Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 35 of 290
Found at i:11269534 original size:19 final size:18
Alignment explanation
Indices: 11269512--11269552 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
11269502 CCAAAAGAAA
*
11269512 AAAAATAAAAAAATATGTT
1 AAAAATAAAAAAAAAT-TT
11269531 AAAAATAAAAAAAAATTT
1 AAAAATAAAAAAAAATTT
11269549 AAAA
1 AAAA
11269553 TTAATCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAATAAAAAAAAATTT
Found at i:11273770 original size:43 final size:43
Alignment explanation
Indices: 11273705--11273840 Score: 218
Period size: 43 Copynumber: 3.2 Consensus size: 43
11273695 TATCATTATT
* * * *
11273705 TTTAGCGGCGTTTGTGAGAAAAGTGCTGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
11273748 TTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
11273791 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
11273834 TTTAGCG
1 TTTAGCG
11273841 ACTTTTTTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:11274183 original size:26 final size:26
Alignment explanation
Indices: 11274140--11274202 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
11274130 TATTAGTATT
* *
11274140 ATTATG-A-ATATTTATTTTTTAAAC
1 ATTATGTATATATATATTTTATAAAC
**
11274164 ATTATGTATATATATATTTTATGTAC
1 ATTATGTATATATATATTTTATAAAC
11274190 ATTATGTATATAT
1 ATTATGTATATAT
11274203 TTTAATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 6 0.18
25 1 0.03
26 26 0.79
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (26 bp):
ATTATGTATATATATATTTTATAAAC
Found at i:11274216 original size:21 final size:22
Alignment explanation
Indices: 11274174--11274225 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
11274164 ATTATGTATA
*
11274174 TATATATTTTATGTACATTATG
1 TATATATTTTATATACATTATG
*
11274196 TATATATTTTA-ATATATTATG
1 TATATATTTTATATACATTATG
**
11274217 CGTATATTT
1 TATATATTT
11274226 CGTTTTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (22 bp):
TATATATTTTATATACATTATG
Found at i:11274306 original size:7 final size:6
Alignment explanation
Indices: 11274279--11274304 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11274269 TATTATATAC
11274279 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
11274305 TAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:11281825 original size:19 final size:19
Alignment explanation
Indices: 11281803--11281849 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
11281793 AGCAAATTAG
11281803 TCCTTTCTGTTCAAAATCA
1 TCCTTTCTGTTCAAAATCA
11281822 TCCTTTCTGTTCAAAATCA
1 TCCTTTCTGTTCAAAATCA
11281841 TCCGTTTCT
1 TCC-TTTCT
11281850 ATCATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.21, C:0.28, G:0.06, T:0.45
Consensus pattern (19 bp):
TCCTTTCTGTTCAAAATCA
Found at i:11283928 original size:31 final size:30
Alignment explanation
Indices: 11283893--11283957 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
11283883 GTTGTTATAT
* * *
11283893 ACATGAAAATTTCATTTTGCTTTGGTGGTAA
1 ACATGAAAATTTAATTTTGATTTAGT-GTAA
* *
11283924 ACATGATATTTTAATTTTGATTTAGTGTAA
1 ACATGAAAATTTAATTTTGATTTAGTGTAA
11283954 ACAT
1 ACAT
11283958 TTTAAGAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (30 bp):
ACATGAAAATTTAATTTTGATTTAGTGTAA
Found at i:11284629 original size:20 final size:20
Alignment explanation
Indices: 11284586--11284628 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
11284576 TATACATTTC
11284586 TTTTAAAAAAAAACACACAA
1 TTTTAAAAAAAAACACACAA
11284606 TTTTAAAAAAAAACACAC-A
1 TTTTAAAAAAAAACACACAA
11284625 TTTT
1 TTTT
11284629 TCTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (20 bp):
TTTTAAAAAAAAACACACAA
Found at i:11285831 original size:17 final size:17
Alignment explanation
Indices: 11285801--11285834 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11285791 CTTCAACGAA
*
11285801 TTAGACAAATAAAAAAG
1 TTAGACAAAAAAAAAAG
*
11285818 TTAGAGAAAAAAAAAAG
1 TTAGACAAAAAAAAAAG
11285835 ACATGTCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.15
Consensus pattern (17 bp):
TTAGACAAAAAAAAAAG
Found at i:11289845 original size:19 final size:20
Alignment explanation
Indices: 11289811--11289857 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
11289801 AGTTTTAGTC
*
11289811 TCAAGTTTTGATTCTCAGGT
1 TCAATTTTTGATTCTCAGGT
*
11289831 TCAATTTTTGA-TCTCGGGT
1 TCAATTTTTGATTCTCAGGT
*
11289850 CCAATTTT
1 TCAATTTT
11289858 CAAGTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (20 bp):
TCAATTTTTGATTCTCAGGT
Found at i:11291247 original size:15 final size:15
Alignment explanation
Indices: 11291227--11291257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11291217 ATTTCCCAAC
*
11291227 AACCCTATGTTTTCA
1 AACCCTATATTTTCA
11291242 AACCCTATATTTTCA
1 AACCCTATATTTTCA
11291257 A
1 A
11291258 GATATCCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (15 bp):
AACCCTATATTTTCA
Found at i:11292651 original size:27 final size:27
Alignment explanation
Indices: 11292577--11292636 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
11292567 AAGATTCAAC
* *
11292577 ATAAATAAAATAT-AA-ACAATTTGAA
1 ATAAATAACATATAAAGAAAATTTGAA
*
11292602 ATAAATAACATATAAAGAAAATTTTAA
1 ATAAATAACATATAAAGAAAATTTGAA
11292629 ATAAATAA
1 ATAAATAA
11292637 TATGCTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 12 0.40
26 2 0.07
27 16 0.53
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (27 bp):
ATAAATAACATATAAAGAAAATTTGAA
Found at i:11292862 original size:28 final size:28
Alignment explanation
Indices: 11292809--11292863 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
11292799 TATATAAAAG
*
11292809 TTTTAAAATAAAGAATATATAAAAAATA
1 TTTTAAAATAAAGAATACATAAAAAATA
*
11292837 TTTTAAAAT-AAGTAATACATAGAAAAT
1 TTTTAAAATAAAG-AATACATAAAAAAT
11292864 TCAAAACGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
TTTTAAAATAAAGAATACATAAAAAATA
Found at i:11293334 original size:3 final size:3
Alignment explanation
Indices: 11293319--11293392 Score: 64
Period size: 3 Copynumber: 25.7 Consensus size: 3
11293309 GAATATAAAT
* * *
11293319 ATA ATA CTA ATA ATA ATA AT- ATA ATA ATG ATA ATA GTA ATA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
11293364 ACA ACA ACA ACA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11293393 GTAAATAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 6 0.10
3 56 0.90
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:11293339 original size:20 final size:20
Alignment explanation
Indices: 11293316--11293392 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
11293306 CATGAATATA
*
11293316 AATATAATACTAATAATAAT
1 AATATAATAATAATAATAAT
* *
11293336 AATATAATAATGATAATAGT
1 AATATAATAATAATAATAAT
* * * * *
11293356 AATA-AAAAACAACAACAAC
1 AATATAATAATAATAATAAT
11293375 AATAATAATAATAATAAT
1 AAT-ATAATAATAATAAT
11293393 GTAAATAAAT
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
19 11 0.27
20 22 0.54
21 8 0.20
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (20 bp):
AATATAATAATAATAATAAT
Found at i:11293482 original size:3 final size:3
Alignment explanation
Indices: 11293471--11293710 Score: 95
Period size: 3 Copynumber: 80.3 Consensus size: 3
11293461 TGATGATAGC
* * * *
11293471 AAT AGT AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * * *
11293515 ACATT AAT AAG AAT AAT AAT AGT -AT ATT AAT AAT AAC AAT AAT AGAA
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
11293562 AAT AAT GAT AA- AAT AAT AAT AAT AA- AA- AACT AAGG AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT
* * * * * *
11293606 AAT ACT AAC AAT AAT -AT AAAT AAT AAT AAA AAC AAC AAG AGA- AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT
** * * * *
11293651 AGC AAC AAT AAT AGT AAT AA- GAG AAT AA- AAGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
**
11293695 AAT AGC AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
11293711 GAATTAACAA
Statistics
Matches: 175, Mismatches: 45, Indels: 34
0.69 0.18 0.13
Matches are distributed among these distances:
2 16 0.09
3 143 0.82
4 14 0.08
5 2 0.01
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:11293535 original size:23 final size:23
Alignment explanation
Indices: 11293503--11293558 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
11293493 AGTAGAAAAT
*
11293503 AATAAGAATAATACATTAATAAG
1 AATAATAATAATACATTAATAAG
* * *
11293526 AATAATAATAGTATATTAATAAT
1 AATAATAATAATACATTAATAAG
*
11293549 AACAATAATA
1 AATAATAATA
11293559 GAAAATAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (23 bp):
AATAATAATAATACATTAATAAG
Found at i:11293581 original size:14 final size:14
Alignment explanation
Indices: 11293483--11293588 Score: 68
Period size: 17 Copynumber: 6.9 Consensus size: 14
11293473 TAGTAATAAT
*
11293483 ATAATAATAAAGTA
1 ATAATAATAAAATA
*
11293497 GAAAATAATAAGAATA
1 -ATAATAATAA-AATA
11293513 ATACATTAATAAGAATA
1 ATA-A-TAATAA-AATA
*
11293530 ATAATAGTATATTAATA
1 ATAATA--ATA-AAATA
* *
11293547 ATAACAATAATAGAAA
1 ATAATAATAA-A-ATA
*
11293563 ATAATGATAAAATA
1 ATAATAATAAAATA
11293577 ATAATAATAAAA
1 ATAATAATAAAA
11293589 AACTAAGGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
14 13 0.18
15 18 0.25
16 15 0.21
17 26 0.36
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (14 bp):
ATAATAATAAAATA
Found at i:11293721 original size:18 final size:18
Alignment explanation
Indices: 11293700--11293739 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
11293690 ATAATAATAG
*
11293700 CAATAATAATAGAATTAA-
1 CAATAA-AATAAAATTAAT
11293718 CAATAAAATAAAATTAAT
1 CAATAAAATAAAATTAAT
11293736 CAAT
1 CAAT
11293740 TTTAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (18 bp):
CAATAAAATAAAATTAAT
Found at i:11293732 original size:17 final size:19
Alignment explanation
Indices: 11293683--11293753 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 19
11293673 GAATAAAAGT
*
11293683 AATAATAATAATAA-T-AGC
1 AATAATAATAA-AATTAATC
*
11293701 AATAATAATAGAATTAA-C
1 AATAATAATAAAATTAATC
11293719 AATAA-AATAAAATTAATC
1 AATAATAATAAAATTAATC
11293737 AATTTTAATAATAAAAT
1 AA---TAATAATAAAAT
11293754 AGCAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 12 0.27
18 20 0.45
19 1 0.02
21 3 0.07
22 8 0.18
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (19 bp):
AATAATAATAAAATTAATC
Found at i:11300055 original size:12 final size:12
Alignment explanation
Indices: 11300038--11300123 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 12
11300028 ATTAGGTATT
11300038 TATTTATATATA
1 TATTTATATATA
11300050 TATTTATATA-A
1 TATTTATATATA
**
11300061 TAAATA-ATAT-
1 TATTTATATATA
11300071 TATTTATAT-TA
1 TATTTATATATA
* *
11300082 T-TCTA-ATTTA
1 TATTTATATATA
11300092 -ATTT-TA-ATA
1 TATTTATATATA
11300101 TTATTTATATATA
1 -TATTTATATATA
11300114 TATTTATATA
1 TATTTATATA
11300124 ATAAATAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
9 4 0.07
10 16 0.28
11 12 0.21
12 22 0.39
13 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTTATATATA
Found at i:11300409 original size:22 final size:23
Alignment explanation
Indices: 11300375--11300423 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
11300365 TACTAACATG
*
11300375 TATATATACTATATATTTTTAT-
1 TATATATACTATACATTTTTATA
*
11300397 TATAT-TACGTATACGTTTTTATA
1 TATATATAC-TATACATTTTTATA
11300420 TATA
1 TATA
11300424 CGCTATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
TATATATACTATACATTTTTATA
Found at i:11313085 original size:42 final size:42
Alignment explanation
Indices: 11313037--11313156 Score: 197
Period size: 41 Copynumber: 2.9 Consensus size: 42
11313027 CAGCTAAAAA
11313037 CCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCAAAG
1 CCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCAAAG
* * *
11313079 CTACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAATCGAAG
1 CCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCAAAG
*
11313120 CCACAGCAGATCTCCTTGAAGTTTCAATGGAATTGAT
1 CCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGAT
11313157 TGAAGTCACG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
41 37 0.52
42 34 0.48
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (42 bp):
CCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCAAAG
Found at i:11314376 original size:44 final size:44
Alignment explanation
Indices: 11314327--11314413 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
11314317 ATCGAGATAT
11314327 TTACTCCTTTGTTGCTCGCATTTTCAAATTAATCCCCTTTTTCC
1 TTACTCCTTTGTTGCTCGCATTTTCAAATTAATCCCCTTTTTCC
*
11314371 TTACTCCTTTGTTGCTCGCGTTTTCAAATTAATCCCCTTTTTC
1 TTACTCCTTTGTTGCTCGCATTTTCAAATTAATCCCCTTTTTC
11314414 ATTTTTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.15, C:0.29, G:0.08, T:0.48
Consensus pattern (44 bp):
TTACTCCTTTGTTGCTCGCATTTTCAAATTAATCCCCTTTTTCC
Found at i:11315096 original size:22 final size:21
Alignment explanation
Indices: 11315069--11315122 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
11315059 ATTACTAACA
*
11315069 TTTATATATAC-TATATATTTT
1 TTTATATATACGTATA-AGTTT
*
11315090 TATTATAT-TACGTATACGTTT
1 T-TTATATATACGTATAAGTTT
11315111 TTTATATATACG
1 TTTATATATACG
11315123 CTATGCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 6 0.21
21 12 0.43
22 10 0.36
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (21 bp):
TTTATATATACGTATAAGTTT
Found at i:11316445 original size:1 final size:1
Alignment explanation
Indices: 11316439--11316469 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
11316429 TCACTCTTTC
11316439 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11316470 AAGTTTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11318715 original size:3 final size:3
Alignment explanation
Indices: 11318707--11318731 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11318697 AGTAAATTAA
11318707 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
11318732 GGATATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11325657 original size:42 final size:43
Alignment explanation
Indices: 11325599--11325701 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
11325589 ATTGATTTGA
11325599 GATTTACGTGTAAGACCATGCCTAAGACA-TCGGCATCG-TATTT
1 GATTT-CGTGTAAGACCATGCCTAAGACAGT-GGCATCGATATTT
* * **
11325642 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTT
1 GATTTCGTGTAAGACCATGCCTAAGACAGTGGCATCGATATTT
* *
11325685 GATTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
11325702 CGTCTGAGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
42 26 0.51
43 25 0.49
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGCCTAAGACAGTGGCATCGATATTT
Found at i:11325718 original size:43 final size:43
Alignment explanation
Indices: 11325549--11325719 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 43
11325539 TAGGATTTTT
* ** * * *
11325549 GATATTTGATTTCATGTAAGAAAACATCTGGGACATTGGCATT
1 GATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCATC
* * * * * *
11325592 GAT-TTGAGATTTACGTGTAAGACCATGCCTAAGACATCGGCATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGAGACATTGGCATC
* * * *
11325636 G-TATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATC
1 GATATTTGATTACATGTAAGACCAC-GTCTGAGACATTGGCATC
*
11325678 GATATTTGATTACATGTAAGACCACGTCTGAGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCAT
11325720 TGTAAGAGCT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
42 29 0.30
43 41 0.42
44 27 0.28
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGAGACATTGGCATC
Found at i:11330613 original size:27 final size:27
Alignment explanation
Indices: 11330567--11330619 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
11330557 AAGCTCTTTA
*
11330567 AGTGTAATGGGAAGCTTAATTTGACAT
1 AGTGTAATGGGAAGCCTAATTTGACAT
*
11330594 AGTGTAATGGGGAGCCTAATTTGACA
1 AGTGTAATGGGAAGCCTAATTTGACA
11330620 CGACAGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.30
Consensus pattern (27 bp):
AGTGTAATGGGAAGCCTAATTTGACAT
Found at i:11334049 original size:38 final size:37
Alignment explanation
Indices: 11334007--11334107 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 37
11333997 TATTGGTTGA
11334007 ATGCCTATTGTCACTATTGAATTGAATACATGTTAAAC
1 ATGCCTATTGTCACTATTGAATT-AATACATGTTAAAC
* * * *
11334045 ATGCCTACTATTACTATTGAACTTAATACATGTTAAGC
1 ATGCCTATTGTCACTATTGAA-TTAATACATGTTAAAC
* *
11334083 ATGCCAATTG-CTACTGTTGAATTAA
1 ATGCCTATTGTC-ACTATTGAATTAA
11334108 ACTTTGCTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
37 4 0.08
38 46 0.88
39 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (37 bp):
ATGCCTATTGTCACTATTGAATTAATACATGTTAAAC
Found at i:11337414 original size:22 final size:23
Alignment explanation
Indices: 11337372--11337424 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
11337362 TGTAATTTTA
*
11337372 TAAAATAAAAAATTATTTAAAAT
1 TAAAATAAAAAATTATATAAAAT
11337395 TAAAA-AAAAAACTT-TATAAAAATT
1 TAAAATAAAAAA-TTATAT-AAAA-T
11337419 TAAAAT
1 TAAAAT
11337425 TTTATAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
22 8 0.32
23 11 0.44
24 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAATAAAAAATTATATAAAAT
Found at i:11337433 original size:17 final size:18
Alignment explanation
Indices: 11337401--11337443 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11337391 AAATTAAAAA
* *
11337401 AAAAACTTTATAAAAATT
1 AAAAATTTTATAAAAAGT
*
11337419 TAAAATTTTAT-AAAAGT
1 AAAAATTTTATAAAAAGT
11337436 AAAAATTT
1 AAAAATTT
11337444 CTGAAAAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAAATTTTATAAAAAGT
Found at i:11340768 original size:12 final size:12
Alignment explanation
Indices: 11340751--11340782 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11340741 CTACTACATA
*
11340751 TATTATTCTCAT
1 TATTATTATCAT
11340763 TATTATTATCAT
1 TATTATTATCAT
11340775 TATTATTA
1 TATTATTA
11340783 CTATCATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTATCAT
Found at i:11343910 original size:29 final size:29
Alignment explanation
Indices: 11343876--11343933 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
11343866 TTGAATAATA
* *
11343876 GAGTGACCATTTTGTAACTTTTCATAGTT
1 GAGTGACAATTTTATAACTTTTCATAGTT
11343905 GAGTGACAATTTTATAACTTTTCATAGTT
1 GAGTGACAATTTTATAACTTTTCATAGTT
11343934 AAATAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.45
Consensus pattern (29 bp):
GAGTGACAATTTTATAACTTTTCATAGTT
Found at i:11343942 original size:29 final size:29
Alignment explanation
Indices: 11343884--11343942 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
11343874 TAGAGTGACC
* * * *
11343884 ATTTTGTAACTTTTCATAGTTGAGTGACA
1 ATTTTATAACTTTTCATAGTTAAATAACA
11343913 ATTTTATAACTTTTCATAGTTAAATAACA
1 ATTTTATAACTTTTCATAGTTAAATAACA
11343942 A
1 A
11343943 AAAGAGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (29 bp):
ATTTTATAACTTTTCATAGTTAAATAACA
Found at i:11346082 original size:22 final size:22
Alignment explanation
Indices: 11346054--11346097 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11346044 GCATTTATAT
11346054 TTTTTATAT-TTTGATAAATTTA
1 TTTTTATATCTTT-ATAAATTTA
*
11346076 TTTTTATATCTTTATACATTTA
1 TTTTTATATCTTTATAAATTTA
11346098 ATGACAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTTATATCTTTATAAATTTA
Found at i:11346844 original size:13 final size:13
Alignment explanation
Indices: 11346837--11346867 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
11346827 AATAATAATT
11346837 AAATATAAAATAA
1 AAATATAAAATAA
11346850 AAATATAAAATAA
1 AAATATAAAATAA
11346863 AAATA
1 AAATA
11346868 AGGAATCGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATATAAAATAA
Found at i:11346862 original size:18 final size:18
Alignment explanation
Indices: 11346827--11346864 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11346817 TCACCAATTC
*
11346827 AATAATAATTAAATATAA
1 AATAAAAATTAAATATAA
11346845 AATAAAAATATAAA-ATAA
1 AATAAAAAT-TAAATATAA
11346863 AA
1 AA
11346865 ATAAGGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAAAATTAAATATAA
Found at i:11348339 original size:30 final size:30
Alignment explanation
Indices: 11348305--11348362 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
11348295 TTTTATTATT
11348305 AATTTTGTTATTATTTTAAAGGCATTTGTC
1 AATTTTGTTATTATTTTAAAGGCATTTGTC
*
11348335 AATTTTGTTATTATTTTAGAGGCATTTG
1 AATTTTGTTATTATTTTAAAGGCATTTG
11348363 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGGCATTTGTC
Found at i:11351120 original size:21 final size:21
Alignment explanation
Indices: 11351062--11351176 Score: 106
Period size: 21 Copynumber: 5.5 Consensus size: 21
11351052 CGTGTTTTAC
* *
11351062 TTTCTGTTTAGCTCGTAAGAG
1 TTTCTGTTCAGCTCTTAAGAG
* * *
11351083 CTTT-TGTTTAACTCTTATGAG
1 -TTTCTGTTCAGCTCTTAAGAG
* *
11351104 TTTCTATTCAGCTCTTACGAG
1 TTTCTGTTCAGCTCTTAAGAG
* *
11351125 CTTCTGTTCAACTCTTAAGAG
1 TTTCTGTTCAGCTCTTAAGAG
* *
11351146 TTTCTGTTCAGCTCTGACGAG
1 TTTCTGTTCAGCTCTTAAGAG
*
11351167 CTTCTGTTCA
1 TTTCTGTTCA
11351177 ACTTTCGAGC
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
20 3 0.04
21 70 0.92
22 3 0.04
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.43
Consensus pattern (21 bp):
TTTCTGTTCAGCTCTTAAGAG
Found at i:11351187 original size:19 final size:20
Alignment explanation
Indices: 11351080--11351214 Score: 94
Period size: 21 Copynumber: 6.5 Consensus size: 20
11351070 TAGCTCGTAA
* * *
11351080 GAGCTTTTGTTTAACTCTTAT
1 GAGCTTCTGTTCAACTCTT-C
* * *
11351101 GAGTTTCTATTCAGCTCTTAC
1 GAGCTTCTGTTCAACTCTT-C
*
11351122 GAGCTTCTGTTCAACTCTTAA
1 GAGCTTCTGTTCAACTCTT-C
* * *
11351143 GAGTTTCTGTTCAGCTCTGAC
1 GAGCTTCTGTTCAACTCT-TC
11351164 GAGCTTCTGTTCAACT-TTC
1 GAGCTTCTGTTCAACTCTTC
* *
11351183 GAGCTT-TAGTTCAGCTCTTTT
1 GAGCTTCT-GTTCAACTC-TTC
11351204 GAGCTTCTGTT
1 GAGCTTCTGTT
11351215 AACCCTTATG
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
18 1 0.01
19 14 0.16
20 1 0.01
21 73 0.81
22 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (20 bp):
GAGCTTCTGTTCAACTCTTC
Found at i:11351242 original size:41 final size:41
Alignment explanation
Indices: 11351062--11351297 Score: 149
Period size: 42 Copynumber: 5.7 Consensus size: 41
11351052 CGTGTTTTAC
* * ** * * *
11351062 TTTCTGTTTAGCTCGTAAGAGCTTTTGTTTAACTCTTATGAG
1 TTTCTGTTCAGCTCTTTTGAGCTTCTG-TTAACCCTTATGGG
* ** * * *
11351104 TTTCTATTCAGCTCTTACGAGCTTCTGTTCAACTCTTAAGAG
1 TTTCTGTTCAGCTCTTTTGAGCTTCTGTT-AACCCTTATGGG
*** *
11351146 TTTCTGTTCAGCTCTGACGAGCTTCTGTTCAA--CTT-TCGAGC
1 TTTCTGTTCAGCTCTTTTGAGCTTCTGTT-AACCCTTAT-G-GG
*
11351187 TTT-AGTTCAGCTCTTTTGAGCTTCTGTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTTTTGAGCTTCTGTTAACCCTTATGGG
* * *
11351227 TTT-TCGTTCAGCTCTTTTAAGCTTCTATTTGACCCTTATGGG
1 TTTCT-GTTCAGCTCTTTTGAGCTTCT-GTTAACCCTTATGGG
* ** *
11351269 TTTCTGTTTAGCTCTCATGAGTTTCTGTT
1 TTTCTGTTCAGCTCTTTTGAGCTTCTGTT
11351298 TAGCCTCCGA
Statistics
Matches: 159, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.01
40 29 0.18
41 31 0.19
42 96 0.60
43 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (41 bp):
TTTCTGTTCAGCTCTTTTGAGCTTCTGTTAACCCTTATGGG
Found at i:11351283 original size:42 final size:41
Alignment explanation
Indices: 11351191--11351271 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
11351181 TCGAGCTTTA
*
11351191 GTTCAGCTCTTTTGAGCTTCTGTTAACCCTTATGGGTTTTC
1 GTTCAGCTCTTTTAAGCTTCTGTTAACCCTTATGGGTTTTC
* *
11351232 GTTCAGCTCTTTTAAGCTTCTATTTGACCCTTATGGGTTT
1 GTTCAGCTCTTTTAAGCTTCT-GTTAACCCTTATGGGTTT
11351272 CTGTTTAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 20 0.56
42 16 0.44
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (41 bp):
GTTCAGCTCTTTTAAGCTTCTGTTAACCCTTATGGGTTTTC
Found at i:11358862 original size:17 final size:18
Alignment explanation
Indices: 11358837--11358876 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11358827 TGTTTTTAGG
* *
11358837 AAAATCATTGTTTGC-AT
1 AAAACCATTGTTTCCAAT
11358854 AAAACCATTGTTTCCAAT
1 AAAACCATTGTTTCCAAT
11358872 AAAAC
1 AAAAC
11358877 GTTTTACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (18 bp):
AAAACCATTGTTTCCAAT
Found at i:11360306 original size:6 final size:6
Alignment explanation
Indices: 11360295--11360328 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
11360285 CTTATTATTT
*
11360295 ATTTTG ATTTTG ATTTT- ATTTTG ATTTTT ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
11360329 TTTGCATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (6 bp):
ATTTTG
Found at i:11360312 original size:17 final size:17
Alignment explanation
Indices: 11360292--11360328 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
11360282 TTACTTATTA
11360292 TTTATTTTGATTTTGAT
1 TTTATTTTGATTTTGAT
*
11360309 TTTATTTTGATTTTTAT
1 TTTATTTTGATTTTGAT
11360326 TTT
1 TTT
11360329 TTTGCATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTATTTTGATTTTGAT
Found at i:11360323 original size:12 final size:12
Alignment explanation
Indices: 11360295--11360328 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11360285 CTTATTATTT
*
11360295 ATTTTGATTTTG
1 ATTTTTATTTTG
11360307 A-TTTTATTTTG
1 ATTTTTATTTTG
11360318 ATTTTTATTTT
1 ATTTTTATTTT
11360329 TTTGCATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (12 bp):
ATTTTTATTTTG
Found at i:11362216 original size:20 final size:20
Alignment explanation
Indices: 11362191--11362228 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11362181 TTGTATAGGA
*
11362191 TTGCACTTTGGTCCCTCTAT
1 TTGCACATTGGTCCCTCTAT
*
11362211 TTGCACATTGGTTCCTCT
1 TTGCACATTGGTCCCTCT
11362229 GTTAGCAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.29, G:0.16, T:0.45
Consensus pattern (20 bp):
TTGCACATTGGTCCCTCTAT
Found at i:11368683 original size:22 final size:22
Alignment explanation
Indices: 11368658--11368702 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
11368648 AGCCCATGTA
*
11368658 AAGAGGGGCATAC-GCTCGTGTG
1 AAGAGGGGCACACGGC-CGTGTG
11368680 AAGAGGGGCACACGGCCGTGTG
1 AAGAGGGGCACACGGCCGTGTG
11368702 A
1 A
11368703 CTAAGGTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.24, C:0.20, G:0.42, T:0.13
Consensus pattern (22 bp):
AAGAGGGGCACACGGCCGTGTG
Found at i:11370455 original size:27 final size:27
Alignment explanation
Indices: 11370417--11370480 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
11370407 GACTCAGTTT
* *
11370417 GTAAAATTACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
11370444 GTAAAATGACCGTAATACCCTTGTATG
1 GTAAAATGACCGTAATACCCCTGTAGG
11370471 GTAAAATGAC
1 GTAAAATGAC
11370481 GATTATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:11373312 original size:20 final size:20
Alignment explanation
Indices: 11373287--11373325 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11373277 CCTATAGTGT
11373287 AGACAAGCCACCAGTAATGC
1 AGACAAGCCACCAGTAATGC
* *
11373307 AGACAAGCTACGAGTAATG
1 AGACAAGCCACCAGTAATG
11373326 TGATAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.13
Consensus pattern (20 bp):
AGACAAGCCACCAGTAATGC
Found at i:11380970 original size:22 final size:23
Alignment explanation
Indices: 11380921--11380970 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
11380911 AATTTCGTAG
11380921 ACCAAAATCGTTGTTTTAATAAA
1 ACCAAAATCGTTGTTTTAATAAA
11380944 A-CAAAAT-GTT-TTATTAA-AATA
1 ACCAAAATCGTTGTT-TTAATAA-A
11380965 ACCAAA
1 ACCAAA
11380971 TTTCTAGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 10 0.42
23 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (23 bp):
ACCAAAATCGTTGTTTTAATAAA
Found at i:11383923 original size:19 final size:19
Alignment explanation
Indices: 11383901--11383937 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11383891 TTGCATTCAT
* *
11383901 TCATTTGCATTACATTTCG
1 TCATATGCATTAAATTTCG
11383920 TCATATGCATTAAATTTC
1 TCATATGCATTAAATTTC
11383938 ACGAAAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (19 bp):
TCATATGCATTAAATTTCG
Found at i:11385089 original size:17 final size:16
Alignment explanation
Indices: 11385040--11385095 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
11385030 ATAGGAAATT
*
11385040 TTATTTTAAGTTTAT-
1 TTATTTTAATTTTATA
*
11385055 TTATTTTTAATTAT-TA
1 TTA-TTTTAATTTTATA
11385071 TTATTTTAGATTTTATA
1 TTATTTTA-ATTTTATA
11385088 TTAATTTT
1 TT-ATTTT
11385096 CTTAAGTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 9 0.27
16 15 0.45
17 4 0.12
18 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TTATTTTAATTTTATA
Found at i:11389177 original size:17 final size:17
Alignment explanation
Indices: 11389138--11389185 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
11389128 TAAACCCAAT
*
11389138 TAAATCCAATACCCACA
1 TAAACCCAATACCCACA
* *
11389155 TAAACCCAATACCTATA
1 TAAACCCAATACCCACA
*
11389172 TGAACCCAA-ACCCA
1 TAAACCCAATACCCA
11389186 AATCATCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (17 bp):
TAAACCCAATACCCACA
Found at i:11389553 original size:22 final size:22
Alignment explanation
Indices: 11389528--11389569 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11389518 CCGAACACCA
11389528 CCATCACACCCCTTAGCCGACC
1 CCATCACACCCCTTAGCCGACC
* * *
11389550 CCATCCCACGCCTTCGCCGA
1 CCATCACACCCCTTAGCCGA
11389570 TCCAATCGCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.55, G:0.12, T:0.14
Consensus pattern (22 bp):
CCATCACACCCCTTAGCCGACC
Found at i:11392381 original size:17 final size:16
Alignment explanation
Indices: 11392333--11392387 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
11392323 TAGGAAATTC
*
11392333 TATTTTAAGTTTAT-T
1 TATTTTAATTTTATAT
*
11392348 TATTTTTAATTAT-TAT
1 TA-TTTTAATTTTATAT
11392364 TATTTTAGATTTTATAT
1 TATTTTA-ATTTTATAT
11392381 TAATTTT
1 T-ATTTT
11392388 CTTAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 4 0.12
18 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTTAATTTTATAT
Found at i:11401964 original size:106 final size:106
Alignment explanation
Indices: 11401771--11401973 Score: 354
Period size: 106 Copynumber: 1.9 Consensus size: 106
11401761 AAAGTTGTAG
* *
11401771 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
1 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCGCTCTAAAGTTGCGGTAGAGCAGATCAAA
*
11401836 ACAAATTTTATCTTCCTAAAGTTGCAGAGGAGCAGACAAAA
66 ACAAATTTTATCTTCCTAAAGTTACAGAGGAGCAGACAAAA
11401877 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCGCTCTAAAGTTGCGGTAGAGCAGATCAAA
1 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCGCTCTAAAGTTGCGGTAGAGCAGATCAAA
*
11401942 ACAAATTTTATC-TCCTTGAAGTTACAGAGGAG
66 ACAAATTTTATCTTCC-TAAAGTTACAGAGGAG
11401974 AAGATGAAAG
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
105 3 0.03
106 89 0.97
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (106 bp):
TGGAACAGATTGAAGCTATAAACTACAGATCTCATCGCTCTAAAGTTGCGGTAGAGCAGATCAAA
ACAAATTTTATCTTCCTAAAGTTACAGAGGAGCAGACAAAA
Found at i:11401999 original size:44 final size:44
Alignment explanation
Indices: 11401944--11402335 Score: 253
Period size: 44 Copynumber: 8.8 Consensus size: 44
11401934 AGATCAAAAC
* * * * *
11401944 AAATTTTATCTCCTTGAAGTTACAGAGGAGAAGATGAAAGATAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGATAT
* * * * *
11401988 GAATCTTATCTCCCTAAAGTTGCGGTGGAGAAGACTG-AAGATGAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAAGAT-AT
* *
11402033 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTG-AAGCTATAAATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAAG--AT--A-T
* * * * *
11402082 ATAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGAT-CAA-A-AT
1 A-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGATAT
* * *
11402125 AAATCGTATCTCCCTGAAGTTGCAGAGGAGCATATGAAAGATAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGATAT
* * *
11402169 GAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTGAGA-ATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAAGATA-T
* * * * **
11402214 AAATCTTAACTCCTTAAAGTTGCCA-AGGAGCAGATGAAAGCCAT
1 AAATCTTATCTCCCTGAAGTTG-CAGTGGAGCAGATGAAAGATAT
* * * *
11402258 -TATCCTTATCTCCCCGAAGTTGCAGTGGAGTGAGTTGAAA-ATAT
1 AAAT-CTTATCTCCCTGAAGTTGCAGTGGAG-CAGATGAAAGATAT
* * * *
11402302 GAGTCTCATCTCCTTGAAGTTGCAGTGGAGCAGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
11402336 CTGGAGTGGG
Statistics
Matches: 265, Mismatches: 63, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
41 26 0.10
42 3 0.01
43 9 0.03
44 115 0.43
45 76 0.29
46 1 0.00
47 3 0.01
48 1 0.00
49 1 0.00
50 4 0.02
51 26 0.10
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGATAT
Found at i:11402221 original size:181 final size:181
Alignment explanation
Indices: 11401877--11402206 Score: 543
Period size: 181 Copynumber: 1.8 Consensus size: 181
11401867 GCAGACAAAA
11401877 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCGCTCTAAAGTTGCGGTAGAGCAGATCAAA
1 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCGCTCTAAAGTTGCGGTAGAGCAGATCAAA
** *
11401942 ACAAATTTTATCTCCTTGAAGTTACAGAGGAGAAGATGAAAGATATGAATCTTATCTCCCTAAAG
66 ACAAATCGTATCTCCCTGAAGTTACAGAGGAGAAGATGAAAGATATGAATCTTATCTCCCTAAAG
11402007 TTGCGGTGGAGAAGACTGAAGATGACAAATCTTATTTCCCTGAAGTTGCAG
131 TTGCGGTGGAGAAGACTGAAGATGACAAATCTTATTTCCCTGAAGTTGCAG
* * * *
11402058 TGGAACAGATTGAAGCTATAAATTATAGATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAA
1 TGGAACAGATTGAAGCTATAAACTACAGATCTCATCGCTCTAAAGTTGCGGTAGAGCAGATCAAA
* * * * *
11402123 ATAAATCGTATCTCCCTGAAGTTGCAGAGGAGCATATGAAAGATATGAATCTTATCTCCCTGAAG
66 ACAAATCGTATCTCCCTGAAGTTACAGAGGAGAAGATGAAAGATATGAATCTTATCTCCCTAAAG
*
11402188 TTGCGGTGGAGCAGACTGA
131 TTGCGGTGGAGAAGACTGA
11402207 GAATAGTAAA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
181 136 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (181 bp):
TGGAACAGATTGAAGCTATAAACTACAGATCTCATCGCTCTAAAGTTGCGGTAGAGCAGATCAAA
ACAAATCGTATCTCCCTGAAGTTACAGAGGAGAAGATGAAAGATATGAATCTTATCTCCCTAAAG
TTGCGGTGGAGAAGACTGAAGATGACAAATCTTATTTCCCTGAAGTTGCAG
Found at i:11402251 original size:89 final size:84
Alignment explanation
Indices: 11402086--11402287 Score: 208
Period size: 89 Copynumber: 2.3 Consensus size: 84
11402076 TAAATTATAG
* * * * *
11402086 ATCTCATCTCTCTGAAGTTGCGGTAGAGCAGATCAAAATAAATCGTATCTCCCTGAAGTTGCAGA
1 ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATCAAAATAAATCGTAACTCCCTAAAGTTGCAGA
* *
11402151 GGAGCATATGAAAGATATGA
66 GGAGCAGATGAAAGACAT-A
* * *
11402171 ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTGAGAATAGTAAATCTTAACTCCTTAAAGTTG
1 ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGA-TCA-AA-A-TAAATCGTAACTCCCTAAAGTTG
* *
11402236 CCA-AGGAGCAGATGAAAGCCATT
62 -CAGAGGAGCAGATGAAAGACATA
* *
11402259 ATCCTTATCTCCCCGAAGTTGCAGTGGAG
1 AT-CTTATCTCCCTGAAGTTGCGGTGGAG
11402288 TGAGTTGAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
85 29 0.30
86 2 0.02
87 2 0.02
88 3 0.03
89 59 0.61
90 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (84 bp):
ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATCAAAATAAATCGTAACTCCCTAAAGTTGCAGA
GGAGCAGATGAAAGACATA
Found at i:11404283 original size:25 final size:24
Alignment explanation
Indices: 11404253--11404325 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 24
11404243 AGGAAACTGA
11404253 ATTATTTATATTACCTATAGTTATT
1 ATTATTTATATTACCTAT-GTTATT
11404278 ATTATTGT-TATTA-CTAT-TTA-T
1 ATTATT-TATATTACCTATGTTATT
*
11404299 ATTTATTTAT-CTACCTATGTT-TT
1 A-TTATTTATATTACCTATGTTATT
11404322 ATTA
1 ATTA
11404326 CAAATTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
21 5 0.12
22 16 0.39
23 4 0.10
24 4 0.10
25 11 0.27
26 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (24 bp):
ATTATTTATATTACCTATGTTATT
Found at i:11404430 original size:3 final size:3
Alignment explanation
Indices: 11404408--11404458 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
11404398 TTATATTTAT
*
11404408 TTA TTCA TTA TTA CTT- TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11404454 TTA TT
1 TTA TT
11404459 TATTTCATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 5 0.12
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11409197 original size:46 final size:46
Alignment explanation
Indices: 11409150--11409423 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
11409140 GCTCTCTGAT
** * *
11409150 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
11409196 ATGAAATGCGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
11409242 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
11409288 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
11409334 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
11409380 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
11409424 TCAAAGATAA
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 208 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:11409725 original size:16 final size:17
Alignment explanation
Indices: 11409704--11409736 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11409694 ATGATGAAAC
11409704 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
11409720 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
11409737 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:11412455 original size:90 final size:90
Alignment explanation
Indices: 11412318--11412544 Score: 287
Period size: 90 Copynumber: 2.5 Consensus size: 90
11412308 TTTTTATGGC
* * * * * *
11412318 AAAAG-CCCTTAAA-CTTTTAAAAAAAAGGCAATTAAGTCCCTCCTTTTTTTTTGCATTCAATTG
1 AAAAGACCCTCAAACCTTTTCAAAAAAA-GCAATTAAGCCCCTACTTTTTTTTTGCACTAAATTG
* * *
11412381 AGCACTTAAACTTTTAAAATGCATTA
65 AGCACTTAAACTTTCAAAATGAATCA
* * * *
11412407 AAAAGGCCCTCAAACCTTTTCCAAAAAAGTAATTAAGCCCCTACTTTTTTTTTGCACTAAATTGG
1 AAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTAAATTGA
*
11412472 GTACTTAAACTTTCAAAATGAATCA
66 GCACTTAAACTTTCAAAATGAATCA
* *
11412497 AAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTT
1 AAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTACTTTT
11412545 ATTAAAAATT
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
89 5 0.04
90 102 0.86
91 11 0.09
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (90 bp):
AAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTGCACTAAATTGA
GCACTTAAACTTTCAAAATGAATCA
Found at i:11412749 original size:48 final size:47
Alignment explanation
Indices: 11412659--11412757 Score: 128
Period size: 48 Copynumber: 2.1 Consensus size: 47
11412649 AAATTTGTAG
*
11412659 AATTTTATAAAAATCATAAAAAAATTATAAAATATATAGAAATATAA
1 AATTTTATAAAAATCATAAAAAAATTATAAAATATAAAGAAATATAA
* * * *
11412706 AATTTTAT-AAAGTCATTAGAAAATTATACAAAATGTAAAGAAATATAA
1 AATTTTATAAAAATCATAAAAAAATTAT--AAAATATAAAGAAATATAA
11412754 AATT
1 AATT
11412758 ATCGTACCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 16 0.36
47 8 0.18
48 21 0.47
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (47 bp):
AATTTTATAAAAATCATAAAAAAATTATAAAATATAAAGAAATATAA
Found at i:11412980 original size:17 final size:19
Alignment explanation
Indices: 11412960--11412995 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11412950 ATAAAAAATT
11412960 ATAA-TTTT-TAAAATTTA
1 ATAATTTTTCTAAAATTTA
11412977 ATAATTTTTCTAAAATTTA
1 ATAATTTTTCTAAAATTTA
11412996 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATTTTTCTAAAATTTA
Found at i:11413164 original size:85 final size:86
Alignment explanation
Indices: 11413040--11413206 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 86
11413030 AATAAAAGCG
* * *
11413040 GGGGCTTAATTGATTTTTTGAAAAATTTTGAAGGTCTTTTTGATGCATTTT-GAAAGTTTAAGTA
1 GGGGCTTAATTGATTTTTTGAAAAAGTTTGAAGGCCTTTTTAATGCATTTTAGAAAGTTTAAGTA
*
11413104 CCCAATTGAGTG-AAAATAAA
66 CCCAATTAAGTGCAAAATAAA
* * *
11413124 GGGGCTTAATTGCTTTTTTTGAATAAGTTTG-AGGCCCTTTTTAATGTATTTTAGAAAGTTTAAG
1 GGGGCTTAATTG-ATTTTTTGAAAAAGTTTGAAGG-CCTTTTTAATGCATTTTAGAAAGTTTAAG
* *
11413188 TGCTCAATTAAGTGCAAAA
64 TACCCAATTAAGTGCAAAA
11413207 AAAACGAACT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
84 15 0.21
85 29 0.41
86 22 0.31
87 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (86 bp):
GGGGCTTAATTGATTTTTTGAAAAAGTTTGAAGGCCTTTTTAATGCATTTTAGAAAGTTTAAGTA
CCCAATTAAGTGCAAAATAAA
Found at i:11413242 original size:86 final size:84
Alignment explanation
Indices: 11413055--11413251 Score: 198
Period size: 85 Copynumber: 2.3 Consensus size: 84
11413045 TTAATTGATT
* * * * *
11413055 TTTTGAAAAATTTTGAAGGTCTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGAAAA
1 TTTTAAAAAAGTTTG-AGGCCTTTTTAATGCATTTTGAAAGTTTAAGTACCCAATTAAGTGAAAA
* * ** * *
11413120 TAAAGGGGCTTAATTGCTTT
65 AAAACGAACTTAATTACTTA
* * * * *
11413140 TTTTGAATAAGTTTGAGGCCCTTTTTAATGTATTTTAGAAAGTTTAAGTGCTCAATTAAGTGCAA
1 TTTTAAAAAAGTTTGAGG-CCTTTTTAATGCATTTT-GAAAGTTTAAGTACCCAATTAAGTG-AA
11413205 AAAAAACGAACTTAATTACTTA
63 AAAAAACGAACTTAATTACTTA
*
11413227 TTTTAAAAAAG-TTGAGGGCTTTTTA
1 TTTTAAAAAAGTTTGAGGCCTTTTTA
11413252 CACCCTTAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
84 3 0.03
85 34 0.37
86 28 0.30
87 27 0.29
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (84 bp):
TTTTAAAAAAGTTTGAGGCCTTTTTAATGCATTTTGAAAGTTTAAGTACCCAATTAAGTGAAAAA
AAACGAACTTAATTACTTA
Found at i:11414086 original size:11 final size:11
Alignment explanation
Indices: 11414070--11414099 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11414060 TTTGCTTCAG
11414070 TAATTTAACTA
1 TAATTTAACTA
11414081 TAATTTAACTA
1 TAATTTAACTA
11414092 TAATTTAA
1 TAATTTAA
11414100 TCCTGTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATTTAACTA
Found at i:11415114 original size:14 final size:16
Alignment explanation
Indices: 11415095--11415129 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11415085 TGATTAAATA
11415095 TAATTTT-A-ATATTT
1 TAATTTTGATATATTT
11415109 TAATTTTGATATATTT
1 TAATTTTGATATATTT
11415125 TAATT
1 TAATT
11415130 CTTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TAATTTTGATATATTT
Found at i:11415876 original size:74 final size:75
Alignment explanation
Indices: 11415792--11415934 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 75
11415782 CTTGCTCTTA
* * * *
11415792 TAAACGAAAAAAACATTCAAATTTGTGTATTATTTCGG-GAAAAAAATACAATATTGACTAAAAT
1 TAAACGAAAAAAACATTCAAATTTGTGTACTACTTCGGACAAAAAAATACAATATTAACTAAAAT
11415856 TATGCTTGTG
66 TATGCTTGTG
* * *
11415866 TAAACGAAAAACATATTCAAATTTGTGTACTGCTTCGGAAACAAAAAAATACAATATTAACTAAA
1 TAAACGAAAAAAACATTCAAATTTGTGTACTACTTCGG--ACAAAAAAATACAATATTAACTAAA
11415931 ATTA
64 ATTA
11415935 AAGTAGAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
74 33 0.56
77 26 0.44
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (75 bp):
TAAACGAAAAAAACATTCAAATTTGTGTACTACTTCGGACAAAAAAATACAATATTAACTAAAAT
TATGCTTGTG
Found at i:11416249 original size:30 final size:29
Alignment explanation
Indices: 11416172--11416261 Score: 85
Period size: 30 Copynumber: 3.1 Consensus size: 29
11416162 AATATCAAAA
* *
11416172 TTATACAT-AA-TTATGGTTTAATTGCAACT
1 TTATACATGAACTT-TGATTTAA-TGCAATT
* *
11416201 ATATACATGAACTTTGATTTTATGCAATT
1 TTATACATGAACTTTGATTTAATGCAATT
* *
11416230 TTATACATGAAATTTTGATTTAATTCAATT
1 TTATACATG-AACTTTGATTTAATGCAATT
11416260 TT
1 TT
11416262 TGTAAATTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 21 0.42
30 27 0.54
31 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (29 bp):
TTATACATGAACTTTGATTTAATGCAATT
Found at i:11416251 original size:29 final size:30
Alignment explanation
Indices: 11416188--11416261 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
11416178 ATAATTATGG
* *
11416188 TTTAATTGCAACTATATACATGAACTTTGAT
1 TTTAA-TGCAATTTTATACATGAACTTTGAT
*
11416219 TTT-ATGCAATTTTATACATGAAATTTTGA-
1 TTTAATGCAATTTTATACATG-AACTTTGAT
*
11416248 TTTAATTCAATTTT
1 TTTAATGCAATTTT
11416262 TGTAAATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 17 0.46
30 17 0.46
31 3 0.08
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (30 bp):
TTTAATGCAATTTTATACATGAACTTTGAT
Found at i:11419577 original size:75 final size:77
Alignment explanation
Indices: 11419448--11419596 Score: 221
Period size: 76 Copynumber: 2.0 Consensus size: 77
11419438 ATATGCCATT
* * *
11419448 TGCTTGTATAAACCAAAAAAGCATTAAAATTTGTATGCTGTTTCGAAAAT-AAAAAATACAATAT
1 TGCTCGTATAAACCAAAAAAGCACTAAAATTTGTATACTGTTTCGAAAATAAAAAAATACAATAT
11419512 TGACTAAAATTA
66 TGACTAAAATTA
* * * *
11419524 TGCTCGTATAATCCAAAAAA-CACTCAAATTTGTGTATTGTTTCGAAAATAAAAAAATACAATAT
1 TGCTCGTATAAACCAAAAAAGCACTAAAATTTGTATACTGTTTCGAAAATAAAAAAATACAATAT
11419588 TGACTAAAA
66 TGACTAAAA
11419597 ATAAAGTCCA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 24 0.37
76 41 0.63
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (77 bp):
TGCTCGTATAAACCAAAAAAGCACTAAAATTTGTATACTGTTTCGAAAATAAAAAAATACAATAT
TGACTAAAATTA
Found at i:11423029 original size:63 final size:63
Alignment explanation
Indices: 11422961--11423130 Score: 204
Period size: 62 Copynumber: 2.7 Consensus size: 63
11422951 TTCACATGAT
* * * *
11422961 CAGGGACAAGGACGTGTACCCAAGCTGTGTAACTCACTATTTGTA-GTATAAAAA-TCACACGGC
1 CAGGGAC-ACGACGTGTGCCCAGGCTGTGTAACTCACTGTTTGTAGGTATAAAAACT-ACACGGC
* *
11423024 TAGGGACACGA-GTGTGCACCAGGCCGTGTAACTCACTGTTT-TAGGTATAAAAACTACACGGC
1 CAGGGACACGACGTGTGC-CCAGGCTGTGTAACTCACTGTTTGTAGGTATAAAAACTACACGGC
* *
11423086 CAGGGACACGAGCATGTGCCCAGGCTGTGTAACTCATTGTTTGTA
1 CAGGGACACGA-CGTGTGCCCAGGCTGTGTAACTCACTGTTTGTA
11423131 CCTAAAAACC
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
61 7 0.08
62 49 0.54
63 28 0.31
64 7 0.08
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (63 bp):
CAGGGACACGACGTGTGCCCAGGCTGTGTAACTCACTGTTTGTAGGTATAAAAACTACACGGC
Found at i:11423137 original size:62 final size:60
Alignment explanation
Indices: 11422979--11423178 Score: 188
Period size: 63 Copynumber: 3.2 Consensus size: 60
11422969 AGGACGTGTA
* * * *
11422979 CCCAAGCTGTGTAACTCACTATTTGTAGTATAAAAATCACACGGCTAGGGACACGAG--TGTG
1 CCCAGGCTGTGTAACTCACTGTTTGTA-TA-AAAACT-ACACGGCAAGGGACACGAGCATGTG
* *
11423040 CACCAGGCCGTGTAACTCACTGTTTTAGGTATAAAAACTACACGGCCAGGGACACGAGCATGTG
1 C-CCAGGCTGTGTAACTCACTG-TTT--GTATAAAAACTACACGGCAAGGGACACGAGCATGTG
* * * * * *
11423104 CCCAGGCTGTGTAACTCATTGTTTGTACCTAAAAACCACACAGCTAAGGCACATGGGCATGTG
1 CCCAGGCTGTGTAACTCACTGTTTGTA--TAAAAACTACACGGC-AAGGGACACGAGCATGTG
11423167 CCCAGGCTGTGT
1 CCCAGGCTGTGT
11423179 GGCAGGATAT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
60 3 0.03
61 1 0.01
62 51 0.44
63 52 0.44
64 7 0.06
65 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (60 bp):
CCCAGGCTGTGTAACTCACTGTTTGTATAAAAACTACACGGCAAGGGACACGAGCATGTG
Found at i:11427477 original size:21 final size:22
Alignment explanation
Indices: 11427451--11427503 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
11427441 ATGATGACGG
* *
11427451 ATCTGAG-AGCAATATTAGTTC
1 ATCTGAGTAGAAATATTAGCTC
11427472 ATCTGAGTTTAGAAATATTAGCTC
1 ATCTGAG--TAGAAATATTAGCTC
11427496 ATCTGAGT
1 ATCTGAGT
11427504 GTATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.26
22 1 0.04
24 19 0.70
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (22 bp):
ATCTGAGTAGAAATATTAGCTC
Found at i:11427513 original size:24 final size:24
Alignment explanation
Indices: 11427461--11427506 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11427451 ATCTGAGAGC
* *
11427461 AATATTAGTTCATCTGAGTTTAGA
1 AATATTAGCTCATCTGAGTGTAGA
11427485 AATATTAGCTCATCTGAGTGTA
1 AATATTAGCTCATCTGAGTGTA
11427507 TATATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (24 bp):
AATATTAGCTCATCTGAGTGTAGA
Found at i:11427874 original size:9 final size:9
Alignment explanation
Indices: 11427825--11427910 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
11427815 TATTCAAAGT
11427825 ATATACATA
1 ATATACATA
*
11427834 ATATGTACATG
1 ATA--TACATA
*
11427845 ATATATAT-
1 ATATACATA
* *
11427853 ATA-AAAAA
1 ATATACATA
11427861 ATATACATA
1 ATATACATA
* *
11427870 ATATATTAAA
1 ATATA-CATA
11427880 ATATAGACATA
1 ATAT--ACATA
11427891 ATATACATA
1 ATATACATA
*
11427900 ATATATATA
1 ATATACATA
11427909 AT
1 AT
11427911 GTTTAAAAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
7 2 0.03
8 6 0.10
9 30 0.51
10 6 0.10
11 14 0.24
12 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (9 bp):
ATATACATA
Found at i:11427875 original size:21 final size:21
Alignment explanation
Indices: 11427849--11427895 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11427839 TACATGATAT
*
11427849 ATATATAAAAAAATATACATA
1 ATATATAAAAAAATAGACATA
* *
11427870 ATATATTAAAATATAGACATA
1 ATATATAAAAAAATAGACATA
11427891 ATATA
1 ATATA
11427896 CATAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
ATATATAAAAAAATAGACATA
Found at i:11427891 original size:57 final size:57
Alignment explanation
Indices: 11427780--11427908 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
11427770 TTAATAACAT
* * *
11427780 TACATAA-ATATATATTGAAAATAAATATATGATAATATTCAAAGTATATACATAATA
1 TACATAATATATATA-TGAAAATAAATATATCATAATATTCAAAATATAGACATAATA
* *
11427837 TGTACATGATATATATAT-AAAA-AAATATA-CATAATATATTAAAATATAGACATAATA
1 --TACATAATATATATATGAAAATAAATATATCATAATAT-TCAAAATATAGACATAATA
11427894 TACATAATATATATA
1 TACATAATATATATA
11427909 ATGTTTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
55 14 0.23
56 7 0.11
57 23 0.37
58 4 0.06
59 7 0.11
60 7 0.11
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (57 bp):
TACATAATATATATATGAAAATAAATATATCATAATATTCAAAATATAGACATAATA
Found at i:11429819 original size:43 final size:43
Alignment explanation
Indices: 11429761--11429908 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
11429751 CGCCTACGAT
*
11429761 CTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAGC
* ** ** * ** * *
11429804 CTGTTACCCTGCTGCTT-AGGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAAGGGG-TTAAGATCTGTAAATTTAG-C
* * *
11429848 TTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAGC
11429891 CTGTTACCCTACTGCTTA
1 CTGTTACCCTACTGCTTA
11429909 GGGAGATAAG
Statistics
Matches: 76, Mismatches: 26, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
42 5 0.07
43 42 0.55
44 25 0.33
45 4 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAGC
Found at i:11429920 original size:87 final size:87
Alignment explanation
Indices: 11429706--11429911 Score: 331
Period size: 87 Copynumber: 2.4 Consensus size: 87
11429696 GAGATAGGTA
* * * * *
11429706 GTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAGGGCCTATCGCCTACGATCTGTTTCCCT
1 GTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTACGATCTGTTTCCCT
11429771 ACTGCTTAAGGGGTTAAGATCT
66 ACTGCTTAAGGGGTTAAGATCT
* * *
11429793 GTAAATTTAGCCTGTTACCCTGCTGCTTAGGGGTTTAAGGCCCATCACCTTCGATTTGTTTCCCT
1 GTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTACGATCTGTTTCCCT
*
11429858 ACTGCTTAGGGGGTTAAGATCT
66 ACTGCTTAAGGGGTTAAGATCT
11429880 GTAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 GTAAATTTAGCCTGTTACCCTACTGCTTAGGG
11429912 AGATAAGGCT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 109 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (87 bp):
GTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTACGATCTGTTTCCCT
ACTGCTTAAGGGGTTAAGATCT
Found at i:11430092 original size:64 final size:64
Alignment explanation
Indices: 11429991--11430118 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
11429981 TCATGTATCT
*
11429991 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
* * *
11430055 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
11430119 TTATGAATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:11438027 original size:19 final size:18
Alignment explanation
Indices: 11438003--11438042 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
11437993 AGTGCGTGTG
11438003 ATGCAATG-CTGATGCATGA
1 ATGCAATGACTG-TG-ATGA
11438022 ATGCAATGACTGTGATGA
1 ATGCAATGACTGTGATGA
11438040 ATG
1 ATG
11438043 TAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 10 0.50
20 3 0.15
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (18 bp):
ATGCAATGACTGTGATGA
Found at i:11442406 original size:23 final size:21
Alignment explanation
Indices: 11442368--11442410 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
11442358 ATATATAAAT
*
11442368 ACATAATATATTAAAATATAG
1 ACATAATATATAAAAATATAG
11442389 ACATAATATACATAAAAATATA
1 ACATAATAT--ATAAAAATATA
11442411 TATATAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
ACATAATATATAAAAATATAG
Found at i:11447367 original size:14 final size:15
Alignment explanation
Indices: 11447348--11447380 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11447338 TCTTGGCACA
11447348 ATTAAAATTAT-TTT
1 ATTAAAATTATATTT
*
11447362 ATTAAATTTATATTT
1 ATTAAAATTATATTT
11447377 ATTA
1 ATTA
11447381 TAACTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAAAATTATATTT
Found at i:11447497 original size:29 final size:30
Alignment explanation
Indices: 11447460--11447546 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 30
11447450 ATTTACAATT
11447460 AAATCTAAATTTTAAATTTTAAAAAATA-AA
1 AAAT-TAAATTTTAAATTTTAAAAAATATAA
**
11447490 AAATTAAATTTCTAAA-AAT-AAAAATATAA
1 AAATTAAATTT-TAAATTTTAAAAAATATAA
*
11447519 AAATTAAATTCTAAATTTGTAAAAAATA
1 AAATTAAATTTTAAATTT-TAAAAAATA
11447547 CGTAGCTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 11 0.23
29 20 0.43
30 9 0.19
31 7 0.15
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (30 bp):
AAATTAAATTTTAAATTTTAAAAAATATAA
Found at i:11447506 original size:15 final size:14
Alignment explanation
Indices: 11447488--11447533 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
11447478 TTAAAAAATA
11447488 AAAAATTAAATTTCT
1 AAAAATTAAA-TTCT
* * *
11447503 AAAAATAAAAATAT
1 AAAAATTAAATTCT
11447517 AAAAATTAAATTCT
1 AAAAATTAAATTCT
11447531 AAA
1 AAA
11447534 TTTGTAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATTAAATTCT
Found at i:11447519 original size:22 final size:22
Alignment explanation
Indices: 11447471--11447513 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11447461 AATCTAAATT
11447471 TTAAATTTTAAAAAATAAAAAA
1 TTAAATTTTAAAAAATAAAAAA
11447493 TTAAATTTCT-AAAAATAAAAA
1 TTAAATTT-TAAAAAATAAAAA
11447514 TATAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAATTTTAAAAAATAAAAAA
Found at i:11457892 original size:28 final size:26
Alignment explanation
Indices: 11457843--11457894 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
11457833 TATTTGCAAT
*
11457843 AATTAGCTATTTTTTGTAAATATTAA
1 AATTAGCTATTTTTTATAAATATTAA
*
11457869 AATTAGCTTTTTTTTCTATAAATATT
1 AATTAGC-TATTTTT-TATAAATATT
11457895 TTAAAATAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 6 0.27
28 9 0.41
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (26 bp):
AATTAGCTATTTTTTATAAATATTAA
Found at i:11457976 original size:22 final size:21
Alignment explanation
Indices: 11457951--11457992 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11457941 TAATAACAAC
11457951 TAATATATTATTATATT-TTATA
1 TAATATA-TATTA-ATTGTTATA
11457973 TAATATATATTAATTGTTAT
1 TAATATATATTAATTGTTAT
11457993 TAACCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 9 0.47
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TAATATATATTAATTGTTATA
Found at i:11460526 original size:42 final size:42
Alignment explanation
Indices: 11460449--11460551 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
11460439 CATCTACTTA
* * *
11460449 TGATTTACGTGTAAGACTACGTCTGGGACATTGGCAGCG-TATT
1 TGATTT-CGTGTAAGAC-CCGTCTGAGACAGTGGCAGCGATATT
* *
11460492 TGATTTCGTGTAAGACCCTGTTTGAGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCC-GTCTGAGACAGTGGCAGCGATATT
* *
11460535 TGATTACATGTAAGACC
1 TGATTTCGTGTAAGACC
11460552 ACTTCTGGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 25 0.49
43 25 0.49
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCGTCTGAGACAGTGGCAGCGATATT
Found at i:11460569 original size:43 final size:42
Alignment explanation
Indices: 11460412--11460570 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 42
11460402 AATGTGTTAT
* *
11460412 CGTGTAAGACCACATCTGGGAAGTTGGCATC-TACTTATGATTTA
1 CGTGTAAGACCACTTCTGGGACGTTGGCATCGTA-TT-TGA-TTA
* * * * *
11460456 CGTGTAAGACTACGTCTGGGACATTGGCAGCGTATTTGATTT
1 CGTGTAAGACCACTTCTGGGACGTTGGCATCGTATTTGATTA
* *
11460498 CGTGTAAGACC-CTGTTTGAGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCACT-TCTGGGAC-GTTGGCATCG-TATTTGATTA
*
11460541 CATGTAAGACCACTTCTGGGACGTTGGCAT
1 CGTGTAAGACCACTTCTGGGACGTTGGCAT
11460571 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 34 0.37
44 30 0.32
45 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACTTCTGGGACGTTGGCATCGTATTTGATTA
Found at i:11466057 original size:96 final size:97
Alignment explanation
Indices: 11465889--11466081 Score: 280
Period size: 96 Copynumber: 2.0 Consensus size: 97
11465879 TAATTTAATT
* * ** *
11465889 TTTTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCC
1 TTTTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGACAACCAAGCACCC
*
11465954 CATCCCGGTTACTCAGCCCAACATACTCTTAA
66 CACCCCGGTTACTCAGCCCAACATACTCTTAA
* * * *
11465986 TTTTTATTTTT-CTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGATAGCCAAGTACCT
1 TTTTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGACAACCAAGCACCC
*
11466050 CACCCCGGTTACTCAGCCCAACATATTCTTAA
66 CACCCCGGTTACTCAGCCCAACATACTCTTAA
11466082 AAATTAATTC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
96 74 0.87
97 11 0.13
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (97 bp):
TTTTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCAAAGAGAGATGACAACCAAGCACCC
CACCCCGGTTACTCAGCCCAACATACTCTTAA
Found at i:11470138 original size:23 final size:22
Alignment explanation
Indices: 11470111--11470167 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 22
11470101 TCAATTTAAT
11470111 TTAATTTAATTTATTATTATTTA
1 TTAATTTAATTTATTATTA-TTA
*
11470134 TTAATTTACTTTATTATTATTA
1 TTAATTTAATTTATTATTATTA
*
11470156 TTTA-TTAATTTA
1 TTAATTTAATTTA
11470168 CTTTCTCTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 7 0.23
22 6 0.19
23 18 0.58
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAATTTAATTTATTATTATTA
Found at i:11470157 original size:26 final size:28
Alignment explanation
Indices: 11470106--11470171 Score: 109
Period size: 26 Copynumber: 2.4 Consensus size: 28
11470096 TTCTTTCAAT
*
11470106 TTAATTTAATTTAATTTATTATTATTTA
1 TTAATTTACTTTAATTTATTATTATTTA
11470134 TTAATTTACTTT-A-TTATTATTATTTA
1 TTAATTTACTTTAATTTATTATTATTTA
11470160 TTAATTTACTTT
1 TTAATTTACTTT
11470172 CTCTTGGCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
26 25 0.68
27 1 0.03
28 11 0.30
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (28 bp):
TTAATTTACTTTAATTTATTATTATTTA
Found at i:11478732 original size:29 final size:26
Alignment explanation
Indices: 11478698--11478766 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 26
11478688 ATTAATATCC
*
11478698 AAAATAAAAATAAATAATTAAGTAATAA
1 AAAATAAAAATAAATAATAAAG-AA-AA
*
11478726 ATAAAT-AAAATAAAATAATAAAGAAAG
1 A-AAATAAAAAT-AAATAATAAAGAAAA
11478753 AAAATAAAAATAAA
1 AAAATAAAAATAAA
11478767 AAAATTTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 7 0.19
27 7 0.19
28 8 0.22
29 14 0.39
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAATAAAAATAAATAATAAAGAAAA
Found at i:11478744 original size:21 final size:21
Alignment explanation
Indices: 11478698--11478761 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
11478688 ATTAATATCC
11478698 AAAATAA-AAATAAAT--AAT
1 AAAATAATAAATAAATAAAAT
* *
11478716 TAAGTAATAAATAAATAAAAT
1 AAAATAATAAATAAATAAAAT
* *
11478737 AAAATAATAAAGAAAGAAAAT
1 AAAATAATAAATAAATAAAAT
11478758 AAAA
1 AAAA
11478762 ATAAAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 5 0.14
19 8 0.22
21 24 0.65
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAATAATAAATAAATAAAAT
Found at i:11486307 original size:73 final size:73
Alignment explanation
Indices: 11486224--11486369 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
11486214 GTGTCTCAGC
11486224 TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCTAGGGTACCTTACGATTTTAAGTCA
1 TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCTAGGGTACCTTACGATTTTAAGTCA
11486289 GTCTTGAG
66 GTCTTGAG
*
11486297 TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCTGGGGTACCTTACGATTTTAAGTCA
1 TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCTAGGGTACCTTACGATTTTAAGTCA
11486362 GTCTTGAG
66 GTCTTGAG
11486370 CATGACCAAG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.17, C:0.26, G:0.27, T:0.30
Consensus pattern (73 bp):
TGTGTGCACACACGGTCATGTTGCACGCCCGTGTGTCCCCTAGGGTACCTTACGATTTTAAGTCA
GTCTTGAG
Found at i:11486692 original size:13 final size:13
Alignment explanation
Indices: 11486674--11486702 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11486664 GGTTATTTAT
11486674 TAAACTAATTAAC
1 TAAACTAATTAAC
11486687 TAAACTAATTAAC
1 TAAACTAATTAAC
11486700 TAA
1 TAA
11486703 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:11493472 original size:13 final size:13
Alignment explanation
Indices: 11493454--11493482 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11493444 GGTTGTTTAT
11493454 TAAACTAATTAAC
1 TAAACTAATTAAC
11493467 TAAACTAATTAAC
1 TAAACTAATTAAC
11493480 TAA
1 TAA
11493483 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:11496368 original size:14 final size:15
Alignment explanation
Indices: 11496349--11496377 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11496339 TTTACAAACC
11496349 AAAAT-ATCATAAAT
1 AAAATAATCATAAAT
11496363 AAAATAATCATAAAT
1 AAAATAATCATAAAT
11496378 CAATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAATCATAAAT
Found at i:11503898 original size:24 final size:24
Alignment explanation
Indices: 11503871--11503920 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
11503861 GGGCAGTGTG
*
11503871 TTGGGCCAAAGGCTGGCTAATCTT
1 TTGGGCCAAAGGCAGGCTAATCTT
* *
11503895 TTGGGCCAAATGCAGGCTAATTTT
1 TTGGGCCAAAGGCAGGCTAATCTT
11503919 TT
1 TT
11503921 AGGTAGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (24 bp):
TTGGGCCAAAGGCAGGCTAATCTT
Found at i:11510544 original size:29 final size:29
Alignment explanation
Indices: 11510474--11510544 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
11510464 ATTGTTTATC
11510474 AATTTGACCATTATTATCTTTTTTAGCTAA
1 AATTTGACC-TTATTATCTTTTTTAGCTAA
* *
11510504 AATTTGTCCTTATTAT-TATTTTTAG-TTA
1 AATTTGACCTTATTATCT-TTTTTAGCTAA
11510532 AATTTGACTCTTA
1 AATTTGAC-CTTA
11510545 ATCTTTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.28
29 18 0.50
30 8 0.22
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (29 bp):
AATTTGACCTTATTATCTTTTTTAGCTAA
Found at i:11514200 original size:26 final size:25
Alignment explanation
Indices: 11514162--11514219 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
11514152 ATTTAGTTTC
*
11514162 TAAAAATATTTTTTATTTTCATTTT
1 TAAAAATAATTTTTATTTTCATTTT
*
11514187 TAAAAACTAATTTTTATTTTTATTTT
1 TAAAAA-TAATTTTTATTTTCATTTT
*
11514213 TTAAAAT
1 TAAAAAT
11514220 TGAAAAGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TAAAAATAATTTTTATTTTCATTTT
Found at i:11514207 original size:27 final size:24
Alignment explanation
Indices: 11514153--11514219 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
11514143 TGAGGCTCCA
* *
11514153 TTTAGTTTCTAAAAATATTTTTTAT
1 TTTA-TTTTTAAAAATAATTTTTAT
11514178 TTTCATTTTTAAAAACTAATTTTTATT
1 TTT-ATTTTTAAAAA-TAATTTTTA-T
*
11514205 TTTATTTTTTAAAAT
1 TTTATTTTTAAAAAT
11514220 TGAAAAGCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 13 0.36
26 19 0.53
27 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (24 bp):
TTTATTTTTAAAAATAATTTTTAT
Found at i:11519380 original size:30 final size:30
Alignment explanation
Indices: 11519345--11519403 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
11519335 CTGAGCATTC
* *
11519345 CCACACGGGCTGGCCACACGCCCGTGTGAG
1 CCACACGAGCTGGCCACACGCCCATGTGAG
* *
11519375 CCACACGAGCTTGCTACACGCCCATGTGA
1 CCACACGAGCTGGCCACACGCCCATGTGA
11519404 CAACCCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.14
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACGCCCATGTGAG
Found at i:11524384 original size:13 final size:13
Alignment explanation
Indices: 11524377--11524410 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11524367 TTTTTTTGTT
11524377 TTTATTTTATTTA
1 TTTATTTTATTTA
*
11524390 TTTATTTTAGTTA
1 TTTATTTTATTTA
*
11524403 CTTATTTT
1 TTTATTTT
11524411 CTTGTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:11526232 original size:35 final size:35
Alignment explanation
Indices: 11526186--11526258 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
11526176 ACATCTTAAG
11526186 TGTGGGGAGGTTAATTATAGAAAATCCCTAAATTA
1 TGTGGGGAGGTTAATTATAGAAAATCCCTAAATTA
11526221 TGTGGGGAGGTTAATTATAGAAAATCCCTAAATTA
1 TGTGGGGAGGTTAATTATAGAAAATCCCTAAATTA
11526256 TGT
1 TGT
11526259 TTTGTATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (35 bp):
TGTGGGGAGGTTAATTATAGAAAATCCCTAAATTA
Found at i:11529702 original size:34 final size:35
Alignment explanation
Indices: 11529659--11529736 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
11529649 AGACCATATC
* *
11529659 AGAATGTCATATTACCATAAACATATATTAGAT-A
1 AGAATGTCATATTACCAGAAACATATATCAGATCA
* *
11529693 AGAATGTCATATTTCTAGAAACATATATCAGATCA
1 AGAATGTCATATTACCAGAAACATATATCAGATCA
11529728 A-AATGTCAT
1 AGAATGTCAT
11529737 TTCAAATCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (35 bp):
AGAATGTCATATTACCAGAAACATATATCAGATCA
Found at i:11530338 original size:49 final size:49
Alignment explanation
Indices: 11530285--11530437 Score: 137
Period size: 49 Copynumber: 3.1 Consensus size: 49
11530275 CCGTATGTCT
* *
11530285 CACACGACCTATTTGATTTACCCGTGTAATCACACATGCCCATGTGCCC
1 CACACGACCTAATTGATTTACCCATGTAATCACACATGCCCATGTGCCC
* ** * * * *
11530334 CACACGGCCTACCTGATTTGCCCATGTAATCTCATATGTCCATGTGCCC
1 CACACGACCTAATTGATTTACCCATGTAATCACACATGCCCATGTGCCC
* * ** * * *
11530383 CATAC-AGCCTAATTGATTTATCCACATAATCACACACGGCCGTGTGCCC
1 CACACGA-CCTAATTGATTTACCCATGTAATCACACATGCCCATGTGCCC
11530432 TCACAC
1 -CACAC
11530438 AGCCGTGTGA
Statistics
Matches: 80, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
49 76 0.95
50 4 0.05
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (49 bp):
CACACGACCTAATTGATTTACCCATGTAATCACACATGCCCATGTGCCC
Found at i:11531717 original size:91 final size:90
Alignment explanation
Indices: 11531559--11531752 Score: 289
Period size: 91 Copynumber: 2.1 Consensus size: 90
11531549 GGATGTGACA
* * * * ** *
11531559 GGTGGTTCATCCACAAATTTTCTGGTAGCTCTTATCTGTAAATACGTTGTGCATTCACAACCTTC
1 GGTGGTTCATCCAAAAATATTCTGGCAACTCTTATCTCAAAAAACGTTGTGCATTCACAACCTTC
*
11531624 TGGCAGCGTAATAACCTACAACTTT
66 TGGCAGCGTAATAACCTACAACTCT
*
11531649 GGTGGTTCATCCAAAAATATTCTGGCAACTTTTATCTACAAAAAACGTTGTGCATTCACAACCTT
1 GGTGGTTCATCCAAAAATATTCTGGCAACTCTTATCT-CAAAAAACGTTGTGCATTCACAACCTT
*
11531714 CTGGCAGCGTAATAACCTGCAACTCT
65 CTGGCAGCGTAATAACCTACAACTCT
11531740 GGTGGTTCATCCA
1 GGTGGTTCATCCA
11531753 CAACACAGTG
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 32 0.34
91 61 0.66
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (90 bp):
GGTGGTTCATCCAAAAATATTCTGGCAACTCTTATCTCAAAAAACGTTGTGCATTCACAACCTTC
TGGCAGCGTAATAACCTACAACTCT
Found at i:11534093 original size:54 final size:54
Alignment explanation
Indices: 11533990--11534093 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 54
11533980 AATACCAGTA
* * *
11533990 TTTTAAAAAAAAAATTGGTGTTGGCCTGTCAATGGCCGGCACCTTAGTACGAGT
1 TTTTAAAAAAAAAATTGGTGCTGGCCTGTCAATAGCCGGCACCTAAGTACGAGT
* *
11534044 TTTTAAAAAAAAAAATTTGTGCTGGCCTGTCAATAGCCGGCTCC-AAGTAC
1 TTTT-AAAAAAAAAATTGGTGCTGGCCTGTCAATAGCCGGCACCTAAGTAC
11534094 AAAAAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 9 0.20
55 35 0.80
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (54 bp):
TTTTAAAAAAAAAATTGGTGCTGGCCTGTCAATAGCCGGCACCTAAGTACGAGT
Found at i:11534574 original size:54 final size:52
Alignment explanation
Indices: 11534407--11534648 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 52
11534397 TGTGATGGCC
* * *
11534407 ATTGACAGGCCAGCACCAAAAAAATTTAATTTTTTTTGTACTTGGTGCCGGCC
1 ATTGACAGGCCAGCACCAAAAAAATTTATTTTTTTTTGTATTTGGTGCC-GCT
* * * * * * *
11534460 ATTGATAAGCCAGCACC-AAAAACTTT-TTTTTTAAACTCGTACTCTGGTGCCGGT
1 ATTGACAGGCCAGCACCAAAAAAATTTATTTTTT---TTTGTA-TTTGGTGCCGCT
*
11534514 CATTGACAAGG-CAGCATCAAAAAAATTTGATTTTTTTTTGTATTTGGTGCCAGCT
1 -ATTGAC-AGGCCAGCACCAAAAAAATTT-ATTTTTTTTTGTATTTGGTGCC-GCT
* *
11534569 ATTGACAGGCCAGCACC----AAA--T-TTTTTTTTTGTACTTGGTGCCGGCC
1 ATTGACAGGCCAGCACCAAAAAAATTTATTTTTTTTTGTATTTGGTGCC-GCT
*
11534615 ATTGACAGGCCAGCACAAAAAAAATTT-TTTTTTT
1 ATTGACAGGCCAGCACCAAAAAAATTTATTTTTTT
11534649 AGAAACTCGT
Statistics
Matches: 149, Mismatches: 23, Indels: 35
0.72 0.11 0.17
Matches are distributed among these distances:
46 38 0.26
48 1 0.01
50 6 0.04
51 5 0.03
52 16 0.11
53 18 0.12
54 25 0.17
55 24 0.16
56 10 0.07
58 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
ATTGACAGGCCAGCACCAAAAAAATTTATTTTTTTTTGTATTTGGTGCCGCT
Found at i:11535393 original size:2 final size:2
Alignment explanation
Indices: 11535386--11535411 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11535376 TAGTGTAATT
11535386 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11535412 AAATCTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11536228 original size:77 final size:79
Alignment explanation
Indices: 11536134--11536292 Score: 241
Period size: 77 Copynumber: 2.0 Consensus size: 79
11536124 CCACCAAATG
* * * *
11536134 TGACGGAATTATTTGAGAACGTCATTTGACTCGATTCGTTACTGCTTTC-ATCGGCAATCAATGT
1 TGACGGAACTACTTGAGAACGCCATTTGACTCGATTCATTACTGCTTTCGATCGGCAATCAATGT
11536198 GTTTTGGCTATT-T
66 GTTTTGGCTATTCT
* * *
11536211 TGACGGAACTACTTGAGAGCGCCATTTGACTCGATTCATTTCTGCTTTCGATTGGCAATCAATGT
1 TGACGGAACTACTTGAGAACGCCATTTGACTCGATTCATTACTGCTTTCGATCGGCAATCAATGT
11536276 GTTTTGGCTATTCT
66 GTTTTGGCTATTCT
11536290 TGA
1 TGA
11536293 TATTAAGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
77 43 0.59
78 26 0.36
79 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (79 bp):
TGACGGAACTACTTGAGAACGCCATTTGACTCGATTCATTACTGCTTTCGATCGGCAATCAATGT
GTTTTGGCTATTCT
Done.