Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 122 of 190
Found at i:36651119 original size:6 final size:6
Alignment explanation
Indices: 36651078--36651118 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
36651068 AATAATAGTA
*
36651078 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATA ATAAT
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAAT
36651119 ACAAAATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (6 bp):
ATAATG
Found at i:36658969 original size:45 final size:45
Alignment explanation
Indices: 36658890--36659180 Score: 447
Period size: 45 Copynumber: 6.5 Consensus size: 45
36658880 CGACTACTGT
* * * *
36658890 TACTGTTACCGTTATTGTTACTGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
*
36658935 TACTATTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
*
36658980 TACTGTTACTGTTATTGTTACCGACTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
*
36659025 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
*
36659070 TACTGTTACTGTTACTGTTATCGACTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
* * * * *
36659115 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
* *
36659160 TACTGTTACTGCTACCGTTAC
1 TACTGTTACTGTTACTGTTAC
36659181 TGATTACTGT
Statistics
Matches: 226, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 226 1.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAA
Found at i:36660704 original size:22 final size:22
Alignment explanation
Indices: 36660679--36660720 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
36660669 TTTTAGGGAG
*
36660679 ACTAAAGTGAAATTTTAAAATC
1 ACTAAAGTAAAATTTTAAAATC
**
36660701 ACTAATTTAAAATTTTAAAA
1 ACTAAAGTAAAATTTTAAAA
36660721 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
ACTAAAGTAAAATTTTAAAATC
Found at i:36661029 original size:26 final size:27
Alignment explanation
Indices: 36660977--36661030 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
36660967 ATTTTTTTAA
**
36660977 TTTTAAAATATTTTTAAAATACTTTTT
1 TTTTAAAATATTTTTAAAATAAATTTT
*
36661004 TTTTAAATTA-TTTTAAAATAAATTTT
1 TTTTAAAATATTTTTAAAATAAATTTT
36661030 T
1 T
36661031 AGTGTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTAAAATATTTTTAAAATAAATTTT
Found at i:36667514 original size:32 final size:32
Alignment explanation
Indices: 36667477--36667541 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
36667467 TTTAAATATA
36667477 GTTACTAGGTATGGAACAACTTTAAAACTTAT
1 GTTACTAGGTATGGAACAACTTTAAAACTTAT
* * *
36667509 GTTACTGGGTATGGAATAATTTTAAAACTTAT
1 GTTACTAGGTATGGAACAACTTTAAAACTTAT
36667541 G
1 G
36667542 GCCAGCATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (32 bp):
GTTACTAGGTATGGAACAACTTTAAAACTTAT
Found at i:36671349 original size:67 final size:67
Alignment explanation
Indices: 36671221--36671352 Score: 174
Period size: 67 Copynumber: 2.0 Consensus size: 67
36671211 TTTAAAATTT
* ** * ******
36671221 AATTTCAATTATTAACACTGTTAAAATTATTTTGTTAAATTCATATTCTTTGTTTTTTTAATTTT
1 AATTTCAATTATTAACAATGCCAAAATTATTTTGTTAAATTCATATTCATTACAACATTAATTTT
36671286 AA
66 AA
36671288 AATTTCAATTATTAACAATGCCAAAATTATTTTGTTAAATTCATATTCATTACAACATTAATTTT
1 AATTTCAATTATTAACAATGCCAAAATTATTTTGTTAAATTCATATTCATTACAACATTAATTTT
36671353 TTAGTTATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (67 bp):
AATTTCAATTATTAACAATGCCAAAATTATTTTGTTAAATTCATATTCATTACAACATTAATTTT
AA
Found at i:36672175 original size:16 final size:16
Alignment explanation
Indices: 36672154--36672224 Score: 74
Period size: 16 Copynumber: 4.4 Consensus size: 16
36672144 GTTTGGTTCA
36672154 CTGTAATAGAATAAAG
1 CTGTAATAGAATAAAG
36672170 CTGTAATTA-AATAGAA-
1 CTGTAA-TAGAATA-AAG
* * *
36672186 TTGTAATTGAATAGAG
1 CTGTAATAGAATAAAG
*
36672202 CTGTAATGGAATAAAG
1 CTGTAATAGAATAAAG
36672218 CTGTAAT
1 CTGTAAT
36672225 CAGTAATTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 2 0.04
16 39 0.87
17 4 0.09
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.31
Consensus pattern (16 bp):
CTGTAATAGAATAAAG
Found at i:36672223 original size:32 final size:32
Alignment explanation
Indices: 36672153--36672224 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
36672143 CGTTTGGTTC
*
36672153 ACTGTAATAGAATAAAGCTGTAATTAAATAGA
1 ACTGTAATAGAATAAAGCTGTAATGAAATAGA
* * * *
36672185 ATTGTAATTGAATAGAGCTGTAATGGAATA-A
1 ACTGTAATAGAATAAAGCTGTAATGAAATAGA
36672216 AGCTGTAAT
1 A-CTGTAAT
36672225 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (32 bp):
ACTGTAATAGAATAAAGCTGTAATGAAATAGA
Found at i:36672296 original size:44 final size:46
Alignment explanation
Indices: 36672206--36672296 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 46
36672196 ATAGAGCTGT
36672206 AATGGAATAAAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAAAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
*
36672252 AATGGAATAGAA-CTGTAAT-AGT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATA-AAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGG
36672296 A
1 A
36672297 GTGATGTTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 1 0.02
44 20 0.48
45 3 0.07
46 16 0.38
47 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (46 bp):
AATGGAATAAAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
Found at i:36672481 original size:58 final size:58
Alignment explanation
Indices: 36672402--36672525 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 58
36672392 TTTTAAGAAG
* *
36672402 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
36672460 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
36672518 ATTATTAT
1 ATTATTAT
36672526 ATGAATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.37
58 37 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:36676510 original size:47 final size:47
Alignment explanation
Indices: 36676459--36676550 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
36676449 TTTTGTAGTG
36676459 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
*
36676506 TTAATTATAATTTTTAATCAAACAATATAAGTAGTATAAAACATT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATT
36676551 ATTTGAAGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (47 bp):
TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:36683408 original size:18 final size:18
Alignment explanation
Indices: 36683373--36683406 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36683363 TAATAATTAA
36683373 ATTTAAAAGTTTATAAAT
1 ATTTAAAAGTTTATAAAT
36683391 ATTTAAAA-TTTATAAA
1 ATTTAAAAGTTTATAAA
36683407 ATCAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTTAAAAGTTTATAAAT
Found at i:36685317 original size:45 final size:44
Alignment explanation
Indices: 36685268--36685409 Score: 124
Period size: 45 Copynumber: 3.2 Consensus size: 44
36685258 CTAGTAGAAA
*
36685268 ATTTTATCTTTGATATTTTGTTGTGTATTCACAACCCAGTGGAAG
1 ATTTTATCTTCGATATTTTGTTGTGTA-TCACAACCCAGTGGAAG
* * * * * *
36685313 ATTTTATCTGCGATATTTTGCTGTGCACCCACAACCTAGTGGTAG
1 ATTTTATCTTCGATATTTTGTTGTGTA-TCACAACCCAGTGGAAG
* * * * * *
36685358 ATTTCATCTGTGGAT-TTTTGTTATGTATCTACAGCCCAGCGGCAG
1 ATTTTATCT-TCGATATTTTGTTGTGTATC-ACAACCCAGTGGAAG
36685403 ATTTTAT
1 ATTTTAT
36685410 ATGCGAAACC
Statistics
Matches: 75, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
44 1 0.01
45 71 0.95
46 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (44 bp):
ATTTTATCTTCGATATTTTGTTGTGTATCACAACCCAGTGGAAG
Found at i:36686944 original size:30 final size:29
Alignment explanation
Indices: 36686875--36686945 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
36686865 CTTTTCGTAA
* *
36686875 TTTAAAATTTAGTTTTTATATTTTTTATT
1 TTTAAAATTTAGTTTTTATATTTTTCAAT
*
36686904 TTTAGGAATTTAGTTTCTT-TATTTTTCAGAT
1 TTTA-AAATTTAGTTT-TTATATTTTTCA-AT
36686935 TTTAAAATTTA
1 TTTAAAATTTA
36686946 AGTCCAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 4 0.11
30 24 0.69
31 7 0.20
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (29 bp):
TTTAAAATTTAGTTTTTATATTTTTCAAT
Found at i:36687386 original size:24 final size:23
Alignment explanation
Indices: 36687370--36687413 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
36687360 TAATCAAAGT
36687370 CAAATATATTATGCTAATAAATG
1 CAAATATATTATGCTAATAAATG
* * *
36687393 CTAATATATTATCCTCATAAA
1 CAAATATATTATGCTAATAAA
36687414 CACTAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (23 bp):
CAAATATATTATGCTAATAAATG
Found at i:36687419 original size:23 final size:23
Alignment explanation
Indices: 36687372--36687419 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
36687362 ATCAAAGTCA
* **
36687372 AATATATTATGCTAATAAATGCT
1 AATATATTATCCTAATAAACACT
*
36687395 AATATATTATCCTCATAAACACT
1 AATATATTATCCTAATAAACACT
36687418 AA
1 AA
36687420 ATTTTCTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (23 bp):
AATATATTATCCTAATAAACACT
Found at i:36690390 original size:43 final size:43
Alignment explanation
Indices: 36690342--36690424 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
36690332 TGTTAGTAGA
** *
36690342 TTCGAATTGATAATACTGTTAAAGTGTGGTTATATGACTATTG
1 TTCGAATTGATAATACCATTAAAGTGTGGTTACATGACTATTG
36690385 TTCGAATTGATAATACCATTAAAGTGTGGTTACATGACTA
1 TTCGAATTGATAATACCATTAAAGTGTGGTTACATGACTA
36690425 CTTTTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (43 bp):
TTCGAATTGATAATACCATTAAAGTGTGGTTACATGACTATTG
Found at i:36691334 original size:26 final size:27
Alignment explanation
Indices: 36691289--36691345 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
36691279 GTCATAACTT
36691289 TATAGATTTTTTTAAGAC-TTAAAAAA
1 TATAGATTTTTTTAAGACTTTAAAAAA
*
36691315 TATA-ATTTTTATTATA-ACTTTATAAAA
1 TATAGATTTTT-TTA-AGACTTTAAAAAA
36691342 TATA
1 TATA
36691346 CAAATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
26 9 0.33
27 12 0.44
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (27 bp):
TATAGATTTTTTTAAGACTTTAAAAAA
Found at i:36692060 original size:24 final size:25
Alignment explanation
Indices: 36692008--36692060 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
36691998 CTTGAAAACT
* *
36692008 TAATCTTTTTAAAAATATTTATGAA
1 TAATGTTTTTAAAAATATTTATAAA
36692033 -AATGTTTTT-AAAAT-TTTATCAAA
1 TAATGTTTTTAAAAATATTTAT-AAA
36692056 TAATG
1 TAATG
36692061 CTGAAAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 5 0.21
23 7 0.29
24 12 0.50
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (25 bp):
TAATGTTTTTAAAAATATTTATAAA
Found at i:36693456 original size:29 final size:29
Alignment explanation
Indices: 36693384--36693546 Score: 134
Period size: 30 Copynumber: 5.5 Consensus size: 29
36693374 TTTTAAAATT
36693384 TTACATTTTGACCCC-AAACTTTTCTAAAA
1 TTACATTTTGACCCCTAAAC-TTTCTAAAA
*
36693413 TTTACATTTTGACCCCAAAACTTTCTAAAA
1 -TTACATTTTGACCCCTAAACTTTCTAAAA
** * *
36693443 TTACATTTCAACCCTTATACTTTCTCAAAA
1 TTACATTTTGACCCCTAAACTTTCT-AAAA
* * * *
36693473 TTTCACTTTGACCCCTAAACTCTCAAGAAA
1 TTACATTTTGACCCCTAAACTTTCTA-AAA
* * **
36693503 TTACATTTTGGCCCAT-ATTTTTGCTAAAA
1 TTACATTTTGACCCCTAAACTTT-CTAAAA
36693532 TTACACTTTTG-CCCC
1 TTACA-TTTTGACCCC
36693547 AGAAGCTTTG
Statistics
Matches: 106, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
29 35 0.33
30 67 0.63
31 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (29 bp):
TTACATTTTGACCCCTAAACTTTCTAAAA
Found at i:36693532 original size:59 final size:57
Alignment explanation
Indices: 36693384--36693540 Score: 152
Period size: 59 Copynumber: 2.6 Consensus size: 57
36693374 TTTTAAAATT
* * * * *
36693384 TTACATTTTGACCCCAAACTTTTCTAAAATTTACATTTTGACCCCAAAACTTTCTAAAA
1 TTACATTTTGA-CCCATATTTTTCTAAAATTT-CACTTTGACCCCAAAACTCTCAAAAA
** * * *
36693443 TTACATTTCAACCCTTATACTTTCTCAAAATTTCACTTTGACCCCTAAACTCTCAAGAAA
1 TTACATTTTGACCCATAT-TTTTCT-AAAATTTCACTTTGACCCCAAAACTCTCAA-AAA
* *
36693503 TTACATTTTGGCCCATATTTTTGCTAAAATTACACTTT
1 TTACATTTTGACCCATATTTTT-CTAAAATTTCACTTT
36693541 TGCCCCAGAA
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
58 4 0.05
59 48 0.62
60 26 0.33
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.39
Consensus pattern (57 bp):
TTACATTTTGACCCATATTTTTCTAAAATTTCACTTTGACCCCAAAACTCTCAAAAA
Found at i:36694106 original size:11 final size:11
Alignment explanation
Indices: 36694086--36694175 Score: 72
Period size: 12 Copynumber: 7.7 Consensus size: 11
36694076 AGAAGAAGAG
36694086 AAGAAGAAAAAA
1 AAGAA-AAAAAA
36694098 AAGAAAAAAAAA
1 AAG-AAAAAAAA
* *
36694110 AAGAGGAAGAAA
1 AAGA-AAAAAAA
* *
36694122 AAGAGAGAAAA
1 AAGAAAAAAAA
36694133 AAGAAAGAAAAA
1 AAGAAA-AAAAA
*
36694145 AAGAAAATAAA
1 AAGAAAAAAAA
*
36694156 AAGTAATAAAAA
1 AAG-AAAAAAAA
*
36694168 AATAAAAA
1 AAGAAAAA
36694176 CAGCAGCCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
11 22 0.35
12 39 0.62
13 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:36694132 original size:21 final size:19
Alignment explanation
Indices: 36694086--36694151 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 19
36694076 AGAAGAAGAG
*
36694086 AAGAAGAAAAAAAAGAAAAA
1 AAGAA-AAAAGAAAGAAAAA
* *
36694106 AA-AAAAGAGGAAGAAAAA
1 AAGAAAAAAGAAAGAAAAA
36694124 GAGAGAAAAAAGAAAGAAAAA
1 -A-AGAAAAAAGAAAGAAAAA
36694145 AAGAAAA
1 AAGAAAA
36694152 TAAAAAGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.29
19 9 0.24
20 4 0.11
21 14 0.37
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAGAAAGAAAAA
Found at i:36694139 original size:27 final size:27
Alignment explanation
Indices: 36694078--36694157 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
36694068 TTGAGACAAG
36694078 AAGAAGAGAAGAAGAAAAAAAAGAAAAA
1 AAGAA-AGAAGAAGAAAAAAAAGAAAAA
* * *
36694106 AAAAAAGAGGAAG-AAAAAGAGAGAAAA
1 AAGAAAGAAGAAGAAAAAAAAGA-AAAA
* *
36694133 AAGAAAGAA-AA-AAAGAAAATAAAAA
1 AAGAAAGAAGAAGAAAAAAAAGAAAAA
36694158 GTAATAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
25 4 0.10
26 16 0.38
27 18 0.43
28 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (27 bp):
AAGAAAGAAGAAGAAAAAAAAGAAAAA
Found at i:36694156 original size:23 final size:22
Alignment explanation
Indices: 36694093--36694175 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 22
36694083 GAGAAGAAGA
36694093 AAAAAAAGAAAAAAAAA-AAGAGG
1 AAAAAAAGAAAAAAAAAGAA-A-G
*
36694116 AAGAAAAAGAGAGAAAAAAGAAAG
1 AA-AAAAAGA-AAAAAAAAGAAAG
* *
36694140 AAAAAAAGAAAATAAAAAGTAAT
1 AAAAAAAGAAAA-AAAAAGAAAG
*
36694163 AAAAAAATAAAAA
1 AAAAAAAGAAAAA
36694176 CAGCAGCCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
22 3 0.06
23 28 0.55
24 10 0.20
25 8 0.16
26 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (22 bp):
AAAAAAAGAAAAAAAAAGAAAG
Found at i:36694168 original size:35 final size:35
Alignment explanation
Indices: 36694090--36694175 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
36694080 GAAGAGAAGA
*
36694090 AGAAAAAAAAGAAAAAAAAAAAGAGGAAGAAAAAG
1 AGAAAAAAAAGAAAAAAAAAAAGAGAAAGAAAAAG
* * *
36694125 AGAGAAAAAAGAAAGAAAAAAAGA-AAATAAAAAG
1 AGAAAAAAAAGAAAAAAAAAAAGAGAAAGAAAAAG
*
36694159 TA-ATAAAAAAATAAAAA
1 -AGA-AAAAAAAGAAAAA
36694176 CAGCAGCCCA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
34 9 0.21
35 33 0.79
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (35 bp):
AGAAAAAAAAGAAAAAAAAAAAGAGAAAGAAAAAG
Found at i:36694778 original size:17 final size:17
Alignment explanation
Indices: 36694755--36694788 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36694745 AATAAAAAAA
*
36694755 TAAAAAACTT-GTGTTT
1 TAAAAAAATTCGTGTTT
36694771 TAAAAAAATTCGTGTTT
1 TAAAAAAATTCGTGTTT
36694788 T
1 T
36694789 TAAATTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (17 bp):
TAAAAAAATTCGTGTTT
Found at i:36694821 original size:17 final size:17
Alignment explanation
Indices: 36694765--36694825 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 17
36694755 TAAAAAACTT
* **
36694765 GTGTTTTAAAAAAATTC
1 GTGTTTTTAAAATTTTC
*
36694782 GTGTTTTT-AAATTTCC
1 GTGTTTTTAAAATTTTC
*
36694798 ATG-TTTTAAAATTTTC
1 GTGTTTTTAAAATTTTC
36694814 GTGTTTTTAAAA
1 GTGTTTTTAAAA
36694826 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 4 0.11
16 16 0.46
17 15 0.43
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (17 bp):
GTGTTTTTAAAATTTTC
Found at i:36694859 original size:18 final size:17
Alignment explanation
Indices: 36694838--36694931 Score: 57
Period size: 18 Copynumber: 5.2 Consensus size: 17
36694828 AATAAAAAAT
36694838 AAAAAATTTCGTGTTATC
1 AAAAAATTTCGTGTT-TC
*
36694856 -AAAAATTCCCGTGTTT-
1 AAAAAATT-TCGTGTTTC
* *
36694872 AAAAATTTTTTCATGTTTTC
1 AAAAA--ATTTCGTG-TTTC
*
36694892 AAAAAATTCTCATGTTTC
1 AAAAAATT-TCGTGTTTC
* *
36694910 AAAAATTTTCGTTTTTTC
1 AAAAAATTTCG-TGTTTC
36694928 AAAA
1 AAAA
36694932 TTTTCATGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
17 14 0.23
18 31 0.52
19 10 0.17
20 5 0.08
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:36694919 original size:36 final size:35
Alignment explanation
Indices: 36694837--36694931 Score: 102
Period size: 36 Copynumber: 2.7 Consensus size: 35
36694827 AAATAAAAAA
* * *
36694837 TAAAAAATTTCGTGTTATC-AAAAATTCCCGTGTT
1 TAAAAATTTTCGTGTTTTCAAAAAATTCCCATGTT
* *
36694871 TAAAAATTTTTTCATGTTTTCAAAAAATTCTCATGTT
1 TAAAAA--TTTTCGTGTTTTCAAAAAATTCCCATGTT
*
36694908 TCAAAAATTTTCGTTTTTTCAAAA
1 T-AAAAATTTTCGTGTTTTCAAAA
36694932 TTTTCATGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 6 0.12
36 25 0.50
37 14 0.28
38 5 0.10
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (35 bp):
TAAAAATTTTCGTGTTTTCAAAAAATTCCCATGTT
Found at i:36694943 original size:18 final size:18
Alignment explanation
Indices: 36694879--36694944 Score: 82
Period size: 17 Copynumber: 3.7 Consensus size: 18
36694869 TTTAAAAATT
36694879 TTTTCATGTTTTCAAAAAA
1 TTTTCATGTTTTC-AAAAA
*
36694898 TTCTCATG-TTTCAAAAA
1 TTTTCATGTTTTCAAAAA
* *
36694915 TTTTCGTTTTTTC-AAAA
1 TTTTCATGTTTTCAAAAA
36694932 TTTTCATGTTTTC
1 TTTTCATGTTTTC
36694945 GTGTTTTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 25 0.62
18 8 0.20
19 7 0.17
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTCATGTTTTCAAAAA
Found at i:36695021 original size:17 final size:18
Alignment explanation
Indices: 36695001--36695138 Score: 99
Period size: 18 Copynumber: 7.8 Consensus size: 18
36694991 AAAAAAATCA
36695001 TGTTTTC-AAAATTTTCG
1 TGTTTTCAAAAATTTTCG
*
36695018 TGTTTTCAAAATTTTTCG
1 TGTTTTCAAAAATTTTCG
* *
36695036 TG---TCAAAAAATTCTCA
1 TGTTTTC-AAAAATTTTCG
* * * *
36695052 TG-TATCGAAAATTTCCT
1 TGTTTTCAAAAATTTTCG
**
36695069 TGTTTTCAAAAAAAATTCTG
1 TGTTTTC-AAAAATTTTC-G
36695089 TGTTTTCAAAAAATTTTCG
1 TGTTTTC-AAAAATTTTCG
*
36695108 TG-TTTCAAAAATCTTCG
1 TGTTTTCAAAAATTTTCG
*
36695125 TGTTTTCGAAAATT
1 TGTTTTCAAAAATT
36695139 ATTATTGTGT
Statistics
Matches: 94, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
15 2 0.02
16 10 0.11
17 28 0.30
18 29 0.31
19 9 0.10
20 16 0.17
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
TGTTTTCAAAAATTTTCG
Found at i:36695035 original size:18 final size:17
Alignment explanation
Indices: 36695001--36695138 Score: 75
Period size: 17 Copynumber: 7.8 Consensus size: 17
36694991 AAAAAAATCA
36695001 TGTTTTCAAAATTTTCG
1 TGTTTTCAAAATTTTCG
36695018 TGTTTTCAAAATTTTTCG
1 TGTTTTCAAAA-TTTTCG
*** * *
36695036 TG-TCAAAAAATTCTCA
1 TGTTTTCAAAATTTTCG
* * *
36695052 TG-TATCGAAAATTTCCT
1 TGTTTTC-AAAATTTTCG
**
36695069 TGTTTTCAAAAAAAATTCTG
1 TGTTTTC--AAAATTTTC-G
36695089 TGTTTTCAAAAAATTTTCG
1 TGTTTTC--AAAATTTTCG
*
36695108 TG-TTTCAAAAATCTTCG
1 TGTTTTC-AAAATTTTCG
36695125 TGTTTTCGAAAATT
1 TGTTTTC-AAAATT
36695139 ATTATTGTGT
Statistics
Matches: 93, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
16 7 0.08
17 37 0.40
18 24 0.26
19 9 0.10
20 16 0.17
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:36695136 original size:19 final size:19
Alignment explanation
Indices: 36695069--36695141 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 19
36695059 AAAATTTCCT
*
36695069 TGTTTTCAAAAAAAATTCTG
1 TGTTTTCAAAAAATATTC-G
*
36695089 TGTTTTCAAAAAATTTTCG
1 TGTTTTCAAAAAATATTCG
*
36695108 TG-TTTC-AAAAATCTTCG
1 TGTTTTCAAAAAATATTCG
* *
36695125 TGTTTTCGAAAATTATT
1 TGTTTTCAAAAAATATT
36695142 ATTGTGTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
17 12 0.26
18 8 0.17
19 10 0.22
20 16 0.35
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (19 bp):
TGTTTTCAAAAAATATTCG
Found at i:36700952 original size:18 final size:17
Alignment explanation
Indices: 36700933--36700988 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
36700923 AAAAATGGAC
36700933 AAAAAAACAAAAAATA-A
1 AAAAAAACAAAAAA-ACA
* *
36700950 CAAAAAATAAAAAAACA
1 AAAAAAACAAAAAAACA
*
36700967 AAAAAAACAAAGAAAAGA
1 AAAAAAACAAA-AAAACA
36700985 AAAA
1 AAAA
36700989 GAAAAATCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 1 0.03
17 22 0.69
18 9 0.28
ACGTcount: A:0.86, C:0.07, G:0.04, T:0.04
Consensus pattern (17 bp):
AAAAAAACAAAAAAACA
Found at i:36700966 original size:25 final size:24
Alignment explanation
Indices: 36700933--36700994 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
36700923 AAAAATGGAC
36700933 AAAAAAACAAAAAATAACAAA-AAA
1 AAAAAAACAAAAAA-AACAAAGAAA
36700957 TAAAAAAACAAAAAAAACAAAGAAA
1 -AAAAAAACAAAAAAAACAAAGAAA
* *
36700982 AGAAAAAGAAAAA
1 AAAAAAACAAAAA
36700995 TCAAGATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 17 0.50
25 17 0.50
ACGTcount: A:0.85, C:0.06, G:0.05, T:0.03
Consensus pattern (24 bp):
AAAAAAACAAAAAAAACAAAGAAA
Found at i:36701853 original size:30 final size:30
Alignment explanation
Indices: 36701819--36701877 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
36701809 CACCTGATGT
*
36701819 TTTTTGAAACCCTGTTTCTTTCAAGAAATA
1 TTTTTAAAACCCTGTTTCTTTCAAGAAATA
** *
36701849 TTTTTAAAATTCTGTTTTTTTCAAGAAAT
1 TTTTTAAAACCCTGTTTCTTTCAAGAAAT
36701878 CAACTCATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (30 bp):
TTTTTAAAACCCTGTTTCTTTCAAGAAATA
Found at i:36702350 original size:70 final size:72
Alignment explanation
Indices: 36701875--36702861 Score: 1438
Period size: 70 Copynumber: 13.5 Consensus size: 72
36701865 TTTTTCAAGA
36701875 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
36701940 TTTTTTT
66 TTTTTTT
*
36701947 AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGCTATTTTTAATTTCA-
1 --AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTT-AT
36702011 GTCTTTTTTTT
63 GTC-TTTTTTT
36702022 AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTCA
1 ---AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTT-A
*
36702087 -GTCTTTTTTAA
62 TGTCTTTTTT-T
*
36702098 AATCAACTCATAATACAGAGGTCAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGT-
36702163 CTTTTTTT
65 CTTTTTTT
* *
36702171 -TTCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
36702235 TTTTTTT
66 TTTTTTT
**
36702242 TTTCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
36702307 -TTTTTT
66 TTTTTTT
*
36702313 -ATCAACTCATAATACAGAGGTGAGTTGAGCTTCGGGTCACGCTGAGGTATTTTTAATTTATGT-
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
36702376 TTTTTTT
66 TTTTTTT
* *
36702383 -TTCAATTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
36702447 TCTTTTTT
66 T-TTTTTT
* *
36702455 -TTCAACTCATAATACAGAGGTGAGTTGAGCATCGGGTCACGCTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
36702519 -TTTTTT
66 TTTTTTT
* *
36702525 -ATCAACTCATAATACAGAGGTGAGTTGAGCTTCGGGTCACGTTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
36702589 TTTTTTT
66 TTTTTTT
36702596 AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTAT
1 ---AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTAT
36702661 GTCTTTTTTTT
63 GTC-TTTTTTT
*
36702672 AAAATCAACTCATAATACAAAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATG
1 --AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATG
*
36702737 TCTTTTTTAA
64 TCTTTTTT-T
* * ** *
36702747 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCTGAGGTATTTCTTTTAAATTT
1 AATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AATTT
***
36702812 ATGT-TTTTCAAAA
61 ATGTCTTTT--TTT
*
36702825 AATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG
1 AATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
36702862 ACCATGCCGA
Statistics
Matches: 857, Mismatches: 32, Indels: 44
0.92 0.03 0.05
Matches are distributed among these distances:
70 194 0.23
71 21 0.02
72 192 0.22
73 75 0.09
74 105 0.12
75 142 0.17
76 74 0.09
77 8 0.01
78 46 0.05
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (72 bp):
AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
TTTTTTT
Found at i:36702445 original size:212 final size:216
Alignment explanation
Indices: 36701875--36703197 Score: 1479
Period size: 212 Copynumber: 5.9 Consensus size: 216
36701865 TTTTTCAAGA
36701875 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
*
36701940 TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGCTATTTTTA
66 TTTTTTT--AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTA
36702005 ATTTCA-GTCTTTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCT
129 ATTT-ATGTCTTTTTTTT---AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCT
36702069 GAGGTATTTTTAATTTCA-GTCTTTTTT
190 GAGGTATTTTTAATTT-ATGTCTTTTTT
*
36702096 AAAATCAACTCATAATACAGAGGTCAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATG
1 --AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATG
* *
36702161 TCCTTTTTTT-TTCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTT
64 T-CTTTTTTTAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
36702225 AATTTATGTCTTTTTTTT-TTCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
128 AATTTATGTCTTTTTTTTAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
36702289 GTATTTTTAATTTATGTCTTTTTT
193 GTATTTTTAATTTATGTCTTTTTT
*
36702313 -ATCAACTCATAATACAGAGGTGAGTTGAGCTTCGGGTCACGCTGAGGTATTTTTAATTTATGT-
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
* *
36702376 TTTTTTT-TTCAATTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAT
66 TTTTTTTAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAT
*
36702440 TTATGTCTCTTTTTTT--TCAACTCATAATACAGAGGTGAGTTGAGCATCGGGTCACGCTGAGGT
131 TTATGTCT-TTTTTTTAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGT
36702503 ATTTTTAATTTATGTCTTTTTT
195 ATTTTTAATTTATGTCTTTTTT
* *
36702525 -ATCAACTCATAATACAGAGGTGAGTTGAGCTTCGGGTCACGTTGAGGTATTTTTAATTTATGTC
1 AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
36702589 TTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
66 TTTTTTT---AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
36702654 AATTTATGTCTTTTTTTTAAAATCAACTCATAATACAAAGGTGAGTTGAGCCTCGGGTCACGCTG
128 AATTTATGTCTTTTTTTT--AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTG
36702719 AGGTATTTTTAATTTATGTCTTTTTT
191 AGGTATTTTTAATTTATGTCTTTTTT
* * ** *
36702745 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCTGAGGTATTTCTTTTAAAT
1 --AATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T-TTTT-AAT
*** * ** * * *
36702810 TTATGT-TTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGT
59 TTATGTCTTTT--TTTAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
**** * * *
36702874 TATTTCTTTTAAATTTATGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
121 TA--T-TTTT-AATTTATGTCTTTT-TTTTAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
** * * *
36702938 GGACCATGCTGAGGTATTTCTT--TTAAATTTCTATTTTT
180 GGGTCACGCTGAGGTATTT-TTAATT-TATGTCT-TTTTT
* * * *
36702976 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCGCACGCTGAGGTATTTTTTTA
1 ----AATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA--TTTTT-
* * * * * * * *
36703041 AAATTTCTGTTTTTTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACATTGGGTCGC
56 -AATTTATG-TCTTTTTTT----AATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT--C
*** * * * *
36703106 ACGCTGAGGTATTTTTTTAAAAAAT-TCTATTTTTTTAAATCAACTCATATTGCGAAAAGTGAGT
112 ACGCTGAGGTA--TTTTTAATTTATGTCT-TTTTTTT-AATCAACTCATAATAC-AGAGGTGAGT
36703170 TGAGCCTCGGGTCGCACGCTGAGGTATT
172 TGAGCCTCGGGT--CACGCTGAGGTATT
36703198 NNNNNNNNNN
Statistics
Matches: 973, Mismatches: 76, Indels: 83
0.86 0.07 0.07
Matches are distributed among these distances:
212 200 0.21
213 14 0.01
214 61 0.06
216 8 0.01
217 130 0.13
220 68 0.07
221 67 0.07
223 76 0.08
224 37 0.04
226 16 0.02
227 37 0.04
228 9 0.01
229 17 0.02
230 45 0.05
231 16 0.02
233 37 0.04
234 4 0.00
235 22 0.02
236 1 0.00
237 4 0.00
238 1 0.00
239 37 0.04
240 41 0.04
241 12 0.01
242 13 0.01
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (216 bp):
AATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTATGTC
TTTTTTTAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAAT
TTATGTCTTTTTTTTAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
TTTTTAATTTATGTCTTTTTT
Found at i:36704229 original size:80 final size:78
Alignment explanation
Indices: 36704092--36704516 Score: 367
Period size: 74 Copynumber: 5.4 Consensus size: 78
36704082 NNNNNNNNNN
*
36704092 CGAGAAGTGAGTTGAGCCTCGGGTTGCACGCTGAGGTATTTTTAAATTTCTGTTTTTTTTTCAAA
1 CGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTAAA-TTCTG-TTTTTTTTCAAA
36704157 AATCAACTCATATTG
64 AATCAACTCATATTG
36704172 CGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAATTCTGTTTTTTTACGTT
1 CGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA--TTTTTAAATTCTG----TTT---TT
36704237 TTTCAAAAAATCAACTCATATTG
57 TTTC-AAAAATCAACTCATATTG
* * * ** * *
36704260 CGAGAGGTGAGTTGAGCCT-TGGAC-CATACCGAGGTATTTCCTTTAAATT-T-TTGTTTTTCAA
1 CGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TT--TTTAAATTCTGTTTTTTTTCAA
36704321 AAATCAACTCATATTG
63 AAATCAACTCATATTG
* * *
36704337 CGAGAGGTGAGTTGAGCCTCGGGT--CACGCCGAGGTATTTTTCAATTCATG---TTTTTCAAAA
1 CGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTAAATTC-TGTTTTTTTTCAAAA
36704397 ATCAACTCATATTG
65 ATCAACTCATATTG
* * * * ** * *
36704411 CGAG-AGTTGAGTTGAACCTCGGGGCACATG-TCGAGGTA-TTTTCGATT-T-TTATTTTTCGAA
1 CGAGAAG-TGAGTTGAGCCTCGGGTCGCACGCT-GAGGTATTTTTAAATTCTGTTTTTTTTCAAA
*
36704471 GATCAACTCATAATT-
64 AATCAACTCAT-ATTG
* * *
36704486 CAAGAGGTGAGTTGAGTCTCGGGTCGCACGC
1 CGAGAAGTGAGTTGAGCCTCGGGTCGCACGC
36704517 CGAGTTGTTC
Statistics
Matches: 292, Mismatches: 28, Indels: 54
0.78 0.07 0.14
Matches are distributed among these distances:
73 2 0.01
74 50 0.17
75 47 0.16
76 16 0.05
77 47 0.16
78 8 0.03
80 37 0.13
81 7 0.02
82 8 0.03
84 4 0.01
85 3 0.01
86 10 0.03
87 17 0.06
88 36 0.12
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (78 bp):
CGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTAAATTCTGTTTTTTTTCAAAAA
TCAACTCATATTG
Found at i:36704531 original size:75 final size:73
Alignment explanation
Indices: 36704144--36704545 Score: 299
Period size: 75 Copynumber: 5.2 Consensus size: 73
36704134 TAAATTTCTG
* *
36704144 TTTT-TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGG
1 TTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCCGA-G
*
36704208 TATTTTTTTAAATTCTGTTT
64 -----TTTT---TTC-G-AT
* * **
36704228 TTTTACGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCATACCGA
1 TTTT--GTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGA
**
36704292 GGTATTTCCTTTAAAT
63 -G--TTT--TTTCGAT
36704308 TTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCCGAGGT
1 TTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGA-GT
*
36704372 ATTTTTCAAT
65 -TTTTTCGAT
** * * * * *
36704382 TCATGTTTTTCAAAAATCAACTCATATTGCGAGAGTTGAGTTGAACCTCGGGGCACATGTCGAGG
1 TTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCCGA-G
*
36704447 TATTTTCGAT
64 TTTTTTCGAT
* * * * *
36704457 TTTTATTTTTCGAAGATCAACTCATAATT-CAAGAGGTGAGTTGAGTCTCGGGTCGCACGCCGAG
1 TTTTGTTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCCGAG
*
36704521 TTGTTCTCGAT
64 TT-TTTTCGAT
* *
36704532 TTCTGCTTTTCAAA
1 TTTTGTTTTTCAAA
36704546 TAAAGAGGAA
Statistics
Matches: 263, Mismatches: 43, Indels: 33
0.78 0.13 0.10
Matches are distributed among these distances:
74 56 0.21
75 71 0.27
76 14 0.05
77 45 0.17
78 9 0.03
80 5 0.02
82 2 0.01
83 4 0.02
84 4 0.02
85 1 0.00
86 7 0.03
87 9 0.03
88 36 0.14
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (73 bp):
TTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCCGAGTT
TTTTCGAT
Found at i:36704779 original size:30 final size:31
Alignment explanation
Indices: 36704727--36704805 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
36704717 TAACCCTTAT
* *
36704727 ACTTTTC-AAATTTTATATTTTGACCCC-AA
1 ACTTTTCTAAAATTTACATTTTGACCCCAAA
36704756 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAAA
36704787 AC-TTTCTAAAA-TTACATTT
1 ACTTTTCTAAAATTTACATTT
36704806 CGACACTTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 15 0.33
30 27 0.59
31 4 0.09
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (31 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAAA
Found at i:36705490 original size:11 final size:11
Alignment explanation
Indices: 36705465--36705552 Score: 51
Period size: 11 Copynumber: 8.2 Consensus size: 11
36705455 GCTTTGAGAC
* *
36705465 AAGAAGAAGAG
1 AAGAAGAAAAA
36705476 AAGAAGAAAAA
1 AAGAAGAAAAA
* *
36705487 AAGAGGAAGAA
1 AAGAAGAAAAA
*
36705498 AA-AAGAGAAA
1 AAGAAGAAAAA
36705508 AAG--G-AAAA
1 AAGAAGAAAAA
*
36705516 AGGAAAGAAAAA
1 AAG-AAGAAAAA
36705528 AAGAA-AATAAA
1 AAGAAGAA-AAA
*
36705539 AAGTAATAAAAA
1 AAG-AAGAAAAA
36705551 AA
1 AA
36705553 TAAAAACAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
8 5 0.08
9 1 0.02
10 9 0.15
11 29 0.49
12 13 0.22
13 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (11 bp):
AAGAAGAAAAA
Found at i:36705501 original size:13 final size:14
Alignment explanation
Indices: 36705478--36705531 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
36705468 AAGAAGAGAA
36705478 GAAGAAAAAAAGAG
1 GAAGAAAAAAAGAG
36705492 GAAG-AAAAAAGA-
1 GAAGAAAAAAAGAG
36705504 GAA-AAAGGAAAA-AG
1 GAAGAAA--AAAAGAG
36705518 GAAAGAAAAAAAGA
1 G-AAGAAAAAAAGA
36705532 AAATAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
12 5 0.15
13 9 0.27
14 13 0.39
15 3 0.09
16 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
GAAGAAAAAAAGAG
Found at i:36705539 original size:13 final size:13
Alignment explanation
Indices: 36705474--36705540 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 13
36705464 CAAGAAGAAG
36705474 AGAAGAAGAAAAAA
1 AGAA-AAGAAAAAA
*
36705488 AGAGGAAGAAAAAA
1 AGA-AAAGAAAAAA
*
36705502 GAGAAAA-AGGAAAA
1 -AGAAAAGA-AAAAA
*
36705516 AGGAAAGAAAAAA
1 AGAAAAGAAAAAA
*
36705529 AGAAAATAAAAA
1 AGAAAAGAAAAA
36705541 GTAATAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
13 20 0.48
14 19 0.45
15 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (13 bp):
AGAAAAGAAAAAA
Found at i:36705539 original size:23 final size:23
Alignment explanation
Indices: 36705479--36705557 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
36705469 AGAAGAGAAG
* *
36705479 AAGAAAA-AAAGAGGAAGAAAAA
1 AAGAAAATAAAAAGAAAGAAAAA
*
36705501 AGAGAAAAAGGAAAAAGGAAAGAAAAA
1 A-AG-AAAA-TAAAAA-GAAAGAAAAA
* *
36705528 AAGAAAATAAAAAGTAATAAAAA
1 AAGAAAATAAAAAGAAAGAAAAA
*
36705551 AATAAAA
1 AAGAAAA
36705558 ACAGCAGCCC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
22 1 0.02
23 16 0.35
24 9 0.20
25 4 0.09
26 6 0.13
27 10 0.22
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (23 bp):
AAGAAAATAAAAAGAAAGAAAAA
Found at i:36705541 original size:19 final size:18
Alignment explanation
Indices: 36705479--36705541 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
36705469 AGAAGAGAAG
36705479 AAGAAAAAAAGAGGAAGAAAA
1 AAGAAAAAAAGA--AA-AAAA
* *
36705500 AAGAGAAAAAGGAAAAAGGA
1 AAGA-AAAAAAGAAAAA-AA
36705520 AAGAAAAAAAGAAAATAAA
1 AAGAAAAAAAGAAAA-AAA
36705539 AAG
1 AAG
36705542 TAATAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 16 0.46
20 8 0.23
21 4 0.11
22 7 0.20
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAAGAAAAAAA
Found at i:36706173 original size:21 final size:22
Alignment explanation
Indices: 36706128--36706169 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
36706118 AAGAAATAAA
36706128 AAAAATAAAAATCTTGTGTTTT
1 AAAAATAAAAATCTTGTGTTTT
36706150 AAAAA-AAAAAT-TTGTGTTTT
1 AAAAATAAAAATCTTGTGTTTT
36706170 TAAAGTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 6 0.30
22 5 0.25
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
AAAAATAAAAATCTTGTGTTTT
Found at i:36706186 original size:17 final size:17
Alignment explanation
Indices: 36706164--36706207 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
36706154 AAAAAATTTG
*
36706164 TGTTTTTAAAGTTTCCA
1 TGTTTTTAAAATTTCCA
*
36706181 TG-TTTTAAAATTTCCG
1 TGTTTTTAAAATTTCCA
36706197 TGTTTTTAAAA
1 TGTTTTTAAAA
36706208 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.52
Consensus pattern (17 bp):
TGTTTTTAAAATTTCCA
Found at i:36706241 original size:17 final size:17
Alignment explanation
Indices: 36706221--36706326 Score: 90
Period size: 17 Copynumber: 6.0 Consensus size: 17
36706211 ATAAAAAATA
36706221 AAAAATTTCATGTTTTC
1 AAAAATTTCATGTTTTC
** *
36706238 AAAAA-TTCCCGTGTTTA
1 AAAAATTTCATGT-TTTC
*
36706255 AAAAATTTTTCGTGTTTTC
1 AAAAA--TTTCATGTTTTC
36706274 AAAAAATTCTCATG-TTTC
1 -AAAAATT-TCATGTTTTC
*
36706292 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCATGTTTTC
*
36706310 AAAATTTTCATGTTTTC
1 AAAAATTTCATGTTTTC
36706327 GTGTTTTCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
16 5 0.07
17 33 0.46
18 16 0.23
19 7 0.10
20 10 0.14
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.46
Consensus pattern (17 bp):
AAAAATTTCATGTTTTC
Found at i:36706276 original size:36 final size:35
Alignment explanation
Indices: 36706219--36706313 Score: 129
Period size: 36 Copynumber: 2.7 Consensus size: 35
36706209 AAATAAAAAA
* *
36706219 TAAAAAA-TTTCATGTTTTCAAAAATTCCCGTGTT
1 TAAAAAATTTTCGTGTTTTCAAAAATTCCCATGTT
*
36706253 TAAAAAATTTTTCGTGTTTTCAAAAAATTCTCATGTT
1 TAAAAAA-TTTTCGTGTTTTC-AAAAATTCCCATGTT
*
36706290 TCAAAAATTTTCGTGTTTTCAAAA
1 TAAAAAATTTTCGTGTTTTCAAAA
36706314 TTTTCATGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
34 7 0.13
35 4 0.07
36 24 0.44
37 19 0.35
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (35 bp):
TAAAAAATTTTCGTGTTTTCAAAAATTCCCATGTT
Found at i:36706456 original size:20 final size:20
Alignment explanation
Indices: 36706428--36706505 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 20
36706418 TCATGTATCG
* * *
36706428 AAAATTTCCTTGTTTTTAAA
1 AAAAATTCCGTGTTTTCAAA
36706448 AAAAATTCCGTGTTTTC-AA
1 AAAAATTCCGTGTTTTCAAA
*
36706467 AAAAATTTCGTG-TTTC-AA
1 AAAAATTCCGTGTTTTCAAA
**
36706485 AAATCTT-CGTGTTTTCAAA
1 AAAAATTCCGTGTTTTCAAA
36706504 AA
1 AA
36706506 TTATTATTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.08
18 15 0.30
19 17 0.34
20 14 0.28
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (20 bp):
AAAAATTCCGTGTTTTCAAA
Found at i:36706486 original size:17 final size:18
Alignment explanation
Indices: 36706447--36706505 Score: 77
Period size: 19 Copynumber: 3.3 Consensus size: 18
36706437 TTGTTTTTAA
*
36706447 AAAAAATTCCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
36706465 AAAAAAATTTCGTG-TTTC
1 -AAAAAATTTCGTGTTTTC
36706483 -AAAAATCTTCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
36706501 AAAAA
1 AAAAA
36706506 TTATTATTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 6 0.17
17 6 0.17
18 8 0.22
19 16 0.44
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (18 bp):
AAAAAATTTCGTGTTTTC
Found at i:36706496 original size:36 final size:37
Alignment explanation
Indices: 36706448--36706523 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
36706438 TGTTTTTAAA
36706448 AAAAATTCCGTGTTTTCAAAAA-AATT-TCGTGTTTC
1 AAAAATTCCGTGTTTTCAAAAATAATTATCGTGTTTC
* * *
36706483 AAAAATCTTCGTGTTTTCAAAAATTATTATTGTGTTTC
1 AAAAAT-TCCGTGTTTTCAAAAATAATTATCGTGTTTC
36706521 AAA
1 AAA
36706524 GTTCTCGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 6 0.17
36 15 0.43
37 3 0.09
38 11 0.31
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (37 bp):
AAAAATTCCGTGTTTTCAAAAATAATTATCGTGTTTC
Found at i:36706505 original size:19 final size:18
Alignment explanation
Indices: 36706220--36706505 Score: 92
Period size: 18 Copynumber: 15.3 Consensus size: 18
36706210 AATAAAAAAT
*
36706220 AAAAAATTTCATGTTTTC
1 AAAAAATTTCGTGTTTTC
*
36706238 -AAAAATTCCCGTG-TTT-
1 AAAAAATT-TCGTGTTTTC
36706254 AAAAAATTTTTCGTGTTTTC
1 AAAAAA--TTTCGTGTTTTC
*
36706274 AAAAAATTCTCATG-TTTC
1 AAAAAATT-TCGTGTTTTC
*
36706292 AAAAATTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
*
36706310 AAAATTTTCATGTTTTCGTGTTTTC
1 AAAA-----A--ATTTCGTGTTTTC
*
36706335 AAAAAAAAGTTCTCGTGTTTTTTT
1 --AAAAAA-TT-TCGTG--TTTTC
* * *
36706359 AAAAAAATTCGT-ATTTA
1 AAAAAATTTCGTGTTTTC
** *
36706376 AAAAAAAATCATGTTTTC
1 AAAAAATTTCGTGTTTTC
* **
36706394 GAAATTTTTCGTG---TC
1 AAAAAATTTCGTGTTTTC
* *
36706409 AAAAAATTCTCATG-TATC
1 AAAAAATT-TCGTGTTTTC
* * *
36706427 -GAAAATTTCCTTGTTTTTAA
1 AAAAAATTT-CGTG-TTTT-C
*
36706447 AAAAAATTCCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
36706465 AAAAAAATTTCGTG-TTTC
1 -AAAAAATTTCGTGTTTTC
36706483 -AAAAATCTTCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
36706501 AAAAA
1 AAAAA
36706506 TTATTATTGT
Statistics
Matches: 200, Mismatches: 34, Indels: 67
0.66 0.11 0.22
Matches are distributed among these distances:
15 7 0.04
16 11 0.05
17 47 0.23
18 48 0.24
19 31 0.16
20 13 0.06
21 9 0.05
22 12 0.06
23 1 0.00
24 4 0.02
25 13 0.06
27 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (18 bp):
AAAAAATTTCGTGTTTTC
Found at i:36707164 original size:21 final size:22
Alignment explanation
Indices: 36707128--36707168 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
36707118 TAGTTTTTAA
36707128 TAATAAAAATTGATAAATTTTT
1 TAATAAAAATTGATAAATTTTT
*
36707150 TAATAGAAA-TGATAAATTT
1 TAATAAAAATTGATAAATTT
36707169 ACACTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
TAATAAAAATTGATAAATTTTT
Found at i:36708165 original size:20 final size:20
Alignment explanation
Indices: 36708123--36708167 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36708113 TTTTTTACGT
*
36708123 TAAAAAATAATCAAATATCG
1 TAAAAAATAATAAAATATCG
*
36708143 TAAAAAATGATAAGAATAT-G
1 TAAAAAATAATAA-AATATCG
36708163 TAAAA
1 TAAAA
36708168 CTACTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.24
Consensus pattern (20 bp):
TAAAAAATAATAAAATATCG
Found at i:36714470 original size:26 final size:27
Alignment explanation
Indices: 36714432--36714505 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 27
36714422 TTAGTGTTCT
36714432 AATT-ATTAGTAAATTTTTTAAAAAAA
1 AATTAATTAGTAAATTTTTTAAAAAAA
***
36714458 AATTAATTA-TAAA-AAGTTAAAAAAA
1 AATTAATTAGTAAATTTTTTAAAAAAA
* *
36714483 ACATTTAATTATTTAATTTTTTA
1 A-A-TTAATTAGTAAATTTTTTA
36714506 TTGGTTAGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
25 10 0.28
26 9 0.25
27 11 0.31
28 3 0.08
29 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (27 bp):
AATTAATTAGTAAATTTTTTAAAAAAA
Found at i:36716841 original size:32 final size:28
Alignment explanation
Indices: 36716781--36716845 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 28
36716771 ATTGGACTTT
* *
36716781 AATTTTTAAATTAAATAAAGAGAGACTA
1 AATTTTTAAATTAAATAAAGAAAAACTA
36716809 AATTTTTAGAATTAAAATTAAAAGAAAAACTA
1 AATTTTTA-AATT-AAA-T-AAAGAAAAACTA
36716841 AATTT
1 AATTT
36716846 CAAAAGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 8 0.26
29 4 0.13
30 3 0.10
31 1 0.03
32 15 0.48
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (28 bp):
AATTTTTAAATTAAATAAAGAAAAACTA
Found at i:36717231 original size:2 final size:2
Alignment explanation
Indices: 36717224--36717265 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
36717214 ATCATGAATT
36717224 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36717266 TATATAATAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:36731564 original size:18 final size:18
Alignment explanation
Indices: 36731541--36731575 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36731531 TATATTACAA
36731541 ATTAAACACTTAAATGAG
1 ATTAAACACTTAAATGAG
36731559 ATTAAACACTTAAATGA
1 ATTAAACACTTAAATGA
36731576 ATTTGTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (18 bp):
ATTAAACACTTAAATGAG
Found at i:36735265 original size:19 final size:18
Alignment explanation
Indices: 36735243--36735363 Score: 55
Period size: 19 Copynumber: 6.3 Consensus size: 18
36735233 TTATAAAAAA
36735243 ATAAAAATCAATAAAATTT
1 ATAAAAAT-AATAAAATTT
* * *
36735262 ATAAATATTATTAAATTTT
1 ATAAA-AATAATAAAATTT
*
36735281 AATTAAAAATATTAAAAATTT
1 -A-TAAAAATAAT-AAAATTT
* * **
36735302 GTTAAAATTAA-AAAAAAT
1 -ATAAAAATAATAAAATTT
**
36735320 ATAAAAATTGTAAAATTTT
1 ATAAAAATAATAAAA-TTT
* *
36735339 ATAAAAATCATAAAAAATT
1 ATAAAAATAAT-AAAATTT
36735358 ATAAAA
1 ATAAAA
36735364 TACATCAAAA
Statistics
Matches: 75, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
17 6 0.08
18 9 0.12
19 31 0.41
20 19 0.25
21 10 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAAAATAATAAAATTT
Found at i:36735324 original size:28 final size:27
Alignment explanation
Indices: 36735285--36735364 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 27
36735275 AATTTTAATT
36735285 AAAAATATTAAAAATTTGTTAAAA-TTAAA
1 AAAAATA-TAAAAA-TTG-TAAAATTTAAA
* *
36735314 AAAAATATAAAAATTGTAAAATTTTAT
1 AAAAATATAAAAATTGTAAAATTTAAA
*
36735341 AAAAATCATAAAAAATTATAAAAT
1 AAAAAT-AT-AAAAATTGTAAAAT
36735365 ACATCAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.11
27 12 0.27
28 8 0.18
29 20 0.44
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAAATATAAAAATTGTAAAATTTAAA
Found at i:36735374 original size:19 final size:19
Alignment explanation
Indices: 36735312--36735363 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
36735302 GTTAAAATTA
* **
36735312 AAAAAAATATAAAAATTGT
1 AAAAAATTATAAAAATCAT
**
36735331 AAAATTTTATAAAAATCAT
1 AAAAAATTATAAAAATCAT
36735350 AAAAAATTATAAAA
1 AAAAAATTATAAAA
36735364 TACATCAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:36735573 original size:10 final size:9
Alignment explanation
Indices: 36735548--36735716 Score: 67
Period size: 9 Copynumber: 17.9 Consensus size: 9
36735538 TAGTACAAAT
36735548 TTTTTTATA
1 TTTTTTATA
**
36735557 AATTTTATA
1 TTTTTTATA
*
36735566 TTTCTTTACA
1 TTT-TTTATA
36735576 TTTTTTATAA
1 TTTTTTAT-A
*
36735586 TTTTCTTACAA
1 TTTT-TTA-TA
*
36735597 CTTTATGTA-A
1 -TTT-TTTATA
*
36735607 TTTTATA-A
1 TTTTTTATA
36735615 TATTTTTATA
1 T-TTTTTATA
*
36735625 -TTTCTATA
1 TTTTTTATA
*
36735633 TATTTTATA
1 TTTTTTATA
*
36735642 TTTTGTATGA
1 TTTTTTAT-A
*
36735652 -CTTTTATAA
1 TTTTTTAT-A
** *
36735661 AATTTTACAA
1 TTTTTTA-TA
36735671 TTTTTTATA
1 TTTTTTATA
36735680 TTTTTTATAA
1 TTTTTTAT-A
*
36735690 TTTTTAATA
1 TTTTTTATA
36735699 TTTTTTTATA
1 -TTTTTTATA
*
36735709 TATTTTAT
1 TTTTTTAT
36735717 TAAAATTTAA
Statistics
Matches: 120, Mismatches: 26, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
8 12 0.10
9 55 0.46
10 43 0.36
11 4 0.03
12 5 0.04
13 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTTATA
Found at i:36735685 original size:19 final size:19
Alignment explanation
Indices: 36735559--36735704 Score: 68
Period size: 19 Copynumber: 7.7 Consensus size: 19
36735549 TTTTTATAAA
36735559 TTTTATATTTCTTTAC-ATT
1 TTTTATATTT-TTTACAATT
*
36735578 TTTTATAATTTTCTTACAACT
1 TTTTAT-ATTTT-TTACAATT
* * * *
36735599 TTATGTA-ATTTTATAATAT
1 TTTTATATTTTTTACAAT-T
* * *
36735618 TTTTATA-TTTCTA-TATA
1 TTTTATATTTTTTACAATT
* ** *
36735635 TTTTATATTTTGTATGA-C
1 TTTTATATTTTTTACAATT
**
36735653 TTTTATAAAATTTTACAATT
1 TTTTAT-ATTTTTTACAATT
*
36735673 TTTTATATTTTTTATAATT
1 TTTTATATTTTTTACAATT
*
36735692 TTTAATATTTTTT
1 TTTTATATTTTTT
36735705 TATATATTTT
Statistics
Matches: 94, Mismatches: 25, Indels: 16
0.70 0.19 0.12
Matches are distributed among these distances:
17 7 0.07
18 18 0.19
19 48 0.51
20 15 0.16
21 6 0.06
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATATTTTTTACAATT
Found at i:36735685 original size:29 final size:28
Alignment explanation
Indices: 36735605--36735745 Score: 94
Period size: 29 Copynumber: 4.9 Consensus size: 28
36735595 AACTTTATGT
*
36735605 AATTTTATAATATTTTTATA-TTTCTAT-A
1 AATTTTA-AAT-TTTTTATATTTTTTATAA
* * * *
36735633 TATTTTATATTTTGTATGA-CTTTTATAA
1 AATTTTAAATTTTTTAT-ATTTTTTATAA
36735661 AATTTTACAATTTTTTATATTTTTTAT-A
1 AATTTTA-AATTTTTTATATTTTTTATAA
* *
36735689 ATTTTTAATATTTTTTTATATATTTTATTAA
1 AATTTTAA-A-TTTTTTATATTTTTTA-TAA
* *
36735720 AA-TTTAATTATTTTTATAATTTTTAT
1 AATTTTAAAT-TTTTTATATTTTTTAT
36735746 TGATTTTTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
26 6 0.07
27 9 0.10
28 24 0.27
29 42 0.47
30 6 0.07
31 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (28 bp):
AATTTTAAATTTTTTATATTTTTTATAA
Found at i:36735735 original size:10 final size:9
Alignment explanation
Indices: 36735672--36735760 Score: 56
Period size: 9 Copynumber: 9.4 Consensus size: 9
36735662 ATTTTACAAT
36735672 TTTTTA-TA
1 TTTTTATTA
*
36735680 TTTTTTATAA
1 -TTTTTATTA
*
36735690 TTTTTAATA
1 TTTTTATTA
*
36735699 TTTTTTTATA
1 TTTTTAT-TA
36735709 TATTTTATTAAA
1 T-TTTTATT--A
* *
36735721 ATTTAATTA
1 TTTTTATTA
*
36735730 TTTTTATAA
1 TTTTTATTA
36735739 TTTTTATTGA
1 TTTTTATT-A
36735749 TTTTTATT-
1 TTTTTATTA
36735757 TTTT
1 TTTT
36735761 AATCTTTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
8 4 0.06
9 32 0.52
10 14 0.23
11 11 0.18
12 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (9 bp):
TTTTTATTA
Found at i:36735744 original size:19 final size:19
Alignment explanation
Indices: 36735672--36735763 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 19
36735662 ATTTTACAAT
* *
36735672 TTTTTAT-ATTTTTTATAA
1 TTTTTATAATTTTTAATTA
* *
36735690 TTTTTAATATTTTTTTA-TA
1 TTTTT-ATAATTTTTAATTA
**
36735709 TATTTTATTAAAATTTAATTA
1 T-TTTTA-TAATTTTTAATTA
36735730 TTTTTATAATTTTT-ATTGA
1 TTTTTATAATTTTTAATT-A
36735749 TTTTTAT--TTTTTAAT
1 TTTTTATAATTTTTAAT
36735764 CTTTTTTTGC
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.08
18 10 0.17
19 19 0.32
20 22 0.37
21 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (19 bp):
TTTTTATAATTTTTAATTA
Found at i:36741457 original size:21 final size:21
Alignment explanation
Indices: 36741432--36741475 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
36741422 TTAATGCTTA
*
36741432 ATATAATTCTGTTTTTTTTGT
1 ATATAATTCTGTTTTTTTGGT
36741453 ATATAATTCTGTTTTTTTGGT
1 ATATAATTCTGTTTTTTTGGT
36741474 AT
1 AT
36741476 TGCGAGTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.64
Consensus pattern (21 bp):
ATATAATTCTGTTTTTTTGGT
Found at i:36746808 original size:2 final size:2
Alignment explanation
Indices: 36746801--36746869 Score: 108
Period size: 2 Copynumber: 35.5 Consensus size: 2
36746791 AGATTGATAC
36746801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36746843 AT AT AT AT AGT AT AT -T AT -T AT -T AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A
36746870 NNNNNNNNNN
Statistics
Matches: 63, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.05
2 58 0.92
3 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:36747032 original size:33 final size:34
Alignment explanation
Indices: 36746970--36747082 Score: 133
Period size: 33 Copynumber: 3.2 Consensus size: 34
36746960 NNNNNNNNNN
36746970 TAATTTTTAAATTTAAATTAATTTAAATTACTTTTT
1 TAATTTTT-AATTTAAATT-ATTTAAATTACTTTTT
36747006 TAATTTTTAA-TTAAATTATTTAAATTAC-TTTT
1 TAATTTTTAATTTAAATTATTTAAATTACTTTTT
* *
36747038 TAA-TTTTAATTTTAAAATATTTTTAAAATACTTTTTT
1 TAATTTTTAA-TTT-AAAT-TATTTAAATTAC-TTTTT
36747075 TAATTTTT
1 TAATTTTT
36747083 TAAAATTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
31 6 0.09
32 7 0.10
33 13 0.19
34 11 0.16
35 12 0.18
36 8 0.12
37 7 0.10
38 4 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (34 bp):
TAATTTTTAATTTAAATTATTTAAATTACTTTTT
Found at i:36747055 original size:25 final size:23
Alignment explanation
Indices: 36747008--36747063 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
36746998 TACTTTTTTA
*
36747008 ATTTTTAATTAAATTATTTAAATT
1 ATTTTTAATTAAATTA-TTAAAAT
*
36747032 ACTTTTTAATTTTAATT-TTAAAAT
1 A-TTTTTAA-TTAAATTATTAAAAT
36747056 ATTTTTAA
1 ATTTTTAA
36747064 AATACTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 7 0.25
24 8 0.29
25 7 0.25
26 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTTAATTAAATTATTAAAAT
Found at i:36750807 original size:14 final size:14
Alignment explanation
Indices: 36750788--36750837 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
36750778 TGAATTAAAT
36750788 TAAAATTTCATATA
1 TAAAATTTCATATA
* *
36750802 TAAAATTTCACAAAA
1 TAAAATTTCA-TATA
36750817 TCAAAA-TTCATATA
1 T-AAAATTTCATATA
36750831 TAAAATT
1 TAAAATT
36750838 GAACATTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 4 0.14
14 14 0.48
15 7 0.24
16 4 0.14
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAATTTCATATA
Found at i:36752296 original size:20 final size:20
Alignment explanation
Indices: 36752271--36752309 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36752261 TAAAATGAAA
*
36752271 AATTTAGGATAAATCAATGC
1 AATTTAGGAGAAATCAATGC
*
36752291 AATTTAGGAGGAATCAATG
1 AATTTAGGAGAAATCAATG
36752310 AAAGGATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (20 bp):
AATTTAGGAGAAATCAATGC
Found at i:36753895 original size:19 final size:19
Alignment explanation
Indices: 36753853--36753895 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
36753843 TATCGTTATA
36753853 CATTTTTTTCATTTTCTTT
1 CATTTTTTTCATTTTCTTT
* *
36753872 TATTTTTTTTA-TTTCATTT
1 CATTTTTTTCATTTTC-TTT
36753891 CATTT
1 CATTT
36753896 GAAATAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (19 bp):
CATTTTTTTCATTTTCTTT
Found at i:36754457 original size:3 final size:3
Alignment explanation
Indices: 36754446--36754475 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
36754436 TTTAAAATAT
*
36754446 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36754476 CTAGTATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:36762000 original size:45 final size:45
Alignment explanation
Indices: 36761865--36762000 Score: 132
Period size: 45 Copynumber: 3.1 Consensus size: 45
36761855 GATCAGTGAT
* *
36761865 GATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAA
1 GATACCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAA
* * * * ** * * *
36761910 GACACCA-ACCTCGCCTCCCT-CGGAGACAGTGGAGCAGGTTGAA
1 GATACCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAA
** *
36761953 GATTTCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCAAA
1 GATACCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAA
36761998 GAT
1 GAT
36762001 GGTGGATTTT
Statistics
Matches: 66, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 21 0.32
44 20 0.30
45 25 0.38
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (45 bp):
GATACCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAA
Found at i:36762251 original size:44 final size:44
Alignment explanation
Indices: 36762202--36762704 Score: 181
Period size: 44 Copynumber: 11.4 Consensus size: 44
36762192 CCCTGGGCAA
* *
36762202 CAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAG
* * * ** * * * **
36762246 TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAAGTTG
1 CAGTGGAGTAGATTGAAGATTTCAGATCTTGCCTCCCT-AAGCAG
* * * * **
36762291 CAGTGGAGTACATTGAAG---CCAGTAAT-TCTACTTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGATTTCAG--ATCT-TGCCTCCCTAAGCAG
*
36762334 CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAG
* * * ** * * **
36762378 TAGTGGAGCAGATAGAAGATGGC-GAATTTTACCTCCCTGAAGTTG
1 CAGTGGAGTAGATTGAAGATTTCAG-ATCTTGCCTCCCT-AAGCAG
* * * * **
36762423 CAGTGGAGTACATTGAAG---CCAGTAAT-TCTACTTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAGATTTCAG--ATCT-TGCCTCCCTAAGCAG
*
36762466 CAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAG
* * * ** * * **
36762510 TAGTGGAGCAGATAGAAGATGGC-GAATTTTACCTCCCTGAAGTTG
1 CAGTGGAGTAGATTGAAGATTTCAG-ATCTTGCCTCCCT-AAGCAG
* * * * * **
36762555 CAGTGGAGTACATTGAAG---CCAGTAAT-TCTACTTCCTTGGGCAG
1 CAGTGGAGTAGATTGAAGATTTCAG--ATCT-TGCCTCCCTAAGCAG
* * *
36762598 CAGCGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCTG
1 CAGTGGAGTAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAG
* * ** ** * * *
36762642 TAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTAAG-ATTA
1 CAGTGGAGTAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCA--G
*
36762687 CAGTGGAGTACATTGAAG
1 CAGTGGAGTAGATTGAAG
36762705 CCAGTAATTC
Statistics
Matches: 326, Mismatches: 105, Indels: 55
0.67 0.22 0.11
Matches are distributed among these distances:
42 4 0.01
43 60 0.18
44 183 0.56
45 70 0.21
46 9 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
CAGTGGAGTAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAG
Found at i:36762311 original size:132 final size:132
Alignment explanation
Indices: 36761948--36762786 Score: 1187
Period size: 132 Copynumber: 6.3 Consensus size: 132
36761938 GTGGAGCAGG
* * * *
36761948 TTGAAGATTTCAGATCTTGCCTTCCT--GCATAGACAGTGAAGCAGATCAAAGATGGTGGATTTT
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGC--AG-TAGTGGAGCAGATCAAAGATGGCGGATTTT
* *
36762011 ACCTCCTCATG-A-TTACAGTGGAGTACATTGAAGCCGGTAATTCTACTTCCCTGGGCAGCAGTG
63 ACCTCC-C-TGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTG
36762074 GAATAGA
126 GAATAGA
** ** ** * *
36762081 TCAAAGATAACAGATCTTGCCTTTCT--GCA-TAGACAGCGAAGCAGATCAAAGATGGTGGATTT
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAG--TG-G-AGCAGATCAAAGATGGCGGATTT
* *
36762143 TACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAACAGTG
62 TACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTG
36762207 GAATAGA
126 GAATAGA
* *
36762214 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACC
36762279 TCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
66 TCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
36762344 GA
131 GA
*
36762346 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGAT-AGAAGATGGCGAATTTTAC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCA-AAGATGGCGGATTTTAC
36762410 CTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
65 CTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
36762475 AGA
130 AGA
*
36762478 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGAT-AGAAGATGGCGAATTTTAC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCA-AAGATGGCGGATTTTAC
* *
36762542 CTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGGCAGCAGCGGAAT
65 CTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
36762607 AGA
130 AGA
* *
36762610 TTGAAGATTTCAGATCTTGCCTCCCTAAGCTGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACC
* * *
36762675 TCCCT-AAGATTACAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCCTGGGCAACAGTGGAAT
66 TCCCTGAAG-TTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
36762739 AGA
130 AGA
* ** **
36762742 TTGAAGATTACAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 TTGAAGATTTCAGATCTTGCCTCCCT-AAGCAGTAGTGGAGCAGA
36762787 CAGAAGTATA
Statistics
Matches: 650, Mismatches: 41, Indels: 30
0.90 0.06 0.04
Matches are distributed among these distances:
129 2 0.00
131 7 0.01
132 489 0.75
133 145 0.22
134 1 0.00
135 3 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (132 bp):
TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACC
TCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
GA
Found at i:36762339 original size:43 final size:43
Alignment explanation
Indices: 36762143--36762615 Score: 154
Period size: 44 Copynumber: 10.8 Consensus size: 43
36762133 TGGTGGATTT
** *
36762143 TACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTC
1 TACCTCCCTGA-GCAGCAGTGGAGTAGATTGAAGCCAGTAATTC
* * * * *
36762187 TATCTCCCTGGGCAACAGTGGAATAGATTGAAG--ATTTCAGA-TC
1 TACCTCCCTGAGCAGCAGTGGAGTAGATTGAAGCCA-GT-A-ATTC
** * * * * *** ** *
36762230 TTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 -TACCTCCCTGAGCAGCAGTGGAGTAGATTGAAGCCAG-TAATTC
** *
36762275 TACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTC
1 TACCTCCCTG-AGCAGCAGTGGAGTAGATTGAAGCCAGTAATTC
* * * *
36762319 TACTTCCCTGGGCAGCAGTGGAATAGATTGAAG--ATTTCAGA-TC
1 TACCTCCCTGAGCAGCAGTGGAGTAGATTGAAGCCA-GT-A-ATTC
* * * * * *** * *
36762362 TTGCCTCCCTAAGCAGTAGTGGAGCAGATAGAAGATGGCGAATTT
1 -TACCTCCCTGAGCAGCAGTGGAGTAGATTGAAGCCAG-TAATTC
** *
36762407 TACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTC
1 TACCTCCCTG-AGCAGCAGTGGAGTAGATTGAAGCCAGTAATTC
* * * *
36762451 TACTTCCCTGGGCAGCAGTGGAATAGATTGAAG--ATTTCAGA-TC
1 TACCTCCCTGAGCAGCAGTGGAGTAGATTGAAGCCA-GT-A-ATTC
* * * * * *** * *
36762494 TTGCCTCCCTAAGCAGTAGTGGAGCAGATAGAAGATGGCGAATTT
1 -TACCTCCCTGAGCAGCAGTGGAGTAGATTGAAGCCAG-TAATTC
** *
36762539 TACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTC
1 TACCTCCCTG-AGCAGCAGTGGAGTAGATTGAAGCCAGTAATTC
* * * * *
36762583 TACTTCCTTGGGCAGCAGCGGAATAGATTGAAG
1 TACCTCCCTGAGCAGCAGTGGAGTAGATTGAAG
36762616 ATTTCAGATC
Statistics
Matches: 294, Mismatches: 108, Indels: 55
0.64 0.24 0.12
Matches are distributed among these distances:
41 3 0.01
42 3 0.01
43 79 0.27
44 150 0.51
45 59 0.20
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
TACCTCCCTGAGCAGCAGTGGAGTAGATTGAAGCCAGTAATTC
Found at i:36763635 original size:18 final size:19
Alignment explanation
Indices: 36763594--36763635 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
36763584 TATCGTTATA
36763594 CATTTTTTTCATTTTCTTT
1 CATTTTTTTCATTTTCTTT
*
36763613 TATTTTTTT-A-TTTCGTTT
1 CATTTTTTTCATTTTC-TTT
36763631 CATTT
1 CATTT
36763636 GAAATAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 8 0.40
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
CATTTTTTTCATTTTCTTT
Found at i:36764197 original size:3 final size:3
Alignment explanation
Indices: 36764186--36764222 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
36764176 TTTAAAATAT
* *
36764186 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36764223 ACATATACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:36766529 original size:39 final size:39
Alignment explanation
Indices: 36766451--36766530 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 39
36766441 TAGGTCCTGG
* * * *
36766451 AGCTATAAAGCTAGGACTTTTGAAAGTAATGTCTGTAAA
1 AGCTATAAAGCTAGGACCTTTAAAAGGAATGTCTCTAAA
* *
36766490 AGCTATTAAGCTAGGACCTTTAAAAGCGATTGT-TCTAAA
1 AGCTATAAAGCTAGGACCTTTAAAAG-GAATGTCTCTAAA
36766529 AG
1 AG
36766531 ATGACCCTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 30 0.88
40 4 0.12
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (39 bp):
AGCTATAAAGCTAGGACCTTTAAAAGGAATGTCTCTAAA
Found at i:36778547 original size:54 final size:54
Alignment explanation
Indices: 36778445--36778556 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
36778435 GCACACAACT
* * *
36778445 GTGTGTGGCAACTTAGAGAGTTACACGGCTTGGCACACAGCCTGCGACACAGTC
1 GTGTATGGCAACTCAGAGAGTTACACGGCTTGGCACACAGCCTACGACACAGTC
* * ** *
36778499 GTGTATGGCAACTCGGAGAGTTACATGGCTTGGCACATGGCCTACGACACGGTC
1 GTGTATGGCAACTCAGAGAGTTACACGGCTTGGCACACAGCCTACGACACAGTC
36778553 GTGT
1 GTGT
36778557 GACCCTACTC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.22
Consensus pattern (54 bp):
GTGTATGGCAACTCAGAGAGTTACACGGCTTGGCACACAGCCTACGACACAGTC
Found at i:36779455 original size:23 final size:22
Alignment explanation
Indices: 36779358--36779493 Score: 105
Period size: 23 Copynumber: 6.0 Consensus size: 22
36779348 ATATATTGAA
*
36779358 AGGTATA-TTGGTTGTGTTTAG
1 AGGTATATTTGGTTGTGTTTGG
* **
36779379 AGGCTATACTTGGTTGTGTTCAG
1 AGG-TATATTTGGTTGTGTTTGG
*
36779402 AGGTTATACATATGGTTGTGTTTGG
1 AGG-TAT--ATTTGGTTGTGTTTGG
*
36779427 AAGGTATATTTGGTTGTGTTCGG
1 -AGGTATATTTGGTTGTGTTTGG
* *
36779450 ATGGTACATATGGTTGTGTTTGG
1 A-GGTATATTTGGTTGTGTTTGG
* *
36779473 AGGGTA-AATTGGTTATGTTTG
1 A-GGTATATTTGGTTGTGTTTG
36779494 ATGGGTGATA
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
21 3 0.03
22 17 0.18
23 56 0.60
25 15 0.16
26 3 0.03
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.43
Consensus pattern (22 bp):
AGGTATATTTGGTTGTGTTTGG
Found at i:36779472 original size:46 final size:46
Alignment explanation
Indices: 36779366--36779491 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 46
36779356 AAAGGTATAT
* *
36779366 TGGTTGTGTTTAG-AGGCTATACTTGGTTGTGTTCAGAGGTTATACATA
1 TGGTTGTGTTTGGAAGG-TATAATTGGTTGTGTTCAGAGG-T-TACATA
* *
36779414 TGGTTGTGTTTGGAAGGTATATTTGGTTGTGTTCGGATGG-TACATA
1 TGGTTGTGTTTGGAAGGTATAATTGGTTGTGTTCAGA-GGTTACATA
* *
36779460 TGGTTGTGTTTGGAGGGTA-AATTGGTTATGTT
1 TGGTTGTGTTTGGAAGGTATAATTGGTTGTGTT
36779492 TGATGGGTGA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
45 11 0.16
46 24 0.34
48 30 0.43
49 5 0.07
ACGTcount: A:0.18, C:0.05, G:0.33, T:0.44
Consensus pattern (46 bp):
TGGTTGTGTTTGGAAGGTATAATTGGTTGTGTTCAGAGGTTACATA
Found at i:36780729 original size:24 final size:24
Alignment explanation
Indices: 36780697--36780768 Score: 144
Period size: 24 Copynumber: 3.0 Consensus size: 24
36780687 TTACTGAAAG
36780697 TAAGTAAATTGTTTTTATTTCTAT
1 TAAGTAAATTGTTTTTATTTCTAT
36780721 TAAGTAAATTGTTTTTATTTCTAT
1 TAAGTAAATTGTTTTTATTTCTAT
36780745 TAAGTAAATTGTTTTTATTTCTAT
1 TAAGTAAATTGTTTTTATTTCTAT
36780769 GGCTTGGTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.58
Consensus pattern (24 bp):
TAAGTAAATTGTTTTTATTTCTAT
Found at i:36782656 original size:4 final size:4
Alignment explanation
Indices: 36782647--36782779 Score: 160
Period size: 4 Copynumber: 32.2 Consensus size: 4
36782637 AGATATTGAG
36782647 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
36782695 TACA TACA TACA TACA TACA TACA TACA TGAC- TTCGT TAGA TAGTGA
1 TACA TACA TACA TACA TACA TACA TACA T-ACA TAC-A TACA TA--CA
* *
36782742 GTACA TACA TACA TACA CACA CACA TACA TACA TACA T
1 -TACA TACA TACA TACA TACA TACA TACA TACA TACA T
36782780 GACTTCGTTA
Statistics
Matches: 116, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
3 1 0.01
4 107 0.92
5 4 0.03
6 2 0.02
7 2 0.02
ACGTcount: A:0.46, C:0.24, G:0.05, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:36782747 original size:56 final size:56
Alignment explanation
Indices: 36782687--36782876 Score: 321
Period size: 56 Copynumber: 3.4 Consensus size: 56
36782677 CATACATACA
* *
36782687 TACATACATACATACATACATACATACATACATACATGACTTCGTTAGATAGTGAG
1 TACATACATACATACACACACACATACATACATACATGACTTCGTTAGATAGTGAG
36782743 TACATACATACATACACACACACATACATACATACATGACTTCGTTAGATAGTGAG
1 TACATACATACATACACACACACATACATACATACATGACTTCGTTAGATAGTGAG
*
36782799 TACATACATAC--ACACACACACATACATACATACATGACTTCGTTAGATATTGAG
1 TACATACATACATACACACACACATACATACATACATGACTTCGTTAGATAGTGAG
* *
36782853 TACATACACACACACACACACACA
1 TACATACATACATACACACACACA
36782877 CACACACACA
Statistics
Matches: 128, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
54 52 0.41
56 76 0.59
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (56 bp):
TACATACATACATACACACACACATACATACATACATGACTTCGTTAGATAGTGAG
Found at i:36782865 original size:2 final size:2
Alignment explanation
Indices: 36782858--36782889 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36782848 TTGAGTACAT
36782858 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
36782890 CACTAAGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:36791527 original size:29 final size:29
Alignment explanation
Indices: 36791485--36791546 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
36791475 CCAATTTTGG
36791485 GCGTTACGAGGGTGCTAACCCTTCCTCGT
1 GCGTTACGAGGGTGCTAACCCTTCCTCGT
36791514 GCGTTACGAGGGTGCTAACCCTTCCTCGT
1 GCGTTACGAGGGTGCTAACCCTTCCTCGT
36791543 GCGT
1 GCGT
36791547 AACTGACTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.13, C:0.31, G:0.29, T:0.27
Consensus pattern (29 bp):
GCGTTACGAGGGTGCTAACCCTTCCTCGT
Found at i:36795586 original size:7 final size:7
Alignment explanation
Indices: 36795561--36795595 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
36795551 AGTGATGTGA
36795561 AAAAATG
1 AAAAATG
36795568 AAAAGATG
1 AAAA-ATG
36795576 -AAAATG
1 AAAAATG
36795582 AAAAATG
1 AAAAATG
36795589 AAAAATG
1 AAAAATG
36795596 GAGAGGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 3 0.12
7 20 0.77
8 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:36797404 original size:44 final size:44
Alignment explanation
Indices: 36797355--36797542 Score: 136
Period size: 44 Copynumber: 4.3 Consensus size: 44
36797345 CCTGGGCAAC
36797355 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
** ** ** * * **
36797399 AGTGGAGCGGATCAAAGATGGCAGATTTTACCTCCCT--GTGGTT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG-T
* * *
36797442 ACAGTGGAGTACATTGAAG---CCAGTAAT-TCTATCTCCCTAGGCAGT
1 --AGTGGAGTAGATTGAAGATTTCAG--ATCT-TATCTCCCTAAGCAGT
* *
36797487 AGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
*
36797531 AGTGGAGCAGAT
1 AGTGGAGTAGAT
36797543 CAAAGATGGA
Statistics
Matches: 106, Mismatches: 26, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
42 5 0.05
43 17 0.16
44 65 0.61
45 14 0.13
46 5 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
Found at i:36798050 original size:132 final size:132
Alignment explanation
Indices: 36796877--36798047 Score: 1894
Period size: 132 Copynumber: 8.9 Consensus size: 132
36796867 TCCCTCGGTT
36796877 GTAGTGGAGCAGATCAAAGATGGCGG-TTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * *
36796941 CAGTAATTCTACTTCTCTGGGCAGCAGCGGAATAGATTGAAGATTACAGATCTTGTCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
36797006 CA
131 CA
**
36797008 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCATTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * *
36797073 CGGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATATATTGAAGATTTCATATCTTGTCTCCCTAA
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAA
36797137 GCA
130 GCA
* * * *
36797140 GTAGTGGAGCAGATCAAAGATAGCAGATTTTACCTCCCTGTAGTTACAATGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
*
36797205 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGA-TT----TCTTGTCTCCCTAAA
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
36797265 CA
131 CA
*
36797267 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGT--ATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * * *
36797330 CAATAATTCTACTTCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
36797395 CA
131 CA
* *
36797397 GTAGTGGAGCGGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* *
36797462 CAGTAATTCTA-TCTCCCTAGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAA
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAA
36797526 GCA
130 GCA
* * *
36797529 GTAGTGGAGCAGATCAAAGATGGAGGGTTTTACCTCCCTGTGGTTACAGTGGAGCACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* *
36797594 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAATATTTCAGATCTTGTCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
36797659 CA
131 CA
**
36797661 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCATTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
*
36797726 CAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
36797791 CA
131 CA
* *
36797793 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * *
36797858 CAGTAATTCTACTTCCCTGGGTAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
36797923 CA
131 CA
36797925 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * * **
36797990 CAGTAATTCTACTTCCCTAGGTAGCAGTGGAATAGATTAAAGATACCAGATCTTGTCT
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCT
36798048 TCCCATACTG
Statistics
Matches: 968, Mismatches: 60, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
125 48 0.05
126 2 0.00
127 68 0.07
130 69 0.07
131 30 0.03
132 749 0.77
133 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (132 bp):
GTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
CA
Found at i:36798116 original size:44 final size:44
Alignment explanation
Indices: 36798063--36798298 Score: 160
Period size: 44 Copynumber: 5.3 Consensus size: 44
36798053 TACTGGTGGC
* * *
36798063 GAAGTAGATCGAAGAAAATAGATCTTGTCCTCATGTATCAGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCCTCATGTATCGGCGT
* * * * *
36798107 GAAGTAGATCAAATACAACAGATATTGTCTCCCCA--TA-CTGGTGGT
1 GAAGTAGATCAAAGAAAACAGATCTTG--TCCTCATGTATC-GG-CGT
** * * *** *
36798152 GGAA-TAGATTGAAGAAATCAGATCTTGTCTTCCCATA-CTGGTGT
1 -GAAGTAGATCAAAGAAAACAGATCTTGTCCTCATGTATC-GGCGT
* * *
36798196 GAAGTAGATCAAAGATAGCAGATCTTG-CCTTCATGTATTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCC-TCATGTATCGGCGT
* * *
36798240 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCCTCATGTATCGGCGT
*
36798284 GAAGTTGATCAAAGA
1 GAAGTAGATCAAAGA
36798299 TGGCGGATTT
Statistics
Matches: 147, Mismatches: 34, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
43 8 0.05
44 105 0.71
45 26 0.18
46 8 0.05
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (44 bp):
GAAGTAGATCAAAGAAAACAGATCTTGTCCTCATGTATCGGCGT
Found at i:36798218 original size:89 final size:89
Alignment explanation
Indices: 36798022--36798299 Score: 222
Period size: 89 Copynumber: 3.1 Consensus size: 89
36798012 AGCAGTGGAA
* * * *
36798022 TAGATTAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATC
1 TAGATCAAAGATAACAGATATTGTCTCCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATC
**
36798087 TTGTCCTCATGTATCAGCGTGAAG
66 TTGTCCTCACATATCAGCGTGAAG
* * * *
36798111 TAGATCAAATACAACAGATATTGTCTCCCCATACTGGTGGTGGAA-TAGATTGAAG-AAATCAGA
1 TAGATCAAAGATAACAGATATTGTCTCCCCATACTGGTGG-CGAAGTAGATCGAAGAAAAT-AGA
* * * *
36798174 TCTTGTCTTCCCATA-CTGGTGTGAAG
64 TCTTGTCCTCACATATC-AGCGTGAAG
* * * * *** * * * *
36798200 TAGATCAAAGATAGCAGATCTTGCCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAACAGATC
1 TAGATCAAAGATAACAGATATTGTCTCCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATC
* ** **
36798264 TTGTCTTCATGTATTGGCGTGAAG
66 TTGTCCTCACATATCAGCGTGAAG
*
36798288 TTGATCAAAGAT
1 TAGATCAAAGAT
36798300 GGCGGATTTT
Statistics
Matches: 149, Mismatches: 34, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
87 3 0.02
88 49 0.33
89 94 0.63
90 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
TAGATCAAAGATAACAGATATTGTCTCCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATC
TTGTCCTCACATATCAGCGTGAAG
Found at i:36798260 original size:133 final size:134
Alignment explanation
Indices: 36798016--36798269 Score: 359
Period size: 133 Copynumber: 1.9 Consensus size: 134
36798006 CTAGGTAGCA
* *
36798016 GTGGAATAGATTAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
1 GTGGAATAGATTAAAGAAACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAA
* * *
36798081 TAGATCTTGTCCTCATGTATCAGCGTGAAGTAGATCAAATACAACAGATATTGTCTCCCCATACT
66 CAGATCTTGTCCTCATGTATCAGCGTGAAGTAGATCAAAGAAAACAGATATTGTCTCCCCATACT
36798146 GGTG
131 GGTG
* * * * *
36798150 GTGGAATAGATTGAAGAAATCAGATCTTGTCTTCCCATACTGGT-GTGAAGTAGATCAAAGATAG
1 GTGGAATAGATTAAAGAAACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAA
** * *
36798214 CAGATCTTG-CCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCT
66 CAGATCTTGTCC-TCATGTATCAGCGTGAAGTAGATCAAAGAAAACAGATATTGTCT
36798270 TCATGTATTG
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
132 2 0.02
133 62 0.59
134 41 0.39
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (134 bp):
GTGGAATAGATTAAAGAAACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAA
CAGATCTTGTCCTCATGTATCAGCGTGAAGTAGATCAAAGAAAACAGATATTGTCTCCCCATACT
GGTG
Found at i:36800067 original size:3 final size:3
Alignment explanation
Indices: 36800055--36800152 Score: 162
Period size: 3 Copynumber: 32.3 Consensus size: 3
36800045 ATTATCACCC
*
36800055 TTA TTA -TA TTA TTT TTCCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT--A TTA TTA TTA TTA TTA TTA TTA TTA TTA
36800101 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36800149 TTA T
1 TTA T
36800153 ATCATTTACT
Statistics
Matches: 90, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
2 2 0.02
3 86 0.96
5 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:36803484 original size:18 final size:18
Alignment explanation
Indices: 36803458--36803495 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
36803448 TAAATTTTAC
*
36803458 AATTTGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
36803476 AATTCGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
36803494 AA
1 AA
36803496 CAAATTGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:36804547 original size:17 final size:17
Alignment explanation
Indices: 36804516--36804549 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36804506 AACAAATAAT
* *
36804516 TTAAAAATCATAAAATA
1 TTAAAAATAAAAAAATA
36804533 TTAAAAATAAAAAAATA
1 TTAAAAATAAAAAAATA
36804550 AAATTCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TTAAAAATAAAAAAATA
Found at i:36809344 original size:26 final size:27
Alignment explanation
Indices: 36809315--36809371 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
36809305 TACTTTTAAT
36809315 ATTTTATA-ATTTT-TCATTTTTATAAA
1 ATTTTATATATTTTATCA-TTTTATAAA
* *
36809341 A-TTTATATATTTTATGATTTTATAAT
1 ATTTTATATATTTTATCATTTTATAAA
36809367 ATTTT
1 ATTTT
36809372 TAAAATAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 6 0.23
26 15 0.58
27 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
ATTTTATATATTTTATCATTTTATAAA
Found at i:36809353 original size:18 final size:19
Alignment explanation
Indices: 36809311--36809377 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 19
36809301 TATGTACTTT
*
36809311 TAATATTTTAT--AATTTT
1 TAATATTTTATAAAATTTA
*
36809328 TCAT-TTTTATAAAATTTA
1 TAATATTTTATAAAATTTA
* *
36809346 T-ATATTTTAT-GATTTTA
1 TAATATTTTATAAAATTTA
36809363 TAATATTTT-TAAAAT
1 TAATATTTTATAAAAT
36809378 AACATGCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
16 6 0.15
17 12 0.31
18 21 0.54
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
TAATATTTTATAAAATTTA
Found at i:36814406 original size:31 final size:31
Alignment explanation
Indices: 36814368--36814426 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
36814358 CTTAACTACC
36814368 CAATGACTTAAATAAAAACTTTCAAATAATT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
* *
36814399 CAATGACTTAAATGAAAACTTTCGAATA
1 CAATGACTTAAATAAAAACTTTCAAATA
36814427 GTTTAACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAATT
Found at i:36819196 original size:3 final size:3
Alignment explanation
Indices: 36819188--36819215 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36819178 TCAATATCAG
36819188 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
36819216 ATCATCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:36819833 original size:3 final size:3
Alignment explanation
Indices: 36819825--36819856 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
36819815 GAACTAACAG
36819825 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
36819857 AGGATACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:36820125 original size:7 final size:7
Alignment explanation
Indices: 36820113--36820137 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36820103 ATTATTGTTG
36820113 TTGTTCA
1 TTGTTCA
36820120 TTGTTCA
1 TTGTTCA
36820127 TTGTTCA
1 TTGTTCA
36820134 TTGT
1 TTGT
36820138 GGTGATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.60
Consensus pattern (7 bp):
TTGTTCA
Found at i:36820187 original size:2 final size:2
Alignment explanation
Indices: 36820180--36820208 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36820170 TTGATTGATC
36820180 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36820209 TTGATTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36829275 original size:119 final size:120
Alignment explanation
Indices: 36829119--36829345 Score: 323
Period size: 121 Copynumber: 1.9 Consensus size: 120
36829109 GTAGTCGGAT
* * * * * *
36829119 TTTCTACATTTTTCATGTTTCGAGGTCATATCCGCATATCGATGT-TATA-TTAAACCTAGTAAC
1 TTTCTACATTTTTCATGTTTCAAAGCCATATCCGCATATCCATGTGTAGACTTAAACCCAGTAAC
*
36829182 CTACTTGTAACCGTCAGATATGAGTATGGGTCCGAATATCATCATTTTTTCTACA
66 CTACTTGTAACCGTCAGATACGAGTATGGGTCCGAATATCATCATTTTTTCTACA
* *
36829237 TTTCTACATTTTTTCATGTTTCAAAGCCATATCTGCATATCCATGTGTCGACTTAAACCCAGTAA
1 TTTCTACA-TTTTTCATGTTTCAAAGCCATATCCGCATATCCATGTGTAGACTTAAACCCAGTAA
** *
36829302 CCTACTTGTAAGTGTCAGATACGAGTGTGGGTCCGAATATCATC
65 CCTACTTGTAACCGTCAGATACGAGTATGGGTCCGAATATCATC
36829346 GGATTTTCGA
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
118 8 0.09
119 32 0.34
120 2 0.02
121 52 0.55
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (120 bp):
TTTCTACATTTTTCATGTTTCAAAGCCATATCCGCATATCCATGTGTAGACTTAAACCCAGTAAC
CTACTTGTAACCGTCAGATACGAGTATGGGTCCGAATATCATCATTTTTTCTACA
Found at i:36833597 original size:17 final size:18
Alignment explanation
Indices: 36833556--36833597 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
36833546 CGTATATACA
36833556 TTTATATTTCTATTATAT
1 TTTATATTTCTATTATAT
36833574 TTATATATTT-T-TTCATAT
1 TT-TATATTTCTATT-ATAT
36833592 TTTATA
1 TTTATA
36833598 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.27
18 9 0.41
19 7 0.32
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATTTCTATTATAT
Found at i:36846697 original size:27 final size:25
Alignment explanation
Indices: 36846665--36846797 Score: 78
Period size: 24 Copynumber: 5.4 Consensus size: 25
36846655 TGAACCCTTA
*
36846665 AACGGGAAGCTCTCTCTCGAGCCATAT
1 AACGGGAAGCTC-ATCT-GAGCCATAT
* * *
36846692 AACGGGATGCTCATGTGAGCCATGT
1 AACGGGAAGCTCATCTGAGCCATAT
** *
36846717 AACGGGAAGCTCCA-GAGAGCTAT-T
1 AACGGGAAGCT-CATCTGAGCCATAT
* ** *
36846741 AATGGGAAGCTCCA-AAGAGCTAT-T
1 AACGGGAAGCT-CATCTGAGCCATAT
* *
36846765 AATGGGAAGCTCATATGAGCCA-AT
1 AACGGGAAGCTCATCTGAGCCATAT
36846789 AACGGGAAG
1 AACGGGAAG
36846798 ATTCAAGCGA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.02
24 49 0.54
25 25 0.27
26 4 0.04
27 11 0.12
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATCTGAGCCATAT
Found at i:36846736 original size:25 final size:24
Alignment explanation
Indices: 36846683--36846849 Score: 122
Period size: 24 Copynumber: 6.8 Consensus size: 24
36846673 GCTCTCTCTC
* *
36846683 GAGCCATATAACGGGATGCT-CATGT
1 GAGCCAT-TAACGGGAAGCTCCA-GA
36846708 GAGCCATGTAACGGGAAGCTCCAGA
1 GAGCCAT-TAACGGGAAGCTCCAGA
* * *
36846733 GAGCTATTAATGGGAAGCTCCAAA
1 GAGCCATTAACGGGAAGCTCCAGA
* * *
36846757 GAGCTATTAATGGGAAGCT-CATA
1 GAGCCATTAACGGGAAGCTCCAGA
* * * *
36846780 TGAGCCAATAACGGGAAGATTCAAGC
1 -GAGCCATTAACGGGAAG-CTCCAGA
* * * *
36846806 GAGCTAATATCGGGAAGCTCTAGA
1 GAGCCATTAACGGGAAGCTCCAGA
36846830 GAGCCATTAATCGGGAAGCT
1 GAGCCATTAA-CGGGAAGCT
36846850 AATGAAAGAT
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
23 3 0.03
24 59 0.51
25 50 0.43
26 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.20
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCCAGA
Found at i:36846784 original size:73 final size:74
Alignment explanation
Indices: 36846683--36846849 Score: 189
Period size: 73 Copynumber: 2.3 Consensus size: 74
36846673 GCTCTCTCTC
* * * * *
36846683 GAGCCATATAA-CGGGATGCTCATGTGAGCCATGTAACGGGAAG-CTCCAGAGAGCTATTAAT-G
1 GAGCCAT-TAATCGGGAAGCTCATATGAGCCA-ATAACGGGAAGACTCAAGAGAGCTAAT-ATCG
36846745 GGAAGCTCCAAA
63 GGAAGCTCCAAA
* * *
36846757 GAGCTATTAAT-GGGAAGCTCATATGAGCCAATAACGGGAAGATTCAAGCGAGCTAATATCGGGA
1 GAGCCATTAATCGGGAAGCTCATATGAGCCAATAACGGGAAGACTCAAGAGAGCTAATATCGGGA
* *
36846821 AGCTCTAGA
66 AGCTCCAAA
36846830 GAGCCATTAATCGGGAAGCT
1 GAGCCATTAATCGGGAAGCT
36846850 AATGAAAGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
72 12 0.15
73 52 0.67
74 14 0.18
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.20
Consensus pattern (74 bp):
GAGCCATTAATCGGGAAGCTCATATGAGCCAATAACGGGAAGACTCAAGAGAGCTAATATCGGGA
AGCTCCAAA
Found at i:36853407 original size:50 final size:50
Alignment explanation
Indices: 36853352--36853471 Score: 136
Period size: 50 Copynumber: 2.4 Consensus size: 50
36853342 ATCAAGTTGT
**
36853352 ATATCGAGAAGCTCATAAGAGCCATAAATT-GGAAAGCTAATTCGAGCCAA
1 ATATCGAGAAGCTCATAAGAGCCATAAATTAGG-AAGCTAATGAGAGCCAA
* * * **
36853402 TTATCGGGAAGCTCA-AGAGAGCCATTAATTAGGAAGCTCGTGAGAGCCAA
1 ATATCGAGAAGCTCATA-AGAGCCATAAATTAGGAAGCTAATGAGAGCCAA
*
36853452 ATATCGAGATGCTCATAAGA
1 ATATCGAGAAGCTCATAAGA
36853472 ACTATGGTGT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.02
50 53 0.93
51 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (50 bp):
ATATCGAGAAGCTCATAAGAGCCATAAATTAGGAAGCTAATGAGAGCCAA
Found at i:36853423 original size:25 final size:25
Alignment explanation
Indices: 36853395--36853466 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
36853385 AAGCTAATTC
36853395 GAGCCAATTATCGGGAAGCTCAAGA
1 GAGCCAATTATCGGGAAGCTCAAGA
** **
36853420 GAGCC-ATTAATTAGGAAGCTCGTGA
1 GAGCCAATT-ATCGGGAAGCTCAAGA
* * *
36853445 GAGCCAAATATCGAGATGCTCA
1 GAGCCAATTATCGGGAAGCTCA
36853467 TAAGAACTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
24 3 0.09
25 30 0.86
26 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (25 bp):
GAGCCAATTATCGGGAAGCTCAAGA
Found at i:36859637 original size:18 final size:18
Alignment explanation
Indices: 36859584--36859637 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
36859574 TATTCACCTA
*
36859584 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCAAACCCAATT
* *
36859603 ATCCAACCCAACCCAATT
1 ACCCAACCAAACCCAATT
*
36859621 ACCCAACCGAACCCAAT
1 ACCCAACCAAACCCAAT
36859638 CATAAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.41, C:0.44, G:0.04, T:0.11
Consensus pattern (18 bp):
ACCCAACCAAACCCAATT
Found at i:36868227 original size:14 final size:15
Alignment explanation
Indices: 36868195--36868234 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
36868185 GAAACTCTAA
36868195 TTTCTCCTTTCTTTC
1 TTTCTCCTTTCTTTC
36868210 TTTC-CCTTT-TTTC
1 TTTCTCCTTTCTTTC
36868223 TTT-T-CTTTCTTT
1 TTTCTCCTTTCTTT
36868235 TTCTCCCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 5 0.22
15 4 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTCCTTTCTTTC
Found at i:36873503 original size:30 final size:32
Alignment explanation
Indices: 36873455--36873522 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
36873445 GAAAACGCAG
* * **
36873455 AAATTTGACTTTTTTTTAAAGGA-TGATGGTC
1 AAATTTGACTTCTTTTTAAAAGATTGATGACC
36873486 AAATTTGAC-TCTTTTTAAAAGATTGATGACC
1 AAATTTGACTTCTTTTTAAAAGATTGATGACC
36873517 AAATTT
1 AAATTT
36873523 AGCTAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (32 bp):
AAATTTGACTTCTTTTTAAAAGATTGATGACC
Found at i:36876833 original size:2 final size:2
Alignment explanation
Indices: 36876826--36876857 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36876816 TTTAAACTAA
36876826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36876858 TAAACCCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36895359 original size:107 final size:108
Alignment explanation
Indices: 36895101--36895539 Score: 575
Period size: 107 Copynumber: 4.1 Consensus size: 108
36895091 CATAAAAAAG
* * * * * *
36895101 AAAATTTTCTAAATAAGGCAATGTTTTGCGTTTGGAAAATCGAGAAAACGTGCTCTAACGTGCTG
1 AAAACTTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
36895166 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATACCCTTTT
66 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATACCCTTTT
*
36895209 AAAACTTTCAAAATAAGGCCATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
1 AAAACTTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
36895274 GGTTTCGATTTCTCGTTTGACCAAAAT-GCCAAATACCCTTTT
66 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATACCCTTTT
* * *
36895316 AAAACTTTCAAAATAAGGCCATATTTCGCGTTTGGAAACTCGAGAAAACGTGCCCTAACGTGGTG
1 AAAACTTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
* * * * * * *
36895381 GGTTTCGATTACTCGTTTGGCC-GAATAGTCGAATATCCTTTC
66 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATACCCTTTT
* ** * * *
36895423 GAAA--TTCTAAAACGAGGCAATGTTTCGCGTTTGGAAATTCGAGAGAACGTGCCCTAACGCGCT
1 AAAACTTTC-AAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCT
* * * * *
36895486 GGGTTTTGATTTCTCGTTCGA-CTAAATAGCCAAATATCCTCTT
65 GGGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATACCCTTTT
36895529 AAAAC-TTCAAA
1 AAAACTTTCAAA
36895540 GTATGGTTTC
Statistics
Matches: 292, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
105 4 0.01
106 88 0.30
107 115 0.39
108 85 0.29
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (108 bp):
AAAACTTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATACCCTTTT
Done.