Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 115 of 230
Found at i:33411511 original size:20 final size:20
Alignment explanation
Indices: 33411488--33411534 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
33411478 GGGTTAAGAT
*
33411488 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
33411508 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
33411528 TGAGCTG
1 TGAGCTG
33411535 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:33416039 original size:20 final size:20
Alignment explanation
Indices: 33416016--33416069 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33416006 AGTTTTTCCC
*
33416016 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33416036 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33416056 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33416070 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33416051 original size:30 final size:30
Alignment explanation
Indices: 33416016--33416089 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33416006 AGTTTTTCCC
33416016 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33416046 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33416076 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33416090 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33416079 original size:20 final size:20
Alignment explanation
Indices: 33416016--33416080 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33416006 AGTTTTTCCC
* * * *
33416016 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33416036 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33416055 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33416076 AGCTC
1 AGCTC
33416081 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33422017 original size:22 final size:22
Alignment explanation
Indices: 33421989--33422032 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33421979 TTTTGAACCA
33421989 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
33422011 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
33422033 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:33429914 original size:20 final size:20
Alignment explanation
Indices: 33429891--33429937 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33429881 GGGTTAAGAT
*
33429891 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33429911 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33429931 TGAGCTG
1 TGAGCTG
33429938 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33430489 original size:27 final size:28
Alignment explanation
Indices: 33430453--33430519 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
33430443 AATAGTGAGA
*
33430453 GAAAATGAAAATGA-A-GAAAAGAAAATT
1 GAAAAAGAAAATGAGATGAAAA-AAAATT
* *
33430480 GAAAAAGAAATTGAGATTGAGAAAAAATT
1 GAAAAAGAAAATGAGA-TGAAAAAAAATT
33430509 GAAAAAGAAAA
1 GAAAAAGAAAA
33430520 AGATGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 12 0.36
28 1 0.03
29 16 0.48
30 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.15
Consensus pattern (28 bp):
GAAAAAGAAAATGAGATGAAAAAAAATT
Found at i:33430509 original size:17 final size:18
Alignment explanation
Indices: 33430477--33430510 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33430467 AGAAAAGAAA
33430477 ATTGAAAAAGAAATTGAG
1 ATTGAAAAAGAAATTGAG
*
33430495 ATTGAGAAA-AAATTGA
1 ATTGAAAAAGAAATTGA
33430511 AAAAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (18 bp):
ATTGAAAAAGAAATTGAG
Found at i:33430528 original size:29 final size:30
Alignment explanation
Indices: 33430474--33430537 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
33430464 TGAAGAAAAG
**
33430474 AAAATTGAAAAAGAAATTGAGATTG-AGAA
1 AAAATTGAAAAAGAAAAAGAGATTGAAGAA
33430503 AAAATTGAAAAAGAAAAAGATG-TTGAAGAA
1 AAAATTGAAAAAGAAAAAGA-GATTGAAGAA
*
33430533 GAAAT
1 AAAAT
33430538 GAGAGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.19
Consensus pattern (30 bp):
AAAATTGAAAAAGAAAAAGAGATTGAAGAA
Found at i:33435962 original size:15 final size:15
Alignment explanation
Indices: 33435930--33435963 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33435920 GTTCAACGAA
*
33435930 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
33435945 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
33435960 GAGG
1 GAGG
33435964 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:33440830 original size:20 final size:20
Alignment explanation
Indices: 33440807--33440854 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33440797 TCCCAACTCG
*
33440807 ATTTAGCTCACATGAGCTTA
1 ATTTAGCTCACATGAGCTCA
***
33440827 ATTTAGCTCGTTTGAGCTCA
1 ATTTAGCTCACATGAGCTCA
33440847 ATTTAGCT
1 ATTTAGCT
33440855 TACTTTAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTTAGCTCACATGAGCTCA
Found at i:33440846 original size:30 final size:30
Alignment explanation
Indices: 33440803--33440874 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
33440793 TTTTTCCCAA
33440803 CTCGATTT-AGCTCACA-TGAGCTTAATTTAG
1 CTCG-TTTGAGCTCA-ATTGAGCTTAATTTAG
* *
33440833 CTCGTTTGAGCTCAATTTAGCTTACTTTAG
1 CTCGTTTGAGCTCAATTGAGCTTAATTTAG
33440863 CTCGTTTGAGCT
1 CTCGTTTGAGCT
33440875 TGGCTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (30 bp):
CTCGTTTGAGCTCAATTGAGCTTAATTTAG
Found at i:33442024 original size:34 final size:33
Alignment explanation
Indices: 33441960--33442025 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
33441950 TTAAAGATGT
* *
33441960 TGTTCTACATGCATGGAACGGCAATTAATGAGA
1 TGTTCCACATGCATGGAACGACAATTAATGAGA
*
33441993 TGTTCCACATGCAATGG-ACGACATTTAAATGAG
1 TGTTCCACATGC-ATGGAACGACAATT-AATGAG
33442026 GGAGAGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
TGTTCCACATGCATGGAACGACAATTAATGAGA
Found at i:33445042 original size:30 final size:30
Alignment explanation
Indices: 33445008--33445104 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
33444998 TAAACTAAAA
*
33445008 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
33445038 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
33445068 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
33445097 ATGAGCTA
1 -TGAGCTA
33445105 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:33447300 original size:12 final size:12
Alignment explanation
Indices: 33447285--33447315 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33447275 TTCTTTTTGC
33447285 TTTTCAAAGGCT
1 TTTTCAAAGGCT
33447297 TTTTCAAAGGCT
1 TTTTCAAAGGCT
33447309 TTTTCAA
1 TTTTCAA
33447316 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:33447392 original size:6 final size:6
Alignment explanation
Indices: 33447376--33447425 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
33447366 TTTCTTTTTA
*
33447376 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
33447425 T
1 T
33447426 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:33447408 original size:37 final size:37
Alignment explanation
Indices: 33447365--33447435 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
33447355 CTTGCCTCTC
33447365 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
33447402 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
33447436 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:33447436 original size:16 final size:16
Alignment explanation
Indices: 33447361--33447421 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
33447351 GCCTCTTGCC
*
33447361 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
33447377 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
33447393 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
33447409 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
33447422 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:33448367 original size:12 final size:13
Alignment explanation
Indices: 33448344--33448371 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33448334 AAAAAAAAAA
33448344 TTTTGAATTTTTT
1 TTTTGAATTTTTT
33448357 TTTTGAATTTTTT
1 TTTTGAATTTTTT
33448370 TT
1 TT
33448372 CAAATTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTGAATTTTTT
Found at i:33450121 original size:30 final size:30
Alignment explanation
Indices: 33450087--33450183 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
33450077 TAAACTAAAA
*
33450087 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
33450117 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
33450147 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
33450176 ATGAGCTA
1 -TGAGCTA
33450184 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:33451041 original size:17 final size:17
Alignment explanation
Indices: 33451004--33451043 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
33450994 AAATCAAAAG
* **
33451004 AAAAGAAAAAGAGATTG
1 AAAAGAAAAAGAAATCA
33451021 AAAAGAAAAAGAAATCA
1 AAAAGAAAAAGAAATCA
33451038 AAAAGA
1 AAAAGA
33451044 GAGTGAGGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAAGAAATCA
Found at i:33453281 original size:34 final size:33
Alignment explanation
Indices: 33453217--33453282 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
33453207 TTAAAGATGT
* *
33453217 TGTTCTACATGCATGGAACGGCAATTAATGAGA
1 TGTTCCACATGCATGGAACGACAATTAATGAGA
*
33453250 TGTTCCACATGCAATGG-ACGACATTTAAATGAG
1 TGTTCCACATGC-ATGGAACGACAATT-AATGAG
33453283 GGAGAGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
TGTTCCACATGCATGGAACGACAATTAATGAGA
Found at i:33460987 original size:29 final size:29
Alignment explanation
Indices: 33460953--33461025 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
33460943 TTAGATATTA
* *
33460953 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
33460982 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
33461011 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
33461026 ACTAATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:33463749 original size:30 final size:30
Alignment explanation
Indices: 33463715--33463811 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
33463705 AGCTCACTCC
*
33463715 TAGCTCATA-TTTAGCTCATGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
33463745 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
33463775 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
33463805 TAGCTCA
1 TAGCTCA
33463812 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:33465556 original size:13 final size:12
Alignment explanation
Indices: 33465538--33465575 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
33465528 AAAGGAGAAG
33465538 AAATTCAGAAAAA
1 AAATTC-GAAAAA
33465551 AAATTC-AAAAA
1 AAATTCGAAAAA
33465562 AAA-TCGAAAAA
1 AAATTCGAAAAA
33465573 AAA
1 AAA
33465576 GGAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 16 0.67
13 6 0.25
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (12 bp):
AAATTCGAAAAA
Found at i:33465562 original size:10 final size:11
Alignment explanation
Indices: 33465545--33465585 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
33465535 AAGAAATTCA
33465545 GAAAAAAAATTC
1 GAAAAAAAA-TC
33465557 -AAAAAAAATC
1 GAAAAAAAATC
*
33465567 GAAAAAAAA-G
1 GAAAAAAAATC
33465577 GAAAAAAAA
1 GAAAAAAAA
33465586 GTGACAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 11 0.41
11 16 0.59
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (11 bp):
GAAAAAAAATC
Found at i:33465582 original size:22 final size:23
Alignment explanation
Indices: 33465523--33465585 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
33465513 ATTGGATTTA
* * *
33465523 AAAAAAAAGGAGAAGAAATTCAG
1 AAAAAAAAGGAAAAAAAAATCAG
***
33465546 AAAAAAAATTCAAAAAAAATC-G
1 AAAAAAAAGGAAAAAAAAATCAG
33465568 AAAAAAAAGGAAAAAAAA
1 AAAAAAAAGGAAAAAAAA
33465586 GTGACAAAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.75, C:0.05, G:0.13, T:0.08
Consensus pattern (23 bp):
AAAAAAAAGGAAAAAAAAATCAG
Found at i:33466565 original size:37 final size:37
Alignment explanation
Indices: 33466514--33466584 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
33466504 CATTCTTGTA
33466514 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
33466551 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
33466585 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:33466584 original size:6 final size:6
Alignment explanation
Indices: 33466524--33466573 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
33466514 AAGAGAAAAC
*
33466524 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
33466573 A
1 A
33466574 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:33466666 original size:11 final size:12
Alignment explanation
Indices: 33466634--33466664 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33466624 TTGAGAGAAC
33466634 TTGAAAAAGCCT
1 TTGAAAAAGCCT
33466646 TTGAAAAAGCCT
1 TTGAAAAAGCCT
33466658 TTGAAAA
1 TTGAAAA
33466665 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:33468874 original size:30 final size:30
Alignment explanation
Indices: 33468840--33468936 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
33468830 GAGCTCACCC
*
33468840 TAGCTCATA-TTTAGCTCATGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
33468870 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
33468900 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
33468930 TAGCTCA
1 TAGCTCA
33468937 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:33471276 original size:21 final size:21
Alignment explanation
Indices: 33471250--33471312 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
33471240 TTGGTATTTG
*
33471250 GGAATTGGTACGAATTGTTAT
1 GGAATTGGTACGAATTGGTAT
* *
33471271 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAATTGGTAT
*
33471292 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAATTGGTA
33471313 ATGGTTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 20 0.57
22 15 0.43
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.37
Consensus pattern (21 bp):
GGAATTGGTACGAATTGGTAT
Found at i:33471277 original size:11 final size:11
Alignment explanation
Indices: 33471250--33471312 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 11
33471240 TTGGTATTTG
33471250 GGAATTGGTA-
1 GGAATTGGTAT
* *
33471260 CGAATTGTTAT
1 GGAATTGGTAT
33471271 GGAATTGGTAT
1 GGAATTGGTAT
*
33471282 -GAAATGGTAT
1 GGAATTGGTAT
*
33471292 GGTATTTGGTA-
1 GG-AATTGGTAT
*
33471303 CGAATTGGTA
1 GGAATTGGTA
33471313 ATGGTTCAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
10 24 0.59
11 11 0.27
12 6 0.15
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.37
Consensus pattern (11 bp):
GGAATTGGTAT
Found at i:33471301 original size:22 final size:23
Alignment explanation
Indices: 33471254--33471317 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
33471244 TATTTGGGAA
* * *
33471254 TTGGTACG-AATTGTTATGG-AA
1 TTGGTACGAAATGGTAATGGTAT
*
33471275 TTGGTATGAAATGGT-ATGGTAT
1 TTGGTACGAAATGGTAATGGTAT
*
33471297 TTGGTACGAATTGGTAATGGT
1 TTGGTACGAAATGGTAATGGT
33471318 TCAAAGAGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 11 0.31
22 19 0.54
23 5 0.14
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.39
Consensus pattern (23 bp):
TTGGTACGAAATGGTAATGGTAT
Found at i:33477086 original size:18 final size:18
Alignment explanation
Indices: 33477065--33477099 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33477055 TTTTTCTTTT
33477065 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
33477083 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
33477100 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:33492601 original size:25 final size:25
Alignment explanation
Indices: 33492573--33492648 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
33492563 AAACCCCCTT
33492573 TATTTTTATTAAAGAAATAAAATTA
1 TATTTTTATTAAAGAAATAAAATTA
33492598 TATTTTTATTAAAGAAATAAAATTA
1 TATTTTTATTAAAGAAATAAAATTA
33492623 TATTTTTATTAAAGAAATAAAATTA
1 TATTTTTATTAAAGAAATAAAATTA
33492648 T
1 T
33492649 CATTGCTCTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TATTTTTATTAAAGAAATAAAATTA
Found at i:33495755 original size:19 final size:19
Alignment explanation
Indices: 33495731--33495774 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
33495721 TCTCTACTTT
*
33495731 TCGTTTTATCGCTTTTCTC
1 TCGTTTTATCACTTTTCTC
*
33495750 TCGTTTTATCATTTTTCTC
1 TCGTTTTATCACTTTTCTC
33495769 TC-TTTT
1 TCGTTTT
33495775 TGAGGTCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.64
Consensus pattern (19 bp):
TCGTTTTATCACTTTTCTC
Found at i:33497055 original size:27 final size:27
Alignment explanation
Indices: 33497014--33497073 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
33497004 GTACCTAGTC
33497014 CCCCTAGTTGATAAAATGACTATTATG
1 CCCCTAGTTGATAAAATGACTATTATG
*
33497041 CCCCTAGTTGGTAAAATGACTATTATG
1 CCCCTAGTTGATAAAATGACTATTATG
33497068 CCCCTA
1 CCCCTA
33497074 TGAGATGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (27 bp):
CCCCTAGTTGATAAAATGACTATTATG
Found at i:33504598 original size:26 final size:26
Alignment explanation
Indices: 33504502--33504591 Score: 139
Period size: 26 Copynumber: 3.5 Consensus size: 26
33504492 GTGCCTAGAC
*
33504502 CCCCTAGTTGATAAAATGACTA-TTATG
1 CCCCTAG-TGAGAAAATGAC-AGTTATG
33504529 CCCCTAGTGAGAAAATGACAGTTATG
1 CCCCTAGTGAGAAAATGACAGTTATG
33504555 CCCCTAGTGAGAAAATGACAGTTATG
1 CCCCTAGTGAGAAAATGACAGTTATG
33504581 CCCCTA-TGAGA
1 CCCCTAGTGAGA
33504592 TGTATGATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
25 6 0.10
26 48 0.79
27 7 0.11
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (26 bp):
CCCCTAGTGAGAAAATGACAGTTATG
Found at i:33508328 original size:24 final size:24
Alignment explanation
Indices: 33508289--33508378 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 24
33508279 TACCGATATA
* *
33508289 TCAGCTCATAAGAGCTTACTATTT
1 TCAGCTCGTAAAAGCTTACTATTT
** *
33508313 TCAGCTCGTTGAAGCTTACT-GTT
1 TCAGCTCGTAAAAGCTTACTATTT
*
33508336 TCAGCTCATAAAAGCTTACTATTT
1 TCAGCTCGTAAAAGCTTACTATTT
* *
33508360 TTAGCTCGTAAGAGCTTAC
1 TCAGCTCGTAAAAGCTTAC
33508379 CGTTTCAGCT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 19 0.36
24 34 0.64
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (24 bp):
TCAGCTCGTAAAAGCTTACTATTT
Found at i:33508341 original size:23 final size:24
Alignment explanation
Indices: 33508301--33508389 Score: 85
Period size: 23 Copynumber: 3.8 Consensus size: 24
33508291 AGCTCATAAG
* *
33508301 AGCTTACTATTTTCAGCTCGTTGA
1 AGCTTACTAGTTTCAGCTCGTTAA
* *
33508325 AGCTTACT-GTTTCAGCTCATAAA
1 AGCTTACTAGTTTCAGCTCGTTAA
* *
33508348 AGCTTACTATTTTTAGCTCG-TAA
1 AGCTTACTAGTTTCAGCTCGTTAA
*
33508371 GAGCTTAC-CGTTTCAGCTC
1 -AGCTTACTAGTTTCAGCTC
33508390 AATAGAGCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
23 29 0.56
24 23 0.44
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (24 bp):
AGCTTACTAGTTTCAGCTCGTTAA
Found at i:33508399 original size:47 final size:47
Alignment explanation
Indices: 33508264--33508402 Score: 167
Period size: 47 Copynumber: 2.9 Consensus size: 47
33508254 GGACTCACCG
33508264 CAGCTCG-AACGAGCTTACCGATATATCAGCTCATAAGAGCTTACTATTTT
1 CAGCTCGTAA-GAGCTTACCG-T-T-TCAGCTCATAAGAGCTTACTATTTT
* * *
33508314 CAGCTCGT-TGAAGCTTACTGTTTCAGCTCATAAAAGCTTACTATTTT
1 CAGCTCGTAAG-AGCTTACCGTTTCAGCTCATAAGAGCTTACTATTTT
*
33508361 TAGCTCGTAAGAGCTTACCGTTTCAGCTCA-ATAGAGCTTACT
1 CAGCTCGTAAGAGCTTACCGTTTCAGCTCATA-AGAGCTTACT
33508403 GTTCATAGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
46 1 0.01
47 58 0.74
48 2 0.03
49 2 0.03
50 15 0.19
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (47 bp):
CAGCTCGTAAGAGCTTACCGTTTCAGCTCATAAGAGCTTACTATTTT
Found at i:33508420 original size:47 final size:47
Alignment explanation
Indices: 33508325--33508421 Score: 115
Period size: 47 Copynumber: 2.1 Consensus size: 47
33508315 AGCTCGTTGA
* ** * *
33508325 AGCTTACTGTTTCAGCTCATAAAAGCTTACTATTTTTAGCTCGTAAG
1 AGCTTACCGTTTCAGCTCATAAAAGCTTACTATTCATAGCTAGAAAG
* *
33508372 AGCTTACCGTTTCAGCTCA-ATAGAGCTTACTGTTCATAGCTAGAAAG
1 AGCTTACCGTTTCAGCTCATA-AAAGCTTACTATTCATAGCTAGAAAG
33508419 AGC
1 AGC
33508422 GGAAAATGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 1 0.02
47 41 0.98
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (47 bp):
AGCTTACCGTTTCAGCTCATAAAAGCTTACTATTCATAGCTAGAAAG
Found at i:33510464 original size:79 final size:80
Alignment explanation
Indices: 33510371--33510522 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 80
33510361 AGCCCGGTTA
* * *
33510371 TAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTC
33510434 GGG-CTTAGCGTGGAAT
64 GGGACTTAGCGTGGAAT
* ** * *
33510450 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
33510515 GACTTAGC
66 GACTTAGC
33510523 CCGGACATCA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
78 3 0.05
79 45 0.73
80 14 0.23
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCGTGGAAT
Found at i:33510527 original size:40 final size:40
Alignment explanation
Indices: 33510324--33510527 Score: 204
Period size: 40 Copynumber: 5.1 Consensus size: 40
33510314 CAAAATTTAA
**
33510324 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGA-TATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACT-TAGC
* * *
33510364 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33510404 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** * *
33510443 GTGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33510483 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33510523 CCGGA
1 CCGGA
33510528 CATCATTCAA
Statistics
Matches: 135, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 89 0.66
41 13 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33512754 original size:76 final size:76
Alignment explanation
Indices: 33512663--33512817 Score: 265
Period size: 76 Copynumber: 2.0 Consensus size: 76
33512653 ATTAACAATC
*
33512663 AAAGTACATGTATATACGCACACATAATTATCAAATTTTCAAAAATGTATATAATGCTCATGGTG
1 AAAGTACATGTATATACGCACACATAATTATCAAATTTTCAAAAATGCATATAATGCTCATGGTG
33512728 TACTATTACAT
66 TACTATTACAT
* * * *
33512739 AAAGTACATGTATATATGTACACATAATTATCAATTTTTCAAAAATGCATATAATGGTCATGGTG
1 AAAGTACATGTATATACGCACACATAATTATCAAATTTTCAAAAATGCATATAATGCTCATGGTG
33512804 TACTATTACAT
66 TACTATTACAT
33512815 AAA
1 AAA
33512818 ATCACTATTC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (76 bp):
AAAGTACATGTATATACGCACACATAATTATCAAATTTTCAAAAATGCATATAATGCTCATGGTG
TACTATTACAT
Found at i:33514845 original size:20 final size:20
Alignment explanation
Indices: 33514822--33514879 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
33514812 TAAACATGGT
33514822 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
33514842 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
33514862 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
33514880 GTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:33514862 original size:11 final size:11
Alignment explanation
Indices: 33514826--33514879 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
33514816 CATGGTATGT
33514826 ATGATATGCAC
1 ATGATATGCAC
* *
33514837 ATGACATG--T
1 ATGATATGCAC
33514846 ATGATATGCAC
1 ATGATATGCAC
*
33514857 ATGATATG--T
1 ATGATATGCAC
33514866 ATGATATGCAC
1 ATGATATGCAC
33514877 ATG
1 ATG
33514880 GTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:33514960 original size:25 final size:25
Alignment explanation
Indices: 33514932--33515060 Score: 158
Period size: 25 Copynumber: 5.2 Consensus size: 25
33514922 AGGAAGTGTA
*
33514932 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
33514957 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
33514982 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
33515006 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
33515029 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
33515057 AAAG
1 AAAG
33515061 CAGCTATGCT
Statistics
Matches: 94, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.20
24 15 0.16
25 51 0.54
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:33519052 original size:93 final size:93
Alignment explanation
Indices: 33518941--33519111 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
33518931 GCCCCTAAGT
* * *
33518941 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
33519006 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
33519034 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
33519099 CGAGTTTGGATGC
66 CGAGTTCGGATGC
33519112 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:33519101 original size:46 final size:46
Alignment explanation
Indices: 33518936--33519102 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
33518926 AACTCGCCCC
* * *
33518936 TAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCA
* * * *
33518982 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCA
* *
33519030 TCA-CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCA
*
33519075 TAAGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCAGACTCAACTCAACGAG
33519103 TTTGGATGCT
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 51 0.53
47 27 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCA
Found at i:33523972 original size:30 final size:30
Alignment explanation
Indices: 33523928--33524016 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
33523918 CAAAGATAAC
*
33523928 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
33523957 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
33523987 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
33524017 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:33523976 original size:15 final size:14
Alignment explanation
Indices: 33523928--33524010 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
33523918 CAAAGATAAC
*
33523928 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
33523942 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
33523957 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
33523972 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
33523987 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
33524002 AAGAAACCC
1 AAGAAACCC
33524011 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:33524016 original size:15 final size:15
Alignment explanation
Indices: 33523939--33524016 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
33523929 AGAAAACCGA
33523939 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
33523954 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
33523968 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
33523983 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
33523999 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
33524014 ATA
1 ATA
33524017 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:33527061 original size:46 final size:46
Alignment explanation
Indices: 33526960--33527047 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
33526950 TGTAACCCGC
* * * *
33526960 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
33527006 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
33527048 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:33534753 original size:93 final size:93
Alignment explanation
Indices: 33534636--33534806 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
33534626 GCCCCTAAGT
* * * *
33534636 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTTAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
33534701 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
33534729 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
33534794 CGAGTTCGGATGC
66 CGAGTTCGGATGC
33534807 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:33534795 original size:46 final size:46
Alignment explanation
Indices: 33534631--33534803 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
33534621 AACCCGCCCC
* * *
33534631 TAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCA
* * * *
33534677 TAAATGAACTTAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCA
* * *
33534725 TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCA
* *
33534770 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
33534804 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCA
Found at i:33534822 original size:46 final size:45
Alignment explanation
Indices: 33534729--33534814 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
33534719 TACATCTCAC
* *
33534729 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGA-ATGCGCAACCATAAGT
* *
33534775 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGCTCGGAATGCGCAACCAT
33534815 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGAATGCGCAACCATAAGT
Found at i:33541629 original size:37 final size:37
Alignment explanation
Indices: 33541570--33541642 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
33541560 ATTACGAAGT
* * *
33541570 CTTACCCAGACATAATCTCCACACGAAGTTATCGGGC
1 CTTACCCAGACAAAATCCCCACACGAAGTCATCGGGC
* *
33541607 CTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 CTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
33541643 TCTTTAGAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (37 bp):
CTTACCCAGACAAAATCCCCACACGAAGTCATCGGGC
Found at i:33541844 original size:47 final size:47
Alignment explanation
Indices: 33541765--33542357 Score: 935
Period size: 47 Copynumber: 12.7 Consensus size: 47
33541755 CCCTTCGGGA
* * * * *
33541765 CTTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGC
* *
33541812 CCTGTCACATATATACACTTTCACATTCATCACAT---CC---A-G-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33541851 C-TAT--CA-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33541894 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33541941 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33541988 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33542037 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33542086 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33542135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33542182 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33542229 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33542276 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33542323 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
33542358 AGAATCCTAA
Statistics
Matches: 522, Mismatches: 8, Indels: 32
0.93 0.01 0.06
Matches are distributed among these distances:
35 25 0.05
36 2 0.00
38 4 0.01
39 1 0.00
40 1 0.00
41 1 0.00
42 1 0.00
43 1 0.00
44 5 0.01
46 3 0.01
47 331 0.63
48 2 0.00
49 145 0.28
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33541879 original size:82 final size:82
Alignment explanation
Indices: 33541776--33541929 Score: 238
Period size: 82 Copynumber: 1.9 Consensus size: 82
33541766 TTATCACATT
* * * *
33541776 TATACACTTTCACATCTATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCTATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCA
33541841 TCACATCCAGCTATCAA
66 TCACATCCAGCTATCAA
* *
33541858 TATACACTTTCACAT-TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 TATACACTTTCACATCT-ATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTC
33541922 ATCACATC
65 ATCACATC
33541930 GGCCATTAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 1 0.02
82 64 0.98
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (82 bp):
TATACACTTTCACATCTATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCA
TCACATCCAGCTATCAA
Found at i:33545451 original size:20 final size:20
Alignment explanation
Indices: 33545391--33545451 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
33545381 ATAAACAGGG
*
33545391 TATGTATGATATGCGCATGA
1 TATGTATGATATGCACATGA
*
33545411 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
33545431 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
33545451 T
1 T
33545452 GTATTCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:33545563 original size:23 final size:24
Alignment explanation
Indices: 33545500--33545582 Score: 132
Period size: 25 Copynumber: 3.4 Consensus size: 24
33545490 GGAGGAAGTG
33545500 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
33545524 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
33545549 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
33545572 TAAAAGAGGCT
1 TAAAAG-GGCT
33545583 AGGCCTCTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 18 0.33
24 14 0.25
25 23 0.42
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:33545595 original size:48 final size:49
Alignment explanation
Indices: 33545500--33545596 Score: 128
Period size: 48 Copynumber: 2.0 Consensus size: 49
33545490 GGAGGAAGTG
*
33545500 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTAT
* *
33545549 TAAAAGGGCTT-TGCCCCAGTTATTA-AAAGAGGC-TAGGCCTCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC-CCAGTTAT
33545597 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 9 0.21
48 23 0.53
49 11 0.26
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTAT
Found at i:33547305 original size:35 final size:34
Alignment explanation
Indices: 33547266--33547353 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 34
33547256 AATATGCACA
*
33547266 TTCAAAATAACTTTACATAAAACCAAATATAT-AAG
1 TTCAATATAA-TTTACATAAAACCAAATA-ATCAAG
* ** * *
33547301 TTCAATATAATTCACATGTAATCGAATAATCAAG
1 TTCAATATAATTTACATAAAACCAAATAATCAAG
33547335 TTCAATATAAGTTTACATA
1 TTCAATATAA-TTTACATA
33547354 TACTTACCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
33 2 0.05
34 26 0.60
35 15 0.35
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.33
Consensus pattern (34 bp):
TTCAATATAATTTACATAAAACCAAATAATCAAG
Found at i:33555276 original size:27 final size:27
Alignment explanation
Indices: 33555246--33555423 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
33555236 ATATTGAGCC
* *
33555246 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
33555273 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
33555300 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
33555328 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
33555355 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
33555382 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
33555409 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33555424 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33562519 original size:40 final size:40
Alignment explanation
Indices: 33562419--33562683 Score: 277
Period size: 40 Copynumber: 6.7 Consensus size: 40
33562409 GCTCCTCGTT
* * * *
33562419 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
33562459 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
33562498 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
33562538 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
33562578 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
33562618 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33562659 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33562684 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 24, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
39 38 0.19
40 142 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33562692 original size:41 final size:41
Alignment explanation
Indices: 33562615--33562692 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
33562605 TTTGTATCTC
* * *
33562615 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
33562656 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
33562693 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:33566486 original size:27 final size:27
Alignment explanation
Indices: 33566456--33566629 Score: 170
Period size: 27 Copynumber: 6.4 Consensus size: 27
33566446 ATATTGAGCC
* *
33566456 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
33566483 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
33566510 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
33566538 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
33566565 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
33566592 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
33566619 CGCACACTTAG
1 CGCACACTTAG
33566630 GGTGCGTTTG
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33566667 original size:16 final size:16
Alignment explanation
Indices: 33566646--33566713 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
33566636 TTTGGTTCGC
33566646 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
33566662 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
33566678 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33566694 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33566710 TGTA
1 TGTA
33566714 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:33566970 original size:18 final size:17
Alignment explanation
Indices: 33566949--33566983 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33566939 TTATTATTAA
*
33566949 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
33566967 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33566984 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:33567037 original size:157 final size:157
Alignment explanation
Indices: 33566836--33567120 Score: 525
Period size: 157 Copynumber: 1.8 Consensus size: 157
33566826 TAGAATACCC
33566836 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
33566901 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
33566966 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
33566993 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
33567058 ATATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
33567121 TAAGGAACCA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 123 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (157 bp):
TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:33567119 original size:15 final size:16
Alignment explanation
Indices: 33567086--33567120 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33567076 TTAATCATAT
*
33567086 TTAAATATAATTATTA
1 TTAAATATAATTATAA
33567102 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
33567117 TTAA
1 TTAA
33567121 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:33570357 original size:28 final size:28
Alignment explanation
Indices: 33570326--33570380 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
33570316 GCAAATCGGT
*
33570326 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
33570354 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
33570381 AGCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:33574166 original size:32 final size:32
Alignment explanation
Indices: 33574125--33574203 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
33574115 TGATATTGAA
*
33574125 ATGGGCTAGGCCCAACTGATACTAG-TTCTGAT
1 ATGGGCTAGGCCCAACTGATA-TAGATTCTGAG
*
33574157 ATGGGCTAGGCCCAACTGATATTGATTCTGAG
1 ATGGGCTAGGCCCAACTGATATAGATTCTGAG
*
33574189 ATAGGCTAGGCCCAA
1 ATGGGCTAGGCCCAA
33574204 TTAAGACTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 2 0.05
32 41 0.95
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATATAGATTCTGAG
Found at i:33576155 original size:33 final size:33
Alignment explanation
Indices: 33576118--33576186 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
33576108 ATGATTAAAG
33576118 TAAAACTTACCATATATACACAATTTAAGCAAT
1 TAAAACTTACCATATATACACAATTTAAGCAAT
*
33576151 TAAAACTTACCGTATATACACAATTTAAGCAAT
1 TAAAACTTACCATATATACACAATTTAAGCAAT
33576184 TAA
1 TAA
33576187 CATGTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (33 bp):
TAAAACTTACCATATATACACAATTTAAGCAAT
Found at i:33580168 original size:27 final size:27
Alignment explanation
Indices: 33580131--33580333 Score: 192
Period size: 27 Copynumber: 7.6 Consensus size: 27
33580121 ACATAGGCGT
* * * *
33580131 AAAATAGTCATATTACCATAAAAGGGC
1 AAAATAATCATTTTACCACATAAGGGC
*
33580158 AAAATAATCATTTTACCACATAAGGGT
1 AAAATAATCATTTTACCACATAAGGGC
* **
33580185 AAAACAATCATTTTACCTTATAAGGGC
1 AAAATAATCATTTTACCACATAAGGGC
* * * *
33580212 AAAACAGTCA-TTTCCCCCATAAGGGC
1 AAAATAATCATTTTACCACATAAGGGC
* *
33580238 AAAATAATCATTTTACCTCATAAGAGC
1 AAAATAATCATTTTACCACATAAGGGC
* * *
33580265 AAAACAGTCATTTTACCTCATAAGGGC
1 AAAATAATCATTTTACCACATAAGGGC
* * * * *
33580292 AAAACAGTCATTTTACCTCATAATGGA
1 AAAATAATCATTTTACCACATAAGGGC
*
33580319 AAAATAGTCATTTTA
1 AAAATAATCATTTTA
33580334 TTGATTAAGG
Statistics
Matches: 151, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 21 0.14
27 130 0.86
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (27 bp):
AAAATAATCATTTTACCACATAAGGGC
Found at i:33580187 original size:54 final size:53
Alignment explanation
Indices: 33580138--33580333 Score: 223
Period size: 54 Copynumber: 3.6 Consensus size: 53
33580128 CGTAAAATAG
* * * * *
33580138 TCATATTACCATAAAAGGGCAAAATAATCATTTTACCACATAAGGGTAAAACAA
1 TCATTTTACC-TATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAA
* * *
33580192 TCATTTTACCTTATAAGGGCAAAACAGTCA-TTTCCCCCATAAGGGCAAAATAA
1 TCATTTTACC-TATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAA
* * *
33580245 TCATTTTACCTCATAAGAGCAAAACAGTCATTTTACCTCATAAGGGCAAAACAG
1 TCATTTTACCT-ATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAA
* * *
33580299 TCATTTTACCTCATAATGGAAAAATAGTCATTTTA
1 TCATTTTACCT-ATAAGGGCAAAACAGTCATTTTA
33580334 TTGATTAAGG
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
52 1 0.01
53 46 0.38
54 75 0.61
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (53 bp):
TCATTTTACCTATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAA
Found at i:33580242 original size:80 final size:81
Alignment explanation
Indices: 33580152--33580333 Score: 267
Period size: 80 Copynumber: 2.3 Consensus size: 81
33580142 ATTACCATAA
* * *
33580152 AAGGGCAAAATAATCATTTTACCACATAAGGGTAAAACAATCATTTTACCTTATAAGGGCAAAAC
1 AAGGGCAAAATAATCATTTTACCACATAAGAGCAAAACAATCATTTTACCTCATAAGGGCAAAAC
*
33580217 AGTCA-TTTCCCCCAT
66 AGTCATTTTACCCCAT
* *
33580232 AAGGGCAAAATAATCATTTTACCTCATAAGAGCAAAACAGTCATTTTACCTCATAAGGGCAAAAC
1 AAGGGCAAAATAATCATTTTACCACATAAGAGCAAAACAATCATTTTACCTCATAAGGGCAAAAC
*
33580297 AGTCATTTTACCTCAT
66 AGTCATTTTACCCCAT
* * *
33580313 AATGGAAAAATAGTCATTTTA
1 AAGGGCAAAATAATCATTTTA
33580334 TTGATTAAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 65 0.71
81 26 0.29
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (81 bp):
AAGGGCAAAATAATCATTTTACCACATAAGAGCAAAACAATCATTTTACCTCATAAGGGCAAAAC
AGTCATTTTACCCCAT
Found at i:33582081 original size:9 final size:10
Alignment explanation
Indices: 33582042--33582088 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
33582032 GGGGCTGTTC
33582042 TGGGCCTCAA
1 TGGGCCTCAA
33582052 TGGGCCTCGAA
1 TGGGCCTC-AA
*
33582063 -GGGCC-AAA
1 TGGGCCTCAA
33582071 TGGGCCT-AA
1 TGGGCCTCAA
33582080 TGGGCCTCA
1 TGGGCCTCA
33582089 GGGACCGCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
8 2 0.06
9 14 0.44
10 14 0.44
11 2 0.06
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.17
Consensus pattern (10 bp):
TGGGCCTCAA
Found at i:33582570 original size:7 final size:7
Alignment explanation
Indices: 33582558--33582591 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
33582548 AATAGACATG
33582558 GCCGTGT
1 GCCGTGT
33582565 GCCGTG-
1 GCCGTGT
33582571 GCCGTGT
1 GCCGTGT
33582578 GCCGTG-
1 GCCGTGT
33582584 GCCGTGT
1 GCCGTGT
33582591 G
1 G
33582592 ATACTTAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.00, C:0.29, G:0.47, T:0.24
Consensus pattern (7 bp):
GCCGTGT
Found at i:33582572 original size:13 final size:13
Alignment explanation
Indices: 33582556--33582591 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
33582546 CCAATAGACA
33582556 TGGCCGTGTGCCG
1 TGGCCGTGTGCCG
33582569 TGGCCGTGTGCCG
1 TGGCCGTGTGCCG
33582582 TGGCCGTGTG
1 TGGCCGTGTG
33582592 ATACTTAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.00, C:0.28, G:0.47, T:0.25
Consensus pattern (13 bp):
TGGCCGTGTGCCG
Found at i:33582576 original size:6 final size:6
Alignment explanation
Indices: 33582556--33582589 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
33582546 CCAATAGACA
33582556 TGGCCG TGTGCCG TGGCCG TGTGCCG TGGCCG TG
1 TGGCCG TG-GCCG TGGCCG TG-GCCG TGGCCG TG
33582590 TGATACTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.00, C:0.29, G:0.47, T:0.24
Consensus pattern (6 bp):
TGGCCG
Found at i:33583654 original size:44 final size:43
Alignment explanation
Indices: 33583527--33583678 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 43
33583517 TCCCGGACGT
* * * * * *
33583527 GGTCTTACATGTAAT-TCAGTATCGATGCTTCTGTCCCAGACAG
1 GGTCTTACATGAAATCTCA-AATCGAGGCCTATGTCCCAGACAC
* ** *
33583570 GGTCTTACATGAAA--T-AAGATACGATGCCTATGTCTTAGACAT
1 GGTCTTACATGAAATCTCAA-AT-CGAGGCCTATGTCCCAGACAC
*
33583612 GGTCTTACACGTAAATCTCAAATCGAGGCCTATGTCCCAGACAC
1 GGTCTTACATG-AAATCTCAAATCGAGGCCTATGTCCCAGACAC
* *
33583656 GGTGTTACATGATATCTCAAATC
1 GGTCTTACATGAAATCTCAAATC
33583679 AACGTCAAAG
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 3 0.03
42 27 0.31
43 27 0.31
44 26 0.30
45 3 0.03
46 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGAAATCTCAAATCGAGGCCTATGTCCCAGACAC
Found at i:33587830 original size:22 final size:22
Alignment explanation
Indices: 33587802--33587847 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
33587792 CACGACTGTG
*
33587802 CAACATAGCTATGTGTCATACA
1 CAACATAGCTATGTGTCACACA
*
33587824 CAACATAGCTGTGTGTCACACA
1 CAACATAGCTATGTGTCACACA
33587846 CA
1 CA
33587848 GTTGAGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (22 bp):
CAACATAGCTATGTGTCACACA
Found at i:33606482 original size:49 final size:49
Alignment explanation
Indices: 33606410--33606508 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
33606400 ATAAGGCTCA
33606410 GGCCCAGTCTGTTACTGTATGTTGTATACCAATTGACTGATAGGGGGTT
1 GGCCCAGTCTGTTACTGTATGTTGTATACCAATTGACTGATAGGGGGTT
33606459 GGCCCAGTCTGTTACTGTATGTTGTATACCAATTGACTGATAGGGGGTT
1 GGCCCAGTCTGTTACTGTATGTTGTATACCAATTGACTGATAGGGGGTT
33606508 G
1 G
33606509 TACACTGAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.34
Consensus pattern (49 bp):
GGCCCAGTCTGTTACTGTATGTTGTATACCAATTGACTGATAGGGGGTT
Found at i:33609478 original size:19 final size:20
Alignment explanation
Indices: 33609454--33609491 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33609444 AAGGTTAAAA
*
33609454 TAGTAAAA-AGTAAAATAAT
1 TAGTAAAATAATAAAATAAT
33609473 TAGTAAAATAATAAAATAA
1 TAGTAAAATAATAAAATAA
33609492 ACATGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (20 bp):
TAGTAAAATAATAAAATAAT
Found at i:33615507 original size:27 final size:27
Alignment explanation
Indices: 33615477--33615536 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
33615467 CAAATTGTAA
*
33615477 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTACAG
****
33615504 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
33615531 AATTAC
1 AATTAC
33615537 TGTTTTACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:33615541 original size:27 final size:27
Alignment explanation
Indices: 33615488--33615581 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
33615478 ATTACCAAAG
* *
33615488 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
33615515 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
** *
33615542 TACCCTTAATTTACAAAATTA-T-TTT
1 TACCCTCGATTTACAGAATTACTGTTT
33615567 TACCCTCGATTTACA
1 TACCCTCGATTTACA
33615582 AATACTAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 16 0.27
26 1 0.02
27 43 0.72
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:33615704 original size:25 final size:25
Alignment explanation
Indices: 33615662--33615787 Score: 105
Period size: 25 Copynumber: 4.9 Consensus size: 25
33615652 ATACCATTGT
**
33615662 TTGTAAAATTACTGAAATACCCTCAA
1 TTGTAAAATTACCAAAATACCCT-AA
* *
33615688 TTGT-AAATTATCAAAATACCCTAGT
1 TTGTAAAATTACCAAAATACCCTA-A
**
33615713 TTGTAAAATTA-CAAAATACCACTGG
1 TTGTAAAATTACCAAAATACC-CTAA
*
33615738 TT-TATGAAATTACCGAAATACCCTTAA
1 TTGTA--AAATTACCAAAATACCC-TAA
33615765 TTTGTAAAATTACCAAAATACCC
1 -TTGTAAAATTACCAAAATACCC
33615788 CTATTTACAA
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
24 3 0.04
25 30 0.37
26 19 0.23
27 25 0.31
28 2 0.02
29 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (25 bp):
TTGTAAAATTACCAAAATACCCTAA
Found at i:33615749 original size:77 final size:79
Alignment explanation
Indices: 33615637--33615787 Score: 209
Period size: 77 Copynumber: 1.9 Consensus size: 79
33615627 CAAAATATAC
* * * * *
33615637 TGTAAAATTGCTAAAATACCATTGTTTGTAAAATTACTGAAATACCCTCAA-TTGT-AAATTATC
1 TGTAAAATTACTAAAATACCATGGTTTATAAAATTACCGAAATACCCTCAATTTGTAAAATTACC
33615700 AAAATACCCTAGTT
66 AAAATACCCTAGTT
* *
33615714 TGTAAAATTAC-AAAATACCACTGGTTTATGAAATTACCGAAATACCCTTAATTTGTAAAATTAC
1 TGTAAAATTACTAAAATACCA-TGGTTTATAAAATTACCGAAATACCCTCAATTTGTAAAATTAC
33615778 CAAAATACCC
65 CAAAATACCC
33615788 CTATTTACAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
76 9 0.14
77 35 0.55
78 4 0.06
79 16 0.25
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (79 bp):
TGTAAAATTACTAAAATACCATGGTTTATAAAATTACCGAAATACCCTCAATTTGTAAAATTACC
AAAATACCCTAGTT
Found at i:33615774 original size:27 final size:26
Alignment explanation
Indices: 33615637--33615787 Score: 128
Period size: 26 Copynumber: 5.8 Consensus size: 26
33615627 CAAAATATAC
* * * **
33615637 TGTAAAATTGCTAAAATACCATTGTT
1 TGTAAAATTACCAAAATACCCTAATT
**
33615663 TGTAAAATTACTGAAATACCCTCAA-T
1 TGTAAAATTACCAAAATACCCT-AATT
* *
33615689 TGT-AAATTATCAAAATACCCTAGTT
1 TGTAAAATTACCAAAATACCCTAATT
**
33615714 TGTAAAATTA-CAAAATACCACTGGTT
1 TGTAAAATTACCAAAATACC-CTAATT
* * *
33615740 TATGAAATTACCGAAATACCCTTAATT
1 TGTAAAATTACCAAAATACCC-TAATT
33615767 TGTAAAATTACCAAAATACCC
1 TGTAAAATTACCAAAATACCC
33615788 CTATTTACAA
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.01
25 28 0.28
26 43 0.43
27 29 0.29
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (26 bp):
TGTAAAATTACCAAAATACCCTAATT
Found at i:33615864 original size:28 final size:28
Alignment explanation
Indices: 33615824--33615877 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
33615814 TGACTTTCTA
33615824 AAAATTATGGAAATACCATTGGTTTAAC
1 AAAATTATGGAAATACCATTGGTTTAAC
*
33615852 AAAATTACT-GAAATACCCTTGGTTTA
1 AAAATTA-TGGAAATACCATTGGTTTA
33615878 TAGATTTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (28 bp):
AAAATTATGGAAATACCATTGGTTTAAC
Found at i:33615960 original size:27 final size:27
Alignment explanation
Indices: 33615930--33616017 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
33615920 ACCCCTATTA
33615930 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
* *
33615957 GGTAAAGAGACCGTAAAGCCCCTATAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** *
33615984 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
33616011 GGTAAAA
1 GGTAAAA
33616018 TGACGAATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:33616021 original size:27 final size:27
Alignment explanation
Indices: 33615921--33616021 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 27
33615911 GACTAAAATA
*
33615921 CCCCTATTA-GGTAAAAAGACCGTAAAG
1 CCCCTA-TAGGGTAAAATGACCGTAAAG
*
33615948 CCCCTGTAGGGTAAAGA-GACCGTAAAG
1 CCCCTATAGGGTAAA-ATGACCGTAAAG
*
33615975 CCCCTATAGGGTAAAGTGACCGTAATA-
1 CCCCTATAGGGTAAAATGACCGTAA-AG
* *
33616002 CCCCTGTATGGTAAAATGAC
1 CCCCTATAGGGTAAAATGAC
33616022 GAATGTGCCC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.03
27 60 0.94
28 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CCCCTATAGGGTAAAATGACCGTAAAG
Found at i:33616888 original size:25 final size:26
Alignment explanation
Indices: 33616817--33616912 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
33616807 GAGGAAGTGC
*
33616817 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
33616843 AAAAGGGCTTATGCCTCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
33616869 AAAAGGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
33616894 -AAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
33616913 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
24 19 0.28
25 14 0.21
26 34 0.51
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:33616925 original size:24 final size:25
Alignment explanation
Indices: 33616817--33616925 Score: 134
Period size: 26 Copynumber: 4.4 Consensus size: 25
33616807 GAGGAAGTGC
33616817 AAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
* *
33616842 GAAAAGGGCTTATGCCTCAGTTTATCG
1 -AAAAGGGCTTATGCCCCAGTTTAT-T
*
33616869 AAAAGGGCTT-TGCCCCAGTTTATC
1 AAAAGGGCTTATGCCCCAGTTTATT
*
33616893 GAAAGGGCTT-TGCCCCAG-TTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
33616916 AAAAGAGGCT
1 AAAAG-GGCT
33616926 AGGCCTCAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 8 0.11
24 21 0.28
25 12 0.16
26 33 0.45
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:33617205 original size:31 final size:31
Alignment explanation
Indices: 33617128--33617240 Score: 144
Period size: 31 Copynumber: 3.7 Consensus size: 31
33617118 CGTTTACAGT
*
33617128 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33617159 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* ** *
33617190 AAAGGCTTCAGCCCAGT-A-ACCATTAAATG-
1 AAAGGCTTCGGCCCAGTGATATGATT-TATGA
33617219 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33617241 TCAAGACTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
29 21 0.29
30 5 0.07
31 46 0.64
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33618400 original size:54 final size:53
Alignment explanation
Indices: 33618321--33618479 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 53
33618311 ACATACATCA
* * * * * *
33618321 CATAGGGGTAAAACAATCATCTTACCATAAAAGAACAAAATAGTAATTTTACCT
1 CATAAGGGCAAAACAATCATTTTACCACAAAAG-GCAAAACAGTAATTTTACCT
* * * * *
33618375 TATAAGGGCAAAACAATAATTTTACCACATAAAGGCAAAACATTCATTTCACCT
1 CATAAGGGCAAAACAATCATTTTACCACA-AAAGGCAAAACAGTAATTTTACCT
*
33618429 CATAAGGGCAAAACAATCATTTTACCACAAAAGGGCAAAACAGTTATTTTA
1 CATAAGGGCAAAACAATCATTTTACCACAAAA-GGCAAAACAGTAATTTTA
33618480 TCGATTAAGG
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 3 0.03
54 80 0.92
55 4 0.05
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (53 bp):
CATAAGGGCAAAACAATCATTTTACCACAAAAGGCAAAACAGTAATTTTACCT
Found at i:33618406 original size:27 final size:27
Alignment explanation
Indices: 33618319--33618479 Score: 142
Period size: 27 Copynumber: 6.0 Consensus size: 27
33618309 AAACATACAT
* * *
33618319 CACATAGGGGTAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * ** * * *
33618346 CATAAAAGAACAAAATAGTAATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
** *
33618373 CTTATAAGGGCAAAACAATAATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * *
33618400 CACATAAAGGCAAAACATTCATTTCAC
1 CACATAAGGGCAAAACAATCATTTTAC
*
33618427 CTCATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * *
33618454 CACAAAAGGGCAAAACAGTTATTTTA
1 CACATAAGGGCAAAACAATCATTTTA
33618480 TCGATTAAGG
Statistics
Matches: 104, Mismatches: 30, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAC
Found at i:33625175 original size:30 final size:30
Alignment explanation
Indices: 33625108--33625176 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
33625098 ATGAATCGGA
*
33625108 AGCTTTGGCACTAAGTGTGCGATTTAAATT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
**
33625138 AATTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAAACT
33625168 AGCTTTGGC
1 AGCTTTGGC
33625177 TACTGGAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTGCGATTTAAACT
Found at i:33631159 original size:27 final size:26
Alignment explanation
Indices: 33631115--33631166 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
33631105 CTCGCTGCAA
*
33631115 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
33631142 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
33631167 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:33638267 original size:40 final size:40
Alignment explanation
Indices: 33638223--33638352 Score: 233
Period size: 40 Copynumber: 3.2 Consensus size: 40
33638213 ATAACCACAA
* *
33638223 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33638263 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
33638303 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33638343 GCACAAATGC
1 GCACAAATGC
33638353 TCATGCACAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:33646610 original size:40 final size:40
Alignment explanation
Indices: 33646566--33646735 Score: 331
Period size: 40 Copynumber: 4.2 Consensus size: 40
33646556 ATAACCACAA
*
33646566 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33646606 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33646646 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33646686 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33646726 GCACAAATGC
1 GCACAAATGC
33646736 TCATGCACAT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:33657789 original size:40 final size:40
Alignment explanation
Indices: 33657734--33657819 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
33657724 TTATTTGATG
*
33657734 TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
1 TGGAATTGTATCCGGGCCTAAAGACCCGCAAGCTTCGTGC
* *
33657774 TGGAATTGTATCCGGGCCTAAAGATCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCCTAAAGACCCGCAAGCTTCGTGC
33657814 TGGAAT
1 TGGAAT
33657820 GACATCCGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCCTAAAGACCCGCAAGCTTCGTGC
Found at i:33657827 original size:40 final size:40
Alignment explanation
Indices: 33657734--33657829 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
33657724 TTATTTGATG
* *
33657734 TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
1 TGGAATTGCATCCGGGCCTAAAGACCCGCAAGCTTCGTGC
* * *
33657774 TGGAATTGTATCCGGGCCTAAAGATCCGCAGGCTTCGTGC
1 TGGAATTGCATCCGGGCCTAAAGACCCGCAAGCTTCGTGC
33657814 TGGAA-TGACATCCGGG
1 TGGAATTG-CATCCGGG
33657830 TTAAAAACCT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.04
40 49 0.96
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
TGGAATTGCATCCGGGCCTAAAGACCCGCAAGCTTCGTGC
Found at i:33659371 original size:31 final size:31
Alignment explanation
Indices: 33659330--33659393 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33659320 CCTTTTCATA
*
33659330 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
33659361 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
33659392 TT
1 TT
33659394 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:33659639 original size:24 final size:24
Alignment explanation
Indices: 33659587--33659776 Score: 251
Period size: 24 Copynumber: 8.0 Consensus size: 24
33659577 GCTTTATCAT
*
33659587 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
33659612 ATAACTGGGGCAAAATCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
33659636 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* **
33659659 ATAACTGGGGCGTAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
33659683 ATAACTGGGGCATAGGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33659707 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
33659731 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33659754 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33659777 TCACTTCCTC
Statistics
Matches: 147, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
23 43 0.29
24 93 0.63
25 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33659663 original size:47 final size:48
Alignment explanation
Indices: 33659586--33659777 Score: 264
Period size: 47 Copynumber: 4.0 Consensus size: 48
33659576 TGCTTTATCA
* * *
33659586 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAATCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
* *
33659635 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTC
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
33659682 GATAACTGGGGCATAGGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
33659730 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
33659777 T
1 T
33659778 CACTTCCTCC
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
47 67 0.52
48 48 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:33659690 original size:71 final size:71
Alignment explanation
Indices: 33659608--33659777 Score: 261
Period size: 71 Copynumber: 2.4 Consensus size: 71
33659598 CCTAGCCTCT
* * *
33659608 TTTAATAACTGGGGCAAAATCCCTTTTTATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGT
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
33659672 AAGCCC
66 AAGCCC
* * * *
33659678 TTTCGATAACTGGGGCATAGGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCA
1 TTT-AATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA
33659743 TAAGCCC
65 TAAGCCC
33659750 TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
33659778 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 3 0.03
71 61 0.69
72 24 0.27
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (71 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT
AAGCCC
Found at i:33659714 original size:95 final size:96
Alignment explanation
Indices: 33659587--33659775 Score: 301
Period size: 95 Copynumber: 2.0 Consensus size: 96
33659577 GCTTTATCAT
* * *
33659587 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAATCCCTTTTTATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
*
33659652 CCCTTTAATAACTGGGGCGTAAGCCCTTTCG
66 CCCTTTAATAACTGGGGCATAAGCCCTTTCG
* *
33659683 ATAACTGG-GGCATAGGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
1 ATAACTGGAGGCATA-GCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
33659746 GCCCTTTAATAACTGGGGCATAAGCCCTTT
65 GCCCTTTAATAACTGGGGCATAAGCCCTTT
33659776 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
95 75 0.87
96 11 0.13
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (96 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
CCCTTTAATAACTGGGGCATAAGCCCTTTCG
Found at i:33659851 original size:20 final size:20
Alignment explanation
Indices: 33659826--33659891 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
33659816 TTATGAATAC
33659826 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
33659846 ATCATGTGCATATCAT--AT
1 ATCATGTGCATATCATACAT
33659864 AGTCATGTGCATATCATACAT
1 A-TCATGTGCATATCATACAT
*
33659885 ACCATGT
1 ATCATGT
33659892 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
18 3 0.07
19 15 0.36
20 21 0.50
21 3 0.07
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:33659857 original size:11 final size:11
Alignment explanation
Indices: 33659826--33659880 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
33659816 TTATGAATAC
33659826 ATCATGTGCAT
1 ATCATGTGCAT
*
33659837 ATCA--TACAT
1 ATCATGTGCAT
33659846 ATCATGTGCAT
1 ATCATGTGCAT
33659857 ATCA--T--AT
1 ATCATGTGCAT
33659864 AGTCATGTGCAT
1 A-TCATGTGCAT
33659876 ATCAT
1 ATCAT
33659881 ACATACCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
7 3 0.09
8 3 0.09
9 9 0.26
10 1 0.03
11 16 0.46
12 3 0.09
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:33659871 original size:19 final size:18
Alignment explanation
Indices: 33659826--33659881 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 18
33659816 TTATGAATAC
33659826 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCAT--AT
33659846 ATCATGTGCATATCATAT
1 ATCATGTGCATATCATAT
33659864 AGTCATGTGCATATCATA
1 A-TCATGTGCATATCATA
33659882 CATACCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 3 0.09
19 16 0.46
20 16 0.46
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (18 bp):
ATCATGTGCATATCATAT
Found at i:33659960 original size:25 final size:25
Alignment explanation
Indices: 33659928--33659975 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33659918 ATACATAAAC
* * *
33659928 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
33659953 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
33659976 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:33661190 original size:27 final size:27
Alignment explanation
Indices: 33661128--33661192 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
33661118 GGGCATATTC
*
33661128 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* * *
33661155 GTCACTTTACCCTACAGGGGCCTTACG
1 GTCATTTTACCATACAGGGGCATTACG
*
33661182 GTCTTTTTACC
1 GTCATTTTACC
33661193 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACG
Found at i:33661276 original size:27 final size:27
Alignment explanation
Indices: 33661243--33661461 Score: 186
Period size: 27 Copynumber: 8.0 Consensus size: 27
33661233 TTGGTAAATC
*
33661243 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
** * **
33661270 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAACCAAGGGTATTTCGGTAA-TTT
* * * *
33661298 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-CCAAGGGTATTTCGGTAATTT
** * * *
33661326 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
*** *
33661353 TACAAATTGAGTGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
* *
33661380 CACAAACCAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
* * *
33661407 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
**
33661434 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTCGGTAATTT
33661461 T
1 T
33661462 GTAAATTGAG
Statistics
Matches: 154, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
27 126 0.82
28 13 0.08
29 15 0.10
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCGGTAATTT
Found at i:33661450 original size:81 final size:81
Alignment explanation
Indices: 33661223--33661460 Score: 205
Period size: 81 Copynumber: 2.9 Consensus size: 81
33661213 TTTCATCCTA
** * * * ** ** *
33661223 CAAGGGTGCTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * *
33661288 CTA-TAATTTTTAGAAAGT
65 C-AGTAA-TTTCACAAAGC
* *** *
33661306 CAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAGTGTAT
1 CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
*
33661369 TTCGGTAATTTCACAAA-C
63 TTCAGTAATTTCACAAAGC
33661387 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
33661452 TAGTAATTT
65 CAGTAATTT
33661461 TGTAAATTGA
Statistics
Matches: 122, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
79 2 0.02
80 7 0.06
81 55 0.45
82 7 0.06
83 45 0.37
84 4 0.03
85 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC
AGTAATTTCACAAAGC
Found at i:33661483 original size:27 final size:27
Alignment explanation
Indices: 33661453--33661583 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
33661443 AGGGTATTTT
* * *
33661453 AGTAATTTTGTAAATTGAGGTTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAAC
* *
33661480 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAAC
*
33661507 AGTAATTATGTAAATCGAGGTTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAAC
* * *
33661534 GGTAATTATGTAAATCGGGGGTAAAAT
1 AGTAATTATGTAAATCGAGGGTAAAAC
* * *
33661561 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTATGTAAATCGAGGGTA
33661584 CTTTGGTAAT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
AGTAATTATGTAAATCGAGGGTAAAAC
Found at i:33661485 original size:54 final size:54
Alignment explanation
Indices: 33661427--33661540 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
33661417 GGGTATTTTG
* **** * *
33661427 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGTTAAAACA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTATGTAAATCGAGGTTAAAACA
** * *
33661481 GTAATTCTGTAAATCAAGGGTAAAACAGTAATTATGTAAATCGAGGTTAAAACG
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTATGTAAATCGAGGTTAAAACA
33661535 GTAATT
1 GTAATT
33661541 ATGTAAATCG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (54 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTATGTAAATCGAGGTTAAAACA
Done.