGATACCATATATGATATCGATACTAC
1 TACCGATACTATCAAAACAGAATGCTA-AATGGTAC-GATACCATATATGATATCGATACTAC
489137 TTCCATTAAT
Statistics
Matches: 130, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
93 43 0.33
94 56 0.43
95 31 0.24
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (93 bp):
TACCGATACTATCAAAACAGAATGCTAAATGGTACGATACCATATATGATATCGATACTACATAA
AGTAGTAGTACCGATACCGTTCATGCAA
Found at i:489167 original size:21 final size:24
Alignment explanation
Indices: 489124--489182 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 24
489114 ACCATATATG
*
489124 ATATCGATACTACTTCCATTAATT
1 ATATCGATACTACTTCCAGTAATT
*
489148 ATATCGATACT-C-T-CAGTAATG
1 ATATCGATACTACTTCCAGTAATT
489169 ATA-CTGATACTACT
1 ATATC-GATACTACT
489183 CCTTTAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.03
21 15 0.50
22 2 0.07
23 1 0.03
24 11 0.37
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (24 bp):
ATATCGATACTACTTCCAGTAATT
Found at i:492665 original size:35 final size:35
Alignment explanation
Indices: 492596--492699 Score: 192
Period size: 35 Copynumber: 3.0 Consensus size: 35
492586 ATATTTATCC
*
492596 TCCCTAGTTTGTGTCGTTATTA-AAATTTTAAGAA
1 TCCCTAGTTTGTGTCGTTATTACGAATTTTAAGAA
492630 TCCCTAGTTTGTGTCGTTATTACGAATTTTAAGAA
1 TCCCTAGTTTGTGTCGTTATTACGAATTTTAAGAA
492665 TCCCTAGTTTGTGTCGTTATTACGAATTTTAAGAA
1 TCCCTAGTTTGTGTCGTTATTACGAATTTTAAGAA
492700 CTTGACCACT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
34 22 0.32
35 46 0.68
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.43
Consensus pattern (35 bp):
TCCCTAGTTTGTGTCGTTATTACGAATTTTAAGAA
Found at i:493136 original size:18 final size:18
Alignment explanation
Indices: 493098--493136 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
493088 TTAAATTTTG
*
493098 ATTTATTCTATAAACATA
1 ATTTATTCTATAAACAAA
493116 ATTTATT-TATAAACTAAA
1 ATTTATTCTATAAAC-AAA
493134 ATT
1 ATT
493137 CTAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTATTCTATAAACAAA
Found at i:501865 original size:43 final size:42
Alignment explanation
Indices: 501805--501951 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
501795 TCAGGGCACT
* * * *
501805 ATTTTTTCATCTTTATAATTAGGTACTTAATTTTTTAAATCTT
1 ATTTTTTTACCTTTATAATT-GGTACTTAATTTTTTCAATCTC
* * *
501848 ATTTTTTTACCTTTATAATTGTTGACCTAATATTATTCAATCTC
1 ATTTTTTTACCTTTATAATTGGT-ACTTAAT-TTTTTCAATCTC
** *
501892 ATTTTTTTGTCTTTAT-ATTTGT-CTCTAATTTTTTCAATC-C
1 ATTTTTTTACCTTTATAATTGGTACT-TAATTTTTTCAATCTC
501932 A-TTTTTTACCTTTATAATTG
1 ATTTTTTTACCTTTATAATTG
501952 AGGCCCCTAA
Statistics
Matches: 84, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
39 12 0.14
40 5 0.06
41 10 0.12
42 6 0.07
43 28 0.33
44 23 0.27
ACGTcount: A:0.24, C:0.13, G:0.05, T:0.58
Consensus pattern (42 bp):
ATTTTTTTACCTTTATAATTGGTACTTAATTTTTTCAATCTC
Found at i:502192 original size:129 final size:126
Alignment explanation
Indices: 501958--502193 Score: 278
Period size: 129 Copynumber: 1.8 Consensus size: 126
501948 ATTGAGGCCC
* * * ** *
501958 CTAATTTTGTAATCTCACTTTTAACTTTATAATTGAGGCTTTTAAGCTTTTTCAATCTCACTTTC
1 CTAATTTTGTAATCCCACTTTTAAATTTATAAATGAGGCCCTTAAGCTTTTTAAATCTCACTTTC
* ** * * * *
502023 TAGCTTTTCAATTGTGGCCCCTATATTTTTTATATTTCAATTTCTACCATTAATTGAGACT
66 TAACTTTTCAATTAAGCCCCCTAGATTTTTTAGATCTCAATTTCTACCATTAATTGAGACT
* *
502084 CTAATTTTTTAATCCCACTTTTTTAAATTTATAAATGAGGCCCTTAAGTTTTTTTAAATCTCACT
1 CTAATTTTGTAATCCCAC--TTTTAAATTTATAAATGAGGCCCTTAAG-CTTTTTAAATCTCACT
502149 TTCTAACTTTGT-AATTAAGCCCCCTAAGATTTTTT-GATCTCAATT
63 TTCTAACTTT-TCAATTAAGCCCCCT-AGATTTTTTAGATCTCAATT
502194 ATACCTTTAT
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
126 16 0.18
128 24 0.27
129 41 0.46
130 9 0.10
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.47
Consensus pattern (126 bp):
CTAATTTTGTAATCCCACTTTTAAATTTATAAATGAGGCCCTTAAGCTTTTTAAATCTCACTTTC
TAACTTTTCAATTAAGCCCCCTAGATTTTTTAGATCTCAATTTCTACCATTAATTGAGACT
Found at i:505229 original size:45 final size:45
Alignment explanation
Indices: 505129--505380 Score: 380
Period size: 45 Copynumber: 5.6 Consensus size: 45
505119 CCTCTATTCA
* * *
505129 TGTTTATAATGCA-CCATTATGCATTTTTAACTATAACATACTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTC
* * *
505175 TATTGATAATGCACCCATATGCATTTCAGCTATAGAATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
505220 TGTTCATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* *
505265 TGTTGATAATGCACCCATATGTATTTCAACTATAGCATATTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
505310 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* *
505355 TATTGATAATGCATCCATATGCATTT
1 TGTTGATAATGCACCCATATGCATTT
505381 TTATTTTCAT
Statistics
Matches: 188, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
45 168 0.89
46 17 0.09
47 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
Found at i:505922 original size:20 final size:20
Alignment explanation
Indices: 505897--505952 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
505887 CGATGTTTCT
*
505897 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCATACCA
*
505917 TGGTATCGATACTACCATACTA
1 TGGTATCGATAC--CCATACCA
*
505939 TGGTACCGATACCC
1 TGGTATCGATACCC
505953 CCTTACGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 14 0.45
22 17 0.55
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
TGGTATCGATACCCATACCA
Found at i:507722 original size:13 final size:13
Alignment explanation
Indices: 507704--507798 Score: 72
Period size: 13 Copynumber: 7.5 Consensus size: 13
507694 AAAAAAGATG
507704 TAATAATAAATAA
1 TAATAATAAATAA
507717 TAATAATAAAT-A
1 TAATAATAAATAA
* *
507729 TTA-AAT-ATTAA
1 TAATAATAAATAA
* * *
507740 TAATAATTATTAT
1 TAATAATAAATAA
*
507753 TAATTATTAAATAA
1 TAA-TAATAAATAA
507767 TAATAAT-AATAA
1 TAATAATAAATAA
* * *
507779 TAACATTAAATAT
1 TAATAATAAATAA
507792 TAATAAT
1 TAATAAT
507799 GATAACCCGA
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
10 2 0.03
11 6 0.10
12 16 0.25
13 30 0.48
14 9 0.14
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:507798 original size:3 final size:3
Alignment explanation
Indices: 507704--507781 Score: 59
Period size: 3 Copynumber: 25.0 Consensus size: 3
507694 AAAAAAGATG
* * * *
507704 TAA TAA TAAA TAA TAA TAA TAAA TAT TAAA TAT TAA TAA TAA TTAT TAT
1 TAA TAA T-AA TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA -TAA TAA
* *
507753 TAA TTA TTA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
507782 CATTAAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
2 1 0.02
3 51 0.82
4 10 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:508482 original size:42 final size:42
Alignment explanation
Indices: 508412--508507 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
508402 GTATATTTGG
* *
508412 CTCGAAGGACTTATCATCTTGCTTGAAAGACTGACAGAT-GC
1 CTCGAAGGACTTATCATCATGCTCGAAAGACTGACAGATGGC
* * *
508453 CTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC
1 CTCGAAGGACTT-ATCATCATGCTCGAAAGACTGACAGATGGC
508496 C-CGAAGGACTTA
1 CTCGAAGGACTTA
508508 CCAATATAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
CTCGAAGGACTTATCATCATGCTCGAAAGACTGACAGATGGC
Found at i:508675 original size:248 final size:247
Alignment explanation
Indices: 507943--508876 Score: 946
Period size: 248 Copynumber: 3.7 Consensus size: 247
507933 AAATAACCTA
** * * * *
507943 AAGGATTTAGCCATCATGCTCAAAAGACTTACTGATGGCCAGATGGACTTACCAATTTTGGAAAT
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTAGAAAT
* * * *
508008 AGTTTACTAGTTAAGAAACTTTAGAAATCGCTTTCATACATTTCAAAAATTTCATTTTCTGAAAA
66 AATTTACTAGGTAAGAAACTTTGGAAATCGC-TT--T-C--TT---ACATTTCATTTTCTGAAAA
* * * * * * * *
508073 TACTAAATGAGAAACTTTGAAAATTACTTT-TTATTTTTTGAAAATCATGTGAGAACATCCTGCC
122 TATTAAATGAGAAACTTTGAAAATTAGTTTCTCA-TTTTTCAACATCATATGAAAACATCTTGCC
* *
508137 CAAAGGTCTTATAGATGGCCTGAAGAACTTATCATCTTGCTCGAAAGACTGACAGATGACCG
186 CAAAGGTCTTATAGATGGCCCGAAGAACTTATCATCTTGCTCGAAAGACTGACAGATGCCCG
* * * ** *
508199 AA-GATTTAATCAACATGCTTGAAAGACTTATTGATGGCTTGAAGGACTTACCAATTTTGGAAAT
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTAGAAAT
* * * * *
508263 AGTTTACTAGGTAAGAAACATTGGAAATCGTTTTCTTACTTTTCAAAAATTTCCTTTTTAGAAAA
66 AATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACATTTC----A--T--TTTCT-GAAAA
* * *
508328 CATTAAATGAGAAACTTTAAAAATT-GCTTCTCATTTTTCACAAACATCATAT-AAAAGCATCTT
122 TATTAAATGAGAAACTTTGAAAATTAGTTTCTCATTTTT--C-AACATCATATGAAAA-CATCTT
* * ** * * *
508391 GCCCCAAGGTCGTATATTTGGCTCGAAGGACTTATCATCTTGCTTGAAAGACTGACAGATGCCTC
183 GCCCAAAGGTCTTATAGATGGCCCGAAGAACTTATCATCTTGCTCGAAAGACTGACAGATGCC-C
508456 G
247 G
*
508457 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAA-TATAGAAAT
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTAGAAAT
* * *
508521 AATTTATTGGGCAAGAAACTTTGGAAATCGCTTTCTTAC-TTTCATTTTCTGAAAATATTAAATG
66 AATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACATTTCATTTTCTGAAAATATTAAATG
*
508585 AGAAACTTTGAAAATT-GTTTTCCTCAATTTTCAACAGTCATATGAAAACATCTTGCCCAAAGGT
131 AGAAACTTTGAAAATTAG-TTT-CTCATTTTTCAACA-TCATATGAAAACATCTTGCCCAAAGGT
* * * * *
508649 CTTATAGATGGCCCGAACAACTTATCATCTTACTCAAAAGATTGACAGATGACCCA
193 CTTATAGATGGCCCGAAGAACTTATCATCTTGCTCGAAAGACTGACAGATG-CCCG
* * * *
508705 AAGGATTTAATCATCATGATCGAAAGACTTACTGATAGCCCGAAGGACTTGCCAATTTTAGAATT
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTAGAAAT
* * **
508770 AATTTACTGGGTAAGAAGCTTTGGAAATCAATTTCTTACTTTTCAAAAATTTCATTTTCTGAAAA
66 AATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTA-----C----ATTTCATTTTCTGAAAA
508835 TATTAAATGAGAAACTTTGAAAATTAGTTTCCTCATTTTTCA
122 TATTAAATGAGAAACTTTGAAAATTAGTTT-CTCATTTTTCA
508877 CACAACTTAA
Statistics
Matches: 568, Mismatches: 77, Indels: 63
0.80 0.11 0.09
Matches are distributed among these distances:
246 5 0.01
247 4 0.01
248 145 0.26
249 54 0.10
250 9 0.02
251 2 0.00
252 2 0.00
253 1 0.00
254 14 0.02
255 109 0.19
256 5 0.01
257 71 0.12
258 44 0.08
259 102 0.18
260 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (247 bp):
AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTAGAAAT
AATTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACATTTCATTTTCTGAAAATATTAAATG
AGAAACTTTGAAAATTAGTTTCTCATTTTTCAACATCATATGAAAACATCTTGCCCAAAGGTCTT
ATAGATGGCCCGAAGAACTTATCATCTTGCTCGAAAGACTGACAGATGCCCG
Found at i:510926 original size:49 final size:52
Alignment explanation
Indices: 510865--510986 Score: 135
Period size: 49 Copynumber: 2.3 Consensus size: 52
510855 AAGTACTTGA
*
510865 TTTGTTCTTTTTCTTCTTTTCTT-TTTTCT-TCGTTTTTTTT-TTCTTTTCAT-
1 TTTGTT-TTTTTCTT-TTTTCTTATTTTCTATCGTTTTTTTTCTTCTCTTCATC
* * *
510915 TTTGTTTTTTTCTTATTTTTTTATTTTTTATCTTTTTTTTTCTTCTCTTCATC
1 TTTGTTTTTTTCTT-TTTTCTTATTTTCTATCGTTTTTTTTCTTCTCTTCATC
*
510968 TTCTATTTTTTTCTTTTTT
1 TT-TGTTTTTTTCTTTTTT
510987 ATCTATTCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
49 14 0.23
50 11 0.18
51 10 0.16
52 9 0.15
53 6 0.10
54 11 0.18
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (52 bp):
TTTGTTTTTTTCTTTTTTCTTATTTTCTATCGTTTTTTTTCTTCTCTTCATC
Found at i:510933 original size:22 final size:19
Alignment explanation
Indices: 510881--510952 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
510871 CTTTTTCTTC
510881 TTTTCTTTTTTCTTCGTTT
1 TTTTCTTTTTTCTTCGTTT
* *
510900 TTTTTTTCTTTTCATTTTGTTT
1 TTTTCTT-TTTTC--TTCGTTT
**
510922 TTTTCTTATTTT-TTTATTT
1 TTTTCTT-TTTTCTTCGTTT
510941 TTTATCTTTTTT
1 TTT-TCTTTTTT
510953 TTTCTTCTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 19 0.43
20 9 0.20
22 16 0.36
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTCTTTTTTCTTCGTTT
Found at i:510934 original size:30 final size:30
Alignment explanation
Indices: 510884--510958 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
510874 TTTCTTCTTT
* *
510884 TCTTTTTTCTTCGTT-TTTTTTTTCTTTTCA
1 TCTTTTTTTTTC-TTATTTTTTTACTTTTCA
* * *
510914 TTTTGTTTTTTTCTTATTTTTTTATTTTTTA
1 TCTT-TTTTTTTCTTATTTTTTTACTTTTCA
510945 TCTTTTTTTTTCTT
1 TCTTTTTTTTTCTT
510959 CTCTTCATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.81
Consensus pattern (30 bp):
TCTTTTTTTTTCTTATTTTTTTACTTTTCA
Found at i:510935 original size:34 final size:33
Alignment explanation
Indices: 510878--510984 Score: 58
Period size: 33 Copynumber: 3.1 Consensus size: 33
510868 GTTCTTTTTC
* *
510878 TTCTTTT-CTTTTTTCTTCGTTTTTTTTTTCT-TT
1 TTCTTTTGTTTTTTTCTT-ATTTTTTTTTT-TCTT
**
510911 TCATTTTGTTTTTTTCTTATTTTTTTATTTT-TT
1 TTCTTTTGTTTTTTTCTTATTTTTTT-TTTTCTT
* *
510944 ATCTTTTTTTTTCTTCTCTTCATCTTCTATTTTTTTCTT
1 TTCTTTTGTTTT-TT-TCTT-AT-TT-T-TTTTTTTCTT
510983 TT
1 TT
510985 TTATCTATTC
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
33 23 0.41
34 14 0.25
35 4 0.07
36 2 0.04
37 2 0.04
38 5 0.09
39 6 0.11
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.79
Consensus pattern (33 bp):
TTCTTTTGTTTTTTTCTTATTTTTTTTTTTCTT
Found at i:510955 original size:19 final size:19
Alignment explanation
Indices: 510899--511001 Score: 64
Period size: 19 Copynumber: 5.1 Consensus size: 19
510889 TTTCTTCGTT
* * *
510899 TTTTTTTTCTTTTCATTTTG
1 TTTTTTATCTTTT-TTTTTA
510919 TTTTTT-TCTTATTTTTTTA
1 TTTTTTATCTT-TTTTTTTA
*
510938 TTTTTTATCTTTTTTTTTC
1 TTTTTTATCTTTTTTTTTA
* *
510957 TTCTCTTCATCTTCTATTTTTTTC
1 TT-T-TTTATC-T-T-TTTTTTTA
*
510981 TTTTTTATCTATTCTTTTTA
1 TTTTTTATCT-TTTTTTTTA
511001 T
1 T
511002 GAATATGAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
19 23 0.34
20 20 0.29
21 7 0.10
22 6 0.09
23 2 0.03
24 10 0.15
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.78
Consensus pattern (19 bp):
TTTTTTATCTTTTTTTTTA
Found at i:510963 original size:15 final size:15
Alignment explanation
Indices: 510872--510963 Score: 64
Period size: 15 Copynumber: 5.9 Consensus size: 15
510862 TGATTTGTTC
510872 TTTTTCTTCT-TTTCT
1 TTTTTCTTCTCTTT-T
510887 TTTTTCTTCGT-TTTT
1 TTTTTCTTC-TCTTTT
*
510902 TTTTTCTTTTCATTTT
1 TTTTTCTTCTC-TTTT
*
510918 GTTTTT-TTCTTATTTTT
1 -TTTTTCTTC-T-CTTTT
* *
510935 TTATTTTTTATCTTTT
1 TT-TTTCTTCTCTTTT
510951 TTTTTCTTCTCTT
1 TTTTTCTTCTCTT
510964 CATCTTCTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.02
15 27 0.44
16 18 0.29
17 14 0.23
18 2 0.03
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTCTTCTCTTTT
Found at i:511720 original size:32 final size:33
Alignment explanation
Indices: 511684--511756 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
511674 GATAATGATG
*
511684 TGACTTT-ATTACCTCAAAGAGAGGTAAGGGTA
1 TGACTTTGAGTACCTCAAAGAGAGGTAAGGGTA
* * * *
511716 TGACTTTGAGTGCCTTAAAGAGATGTAATGGTA
1 TGACTTTGAGTACCTCAAAGAGAGGTAAGGGTA
*
511749 TGAATTTG
1 TGACTTTG
511757 GTGACTTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.33
Consensus pattern (33 bp):
TGACTTTGAGTACCTCAAAGAGAGGTAAGGGTA
Found at i:511774 original size:32 final size:33
Alignment explanation
Indices: 511699--511774 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
511689 TTATTACCTC
* * *
511699 AAAGAGAGGTAAGGGTATGACTTTGAGTGCCTT
1 AAAGAGATGTAAGGGTATGAATTTGAGTGACTT
*
511732 AAAGAGATGTAATGGTATGAATTTG-GTGACTT
1 AAAGAGATGTAAGGGTATGAATTTGAGTGACTT
* *
511764 AGATAGATGTA
1 AAAGAGATGTA
511775 GTGTCAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 15 0.41
33 22 0.59
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.30
Consensus pattern (33 bp):
AAAGAGATGTAAGGGTATGAATTTGAGTGACTT
Found at i:515486 original size:32 final size:34
Alignment explanation
Indices: 515443--515505 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
515433 AGATTTCCTA
* *
515443 ACACTAGACAGA-TAGCTTCATTTT-ATTCATTT
1 ACACTAGACAGACAAGCTTAATTTTAATTCATTT
*
515475 ACACTATACAGACAAGCTTAATTTTAATTCA
1 ACACTAGACAGACAAGCTTAATTTTAATTCA
515506 CCTACTACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 11 0.42
33 10 0.38
34 5 0.19
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (34 bp):
ACACTAGACAGACAAGCTTAATTTTAATTCATTT
Found at i:518346 original size:373 final size:375
Alignment explanation
Indices: 517661--518409 Score: 1475
Period size: 373 Copynumber: 2.0 Consensus size: 375
517651 AATATAATAT
*
517661 AGGGCCTACACACACGCATATCACATGTTAATAAACAACTAATTGAGGATTAAAGAATATTAGAC
1 AGGGCCTACACACACGAATATCACATGTTAATAAACAACTAATTGAGGATTAAAGAATATTAGAC
517726 CCAAAATTTAAGGACCATAACAATTATTAAACCAAAGCTCCTCAGATCATGCATAGTAATTAAAA
66 CCAAAATTTAAGGACCATAACAATTATTAAACCAAAGCTCCTCAGATCATGCATAGTAATTAAAA
517791 TGTAAACATGAATAAACTTGAAGTTCGTATCATAACAATCAAAATTTACATTTAGTGGATAAAAT
131 TGTAAACATGAATAAACTTGAAGTTCGTATCATAACAATCAAAATTTACATTTAGTGGATAAAAT
517856 GAAAGGAGTACAAAGTAAAATGACTCAGGGAGGGGTTTACCCACGTGCTAAAATACGCACCCCAC
196 GAAAGGAGTACAAAGTAAAATGACTCAGGGAGGGGTTTACCCACGTGCTAAAATACGCACCCCAC
517921 CCTCTCAAAATGACGTCGTATGACACGGGGTATATAACCCCGAAACCCATGACA-TTTTGGCCTA
261 CCTCTCAAAATGACGTCGTATGACACGGGGTATATAACCCCGAAACCCATGACATTTTTGGCCTA
517985 AGT-CCCATTTCCCTCATTTTCGCCTCTTTCTCCTAAAGGGAAATCAGAA
326 AGTCCCCATTTCCCTCATTTTCGCCTCTTTCTCCTAAAGGGAAATCAGAA
518034 AGGGCCTACACACACGAATATCACATGTTAATAAACAACTAATTGAGGATTAAAGAATATTAGAC
1 AGGGCCTACACACACGAATATCACATGTTAATAAACAACTAATTGAGGATTAAAGAATATTAGAC
518099 CCAAAATTTAAGGACCATAACAATTATTAAACCAAAGCTCCTCAGATCATGCATAGTAATTAAAA
66 CCAAAATTTAAGGACCATAACAATTATTAAACCAAAGCTCCTCAGATCATGCATAGTAATTAAAA
518164 TGTAAACATGAATAAACTTGAAGTTCGTATCATAACAATCAAAATTTACATTTAGTGGATAAAAT
131 TGTAAACATGAATAAACTTGAAGTTCGTATCATAACAATCAAAATTTACATTTAGTGGATAAAAT
518229 GAAAGGAGTACAAAGTAAAATGACTCAGGGAGGGGTTTACCCACGTGCTAAAATACGCACCCCAC
196 GAAAGGAGTACAAAGTAAAATGACTCAGGGAGGGGTTTACCCACGTGCTAAAATACGCACCCCAC
518294 CCTCTCAAAATGACGTCGTATGACACGGGGTATATAACCCCGAAACCCATGACATTTTTGGCCTA
261 CCTCTCAAAATGACGTCGTATGACACGGGGTATATAACCCCGAAACCCATGACATTTTTGGCCTA
518359 AGTCCCCATTTCCCTCATTTTCGCCTCTTTCTCCTAAAGGGAAATCAGAA
326 AGTCCCCATTTCCCTCATTTTCGCCTCTTTCTCCTAAAGGGAAATCAGAA
518409 A
1 A
518410 ATTCTCAACT
Statistics
Matches: 373, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
373 313 0.84
374 13 0.03
375 47 0.13
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (375 bp):
AGGGCCTACACACACGAATATCACATGTTAATAAACAACTAATTGAGGATTAAAGAATATTAGAC
CCAAAATTTAAGGACCATAACAATTATTAAACCAAAGCTCCTCAGATCATGCATAGTAATTAAAA
TGTAAACATGAATAAACTTGAAGTTCGTATCATAACAATCAAAATTTACATTTAGTGGATAAAAT
GAAAGGAGTACAAAGTAAAATGACTCAGGGAGGGGTTTACCCACGTGCTAAAATACGCACCCCAC
CCTCTCAAAATGACGTCGTATGACACGGGGTATATAACCCCGAAACCCATGACATTTTTGGCCTA
AGTCCCCATTTCCCTCATTTTCGCCTCTTTCTCCTAAAGGGAAATCAGAA
Found at i:519405 original size:3 final size:3
Alignment explanation
Indices: 519397--519491 Score: 86
Period size: 3 Copynumber: 31.0 Consensus size: 3
519387 TATAACAATA
* * *
519397 AAT AAT AAT AAT AAT AAT AAT AAT ATT AAAT ATAT ATT AAT AAG AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT AA-T
* * *
519445 AAT ATT AAAT AAT AAT AAT AAT AAT AAT AA- AAT TA- AAT ATT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
519489 AAT
1 AAT
519492 GATATCCCGG
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
2 3 0.04
3 62 0.84
4 9 0.12
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:524983 original size:120 final size:120
Alignment explanation
Indices: 524770--525141 Score: 645
Period size: 120 Copynumber: 3.1 Consensus size: 120
524760 CAAATTATAT
* *
524770 AGTAGCTACAAATTAAACAGTTTATTTAAATCCTAAATAAAGGCAGCTAACAACCATATACAAGC
1 AGTAGCTACAAATTAAACAATTTATTTAAATCCTAAATAAAGGCAGCTAACAACCTTATACAAGC
*
524835 AATCCGAATGAACAACCAACAACACAAACAAGGACTACAGAGGAAACAAATCAAC
66 AATCCGAATGAACAACCAACAACACAAACAAGGACTATAGAGGAAACAAATCAAC
* *
524890 AGTAGCTACAAATTAAACAATTTATTTAAATCTTAAATAAAGACAGCTAACAACCTTATACAAGC
1 AGTAGCTACAAATTAAACAATTTATTTAAATCCTAAATAAAGGCAGCTAACAACCTTATACAAGC
524955 AATCCGAATGAACAACCAACAACACAAACAAGGACTATAGAGGAAACAAATCAAC
66 AATCCGAATGAACAACCAACAACACAAACAAGGACTATAGAGGAAACAAATCAAC
* * * * *
525010 AATAGCTACAAATTAAACAATTTATTTAAATCCTAAATAAAGGCAGCTAATAACCTTGTACTAGT
1 AGTAGCTACAAATTAAACAATTTATTTAAATCCTAAATAAAGGCAGCTAACAACCTTATACAAGC
*
525075 AATCCGAATGAACTACCAACAACACAAACAAGGACTATAGAGGAAACAAATCAAC
66 AATCCGAATGAACAACCAACAACACAAACAAGGACTATAGAGGAAACAAATCAAC
525130 AGTAGCTACAAA
1 AGTAGCTACAAA
525142 CTACAGTATA
Statistics
Matches: 238, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 238 1.00
ACGTcount: A:0.50, C:0.20, G:0.11, T:0.19
Consensus pattern (120 bp):
AGTAGCTACAAATTAAACAATTTATTTAAATCCTAAATAAAGGCAGCTAACAACCTTATACAAGC
AATCCGAATGAACAACCAACAACACAAACAAGGACTATAGAGGAAACAAATCAAC
Found at i:526245 original size:28 final size:29
Alignment explanation
Indices: 526213--526278 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
526203 TAATTTTTAT
526213 TAATTTACTAT-TTATAA-TAATATTAAAA
1 TAATTTA-TATATTATAATTAATATTAAAA
*
526241 TAA-TTATATATTATAATTAATATTAATA
1 TAATTTATATATTATAATTAATATTAAAA
*
526269 TAATTAATAT
1 TAATTTATAT
526279 TAATATTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 3 0.09
27 9 0.27
28 16 0.48
29 5 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
TAATTTATATATTATAATTAATATTAAAA
Found at i:526272 original size:15 final size:15
Alignment explanation
Indices: 526225--526284 Score: 81
Period size: 15 Copynumber: 4.2 Consensus size: 15
526215 ATTTACTATT
526225 TATAA-TAATATTAA
1 TATAATTAATATTAA
* *
526239 AATAATT-ATA-TAT
1 TATAATTAATATTAA
526252 TATAATTAATATTAA
1 TATAATTAATATTAA
526267 TATAATTAATATTAA
1 TATAATTAATATTAA
526282 TAT
1 TAT
526285 TAACTTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
13 8 0.21
14 10 0.26
15 21 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATTAATATTAA
Found at i:526337 original size:31 final size:30
Alignment explanation
Indices: 526277--526459 Score: 115
Period size: 31 Copynumber: 5.7 Consensus size: 30
526267 TATAATTAAT
*
526277 ATTAATATTAACT-TAAAATATAGTCTATAAA
1 ATTAATATTAA-TATAAACTATAGT-TATAAA
526308 ATTAATATTAATATAAACTATATGTTAT-AA
1 ATTAATATTAATATAAACTATA-GTTATAAA
* *
526338 ATTATATAGTATAGTTTATAAACTATAGTTAATATA
1 ATTA-ATA-T-TA--ATATAAACTATAGTT-ATAAA
* *
526374 ATTAATATTAATAT--AGTATATTTATAAA
1 ATTAATATTAATATAAACTATAGTTATAAA
*
526402 CTATATACTATATTAATATAAATTATAGTTA-AGATA
1 --AT-TA--ATATTAATATAAACTATAGTTATA-A-A
**
526438 ATTAACGTTAATATAAACTATA
1 ATTAATATTAATATAAACTATA
526460 TAGTACATTA
Statistics
Matches: 122, Mismatches: 12, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
28 4 0.03
29 7 0.06
30 9 0.07
31 45 0.37
32 3 0.02
33 16 0.13
34 7 0.06
35 25 0.20
36 6 0.05
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (30 bp):
ATTAATATTAATATAAACTATAGTTATAAA
Found at i:526390 original size:43 final size:39
Alignment explanation
Indices: 526341--526430 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 39
526331 GTTATAAATT
*
526341 ATATAGTATAGTTTATAAACTATAGTTAATATAATTAATATTA
1 ATATAGTATA-TTTATAAACTATA--TAATAT-ATTAATATAA
*
526384 ATATAGTATATTTATAAACTATATACTATATTAATATAA
1 ATATAGTATATTTATAAACTATATAATATATTAATATAA
526423 ATTATAGT
1 A-TATAGT
526431 TAAGATAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
39 10 0.23
40 11 0.25
42 13 0.30
43 10 0.23
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (39 bp):
ATATAGTATATTTATAAACTATATAATATATTAATATAA
Found at i:526428 original size:20 final size:20
Alignment explanation
Indices: 526374--526428 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
526364 AGTTAATATA
* *
526374 ATTAATATTAA-TATAGTAT
1 ATTAATATAAATTATACTAT
526393 ATT--TATAAACTATATACTAT
1 ATTAATATAAA-T-TATACTAT
526413 ATTAATATAAATTATA
1 ATTAATATAAATTATA
526429 GTTAAGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 5 0.17
19 3 0.10
20 14 0.48
21 1 0.03
22 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTAATATAAATTATACTAT
Found at i:526428 original size:22 final size:20
Alignment explanation
Indices: 526319--526415 Score: 70
Period size: 21 Copynumber: 4.7 Consensus size: 20
526309 TTAATATTAA
* *
526319 TATAAACTATATGTTATAAAT
1 TATATACTATAT-TTATAAAC
*
526340 TATATAGTATAGTTTATAAAC
1 TATATACTATA-TTTATAAAC
* * * *
526361 TATAGTTAATATAATTA-ATAT
1 TATA--TACTATATTTATAAAC
*
526382 TAATATAGTATATTTATAAAC
1 T-ATATACTATATTTATAAAC
526403 TATATACTATATT
1 TATATACTATATT
526416 AATATAAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
20 20 0.34
21 26 0.44
22 7 0.12
23 6 0.10
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (20 bp):
TATATACTATATTTATAAAC
Found at i:526432 original size:64 final size:65
Alignment explanation
Indices: 526281--526452 Score: 183
Period size: 64 Copynumber: 2.6 Consensus size: 65
526271 ATTAATATTA
* *
526281 ATATTAACT-TAAAATATAGTCT-ATAAAATTAATATTAATATAAACTATATGTTATAAATTATA
1 ATATTAA-TATAAAATATAGT-TAATATAATTAATATTAATAT--ACTATATGTTATAAACTATA
*
526344 TAGT
62 TACT
* *
526348 ATAGTT--TATAAACTATAGTTAATATAATTAATATTAATATAGTATAT-TTATAAACTATATAC
1 ATA-TTAATATAAAATATAGTTAATATAATTAATATTAATATACTATATGTTATAAACTATATAC
526410 T
65 T
* * **
526411 ATATTAATATAAATTATAGTTAAGATAATTAACGTTAATATA
1 ATATTAATATAAAATATAGTTAATATAATTAATATTAATATA
526453 AACTATATAG
Statistics
Matches: 91, Mismatches: 9, Indels: 13
0.81 0.08 0.12
Matches are distributed among these distances:
62 2 0.02
63 17 0.19
64 37 0.41
65 2 0.02
66 28 0.31
67 3 0.03
68 2 0.02
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (65 bp):
ATATTAATATAAAATATAGTTAATATAATTAATATTAATATACTATATGTTATAAACTATATACT
Found at i:526470 original size:22 final size:22
Alignment explanation
Indices: 526445--526544 Score: 91
Period size: 22 Copynumber: 4.6 Consensus size: 22
526435 ATAATTAACG
526445 TTAATATAAACTATATAGTACA
1 TTAATATAAACTATATAGTACA
**
526467 TTAATATAAAC--TATAGTTTA
1 TTAATATAAACTATATAGTACA
* * *
526487 TAAATTATATACTATA-AGT-TA
1 TTAA-TATAAACTATATAGTACA
*
526508 TAAAGTATAAACTATATAGTACA
1 TTAA-TATAAACTATATAGTACA
*
526531 CTAATATAAACTAT
1 TTAATATAAACTAT
526545 TGATTATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
20 10 0.16
21 22 0.34
22 27 0.42
23 5 0.08
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (22 bp):
TTAATATAAACTATATAGTACA
Found at i:526500 original size:21 final size:20
Alignment explanation
Indices: 526471--526523 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
526461 AGTACATTAA
*
526471 TATAAACTATAGTTTATAAAT
1 TATAAACTATAG-TTATAAAG
*
526492 TATATACTATAAGTTATAAAG
1 TATAAACTAT-AGTTATAAAG
526513 TATAAACTATA
1 TATAAACTATA
526524 TAGTACACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.89
22 2 0.07
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (20 bp):
TATAAACTATAGTTATAAAG
Found at i:526588 original size:22 final size:23
Alignment explanation
Indices: 526563--526653 Score: 60
Period size: 22 Copynumber: 4.3 Consensus size: 23
526553 AACTATAGGT
526563 TACATATATAGTTTATATA-ACA
1 TACATATATAGTTTATATATACA
526585 TACA-A-ATAGATTGTATATATACA
1 TACATATATAG-TT-TATATATACA
*
526608 T--ATACTATAG-GT-TATAT--A
1 TACATA-TATAGTTTATATATACA
526626 T--ATATATAGTTTATATATACTA
1 TACATATATAGTTTATATATAC-A
526648 TACATA
1 TACATA
526654 GTTTATACAT
Statistics
Matches: 54, Mismatches: 2, Indels: 24
0.68 0.03 0.30
Matches are distributed among these distances:
17 5 0.09
18 6 0.11
19 5 0.09
20 9 0.17
21 5 0.09
22 13 0.24
23 4 0.07
24 7 0.13
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.42
Consensus pattern (23 bp):
TACATATATAGTTTATATATACA
Found at i:526625 original size:20 final size:20
Alignment explanation
Indices: 526600--526680 Score: 62
Period size: 20 Copynumber: 4.1 Consensus size: 20
526590 ATAGATTGTA
526600 TATATACATATACTATAGGT
1 TATATACATATACTATAGGT
*
526620 TATAT--ATATA-TATAGTT
1 TATATACATATACTATAGGT
* *
526637 TATATATACTATAC-ATAGTT
1 TATATACA-TATACTATAGGT
* *
526657 TATACATACATGTACTATAAGT
1 TAT--ATACATATACTATAGGT
526679 TA
1 TA
526681 CATATATAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
17 11 0.22
18 5 0.10
19 1 0.02
20 18 0.37
21 4 0.08
22 10 0.20
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (20 bp):
TATATACATATACTATAGGT
Found at i:526631 original size:15 final size:15
Alignment explanation
Indices: 526607--526649 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 15
526597 GTATATATAC
526607 ATATACTATAGGTTATAT
1 ATATA-TATA-GTT-TAT
526625 ATATATATAGTTTAT
1 ATATATATAGTTTAT
526640 ATATACTATA
1 ATATA-TATA
526650 CATAGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.33
16 7 0.29
17 4 0.17
18 5 0.21
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (15 bp):
ATATATATAGTTTAT
Found at i:526673 original size:59 final size:60
Alignment explanation
Indices: 526566--526688 Score: 162
Period size: 59 Copynumber: 2.0 Consensus size: 60
526556 TATAGGTTAC
* * *
526566 ATATATAGTTTATATAACATACAAATAGATTGTATATATACATATACTATAGGTTATATAT
1 ATATATAGTTTATATAACATAC-AATAGATTGTATACATACATATACTATAAGTTACATAT
*
526627 ATATATAGTTTATATATACTATAC-ATAG-TT-TATACATACATGTACTATAAGTTACATAT
1 ATATATAGTTTATATA-AC-ATACAATAGATTGTATACATACATATACTATAAGTTACATAT
526686 ATA
1 ATA
526689 GTTTACATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
59 28 0.50
60 2 0.04
61 20 0.36
62 2 0.04
63 4 0.07
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.41
Consensus pattern (60 bp):
ATATATAGTTTATATAACATACAATAGATTGTATACATACATATACTATAAGTTACATAT
Found at i:526691 original size:35 final size:36
Alignment explanation
Indices: 526651--526724 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
526641 TATACTATAC
*
526651 ATAGTTT-ATACATACATGTACTATAAGTTACATAT
1 ATAGTTTAATACATACATATACTATAAGTTACATAT
** *
526686 ATAGTTTACATGTATACATATACTATAGGTTACATAT
1 ATAGTTTA-ATACATACATATACTATAAGTTACATAT
526723 AT
1 AT
526725 TAACTATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 7 0.21
37 26 0.79
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (36 bp):
ATAGTTTAATACATACATATACTATAAGTTACATAT
Found at i:527133 original size:2 final size:2
Alignment explanation
Indices: 527126--527213 Score: 85
Period size: 2 Copynumber: 45.0 Consensus size: 2
527116 TATTTCTTTA
* *
527126 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T CT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
527167 AT -T ACT -T AT AT -T AT TT AT AC AC AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
527207 ACT AT AT
1 A-T AT AT
527214 TAATACAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
1 4 0.05
2 66 0.90
3 3 0.04
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:527233 original size:49 final size:52
Alignment explanation
Indices: 527136--527243 Score: 127
Period size: 53 Copynumber: 2.1 Consensus size: 52
527126 ATATATATAT
* * * *
527136 ATATATATATATATATATATATATTCTATAGATTACTTATATTATTTATACAC
1 ATATATATATATATATATATATATTCAATACA-TAATTATATTATTTATAAAC
527189 ATATATATATATATATATACTATATT-AATACA-AATTATA-T-TTTATAAAC
1 ATATATATATATATATATA-TATATTCAATACATAATTATATTATTTATAAAC
527238 -TATATA
1 ATATATA
527244 CTTTTTATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
48 6 0.12
49 8 0.16
50 1 0.02
51 6 0.12
53 23 0.46
54 6 0.12
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.47
Consensus pattern (52 bp):
ATATATATATATATATATATATATTCAATACATAATTATATTATTTATAAAC
Done.