Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 56 of 93
Found at i:21406089 original size:38 final size:39
Alignment explanation
Indices: 21406036--21406144 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 39
21406026 TAATATCCTT
* * * *
21406036 ATGTGCACTCTCACACTGCATATGGCATAT-TAATCATC
1 ATGTGCTCTCCCACACCGCACATGGCATATATAATCATC
* *
21406074 ATGTGCTCTCCCACACCGCACATAGCATATATCATCATC
1 ATGTGCTCTCCCACACCGCACATGGCATATATAATCATC
21406113 ATGTGCTCTCCCACACCGCACATGGCATATAT
1 ATGTGCTCTCCCACACCGCACATGGCATATAT
21406145 CATTGGCGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 25 0.40
39 38 0.60
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.28
Consensus pattern (39 bp):
ATGTGCTCTCCCACACCGCACATGGCATATATAATCATC
Found at i:21406119 original size:39 final size:39
Alignment explanation
Indices: 21405998--21406147 Score: 155
Period size: 39 Copynumber: 3.9 Consensus size: 39
21405988 TCAACTCAGC
** * *
21405998 TCATGTGCACTCCCACACAACACATAAC-TA-AT-ATCC
1 TCATGTGCACTCCCACACCGCACATAGCATATATCATCA
* * * * * *
21406034 TTATGTGCACTCTCACACTGCATATGGCATAT-TAATCA
1 TCATGTGCACTCCCACACCGCACATAGCATATATCATCA
*
21406072 TCATGTGCTCTCCCACACCGCACATAGCATATATCATCA
1 TCATGTGCACTCCCACACCGCACATAGCATATATCATCA
* *
21406111 TCATGTGCTCTCCCACACCGCACATGGCATATATCAT
1 TCATGTGCACTCCCACACCGCACATAGCATATATCAT
21406148 TGGCGTCTGC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
36 21 0.22
37 3 0.03
38 29 0.31
39 41 0.44
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (39 bp):
TCATGTGCACTCCCACACCGCACATAGCATATATCATCA
Found at i:21406159 original size:39 final size:39
Alignment explanation
Indices: 21406060--21406173 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 39
21406050 ACTGCATATG
* * *
21406060 GCATAT-TAATCATCATGTGCTCTCCCACACCGCACATA
1 GCATATATCATCAGCATCTGCTCTCCCACACCGCACATA
* * *
21406098 GCATATATCATCATCATGTGCTCTCCCACACCGCACATG
1 GCATATATCATCAGCATCTGCTCTCCCACACCGCACATA
** * *
21406137 GCATATATCATTGGCGTCTGCTCTCCCACACCACACA
1 GCATATATCATCAGCATCTGCTCTCCCACACCGCACA
21406174 CTACTAGCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 6 0.09
39 61 0.91
ACGTcount: A:0.26, C:0.36, G:0.12, T:0.25
Consensus pattern (39 bp):
GCATATATCATCAGCATCTGCTCTCCCACACCGCACATA
Found at i:21407341 original size:20 final size:20
Alignment explanation
Indices: 21407311--21407357 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21407301 CCTTCTAGCT
21407311 TTTCTCTTCCTTT-TTCCTTTC
1 TTTC-CTTCCTTTCTT-CTTTC
21407332 TTTCCTTCCTTTCTTCTTTC
1 TTTCCTTCCTTTCTTCTTTC
21407352 -TTCCTT
1 TTTCCTT
21407358 TCTCTCTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.24
20 13 0.52
21 6 0.24
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTCCTTCCTTTCTTCTTTC
Found at i:21407356 original size:15 final size:16
Alignment explanation
Indices: 21407329--21407360 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21407319 CCTTTTTCCT
21407329 TTCTTTCCTTCCTTTC
1 TTCTTTCCTTCCTTTC
21407345 TTCTTT-CTTCCTTTC
1 TTCTTTCCTTCCTTTC
21407360 T
1 T
21407361 CTCTCCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (16 bp):
TTCTTTCCTTCCTTTC
Found at i:21411465 original size:41 final size:41
Alignment explanation
Indices: 21411401--21411487 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
21411391 TTTACACCGA
* *
21411401 GCTAGGGGTGTTTATACTACCATTTGGGTGATAATTGATTG
1 GCTAAGGGTGTCTATACTACCATTTGGGTGATAATTGATTG
*
21411442 GCTAAGGGTGTCTATACTGCCATTTGGGTGATAATTGATTG
1 GCTAAGGGTGTCTATACTACCATTTGGGTGATAATTGATTG
21411483 GCTAA
1 GCTAA
21411488 CTAAGTCAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (41 bp):
GCTAAGGGTGTCTATACTACCATTTGGGTGATAATTGATTG
Found at i:21413376 original size:43 final size:42
Alignment explanation
Indices: 21413243--21413377 Score: 159
Period size: 42 Copynumber: 3.2 Consensus size: 42
21413233 TTTTATTTGA
*
21413243 TAATCATGACCTAGCTATGT-GCA-TGTGGGAGTGCACATGAGC
1 TAATGATGACCTAGCTATGTCG-AGTG-GGGAGTGCACATGAGC
* *
21413285 TAATGATGATCTAGCTATGTCTG-GTGTGGAGTGCACATGAGC
1 TAATGATGACCTAGCTATGTC-GAGTGGGGAGTGCACATGAGC
* *
21413327 TAATGATGACCCAGCTATGTACGAGTGGGGAGTGCACATGAGT
1 TAATGATGACCTAGCTATGT-CGAGTGGGGAGTGCACATGAGC
*
21413370 TGATGATG
1 TAATGATG
21413378 GTGGGATGGT
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
42 52 0.65
43 27 0.34
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (42 bp):
TAATGATGACCTAGCTATGTCGAGTGGGGAGTGCACATGAGC
Found at i:21413915 original size:19 final size:19
Alignment explanation
Indices: 21413891--21413930 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
21413881 GGGTTTTAGA
21413891 GAGAAACCCTCGGCCAATT
1 GAGAAACCCTCGGCCAATT
* *
21413910 GAGAAACCCTTGTCCAATT
1 GAGAAACCCTCGGCCAATT
21413929 GA
1 GA
21413931 TAATTTGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (19 bp):
GAGAAACCCTCGGCCAATT
Found at i:21419665 original size:16 final size:17
Alignment explanation
Indices: 21419629--21419668 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21419619 AGTTTGTTAG
*
21419629 TTTATTTAGTGTTGATT
1 TTTAATTAGTGTTGATT
*
21419646 TTTAATTAGTTTTG-TT
1 TTTAATTAGTGTTGATT
21419662 TTTAATT
1 TTTAATT
21419669 TTGGATTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (17 bp):
TTTAATTAGTGTTGATT
Found at i:21427326 original size:50 final size:50
Alignment explanation
Indices: 21427264--21427367 Score: 181
Period size: 50 Copynumber: 2.1 Consensus size: 50
21427254 CCACCAAACT
* *
21427264 TGATGTTAATGAAATGGGAAATGATGTTAATCAAAAGCTCTATAGAGATA
1 TGATGTTAATGAAAAGGGAAAAGATGTTAATCAAAAGCTCTATAGAGATA
*
21427314 TGATGTTGATGAAAAGGGAAAAGATGTTAATCAAAAGCTCTATAGAGATA
1 TGATGTTAATGAAAAGGGAAAAGATGTTAATCAAAAGCTCTATAGAGATA
21427364 TGAT
1 TGAT
21427368 CAGATCACTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (50 bp):
TGATGTTAATGAAAAGGGAAAAGATGTTAATCAAAAGCTCTATAGAGATA
Found at i:21431328 original size:20 final size:20
Alignment explanation
Indices: 21431305--21431346 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21431295 ACTTCAAGAT
21431305 AGAAACAACTTAATCGACTA
1 AGAAACAACTTAATCGACTA
** *
21431325 AGAAGGAAGTTAATCGACTA
1 AGAAACAACTTAATCGACTA
21431345 AG
1 AG
21431347 TGCTCACTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (20 bp):
AGAAACAACTTAATCGACTA
Found at i:21431382 original size:73 final size:73
Alignment explanation
Indices: 21431239--21431398 Score: 173
Period size: 73 Copynumber: 2.2 Consensus size: 73
21431229 AACAGAGAAG
* * * * *
21431239 ACTTAGTCGACCAAGAAGTAAGTTAGTCGACTAAGAGCCTACTGCTAGAAATCTGGACTTCAAGA
1 ACTTAGTCGACTAAGAAGGAAGTTAATCGACTAAGAGCCTACTGCTAGAAATCTGGACTACAAAA
*
21431304 TAGAAACA
66 CAGAAACA
* * *
21431312 ACTTAATCGACTAAGAAGGAAGTTAATCGACTAAGTG-CTCACTGCTAGAAA-CTAGGA-TAAGA
1 ACTTAGTCGACTAAGAAGGAAGTTAATCGACTAAGAGCCT-ACTGCTAGAAATCT-GGACT-ACA
*
21431374 AAACAGAAACG
63 AAACAGAAACA
*
21431385 ACTTAGTCAACTAA
1 ACTTAGTCGACTAA
21431399 AAGCGCAGTT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
72 5 0.07
73 67 0.93
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.21
Consensus pattern (73 bp):
ACTTAGTCGACTAAGAAGGAAGTTAATCGACTAAGAGCCTACTGCTAGAAATCTGGACTACAAAA
CAGAAACA
Found at i:21435749 original size:38 final size:40
Alignment explanation
Indices: 21435707--21435807 Score: 134
Period size: 38 Copynumber: 2.6 Consensus size: 40
21435697 AGTGCCCGTA
*
21435707 TGCACGATGTGGGGGGATGTACACGATGGCACTA-AT-TG
1 TGCACGATGTGGGGGGATGTACACGATGACACTAGATATG
* * * *
21435745 TGCACGATGTGGGGAGATGCACATGATGACACTAGTTATG
1 TGCACGATGTGGGGGGATGTACACGATGACACTAGATATG
*
21435785 TGCACGATGTGGGAGGATGTACA
1 TGCACGATGTGGGGGGATGTACA
21435808 TGAGCCGGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 30 0.57
39 1 0.02
40 22 0.42
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.24
Consensus pattern (40 bp):
TGCACGATGTGGGGGGATGTACACGATGACACTAGATATG
Found at i:21449508 original size:12 final size:12
Alignment explanation
Indices: 21449493--21449530 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
21449483 GGTTTCTCTA
21449493 TTCCATTCTTCT
1 TTCCATTCTTCT
21449505 TTCCATTCTTCT
1 TTCCATTCTTCT
*
21449517 TTCCTTTCTTCT
1 TTCCATTCTTCT
21449529 TT
1 TT
21449531 TCTCTCTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (12 bp):
TTCCATTCTTCT
Found at i:21449533 original size:17 final size:17
Alignment explanation
Indices: 21449501--21449552 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
21449491 TATTCCATTC
21449501 TTCTTTCCATTC--TTCT
1 TTCTTT-CATTCTTTTCT
21449517 TTCCTTTC-TTCTTTTCT
1 TT-CTTTCATTCTTTTCT
*
21449534 CTCTTTCATTCTTTTCT
1 TTCTTTCATTCTTTTCT
21449551 TT
1 TT
21449553 GATCATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 3 0.10
16 8 0.27
17 19 0.63
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTTTCATTCTTTTCT
Found at i:21450260 original size:11 final size:12
Alignment explanation
Indices: 21450243--21450275 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21450233 TATACATTTC
21450243 ATTTTTGTTTTT
1 ATTTTTGTTTTT
21450255 -TTTTTGTTTTT
1 ATTTTTGTTTTT
21450266 ATGTTTTGTT
1 AT-TTTTGTT
21450276 CCATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 1 0.05
13 7 0.37
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (12 bp):
ATTTTTGTTTTT
Found at i:21451117 original size:54 final size:54
Alignment explanation
Indices: 21451038--21451196 Score: 282
Period size: 54 Copynumber: 2.9 Consensus size: 54
21451028 TTATACATAT
21451038 GATGAATAAAATAATTGTTTGTTTTGCTTCTTATTTTGCAATTTTGTATTTATA
1 GATGAATAAAATAATTGTTTGTTTTGCTTCTTATTTTGCAATTTTGTATTTATA
*
21451092 GATGAATAAAATAATTGTTTCTTTTGCTTCTTATTTTGCAATTTTGTATTTATA
1 GATGAATAAAATAATTGTTTGTTTTGCTTCTTATTTTGCAATTTTGTATTTATA
* * *
21451146 GATGAATAAAATAATTGTTTGTTTTTCTTTTTATTTTGCATTTTTGTATTT
1 GATGAATAAAATAATTGTTTGTTTTGCTTCTTATTTTGCAATTTTGTATTT
21451197 TAAATTTATA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (54 bp):
GATGAATAAAATAATTGTTTGTTTTGCTTCTTATTTTGCAATTTTGTATTTATA
Found at i:21453389 original size:28 final size:28
Alignment explanation
Indices: 21453342--21453506 Score: 177
Period size: 28 Copynumber: 5.7 Consensus size: 28
21453332 TTTGGTTTTT
* *
21453342 AATTAAGACAAAAATATGTTATCTTGCCTA
1 AATTAAGAC--AAATATGTTTTCTTGTCTA
*
21453372 AATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAATATGTTTTCTTGTCTA
* *
21453400 GATTAAGACAAAATATATTTTTCTTGTCTTA
1 AATTAAGAC-AAATAT-GTTTTCTTGTC-TA
* *
21453431 AATTAAGACAAACATATTTTCTTGTCTA
1 AATTAAGACAAATATGTTTTCTTGTCTA
* *
21453459 AATTGAGACCAAACATGTTTTCTTGTCTA
1 AATTAAGA-CAAATATGTTTTCTTGTCTA
* *
21453488 AATTAAGACATACATGTTT
1 AATTAAGACAAATATGTTT
21453507 AAGCTGTCAT
Statistics
Matches: 118, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
28 43 0.36
29 42 0.36
30 23 0.19
31 10 0.08
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (28 bp):
AATTAAGACAAATATGTTTTCTTGTCTA
Found at i:21453451 original size:59 final size:57
Alignment explanation
Indices: 21453342--21453502 Score: 189
Period size: 59 Copynumber: 2.8 Consensus size: 57
21453332 TTTGGTTTTT
* * * * *
21453342 AATTAAGACAAAAATATGTTATCTTGCCTAAATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAAAATAT-TTTTCTTGTCTAAATTAAGACAAACATATTTTCTTGTCTA
*
21453400 GATTAAGACAAAATATATTTTTCTTGTCTTAAATTAAGACAAACATATTTTCTTGTCTA
1 AATTAAGACAAAA-ATATTTTTCTTGTC-TAAATTAAGACAAACATATTTTCTTGTCTA
* * * *
21453459 AATTGAGACCAAACAT-GTTTTCTTGTCTAAATTAAGACATACAT
1 AATTAAGA-CAAAAATATTTTTCTTGTCTAAATTAAGACAAACAT
21453503 GTTTAAGCTG
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
57 16 0.18
58 30 0.34
59 39 0.44
60 4 0.04
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (57 bp):
AATTAAGACAAAAATATTTTTCTTGTCTAAATTAAGACAAACATATTTTCTTGTCTA
Found at i:21453471 original size:29 final size:29
Alignment explanation
Indices: 21453342--21453496 Score: 163
Period size: 29 Copynumber: 5.3 Consensus size: 29
21453332 TTTGGTTTTT
* *
21453342 AATTAAGA-CAAAAATATGTTATCTTGCCTA
1 AATTAAGACCAAACATAT-TT-TCTTGTCTA
* * *
21453372 AATTGAGA-CAAATATGTTTTCTTGTCTA
1 AATTAAGACCAAACATATTTTCTTGTCTA
* * *
21453400 GATTAAGACAAAATATATTTTTCTTGTCTTA
1 AATTAAGACCAAACATA-TTTTCTTGTC-TA
21453431 AATTAAGA-CAAACATATTTTCTTGTCTA
1 AATTAAGACCAAACATATTTTCTTGTCTA
* *
21453459 AATTGAGACCAAACATGTTTTCTTGTCTA
1 AATTAAGACCAAACATATTTTCTTGTCTA
21453488 AATTAAGAC
1 AATTAAGAC
21453497 ATACATGTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.21
29 45 0.42
30 30 0.28
31 9 0.08
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (29 bp):
AATTAAGACCAAACATATTTTCTTGTCTA
Found at i:21459772 original size:13 final size:13
Alignment explanation
Indices: 21459754--21459779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21459744 GAATGAGGCT
21459754 ACATAACTTTAAA
1 ACATAACTTTAAA
21459767 ACATAACTTTAAA
1 ACATAACTTTAAA
21459780 TAAGAATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAACTTTAAA
Found at i:21459805 original size:57 final size:57
Alignment explanation
Indices: 21459712--21459820 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
21459702 TAAGGCTATG
21459712 TAACTTTAAAAAGGGAATAAGCTCCACATCTAGAATGAGGCTACATAACTTTAAAACA
1 TAACTTTAAAAA-GGAATAAGCTCCACATCTAGAATGAGGCTACATAACTTTAAAACA
* * * * *
21459770 TAACTTTAAATAA-GAATGAGCTCCACATTTGGAATGAGGCTTCGTAACTTT
1 TAACTTTAAA-AAGGAATAAGCTCCACATCTAGAATGAGGCTACATAACTTT
21459821 GAAGAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
57 33 0.73
58 10 0.22
59 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (57 bp):
TAACTTTAAAAAGGAATAAGCTCCACATCTAGAATGAGGCTACATAACTTTAAAACA
Found at i:21459851 original size:45 final size:43
Alignment explanation
Indices: 21459770--21459931 Score: 152
Period size: 45 Copynumber: 3.7 Consensus size: 43
21459760 CTTTAAAACA
* * *
21459770 TAACTTTAA-ATAAGAATGAGCTCCACATTTGGAATGAGGCTTCG
1 TAACTTTAAGA-AAGAATAAGCTCCTCA-TGGGAATGAGGCTTCG
* * *
21459814 TAACTTTGAAGAAAAAATAAGCTCCTCATGGGAAATGAAG-TTACA
1 TAACTTT-AAGAAAGAATAAGCTCCTCATGGG-AATGAGGCTT-CG
*
21459859 TAACTTTAA-ATAAGAATAAGCTCCTCATTTGGAATGAGGCTAT-G
1 TAACTTTAAGA-AAGAATAAGCTCCTCA-TGGGAATGAGGCT-TCG
21459903 TAACTTTAAAGAAAGAATAAGCTCCTCAT
1 TAACTTT-AAGAAAGAATAAGCTCCTCAT
21459932 CAAGAATGAG
Statistics
Matches: 98, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
43 1 0.01
44 43 0.44
45 51 0.52
46 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (43 bp):
TAACTTTAAGAAAGAATAAGCTCCTCATGGGAATGAGGCTTCG
Found at i:21459884 original size:44 final size:44
Alignment explanation
Indices: 21459767--21460084 Score: 206
Period size: 44 Copynumber: 7.3 Consensus size: 44
21459757 TAACTTTAAA
* *
21459767 ACATAACTTTAAATAAGAATGAGCTCCACATTTGGAATGAGGCTT
1 ACATAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGG-TT
* * * *
21459812 -CGTAACTTTGAAGA-AAAAATAAGCTCCTCA-TGGGAAATGAAGTT
1 ACATAACTTT-AA-ATAAGAATAAGCTCCTCATTTGG-AATGAGGTT
*
21459856 ACATAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGGCT
1 ACATAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGGTT
** * *** **
21459900 ATGTAACTTTAAAGAAAGAATAAGCTCCTCATCAAGAATGAGGCA
1 ACATAACTTTAAA-TAAGAATAAGCTCCTCATTTGGAATGAGGTT
** * * * * ** * *
21459945 ATGTAACATTAAATAGGAATGAGCTCCTCATCTGGTGTGATGAT
1 ACATAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGGTT
* ** * *
21459989 ACACAACTTTAAATAAGAATAAGCTTTTCATCTAGAATGAGGTT
1 ACATAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGGTT
*
21460033 ACGA-AACTTT--TTAA-AA-AA-CTCCTCATCTT-GAATGAGGTT
1 AC-ATAACTTTAAATAAGAATAAGCTCCTCAT-TTGGAATGAGGTT
* *
21460072 ACACAATTTTAAA
1 ACATAACTTTAAA
21460085 AATTTAAAGA
Statistics
Matches: 213, Mismatches: 48, Indels: 28
0.74 0.17 0.10
Matches are distributed among these distances:
38 1 0.00
39 23 0.11
40 3 0.01
41 2 0.01
42 3 0.01
43 1 0.00
44 108 0.51
45 71 0.33
46 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (44 bp):
ACATAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGGTT
Found at i:21459922 original size:89 final size:89
Alignment explanation
Indices: 21459767--21459931 Score: 278
Period size: 89 Copynumber: 1.9 Consensus size: 89
21459757 TAACTTTAAA
* *
21459767 ACATAACTTTAAATAAGAATGAGCTCCACATTTGGAATGAGGCTTCGTAACTTTGAAGAAAAAAT
1 ACATAACTTTAAATAAGAATAAGCTCCACATTTGGAATGAGGCTTCGTAACTTTAAAGAAAAAAT
21459832 AAGCTCCTCATGGGAAATGAAGTT
66 AAGCTCCTCATGGGAAATGAAGTT
* *
21459856 ACATAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGGCTAT-GTAACTTTAAAGAAAGAA
1 ACATAACTTTAAATAAGAATAAGCTCCACATTTGGAATGAGGCT-TCGTAACTTTAAAGAAAAAA
21459920 TAAGCTCCTCAT
65 TAAGCTCCTCAT
21459932 CAAGAATGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
89 70 0.99
90 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (89 bp):
ACATAACTTTAAATAAGAATAAGCTCCACATTTGGAATGAGGCTTCGTAACTTTAAAGAAAAAAT
AAGCTCCTCATGGGAAATGAAGTT
Found at i:21459939 original size:45 final size:44
Alignment explanation
Indices: 21459770--21460030 Score: 213
Period size: 44 Copynumber: 5.9 Consensus size: 44
21459760 CTTTAAAACA
* * *
21459770 TAACTTTAAATAAGAATGAGCTCCACATTTGGAATGAGGCT-TCG
1 TAACTTTAAATAAGAATAAGCTCCTCATCTGGAATGAGGCTAT-G
* * * * **
21459814 TAACTTTGAAGA-AAAAATAAGCTCCTCAT-GGGAAATGAAGTTACA
1 TAACTTT-AA-ATAAGAATAAGCTCCTCATCTGG-AATGAGGCTATG
*
21459859 TAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGGCTATG
1 TAACTTTAAATAAGAATAAGCTCCTCATCTGGAATGAGGCTATG
* ** *
21459903 TAACTTTAAAGAAAGAATAAGCTCCTCATCAAGAATGAGGCAATG
1 TAACTTTAAA-TAAGAATAAGCTCCTCATCTGGAATGAGGCTATG
* * * ** * * **
21459948 TAACATTAAATAGGAATGAGCTCCTCATCTGGTGTGATGATACA
1 TAACTTTAAATAAGAATAAGCTCCTCATCTGGAATGAGGCTATG
* ** *
21459992 CAACTTTAAATAAGAATAAGCTTTTCATCTAGAATGAGG
1 TAACTTTAAATAAGAATAAGCTCCTCATCTGGAATGAGG
21460031 TTACGAAACT
Statistics
Matches: 168, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
43 1 0.01
44 96 0.57
45 70 0.42
46 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (44 bp):
TAACTTTAAATAAGAATAAGCTCCTCATCTGGAATGAGGCTATG
Found at i:21459957 original size:89 final size:89
Alignment explanation
Indices: 21459766--21459975 Score: 271
Period size: 89 Copynumber: 2.4 Consensus size: 89
21459756 ATAACTTTAA
* *
21459766 AACATAACTTTAAATAAGAATGAGCTCCACATTTGGAATGAGGCTTCGTAACTTTGAAGAAAAAA
1 AACATAACTTTAAATAAGAATGAGCTCCTCATTTGGAATGAGGCTTCGTAACTTTAAAGAAAAAA
** *
21459831 TAAGCTCCTCATGGGAAATGAAGT
66 TAAGCTCCTCATAAGAAATGAAGC
* * *
21459855 TACATAACTTTAAATAAGAATAAGCTCCTCATTTGGAATGAGGCTAT-GTAACTTTAAAGAAAGA
1 AACATAACTTTAAATAAGAATGAGCTCCTCATTTGGAATGAGGCT-TCGTAACTTTAAAGAAAAA
*
21459919 ATAAGCTCCTCATCAAG-AATGAGGC
65 ATAAGCTCCTCAT-AAGAAATGAAGC
** * *
21459944 AATGTAACATTAAATAGGAATGAGCTCCTCAT
1 AACATAACTTTAAATAAGAATGAGCTCCTCAT
21459976 CTGGTGTGAT
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
89 102 0.98
90 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (89 bp):
AACATAACTTTAAATAAGAATGAGCTCCTCATTTGGAATGAGGCTTCGTAACTTTAAAGAAAAAA
TAAGCTCCTCATAAGAAATGAAGC
Found at i:21460513 original size:19 final size:19
Alignment explanation
Indices: 21460475--21460518 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21460465 AATTCGTGGT
*
21460475 AAAATGGGAAATTGGTGAA
1 AAAATGGGAAAGTGGTGAA
21460494 AAAATGGGATAAGTGG-GAA
1 AAAATGGGA-AAGTGGTGAA
*
21460513 ACAATG
1 AAAATG
21460519 TATCTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.32, T:0.18
Consensus pattern (19 bp):
AAAATGGGAAAGTGGTGAA
Found at i:21460848 original size:10 final size:10
Alignment explanation
Indices: 21460833--21460859 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21460823 GAACTTATTC
21460833 TTTTTCTCTT
1 TTTTTCTCTT
21460843 TTTTTCTCTT
1 TTTTTCTCTT
21460853 TTTTTCT
1 TTTTTCT
21460860 TACTAATCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:21475719 original size:21 final size:21
Alignment explanation
Indices: 21475702--21475741 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21475692 AACATATAGT
21475702 AAAATA-ATA-ATAGTATATAA
1 AAAATATATATATA-TATATAA
21475722 AAAATATATATATATATATA
1 AAAATATATATATATATATA
21475742 TTTAGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAATATATATATATATATAA
Found at i:21475735 original size:17 final size:17
Alignment explanation
Indices: 21475695--21475737 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
21475685 TAAAATGAAC
21475695 ATATAGTAAAATAATAAT
1 ATATA-TAAAATAATAAT
21475713 AGTATATAAAA-AATATAT
1 A-TATATAAAATAATA-AT
21475731 ATATATA
1 ATATATA
21475738 TATATTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 9 0.39
19 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
ATATATAAAATAATAAT
Found at i:21476549 original size:5 final size:5
Alignment explanation
Indices: 21476532--21476572 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
21476522 GAGGAAGAGA
21476532 AAAAG AGAAAG AAAAG AAAAG AAAAG AAAAG AAAAGG AAAA
1 AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAA-G AAAA
21476573 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 24 0.71
6 10 0.29
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21483912 original size:21 final size:22
Alignment explanation
Indices: 21483887--21483927 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21483877 CCTAGGTGGA
*
21483887 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
21483908 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
21483928 AAAAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:21483928 original size:20 final size:21
Alignment explanation
Indices: 21483887--21483931 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
21483877 CCTAGGTGGA
*
21483887 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
21483908 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
21483928 AAAA
1 AAAA
21483932 AAAGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:21483932 original size:21 final size:20
Alignment explanation
Indices: 21483885--21483932 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
21483875 ACCCTAGGTG
*
21483885 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
21483905 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
21483927 GAAAAA
1 GAAAAA
21483933 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:21491575 original size:6 final size:6
Alignment explanation
Indices: 21491559--21491609 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
21491549 TTTATGTCAC
* * * *
21491559 AAAAAT CAAAAT AAAAAT AAAGATT AAAAAG AAAAA- AGAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT
21491607 AAA
1 AAA
21491610 CAAAACTTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.75
7 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:21492087 original size:13 final size:13
Alignment explanation
Indices: 21492069--21492098 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21492059 ATTTATCTCT
21492069 TTTTATTTTTGTA
1 TTTTATTTTTGTA
*
21492082 TTTTATTTTTTTA
1 TTTTATTTTTGTA
21492095 TTTT
1 TTTT
21492099 TTCAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTGTA
Found at i:21505599 original size:26 final size:28
Alignment explanation
Indices: 21505556--21505609 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
21505546 AGTATTAATT
*
21505556 CACTTTTTATGGGTTAAA-GTATGCATC
1 CACTTTTTATGGGTTAAAGGTATCCATC
*
21505583 CACTTTTTGTGGG-TAAAGGTATCCATC
1 CACTTTTTATGGGTTAAAGGTATCCATC
21505610 TACCTCTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (28 bp):
CACTTTTTATGGGTTAAAGGTATCCATC
Found at i:21506430 original size:137 final size:137
Alignment explanation
Indices: 21506255--21506522 Score: 410
Period size: 137 Copynumber: 2.0 Consensus size: 137
21506245 TCGACTTTGA
* * *
21506255 GATGATGTTGAAAATTAAAGAAAATTGAACTTCGACTTTGAGATAATGATGAAAACTAAATGATA
1 GATGATGTTGAAAATTAAAGAAAATTGAAATTCAACTTTGAGATAACGATGAAAACTAAATGATA
* * * * *
21506320 CTAAAGTTTGAAAGATTAGAGGATTGTGCTGATAACGTGTTATAAAATATAGCTTAAAAGAACAA
66 CTAAAGCTTGAAAGATTAAAGGATTGTGCTGATAACATGCTATAAAATATAACTTAAAAGAACAA
21506385 CTGTGAT
131 CTGTGAT
*
21506392 GATGATGTTGAAAATTGAAGAAAATTGAAATTCAACTTTGAGATAACGATGAAAACTAAATGATA
1 GATGATGTTGAAAATTAAAGAAAATTGAAATTCAACTTTGAGATAACGATGAAAACTAAATGATA
* * * **
21506457 CTAAAGCTTGAAATATTAAAGGATTGTGTTGATAACATGCTATGAAATATAACTTGGAAGAACAA
66 CTAAAGCTTGAAAGATTAAAGGATTGTGCTGATAACATGCTATAAAATATAACTTAAAAGAACAA
21506522 C
131 C
21506523 CATGAAAGAA
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 117 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (137 bp):
GATGATGTTGAAAATTAAAGAAAATTGAAATTCAACTTTGAGATAACGATGAAAACTAAATGATA
CTAAAGCTTGAAAGATTAAAGGATTGTGCTGATAACATGCTATAAAATATAACTTAAAAGAACAA
CTGTGAT
Found at i:21518205 original size:43 final size:43
Alignment explanation
Indices: 21518088--21518208 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
21518078 GACTCGACTG
* * * * **
21518088 TGTGCAAGTAGGGAGTGCACATAAG-TCGAGAATGACCCGGTTA
1 TGTGCGAGTAGGGAGTGCACATAAGCTGGTG-ATGACCCAGCCA
* * * * *
21518131 TGTGTGAGTATGGAGTGCGCATAACCCGGTGATGACCCAGCCA
1 TGTGCGAGTAGGGAGTGCACATAAGCTGGTGATGACCCAGCCA
*
21518174 TGTGCGAGTAGGGAGTGCACATGAGCTGGTGATGA
1 TGTGCGAGTAGGGAGTGCACATAAGCTGGTGATGA
21518209 TGATAATGTG
Statistics
Matches: 60, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
43 58 0.97
44 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (43 bp):
TGTGCGAGTAGGGAGTGCACATAAGCTGGTGATGACCCAGCCA
Found at i:21518235 original size:23 final size:23
Alignment explanation
Indices: 21518205--21518264 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
21518195 TGAGCTGGTG
* *
21518205 ATGATGATAATGTGATGGTGTGC
1 ATGATGATAATGGGATGCTGTGC
*
21518228 ATGATGATGATGGGATGCTGTGC
1 ATGATGATAATGGGATGCTGTGC
*
21518251 ATGATGATGATGGG
1 ATGATGATAATGGG
21518265 TATACCTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.25, C:0.05, G:0.38, T:0.32
Consensus pattern (23 bp):
ATGATGATAATGGGATGCTGTGC
Found at i:21522943 original size:29 final size:30
Alignment explanation
Indices: 21522856--21522943 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 30
21522846 AAGTTAGTTG
* *
21522856 TTGGGTTTTGGTTGATCCCGGTAAAAACCATTA
1 TTGGGTTTTGGTTGATCCC-GT--GAACCACTA
* * **
21522889 TTGTAGGTTGTGGTTGAGCCTTTGAACCACT-
1 TTG--GGTTTTGGTTGATCCCGTGAACCACTA
21522920 TTGGGTTTTGGTTGATCCCGTGAA
1 TTGGGTTTTGGTTGATCCCGTGAA
21522944 AAACCATTGC
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
29 17 0.40
31 3 0.07
32 6 0.14
33 3 0.07
34 1 0.02
35 13 0.30
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (30 bp):
TTGGGTTTTGGTTGATCCCGTGAACCACTA
Found at i:21527194 original size:2 final size:2
Alignment explanation
Indices: 21527189--21527216 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21527179 TGAATATATA
21527189 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21527217 AATATACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21530864 original size:21 final size:21
Alignment explanation
Indices: 21530834--21530888 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
21530824 GGATATGTTC
21530834 ATGCAATTCATGACAAAGACT-G
1 ATGC-ATTCATGACAAAGA-TAG
*
21530856 ATGCATTCATAACAAAGATAG
1 ATGCATTCATGACAAAGATAG
*
21530877 ATGCATTTATGA
1 ATGCATTCATGA
21530889 TAAGGACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 24 0.83
22 4 0.14
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (21 bp):
ATGCATTCATGACAAAGATAG
Found at i:21532047 original size:35 final size:34
Alignment explanation
Indices: 21531981--21532048 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
21531971 TTCATCAAGC
* *
21531981 TTTACAATGGCTTTTCAAGGCTCAGCCAAAACCT
1 TTTACAATAGCTTTTCAAGGCTCAACCAAAACCT
* * *
21532015 TTTACACTAGCTTTTCACGGGCTCAACTAAAACC
1 TTTACAATAGCTTTTCA-AGGCTCAACCAAAACC
21532049 CAAAGTTGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (34 bp):
TTTACAATAGCTTTTCAAGGCTCAACCAAAACCT
Found at i:21547766 original size:34 final size:33
Alignment explanation
Indices: 21547720--21547786 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
21547710 TTAAGTCAAT
* *
21547720 TATATAGTGATTTAGCATCAATGTGGTGAATTG
1 TATATAGAGATTTAACATCAATGTGGTGAATTG
21547753 NTATATAGAGATTTAACATCAATGTGGTGAATTG
1 -TATATAGAGATTTAACATCAATGTGGTGAATTG
21547787 GGTAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.37
Consensus pattern (33 bp):
TATATAGAGATTTAACATCAATGTGGTGAATTG
Found at i:21555907 original size:32 final size:32
Alignment explanation
Indices: 21555871--21556019 Score: 131
Period size: 35 Copynumber: 4.5 Consensus size: 32
21555861 TTTACAGGGA
*
21555871 TCAACTAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * **
21555903 TCAACCATAACCTTTCACAA-TGGCTTTTCAGGGGC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCAAAGGC
21555938 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * * *
21555970 TCAACCACAACCTACAATAATGGTTTTTC-ACGAGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAG-GC
21556005 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
21556020 CAACTAACTT
Statistics
Matches: 94, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
31 2 0.02
32 35 0.37
33 3 0.03
34 5 0.05
35 47 0.50
36 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:21555931 original size:35 final size:33
Alignment explanation
Indices: 21555871--21555982 Score: 113
Period size: 32 Copynumber: 3.4 Consensus size: 33
21555861 TTTACAGGGA
* *
21555871 TCAACTAAAACC-CAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAAGTGGCTTTTCAAAGGC
* **
21555903 TCAACCATAACCTTTCACAA-TGGCTTTTCAGGGGC
1 TCAACCAAAACC--TCA-AAGTGGCTTTTCAAAGGC
*
21555938 TCAACCAAAACC-CAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAAGTGGCTTTTCAAAGGC
*
21555970 TCAACCACAACCT
1 TCAACCAAAACCT
21555983 ACAATAATGG
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
31 2 0.03
32 35 0.55
35 25 0.39
36 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (33 bp):
TCAACCAAAACCTCAAAGTGGCTTTTCAAAGGC
Found at i:21555952 original size:67 final size:66
Alignment explanation
Indices: 21555844--21556019 Score: 237
Period size: 67 Copynumber: 2.6 Consensus size: 66
21555834 GTTTAGCCAA
* *
21555844 AACCTTTCACAATAGTTTTTACAGGGATCAACTAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTT-CAGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
*
21555909 AT
65 AC
* *
21555911 AACCTTTCACAATGGCTTTTCAGGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCA-GGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
21555976 AC
65 AC
* * *
21555978 AACC-TACAATAATGGTTTTTCACGAGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCA-GGGATCAACCAAAACCCAA
21556020 CAACTAACTT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 4 0.04
67 92 0.96
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.25
Consensus pattern (66 bp):
AACCTTTCACAATGGTTTTTCAGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCA
C
Found at i:21556932 original size:19 final size:17
Alignment explanation
Indices: 21556898--21556935 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21556888 AATGGAGGAT
*
21556898 TGCTCCCTCTAAGTGTG
1 TGCTCCCCCTAAGTGTG
21556915 TGCTCCCCCTTAA-TGTG
1 TGCTCCCCC-TAAGTGTG
21556932 TGCT
1 TGCT
21556936 TATTTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.11, C:0.32, G:0.21, T:0.37
Consensus pattern (17 bp):
TGCTCCCCCTAAGTGTG
Found at i:21558261 original size:113 final size:112
Alignment explanation
Indices: 21558060--21558280 Score: 282
Period size: 113 Copynumber: 2.0 Consensus size: 112
21558050 GTTATTATAG
* * *
21558060 ATATTCAATATATCTTACTTAGCTACTATGGATATTGTATAACTTGTTTAGCAACTGTAAATATT
1 ATATTCAATATATCTTACTTAGCTACTATGGACATTGTATAACTTGTTTAGCAACTATAAATATG
* *
21558125 ATAAATATTTTATTGCAAGTCTTTAAAGAAAACTAAATGCATTTAAC
66 ATAAATAGTTTATTGCAAATCTTTAAAGAAAACTAAATGCATTTAAC
* * * * *** **
21558172 NATATTCAATATATCTTTCTTAGCTATTGTGGGCATTGTATATA-TTGTTTAGCTGTTATGGATA
1 -ATATTCAATATATCTTACTTAGCTACTATGGACATTGTATA-ACTTGTTTAGCAACTATAAATA
*
21558236 TGATAAATAGTTTATTGCAAATCTTTAAAGAAAACTAGATGCATT
64 TGATAAATAGTTTATTGCAAATCTTTAAAGAAAACTAAATGCATT
21558281 GACTAAGGGC
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
113 91 0.99
114 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (112 bp):
ATATTCAATATATCTTACTTAGCTACTATGGACATTGTATAACTTGTTTAGCAACTATAAATATG
ATAAATAGTTTATTGCAAATCTTTAAAGAAAACTAAATGCATTTAAC
Found at i:21594480 original size:67 final size:66
Alignment explanation
Indices: 21594370--21594547 Score: 205
Period size: 67 Copynumber: 2.7 Consensus size: 66
21594360 TACCAGGTTT
* * * * * * *
21594370 AACCAAAACCTTTCACAATAGTTTTTACCGAGATCAACTAAAACCCAAAGTTGTTTTTCAAAGGC
1 AACCACAACCTTTCACAATGGTTTTT-CCAAGATCAACCAAAACCCAAAATGGTTTTTCAAAGAC
21594435 TC
65 TC
* *
21594437 AACCACAACCTTTCACAATGGTTTTTCGCAAGCTCAACCAAAACCCAAAATGGTTTTTCAAATAC
1 AACCACAACCTTTCACAATGGTTTTTC-CAAGATCAACCAAAACCCAAAATGGTTTTTCAAAGAC
21594502 TC
65 TC
* **
21594504 AACCACAACC-TACAACAATGGTTTTTCACGGGATCAACCAAAAC
1 AACCACAACCTTTC-ACAATGGTTTTTC-CAAGATCAACCAAAAC
21594548 TCAACAACTA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 3 0.03
67 92 0.97
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (66 bp):
AACCACAACCTTTCACAATGGTTTTTCCAAGATCAACCAAAACCCAAAATGGTTTTTCAAAGACT
C
Found at i:21594494 original size:32 final size:33
Alignment explanation
Indices: 21594403--21594551 Score: 117
Period size: 35 Copynumber: 4.5 Consensus size: 33
21594393 TTTACCGAGA
* * *
21594403 TCAACTAAAACC-CAAAGTTGTTTTTCAAAGGC
1 TCAACCAAAACCTCAAAATGGTTTTTCAAAGGC
* * *
21594435 TCAACCACAACCTTTCACAATGGTTTTTCGCAA-GC
1 TCAACCAAAACC--TCAAAATGGTTTTTC-AAAGGC
**
21594470 TCAACCAAAACC-CAAAATGGTTTTTCAAATAC
1 TCAACCAAAACCTCAAAATGGTTTTTCAAAGGC
* ** *
21594502 TCAACCACAACCTACAACAATGGTTTTTCACGGGA
1 TCAACCAAAACCT-CAA-AATGGTTTTTCAAAGGC
21594537 TCAACCAAAA-CTCAA
1 TCAACCAAAACCTCAA
21594552 CAACTAACTT
Statistics
Matches: 92, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
31 2 0.02
32 35 0.38
33 3 0.03
34 5 0.05
35 45 0.49
36 2 0.02
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.25
Consensus pattern (33 bp):
TCAACCAAAACCTCAAAATGGTTTTTCAAAGGC
Found at i:21604760 original size:5 final size:5
Alignment explanation
Indices: 21604741--21604791 Score: 75
Period size: 5 Copynumber: 10.2 Consensus size: 5
21604731 CTATTCAACC
* * *
21604741 TAACC TAACT TAACT TAACT TGACT TAAAT TAACT TAACT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
21604791 T
1 T
21604792 GGGCCACACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (5 bp):
TAACT
Found at i:21605250 original size:14 final size:14
Alignment explanation
Indices: 21605231--21605259 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21605221 ATTTGGATAT
21605231 AATAAAAAAATAAA
1 AATAAAAAAATAAA
21605245 AATAAAAAAATAAA
1 AATAAAAAAATAAA
21605259 A
1 A
21605260 GAAATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AATAAAAAAATAAA
Found at i:21611017 original size:16 final size:16
Alignment explanation
Indices: 21610996--21611034 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
21610986 ATAGATATTA
21610996 AAATTAATAATTTTAT
1 AAATTAATAATTTTAT
*
21611012 AAATT-ATAATTTTGT
1 AAATTAATAATTTTAT
21611027 AATATTAA
1 AA-ATTAA
21611035 CACAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 11 0.55
16 8 0.40
17 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AAATTAATAATTTTAT
Found at i:21613669 original size:171 final size:171
Alignment explanation
Indices: 21613384--21613707 Score: 515
Period size: 171 Copynumber: 1.9 Consensus size: 171
21613374 TTAATCTATA
* * * *
21613384 GACTTTTCTTGTCAATGGATGGGATTCGCTTCACGTTTCCCGAGGGAAACATCCAATTATAATCT
1 GACTTTTCTTGCCAATAGATGGCATTCGCTTCACGTTTCCCGAGGAAAACATCCAATTATAATCT
*
21613449 GTTTTAACGAAAAATGCAAAAAAATTCAACTTAAAATCGATAATGAGATTATA-AAACCATTTAA
66 GTTTTAACGAAAAATGCAAAAAAATTCAACTTAAAATCAATAATGAGATTATAGAAA-CATTTAA
* *
21613513 AGCGAGTAATAAGGCTTACAAAGGCATTGGTGACTATAAATG
130 AGCAAGTAATAAAGCTTACAAAGGCATTGGTGACTATAAATG
*
21613555 GACTTTTCTTGCCAATAGATGGCTTTCGCTTCACGTTTCCCGAGGAAAACATCCAATTATAATCT
1 GACTTTTCTTGCCAATAGATGGCATTCGCTTCACGTTTCCCGAGGAAAACATCCAATTATAATCT
* * * *
21613620 GTTTTAACGAAAAATGCAAAAATATTTAACTTAAAGTCAATAATGAGATTATAGAAAGATTTAAA
66 GTTTTAACGAAAAATGCAAAAAAATTCAACTTAAAATCAATAATGAGATTATAGAAACATTTAAA
*
21613685 GCAAGTAATAAAGCTTTCAAAGG
131 GCAAGTAATAAAGCTTACAAAGG
21613708 AACCAACAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
171 136 0.98
172 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (171 bp):
GACTTTTCTTGCCAATAGATGGCATTCGCTTCACGTTTCCCGAGGAAAACATCCAATTATAATCT
GTTTTAACGAAAAATGCAAAAAAATTCAACTTAAAATCAATAATGAGATTATAGAAACATTTAAA
GCAAGTAATAAAGCTTACAAAGGCATTGGTGACTATAAATG
Found at i:21617364 original size:22 final size:22
Alignment explanation
Indices: 21617336--21617383 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
21617326 CATGATGGTT
21617336 TCATAAGAGCTAGGCCTAGGAG
1 TCATAAGAGCTAGGCCTAGGAG
21617358 TCATAAGAGCTAGGCCTAGGAG
1 TCATAAGAGCTAGGCCTAGGAG
21617380 TCAT
1 TCAT
21617384 TCTTCTTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (22 bp):
TCATAAGAGCTAGGCCTAGGAG
Found at i:21620201 original size:22 final size:22
Alignment explanation
Indices: 21620173--21620223 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
21620163 AGTAGGATGT
*
21620173 TTCAATTTCCTTTAATTGAGCC
1 TTCAATTTCCTTCAATTGAGCC
* *
21620195 TTCAATTTTCTTCAATTGAGTC
1 TTCAATTTCCTTCAATTGAGCC
*
21620217 TCCAATT
1 TTCAATT
21620224 GAATGACAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.47
Consensus pattern (22 bp):
TTCAATTTCCTTCAATTGAGCC
Found at i:21622224 original size:3 final size:3
Alignment explanation
Indices: 21622216--21622240 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21622206 AAGTTACTCG
21622216 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
21622241 AATAATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21623881 original size:2 final size:2
Alignment explanation
Indices: 21623874--21623898 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21623864 TTGTAATAAT
21623874 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
21623899 CCTTTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21630172 original size:26 final size:25
Alignment explanation
Indices: 21630133--21630207 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 25
21630123 AACAATATTT
* *
21630133 ATTTTTCAATATGGCGTGTAACAAC
1 ATTTTTTAACATGGCGTGTAACAAC
21630158 ATTTTTTAACCATGGCGTGTAAC-A-
1 ATTTTTTAA-CATGGCGTGTAACAAC
* *
21630182 TTTTTTTTACATGGCGTGTAACAAC
1 ATTTTTTAACATGGCGTGTAACAAC
21630207 A
1 A
21630208 GTATTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
23 13 0.31
24 8 0.19
25 9 0.21
26 12 0.29
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (25 bp):
ATTTTTTAACATGGCGTGTAACAAC
Found at i:21635311 original size:151 final size:149
Alignment explanation
Indices: 21635125--21635413 Score: 465
Period size: 151 Copynumber: 1.9 Consensus size: 149
21635115 TGCTATCTTC
*
21635125 TACTATATTTTTTTAAAATTTGCTCTTCATTATTTGATAGTTAATATTGTGAAAATGTTTCATCA
1 TACTATATTTTTTTAAAATTTGC-CTTCATTATTTGATAGTTAACATTGTGAAAATGTTTCATCA
* * *
21635190 ATAGGACAAT-TATTTCTTAGGATTATTATTTATCCACAATGTTGAAGTTTGAAATAATGTTGTA
65 ATAAGACAATCT-TTTCTTAGGATTATTATTTATCCACAATATTAAAGTTTGAAATAATGTTGTA
21635254 AAATACTTCCTCCGTGTCATA
129 AAATACTTCCTCCGTGTCATA
21635275 TACTATAATTTTTTTTAAAAATTTG-CTTCATTATTTGATAGTTAACATTGTGAAAATGTTTCAT
1 TACTAT-A-TTTTTTT-AAAATTTGCCTTCATTATTTGATAGTTAACATTGTGAAAATGTTTCAT
* *
21635339 CAATAAGACTATCTTTTCTTAGGATTATTATTTATCCACAATATTAAAGTTTGAAATAGTGTTGT
63 CAATAAGACAATCTTTTCTTAGGATTATTATTTATCCACAATATTAAAGTTTGAAATAATGTTGT
21635404 AAAATACTTC
128 AAAATACTTC
21635414 ATCTCAAATT
Statistics
Matches: 129, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
150 6 0.05
151 107 0.83
152 8 0.06
153 8 0.06
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (149 bp):
TACTATATTTTTTTAAAATTTGCCTTCATTATTTGATAGTTAACATTGTGAAAATGTTTCATCAA
TAAGACAATCTTTTCTTAGGATTATTATTTATCCACAATATTAAAGTTTGAAATAATGTTGTAAA
ATACTTCCTCCGTGTCATA
Found at i:21639062 original size:35 final size:36
Alignment explanation
Indices: 21639016--21639093 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 36
21639006 TGTATCGGTC
*
21639016 TTTTTATCTATTTAAGATTGATACAAAGT-TCTTGTA
1 TTTTT-TCTATTTAAGATTGATACAAAGTGTCTGGTA
* *
21639052 TTTTTTCTATTTAAGATTGCTACAACGTGTCTGGTA
1 TTTTTTCTATTTAAGATTGATACAAAGTGTCTGGTA
21639088 TTTTTT
1 TTTTTT
21639094 TCCTGAACGT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 21 0.55
36 17 0.45
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.53
Consensus pattern (36 bp):
TTTTTTCTATTTAAGATTGATACAAAGTGTCTGGTA
Found at i:21648422 original size:10 final size:11
Alignment explanation
Indices: 21648395--21648429 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
21648385 TATGGTCGGC
*
21648395 CAAAGCAAGAA
1 CAAAGGAAGAA
21648406 CAAAGGAAGAA
1 CAAAGGAAGAA
21648417 -AAAGGAAGAA
1 CAAAGGAAGAA
21648427 CAA
1 CAA
21648430 GAACCCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:21649276 original size:11 final size:11
Alignment explanation
Indices: 21649259--21649302 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
21649249 TATGGCTGGC
21649259 CAAAGGAA-AA
1 CAAAGGAAGAA
21649269 CAAAAGGAAGAA
1 C-AAAGGAAGAA
21649281 CAAAGGAAG-A
1 CAAAGGAAGAA
21649291 -AAA-GAAGAA
1 CAAAGGAAGAA
21649300 CAA
1 CAA
21649303 GAATCCTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 4 0.13
11 15 0.50
12 3 0.10
ACGTcount: A:0.68, C:0.09, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:21655127 original size:60 final size:60
Alignment explanation
Indices: 21654983--21655188 Score: 195
Period size: 60 Copynumber: 3.6 Consensus size: 60
21654973 TAAAGCTCTT
* * *
21654983 ACTTATATTTGGTGGCATGGGGAG-TCCCACAAGTAGGTAAAAGGGGACTTGAAGTCCCA
1 ACTTATATTTGGTGGCGTGGGGAGTTCCCACAAGTAGATAAAAGGGGACTAGAAGTCCCA
* * ** * *
21655042 ATTTATATTTGATGGCGTGATGAGTTTCCACGAGTAGATAAAAGGGGACTAGAA-TCCCCA
1 ACTTATATTTGGTGGCGTGGGGAGTTCCCACAAGTAGATAAAAGGGGACTAGAAGT-CCCA
* * *
21655102 ACTTATATTTGGTGGTGTGGGGAGTT-CC-CAA--AG------GGGGACTTGAAG-CCTCG
1 ACTTATATTTGGTGGCGTGGGGAGTTCCCACAAGTAGATAAAAGGGGACTAGAAGTCC-CA
21655152 ACTTATATTTGGTGGCGTGGGGAGTTCCCACAAGTAG
1 ACTTATATTTGGTGGCGTGGGGAGTTCCCACAAGTAG
21655189 TTGATGATGT
Statistics
Matches: 121, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
49 2 0.02
50 36 0.30
51 2 0.02
52 3 0.02
54 2 0.02
56 2 0.02
58 2 0.02
59 22 0.18
60 50 0.41
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (60 bp):
ACTTATATTTGGTGGCGTGGGGAGTTCCCACAAGTAGATAAAAGGGGACTAGAAGTCCCA
Found at i:21656467 original size:69 final size:70
Alignment explanation
Indices: 21656332--21656468 Score: 156
Period size: 69 Copynumber: 2.0 Consensus size: 70
21656322 GCTTCAAAAT
* * * * *
21656332 TAAT-TTTGAATTTTTCATTTTCTTTTTCCAAATCAACTTTTGCCTTCAATAAAAATTCATTTTC
1 TAATCTTTGAATTTTTCATTTTCATTTTCCAAATCAACTTTTGCATTCAATAAAAACTAATTCTC
21656396 AACAC
66 AACAC
* **
21656401 TAANTCTTTGAA-TTTT-ATTTTCATTTTCC-AATCAATTTTTTGCATTCTTTAAAAACTAATTC
1 TAA-TCTTTGAATTTTTCATTTTCATTTTCCAAATCAA-CTTTTGCATTCAATAAAAACTAATTC
21656463 TCAACA
64 TCAACA
21656469 TTAAGTTCCA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
68 6 0.11
69 40 0.70
70 5 0.09
71 6 0.11
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.48
Consensus pattern (70 bp):
TAATCTTTGAATTTTTCATTTTCATTTTCCAAATCAACTTTTGCATTCAATAAAAACTAATTCTC
AACAC
Found at i:21657585 original size:28 final size:28
Alignment explanation
Indices: 21657504--21657585 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
21657494 TTCAATACAA
* * *
21657504 TGCCTTTTCAAGGATAAAGTATAATCAT
1 TGCCTTTTCAAGGTTAAAGCATAACCAT
* *
21657532 GGCCTTTTCAATGTTCAAA-CATAACCAT
1 TGCCTTTTCAAGGTT-AAAGCATAACCAT
* *
21657560 TGCCTTTTCAAGGTTTAAGCACAACC
1 TGCCTTTTCAAGGTTAAAGCATAACC
21657586 TTTAAACATT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
27 2 0.05
28 38 0.88
29 3 0.07
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (28 bp):
TGCCTTTTCAAGGTTAAAGCATAACCAT
Found at i:21658125 original size:21 final size:21
Alignment explanation
Indices: 21658079--21658159 Score: 110
Period size: 21 Copynumber: 3.9 Consensus size: 21
21658069 TCTAGACCAA
*
21658079 ATGTATCGATACATTTT-GAA
1 ATGTATCGATACATTTTGGAG
*
21658099 ATGTATCAATACATTTTGGAG
1 ATGTATCGATACATTTTGGAG
*
21658120 ATGTATCGATGCATTTTGGAG
1 ATGTATCGATACATTTTGGAG
* *
21658141 ATGTATCCATATATTTTGG
1 ATGTATCGATACATTTTGG
21658160 GCAGAACCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 16 0.30
21 37 0.70
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTTTGGAG
Found at i:21661509 original size:3 final size:3
Alignment explanation
Indices: 21661501--21661538 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21661491 TAAATATAGT
21661501 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
21661539 GAGATAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:21664327 original size:15 final size:15
Alignment explanation
Indices: 21664309--21664359 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
21664299 ATAAAAATAG
21664309 AAGAAGAAAAAAGAA
1 AAGAAGAAAAAAGAA
*
21664324 AAGAAGAAAAAAGTA
1 AAGAAGAAAAAAGAA
21664339 AAGAAGTAAAAAAGAA
1 AAGAAG-AAAAAAGAA
*
21664355 GAGAA
1 AAGAA
21664360 AAAGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 20 0.62
16 12 0.38
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (15 bp):
AAGAAGAAAAAAGAA
Found at i:21664332 original size:8 final size:8
Alignment explanation
Indices: 21664309--21664359 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
21664299 ATAAAAATAG
21664309 AAGAAGAA
1 AAGAAGAA
21664317 AA-AAGAA
1 AAGAAGAA
21664324 AAGAAGAA
1 AAGAAGAA
*
21664332 AA-AAGTA
1 AAGAAGAA
21664339 AAGAAGTAA
1 AAGAAG-AA
21664348 AA-AAGAA
1 AAGAAGAA
*
21664355 GAGAA
1 AAGAA
21664360 AAAGAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
7 16 0.44
8 17 0.47
9 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (8 bp):
AAGAAGAA
Found at i:21664353 original size:31 final size:30
Alignment explanation
Indices: 21664301--21664359 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
21664291 CAACAATAAT
21664301 AAAAATAGAAGAAGAAAAAAGAAAAGAAGA
1 AAAAATAGAAGAAGAAAAAAGAAAAGAAGA
*
21664331 AAAAAGTA-AAGAAGTAAAAAAGAAGAGAA
1 AAAAA-TAGAAGAAG-AAAAAAGAAAAGAA
21664360 AAAGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (30 bp):
AAAAATAGAAGAAGAAAAAAGAAAAGAAGA
Found at i:21665859 original size:43 final size:43
Alignment explanation
Indices: 21665800--21665970 Score: 177
Period size: 43 Copynumber: 3.9 Consensus size: 43
21665790 TTGTGTGATA
* *
21665800 ATGATGACCCAGCTATGTGCGATGT-GGTAGTGCACATGAGTTG
1 ATGATGACCCAGCTATGTGC-AAGTAGGGAGTGCACATGAGTTG
* * * **
21665843 ATGATGACCCGGCTATGTGCAAGTAGGGAGTGCGCATAAG-CC
1 ATGATGACCCAGCTATGTGCAAGTAGGGAGTGCACATGAGTTG
* *
21665885 ATTGATGACCCAGCTATGTGC-GGTGTGGGAGTGCACATGAGCTGATG
1 A-TGATGACCCAGCTATGTGCAAGT-AGGGAGTGCACATGAG-T--TG
*
21665932 ATGATGACCCGGCTATGTGCAAGTAGGGAGTGCACATGA
1 ATGATGACCCAGCTATGTGCAAGTAGGGAGTGCACATGA
21665971 CGATGAATGA
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
42 6 0.06
43 62 0.60
46 32 0.31
47 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCAAGTAGGGAGTGCACATGAGTTG
Found at i:21665906 original size:86 final size:88
Alignment explanation
Indices: 21665801--21665964 Score: 287
Period size: 86 Copynumber: 1.9 Consensus size: 88
21665791 TGTGTGATAA
*
21665801 TGATGACCCAGCTATGTGCGATGTGGTAGTGCACATGAG-T-TGATGATGACCCGGCTATGTGCA
1 TGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTATGATGATGACCCGGCTATGTGCA
21665864 AGTAGGGAGTGCGCATAAGCCAT
66 AGTAGGGAGTGCGCATAAGCCAT
*
21665887 TGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGATGACCCGGCTATGTGC
1 TGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCT-ATGATGATGACCCGGCTATGTGC
21665952 AAGTAGGGAGTGC
65 AAGTAGGGAGTGC
21665965 ACATGACGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
86 37 0.51
87 1 0.01
89 35 0.48
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (88 bp):
TGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTATGATGATGACCCGGCTATGTGCA
AGTAGGGAGTGCGCATAAGCCAT
Found at i:21671912 original size:21 final size:21
Alignment explanation
Indices: 21671882--21671922 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21671872 TTGATTTTAA
21671882 ATAAAGGCATCAGTCTTTGTC
1 ATAAAGGCATCAGTCTTTGTC
* **
21671903 ATAAATGCATTGGTCTTTGT
1 ATAAAGGCATCAGTCTTTGT
21671923 TACGAACGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (21 bp):
ATAAAGGCATCAGTCTTTGTC
Found at i:21673795 original size:22 final size:23
Alignment explanation
Indices: 21673757--21673802 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
21673747 TTTCTACGCC
21673757 TTACTACAAGAACTAA-GCTAAA
1 TTACTACAAGAACTAAGGCTAAA
*
21673779 TTACTATCAA-AATTAAGGCTAAA
1 TTACTA-CAAGAACTAAGGCTAAA
21673802 T
1 T
21673803 AACTCTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (23 bp):
TTACTACAAGAACTAAGGCTAAA
Found at i:21679508 original size:21 final size:21
Alignment explanation
Indices: 21679484--21679531 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
21679474 TTTAAATAAG
21679484 TTCAAAAATCATTCAAGCAAT
1 TTCAAAAATCATTCAAGCAAT
* * *
21679505 TTCACAACTCATTCAAGTAAT
1 TTCAAAAATCATTCAAGCAAT
21679526 TT-AAAA
1 TTCAAAA
21679532 CTTTTCACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (21 bp):
TTCAAAAATCATTCAAGCAAT
Found at i:21679600 original size:21 final size:21
Alignment explanation
Indices: 21679558--21679658 Score: 91
Period size: 21 Copynumber: 4.8 Consensus size: 21
21679548 ACTTAGGATC
*
21679558 TTCAAAACTTAATT-AAACAAG
1 TTCAAAAC-TCATTCAAACAAG
* *
21679579 TTTAAAAC-CTATTCAAAGAAG
1 TTCAAAACTC-ATTCAAACAAG
*
21679600 TTCAAAAACTCATTCAAACAAC
1 TTC-AAAACTCATTCAAACAAG
*
21679622 TTCAAAAATCATTCAAACAAG
1 TTCAAAACTCATTCAAACAAG
*
21679643 TTTAAAGA-TCATTCAA
1 TTCAAA-ACTCATTCAA
21679659 GTAATTTTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
20 3 0.05
21 44 0.67
22 18 0.27
23 1 0.02
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.28
Consensus pattern (21 bp):
TTCAAAACTCATTCAAACAAG
Found at i:21679614 original size:22 final size:21
Alignment explanation
Indices: 21679572--21679658 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
21679562 AAACTTAATT
* *
21679572 AAACAAGTT-TAAAACCTATTC
1 AAACAAGTTCAAAAATC-ATTC
*
21679593 AAAGAAGTTCAAAAACTCATTC
1 AAACAAGTTCAAAAA-TCATTC
*
21679615 AAACAACTTCAAAAATCATTC
1 AAACAAGTTCAAAAATCATTC
* *
21679636 AAACAAGTTTAAAGATCATTC
1 AAACAAGTTCAAAAATCATTC
21679657 AA
1 AA
21679659 GTAATTTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 34 0.61
22 21 0.38
23 1 0.02
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.25
Consensus pattern (21 bp):
AAACAAGTTCAAAAATCATTC
Found at i:21687894 original size:2 final size:2
Alignment explanation
Indices: 21687882--21687913 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
21687872 GTATAAACAA
*
21687882 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21687914 GTTATAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:21708540 original size:28 final size:28
Alignment explanation
Indices: 21708504--21708581 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
21708494 ATACAATGTG
* *
21708504 TTTTAAAGGTTTAAGCATAATCATTTCC
1 TTTTAAAGGTTTAAGCATAACCATTGCC
* * *
21708532 TTTTTAAGGATCAAGCATAACCATTGCC
1 TTTTAAAGGTTTAAGCATAACCATTGCC
* *
21708560 TTTTCAAGGTTTAAGCACAACC
1 TTTTAAAGGTTTAAGCATAACC
21708582 TTTAAACATT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (28 bp):
TTTTAAAGGTTTAAGCATAACCATTGCC
Found at i:21709091 original size:20 final size:20
Alignment explanation
Indices: 21709066--21709171 Score: 88
Period size: 20 Copynumber: 5.0 Consensus size: 20
21709056 TCTAGACTAC
*
21709066 ATGTATCTATACATTTTGGA
1 ATGTATCCATACATTTTGGA
*
21709086 ATGTATCAATACATTTTGGAA
1 ATGTATCCATACATTTTGG-A
* **
21709107 ATGTGTCCATACA-TTTCAA
1 ATGTATCCATACATTTTGGA
*
21709126 AGTGTATTAATACATTACATTTTGGA
1 A-TG---T-ATCCA-TACATTTTGGA
21709152 ATGTATCCATACATTTTGGA
1 ATGTATCCATACATTTTGGA
21709172 TAGAACCATT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
19 2 0.03
20 34 0.50
21 16 0.24
22 1 0.01
23 1 0.01
24 3 0.04
25 6 0.09
26 5 0.07
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCCATACATTTTGGA
Found at i:21709483 original size:21 final size:21
Alignment explanation
Indices: 21709437--21709508 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
21709427 TTTAAGAACT
*
21709437 ATTCAAACAAGTTCAAAAAAACTC
1 ATTCAAACAACTTC--AAAAA-TC
*
21709461 ATTCAAATAACTTCAAAAATC
1 ATTCAAACAACTTCAAAAATC
* *
21709482 ATTCAAACAAGTTCAAAGATC
1 ATTCAAACAACTTCAAAAATC
21709503 ATTCAA
1 ATTCAA
21709509 GTAATTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
21 26 0.60
22 5 0.12
24 12 0.28
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.25
Consensus pattern (21 bp):
ATTCAAACAACTTCAAAAATC
Found at i:21709595 original size:21 final size:21
Alignment explanation
Indices: 21709571--21709637 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
21709561 TTAAAAAACA
* * *
21709571 CATTCAAACAACTTTAAAAAT
1 CATTCAAACAAGTTCAAAGAT
*
21709592 CATTTAAACAAGTTCAAAGAT
1 CATTCAAACAAGTTCAAAGAT
*
21709613 CACTCAAACAAGTTCAAAGAT
1 CATTCAAACAAGTTCAAAGAT
21709634 CATT
1 CATT
21709638 GAAGCAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (21 bp):
CATTCAAACAAGTTCAAAGAT
Found at i:21711151 original size:36 final size:36
Alignment explanation
Indices: 21711111--21711181 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
21711101 AATGGCTCTA
* *
21711111 TTATTCTATCAGTTGCTTTAGCATTGGACATGACTG
1 TTATTCTATCAGCTACTTTAGCATTGGACATGACTG
* * * *
21711147 TTATTCTGTTAGCTACTTTGGCATTGGACGTGACT
1 TTATTCTATCAGCTACTTTAGCATTGGACATGACT
21711182 TTGTTAATCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (36 bp):
TTATTCTATCAGCTACTTTAGCATTGGACATGACTG
Found at i:21715906 original size:42 final size:42
Alignment explanation
Indices: 21715843--21715953 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
21715833 TCGTCAACTC
* * * *
21715843 ATGTGCATTCCCCACTAGCACATGGCTAAGTCATCATCGACTT
1 ATGTGCACT-CCCACTCGCACATAGCCAAGTCATCATCGACTT
** *
21715886 ATGTGCACTCCCACTCGCACATAGCCGGGTCATCATCGGCTT
1 ATGTGCACTCCCACTCGCACATAGCCAAGTCATCATCGACTT
* **
21715928 ATGTACACTCTTACTCGCACATAGCC
1 ATGTGCACTCCCACTCGCACATAGCC
21715954 GGGTCCACAT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
42 50 0.86
43 8 0.14
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGTGCACTCCCACTCGCACATAGCCAAGTCATCATCGACTT
Found at i:21715954 original size:42 final size:42
Alignment explanation
Indices: 21715872--21715958 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
21715862 ACATGGCTAA
*
21715872 GTCATCATCGACTTATGTGCACTCCCACTCGCACATAGCCGG
1 GTCATCATCGACTTATGTACACTCCCACTCGCACATAGCCGG
* **
21715914 GTCATCATCGGCTTATGTACACTCTTACTCGCACATAGCCGG
1 GTCATCATCGACTTATGTACACTCCCACTCGCACATAGCCGG
21715956 GTC
1 GTC
21715959 CACATCAACG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (42 bp):
GTCATCATCGACTTATGTACACTCCCACTCGCACATAGCCGG
Found at i:21737939 original size:28 final size:27
Alignment explanation
Indices: 21737903--21737955 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
21737893 ATATCCTGGT
*
21737903 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
21737930 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
21737956 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:21738023 original size:20 final size:20
Alignment explanation
Indices: 21738000--21738045 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
21737990 CTTCTAAACC
21738000 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
21738020 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
21738040 TCAAAT
1 TCAAAT
21738046 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:21743438 original size:22 final size:22
Alignment explanation
Indices: 21743395--21743438 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21743385 TTTAAAACAA
* *
21743395 CTTTAAAACTAAAAACTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
21743417 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
21743439 ACCAATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:21750645 original size:28 final size:27
Alignment explanation
Indices: 21750609--21750661 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
21750599 ATATCCTGGT
*
21750609 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
21750636 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
21750662 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:21750729 original size:20 final size:20
Alignment explanation
Indices: 21750706--21750751 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
21750696 CTTCTAAACC
21750706 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
21750726 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
21750746 TCAAAT
1 TCAAAT
21750752 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:21758683 original size:28 final size:27
Alignment explanation
Indices: 21758647--21758699 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
21758637 ATATCCTGGT
*
21758647 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
21758674 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
21758700 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:21758767 original size:20 final size:20
Alignment explanation
Indices: 21758744--21758789 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
21758734 CTTCTAAACC
21758744 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
21758764 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
21758784 TCAAAT
1 TCAAAT
21758790 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:21760263 original size:4 final size:4
Alignment explanation
Indices: 21760230--21760300 Score: 61
Period size: 4 Copynumber: 16.8 Consensus size: 4
21760220 TATATGTGTG
* * *
21760230 ATTA TATTA ATTG ATTA ATTA TTTTAA ATTA ATTA ATTA ACTA ATTA ATTAA
1 ATTA -ATTA ATTA ATTA ATTA -ATT-A ATTA ATTA ATTA ATTA ATTA ATT-A
* *
21760282 ATTA ACTA ATTA ACTA ATT
1 ATTA ATTA ATTA ATTA ATT
21760301 TATTTATAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
4 40 0.75
5 12 0.23
6 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:21760286 original size:17 final size:16
Alignment explanation
Indices: 21760256--21760300 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 16
21760246 AATTATTTTA
21760256 AATTAATTAATTAACT
1 AATTAATTAATTAACT
21760272 AATTAATTAAATTAACT
1 AATTAATT-AATTAACT
*
21760289 AATTAACTAATT
1 AATTAATTAATT
21760301 TATTTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAATTAATTAACT
Found at i:21760291 original size:25 final size:25
Alignment explanation
Indices: 21760253--21760300 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
21760243 ATTAATTATT
*
21760253 TTAAATTAATTAATTAACTAATTAA
1 TTAAATTAACTAATTAACTAATTAA
21760278 TTAAATTAACTAATTAACTAATT
1 TTAAATTAACTAATTAACTAATT
21760301 TATTTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
TTAAATTAACTAATTAACTAATTAA
Found at i:21760316 original size:25 final size:24
Alignment explanation
Indices: 21760253--21760317 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
21760243 ATTAATTATT
*
21760253 TTAAATTAATTAATTAACTAATTAA
1 TTAAA-TAAATAATTAACTAATTAA
* *
21760278 TTAAATTAACTAATTAACTAATTTAT
1 TTAAA-TAAATAATTAACTAA-TTAA
21760304 TTATAA-AAATAATT
1 TTA-AATAAATAATT
21760318 TAAATTAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 27 0.77
26 6 0.17
27 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (24 bp):
TTAAATAAATAATTAACTAATTAA
Found at i:21773157 original size:12 final size:12
Alignment explanation
Indices: 21773142--21773174 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
21773132 ACACACACAC
*
21773142 ATATGTATATGT
1 ATATATATATGT
21773154 ATATATATATGT
1 ATATATATATGT
21773166 ATATATATA
1 ATATATATA
21773175 ATGCAGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (12 bp):
ATATATATATGT
Found at i:21776050 original size:47 final size:47
Alignment explanation
Indices: 21775998--21776091 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
21775988 AATTGATTTG
21775998 ACGTGATCAAGTATTAATAT-GAATTTTATAAATGTAAACATAAATTA
1 ACGTGATCAAGTATTAATATAG-ATTTTATAAATGTAAACATAAATTA
*
21776045 ACGTGATCAAGTATTAATATAGATTTTATAAATGTGAACATAAATTA
1 ACGTGATCAAGTATTAATATAGATTTTATAAATGTAAACATAAATTA
21776092 TCCTTTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 44 0.98
48 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (47 bp):
ACGTGATCAAGTATTAATATAGATTTTATAAATGTAAACATAAATTA
Found at i:21776622 original size:29 final size:29
Alignment explanation
Indices: 21776588--21776643 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
21776578 TCTATTTTAA
* *
21776588 GTTAAATTTTATGTAATTTTTATCTCTAT
1 GTTAAATTCTATGTAATTTTAATCTCTAT
21776617 GTTAAATTCTATGTAATTTTAATCTCT
1 GTTAAATTCTATGTAATTTTAATCTCT
21776644 GTTCTCACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (29 bp):
GTTAAATTCTATGTAATTTTAATCTCTAT
Found at i:21777263 original size:21 final size:22
Alignment explanation
Indices: 21777225--21777268 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
21777215 TTTTTNTATG
*
21777225 ATTAATTTATAAATTAAA-ATT
1 ATTAATTTATAAAGTAAAGATT
21777246 ATTAATTTA-ATAAGTAAAGATT
1 ATTAATTTATA-AAGTAAAGATT
21777268 A
1 A
21777269 AACACATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 15 0.75
22 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTAATTTATAAAGTAAAGATT
Found at i:21778469 original size:21 final size:23
Alignment explanation
Indices: 21778435--21778483 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
21778425 AATGTAGGTA
21778435 ATTTTAAAATTTATCT-A-TTTT
1 ATTTTAAAATTTATCTAATTTTT
*
21778456 ATTTT-AAATATTATTTAATTTTT
1 ATTTTAAAAT-TTATCTAATTTTT
21778479 ATTTT
1 ATTTT
21778484 TATTCTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 10 0.42
22 1 0.04
23 9 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTAAAATTTATCTAATTTTT
Found at i:21779753 original size:30 final size:32
Alignment explanation
Indices: 21779676--21779787 Score: 94
Period size: 35 Copynumber: 3.6 Consensus size: 32
21779666 CCTAGCTACA
* * *
21779676 AGGACTTACTTGAAAAGAAAGAATAGTTTGGG
1 AGGACTAAATTGAAAAGAAAGAAAAGTTTGGG
21779708 AGAAAGACTAAATTGAAAAGAAAGAAAAG-TT-GG
1 AG---GACTAAATTGAAAAGAAAGAAAAGTTTGGG
* * *
21779741 AGGACTCAATTG--AA-AAA-AATATTTTGGG
1 AGGACTAAATTGAAAAGAAAGAAAAGTTTGGG
21779769 A-GACTAAATTGAAAAGAAA
1 AGGACTAAATTGAAAAGAAA
21779788 AATAAAGAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
26 3 0.05
27 14 0.22
28 5 0.08
29 2 0.03
30 12 0.18
32 2 0.03
33 4 0.06
34 2 0.03
35 21 0.32
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.21
Consensus pattern (32 bp):
AGGACTAAATTGAAAAGAAAGAAAAGTTTGGG
Found at i:21779791 original size:30 final size:31
Alignment explanation
Indices: 21779685--21779791 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 31
21779675 AAGGACTTAC
*
21779685 TTGAAAAGAAAGAATAGTTTGGGAGAAAGACTAAA
1 TTGAAAAGAAAGAATA-TTTTGG-G--AGACTAAA
** *
21779720 TTGAAAAGAAAGAA-AAGTT-GGAGGACTCAA
1 TTGAAAAGAAAGAATATTTTGGGA-GACTAAA
21779750 TTG--AA-AAA-AATATTTTGGGAGACTAAA
1 TTGAAAAGAAAGAATATTTTGGGAGACTAAA
21779777 TTGAAAAGAAA-AATA
1 TTGAAAAGAAAGAATA
21779792 AAGAAGGAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
26 2 0.03
27 15 0.25
28 5 0.08
29 3 0.05
30 16 0.27
31 1 0.02
32 1 0.02
33 1 0.02
34 1 0.02
35 14 0.24
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.21
Consensus pattern (31 bp):
TTGAAAAGAAAGAATATTTTGGGAGACTAAA
Found at i:21780513 original size:35 final size:36
Alignment explanation
Indices: 21780467--21780550 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 36
21780457 TTTTTTATTG
* * * **
21780467 AATTTCGGCCAAGAAGAAAGAGTGAGAGC-CTTCAA
1 AATTTTGGCCAAGAAGAAAGAGAGAGAACACTAAAA
*
21780502 AATTTTGGCCAAGATGAAAGAGAGAGAACACTAAAA
1 AATTTTGGCCAAGAAGAAAGAGAGAGAACACTAAAA
21780538 AATTTTGGCCAAG
1 AATTTTGGCCAAG
21780551 GCTTCTAGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 25 0.60
36 17 0.40
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (36 bp):
AATTTTGGCCAAGAAGAAAGAGAGAGAACACTAAAA
Found at i:21781078 original size:21 final size:21
Alignment explanation
Indices: 21781054--21781099 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21781044 ACAATGATTA
21781054 TCTTAATCTA-GACAAC-ACTTG
1 TCTTAA-CTATGAC-ACTACTTG
21781075 TCTTAACTATGACACTACTTG
1 TCTTAACTATGACACTACTTG
21781096 TCTT
1 TCTT
21781100 TGGATATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (21 bp):
TCTTAACTATGACACTACTTG
Found at i:21781459 original size:186 final size:182
Alignment explanation
Indices: 21781145--21781514 Score: 591
Period size: 186 Copynumber: 2.0 Consensus size: 182
21781135 AACTTTTAAG
* *
21781145 ATAACTCTTGTCTTAGCAAGATTAGTTCCAATTGAGGCAACTCTTGACTTAATTAAAACAACAGA
1 ATAACTCTTGTCTTAGCAAGATTAGTTCAAATTGAAGCAACTCTTGACTTAATTAAAACAACAGA
* *
21781210 ATCTTGTTCAAATTAAGACAACCCGTGTCTTAATTCAACAACAACATATGCATATATATATATAT
66 ATCTTGTTCAAATTAAGACAACCCATGTCTTAATTCAACAACAACATATACATA-A-ATATATAT
* * *
21781275 ATATAT-ATTCTTGTCCAAATTAAGGCAACTCTTATCTTAATTAAGACAACTTATAT
129 ATATATCATT-TT-T-TAAATTAAGACAACTCTTATCTTAATTAAGACAACATATAT
21781331 ATAACTCTTGTCTTAGCAAGATTAGTTCAAATTGAAGCAACTCTTGACTTAATTAAAACAACAGA
1 ATAACTCTTGTCTTAGCAAGATTAGTTCAAATTGAAGCAACTCTTGACTTAATTAAAACAACAGA
*
21781396 ATCTTGTTC-AATTAAGACAACCCATGTCTTAATTCAAGCAACAACATATATATAAATATATATA
66 ATCTTGTTCAAATTAAGACAACCCATGTCTTAATTCAA-CAACAACATATACATAAATATATATA
*
21781460 TATATCATTTTTTAAATTAAGACAACTCTTGTCTTAATTAAGACAACATATAT
130 TATATCATTTTTTAAATTAAGACAACTCTTATCTTAATTAAGACAACATATAT
21781513 AT
1 AT
21781515 CCTTGTGTGT
Statistics
Matches: 173, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
182 39 0.23
183 1 0.01
184 16 0.09
185 31 0.18
186 86 0.50
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (182 bp):
ATAACTCTTGTCTTAGCAAGATTAGTTCAAATTGAAGCAACTCTTGACTTAATTAAAACAACAGA
ATCTTGTTCAAATTAAGACAACCCATGTCTTAATTCAACAACAACATATACATAAATATATATAT
ATATCATTTTTTAAATTAAGACAACTCTTATCTTAATTAAGACAACATATAT
Found at i:21785916 original size:37 final size:37
Alignment explanation
Indices: 21785838--21785991 Score: 107
Period size: 37 Copynumber: 4.2 Consensus size: 37
21785828 TTGTAACTAT
* *
21785838 ATTCTCCACCAATTGCTTTGGCATTGAGAGTTATTTA
1 ATTCTCCACCAATTGCTTCGGCATTGAGAGTGATTTA
* * * *
21785875 ATTCTTCACCAATTGCTTCGGCATTTAGCGTGATTTG
1 ATTCTCCACCAATTGCTTCGGCATTGAGAGTGATTTA
** * * *
21785912 ATTCTCTGCCAGTTACTTCGACGA-TGA-ACGTGATTTA
1 ATTCTCCACCAATTGCTTCGGC-ATTGAGA-GTGATTTA
*** * * *
21785949 ATTCTCCATTGATTGCTGT-GGCACTGAGTGTGATTTG
1 ATTCTCCACCAATTGCT-TCGGCATTGAGAGTGATTTA
21785986 ATTCTC
1 ATTCTC
21785992 TGTCTGTTGC
Statistics
Matches: 87, Mismatches: 25, Indels: 10
0.71 0.20 0.08
Matches are distributed among these distances:
36 1 0.01
37 84 0.97
38 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (37 bp):
ATTCTCCACCAATTGCTTCGGCATTGAGAGTGATTTA
Found at i:21786019 original size:37 final size:37
Alignment explanation
Indices: 21785887--21786028 Score: 103
Period size: 37 Copynumber: 3.8 Consensus size: 37
21785877 TCTTCACCAA
** * * *
21785887 TTGCTTCGGCATTTAGCGTGATTTGATTCTCTGCCAG
1 TTGCTTCGGCATCGAACGTGATTTGATTCTCTGTCTG
* * * **
21785924 TTACTTCGACGAT-GAACGTGATTTAATTCTCCAT-TG
1 TTGCTTCGGC-ATCGAACGTGATTTGATTCTCTGTCTG
**
21785960 ATTGCTGT-GGCA-CTGAGTGTGATTTGATTCTCTGTCTG
1 -TTGCT-TCGGCATC-GAACGTGATTTGATTCTCTGTCTG
*
21785998 TTGCTTCGGCATCGAACGTGATTTGACTCTC
1 TTGCTTCGGCATCGAACGTGATTTGATTCTC
21786029 CGTCGGCTAC
Statistics
Matches: 78, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
36 3 0.04
37 69 0.88
38 6 0.08
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (37 bp):
TTGCTTCGGCATCGAACGTGATTTGATTCTCTGTCTG
Found at i:21793381 original size:38 final size:38
Alignment explanation
Indices: 21793330--21793402 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
21793320 AGCTATCCCT
21793330 CCGTCTAGCTCTCCAAGGCCATCGAGGTATATATCTCG
1 CCGTCTAGCTCTCCAAGGCCATCGAGGTATATATCTCG
* *
21793368 CCGTCTAGCTCTCCAATGCCATCGAGGTCTATATC
1 CCGTCTAGCTCTCCAAGGCCATCGAGGTATATATC
21793403 GCCATCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (38 bp):
CCGTCTAGCTCTCCAAGGCCATCGAGGTATATATCTCG
Found at i:21793678 original size:15 final size:15
Alignment explanation
Indices: 21793658--21793690 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
21793648 TTTATTTGGC
21793658 ATTACGTGACTGAAT
1 ATTACGTGACTGAAT
21793673 ATTACGTGACTGAAT
1 ATTACGTGACTGAAT
21793688 ATT
1 ATT
21793691 TGTTGAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (15 bp):
ATTACGTGACTGAAT
Found at i:21793732 original size:22 final size:22
Alignment explanation
Indices: 21793704--21793759 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
21793694 TGAGTATTGT
21793704 GTGACTTATTTGTAAGCATTAC
1 GTGACTTATTTGTAAGCATTAC
* *
21793726 GTGACTTGTTTGTAAGCATTGC
1 GTGACTTATTTGTAAGCATTAC
21793748 GTGACTATATTT
1 GTGACT-TATTT
21793760 ACCTAATGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.43
Consensus pattern (22 bp):
GTGACTTATTTGTAAGCATTAC
Found at i:21795588 original size:15 final size:16
Alignment explanation
Indices: 21795563--21795592 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21795553 TTATAATATT
21795563 ATAATTAAAATAAAAA
1 ATAATTAAAATAAAAA
21795579 ATAA-TAAAATAAAA
1 ATAATTAAAATAAAA
21795593 TATATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAATTAAAATAAAAA
Found at i:21795657 original size:24 final size:24
Alignment explanation
Indices: 21795599--21795658 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
21795589 AAAATATATT
21795599 ATATAAGAAT-TAAAAATTAAAATA
1 ATATAA-AATATAAAAATTAAAATA
*
21795623 AAATAAAATATAAGAAATTAAAAT-
1 ATATAAAATATAA-AAATTAAAATA
*
21795647 TTATAAAATATA
1 ATATAAAATATA
21795659 GGTAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 18 0.58
25 10 0.32
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (24 bp):
ATATAAAATATAAAAATTAAAATA
Found at i:21795696 original size:21 final size:21
Alignment explanation
Indices: 21795672--21795734 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
21795662 AAAAGAAATT
21795672 AAAATAAAATATATAATATAA
1 AAAATAAAATATATAATATAA
* * *
21795693 AAAATTATAT-TA-AAAATAA
1 AAAATAAAATATATAATATAA
*
21795712 AAAATATAATATTATAATA-AA
1 AAAATAAAATA-TATAATATAA
21795733 AA
1 AA
21795735 TTAAAACTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
19 13 0.41
20 2 0.06
21 14 0.44
22 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATAAAATATATAATATAA
Found at i:21795732 original size:26 final size:26
Alignment explanation
Indices: 21795669--21795749 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 26
21795659 GGTAAAAGAA
* * * *
21795669 ATTAAAATAAAATATATAATATAAAAA
1 ATTATAATAAAA-ATAAAAAATAAAAT
* *
21795696 ATTATATTAAAAATAAAAAATATAAT
1 ATTATAATAAAAATAAAAAATAAAAT
* *
21795722 ATTATAATAAAAATTAAAACTAAAAT
1 ATTATAATAAAAATAAAAAATAAAAT
21795748 AT
1 AT
21795750 ATGACATTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 34 0.77
27 10 0.23
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (26 bp):
ATTATAATAAAAATAAAAAATAAAAT
Found at i:21795738 original size:33 final size:30
Alignment explanation
Indices: 21795574--21795751 Score: 102
Period size: 33 Copynumber: 5.8 Consensus size: 30
21795564 TAATTAAAAT
* *
21795574 AAAAAATAATAAAATAAAATATATTATATAAGA
1 AAAAAATTA-AAAATAAAATATATAATAT-A-A
21795607 ATTAAAAATT-AAAATAAAATA-A-AATAT--
1 A--AAAAATTAAAAATAAAATATATAATATAA
* * **
21795634 AAGAAATTAAAATTTATAAA-ATAT-AGGTAA
1 AAAAAATTAAAA-ATA-AAATATATAATATAA
*
21795664 AAGAAATT-AAAATAAAATATATAATATAA
1 AAAAAATTAAAAATAAAATATATAATATAA
*
21795693 AAAATTATATTAAAAATAAAAAATATAATATTATA
1 AAAA--A-ATTAAAAATAAAATATATAATA-TA-A
*
21795728 ATAAAAATTAAAACTAAAATATAT
1 A-AAAAATTAAAAATAAAATATAT
21795752 GACATTAAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
25 6 0.05
26 3 0.03
27 7 0.06
28 12 0.11
29 10 0.09
30 8 0.07
31 5 0.04
32 4 0.04
33 45 0.39
34 3 0.03
35 8 0.07
36 3 0.03
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.30
Consensus pattern (30 bp):
AAAAAATTAAAAATAAAATATATAATATAA
Done.