Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 66 of 100
Found at i:11913941 original size:16 final size:16
Alignment explanation
Indices: 11913922--11914069 Score: 62
Period size: 16 Copynumber: 9.1 Consensus size: 16
11913912 TCTTTTGTAT
11913922 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
11913938 TTTATTATTATTATTA
1 TTTATTATTATTATTA
11913954 TTGTGTATTAATATATATATATA
1 -T-T-TATT-AT-TAT-TAT-TA
* * *
11913977 TTT-TTTTCTGTTAATA
1 TTTATTAT-TATTATTA
11913993 TTTA-TATGTATT-TTA
1 TTTATTAT-TATTATTA
11914008 TTTA-TA-TAGTTA-TA
1 TTTATTATTA-TTATTA
*
11914022 TTTGTTATTATTA-T-
1 TTTATTATTATTATTA
* *
11914036 GTTATCATTATTATTA
1 TTTATTATTATTATTA
*
11914052 TATTATTATTATCATTA
1 T-TTATTATTATTATTA
11914069 T
1 T
11914070 CATTTTTTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
13 2 0.02
14 17 0.17
15 19 0.19
16 23 0.23
17 17 0.17
18 4 0.04
19 6 0.06
20 3 0.03
21 4 0.04
22 4 0.04
23 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:11914046 original size:17 final size:17
Alignment explanation
Indices: 11914026--11914069 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
11914016 GTTATATTTG
*
11914026 TTATTATTATGTTATCA
1 TTATTATTATATTATCA
*
11914043 TTATTATTATATTATTA
1 TTATTATTATATTATCA
*
11914060 TTATCATTAT
1 TTATTATTAT
11914070 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATTATTATATTATCA
Found at i:11914047 original size:14 final size:12
Alignment explanation
Indices: 11914037--11914069 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
11914027 TATTATTATG
11914037 TTATCATTATTA
1 TTATCATTATTA
11914049 TTAT-ATTATTA
1 TTATCATTATTA
11914060 TTATCATTAT
1 TTATCATTAT
11914070 CATTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATCATTATTA
Found at i:11914669 original size:18 final size:18
Alignment explanation
Indices: 11914646--11914700 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 18
11914636 TCCGGCCAAC
11914646 TTCCGGTGAATTTCCAGA
1 TTCCGGTGAATTTCCAGA
*
11914664 TTCCGGTGACTTTTTCCAGA
1 TTCCGGTGA--ATTTCCAGA
*
11914684 ATCCGGTGAAATTTCCA
1 TTCCGGTG-AATTTCCA
11914701 CCGGAGTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 9 0.29
19 6 0.19
20 15 0.48
21 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (18 bp):
TTCCGGTGAATTTCCAGA
Found at i:11915050 original size:10 final size:10
Alignment explanation
Indices: 11915016--11915056 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
11915006 TTTTTGAAAT
11915016 TTTTTATTTA
1 TTTTTATTTA
*
11915026 TTTGT-TTTA
1 TTTTTATTTA
*
11915035 TCTTTATTTA
1 TTTTTATTTA
11915045 TTTTTATTTA
1 TTTTTATTTA
11915055 TT
1 TT
11915057 AGATTAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:11915102 original size:22 final size:22
Alignment explanation
Indices: 11915076--11915162 Score: 58
Period size: 22 Copynumber: 3.9 Consensus size: 22
11915066 TTATTTAATA
11915076 TTTTTTCTTTATCTTATTTTTA-
1 TTTTTT-TTTATCTTATTTTTAC
*
11915098 TTTTTGTTTTA-CTT-TTCTTTAATT
1 TTTTT-TTTTATCTTATT-TTT-A-C
*
11915122 TTTTTTTTTAT-TTATTTTCAC
1 TTTTTTTTTATCTTATTTTTAC
11915143 TTTTTTTATTAT-TCTATTTT
1 TTTTTTT-TTATCT-TATTTT
11915163 CTTTAAAGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
20 2 0.04
21 13 0.24
22 16 0.30
23 16 0.30
24 7 0.13
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (22 bp):
TTTTTTTTTATCTTATTTTTAC
Found at i:11915114 original size:32 final size:32
Alignment explanation
Indices: 11915078--11915152 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 32
11915068 ATTTAATATT
*
11915078 TTTTCTTTATCTTATTTTTATT-TTTGTTTT-AC
1 TTTTCTTTAT-TT-TTTTTATTATTTATTTTCAC
*
11915110 TTTTCTTTAATTTTTTTTTTTATTTATTTTCAC
1 TTTTCTTT-ATTTTTTTTATTATTTATTTTCAC
11915143 TTTT-TTTATT
1 TTTTCTTTATT
11915153 ATTCTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 10 0.26
32 20 0.53
33 8 0.21
ACGTcount: A:0.13, C:0.08, G:0.01, T:0.77
Consensus pattern (32 bp):
TTTTCTTTATTTTTTTTATTATTTATTTTCAC
Found at i:11915160 original size:23 final size:22
Alignment explanation
Indices: 11915121--11915163 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
11915111 TTTCTTTAAT
*
11915121 TTTTTTTTTTATTTATTTTCAC
1 TTTTTTTATTATTTATTTTCAC
11915143 TTTTTTTATTATTCTATTTTC
1 TTTTTTTATTATT-TATTTTC
11915164 TTTAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTATTTATTTTCAC
Found at i:11915303 original size:121 final size:122
Alignment explanation
Indices: 11915172--11915468 Score: 508
Period size: 121 Copynumber: 2.5 Consensus size: 122
11915162 TCTTTAAAGA
11915172 AAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
11915237 AAA-TTTAAAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
66 AAATTTTAAAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
11915293 AAAATCAAAATTTCCAAAACAATAGTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT
1 AAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
11915358 AAATTTTCAAAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
66 AAATTTTAAAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
11915415 AAAATCGAAATTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
11915469 TCCTATACAA
Statistics
Matches: 165, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
121 101 0.61
122 64 0.39
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (122 bp):
AAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
AAATTTTAAAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:11917047 original size:30 final size:30
Alignment explanation
Indices: 11916984--11917047 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
11916974 AACCGATGAC
* *
11916984 TTAATTGAGTGAAAATAAATATATAACATT
1 TTAATTGAGTGAAAATAAATATATAAAAAT
*
11917014 TTAATTTGA-TGAAAATAAATATTTAAAAAT
1 TTAA-TTGAGTGAAAATAAATATATAAAAAT
11917044 TTAA
1 TTAA
11917048 GATTTGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (30 bp):
TTAATTGAGTGAAAATAAATATATAAAAAT
Found at i:11917825 original size:20 final size:20
Alignment explanation
Indices: 11917783--11917825 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11917773 TGAGAACTTC
* *
11917783 AAATTTTTTTACAAATCTCA
1 AAATTTTTATACAAATCTAA
*
11917803 AAATTTTTATAGAAATCTAA
1 AAATTTTTATACAAATCTAA
11917823 AAA
1 AAA
11917826 ACTTCTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (20 bp):
AAATTTTTATACAAATCTAA
Found at i:11917960 original size:18 final size:18
Alignment explanation
Indices: 11917919--11917960 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
11917909 TGCAATATTA
11917919 AAAAAATCTAAAAATTTT
1 AAAAAATCTAAAAATTTT
**
11917937 TGAAAATCTAAAAATTTT
1 AAAAAATCTAAAAATTTT
11917955 AAAAAA
1 AAAAAA
11917961 AAAATTGCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAAATCTAAAAATTTT
Found at i:11918114 original size:17 final size:17
Alignment explanation
Indices: 11918092--11918126 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11918082 AAAAATTTTT
11918092 TTTTTAGAATTTTAGAA
1 TTTTTAGAATTTTAGAA
* *
11918109 TTTTTATATTTTTAGAA
1 TTTTTAGAATTTTAGAA
11918126 T
1 T
11918127 ATTCCAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTTTAGAATTTTAGAA
Found at i:11918183 original size:24 final size:22
Alignment explanation
Indices: 11918154--11918203 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
11918144 TTTTTTCTAA
11918154 TTTTTTAAAAATTTTAAGAATTT
1 TTTTTTAAAAA-TTTAAGAATTT
*
11918177 CTTTTTTAAAAATTTCAGAATTT
1 -TTTTTTAAAAATTTAAGAATTT
11918200 TTTT
1 TTTT
11918204 AAAAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.16
23 10 0.40
24 11 0.44
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTTTTAAAAATTTAAGAATTT
Found at i:11918187 original size:23 final size:23
Alignment explanation
Indices: 11918154--11918203 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11918144 TTTTTTCTAA
*
11918154 TTTTTTAAAAATTTTAAGAATTT
1 TTTTTTAAAAAATTTAAGAATTT
*
11918177 CTTTTTT-AAAAATTTCAGAATTT
1 -TTTTTTAAAAAATTTAAGAATTT
11918200 TTTT
1 TTTT
11918204 AAAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 14 0.58
24 6 0.25
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTTAAAAAATTTAAGAATTT
Found at i:11918213 original size:23 final size:23
Alignment explanation
Indices: 11918154--11918214 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
11918144 TTTTTTCTAA
11918154 TTTTTTAAAAAT--TTTAAGAAT
1 TTTTTTAAAAATAATTTAAGAAT
** *
11918175 TTCTTTTTTAAA-AATTTCAGAAT
1 TT-TTTTAAAAATAATTTAAGAAT
11918198 TTTTTTAAAAATAATTT
1 TTTTTTAAAAATAATTT
11918215 TTAATTTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.06
22 14 0.45
23 15 0.48
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTTTTAAAAATAATTTAAGAAT
Found at i:11920097 original size:31 final size:31
Alignment explanation
Indices: 11920059--11920118 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
11920049 CTTTGGTTTA
*
11920059 TTAATTTGGTTGTACAAAATTGACCTAATAC
1 TTAATTTGGGTGTACAAAATTGACCTAATAC
*
11920090 TTAATTTGGGTGTACTAAATTGACCTAAT
1 TTAATTTGGGTGTACAAAATTGACCTAAT
11920119 TCCTTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (31 bp):
TTAATTTGGGTGTACAAAATTGACCTAATAC
Found at i:11920568 original size:15 final size:16
Alignment explanation
Indices: 11920550--11920582 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11920540 AATTTGGCAT
*
11920550 TATT-TTTTTAATAAA
1 TATTCTTTTTAAAAAA
11920565 TATTCTTTTTAAAAAA
1 TATTCTTTTTAAAAAA
11920581 TA
1 TA
11920583 AAGTGATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTCTTTTTAAAAAA
Found at i:11922236 original size:13 final size:13
Alignment explanation
Indices: 11922218--11922243 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11922208 ATAGGTCTAC
11922218 ATACACAATAACA
1 ATACACAATAACA
11922231 ATACACAATAACA
1 ATACACAATAACA
11922244 TTGCTTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
ATACACAATAACA
Found at i:11923233 original size:15 final size:15
Alignment explanation
Indices: 11923213--11923245 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11923203 ATAAATATGA
11923213 TATTAATATTTAAAT
1 TATTAATATTTAAAT
11923228 TATTAATATTTAAAT
1 TATTAATATTTAAAT
11923243 TAT
1 TAT
11923246 ATAAGTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTAATATTTAAAT
Found at i:11923797 original size:2 final size:2
Alignment explanation
Indices: 11923790--11923826 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11923780 AACTCATTAC
11923790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11923827 AGGGAGAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11928346 original size:30 final size:29
Alignment explanation
Indices: 11928280--11928347 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
11928270 ACTTTTGCTG
* *
11928280 GATTCAATGTTTGGATTTAGATTTTTGTT
1 GATTCGATGTTTGGATTCAGATTTTTGTT
*
11928309 GCGTTCGATGTTTGGA-TCAGGATTTTTGTT
1 G-ATTCGATGTTTGGATTCA-GATTTTTGTT
11928339 AGATTCGAT
1 -GATTCGAT
11928348 CCTTGAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 3 0.09
30 28 0.88
31 1 0.03
ACGTcount: A:0.19, C:0.07, G:0.25, T:0.49
Consensus pattern (29 bp):
GATTCGATGTTTGGATTCAGATTTTTGTT
Found at i:11928591 original size:30 final size:30
Alignment explanation
Indices: 11928527--11928598 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
11928517 GATCGGGATA
* * **
11928527 TTCTTTGGATTTTATCTCTAAATTTGGATT
1 TTCTTTGGATTTTATCTATAAATTCGGACC
*
11928557 TTCTTTGGATTTTATCTATGAATTCGGACC
1 TTCTTTGGATTTTATCTATAAATTCGGACC
11928587 TTCTTT-GATTTT
1 TTCTTTGGATTTT
11928599 CATTTTTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 6 0.16
30 31 0.84
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.56
Consensus pattern (30 bp):
TTCTTTGGATTTTATCTATAAATTCGGACC
Found at i:11929278 original size:42 final size:42
Alignment explanation
Indices: 11929214--11929344 Score: 217
Period size: 42 Copynumber: 3.1 Consensus size: 42
11929204 AGATTTATTA
11929214 TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
1 TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
* * * *
11929256 TGGAGGGATTTTGCCTCCAGCTGAGCAGACATGGATGTTGGC
1 TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
*
11929298 TGGAGGGATTTTGCCTCGAGCTTAGCAAAGAGGGATGTTGGC
1 TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
11929340 TGGAG
1 TGGAG
11929345 CTCAGCGTGG
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.25
Consensus pattern (42 bp):
TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
Found at i:11931004 original size:12 final size:12
Alignment explanation
Indices: 11930987--11931011 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11930977 TAAAGTTGTG
11930987 TTATTATTAATT
1 TTATTATTAATT
11930999 TTATTATTAATT
1 TTATTATTAATT
11931011 T
1 T
11931012 ATTTTTTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTAATT
Found at i:11932596 original size:17 final size:16
Alignment explanation
Indices: 11932537--11932597 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 16
11932527 TTTTTATTCA
11932537 TTTTTATTTTATATTT
1 TTTTTATTTTATATTT
11932553 TTGTTTATTTCATATTTATCATT
1 TT-TTTATTT--TA--TAT--TT
11932576 TTTTTATTTTATGATTT
1 TTTTTATTTTAT-ATTT
11932593 TTTTT
1 TTTTT
11932598 TCTTTCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
16 2 0.05
17 14 0.38
18 1 0.03
19 4 0.11
20 2 0.05
21 3 0.08
22 7 0.19
23 4 0.11
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTATTTTATATTT
Found at i:11934800 original size:59 final size:57
Alignment explanation
Indices: 11934730--11935076 Score: 468
Period size: 57 Copynumber: 5.8 Consensus size: 57
11934720 TAAAAATAAT
*
11934730 AATTTCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATA
1 AATTTCCAAAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATA
11934789 AATTTCC-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
1 AATTTCCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
11934846 AATTTCC-AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATA
1 AATTTCCAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATA
11934908 AATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
1 AATTTCC-AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
* **
11934967 AATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGGAAAGTATCAATTTTCCTT-GAAATCGA
1 AATTTCCAAAAAAA-TATTTTTG-GGAAAAGTT-GAAAGTATCAATTTTCCTTAGAAAT--A
11935028 AATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 AATTTCCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC
11935077 CTCAAAAAAA
Statistics
Matches: 266, Mismatches: 7, Indels: 30
0.88 0.02 0.10
Matches are distributed among these distances:
56 3 0.01
57 89 0.33
58 14 0.05
59 53 0.20
60 37 0.14
61 16 0.06
62 12 0.05
64 39 0.15
65 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (57 bp):
AATTTCCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA
Found at i:11934834 original size:27 final size:27
Alignment explanation
Indices: 11934746--11934834 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
11934736 AAAAAAATAT
11934746 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
11934773 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
11934803 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
11934830 ATTTT
1 ATTTT
11934835 CCTTAGAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:11934953 original size:121 final size:117
Alignment explanation
Indices: 11934738--11935076 Score: 476
Period size: 121 Copynumber: 2.9 Consensus size: 117
11934728 ATAATTTCAA
11934738 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG---AATAAATTTCC-AAA
1 AAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAATAAATTTCCAAAA
*
11934799 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
64 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
11934853 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAA
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTT--AAGAAAAATAAATTTCC-AA
*
11934918 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
62 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
***
11934974 AAAAAA-AGGGTTTTTGAGGAAAAGTTGGAAAGTATCAATTTTCCTT--GAAATCGAAATTTCCA
1 AAAAAATA---TTTTTG-GGAAAAGTT-GAAAGTATCAATTTTCCTTAAGAAAAATAAATTTCCA
*
11935036 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
61 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
11935077 CTCAAAAAAA
Statistics
Matches: 205, Mismatches: 6, Indels: 22
0.88 0.03 0.09
Matches are distributed among these distances:
113 3 0.01
114 34 0.17
115 5 0.02
116 3 0.01
119 52 0.25
120 13 0.06
121 61 0.30
123 13 0.06
124 21 0.10
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (117 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAATAAATTTCCAAAAAA
ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:11935578 original size:13 final size:13
Alignment explanation
Indices: 11935560--11935585 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11935550 ACGACAATGC
11935560 ATATGTTTTCAAA
1 ATATGTTTTCAAA
11935573 ATATGTTTTCAAA
1 ATATGTTTTCAAA
11935586 GTAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:11937886 original size:3 final size:3
Alignment explanation
Indices: 11937874--11937907 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
11937864 TTATGTATTG
11937874 TAT TATT TAT TAT TAT TAT TAT TAT TAT GTAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TA
11937908 ATATATGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11937944 original size:35 final size:34
Alignment explanation
Indices: 11937889--11938000 Score: 97
Period size: 35 Copynumber: 3.3 Consensus size: 34
11937879 TTTATTATTA
11937889 TTATTA-TTAT-TATGTATTAATATATGTATATAT
1 TTATTATTTATGTAT-TATTAATATATGTATATAT
* * * *
11937922 TTATTTATTTATTTTTTGTTAATATTTATGTGTAT-T
1 TTA-TTATTTATGTATTATTAATA--TATGTATATAT
*
11937958 TTATTATTTATGTATTATTACTAATATGTATATAT
1 TTATTATTTATGTATTATTAAT-ATATGTATATAT
*
11937993 ATA-TATTT
1 TTATTATTT
11938001 TTTTTATCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
33 3 0.05
34 16 0.25
35 29 0.46
36 7 0.11
37 8 0.13
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (34 bp):
TTATTATTTATGTATTATTAATATATGTATATAT
Found at i:11938515 original size:31 final size:31
Alignment explanation
Indices: 11938480--11938538 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
11938470 TTCCGACGAA
*
11938480 AATTCCGGCGAA-ATTTGAATTTTTCGGCAAC
1 AATTCCGGCGAACA-TTGAAGTTTTCGGCAAC
11938511 AATTCCGGCGAACATTGAAGTTTTCGGC
1 AATTCCGGCGAACATTGAAGTTTTCGGC
11938539 GACCAGCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (31 bp):
AATTCCGGCGAACATTGAAGTTTTCGGCAAC
Found at i:11938621 original size:19 final size:20
Alignment explanation
Indices: 11938593--11938638 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
11938583 TCCGGCCAAC
*
11938593 TTCCGACGAAA-TTTCCAGA
1 TTCCGGCGAAATTTTCCAGA
11938612 TTCCGGCGAAATTTTCCAGA
1 TTCCGGCGAAATTTTCCAGA
*
11938632 ATCCGGC
1 TTCCGGC
11938639 ACCGGTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (20 bp):
TTCCGGCGAAATTTTCCAGA
Found at i:11939000 original size:27 final size:25
Alignment explanation
Indices: 11938957--11939030 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 25
11938947 CGCTTCAGGT
* * *
11938957 TTTTTTTTTTTTTTTTGTTTCTTTG
1 TTTTTTTTATTTCTTTGTTTATTTG
11938982 AATTTTTTTTATTTCTTTGTTTATTTG
1 --TTTTTTTTATTTCTTTGTTTATTTG
* *
11939009 TTTGTTTTATTT-TTTATTTATT
1 TTTTTTTTATTTCTTTGTTTATT
11939031 AGATTAGGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 9 0.21
25 11 0.26
27 22 0.52
ACGTcount: A:0.09, C:0.03, G:0.07, T:0.81
Consensus pattern (25 bp):
TTTTTTTTATTTCTTTGTTTATTTG
Found at i:11939006 original size:12 final size:11
Alignment explanation
Indices: 11938984--11939030 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
11938974 TTTCTTTGAA
11938984 TTTTT-TTTAT
1 TTTTTGTTTAT
11938994 TTCTTTGTTTAT
1 TT-TTTGTTTAT
11939006 TTGTTTGTTTTAT
1 TT-TTTG-TTTAT
*
11939019 TTTTTATTTAT
1 TTTTTGTTTAT
11939030 T
1 T
11939031 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.06
11 9 0.28
12 14 0.44
13 7 0.22
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.81
Consensus pattern (11 bp):
TTTTTGTTTAT
Found at i:11939068 original size:10 final size:10
Alignment explanation
Indices: 11939053--11939090 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
11939043 TGTAATATTC
11939053 TTTTTATTTA
1 TTTTTATTTA
11939063 TTTTTATTTA
1 TTTTTATTTA
11939073 TTTTT-TATTA
1 TTTTTAT-TTA
11939083 -TTTTATTT
1 TTTTTATTT
11939091 TCTTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:11939074 original size:14 final size:15
Alignment explanation
Indices: 11939054--11939091 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
11939044 GTAATATTCT
11939054 TTTTATTTATTT-TTA
1 TTTTATTT-TTTATTA
11939069 -TTTATTTTTTATTA
1 TTTTATTTTTTATTA
11939083 TTTTATTTT
1 TTTTATTTT
11939092 CTTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTATTA
Found at i:11939168 original size:57 final size:57
Alignment explanation
Indices: 11939106--11939768 Score: 656
Period size: 57 Copynumber: 11.1 Consensus size: 57
11939096 AAATAAAAAT
11939106 AAAAAATTCCAAAAAAAATA-TTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAA
1 AAAAAATTCCAAAAAAAATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---A-AA
11939166 AAATAAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAA
1 AAA-AAA-TTCC--AAAAAAAATA-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AA
* * * *
11939229 ATAAATTTCC--AAAAAATATTTCT-GGGTAAAAGTTGAAAGTATCAATTTTCCTCAGA
1 AAAAAATTCCAAAAAAAATATTT-TAGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAA
* *
11939285 AATAAATTTCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAA
1 AAAAAATTCCAAAAAAA-ATA-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AA
* * * * * *
11939345 ATAAATTTCCAAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGA
1 AAAAAATTCCAAAAAAAATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
* * *
11939401 AATAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTAAGA
1 AAAAAATTCCAAAAAAAATA-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAA-A
* * *
11939460 ATAAATTTCCAAAAAATAT-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAA
1 AAAAAATTCCAAAAAAAATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---A-AA
*
11939520 AAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
1 AAA-AAA-TTCCAAAAAAAATA-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAA
* * *
11939581 ATCAAAAGTTCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAA
1 A--AAAAATTC-CAAAAAAAATA-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AA
* * * * *
11939643 ATAAATTTTCAAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
1 AAAAAATTCCAAAAAAAATA--TTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAA
* * * * *
11939704 ATCGAAATTTCCAAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTACAA
1 A--AAAAATTCCAAAAAAAATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AA
11939763 AAAAAA
1 AAAAAA
11939769 ATCATTCTTT
Statistics
Matches: 513, Mismatches: 55, Indels: 73
0.80 0.09 0.11
Matches are distributed among these distances:
56 28 0.05
57 104 0.20
58 38 0.07
59 86 0.17
60 41 0.08
61 48 0.09
62 70 0.14
63 22 0.04
64 43 0.08
66 33 0.06
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (57 bp):
AAAAAATTCCAAAAAAAATATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
Found at i:11939325 original size:116 final size:115
Alignment explanation
Indices: 11939112--11939756 Score: 875
Period size: 116 Copynumber: 5.4 Consensus size: 115
11939102 AAATAAAAAA
* * *
11939112 TTCCAAAAAAAATATTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTC
1 TTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-T--AAG--AAATAAATTT-
11939177 CAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
60 C--AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * *
11939235 TTCCAAAAAATATTTCTGGGTAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAA
1 TTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAAATAAATTTCAAAAA
11939300 AATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
66 AA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
11939351 TTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAA
1 TTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAAATAAATTTCAAAAA
*
11939416 AAATATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTA-AGAATAAAT
66 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAAT
*
11939466 TTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTC
1 TTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-T--AAG--AAATAAATTT-
* *
11939531 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAAG
60 CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
* *
11939589 TTCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCA
1 TTC---CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAAATAAA-TTTCA
*
11939654 AAAAAAAAAGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
62 AAAAAAATA--TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
11939712 TTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
11939757 CTACAAAAAA
Statistics
Matches: 482, Mismatches: 21, Indels: 41
0.89 0.04 0.08
Matches are distributed among these distances:
114 1 0.00
115 96 0.20
116 114 0.24
117 1 0.00
118 12 0.02
120 53 0.11
121 64 0.13
122 6 0.01
123 94 0.20
125 1 0.00
126 40 0.08
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (115 bp):
TTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAAATAAATTTCAAAAA
AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:11941117 original size:31 final size:31
Alignment explanation
Indices: 11941038--11941118 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
11941028 CGAACAATGC
* * *
11941038 TCTGATACAACTTGTTAAGAATCAGCACAGT
1 TCTGATACTACTTGTTAGGAATCACCACAGT
* *
11941069 TTTGATA-TCACTTGTTAGGGATCACCACAGT
1 TCTGATACT-ACTTGTTAGGAATCACCACAGT
11941100 TCTGATACTACTTGTTAGG
1 TCTGATACTACTTGTTAGG
11941119 TTAAAAAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (31 bp):
TCTGATACTACTTGTTAGGAATCACCACAGT
Found at i:11943707 original size:24 final size:24
Alignment explanation
Indices: 11943662--11943707 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11943652 GTCCGAATTG
*
11943662 AGAAGATGAAAATCGATTAGATTT
1 AGAAGATGAAAATCGATAAGATTT
*
11943686 AGAATATGAAACAT-GATAAGAT
1 AGAAGATGAAA-ATCGATAAGAT
11943708 GGTCGGGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (24 bp):
AGAAGATGAAAATCGATAAGATTT
Found at i:11944024 original size:30 final size:30
Alignment explanation
Indices: 11943989--11944061 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
11943979 TTGCTCCTGT
*
11943989 TGGTGGATATTGACTGGATCTTAGATGGAG
1 TGGTGGATATTGACTGGATCATAGATGGAG
* *
11944019 TGGTGGATATTGACTGGATCATAGCTGGGG
1 TGGTGGATATTGACTGGATCATAGATGGAG
**
11944049 TTTTGGATATTGA
1 TGGTGGATATTGA
11944062 TTAGACCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.22, C:0.07, G:0.36, T:0.36
Consensus pattern (30 bp):
TGGTGGATATTGACTGGATCATAGATGGAG
Found at i:11944085 original size:30 final size:30
Alignment explanation
Indices: 11944022--11944085 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
11944012 GATGGAGTGG
* * * *
11944022 TGGATATTGACTGGATCATAGCTGGGGTTT
1 TGGATATTGACTAGACCATAGCTGAGGTGT
* *
11944052 TGGATATTGATTAGACCATAGTTGAGGTGT
1 TGGATATTGACTAGACCATAGCTGAGGTGT
11944082 TGGA
1 TGGA
11944086 CTTCTGGAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.08, G:0.33, T:0.36
Consensus pattern (30 bp):
TGGATATTGACTAGACCATAGCTGAGGTGT
Found at i:11944101 original size:144 final size:145
Alignment explanation
Indices: 11943883--11944146 Score: 408
Period size: 144 Copynumber: 1.8 Consensus size: 145
11943873 ATGATGTATC
* *
11943883 TTGACTGGACCATAGCTGGGGTTTCTGGATATTGACTGGACCATAGTTGGGGTGGTGGACTTTCG
1 TTGACTGGACCATAGCTGGGGTTTCTGGATATTGACTAGACCATAGTTGAGGTGGTGGACTTTCG
**
11943948 GAATGAGAATAATGAATTAGA-TCGTAGGGTTTTGCTCCTGTTGGTGGATATTGACTGGATCTTA
66 GAATGAGAATAATGAATTAGACT-GTAGGGTTTTGCTCCTAATGGTGGATATTGACTGGATCTTA
11944012 GATGGAGTGGTGGATA
130 GATGGAGTGGTGGATA
* * *
11944028 TTGACTGGATCATAGCTGGGGTTT-TGGATATTGATTAGACCATAGTTGAGGTGTTGGAC-TTCT
1 TTGACTGGACCATAGCTGGGGTTTCTGGATATTGACTAGACCATAGTTGAGGTGGTGGACTTTC-
* *
11944091 GGAATGAGAATGATGAATTAGACTGTTGGGTTTTGCTCCTAATGGTGGATATTGAC
65 GGAATGAGAATAATGAATTAGACTGTAGGGTTTTGCTCCTAATGGTGGATATTGAC
11944147 CGAACCGTTG
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
143 3 0.03
144 81 0.75
145 24 0.22
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (145 bp):
TTGACTGGACCATAGCTGGGGTTTCTGGATATTGACTAGACCATAGTTGAGGTGGTGGACTTTCG
GAATGAGAATAATGAATTAGACTGTAGGGTTTTGCTCCTAATGGTGGATATTGACTGGATCTTAG
ATGGAGTGGTGGATA
Found at i:11944172 original size:144 final size:145
Alignment explanation
Indices: 11943883--11944193 Score: 389
Period size: 144 Copynumber: 2.2 Consensus size: 145
11943873 ATGATGTATC
* *
11943883 TTGACTGGACCATAGCTGGGGTTTCTGGATATTGACTGGACCATAGTTGGGGTGGTGGACTTTCG
1 TTGACTGGACCATAGCTGGGGTTTCTGGATATTGACTAGACCATAGTTGAGGTGGTGGACTTTCG
** * * *
11943948 GAATGAGAATAATGAATTAGATCGTAGGGTTTTGCTCCTGTTGGTGGATATTGACTGGATCTTAG
66 GAATGAGAATAATGAATTAGATCGTAGGGTTTTGCTCCTAATGGTGGATATTGACCGAACCTTAG
*
11944013 ATGGAGTGGTGGATA
131 ATGGAGTGGTAGATA
* * *
11944028 TTGACTGGATCATAGCTGGGGTTT-TGGATATTGATTAGACCATAGTTGAGGTGTTGGAC-TTCT
1 TTGACTGGACCATAGCTGGGGTTTCTGGATATTGACTAGACCATAGTTGAGGTGGTGGACTTTC-
* *
11944091 GGAATGAGAATGATGAATTAGA-CTGTTGGGTTTTGCTCCTAATGGTGGATATTGACCGAACCGT
65 GGAATGAGAATAATGAATTAGATC-GTAGGGTTTTGCTCCTAATGGTGGATATTGACCGAACC-T
* **
11944155 T-GCTGTG-GTTTTAGATA
128 TAGATG-GAGTGGTAGATA
* *
11944172 TTGATTGGACCATAACTGGGGT
1 TTGACTGGACCATAGCTGGGGT
11944194 GGTGGATTTT
Statistics
Matches: 143, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
143 4 0.03
144 113 0.79
145 26 0.18
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (145 bp):
TTGACTGGACCATAGCTGGGGTTTCTGGATATTGACTAGACCATAGTTGAGGTGGTGGACTTTCG
GAATGAGAATAATGAATTAGATCGTAGGGTTTTGCTCCTAATGGTGGATATTGACCGAACCTTAG
ATGGAGTGGTAGATA
Found at i:11946766 original size:29 final size:29
Alignment explanation
Indices: 11946711--11946768 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
11946701 GGATTCAATG
** *
11946711 TTTGGATTTGGATTTTTGTTGCGTTTGAT
1 TTTGGATCAGGATTTTTGTTGCATTTGAT
11946740 TTTGGATCAGGATTTTTGTTAG-ATTTGAT
1 TTTGGATCAGGATTTTTGTT-GCATTTGAT
11946769 CCTTGAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.16, C:0.03, G:0.26, T:0.55
Consensus pattern (29 bp):
TTTGGATCAGGATTTTTGTTGCATTTGAT
Found at i:11947016 original size:30 final size:30
Alignment explanation
Indices: 11946955--11947022 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
11946945 GAGATATTCC
* **
11946955 TTGGATTTTATCTCTAAATCTGGACTTTCT
1 TTGGATTTTATCTATAAATCTGGACCCTCT
*
11946985 TTGGATTTTATCTATGAAT-TCGGACCCTCT
1 TTGGATTTTATCTATAAATCT-GGACCCTCT
11947015 TT-GATTTT
1 TTGGATTTT
11947023 CATGTTTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (30 bp):
TTGGATTTTATCTATAAATCTGGACCCTCT
Found at i:11948829 original size:30 final size:30
Alignment explanation
Indices: 11948776--11948865 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
11948766 CTAGTGATGG
* *
11948776 CTTGGTTGGACCTC-GGCTTGGGTGGTGGAT
1 CTTGGTTGGACCTCAAG-TGGGGTGGTGGAT
* *
11948806 GTTGGTTGGACCTCAAGTGGGGTGATGGAT
1 CTTGGTTGGACCTCAAGTGGGGTGGTGGAT
** *
11948836 CTTGACTGGACCAT-AATTGGGGTGGTGGAT
1 CTTGGTTGGACC-TCAAGTGGGGTGGTGGAT
11948866 ATCGACTGGA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
30 47 0.96
31 2 0.04
ACGTcount: A:0.14, C:0.13, G:0.41, T:0.31
Consensus pattern (30 bp):
CTTGGTTGGACCTCAAGTGGGGTGGTGGAT
Found at i:11948873 original size:30 final size:30
Alignment explanation
Indices: 11948823--11948885 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
11948813 GGACCTCAAG
* *
11948823 TGGGGTGATGGATCTTGACTGGACCATAAT
1 TGGGGTGATGGATATCGACTGGACCATAAT
* *
11948853 TGGGGTGGTGGATATCGACTGGACCATAGT
1 TGGGGTGATGGATATCGACTGGACCATAAT
11948883 TGG
1 TGG
11948886 TGTTTTGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.21, C:0.13, G:0.38, T:0.29
Consensus pattern (30 bp):
TGGGGTGATGGATATCGACTGGACCATAAT
Found at i:11949127 original size:114 final size:114
Alignment explanation
Indices: 11948857--11949136 Score: 330
Period size: 114 Copynumber: 2.5 Consensus size: 114
11948847 CATAATTGGG
* * * * * * *
11948857 GTGGTGGATATCGACTGGACCATAGTTGGTGTTTTGGACATTGCTTGTATCATAGCTGGGGTGGT
1 GTGGTGGATATTGACTGGACCATAGCTGGAGTTTTGGATATTGCTTGGACCATAACTGGGGTGGT
11948922 GGACTTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCA
66 GGACTTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCA
* * * * * *
11948971 CTGGTGGATATTGACCGAACCATAGCTGGGGTTTTAGCTATTGCTTGGACCATAACTGGGGTGGT
1 GTGGTGGATATTGACTGGACCATAGCTGGAGTTTTGGATATTGCTTGGACCATAACTGGGGTGGT
* * * * ***
11949036 GGATTTCCGGAATGATAATGATGAATTAGATTGTAG-GTTTTTGCTTTTA
66 GGACTTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTT-CTCCCA
* *
11949085 GTGGTGGATATTGACTGGATCATAGCTGGAGTTGTGGATATTGAC-TGGACCA
1 GTGGTGGATATTGACTGGACCATAGCTGGAGTTTTGGATATTG-CTTGGACCA
11949137 CAATTCGGTT
Statistics
Matches: 137, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
113 6 0.04
114 130 0.95
115 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (114 bp):
GTGGTGGATATTGACTGGACCATAGCTGGAGTTTTGGATATTGCTTGGACCATAACTGGGGTGGT
GGACTTCCGGAATGAGAATCATGAATTAGATCGTAGAGTTTTTCTCCCA
Found at i:11949422 original size:30 final size:30
Alignment explanation
Indices: 11949386--11949481 Score: 174
Period size: 30 Copynumber: 3.2 Consensus size: 30
11949376 CACTTCTAGT
*
11949386 GATGGATTGTTGGACCTTAGCTGGAGCTCG
1 GATGGATTTTTGGACCTTAGCTGGAGCTCG
11949416 GATGGATTTTTGGACCTTAGCTGGAGCTCG
1 GATGGATTTTTGGACCTTAGCTGGAGCTCG
*
11949446 GATGGATTTTTGGACCTTATCTGGAGCTCG
1 GATGGATTTTTGGACCTTAGCTGGAGCTCG
11949476 GATGGA
1 GATGGA
11949482 ATTTGAATGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (30 bp):
GATGGATTTTTGGACCTTAGCTGGAGCTCG
Found at i:11949507 original size:33 final size:33
Alignment explanation
Indices: 11949470--11949664 Score: 228
Period size: 33 Copynumber: 5.8 Consensus size: 33
11949460 CCTTATCTGG
* *
11949470 AGCTCGGATGGAATTTGAATGGACCTCTTTGAC
1 AGCTCGGAGGGAATTTGACTGGACCTCTTTGAC
11949503 AGCTCGGAGGGAATTTGACTGGACCTCTTTGAC
1 AGCTCGGAGGGAATTTGACTGGACCTCTTTGAC
* * *
11949536 AGCTTGGATGGAATTTGATTGGACCTCTTTGAC
1 AGCTCGGAGGGAATTTGACTGGACCTCTTTGAC
* *
11949569 AGCTCGGAGGGAATTTGACTGGACCTCAGCTTGGAA
1 AGCTCGGAGGGAATTTGACTGGACCT---CTTTGAC
* ** ** *
11949605 AACTCGGAGGGGTTTTTCCTGGACCTCTTTAAC
1 AGCTCGGAGGGAATTTGACTGGACCTCTTTGAC
* *
11949638 AGCTCGGAGGGATTTTGACTGCACCTC
1 AGCTCGGAGGGAATTTGACTGGACCTC
11949665 AGCTCGGACA
Statistics
Matches: 136, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
33 110 0.81
36 26 0.19
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (33 bp):
AGCTCGGAGGGAATTTGACTGGACCTCTTTGAC
Found at i:11949681 original size:36 final size:36
Alignment explanation
Indices: 11949470--11949688 Score: 156
Period size: 33 Copynumber: 6.4 Consensus size: 36
11949460 CCTTATCTGG
* * * *
11949470 AGCTCGGATGGAATTTGAATGGACCT---CTTTGAC
1 AGCTCGGAGGGATTTTGACTGGACCTCAGCTTGGAC
* *
11949503 AGCTCGGAGGGAATTTGACTGGACCT---CTTTGAC
1 AGCTCGGAGGGATTTTGACTGGACCTCAGCTTGGAC
* * * * *
11949536 AGCTTGGATGGAATTTGATTGGACCT---CTTTGAC
1 AGCTCGGAGGGATTTTGACTGGACCTCAGCTTGGAC
* *
11949569 AGCTCGGAGGGAATTTGACTGGACCTCAGCTTGGAA
1 AGCTCGGAGGGATTTTGACTGGACCTCAGCTTGGAC
* * ** **
11949605 AACTCGGAGGGGTTTTTCCTGGACCT---CTTTAAC
1 AGCTCGGAGGGATTTTGACTGGACCTCAGCTTGGAC
* *
11949638 AGCTCGGAGGGATTTTGACTGCACCTCAGCTCGGAC
1 AGCTCGGAGGGATTTTGACTGGACCTCAGCTTGGAC
*
11949674 AGCTCGGAGAGATTT
1 AGCTCGGAGGGATTT
11949689 GCCCGGGACC
Statistics
Matches: 153, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
33 109 0.71
36 44 0.29
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (36 bp):
AGCTCGGAGGGATTTTGACTGGACCTCAGCTTGGAC
Found at i:11949698 original size:69 final size:69
Alignment explanation
Indices: 11949556--11949698 Score: 187
Period size: 69 Copynumber: 2.1 Consensus size: 69
11949546 GAATTTGATT
* * * * * *
11949556 GGACCTCTTTGACAGCTCGGAGGGAATTTGACTGGACCTCAGCTTGGAAAACTCGGAGGGGTTTT
1 GGACCTCTTTAACAGCTCGGAGGGAATTTGACTGCACCTCAGCTCGGAAAACTCGGAGAGATTTG
* *
11949621 TCCT
66 CCCG
* * *
11949625 GGACCTCTTTAACAGCTCGGAGGGATTTTGACTGCACCTCAGCTCGGACAGCTCGGAGAGATTTG
1 GGACCTCTTTAACAGCTCGGAGGGAATTTGACTGCACCTCAGCTCGGAAAACTCGGAGAGATTTG
11949690 CCCG
66 CCCG
11949694 GGACC
1 GGACC
11949699 AGAACTTGGT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.24
Consensus pattern (69 bp):
GGACCTCTTTAACAGCTCGGAGGGAATTTGACTGCACCTCAGCTCGGAAAACTCGGAGAGATTTG
CCCG
Found at i:11951195 original size:30 final size:30
Alignment explanation
Indices: 11951132--11951195 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
11951122 AACCGATGAC
* *
11951132 TTAATTGAGTGAAAATAAATATATAACATT
1 TTAATTGAGTGAAAATAAATATATAAAAAT
*
11951162 TTAATTTGA-TGAAAATAAATATTTAAAAAT
1 TTAA-TTGAGTGAAAATAAATATATAAAAAT
11951192 TTAA
1 TTAA
11951196 GATTTGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (30 bp):
TTAATTGAGTGAAAATAAATATATAAAAAT
Found at i:11951907 original size:27 final size:28
Alignment explanation
Indices: 11951851--11951907 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
11951841 GTATTAAAAG
*
11951851 AAATTTTTTAAAAATTCAAAAGATTTTT
1 AAATTTTTTAAAAATTCAAAAGATTATT
*
11951879 AAATTTTTT-AAAATTCTAAA-ATATATT
1 AAATTTTTTAAAAATTCAAAAGAT-TATT
11951906 AA
1 AA
11951908 CAAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.08
27 15 0.58
28 9 0.35
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
AAATTTTTTAAAAATTCAAAAGATTATT
Found at i:11951982 original size:19 final size:19
Alignment explanation
Indices: 11951959--11952001 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11951949 TATGAGAACT
11951959 TAAAATTTTT-TAAAAATC
1 TAAAATTTTTATAAAAATC
*
11951977 TCAAAATTTTTATAGAAATC
1 T-AAAATTTTTATAAAAATC
11951997 TAAAA
1 TAAAA
11952002 AACTTCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.59
20 8 0.36
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAATTTTTATAAAAATC
Found at i:11952002 original size:20 final size:19
Alignment explanation
Indices: 11951960--11952002 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
11951950 ATGAGAACTT
*
11951960 AAAATTTTTTAAAAATCTC
1 AAAATTTTTTAAAAATCTA
*
11951979 AAAATTTTTATAGAAATCTA
1 AAAATTTTT-TAAAAATCTA
11951999 AAAA
1 AAAA
11952003 ACTTCTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTTTTTAAAAATCTA
Found at i:11952062 original size:17 final size:15
Alignment explanation
Indices: 11952010--11952058 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
11952000 AAAACTTCTA
11952010 AAAAGTTTTTTAAAAT
1 AAAA-TTTTTTAAAAT
*
11952026 AAAATTTTAATAAAAAT
1 AAAATTTT--TTAAAAT
11952043 AAAATTTTCTTAAAAT
1 AAAATTTT-TTAAAAT
11952059 TAAACAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 4 0.14
16 10 0.36
17 14 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
AAAATTTTTTAAAAT
Found at i:11952219 original size:20 final size:18
Alignment explanation
Indices: 11952184--11952273 Score: 92
Period size: 20 Copynumber: 4.7 Consensus size: 18
11952174 ATATTTTAAT
* *
11952184 ATTTTAAATATTTTATGA
1 ATTTTAAATTTTTTATAA
11952202 ATTTTGAAGATTTTTTATAAA
1 ATTTT-AA-ATTTTTTAT-AA
11952223 ATTTTAATATTTTTTATAA
1 ATTTTAA-ATTTTTTATAA
*
11952242 ATTTTTAATTTTTT-TAGA
1 ATTTTAAATTTTTTATA-A
11952260 ATTTTAGAATTTTT
1 ATTTTA-AATTTTT
11952274 ATATTTTTAG
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
17 2 0.03
18 18 0.29
19 17 0.27
20 19 0.31
21 6 0.10
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
ATTTTAAATTTTTTATAA
Found at i:11952272 original size:17 final size:17
Alignment explanation
Indices: 11952252--11952308 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
11952242 ATTTTTAATT
11952252 TTTTTAGAATTTTAGAA
1 TTTTTAGAATTTTAGAA
* *
11952269 TTTTTATATTTTTAGAA
1 TTTTTAGAATTTTAGAA
* *
11952286 TATTCTAGACTTTT-GAAA
1 T-TTTTAGAATTTTAG-AA
11952304 TTTTT
1 TTTTT
11952309 TCTAATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 20 0.62
18 12 0.38
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.58
Consensus pattern (17 bp):
TTTTTAGAATTTTAGAA
Found at i:11952272 original size:18 final size:18
Alignment explanation
Indices: 11952184--11952309 Score: 55
Period size: 18 Copynumber: 6.8 Consensus size: 18
11952174 ATATTTTAAT
*
11952184 ATTTTA-AATATTTTATGA
1 ATTTTAGAATTTTTTA-GA
* *
11952202 ATTTTGAAGATTTTTTATAAA
1 ATTTT--AGAATTTTT-TAGA
*
11952223 ATTTTA-ATATTTTTTATAA
1 ATTTTAGA-ATTTTTTA-GA
*
11952242 ATTTTTA-ATTTTTTTAGA
1 A-TTTTAGAATTTTTTAGA
*
11952260 ATTTTAGAA-TTTTTATA
1 ATTTTAGAATTTTTTAGA
* * *
11952277 TTTTTAGAATATTCTAGA
1 ATTTTAGAATTTTTTAGA
*
11952295 CTTTT-GAAATTTTTT
1 ATTTTAG-AATTTTTT
11952310 CTAATTTTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
17 21 0.25
18 26 0.31
19 16 0.19
20 7 0.08
21 11 0.13
22 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (18 bp):
ATTTTAGAATTTTTTAGA
Found at i:11952306 original size:27 final size:25
Alignment explanation
Indices: 11952252--11952308 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
11952242 ATTTTTAATT
* *
11952252 TTTTTAGAATTTTAGAATTTTTATA
1 TTTTTAGAATTTTAGAATTTTGAAA
*
11952277 TTTTTAGAATATTCTAGACTTTTGAAA
1 TTTTTAGAAT-TT-TAGAATTTTGAAA
11952304 TTTTT
1 TTTTT
11952309 TCTAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 10 0.37
26 2 0.07
27 15 0.56
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.58
Consensus pattern (25 bp):
TTTTTAGAATTTTAGAATTTTGAAA
Found at i:11952327 original size:23 final size:23
Alignment explanation
Indices: 11952296--11952340 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11952286 TATTCTAGAC
*
11952296 TTTTGAAATT-TTTTCTAATTTTT
1 TTTTAAAATTATTTT-TAATTTTT
11952319 TTTTAAAATTATTTTTAATTTT
1 TTTTAAAATTATTTTTAATTTT
11952341 CAAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTAAAATTATTTTTAATTTTT
Found at i:11952481 original size:44 final size:42
Alignment explanation
Indices: 11952404--11952490 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 42
11952394 AATTTGAAGA
** *
11952404 ATTTTTTATTTTGATTAAAATTTTCAATATTTTGAATTTTTT
1 ATTTTTTATTTTGATTAAAATTTGAAATATTTTGAAATTTTT
*
11952446 ATTTTTTGGATTTTTATTAAAATTTGAAAGT-TTTTGAAATTTTT
1 ATTTTTT--ATTTTGATTAAAATTTGAAA-TATTTTGAAATTTTT
11952490 A
1 A
11952491 AGTTTTCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 7 0.18
44 30 0.79
45 1 0.03
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (42 bp):
ATTTTTTATTTTGATTAAAATTTGAAATATTTTGAAATTTTT
Found at i:11953798 original size:18 final size:18
Alignment explanation
Indices: 11953775--11953810 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11953765 TTGTACTTAT
*
11953775 TTATATTTTATTCATATA
1 TTATATGTTATTCATATA
*
11953793 TTATATGTTATTGATATA
1 TTATATGTTATTCATATA
11953811 ACTTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (18 bp):
TTATATGTTATTCATATA
Found at i:11954744 original size:30 final size:30
Alignment explanation
Indices: 11954691--11954750 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11954681 AACTGAGCAA
*
11954691 AAAATAAATATTTAAGAATTCAATTAATTG
1 AAAATAAATATGTAAGAATTCAATTAATTG
* *
11954721 AAAATAAATATGTGA-AATCTCAATTGATTG
1 AAAATAAATATGTAAGAAT-TCAATTAATTG
11954751 CAATAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (30 bp):
AAAATAAATATGTAAGAATTCAATTAATTG
Found at i:11956399 original size:9 final size:9
Alignment explanation
Indices: 11956361--11956464 Score: 83
Period size: 8 Copynumber: 11.6 Consensus size: 9
11956351 CTATGCTTGA
*
11956361 AAAAAAATAC
1 AAAAAAAT-G
11956371 AAAAAAAT-
1 AAAAAAATG
11956379 AAAAAAAT-
1 AAAAAAATG
11956387 AAAAAAATG
1 AAAAAAATG
11956396 -AAAAAATG
1 AAAAAAATG
*
11956404 GAAAAAATG
1 AAAAAAATG
*
11956413 AAAAATGATG
1 AAAAA-AATG
*
11956423 AAAAATGAA-A
1 AAAAA--AATG
11956433 AAAAAAATG
1 AAAAAAATG
*
11956442 GAAAAAATGG
1 AAAAAAAT-G
11956452 AAAAAAA-G
1 AAAAAAATG
11956460 AAAAA
1 AAAAA
11956465 GTGAATGAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
8 32 0.40
9 19 0.24
10 28 0.35
11 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.12, T:0.11
Consensus pattern (9 bp):
AAAAAAATG
Found at i:11956400 original size:10 final size:10
Alignment explanation
Indices: 11956358--11956464 Score: 58
Period size: 9 Copynumber: 11.7 Consensus size: 10
11956348 ATACTATGCT
11956358 TGAAAAAAAA
1 TGAAAAAAAA
11956368 T-ACAAAAAAA
1 TGA-AAAAAAA
11956378 T--AAAAAAA
1 TGAAAAAAAA
11956386 T--AAAAAAA
1 TGAAAAAAAA
11956394 TG--AAAAAA
1 TGAAAAAAAA
*
11956402 TG-GAAAAAA
1 TGAAAAAAAA
**
11956411 TGAAAAATGA
1 TGAAAAAAAA
*
11956421 TGAAAAATGAA
1 TGAAAAA-AAA
11956432 --AAAAAAAA
1 TGAAAAAAAA
*
11956440 TG-GAAAAAA
1 TGAAAAAAAA
*
11956449 TGGAAAAAAA
1 TGAAAAAAAA
11956459 -GAAAAA
1 TGAAAAA
11956465 GTGAATGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 17
0.75 0.08 0.16
Matches are distributed among these distances:
8 26 0.32
9 27 0.34
10 26 0.32
11 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.12, T:0.11
Consensus pattern (10 bp):
TGAAAAAAAA
Found at i:11956476 original size:38 final size:38
Alignment explanation
Indices: 11956371--11956476 Score: 84
Period size: 38 Copynumber: 2.9 Consensus size: 38
11956361 AAAAAAATAC
* *
11956371 AAAAAAAT-AAAAA-AATAAAAA--AATGAAAAAATGG
1 AAAAAAATGAAAAAGAAGAAAAATGAATGAAAAAAAGG
* *
11956405 -AAAAAATGAAAAATGATGAAAAATGAA-AAAAAAAATGG
1 AAAAAAATGAAAAA-GAAGAAAAATGAATGAAAAAAA-GG
11956443 -AAAAAATGGAAAAA-AAGAAAAAGTGAATGAAAAA
1 AAAAAAAT-GAAAAAGAAGAAAAA-TGAATGAAAAA
11956477 GGAGGACTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
33 7 0.12
34 5 0.09
36 6 0.11
37 13 0.23
38 15 0.26
39 11 0.19
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (38 bp):
AAAAAAATGAAAAAGAAGAAAAATGAATGAAAAAAAGG
Found at i:11957592 original size:42 final size:40
Alignment explanation
Indices: 11957476--11958100 Score: 843
Period size: 42 Copynumber: 15.2 Consensus size: 40
11957466 ATGATCGTCT
11957476 AGGAG-AATTTACTTTTC-AAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG-TCGTTGCCTCTGTTTAG
*
11957515 AGGAGCAATTTATTTTTC-AAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG-T-CGTTGCCTCTGTTTAG
11957556 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGT--TGCCTCTGTTTAG
* *
11957598 AGGAGCAATTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG-TC-GTTGCCTCTGTTTAG
11957640 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGT--TGCCTCTGTTTAG
* *
11957682 AGGAGCAATTTATTTTTCCAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG-TCGTTGCCTCTGTTTAG
*
11957723 AGGAGCAATTTATTTTTC-AAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG-T-CGTTGCCTCTGTTTAG
11957764 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGT--TGCCTCTGTTTAG
*
11957806 AGGAGCAATTTATTTTTC-AAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG-T-CGTTGCCTCTGTTTAG
11957847 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGT--TGCCTCTGTTTAG
11957889 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGT--TGCCTCTGTTTAG
*
11957931 AGGAGCAATTTATTTTTC-AAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAG-T-CGTTGCCTCTGTTTAG
* *
11957972 AGGAGCAATTTATTTTTCCAAAGTCGTGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTC--GTTGCCTCTGTTTAG
*
11958014 AGGAGCAATTTAC-TTTCCAAAGTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGT-CGTTGCCTCTGTTTAG
*
11958054 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTT--GCCTCTGTTTAG
11958095 AGGAGC
1 AGGAGC
11958101 TTCGGCCAAA
Statistics
Matches: 544, Mismatches: 15, Indels: 52
0.89 0.02 0.09
Matches are distributed among these distances:
39 9 0.02
40 72 0.13
41 199 0.37
42 250 0.46
43 12 0.02
44 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (40 bp):
AGGAGCAATTTACTTTTCAAAAGTCGTTGCCTCTGTTTAG
Found at i:11957599 original size:83 final size:83
Alignment explanation
Indices: 11957476--11958100 Score: 897
Period size: 83 Copynumber: 7.6 Consensus size: 83
11957466 ATGATCGTCT
11957476 AGGAG-AATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG
1 AGGAGCAATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG
11957537 TTCCGTTGCCTCTGTTTAG
65 TTCCGTTGCCTCTGTTTAG
11957556 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAG
*
11957621 TTCTGTTGCCTCTGTTTAG
65 TTCCGTTGCCTCTGTTTAG
11957640 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAG
11957705 TT-CGTTGCCTCTGTTTAG
65 TTCCGTTGCCTCTGTTTAG
* *
11957723 AGGAGCAATTTATTTTTC-AAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAA
1 AGGAGCAATTTACTTTTCAAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTC-AA
11957785 AG-T-CGTGGTGCCTCTGTTTAG
63 AGTTCCGT--TGCCTCTGTTTAG
* *
11957806 AGGAGCAATTTATTTTTC-AAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAA
1 AGGAGCAATTTACTTTTCAAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTC-AA
11957868 AG-T-CGTGGTGCCTCTGTTTAG
63 AGTTCCGT--TGCCTCTGTTTAG
11957889 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
11957954 TCCGTTGCCTCTGTTTAG
66 TCCGTTGCCTCTGTTTAG
* * * * *
11957972 AGGAGCAATTTATTTTTCCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
11958036 TCCGTTGCCTCTGTTTAG
66 TCCGTTGCCTCTGTTTAG
* * *
11958054 AGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
11958101 TTCGGCCAAA
Statistics
Matches: 513, Mismatches: 17, Indels: 29
0.92 0.03 0.05
Matches are distributed among these distances:
80 5 0.01
81 50 0.10
82 74 0.14
83 253 0.49
84 128 0.25
85 3 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (83 bp):
AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
TCCGTTGCCTCTGTTTAG
Found at i:11957924 original size:208 final size:206
Alignment explanation
Indices: 11957476--11958100 Score: 1087
Period size: 208 Copynumber: 3.0 Consensus size: 206
11957466 ATGATCGTCT
11957476 AGGAG-AATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTC
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTC
11957540 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
66 CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
11957605 ATTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGT
131 ATTTATTTTT-CAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGT
11957670 GCCTCTGTTTAG
195 GCCTCTGTTTAG
*
11957682 AGGAGCAATTTATTTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT
1 AGGAGCAATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT
11957747 CCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
65 CCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
11957812 AATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGT
130 AATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGT
11957877 GCCTCTGTTTAG
195 GCCTCTGTTTAG
11957889 AGGAGCAATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG
1 AGGAGCAATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG
* * *
11957953 TTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGTTGCCTCTGTTTAGAGGA
63 TTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGA
* * *
11958018 GCAATTTACTTTCCAAAG-TCCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAAGTCGTT
128 GCAATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTG
* *
11958081 GAGTCTCTGTTTAG
193 GTGCCTCTGTTTAG
11958095 AGGAGC
1 AGGAGC
11958101 TTCGGCCAAA
Statistics
Matches: 403, Mismatches: 11, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
206 41 0.10
207 126 0.31
208 236 0.59
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (206 bp):
AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTC
CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTG
CCTCTGTTTAG
Found at i:11958121 original size:8 final size:8
Alignment explanation
Indices: 11958108--11958200 Score: 79
Period size: 8 Copynumber: 11.2 Consensus size: 8
11958098 AGCTTCGGCC
11958108 AAAACAAA
1 AAAACAAA
11958116 AAAACAAA
1 AAAACAAA
11958124 AAAAC--A
1 AAAACAAA
11958130 AAAACAAA
1 AAAACAAA
11958138 AAAATCAAAAA
1 AAAA-C--AAA
11958149 AAAATCAAA
1 AAAA-CAAA
11958158 AAAA-ATAA
1 AAAACA-AA
11958166 AAAA-AATA
1 AAAACAA-A
11958174 AAAACAAA
1 AAAACAAA
11958182 AATAA-AAA
1 AA-AACAAA
11958190 AAAATCAAA
1 AAAA-CAAA
11958199 AA
1 AA
11958201 TAAAAATGTT
Statistics
Matches: 74, Mismatches: 0, Indels: 21
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.08
7 4 0.05
8 38 0.51
9 17 0.23
11 9 0.12
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (8 bp):
AAAACAAA
Found at i:11958134 original size:22 final size:21
Alignment explanation
Indices: 11958108--11958206 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 21
11958098 AGCTTCGGCC
11958108 AAAACAAAAAAACAAAAAAACA
1 AAAACAAAAAAA-AAAAAAACA
11958130 AAAACAAAAAAATCAAAAAAA-A
1 AAAACAAAAAAA--AAAAAAACA
* *
11958152 ATCAAA-AAAAATAAAAAAAATA
1 A--AAACAAAAAAAAAAAAAACA
11958174 AAAACAAAAATAAAAAAAAATCA
1 AAAACAAAAA-AAAAAAAAA-CA
*
11958197 AAAATAAAAA
1 AAAACAAAAA
11958207 TGTTGAGTTG
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
20 3 0.05
21 12 0.18
22 24 0.36
23 24 0.36
24 3 0.05
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.07
Consensus pattern (21 bp):
AAAACAAAAAAAAAAAAAACA
Found at i:11958150 original size:10 final size:10
Alignment explanation
Indices: 11958135--11958200 Score: 80
Period size: 10 Copynumber: 6.4 Consensus size: 10
11958125 AAACAAAAAC
11958135 AAAAAAATCAA
1 AAAAAAATC-A
11958146 AAAAAAATCA
1 AAAAAAATCA
11958156 AAAAAAAT-A
1 AAAAAAATCA
*
11958165 AAAAAAATAAA
1 AAAAAAAT-CA
*
11958176 AACAAAAATAA
1 AA-AAAAATCA
11958187 AAAAAAATCA
1 AAAAAAATCA
11958197 AAAA
1 AAAA
11958201 TAAAAATGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
9 9 0.18
10 20 0.39
11 16 0.31
12 6 0.12
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:11958199 original size:29 final size:27
Alignment explanation
Indices: 11958115--11958206 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 27
11958105 GCCAAAACAA
11958115 AAAAACAAAAA-AACAAAAACAAAAAAAT
1 AAAAACAAAAATAA-AAAAA-AAAAAAAT
*
11958143 CAAAAA-AAAATCAAAAAAAATAAAAAAAAT
1 -AAAAACAAAA--ATAAAAAA-AAAAAAAAT
11958173 AAAAACAAAAATAAAAAAAAATCAAAAAT
1 AAAAACAAAAATAAAAAAAAA--AAAAAT
11958202 AAAAA
1 AAAAA
11958207 TGTTGAGTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
27 3 0.05
28 11 0.20
29 21 0.38
30 17 0.31
31 3 0.05
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (27 bp):
AAAAACAAAAATAAAAAAAAAAAAAAT
Found at i:11958206 original size:1 final size:1
Alignment explanation
Indices: 11958108--11958193 Score: 64
Period size: 1 Copynumber: 86.0 Consensus size: 1
11958098 AGCTTCGGCC
* * * * ** ** * *
11958108 AAAACAAAAAAACAAAAAAACAAAAACAAAAAAATCAAAAAAAAATCAAAAAAAATAAAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
11958173 AAAAACAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAA
11958194 TCAAAAATAA
Statistics
Matches: 63, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:11958207 original size:44 final size:43
Alignment explanation
Indices: 11958113--11958200 Score: 128
Period size: 41 Copynumber: 2.1 Consensus size: 43
11958103 CGGCCAAAAC
*
11958113 AAAAAAA-CAAAAAAACAAAAACAAAAAAATCAAAAAAAAATCA
1 AAAAAAATAAAAAAAACAAAAAC-AAAAAATCAAAAAAAAATCA
*
11958156 AAAAAAATAAAAAAAATAAAAAC-AAAAAT-AAAAAAAAATCA
1 AAAAAAATAAAAAAAACAAAAACAAAAAATCAAAAAAAAATCA
11958197 AAAA
1 AAAA
11958201 TAAAAATGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 16 0.38
42 6 0.14
43 7 0.17
44 13 0.31
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.07
Consensus pattern (43 bp):
AAAAAAATAAAAAAAACAAAAACAAAAAATCAAAAAAAAATCA
Found at i:11958334 original size:20 final size:20
Alignment explanation
Indices: 11958309--11958367 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
11958299 CAGGTCCGGG
11958309 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
11958329 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
11958349 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
11958368 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:11958537 original size:3 final size:3
Alignment explanation
Indices: 11958529--11958557 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11958519 AGTTATATAT
11958529 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11958558 TTTGTAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11959124 original size:31 final size:32
Alignment explanation
Indices: 11959053--11959125 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
11959043 GAAATTTTCC
* *
11959053 AGATTCCGGCGGAAAATTTCCGGCGACATTTGA
1 AGATTCCGGC-GAAAATTTCCGGCGAAACTTGA
**
11959086 ATTTTCCGGC-ACAAA-TTCCGGCGAAACTTGA
1 AGATTCCGGCGA-AAATTTCCGGCGAAACTTGA
11959117 AGATTCCGG
1 AGATTCCGG
11959126 TGACCAACCC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
31 22 0.67
32 3 0.09
33 8 0.24
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (32 bp):
AGATTCCGGCGAAAATTTCCGGCGAAACTTGA
Found at i:11959204 original size:19 final size:19
Alignment explanation
Indices: 11959180--11959226 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
11959170 TTCCGGCCAT
11959180 ATTCCGGCAAAAATTCCAG
1 ATTCCGGCAAAAATTCCAG
* * *
11959199 ATTCCGGCGACATTTCCAG
1 ATTCCGGCAAAAATTCCAG
*
11959218 AATCCGGCA
1 ATTCCGGCA
11959227 CCGGTGTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (19 bp):
ATTCCGGCAAAAATTCCAG
Found at i:11959866 original size:161 final size:161
Alignment explanation
Indices: 11959600--11960060 Score: 765
Period size: 156 Copynumber: 2.9 Consensus size: 161
11959590 ATTTTGATCT
* * *
11959600 TGATTTT-TTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
11959664 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
*
11959729 TTGAGAATAA-TTTCTGATAATTAATTACTTGGC
129 TTGAGAATAATTTTC-GATAATTAATTAATTGGC
11959762 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
11959827 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
*
11959892 GAGAATAATTTTCGATAATTAATTAATTGGT
131 GAGAATAATTTTCGATAATTAATTAATTGGC
* *
11959923 TGATCTTGA-----TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
* *
11959983 TTTCTTGCATACTCTTGAGGTGAGAGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
11960048 GAGAATAATTTTC
131 GAGAATAATTTTC
11960061 AACAACTAAC
Statistics
Matches: 288, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
156 126 0.44
161 108 0.38
162 50 0.17
163 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.40
Consensus pattern (161 bp):
TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTTCGATAATTAATTAATTGGC
Found at i:11969951 original size:2 final size:2
Alignment explanation
Indices: 11969871--11969937 Score: 93
Period size: 2 Copynumber: 34.5 Consensus size: 2
11969861 CAATAATGCC
* *
11969871 AT AT AT AT AT AT AT AT AT AT AT AG AT -T AT AT AT AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
11969912 AT -T AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11969938 ACACGGGTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11969969 original size:33 final size:33
Alignment explanation
Indices: 11969932--11969996 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
11969922 TATATATATT
**
11969932 TATATAACACGGGTATATATTTCTATTGGTATA
1 TATATAACACAAGTATATATTTCTATTGGTATA
11969965 TATATAACACAAGTATATATTTCTATTGGTAT
1 TATATAACACAAGTATATATTTCTATTGGTAT
11969997 TTCTCATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (33 bp):
TATATAACACAAGTATATATTTCTATTGGTATA
Found at i:11976103 original size:14 final size:14
Alignment explanation
Indices: 11976084--11976118 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
11976074 ATCTTACTTT
11976084 TACTTTATTAAAGC
1 TACTTTATTAAAGC
*
11976098 TACTTTATTAAAGT
1 TACTTTATTAAAGC
11976112 TACTTTA
1 TACTTTA
11976119 AATCTAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (14 bp):
TACTTTATTAAAGC
Found at i:11978319 original size:108 final size:107
Alignment explanation
Indices: 11978153--11978376 Score: 252
Period size: 108 Copynumber: 2.1 Consensus size: 107
11978143 CCAACAGCAC
* * * * * ** *
11978153 AGGTAGAGTTTGGATTGTAATTGAGGCTGGTGTTGGAGCAGTGACGGGGTTGGAGTTTGGGATTG
1 AGGTAGAGTTCGGATTATAATAGAGACTGGTGTTGGAGCAATGACGAAGTCGGAGTTTGGGATTG
* * **
11978218 CGCTTGGGA-TTGAAATAGAGTTTGGGGTTGTACTTGGAGCTG
66 CGCTT-CGACTTGAAATAAAGTTTGGAATTGTACTTGGAGCTG
* * *
11978260 AGGTAGAGTTCGGAATTATAATAGAGATTGGTGTTGGAGTAATGACGAAGTCGGAGTTTGGTATT
1 AGGTAGAGTTCGG-ATTATAATAGAGACTGGTGTTGGAGCAATGACGAAGTCGGAGTTTGGGATT
* * * *
11978325 GTGCTTCGACTTGAAGTAAAGTTTGGAATTGTCCTTGGATCTG
65 GCGCTTCGACTTGAAATAAAGTTTGGAATTGTACTTGGAGCTG
11978368 AGGTAGAGT
1 AGGTAGAGT
11978377 ATGGATTTGT
Statistics
Matches: 96, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
107 14 0.15
108 82 0.85
ACGTcount: A:0.23, C:0.07, G:0.37, T:0.33
Consensus pattern (107 bp):
AGGTAGAGTTCGGATTATAATAGAGACTGGTGTTGGAGCAATGACGAAGTCGGAGTTTGGGATTG
CGCTTCGACTTGAAATAAAGTTTGGAATTGTACTTGGAGCTG
Found at i:11984767 original size:60 final size:60
Alignment explanation
Indices: 11984671--11985306 Score: 421
Period size: 60 Copynumber: 10.0 Consensus size: 60
11984661 AGGAGTGGAA
* ** * * * * * *
11984671 GTAGAGTTC-AGGATTGTACCTACAGCTGAGGCAGAGTTCGGGATTGTACTTGCAGCTTAG
1 GTAGAGTTCGA-GATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAG
* * * * *
11984731 GTAGAGTTCGAGATTGTACTGGTAACTCAGGTAGAGTTCGAGATGGTACCTGCAGCTCAG
1 GTAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAG
* * * * *
11984791 GTTGAGTTCGAGATCGTACCTGTAGCTCAGGTAGAGTTCGAGATCGTACCGGTAGCTCAG
1 GTAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAG
* * * * * *
11984851 GCAGAGGTCGGGATCGTACCGGCAGCTCAGGCAGAGTTCGAGATCCTA-CTGATAGCTCAG
1 GTAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTG-CAGCTCAG
* * * *
11984911 GCAGAGTTCGGGATCGTACCTGCAGCTCAGGTAGATTTCGAGATCGTACCTGCAGCTCAGCCAGC
1 GTAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCT----CA--
11984976 CG
60 -G
* * * * *
11984978 CTCAGATAGAGTTCGAGATTGTACCGACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAG
1 ----G-TAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAG
* * *
11985043 GTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAACTCAGCCAG
1 GTAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCT----CAG
* * ** * * *
11985107 CCGCTCAGATAAAGTTCGGGATTGTACCAACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCT
1 --G-T-AG----AGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCT
11985172 CAG
58 CAG
* * * * * *
11985175 GTAGAGTACGGGATCGTGCCTGCAGCTCAGGTAGAGTTCGAGATTGTGCTTGCAGCTCAGCCAAC
1 GTAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGA---T-C--GTA-C-CTG-C-A-
*
11985240 CGCTCAA
55 -GCTCAG
* * * *
11985247 GTAGAGTTCGGGATGGTACCGGCAGCTCAGGTAGAGTTCGGGATTGTACCTGCAGCTCAG
1 GTAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAG
11985307 CCAATAGCTT
Statistics
Matches: 463, Mismatches: 74, Indels: 78
0.75 0.12 0.13
Matches are distributed among these distances:
59 2 0.00
60 282 0.61
61 5 0.01
62 1 0.00
63 2 0.00
64 9 0.02
65 3 0.01
66 6 0.01
67 3 0.01
68 9 0.02
69 2 0.00
70 1 0.00
71 1 0.00
72 137 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (60 bp):
GTAGAGTTCGAGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAG
Found at i:11984968 original size:30 final size:30
Alignment explanation
Indices: 11984671--11984970 Score: 318
Period size: 30 Copynumber: 10.0 Consensus size: 30
11984661 AGGAGTGGAA
* * *
11984671 GTAGAGTTC-AGGATTGTACCTACAGCTGAG
1 GTAGAGTTCGA-GATCGTACCTGCAGCTCAG
* * * * *
11984701 GCAGAGTTCGGGATTGTACTTGCAGCTTAG
1 GTAGAGTTCGAGATCGTACCTGCAGCTCAG
* * *
11984731 GTAGAGTTCGAGATTGTA-CTGGTAACTCAG
1 GTAGAGTTCGAGATCGTACCT-GCAGCTCAG
*
11984761 GTAGAGTTCGAGATGGTACCTGCAGCTCAG
1 GTAGAGTTCGAGATCGTACCTGCAGCTCAG
* *
11984791 GTTGAGTTCGAGATCGTACCTGTAGCTCAG
1 GTAGAGTTCGAGATCGTACCTGCAGCTCAG
* *
11984821 GTAGAGTTCGAGATCGTACCGGTAGCTCAG
1 GTAGAGTTCGAGATCGTACCTGCAGCTCAG
* * * *
11984851 GCAGAGGTCGGGATCGTACCGGCAGCTCAG
1 GTAGAGTTCGAGATCGTACCTGCAGCTCAG
* * *
11984881 GCAGAGTTCGAGATCCTA-CTGATAGCTCAG
1 GTAGAGTTCGAGATCGTACCTG-CAGCTCAG
* *
11984911 GCAGAGTTCGGGATCGTACCTGCAGCTCAG
1 GTAGAGTTCGAGATCGTACCTGCAGCTCAG
*
11984941 GTAGATTTCGAGATCGTACCTGCAGCTCAG
1 GTAGAGTTCGAGATCGTACCTGCAGCTCAG
11984971 CCAGCCGCTC
Statistics
Matches: 231, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
29 3 0.01
30 223 0.97
31 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (30 bp):
GTAGAGTTCGAGATCGTACCTGCAGCTCAG
Found at i:11985018 original size:30 final size:30
Alignment explanation
Indices: 11984977--11985102 Score: 189
Period size: 30 Copynumber: 4.2 Consensus size: 30
11984967 TCAGCCAGCC
* *
11984977 GCTCAGATAGAGTTCGAGATTGTACCGACA
1 GCTCAGGTAGAGTTCGAGATTGTACCGGCA
*
11985007 GCTCAGGTAGAGTTCGGGATTGTACCGGCA
1 GCTCAGGTAGAGTTCGAGATTGTACCGGCA
*
11985037 GCTCAGGTAGAGTTCGGGATTGTACCGGCA
1 GCTCAGGTAGAGTTCGAGATTGTACCGGCA
* *
11985067 GCTCAGGTAGAGTTCGAGATCGTACCTGCA
1 GCTCAGGTAGAGTTCGAGATTGTACCGGCA
*
11985097 ACTCAG
1 GCTCAG
11985103 CCAGCCGCTC
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 89 1.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (30 bp):
GCTCAGGTAGAGTTCGAGATTGTACCGGCA
Found at i:11985062 original size:102 final size:102
Alignment explanation
Indices: 11984883--11985072 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 102
11984873 CAGCTCAGGC
* * * *
11984883 AGAGTTCGAGATCCTACTGATAGCTCAGGCAGAGTTCGGGATCGTACCTGCAGCTCAGGTAGATT
1 AGAGTTCGAGATCCTACCGACAGCTCAGGCAGAGTTCGGGATCGTACCGGCAGCTCAGGTAGAGT
*
11984948 TCGAGATCGTACCTGCAGCTCAGCCAGCCGCTCAGAT
66 TCGAGATCGTACCGGCAGCTCAGCCAGCCGCTCAGAT
** * *
11984985 AGAGTTCGAGATTGTACCGACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGT
1 AGAGTTCGAGATCCTACCGACAGCTCAGGCAGAGTTCGGGATCGTACCGGCAGCTCAGGTAGAGT
* *
11985050 TCGGGATTGTACCGGCAGCTCAG
66 TCGAGATCGTACCGGCAGCTCAG
11985073 GTAGAGTTCG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 77 1.00
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.23
Consensus pattern (102 bp):
AGAGTTCGAGATCCTACCGACAGCTCAGGCAGAGTTCGGGATCGTACCGGCAGCTCAGGTAGAGT
TCGAGATCGTACCGGCAGCTCAGCCAGCCGCTCAGAT
Found at i:11985083 original size:132 final size:132
Alignment explanation
Indices: 11984853--11985306 Score: 649
Period size: 132 Copynumber: 3.4 Consensus size: 132
11984843 TAGCTCAGGC
* * * * * ** * ** *
11984853 AGAGGTCGGGATCGTACCGGCAGCTCAGGCAGAGTTCGAGATCCTACTGATAGCTCAGGCAGAGT
1 AGAGTTCGGGATTGTACCGACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGT
*
11984918 TCGGGATCGTACCTGCAGCTCAGGTAGATTTCGAGATCGTACCTGCAGCTCAGCCAGCCGCTCAG
66 TCGGGATCGTACCTGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAGCCAGCCGCTCAG
11984983 AT
131 AT
*
11984985 AGAGTTCGAGATTGTACCGACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGT
1 AGAGTTCGGGATTGTACCGACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGT
* * *
11985050 TCGGGATTGTACCGGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAACTCAGCCAGCCGCTCAG
66 TCGGGATCGTACCTGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAGCCAGCCGCTCAG
11985115 AT
131 AT
* *
11985117 AAAGTTCGGGATTGTACCAACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGT
1 AGAGTTCGGGATTGTACCGACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGT
* * * * * *
11985182 ACGGGATCGTGCCTGCAGCTCAGGTAGAGTTCGAGATTGTGCTTGCAGCTCAGCCAACCGCTCA-
66 TCGGGATCGTACCTGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAGCCAGCCGCTCAG
11985246 AGT
131 A-T
* * *
11985249 AGAGTTCGGGATGGTACCGGCAGCTCAGGTAGAGTTCGGGATTGTACCTGCAGCTCAG
1 AGAGTTCGGGATTGTACCGACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAG
11985307 CCAATAGCTT
Statistics
Matches: 288, Mismatches: 33, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 1 0.00
132 287 1.00
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.22
Consensus pattern (132 bp):
AGAGTTCGGGATTGTACCGACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGT
TCGGGATCGTACCTGCAGCTCAGGTAGAGTTCGAGATCGTACCTGCAGCTCAGCCAGCCGCTCAG
AT
Found at i:11985113 original size:102 final size:101
Alignment explanation
Indices: 11985006--11985352 Score: 371
Period size: 102 Copynumber: 3.4 Consensus size: 101
11984996 TTGTACCGAC
*
11985006 AGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTC
1 AGCTCAGGTAAAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTC
* *
11985071 AGGTAGAGTTCGAGATCGTACCTGCAACTCAGCCAG
66 AGGTAGAGTTCGGGATCGTACCTGCAGCTCAGCCAG
* * **
11985107 CCGCTCAGATAAAGTTCGGGATTGTACCAACAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCT
1 -AGCTCAGGTAAAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCT
* * **
11985172 CAGGTAGAGTACGGGATCGTGCCTGCAGCTCAGGTAG
65 CAGGTAGAGTTCGGGATCGTACCTGCAGCTCAGCCAG
* * * * * * * *
11985209 AGTTC--G-AGA-TT-GTGCTTGCAGCTCAGCCAACCGCTCAAGTAGAGTTCGGGATGGTACCGG
1 AGCTCAGGTAAAGTTCGGGATTGTA-C-C-GGC-A--GCTCAGGTAGAGTTCGGGATTGTACCGG
* *
11985269 CAGCTCAGGTAGAGTTCGGGATTGTACCTGCAGCTCAGCCAAT
60 CAGCTCAGGTAGAGTTCGGGATCGTACCTGCAGCTCAGCC-AG
* * *
11985312 AGCTTAGGTAAAGTTCGGGATTGTACTGGTAGCTCAGGTAG
1 AGCTCAGGTAAAGTTCGGGATTGTACCGGCAGCTCAGGTAG
11985353 CTCAAGTGGA
Statistics
Matches: 195, Mismatches: 38, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
96 6 0.03
97 3 0.02
98 3 0.02
99 1 0.01
100 1 0.01
101 3 0.02
102 160 0.82
103 4 0.02
104 1 0.01
105 2 0.01
106 2 0.01
107 3 0.02
108 6 0.03
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (101 bp):
AGCTCAGGTAAAGTTCGGGATTGTACCGGCAGCTCAGGTAGAGTTCGGGATTGTACCGGCAGCTC
AGGTAGAGTTCGGGATCGTACCTGCAGCTCAGCCAG
Found at i:11985229 original size:30 final size:30
Alignment explanation
Indices: 11985109--11985234 Score: 153
Period size: 30 Copynumber: 4.2 Consensus size: 30
11985099 TCAGCCAGCC
* * * **
11985109 GCTCAGATAAAGTTCGGGATTGTACCAACA
1 GCTCAGGTAGAGTTCGGGATTGTGCCTGCA
* *
11985139 GCTCAGGTAGAGTTCGGGATTGTACCGGCA
1 GCTCAGGTAGAGTTCGGGATTGTGCCTGCA
* *
11985169 GCTCAGGTAGAGTACGGGATCGTGCCTGCA
1 GCTCAGGTAGAGTTCGGGATTGTGCCTGCA
* *
11985199 GCTCAGGTAGAGTTCGAGATTGTGCTTGCA
1 GCTCAGGTAGAGTTCGGGATTGTGCCTGCA
11985229 GCTCAG
1 GCTCAG
11985235 CCAACCGCTC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 84 1.00
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.24
Consensus pattern (30 bp):
GCTCAGGTAGAGTTCGGGATTGTGCCTGCA
Found at i:11985281 original size:30 final size:30
Alignment explanation
Indices: 11985241--11985306 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
11985231 TCAGCCAACC
*
11985241 GCTCAAGTAGAGTTCGGGATGGTACCGGCA
1 GCTCAGGTAGAGTTCGGGATGGTACCGGCA
* *
11985271 GCTCAGGTAGAGTTCGGGATTGTACCTGCA
1 GCTCAGGTAGAGTTCGGGATGGTACCGGCA
11985301 GCTCAG
1 GCTCAG
11985307 CCAATAGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (30 bp):
GCTCAGGTAGAGTTCGGGATGGTACCGGCA
Found at i:11985310 original size:72 final size:72
Alignment explanation
Indices: 11985167--11985352 Score: 237
Period size: 72 Copynumber: 2.6 Consensus size: 72
11985157 ATTGTACCGG
* * * * *
11985167 CAGCTCAGGTAGAGTACGGGATCGTGCCTGCAGCTCAGGTAGAGTTCGAGATTGTGCTTGCAGCT
1 CAGCTCAGGTAGAGTTCGGGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATTGTACCTGCAGCT
11985232 CAGCCAA
66 CAGCCAA
* * * *
11985239 CCGCTCAAGTAGAGTTCGGGATGGTACCGGCAGCTCAGGTAGAGTTCGGGATTGTACCTGCAGCT
1 CAGCTCAGGTAGAGTTCGGGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATTGTACCTGCAGCT
11985304 CAGCCAA
66 CAGCCAA
* * * * * *
11985311 TAGCTTAGGTAAAGTTCGGGATTGTACTGGTAGCTCAGGTAG
1 CAGCTCAGGTAGAGTTCGGGATCGTACCGGCAGCTCAGGTAG
11985353 CTCAAGTGGA
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 97 1.00
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (72 bp):
CAGCTCAGGTAGAGTTCGGGATCGTACCGGCAGCTCAGGTAGAGTTCGAGATTGTACCTGCAGCT
CAGCCAA
Found at i:11985458 original size:30 final size:30
Alignment explanation
Indices: 11985424--11985497 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
11985414 TGCTGCTCAG
*
11985424 GTAGAGTTCGGGATGGTGCTTGGACTTGAA
1 GTAGAGTTTGGGATGGTGCTTGGACTTGAA
*
11985454 GTAGAGTTTTGGATGGTGCTTGGACTTGAA
1 GTAGAGTTTGGGATGGTGCTTGGACTTGAA
*
11985484 GTAGATTTTGGGAT
1 GTAGAGTTTGGGAT
11985498 TTAGGTTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.07, G:0.38, T:0.35
Consensus pattern (30 bp):
GTAGAGTTTGGGATGGTGCTTGGACTTGAA
Found at i:11986069 original size:72 final size:72
Alignment explanation
Indices: 11985952--11986099 Score: 226
Period size: 72 Copynumber: 2.1 Consensus size: 72
11985942 TGACTTTTGC
* * *
11985952 TATACAAGAAGAATCTTACAGCTTTCCCTCCACTTTCCATATACTTTGTTTAATTAATTTAATAT
1 TATACAAGAAGAATCTTACAACTTTCCCTCAACTTTACATATACTTTGTTTAATTAATTTAATAT
11986017 TTATATT
66 TTATATT
* * *
11986024 TATACAA-AAGGAATCTTACAACTTTCTCTCAACTTTACATATACTTTGTTTTATTAATTTAATT
1 TATACAAGAA-GAATCTTACAACTTTCCCTCAACTTTACATATACTTTGTTTAATTAATTTAATA
11986088 TTTATATT
65 TTTATATT
11986096 TATA
1 TATA
11986100 TTGTATAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
71 2 0.03
72 67 0.97
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (72 bp):
TATACAAGAAGAATCTTACAACTTTCCCTCAACTTTACATATACTTTGTTTAATTAATTTAATAT
TTATATT
Found at i:11999328 original size:22 final size:22
Alignment explanation
Indices: 11999302--11999343 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11999292 TGTATATTTA
* *
11999302 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
11999324 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
11999344 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:11999606 original size:25 final size:24
Alignment explanation
Indices: 11999554--11999618 Score: 96
Period size: 25 Copynumber: 2.7 Consensus size: 24
11999544 AAAATTTTCA
* *
11999554 GCCTTCATTGCCG-ACTTTTTTAG
1 GCCTTCATTGCCGAACCTGTTTAG
11999577 GCCTTCATTGCCGAATCCTGTTTAG
1 GCCTTCATTGCCGAA-CCTGTTTAG
11999602 GCCTTCATTGCCGAACC
1 GCCTTCATTGCCGAACC
11999619 CTTTCAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 13 0.34
24 3 0.08
25 22 0.58
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.35
Consensus pattern (24 bp):
GCCTTCATTGCCGAACCTGTTTAG
Found at i:12003287 original size:22 final size:22
Alignment explanation
Indices: 12003261--12003302 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12003251 TGTATATTTA
* *
12003261 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
12003283 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
12003303 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:12008770 original size:12 final size:12
Alignment explanation
Indices: 12008753--12008790 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
12008743 GAATAACTAA
*
12008753 AACAGACAGAGC
1 AACAGAAAGAGC
*
12008765 AACAGAAAGAGA
1 AACAGAAAGAGC
12008777 AACAGAAAGAGC
1 AACAGAAAGAGC
12008789 AA
1 AA
12008791 TAACAGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.61, C:0.16, G:0.24, T:0.00
Consensus pattern (12 bp):
AACAGAAAGAGC
Found at i:12013256 original size:6 final size:7
Alignment explanation
Indices: 12013239--12013303 Score: 64
Period size: 7 Copynumber: 9.4 Consensus size: 7
12013229 ATTCCTCCAT
12013239 TTTTTTA
1 TTTTTTA
12013246 TTTTTTA
1 TTTTTTA
*
12013253 TTTTTTG
1 TTTTTTA
* *
12013260 TTAAATATA
1 TT--TTTTA
12013269 TTTTTTA
1 TTTTTTA
12013276 TTTTTTA
1 TTTTTTA
12013283 -TTTTTA
1 TTTTTTA
12013289 -TTTTTA
1 TTTTTTA
12013295 -TTTTTA
1 TTTTTTA
12013301 TTT
1 TTT
12013304 GTTTTTAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 18 0.37
7 27 0.55
9 4 0.08
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:12013292 original size:12 final size:12
Alignment explanation
Indices: 12013270--12013303 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
12013260 TTAAATATAT
12013270 TTTTTATTTTTTA
1 TTTTTA-TTTTTA
12013283 TTTTTATTTTTA
1 TTTTTATTTTTA
12013295 TTTTTATTT
1 TTTTTATTT
12013304 GTTTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:12019617 original size:274 final size:274
Alignment explanation
Indices: 12019128--12019679 Score: 980
Period size: 274 Copynumber: 2.0 Consensus size: 274
12019118 GCACATTTCC
* *
12019128 TTTGCACACGAGCATTCAAACATTGCAAGAAAAATAGTTTCTTTTGCCACTCCACATTTTATGCA
1 TTTGCACACAAGCATTCAAACATTGCAAGAAAAATAGTTTCTTTTGCCACTCCACATCTTATGCA
*
12019193 TGTAGCTCCATGGATTATCTATTTTTTCTCCAAGTTTTGATTCGCTAAAATGTTTTCCTTACTAA
66 TATAGCTCCATGGATTATCTATTTTTTCTCCAAGTTTTGATTCGCTAAAATGTTTTCCTTACTAA
*
12019258 CTTTTCATACCAAGATTTTGACCTTTGCTGGAACTTATGCTATCTAGATGTTCTACCAGAGCTTT
131 CTTTTCATACCAAGATTTTGACCTTTGCTAGAACTTATGCTATCTAGATGTTCTACCAGAGCTTT
* *
12019323 CTATATGAAATGTAGTTCTCATTTCCTCTCCATTCTCTTTCTTATCTTATGCCATTCTTTATAGC
196 CTATATGAAATGTAGTTCTCATTTCCTCCCCATTCTCTTTCTTATCTTATGCCATTCTTTATAAC
*
12019388 AACCTATAGCCATT
261 AACCTATAGCCACT
*
12019402 TTTGCACACAAGCATTCAAACATTGTAAGAAAAATAGTTT-TTTCTGCCACTCCACATCTTATGC
1 TTTGCACACAAGCATTCAAACATTGCAAGAAAAATAGTTTCTTT-TGCCACTCCACATCTTATGC
*
12019466 ATATAGCTCCATGGATTATCTATTTTTTTTCCAAGTTTTGATTCGCTAAAATGTTTTCCTTACTA
65 ATATAGCTCCATGGATTATCTATTTTTTCTCCAAGTTTTGATTCGCTAAAATGTTTTCCTTACTA
*
12019531 ACTTTTCATACCAAGATTTTGACCTTTGCTAGAACTTGTGCTATCTAGATGTTCTACCAGAGCTT
130 ACTTTTCATACCAAGATTTTGACCTTTGCTAGAACTTATGCTATCTAGATGTTCTACCAGAGCTT
* *
12019596 TCTATATGAAATGTAGTTCTCATTTCTTCCCCATTCTCTTTCTTATCTTGTGCCATTCTTTATAA
195 TCTATATGAAATGTAGTTCTCATTTCCTCCCCATTCTCTTTCTTATCTTATGCCATTCTTTATAA
12019661 CAACCTATAGCCACT
260 CAACCTATAGCCACT
12019676 TTTG
1 TTTG
12019680 ACTGTATATA
Statistics
Matches: 265, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
273 3 0.01
274 262 0.99
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.41
Consensus pattern (274 bp):
TTTGCACACAAGCATTCAAACATTGCAAGAAAAATAGTTTCTTTTGCCACTCCACATCTTATGCA
TATAGCTCCATGGATTATCTATTTTTTCTCCAAGTTTTGATTCGCTAAAATGTTTTCCTTACTAA
CTTTTCATACCAAGATTTTGACCTTTGCTAGAACTTATGCTATCTAGATGTTCTACCAGAGCTTT
CTATATGAAATGTAGTTCTCATTTCCTCCCCATTCTCTTTCTTATCTTATGCCATTCTTTATAAC
AACCTATAGCCACT
Found at i:12020748 original size:15 final size:15
Alignment explanation
Indices: 12020725--12020754 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12020715 TGACATAAAC
12020725 TCACAATCAACATAA
1 TCACAATCAACATAA
*
12020740 TCACCATCAACATAA
1 TCACAATCAACATAA
12020755 GATTTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (15 bp):
TCACAATCAACATAA
Found at i:12024835 original size:105 final size:105
Alignment explanation
Indices: 12024559--12024940 Score: 396
Period size: 105 Copynumber: 3.6 Consensus size: 105
12024549 AAAAACAATA
* ** *
12024559 TTTGACTTGATGGCTTTTGATTTAATGAGTATTTATTATAGATATGGTAATTACTGCGTTTCTTT
1 TTTGACTTGATGGCTTTTGATTTAATGAGTATTTATTATAGGTATGACAATTACTGCATTTCTTT
* ** *
12024624 AAATAAAAAGGTAATATTTGGTATTTAATTTTTTTAATTTA-
66 AAACAAAAACATAATATTTGGTATTT-ATTTTTTT-ATCTAG
* * **
12024665 TTTGA-TTCGATAGCTTTTGATTTGATGAGTATTTTATTATAGGTAAAACAATTACT-CTATTTC
1 TTTGACTT-GATGGCTTTTGATTTAATGAGTA-TTTATTATAGGTATGACAATTACTGC-ATTTC
* * * *
12024728 TTTGAACAGAAACACAATATTTGGCATTTATTTTTTT-TCTACG
63 TTTAAACAAAAACATAATATTTGGTATTTATTTTTTTATCTA-G
* * * * *
12024771 TTTGACTTAATGGCTTTTGATTTAATGACTATTTATTATGGGTACGACAATTATTGCATTTCTTT
1 TTTGACTTGATGGCTTTTGATTTAATGAGTATTTATTATAGGTATGACAATTACTGCATTTCTTT
* * *
12024836 AAACAAAAACATAGTATTTAGTATTCAATTTTTTTATCT-G
66 AAACAAAAACATAATATTTGGTATT-TATTTTTTTATCTAG
* * * * * *
12024876 TTTAATTTGATGGCTTTTGATTTAATGAGTATTTATTATGGGTTTGTCAATTATTGCATTTCTTT
1 TTTGACTTGATGGCTTTTGATTTAATGAGTATTTATTATAGGTATGACAATTACTGCATTTCTTT
12024941 GAAGCTAAAC
Statistics
Matches: 229, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
104 3 0.01
105 108 0.47
106 68 0.30
107 50 0.22
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (105 bp):
TTTGACTTGATGGCTTTTGATTTAATGAGTATTTATTATAGGTATGACAATTACTGCATTTCTTT
AAACAAAAACATAATATTTGGTATTTATTTTTTTATCTAG
Found at i:12028648 original size:22 final size:22
Alignment explanation
Indices: 12028606--12028652 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
12028596 TTATATTATT
* *
12028606 AATTTAATCTTTATGTGTATGA
1 AATTTAATCTTTATCTATATGA
12028628 AATTTAATCTTT-TCCTATATGA
1 AATTTAATCTTTAT-CTATATGA
12028650 AAT
1 AAT
12028653 AATTTTCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (22 bp):
AATTTAATCTTTATCTATATGA
Found at i:12034340 original size:20 final size:19
Alignment explanation
Indices: 12034301--12034344 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
12034291 TATATTTATA
*
12034301 TATTTAATAAATTAATTTTT
1 TATTTAATAAATTAA-CTTT
12034321 TATTTAAT-AATATAACTTT
1 TATTTAATAAAT-TAACTTT
12034340 TATTT
1 TATTT
12034345 TAGATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTAATAAATTAACTTT
Found at i:12037647 original size:7 final size:8
Alignment explanation
Indices: 12037623--12037653 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
12037613 GTAAGGATAT
12037623 AATTTAAA
1 AATTTAAA
*
12037631 ATTTTAAA
1 AATTTAAA
12037639 AATTTAAA
1 AATTTAAA
12037647 AATTTAA
1 AATTTAA
12037654 TTCAATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
AATTTAAA
Found at i:12039840 original size:20 final size:20
Alignment explanation
Indices: 12039815--12039870 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
12039805 TTTTATAATA
12039815 TAAATTATATAAAAAACATT
1 TAAATTATATAAAAAACATT
12039835 TAAATTA-A-AAAATAA-ATT
1 TAAATTATATAAAA-AACATT
*
12039853 TAAA-TATATTAAAAACAT
1 TAAATTATATAAAAAACAT
12039871 AGAAAAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
17 2 0.06
18 14 0.45
19 8 0.26
20 7 0.23
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAATTATATAAAAAACATT
Found at i:12044672 original size:728 final size:725
Alignment explanation
Indices: 12043091--12045999 Score: 4873
Period size: 728 Copynumber: 4.0 Consensus size: 725
12043081 GAAAAGAAAA
* *
12043091 TTAAATGACATGGCAACAAAGTTGAAGGCCATTTTGGTGGATAAGGCTTTAGCAAAATTGATGAA
1 TTAAATGACCTGGCAACAAAGTTGAAGGCCATTTTAGTGGATAAGGCTTTAGCAAAATTGATGAA
* *
12043156 AGAATAGGTCGACCTGAAACTAAATAATGTCCAGGCTAAAATTGTAAGATTGAGGTCCGAGCTGA
66 AGAATAGGTCGACCTGAAACTAAATAATGTCCAGGCTGAAATTGTAAGGTTGAGGTCCGAGCTGA
*
12043221 AAGTTCAAGATAAAAGGGAGGAAAAACTACGAATGAAGGCTATGAAAGAGTACAAAGCCTCCAAT
131 AAGTTCAAGATAAAAGGGAGGAAAAACTACGAGTGAAGGCTATGAAAGAGTACAAAGCCTCCAAT
* * * *
12043286 GAGTGTCTTCAGGTGAAGGTAAAGTTTAAACAAAAATGTA-TT-TATCTTCTAATTGGCTAAAGA
196 GAGTGTCTCCAGGTGAAGGTAAAGTTAAAAAAAAAATGTATTTGTGTCTTCTAATTGGCTAAAGA
* * * *
12043349 AGAGGTGTAGTTCAAATTCTCCTATCTAAATCTTAATCTCTTTAATATTGATATCAATAATATTA
261 AGAGGTGTAGTTCAAATTCTCCTATCTGAATCTTGATCTCTTTGATATTGATATCAACAATATTA
*
12043414 AATCGAGGTCTGTTCTAAATCAGCATGAGAAATATGAGAAAGAATAGGAGAAAAATGAGAATGAG
326 AATCGAGGTCTGTTCTAAATCAGCATGAGAAATATGAGAAAGAATAGGAGAAAAATGAGGATGAG
* *
12043479 ACCTTACAAAAGAAAAGCT-AACAGCTACCATGGGGACAAAGAAAGAAAACGTGAAAGTTGTTGA
391 ACCTTACAAAA-AAAAGTTGAA-AGCTACCATGAGGACAAAGAAAGAAAACGTGAAAGTTGTTGA
*
12043543 AGCTGAGGTCGTTCCTCCCACTGCCACTGATGAGAGTACTCCTCTCATTGCTGCTACTACTATTG
454 AGCTGAGGTCGTTCCTCCCACTGCCACTGATGAGAGTACTCCTCTCATTGCTGCTACTGCTATTG
*
12043608 ATGAATGAATTTGATGGTTTTTTTT-ATTTTTGTTTTTGATTTTATAGACTTTTTGTAAATTTTT
519 ATGAATGAATTTGATGGTTTTTTTTAATTTTTGTTTTTGATTTTATAGACCTTTTGTAAATTTTT
* *
12043672 TAACTTTGAA-GTCAGGTTTTTTAAAGACTTTTCATACTCCAACTAATGTACTTAGCAACATTGA
584 TAACTTT-AAGGTCAAGTTTTTTAAAGACTTTCCATACTCCAACTAATGTACTTAGCAACATTGA
12043736 AATGAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAGTATTATTTTTTTTTAATTTACGTTA
648 AATGAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAGTATTATTTTTTTTTAATTTACGTTA
12043801 GACTGAGAACAGT
713 GACTGAGAACAGT
*
12043814 TCAAATGACCTGGCAACAAAGTTGAAGGCCATTTTAGTGGATAAGGCTTTAGCAAAATTGATGAA
1 TTAAATGACCTGGCAACAAAGTTGAAGGCCATTTTAGTGGATAAGGCTTTAGCAAAATTGATGAA
* * * *
12043879 AAAATAGGTCGACCTAAAACTAAATAATGTCTAGGTTGAAATTGTAAGGTTGAGGTCCGAGCTGA
66 AGAATAGGTCGACCTGAAACTAAATAATGTCCAGGCTGAAATTGTAAGGTTGAGGTCCGAGCTGA
*
12043944 AAGTTCAAGATAAAAGGGAGGAGAAACTACGAGTGAAGGCTATGAAAGAGTACAAAGCCTCCAAT
131 AAGTTCAAGATAAAAGGGAGGAAAAACTACGAGTGAAGGCTATGAAAGAGTACAAAGCCTCCAAT
** * *
12044009 TTGTGTCTCCAGGTGAAGGTAAAGTTAAAAAAAAAACGTATTTGTGTCTTCTAATTGGCTAAAAA
196 GAGTGTCTCCAGGTGAAGGTAAAGTTAAAAAAAAAATGTATTTGTGTCTTCTAATTGGCTAAAGA
* *
12044074 AGATGTGTAGTTCAAATTCTCCTATCTGAATCTTGATCTCTCTGATATTGATATCAACAATATTA
261 AGAGGTGTAGTTCAAATTCTCCTATCTGAATCTTGATCTCTTTGATATTGATATCAACAATATTA
* *
12044139 AATCGAGGTCTGTTCTAAATCACCATGAGAAATATGAGAAAGAATAGGAGAAAATTGAGGATGAG
326 AATCGAGGTCTGTTCTAAATCAGCATGAGAAATATGAGAAAGAATAGGAGAAAAATGAGGATGAG
*
12044204 ACCTTACAAAAAAAAGTTGAAAGCTACCATGAGGACAAAGAAAGAAAACATGAAAGTTGTTGAAG
391 ACCTTACAAAAAAAAGTTGAAAGCTACCATGAGGACAAAGAAAGAAAACGTGAAAGTTGTTGAAG
*
12044269 CTGAGGTCGTTCCTCCCACTGCCACTGATAAGAGTACTCCTCTCATTGCTGCTACTGCTATTGAT
456 CTGAGGTCGTTCCTCCCACTGCCACTGATGAGAGTACTCCTCTCATTGCTGCTACTGCTATTGAT
**
12044334 GAATGAATTTGATGGTTTTTTTTTAATTTTAATTTTTGATTTTATAGACCTTTTGTAAATTTTTT
521 GAATGAATTTGATGG-TTTTTTTTAATTTTTGTTTTTGATTTTATAGACCTTTTGTAAATTTTTT
*
12044399 AACTTTGAGGTCAAGTTTTTTAAAGACTTTCCATACTCCAACTAATGTACTTAGCAACATTGAAA
585 AACTTTAAGGTCAAGTTTTTTAAAGACTTTCCATACTCCAACTAATGTACTTAGCAACATTGAAA
* *
12044464 TGAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAGTATCGTTTTTTTTTTTAATTTATGTTA
650 TGAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAGTAT--TATTTTTTTTTAATTTACGTTA
* *
12044529 GACTGAAAATAGT
713 GACTGAGAACAGT
*
12044542 TTAAATGACCTGGCAACGAAGTTGAAGGCCATTTTAGTGGATAAGGCTTTAGCAAAATTGATGAA
1 TTAAATGACCTGGCAACAAAGTTGAAGGCCATTTTAGTGGATAAGGCTTTAGCAAAATTGATGAA
* * *
12044607 AGAATAGGTCGACCTGAAACTAAATAATGTTCAGGCTGAAATTATAAGGTTGAGGTCCAAGCTGA
66 AGAATAGGTCGACCTGAAACTAAATAATGTCCAGGCTGAAATTGTAAGGTTGAGGTCCGAGCTGA
* * *
12044672 AAGTTCAAGATAAAAGAGAGGAAAAACTACGAGTAAAGGCTATGAAAGAGTACAAAGCCTCTAAT
131 AAGTTCAAGATAAAAGGGAGGAAAAACTACGAGTGAAGGCTATGAAAGAGTACAAAGCCTCCAAT
* *
12044737 GAGTGTCTCCAGGTGAAGGTAAAGTTTAAAAAAAAAAATGTATTTATGTCGTCTAATTGGCTAAA
196 GAGTGTCTCCAGGTGAAGGTAAAG-TT-AAAAAAAAAATGTATTTGTGTCTTCTAATTGGCTAAA
* *
12044802 GAAGAGGTGTAGTTCAAATTTTTCTATCTGAATCTTGATCTCTTTGATATTGATATCAACAATAT
259 GAAGAGGTGTAGTTCAAATTCTCCTATCTGAATCTTGATCTCTTTGATATTGATATCAACAATAT
* * * *
12044867 TAAATCGAGGTCTGTTCTAAATCAACATGAGAAATATGAGAAAGAATAAGAGAAAAATAAGGATA
324 TAAATCGAGGTCTGTTCTAAATCAGCATGAGAAATATGAGAAAGAATAGGAGAAAAATGAGGATG
* *
12044932 AGACCTTACAAAAAAAAGTTGAAAGCTACCAT-AGGGACAAAAAAAGAAAACGTGGAAGTTGTTG
389 AGACCTTACAAAAAAAAGTTGAAAGCTACCATGA-GGACAAAGAAAGAAAACGTGAAAGTTGTTG
* * *
12044996 AAGCTGAGGTC-TTCTTCCCACTGCCACTGATGAGAGTACTCCTCTCATTGTTGCTACTGTTATT
453 AAGCTGAGGTCGTTCCTCCCACTGCCACTGATGAGAGTACTCCTCTCATTGCTGCTACTGCTATT
12045060 GATGAATGAATTTGATGGTTTTTTTTAATTTTTGTTTTTGATTTTATAGACCTTTTGTAAATTTT
518 GATGAATGAATTTGATGGTTTTTTTTAATTTTTGTTTTTGATTTTATAGACCTTTTGTAAATTTT
12045125 TTAACTTTAAGGTC-AGATTTTTTAAAGACTTTCCATACTCCAACTAATGTACTTAGCAACATTG
583 TTAACTTTAAGGTCAAG-TTTTTTAAAGACTTTCCATACTCCAACTAATGTACTTAGCAACATTG
* *
12045189 AAATGAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAATATAATTTTTTTTTTAATTTACGT
647 AAATGAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAGTATTA-TTTTTTTTTAATTTACGT
12045254 TAGACTGAGAACAGT
711 TAGACTGAGAACAGT
**
12045269 TTAAATGACCTGGCAATGAAGTTGAAGGCCATTTTAGTGGATAAGGCTTTAGCAAAATTGATGAA
1 TTAAATGACCTGGCAACAAAGTTGAAGGCCATTTTAGTGGATAAGGCTTTAGCAAAATTGATGAA
12045334 AGAATAGGTCGACCTGAAACTAAATAATGTCCAGGCTGAAATTGTAAGGTTGAGGTCCGAGCTGA
66 AGAATAGGTCGACCTGAAACTAAATAATGTCCAGGCTGAAATTGTAAGGTTGAGGTCCGAGCTGA
*
12045399 AAGTTCAAGATAAAAGGAAGGAAAAACTACGAGTGAAGGCTATGAAAGAGTACAAAGCCTCCAAT
131 AAGTTCAAGATAAAAGGGAGGAAAAACTACGAGTGAAGGCTATGAAAGAGTACAAAGCCTCCAAT
*
12045464 GAGTGTCTCCAGGTGAAGGTAAAGTTTAAAAAAAAATGTATTTGTGTCTTCTAATTGGCTAAAGA
196 GAGTGTCTCCAGGTGAAGGTAAAGTTAAAAAAAAAATGTATTTGTGTCTTCTAATTGGCTAAAGA
* *
12045529 AGAGGGGTAGTTCAAATTCTCCTATATGAATCTTGATCTCTTTGATATTGATATCAACAATATTA
261 AGAGGTGTAGTTCAAATTCTCCTATCTGAATCTTGATCTCTTTGATATTGATATCAACAATATTA
* * *
12045594 AATCGAGGTCTCTTCTAAATTAGCATGAGAAATATGAGAAAGAATAGGAGAAAAATGAAGATGAG
326 AATCGAGGTCTGTTCTAAATCAGCATGAGAAATATGAGAAAGAATAGGAGAAAAATGAGGATGAG
* *
12045659 ACCTTACAAAAAAAA-TTGAAAGCTACCATGGGGACAAAGAAAGAAAATGTGAAAGTTGTTGAAG
391 ACCTTACAAAAAAAAGTTGAAAGCTACCATGAGGACAAAGAAAGAAAACGTGAAAGTTGTTGAAG
* *
12045723 CTGAGGTCGTTCCTCTCACTGCCACTGATGAGAGTACTCTTCTCATTGCTGCTACTGCTATTGAT
456 CTGAGGTCGTTCCTCCCACTGCCACTGATGAGAGTACTCCTCTCATTGCTGCTACTGCTATTGAT
*
12045788 GAATGAATTTGATGGTTTTTTTTTTTTAATTTTTGTTTTTGATTTTATAGACTTTTTGTAAATTT
521 GAATGAATTTGATGG----TTTTTTTTAATTTTTGTTTTTGATTTTATAGACCTTTTGTAAATTT
* *
12045853 TTTAACTTTAAGGTCAGGTTTTTCAAAGACTTTCCATACTCCAACTAATGTACTTAGCAACATTG
582 TTTAACTTTAAGGTCAAGTTTTTTAAAGACTTTCCATACTCCAACTAATGTACTTAGCAACATTG
* *
12045918 AAATGAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAGTATCATTTTTTTTTAATTTACATT
647 AAATGAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAGTATTATTTTTTTTTAATTTACGTT
12045983 AGACTGAGAACAGT
712 AGACTGAGAACAGT
12045997 TTA
1 TTA
12046000 CCTATCTAAA
Statistics
Matches: 2042, Mismatches: 124, Indels: 35
0.93 0.06 0.02
Matches are distributed among these distances:
723 218 0.11
724 180 0.09
725 398 0.19
726 140 0.07
727 243 0.12
728 418 0.20
729 220 0.11
730 225 0.11
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (725 bp):
TTAAATGACCTGGCAACAAAGTTGAAGGCCATTTTAGTGGATAAGGCTTTAGCAAAATTGATGAA
AGAATAGGTCGACCTGAAACTAAATAATGTCCAGGCTGAAATTGTAAGGTTGAGGTCCGAGCTGA
AAGTTCAAGATAAAAGGGAGGAAAAACTACGAGTGAAGGCTATGAAAGAGTACAAAGCCTCCAAT
GAGTGTCTCCAGGTGAAGGTAAAGTTAAAAAAAAAATGTATTTGTGTCTTCTAATTGGCTAAAGA
AGAGGTGTAGTTCAAATTCTCCTATCTGAATCTTGATCTCTTTGATATTGATATCAACAATATTA
AATCGAGGTCTGTTCTAAATCAGCATGAGAAATATGAGAAAGAATAGGAGAAAAATGAGGATGAG
ACCTTACAAAAAAAAGTTGAAAGCTACCATGAGGACAAAGAAAGAAAACGTGAAAGTTGTTGAAG
CTGAGGTCGTTCCTCCCACTGCCACTGATGAGAGTACTCCTCTCATTGCTGCTACTGCTATTGAT
GAATGAATTTGATGGTTTTTTTTAATTTTTGTTTTTGATTTTATAGACCTTTTGTAAATTTTTTA
ACTTTAAGGTCAAGTTTTTTAAAGACTTTCCATACTCCAACTAATGTACTTAGCAACATTGAAAT
GAAAAAGAGAGTTTTCTAAGTTTTAGCTTGATTTTAGTATTATTTTTTTTTAATTTACGTTAGAC
TGAGAACAGT
Found at i:12054085 original size:19 final size:19
Alignment explanation
Indices: 12054063--12054101 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12054053 TGAAAGAAAT
*
12054063 TTAAAAATAAATTAA-AAAA
1 TTAAAAA-AAAGTAATAAAA
12054082 TTAAAAAAAAGTAATAAAA
1 TTAAAAAAAAGTAATAAAA
12054101 T
1 T
12054102 AATGTGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
TTAAAAAAAAGTAATAAAA
Found at i:12056335 original size:33 final size:30
Alignment explanation
Indices: 12056298--12056398 Score: 95
Period size: 33 Copynumber: 3.4 Consensus size: 30
12056288 TTTTGGTTCA
12056298 TATATTTTTTTAAGATATTTTAAAATTATGTTT
1 TATATTTTTTT-A-ATATTTTAAAATTAT-TTT
* *
12056331 TATATTTTTTGAACA-TTT-AAA--ATTTT
1 TATATTTTTTTAATATTTTAAAATTATTTT
*
12056357 TAT-TTTTTTTTATATTTTAAAATTATATTT
1 TATATTTTTTTAATATTTTAAAATTAT-TTT
12056387 TATGATTTTTTT
1 TAT-ATTTTTTT
12056399 TTTACTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
25 8 0.14
26 9 0.16
27 5 0.09
29 5 0.09
30 9 0.16
31 2 0.04
32 8 0.14
33 10 0.18
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (30 bp):
TATATTTTTTTAATATTTTAAAATTATTTT
Found at i:12063781 original size:25 final size:25
Alignment explanation
Indices: 12063744--12063792 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
12063734 TTTCAGCAAA
* *
12063744 CCTTGCAACTCCATCTAAAGACTTT
1 CCTTACAACTCCATATAAAGACTTT
*
12063769 CCTTACAATTCCATATAAAGACTT
1 CCTTACAACTCCATATAAAGACTT
12063793 GCTTTTTCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
CCTTACAACTCCATATAAAGACTTT
Found at i:12066145 original size:22 final size:22
Alignment explanation
Indices: 12066117--12066160 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12066107 CTAAATCTTC
*
12066117 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12066139 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12066161 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12069811 original size:22 final size:24
Alignment explanation
Indices: 12069758--12069815 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
12069748 AAAGGGTTTG
* *
12069758 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACA-GAGTCA
12069783 GCAATGAAGGCCTAAA-A-AGTCA
1 GCAATGAAGGCCTAAACAGAGTCA
12069805 GCAATGAAGGC
1 GCAATGAAGGC
12069816 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 14 0.45
24 1 0.03
25 16 0.52
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.14
Consensus pattern (24 bp):
GCAATGAAGGCCTAAACAGAGTCA
Found at i:12069991 original size:22 final size:22
Alignment explanation
Indices: 12069963--12070006 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12069953 CTAAATCTTC
*
12069963 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12069985 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12070007 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Done.