Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, 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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 49 of 55
Found at i:9835027 original size:29 final size:27
Alignment explanation
Indices: 9834958--9835058 Score: 89
Period size: 29 Copynumber: 3.7 Consensus size: 27
9834948 TTTTATATAT
* *
9834958 ATTTAAAAATATATTTTGTTTTATATTA
1 ATTTAAAAATATATATT-TTTTATTTTA
* ** *
9834986 ACTT-ATTAGATATATTTTTTATTAACTTA
1 ATTTAAAAATATATATTTTTTATT---TTA
*
9835015 ATTTAAAAA-ATATTTTTTTTATTTTA
1 ATTTAAAAATATATATTTTTTATTTTA
9835041 ATTTAAAAATATATATTT
1 ATTTAAAAATATATATTT
9835059 ATTCTTATCT
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
26 18 0.32
27 15 0.26
28 3 0.05
29 19 0.33
30 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (27 bp):
ATTTAAAAATATATATTTTTTATTTTA
Found at i:9835030 original size:26 final size:27
Alignment explanation
Indices: 9834958--9835061 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 27
9834948 TTTTATATAT
*
9834958 ATTTAAAAATATATTTTGTTTTATA-TTA
1 ATTTAAAAATATATTTT-TATTA-ACTTA
* * *
9834986 ACTTATTAGATATATTTTTTATTAACTTA
1 ATTTA-AAAATATA-TTTTTATTAACTTA
* **
9835015 ATTTAAAAA-ATATTTTTTTTATTTTA
1 ATTTAAAAATATATTTTTATTAACTTA
*
9835041 ATTTAAAAATATATATTTATT
1 ATTTAAAAATATATTTTTATT
9835062 CTTATCTTAG
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
26 20 0.33
27 12 0.20
28 7 0.12
29 17 0.28
30 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (27 bp):
ATTTAAAAATATATTTTTATTAACTTA
Found at i:9835358 original size:27 final size:27
Alignment explanation
Indices: 9835328--9835381 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
9835318 AATAAACTAA
9835328 AATAAATTAAATT-TCAAAAAATAAGAT
1 AATAAATTAAATTCT-AAAAAATAAGAT
9835355 AATAAATTAAATTCTAAAAAATAAGAT
1 AATAAATTAAATTCTAAAAAATAAGAT
9835382 GACATGTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (27 bp):
AATAAATTAAATTCTAAAAAATAAGAT
Found at i:9837441 original size:3 final size:3
Alignment explanation
Indices: 9837435--9837491 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
9837425 TTTTTTACAT
*
9837435 TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9837483 TTA TTA TTA
1 TTA TTA TTA
9837492 ATTACAAGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9838794 original size:3 final size:3
Alignment explanation
Indices: 9838786--9838823 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9838776 TTTACTTTTA
9838786 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9838824 AATTTAGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9838902 original size:20 final size:20
Alignment explanation
Indices: 9838873--9838912 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9838863 TTATTAAAAT
*
9838873 CTTATTTAATTAT-TTTTAA
1 CTTATTTAATCATGTTTTAA
9838892 CTTATTTTAATCATGTTTTAA
1 CTTA-TTTAATCATGTTTTAA
9838913 TATTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (20 bp):
CTTATTTAATCATGTTTTAA
Found at i:9841300 original size:31 final size:31
Alignment explanation
Indices: 9841244--9841303 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
9841234 ATAAACCTTA
*
9841244 AAATGAGAAAGGAATCTGGACTTGAGTTCAT
1 AAATGAGAAAGGAATCAGGACTTGAGTTCAT
*
9841275 AAATGAGAAAGGAAT-AGGTCATTGAGTTC
1 AAATGAGAAAGGAATCAGGAC-TTGAGTTC
9841304 TGCTCGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (31 bp):
AAATGAGAAAGGAATCAGGACTTGAGTTCAT
Found at i:9842428 original size:20 final size:20
Alignment explanation
Indices: 9842400--9842437 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9842390 TAAAAGCTGG
*
9842400 TTTCGCTGGAATACTTATTA
1 TTTCGCTGGAACACTTATTA
*
9842420 TTTCTCTGGAACACTTAT
1 TTTCGCTGGAACACTTAT
9842438 ACTTAATCAT
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:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (20 bp):
TTTCGCTGGAACACTTATTA
Found at i:9850754 original size:2 final size:2
Alignment explanation
Indices: 9850747--9850797 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
9850737 AATAAAATTG
*
9850747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9850789 AT AT AT AT A
1 AT AT AT AT A
9850798 CTAATTCTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:9854558 original size:43 final size:43
Alignment explanation
Indices: 9854492--9854852 Score: 351
Period size: 43 Copynumber: 8.4 Consensus size: 43
9854482 GCGGCATTTA
*
9854492 TATCAAAAAACGCCGCTATAGATCTGACCTTTTGCAGCGTTTG
1 TATCCAAAAACGCCGCTATAGATCTGACCTTTTGCAGCGTTTG
* * * *
9854535 TGTCCAAAAACACCGCTACAGATCTGACCTTTTGCGGCGTTTG
1 TATCCAAAAACGCCGCTATAGATCTGACCTTTTGCAGCGTTTG
* * * *
9854578 TATCAAAAAAAGCCGCTATATATCTAACCTTTTGC-GACGTTT-
1 TATCCAAAAACGCCGCTATAGATCTGACCTTTTGCAG-CGTTTG
*
9854620 TTTCCAAAAAC-CCGCTATAGATCTTGACCTTTTGC-GACGTTTG
1 TATCCAAAAACGCCGCTATAGATC-TGACCTTTTGCAG-CGTTTG
* * * *
9854663 TATCCAATAACGCAGCTATATAT-TTACCCTTTTGCAGCGTTT-
1 TATCCAAAAACGCCGCTATAGATCTGA-CCTTTTGCAGCGTTTG
* * * * *
9854705 T-TGGCAAAAACGCCGCTAGAGAACTTGACATTTTGCGGCGTTTG
1 TAT-CCAAAAACGCCGCTATAGATC-TGACCTTTTGCAGCGTTTG
*
9854749 TATCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTG
1 TATCCAAAAACGCCGCTATAGATCT-GACCTTTTGCAGCGTTTG
* * * *
9854793 T-TCCTAAAACGCCGCTATAGATCTTGACTTTTTGTAGCGTTTT
1 TATCCAAAAACGCCGCTATAGATC-TGACCTTTTGCAGCGTTTG
* *
9854836 TATATCACAAACGCCGC
1 TAT-CCAAAAACGCCGC
9854853 CAACATTAGT
Statistics
Matches: 260, Mismatches: 43, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
41 12 0.05
42 43 0.17
43 143 0.55
44 51 0.20
45 11 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
TATCCAAAAACGCCGCTATAGATCTGACCTTTTGCAGCGTTTG
Found at i:9854754 original size:86 final size:86
Alignment explanation
Indices: 9854482--9854826 Score: 387
Period size: 86 Copynumber: 4.0 Consensus size: 86
9854472 ATGGTAATTA
* * * * *
9854482 GCGGCATTTATATCAAAAAACGCCGCTATAGATCTGA-CCTTTTGCAGCGTTTGTGTCCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATATATCT-ACCCTTTTGCAGCGTTTTTG-CCAAAAAC
* *
9854546 ACCGCTACAGATC-TGACCTTTT
64 GCCGCTATAGATCTTGACCTTTT
* * * *
9854568 GCGGCGTTTGTATCAAAAAAAGCCGCTATATATCTAACCTTTTGC-GACGTTTTTTCCAAAAAC-
1 GCGGCGTTTGTATCCAAAAACGCCGCTATATATCTACCCTTTTGCAG-CGTTTTTGCCAAAAACG
9854631 CCGCTATAGATCTTGACCTTTT
65 CCGCTATAGATCTTGACCTTTT
* * * * *
9854653 GCGACGTTTGTATCCAATAACGCAGCTATATATTTACCCTTTTGCAGCGTTTTTGGCAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATATATCTACCCTTTTGCAGCGTTTTTGCCAAAAACGC
* * *
9854718 CGCTAGAGAACTTGACATTTT
66 CGCTATAGATCTTGACCTTTT
* * *
9854739 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-CGACCTTTTGCGGCGTTTGTT-CCTAAAA
1 GCGGCGTTTGTATCCAAAAACGCCGCTATATATCTAC--CCTTTTGCAGCGTTT-TTGCCAAAAA
*
9854802 CGCCGCTATAGATCTTGACTTTTT
63 CGCCGCTATAGATCTTGACCTTTT
9854826 G
1 G
9854827 TAGCGTTTTT
Statistics
Matches: 221, Mismatches: 30, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
84 11 0.05
85 72 0.33
86 95 0.43
87 41 0.19
88 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (86 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATATATCTACCCTTTTGCAGCGTTTTTGCCAAAAACGC
CGCTATAGATCTTGACCTTTT
Found at i:9858391 original size:2 final size:2
Alignment explanation
Indices: 9858386--9858427 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
9858376 GCGCGCGTAC
* * *
9858386 GT GT GT GT GT GT GC GT GT GC GT GT GT GT GT CT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
9858428 ACGTGTATGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.07, G:0.48, T:0.45
Consensus pattern (2 bp):
GT
Found at i:9858836 original size:38 final size:38
Alignment explanation
Indices: 9858794--9858870 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
9858784 TTTTGATCAC
9858794 CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
1 CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
9858832 CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
1 CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
9858870 C
1 C
9858871 TGTTGTCCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (38 bp):
CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
Found at i:9860842 original size:21 final size:20
Alignment explanation
Indices: 9860814--9860857 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9860804 TCGGTAAAAA
* *
9860814 ATTTTACCTAATACATTATT
1 ATTTTACCGAAAACATTATT
*
9860834 ATTTCTACCGAAAATATTATT
1 ATTT-TACCGAAAACATTATT
9860855 ATT
1 ATT
9860858 GGGTGTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTTACCGAAAACATTATT
Found at i:9860985 original size:23 final size:25
Alignment explanation
Indices: 9860955--9861009 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 25
9860945 TACCAAAAAT
9860955 ATTAAAAAAAATTA-AT-ATTTTAG
1 ATTAAAAAAAATTAGATAATTTTAG
**
9860978 ATT-AAAAAAATTAGATAATTTTTT
1 ATTAAAAAAAATTAGATAATTTTAG
9861002 ATTAAAAA
1 ATTAAAAA
9861010 TATTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 10 0.37
23 5 0.19
24 8 0.30
25 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTAAAAAAAATTAGATAATTTTAG
Found at i:9860996 original size:26 final size:24
Alignment explanation
Indices: 9860959--9861014 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
9860949 AAAAATATTA
*
9860959 AAAAAAATTA-AT-ATTTTAGATT
1 AAAAAAATTAGATAATTTTTGATT
*
9860981 AAAAAAATTAGATAATTTTTTATT
1 AAAAAAATTAGATAATTTTTGATT
*
9861005 AAAAATATTA
1 AAAAAAATTA
9861015 AAAAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.34
23 2 0.07
24 17 0.59
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAAAAATTAGATAATTTTTGATT
Found at i:9862031 original size:27 final size:28
Alignment explanation
Indices: 9862000--9862059 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
9861990 TAATATGATT
* * *
9862000 TAAATATGATAATTGATTGATATTAAAA
1 TAAATATGATAATTAATGGATAATAAAA
9862028 -AAATATGATAATTAATGGATAATAAAA
1 TAAATATGATAATTAATGGATAATAAAA
9862055 TAAAT
1 TAAAT
9862060 TTCAATGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (28 bp):
TAAATATGATAATTAATGGATAATAAAA
Found at i:9868784 original size:16 final size:16
Alignment explanation
Indices: 9868763--9868805 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
9868753 AGCAATGAGT
*
9868763 ATGAGCTTAACAATTA
1 ATGAGCTTAACAAGTA
*
9868779 ATGAGCTTAATAAGTA
1 ATGAGCTTAACAAGTA
*
9868795 ACGAGCTTAAC
1 ATGAGCTTAAC
9868806 GAGCAACGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (16 bp):
ATGAGCTTAACAAGTA
Found at i:9870343 original size:203 final size:203
Alignment explanation
Indices: 9869994--9870380 Score: 650
Period size: 203 Copynumber: 1.9 Consensus size: 203
9869984 CTCGAGTTTA
* *
9869994 TAATTCAAAATGTTCTAATTGAACTTTTAAGTGCAATGTTTCCTACTCTGTATAGTCTCCTTGGT
1 TAATTCAAAATGTTCTAATTGAACTTTTAAGTGCAATCTTTCCTACTCAGTATAGTCTCCTTGGT
* *
9870059 AAAATTTATCTGCAAGCTTACATATATCATCAATGGAAAATGATTTAAAACTATTCCTTGGATCC
66 AAAATTTATCTGCAAGCTTACATATATCATCAATGGAAAATGATTTAAAACCATCCCTTGGATCC
*
9870124 AAAGCAGAACTAAGCTTAAGTAACTCAACCATGTTATCTTTGAATCTAATGTTCTTCCCAGTCCT
131 AAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATCTAATGTTCTTCCCAGTCCT
9870189 CAAACTTC
196 CAAACTTC
* * *
9870197 TAATTCAAAATGTTCTAATTGAACTTTTAAGTGCAATCTTTCTTGCTCAGTATAGT-TTCTTGGG
1 TAATTCAAAATGTTCTAATTGAACTTTTAAGTGCAATCTTTCCTACTCAGTATAGTCTCCTT-GG
* * * *
9870261 TCAATTTTATCTGCAAGCTTGCATATATCATCAATGTAAAATGATTTAAAACCATCCCTTGGATC
65 TAAAATTTATCTGCAAGCTTACATATATCATCAATGGAAAATGATTTAAAACCATCCCTTGGATC
9870326 CAAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATCTAATGTTC
130 CAAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATCTAATGTTC
9870381 ATCTCATTCA
Statistics
Matches: 171, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
202 4 0.02
203 167 0.98
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (203 bp):
TAATTCAAAATGTTCTAATTGAACTTTTAAGTGCAATCTTTCCTACTCAGTATAGTCTCCTTGGT
AAAATTTATCTGCAAGCTTACATATATCATCAATGGAAAATGATTTAAAACCATCCCTTGGATCC
AAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATCTAATGTTCTTCCCAGTCCT
CAAACTTC
Found at i:9880996 original size:62 final size:62
Alignment explanation
Indices: 9880841--9881095 Score: 404
Period size: 62 Copynumber: 4.1 Consensus size: 62
9880831 CGTCAATTGT
* *
9880841 TAATTATCCATCCAAATAATTAAATTTAAAAAATATCTTTCATTCATATTAACATAAATTATCAC
1 TAATTATCCATCCAAATAATTAAATTTAAAAAATATATTTCATTCATATTAAC---ACTTATCAC
*
9880906 TAATTATCCATCCAAATAATTAAATTTAAAAAATTTATTTCATTCATATTAACACTTATCAC
1 TAATTATCCATCCAAATAATTAAATTTAAAAAATATATTTCATTCATATTAACACTTATCAC
9880968 TAATTATCCATCCAAATAATTAAATTTAAAAAATATATTTCATTCATATTAACACTTATCAC
1 TAATTATCCATCCAAATAATTAAATTTAAAAAATATATTTCATTCATATTAACACTTATCAC
** * * *
9881030 TAATTATCCATCCAAATAATTAAATTTAAAAAATATCCTCCATTCATGTTGACACTTATCAC
1 TAATTATCCATCCAAATAATTAAATTTAAAAAATATATTTCATTCATATTAACACTTATCAC
9881092 -AATT
1 TAATT
9881096 TAATTAAAAG
Statistics
Matches: 181, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
61 4 0.02
62 126 0.70
65 51 0.28
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (62 bp):
TAATTATCCATCCAAATAATTAAATTTAAAAAATATATTTCATTCATATTAACACTTATCAC
Found at i:9886917 original size:16 final size:16
Alignment explanation
Indices: 9886847--9886917 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
9886837 GGTATTACCC
9886847 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
9886863 GACTTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
9886879 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
* *
9886895 GATCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
9886911 GACCTGT
1 GACCTGT
9886918 AAATGATCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.42
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:9887117 original size:9 final size:9
Alignment explanation
Indices: 9887103--9887132 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
9887093 ATAAAATTAT
9887103 TTAATAAAA
1 TTAATAAAA
9887112 TTAATAAAA
1 TTAATAAAA
9887121 TTAATAAAA
1 TTAATAAAA
9887130 TTA
1 TTA
9887133 TTTAAATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TTAATAAAA
Found at i:9887199 original size:14 final size:14
Alignment explanation
Indices: 9887177--9887223 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
9887167 TGTGAAGGAA
*
9887177 AATTAATATAGTTT
1 AATTTATATAGTTT
9887191 AATTTATATA----
1 AATTTATATAGTTT
9887201 AA-TTATATAGTTT
1 AATTTATATAGTTT
9887214 AATTTATATA
1 AATTTATATA
9887224 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:9887210 original size:23 final size:24
Alignment explanation
Indices: 9887176--9887225 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
9887166 ATGTGAAGGA
9887176 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
9887200 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
9887223 AAA
1 AAA
9887226 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:9887794 original size:13 final size:13
Alignment explanation
Indices: 9887776--9887818 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
9887766 AAAATATAAG
*
9887776 GCAACAACATGAA
1 GCAACAACAGGAA
9887789 GCAACAACAGGAA
1 GCAACAACAGGAA
*
9887802 GCAAGCAGCAGGAA
1 GCAA-CAACAGGAA
9887816 GCA
1 GCA
9887819 GCAGGCAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.49, C:0.23, G:0.26, T:0.02
Consensus pattern (13 bp):
GCAACAACAGGAA
Found at i:9890706 original size:31 final size:32
Alignment explanation
Indices: 9890670--9890768 Score: 146
Period size: 33 Copynumber: 3.1 Consensus size: 32
9890660 AAACCCTTGA
*
9890670 AAAAAAGGATTCAAATATCAACC-AAAACAGAG
1 AAAAAA-GATTCGAATATCAACCAAAAACAGAG
*
9890702 AAAAAAGATTCGAATATCAACCAAAAATAGAG
1 AAAAAAGATTCGAATATCAACCAAAAACAGAG
*
9890734 AAAAAATAATTCGAATATCAACCAAAAACAGAG
1 AAAAAA-GATTCGAATATCAACCAAAAACAGAG
9890767 AA
1 AA
9890769 TTTGAGAGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
31 15 0.25
32 20 0.33
33 26 0.43
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (32 bp):
AAAAAAGATTCGAATATCAACCAAAAACAGAG
Found at i:9890824 original size:13 final size:12
Alignment explanation
Indices: 9890792--9890840 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 12
9890782 GAGAGCTAGT
9890792 GAGATCAAAATGA
1 GAGATC-AAATGA
9890805 GAG---AAATGA
1 GAGATCAAATGA
9890814 GAGATCAAAATGA
1 GAGATC-AAATGA
9890827 GAGATCAAATGA
1 GAGATCAAATGA
9890839 GA
1 GA
9890841 TAATGAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
9 9 0.28
12 8 0.25
13 15 0.47
ACGTcount: A:0.53, C:0.06, G:0.27, T:0.14
Consensus pattern (12 bp):
GAGATCAAATGA
Found at i:9892012 original size:18 final size:19
Alignment explanation
Indices: 9891978--9892013 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9891968 GTTATATATA
*
9891978 TATATATAGTTTTATACAC
1 TATACATAGTTTTATACAC
9891997 TATACATAG-TTTATACA
1 TATACATAGTTTTATACA
9892014 TACATGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
TATACATAGTTTTATACAC
Found at i:9892146 original size:28 final size:28
Alignment explanation
Indices: 9892100--9892174 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
9892090 TATTCTTTAT
* *
9892100 GTTTAGGGTTTATGATTTATAA-TATAAGG
1 GTTTAAGGTTTAGGATTTA-AAGT-TAAGG
*
9892129 G-TTAAGGTTTAGGATTTAAAGTTTAGG
1 GTTTAAGGTTTAGGATTTAAAGTTAAGG
9892156 GTTTAAGGTTTAGGATTTA
1 GTTTAAGGTTTAGGATTTA
9892175 GGGTTTAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.17
28 33 0.80
29 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (28 bp):
GTTTAAGGTTTAGGATTTAAAGTTAAGG
Found at i:9892152 original size:14 final size:14
Alignment explanation
Indices: 9892130--9892208 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
9892120 AATATAAGGG
*
9892130 TTAAGGTTTAGGAT
1 TTAAAGTTTAGGAT
*
9892144 TTAAAGTTTAGGGT
1 TTAAAGTTTAGGAT
*
9892158 TTAAGGTTTAGGAT
1 TTAAAGTTTAGGAT
**
9892172 TTAGGGTTTA-GAT
1 TTAAAGTTTAGGAT
* *
9892185 TATTAAGTTTAGGGT
1 T-TAAAGTTTAGGAT
*
9892200 TTAGAGTTT
1 TTAAAGTTT
9892209 TTTATATAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
13 4 0.08
14 45 0.87
15 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (14 bp):
TTAAAGTTTAGGAT
Found at i:9892158 original size:21 final size:20
Alignment explanation
Indices: 9892134--9892203 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
9892124 TAAGGGTTAA
9892134 GGTTTAGGATTTAAAGTTTAG
1 GGTTTAGGATTT-AAGTTTAG
*
9892155 GGTTTAAGG-TTTAGGATTTAG
1 GGTTT-AGGATTTAAG-TTTAG
9892176 GGTTTA-GATTATTAAGTTTAG
1 GGTTTAGGA-T-TTAAGTTTAG
9892197 GGTTTAG
1 GGTTTAG
9892204 AGTTTTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 30 0.73
22 7 0.17
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (20 bp):
GGTTTAGGATTTAAGTTTAG
Found at i:9892180 original size:28 final size:28
Alignment explanation
Indices: 9892126--9892208 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
9892116 TTATAATATA
*
9892126 AGGG-TTAAGGTTTAGGATTTAAAGTTT
1 AGGGTTTAAGGTTTAGGATTTAGAGTTT
*
9892153 AGGGTTTAAGGTTTAGGATTTAGGGTTT
1 AGGGTTTAAGGTTTAGGATTTAGAGTTT
** *
9892181 AGATTATTAA-GTTTAGGGTTTAGAGTTT
1 AGGGT-TTAAGGTTTAGGATTTAGAGTTT
9892209 TTTATATAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 4 0.08
28 40 0.83
29 4 0.08
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (28 bp):
AGGGTTTAAGGTTTAGGATTTAGAGTTT
Found at i:9892201 original size:7 final size:7
Alignment explanation
Indices: 9892134--9892182 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
9892124 TAAGGGTTAA
9892134 GGTTTAG
1 GGTTTAG
* *
9892141 GATTTAA
1 GGTTTAG
*
9892148 AGTTTAG
1 GGTTTAG
*
9892155 GGTTTAA
1 GGTTTAG
9892162 GGTTTAG
1 GGTTTAG
*
9892169 GATTTAG
1 GGTTTAG
9892176 GGTTTAG
1 GGTTTAG
9892183 ATTATTAAGT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:9892289 original size:2 final size:2
Alignment explanation
Indices: 9892284--9892331 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
9892274 TAATTTACTT
*
9892284 TA TA TA -A TT TA TA TA 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 TA TA TA TA TA TA TA TA
9892325 TA T- TA TA
1 TA TA TA TA
9892332 CATAGTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9892429 original size:42 final size:42
Alignment explanation
Indices: 9892344--9892453 Score: 195
Period size: 42 Copynumber: 2.6 Consensus size: 42
9892334 TAGTTTATAC
9892344 ATACATGTACTATAAGTTACATATAT-GTTTACATTACATGT
1 ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
*
9892385 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
*
9892427 ATACACGTACTATAAGTTACATATATA
1 ATACATGTACTATAAGTTACATATATA
9892454 ACTATTGTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
41 25 0.38
42 40 0.62
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (42 bp):
ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
Found at i:9892693 original size:13 final size:13
Alignment explanation
Indices: 9892656--9893054 Score: 95
Period size: 13 Copynumber: 29.5 Consensus size: 13
9892646 TATTTCTTTA
9892656 ATATATA-TATAT
1 ATATATATTATAT
9892668 ATATATA-TATAT
1 ATATATATTATAT
9892680 ATATATATTATAT
1 ATATATATTATAT
*
9892693 ATATATA-TATCT
1 ATATATATTATAT
9892705 ATATATTACTTATATT
1 ATATA-TA-TTATA-T
*
9892721 AGTTATGCATACATATAT
1 A--TAT--ATA-TTATAT
9892739 ATACTATATTA-AT
1 ATA-TATATTATAT
9892752 ATA-A-ATTATA-
1 ATATATATTATAT
* *
9892762 ACATATAACTATAT
1 ATATAT-ATTATAT
* *
9892776 -TTTATAGTTTATAC
1 ATATATA--TTATAT
9892790 ATATATAGTTTATAT
1 ATATATA--TTATAT
9892805 ATATATATAGTATATT
1 ATATATAT--TATA-T
* *
9892821 AATATATTTTATAA
1 -ATATATATTATAT
9892835 ACTATATATT-T-T
1 A-TATATATTATAT
* *
9892847 -T-TGTAGTTATAC
1 ATATATA-TTATAT
9892859 ATATATAGTT-TAT
1 ATATATA-TTATAT
*
9892872 ATATATATTCACAT
1 ATATATATT-ATAT
* *
9892886 AAACATAATT-TAT
1 ATATAT-ATTATAT
9892899 ATATATAGCTTATAAT
1 ATATATA--TTAT-AT
*
9892915 AATTATATAGTTTTAAT
1 -A-TATATA-TTAT-AT
* * *
9892932 ATAAATATAATTT
1 ATATATATTATAT
*
9892945 ATA-ATTTTATAT
1 ATATATATTATAT
*
9892957 ACATAGT-TTATAT
1 ATATA-TATTATAT
* *
9892970 ATATAGTA-CACAT
1 ATATA-TATTATAT
*
9892983 AAATATAATT-TAT
1 ATATAT-ATTATAT
9892996 ATATATAGTTTATAAT
1 ATATATA--TTAT-AT
9893012 AATATATAGTT-TAT
1 -ATATATA-TTATAT
*
9893026 ATATA-ATTTTAT
1 ATATATATTATAT
9893038 ATATATA-TATAT
1 ATATATATTATAT
9893050 -TATAT
1 ATATAT
9893055 TTTTTTCATT
Statistics
Matches: 293, Mismatches: 45, Indels: 99
0.67 0.10 0.23
Matches are distributed among these distances:
9 3 0.01
10 9 0.03
11 11 0.04
12 55 0.19
13 84 0.29
14 34 0.12
15 44 0.15
16 12 0.04
17 22 0.08
18 11 0.04
19 7 0.02
20 1 0.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (13 bp):
ATATATATTATAT
Found at i:9892843 original size:2 final size:2
Alignment explanation
Indices: 9892656--9892827 Score: 100
Period size: 2 Copynumber: 89.0 Consensus size: 2
9892646 TATTTCTTTA
9892656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** *
9892697 AT AT AT CT AT AT AT -T ACT -T AT AT -T AGT -T AT GC AT AC AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT
* *
9892737 AT AT ACT AT AT -T A- AT AT AA AT -T AT A- AC AT AT A- ACT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
9892776 -T TT AT AGT TT AT AC AT AT AT AGT TT AT AT AT AT AT AT AGT AT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT
9892818 AT -T A- AT AT AT
1 AT AT AT AT AT AT
9892828 TTTATAAACT
Statistics
Matches: 132, Mismatches: 18, Indels: 40
0.69 0.09 0.21
Matches are distributed among these distances:
1 13 0.10
2 110 0.83
3 9 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9892899 original size:96 final size:95
Alignment explanation
Indices: 9892798--9893023 Score: 235
Period size: 96 Copynumber: 2.3 Consensus size: 95
9892788 ACATATATAG
* * ** * *
9892798 TTTATATATATA-TATAGTATATTAATATA-TTTTATAAACTATATATTTTTTGTAGTTATACAT
1 TTTATATATATACTATAATA-ATT-ATATAGTTTTA-AAA-TAAATATAATTTATAATTATACAT
* *
9892861 ATATAGTTTATATATATA-TTCACATAAACATAA
62 ACATAGTTTATATATATAGTACACATAAACATAA
* * *
9892894 TTTATATATATAGCTTATAATAATTATATAGTTTTAATATAAATATAATTTATAATTTTATATAC
1 TTTATATATATA-C-TATAATAATTATATAGTTTTAAAATAAATATAATTTATAATTATACATAC
*
9892959 ATAGTTTATATATATAGTACACATAAATATAA
64 ATAGTTTATATATATAGTACACATAAACATAA
*
9892991 TTTATATATATAGTTTATAATAA-TATATAGTTT
1 TTTATATATATA--CTATAATAATTATATAGTTT
9893024 ATATATAATT
Statistics
Matches: 110, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
96 56 0.51
97 40 0.36
98 8 0.07
99 6 0.05
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (95 bp):
TTTATATATATACTATAATAATTATATAGTTTTAAAATAAATATAATTTATAATTATACATACAT
AGTTTATATATATAGTACACATAAACATAA
Found at i:9893019 original size:30 final size:31
Alignment explanation
Indices: 9892963--9893049 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 31
9892953 ATATACATAG
*
9892963 TTTATATATATAG--TACACATAA-ATATAA
1 TTTATATATATAGTTTATACATAATATATAA
*
9892991 TTTATATATATAGTTTATA-ATAATATATAG
1 TTTATATATATAGTTTATACATAATATATAA
* *
9893021 TTTATATATA-ATTTTATATATATATATAT
1 TTTATATATATAGTTTATACATA-ATATAT
9893050 TATATTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
28 13 0.25
29 11 0.22
30 21 0.41
31 6 0.12
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTATATATATAGTTTATACATAATATATAA
Found at i:9893058 original size:23 final size:23
Alignment explanation
Indices: 9893013--9893058 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9893003 GTTTATAATA
*
9893013 ATATATAGTTTATATATAATTTT
1 ATATATAGTATATATATAATTTT
*
9893036 ATATATA-TATATATTATATTTTT
1 ATATATAGTATATA-TATAATTTT
9893059 TTCATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
ATATATAGTATATATATAATTTT
Found at i:9896601 original size:71 final size:71
Alignment explanation
Indices: 9896485--9896626 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
9896475 ACAGGATAAT
*
9896485 GAACTCATTGATATCTTCTTGGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
1 GAACTCATTGACATCTTCTTGGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
9896550 AGAGAC
66 AGAGAC
*
9896556 GAACTCATTGACATCTTCTTTGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
1 GAACTCATTGACATCTTCTTGGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
9896621 AGAGAC
66 AGAGAC
9896627 ATCTGGTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (71 bp):
GAACTCATTGACATCTTCTTGGAAATGACAATTACTAGACATAGATAAGTTCGAACACGGAAAAT
AGAGAC
Found at i:9907515 original size:21 final size:22
Alignment explanation
Indices: 9907478--9907518 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9907468 TACATGTAAC
9907478 AATATATTATAAAATTTTAAAA
1 AATATATTATAAAATTTTAAAA
*
9907500 AATATA-TATTAAATTTTAA
1 AATATATTATAAAATTTTAA
9907519 TTTTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATATTATAAAATTTTAAAA
Found at i:9907741 original size:26 final size:26
Alignment explanation
Indices: 9907707--9907770 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
9907697 GTTTCACCCG
*
9907707 ACCCGACCCGAATATATGAATTAGAA
1 ACCCAACCCGAATATATGAATTAGAA
*
9907733 ATCCAACCCGAATATATGAATTAGAA
1 ACCCAACCCGAATATATGAATTAGAA
*
9907759 ACCCGACCCGAA
1 ACCCAACCCGAA
9907771 ATAATAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.42, C:0.27, G:0.14, T:0.17
Consensus pattern (26 bp):
ACCCAACCCGAATATATGAATTAGAA
Found at i:9908673 original size:14 final size:15
Alignment explanation
Indices: 9908643--9908693 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
9908633 AATTACGTAT
9908643 TTAATATTTAAATTA
1 TTAATATTTAAATTA
9908658 TTAAT-TTT-AATCTA
1 TTAATATTTAAAT-TA
*
9908672 TTTTAATATTTAAATTT
1 --TTAATATTTAAATTA
9908689 TTAAT
1 TTAAT
9908694 TTTTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 10 0.33
16 5 0.17
17 4 0.13
18 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATATTTAAATTA
Found at i:9908673 original size:23 final size:24
Alignment explanation
Indices: 9908647--9908707 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
9908637 ACGTATTTAA
*
9908647 TATTTAAATTATTAA-TTTTAATC
1 TATTTAAATTATAAATTTTTAATC
*
9908670 TATTTTAATATT-TAAATTTTTAATT
1 TA-TTTAA-ATTATAAATTTTTAATC
*
9908695 TTTTTAAATTATA
1 TATTTAAATTATA
9908708 TCTGACGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 5 0.16
24 15 0.48
25 11 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTAAATTATAAATTTTTAATC
Found at i:9909498 original size:18 final size:18
Alignment explanation
Indices: 9909473--9909521 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
9909463 CAAAAAATTT
9909473 ATAATAATATTTAATGATA
1 ATAATAATATTTAAT-ATA
9909492 A-AAT-A-ATTT-ATATA
1 ATAATAATATTTAATATA
9909506 ATAATAATATTTAATA
1 ATAATAATATTTAATA
9909522 GAAATGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 4 0.15
15 5 0.19
16 5 0.19
17 5 0.19
18 6 0.23
19 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATAATATTTAATATA
Found at i:9910396 original size:18 final size:18
Alignment explanation
Indices: 9910373--9910410 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9910363 TCGATCGTTG
*
9910373 ATATTATTTATTTATTTT
1 ATATTATATATTTATTTT
9910391 ATATTATATATTTATTTT
1 ATATTATATATTTATTTT
9910409 AT
1 AT
9910411 TTTTAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATATTATATATTTATTTT
Found at i:9911421 original size:21 final size:21
Alignment explanation
Indices: 9911397--9911542 Score: 165
Period size: 21 Copynumber: 7.0 Consensus size: 21
9911387 GATTTACATA
* *
9911397 TTCGCGTTACGATAGTCCAAG
1 TTCGCGTTGCGATAGTCGAAG
9911418 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
9911439 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
** * *
9911460 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCGAAG
*
9911481 TT--CGTTACGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
9911500 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCGAAG
9911523 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
9911542 T
1 T
9911543 CTCGTCTCGA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
19 22 0.21
21 74 0.70
23 9 0.09
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:9911581 original size:21 final size:21
Alignment explanation
Indices: 9911555--9911626 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
9911545 CGTCTCGACT
9911555 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
9911576 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
9911597 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
9911618 ATCGCAACG
1 ATCGCAACG
9911627 CGAACTTCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 9 0.21
21 23 0.55
23 10 0.24
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:9911613 original size:42 final size:42
Alignment explanation
Indices: 9911549--9911645 Score: 185
Period size: 42 Copynumber: 2.3 Consensus size: 42
9911539 AAGTCTCGTC
9911549 TCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACT
1 TCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACT
*
9911591 TCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACT
1 TCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACT
9911633 TCGACTATCGCAA
1 TCGACTATCGCAA
9911646 TGCAAATATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (42 bp):
TCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACT
Found at i:9911642 original size:21 final size:19
Alignment explanation
Indices: 9911549--9911645 Score: 77
Period size: 21 Copynumber: 4.7 Consensus size: 19
9911539 AAGTCTCGTC
9911549 TCGACTATCGCAACGAACT
1 TCGACTATCGCAACGAACT
* *
9911568 TGGAATAAATCGCAACGCGAACT
1 TCGACT--ATCGCAA--CGAACT
*
9911591 TCGACTATCGCAACGAATT
1 TCGACTATCGCAACGAACT
* *
9911610 TGGAATAAATCGCAACGCGAACT
1 TCGACT--ATCGCAA--CGAACT
9911633 TCGACTATCGCAA
1 TCGACTATCGCAA
9911646 TGCAAATATA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
19 13 0.22
21 28 0.47
23 19 0.32
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
TCGACTATCGCAACGAACT
Found at i:9913049 original size:2 final size:2
Alignment explanation
Indices: 9913044--9913141 Score: 164
Period size: 2 Copynumber: 50.0 Consensus size: 2
9913034 ACACACACAC
9913044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9913086 AT AT AT AT AT AT AT AT AT AT -T AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9913127 AT -T AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
9913142 TGTTTTATTA
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
1 2 0.02
2 88 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9914916 original size:6 final size:6
Alignment explanation
Indices: 9914905--9914930 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9914895 GCGAAAATGG
9914905 TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TA
9914931 TTTATTCGAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:9918489 original size:105 final size:105
Alignment explanation
Indices: 9918214--9920937 Score: 4786
Period size: 105 Copynumber: 26.0 Consensus size: 105
9918204 GGGTCGCTCA
* *
9918214 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTAC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
* * *
9918279 AGAGCCAATTTCAACTTCTCAACGGAGGATATT-GACTCT
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9918318 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
*
9918383 CAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCC
65 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9918424 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9918489 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
9918529 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9918594 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
9918634 AGACAATGCAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9918699 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9918739 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9918804 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
9918844 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTGAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9918909 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9918949 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9919014 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
9919054 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9919119 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
9919159 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9919224 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
9919264 AGACAATGCAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9919329 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9919369 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9919434 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
9919474 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTGAACAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9919539 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9919579 AGACAACGCAAGTTCAACTTCACGACGAA-GGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9919643 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
9919683 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9919748 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
9919788 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9919853 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
9919893 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9919958 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9919998 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTTAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9920063 AGAGCCAATTTCAACTTCACAACGAACGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9920103 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9920168 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
9920208 AGACAATGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9920273 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9920313 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
9920378 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9920418 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
*
9920483 AGAGCCAATTTCGACTTCACAACGAAGGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
9920523 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
9920588 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
65 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
9920629 AGACAACGCAAGTTCAACTTCACGACGAA-GGACCGCTGGTTGTCAATAAACATTTCCCAATTTC
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
* *
9920693 AGAGCCAATTTCGACTTCACAACGAATGATATTGGACTCC
66 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
9920733 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCTCAATTT
* * * *
9920798 CAGAGCCAATTTCAACGTCTCAACGAAGGATCTT-GAATCC
65 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * * * *
9920838 AAGACAACACAAGCTCAACTTCATGACGAATGGG-CGGCTGATTGTCAACAAA-A-TT-TC-A-T
1 -AGACAACGCAAGTTCAACTTCACGACGAA-GGGACCGCTGGTTGTCAATAAACATTTCTCAATT
* *
9920897 TCAGAGTCAATTTCAACTTCACAGC-AGAGGATATTGGACTC
64 TCAGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
9920938 GGAACAATGC
Statistics
Matches: 2520, Mismatches: 90, Indels: 23
0.96 0.03 0.01
Matches are distributed among these distances:
99 1 0.00
100 29 0.01
101 5 0.00
102 1 0.00
103 2 0.00
104 231 0.09
105 2031 0.81
106 217 0.09
107 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCTCAATTTC
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
Found at i:9921507 original size:2 final size:2
Alignment explanation
Indices: 9921502--9921538 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
9921492 ACACACACAC
*
9921502 AT AT AT AT AT AT AT AT AT AT AT AT -T AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9921539 CATTGTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9929448 original size:2 final size:2
Alignment explanation
Indices: 9929441--9929484 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
9929431 TATTTAATTA
9929441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9929483 AT
1 AT
9929485 GTGGTCATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9930667 original size:19 final size:16
Alignment explanation
Indices: 9930621--9930655 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
9930611 TAAATGTTCA
9930621 ATTAAATTATAATCAG
1 ATTAAATTATAATCAG
9930637 ATTAAATTATAATCAG
1 ATTAAATTATAATCAG
9930653 ATT
1 ATT
9930656 TCATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTAAATTATAATCAG
Found at i:9931460 original size:16 final size:16
Alignment explanation
Indices: 9931435--9931506 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
9931425 TTTCAAATTG
*
9931435 AAAT-TAATAACAAAT
1 AAATATAATAATAAAT
9931450 AAATATAATAAT-AAT
1 AAATATAATAATAAAT
* * * *
9931465 TAATAATATTAATTATT
1 AAAT-ATAATAATAAAT
9931482 AAATATAATAATAAAT
1 AAATATAATAATAAAT
9931498 AAATA-AATA
1 AAATATAATA
9931507 TAGTAATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
15 14 0.30
16 27 0.59
17 5 0.11
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAATAATAAAT
Found at i:9931543 original size:12 final size:12
Alignment explanation
Indices: 9931447--9931545 Score: 60
Period size: 12 Copynumber: 8.1 Consensus size: 12
9931437 ATTAATAACA
*
9931447 AATAAATATAAT
1 AATAATTATAAT
9931459 AATAATTAATAAT
1 AATAATT-ATAAT
* *
9931472 ATTAATTATTA-
1 AATAATTATAAT
*
9931483 AAT-ATAATAAT
1 AATAATTATAAT
*
9931494 AAATAAATA-AAT
1 -AATAATTATAAT
*
9931506 ATAGTAATTAAAAT
1 A-A-TAATTATAAT
**
9931520 ATATTTTTATAAT
1 A-ATAATTATAAT
9931533 AATAATTATAAT
1 AATAATTATAAT
9931545 A
1 A
9931546 TATTTTATAA
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
10 5 0.08
11 3 0.05
12 26 0.39
13 26 0.39
14 6 0.09
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (12 bp):
AATAATTATAAT
Found at i:9931545 original size:25 final size:23
Alignment explanation
Indices: 9931510--9931586 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
9931500 ATAAATATAG
9931510 TAATTAAAATATATTTTTATAATAA
1 TAATTAAAATATA-TTTTATAA-AA
*
9931535 TAATTATAATATATTTTATAAAA
1 TAATTAAAATATATTTTATAAAA
* *
9931558 TAATGAAAA-ATTATTTTATAATA
1 TAATTAAAATA-TATTTTATAAAA
9931581 T-ATTAA
1 TAATTAA
9931587 TATAATAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.11
23 21 0.46
24 8 0.17
25 12 0.26
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
TAATTAAAATATATTTTATAAAA
Found at i:9931553 original size:12 final size:12
Alignment explanation
Indices: 9931517--9931584 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
9931507 TAGTAATTAA
9931517 AATATATTTTTAT
1 AATATA-TTTTAT
*
9931530 AATA-ATAATTAT
1 AATATAT-TTTAT
9931542 AATATATTTTAT
1 AATATATTTTAT
* * ** *
9931554 AAAATAATGAAA
1 AATATATTTTAT
9931566 AAT-TATTTTAT
1 AATATATTTTAT
9931577 AATATATT
1 AATATATT
9931585 AATATAATAA
Statistics
Matches: 40, Mismatches: 12, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
11 8 0.20
12 26 0.65
13 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (12 bp):
AATATATTTTAT
Found at i:9935213 original size:21 final size:20
Alignment explanation
Indices: 9935127--9935284 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
9935117 AAATGACCAA
**
9935127 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
9935146 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
9935166 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
9935186 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
9935207 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
9935228 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
9935248 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
9935269 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
9935285 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:9935313 original size:20 final size:20
Alignment explanation
Indices: 9935251--9935444 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
9935241 CGATTTTCCA
* ** *
9935251 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
9935271 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
9935291 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
9935311 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
9935331 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
9935351 AAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
9935371 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
9935391 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
*
9935411 AAAATCGCAACGCGTATCTGT
1 -AAATCGCAACGCGTATCCGT
9935432 AAATCGCAACGCG
1 AAATCGCAACGCG
9935445 ATATTTAAAG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 16 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:9935335 original size:60 final size:60
Alignment explanation
Indices: 9935251--9935444 Score: 235
Period size: 60 Copynumber: 3.2 Consensus size: 60
9935241 CGATTTTCCA
* ** * *
9935251 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** * *
9935311 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* ** *
9935371 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCTGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
9935432 AAATCGCAACGCG
1 AAATCGCAACGCG
9935445 ATATTTAAAG
Statistics
Matches: 109, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
60 80 0.73
61 29 0.27
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:9935866 original size:33 final size:33
Alignment explanation
Indices: 9935826--9935896 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
9935816 TTCACTTAGA
9935826 TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
* * *
9935859 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
9935892 TTTCA
1 TTTCA
9935897 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.13, C:0.24, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTCATTTCACGTTACGATTCTCTCGTTGCGAT
Found at i:9936020 original size:20 final size:20
Alignment explanation
Indices: 9935976--9936050 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
9935966 TGCAGAAGAG
*
9935976 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
9935997 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
*
9936017 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
9936036 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
9936051 CGCAACGCGA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.34
20 18 0.41
21 11 0.25
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:9936039 original size:19 final size:19
Alignment explanation
Indices: 9935976--9936046 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
9935966 TGCAGAAGAG
9935976 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAG--AAATGAAAA
***
9935997 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGA-AATGAAAA
*
9936017 TCGCAACGCGAAATGAAAA
1 TCGCAACGAGAAATGAAAA
9936036 TCGCAACGAGA
1 TCGCAACGAGA
9936047 GAATCGCAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 16 0.39
20 15 0.37
21 10 0.24
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.13
Consensus pattern (19 bp):
TCGCAACGAGAAATGAAAA
Found at i:9936059 original size:33 final size:36
Alignment explanation
Indices: 9935969--9936073 Score: 108
Period size: 39 Copynumber: 2.9 Consensus size: 36
9935959 TTCAATTTGC
* *
9935969 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAAGACTCGCAACGCG--AAATGAAAATCGCAACGAG
9936007 AGAATGACTGTCGCAACGCGAAATGAAAATCGCAACGAG
1 AGAA-GAC--TCGCAACGCGAAATGAAAATCGCAACGAG
**
9936046 AG-A-A-TCGCAACGCGAAACCAAAATCGCA
1 AGAAGACTCGCAACGCGAAATGAAAATCGCA
9936074 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
33 22 0.37
36 1 0.02
38 5 0.08
39 23 0.38
41 9 0.15
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (36 bp):
AGAAGACTCGCAACGCGAAATGAAAATCGCAACGAG
Found at i:9936109 original size:14 final size:14
Alignment explanation
Indices: 9936090--9936179 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
9936080 TTTTATTTCG
9936090 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
9936104 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
9936123 CGTTGCGATTATCT
1 CGTTGCGATTCTCT
9936137 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
9936154 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
9936170 CGTTGCGATT
1 CGTTGCGATT
9936180 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 28 0.45
15 1 0.02
16 7 0.11
17 7 0.11
18 1 0.02
19 18 0.29
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:9936126 original size:33 final size:33
Alignment explanation
Indices: 9936074--9936187 Score: 194
Period size: 33 Copynumber: 3.5 Consensus size: 33
9936064 CAAAATCGCA
9936074 TTGCGATTTT-ATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
9936106 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
9936139 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
9936172 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
9936188 AACCAAAAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 10 0.13
33 65 0.87
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:9936128 original size:19 final size:18
Alignment explanation
Indices: 9936069--9936185 Score: 71
Period size: 14 Copynumber: 7.1 Consensus size: 18
9936059 GAAACCAAAA
*
9936069 TCGCATTGCGATTTT-ATT
1 TCGCGTTGCGATTTTCA-T
9936087 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
9936101 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
9936120 TCGCGTTGCGA--TT-A-
1 TCGCGTTGCGATTTTCAT
* *
9936134 TCTCGTTGCGATTGTCAT
1 TCGCGTTGCGATTTTCAT
9936152 CTCGCGTTGCGA--TTC--
1 -TCGCGTTGCGATTTTCAT
*
9936167 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
9936185 T
1 T
9936186 TCAACCAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 30
0.67 0.07 0.26
Matches are distributed among these distances:
14 30 0.39
16 10 0.13
17 5 0.07
18 11 0.14
19 20 0.26
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:9938357 original size:93 final size:93
Alignment explanation
Indices: 9937867--9938338 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
9937857 TAGATTGCTT
*
9937867 AGTAAATTTATTCGG-TGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
9937931 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
9937959 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
9938024 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
9938052 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
9938117 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
9938145 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
9938210 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
9938238 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
9938303 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
9938330 AGTAAATTT
1 AGTAAATTT
9938339 ATCCATTCAA
Statistics
Matches: 377, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 50 0.13
93 327 0.87
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:9938422 original size:19 final size:19
Alignment explanation
Indices: 9938382--9938510 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
9938372 TAGTTTACTT
* *
9938382 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
9938402 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
9938421 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
9938440 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
*
9938454 TCGCAACGCGAAACCATAA
1 TCGCAACGCGAAACCAAAA
*
9938473 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
9938487 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
9938506 TCGCA
1 TCGCA
9938511 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:9938461 original size:33 final size:32
Alignment explanation
Indices: 9938418--9938510 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
9938408 CGCGAAACCA
**
9938418 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
9938450 AGAATCGCAACGCGAAACCATAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
9938483 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
9938511 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.96
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:9938508 original size:52 final size:52
Alignment explanation
Indices: 9938382--9938510 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
9938372 TAGTTTACTT
**
9938382 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * * *
9938434 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCATAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
9938487 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
9938511 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 41 0.67
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:9938528 original size:19 final size:19
Alignment explanation
Indices: 9938506--9938624 Score: 114
Period size: 19 Copynumber: 6.8 Consensus size: 19
9938496 GAAACCAAAA
9938506 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
9938525 TCGCGTTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
9938541 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
9938558 TCGCATTGCGA--TT-ATG
1 TCGCATTGCGATTTTCATT
9938574 T--CATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* **
9938591 TCGCGTTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
*
9938610 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
9938625 AAGTTTCGTG
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
14 14 0.17
16 13 0.15
17 13 0.15
19 44 0.52
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:9938553 original size:33 final size:33
Alignment explanation
Indices: 9938509--9938603 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 33
9938499 ACCAAAATCG
* *
9938509 CATTGCGATTTTCATTTCGCGTTGCGATTCTTT
1 CATTGCGATTTTCATTTCGCGTTGCGATTATGT
* *
9938542 CGTTGCGATTTTCATTTCGCATTGCGATTATGT
1 CATTGCGATTTTCATTTCGCGTTGCGATTATGT
9938575 CATTGCGATTTTCATTTCGCGTTGCGATT
1 CATTGCGATTTTCATTTCGCGTTGCGATT
9938604 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTATGT
Found at i:9938632 original size:20 final size:19
Alignment explanation
Indices: 9938577--9938640 Score: 85
Period size: 19 Copynumber: 3.3 Consensus size: 19
9938567 GATTATGTCA
9938577 TTGCGATTTTCA-TTTCGCG
1 TTGCGATTTT-AGTTTCGCG
*
9938596 TTGCGATTTTGGTTTCGCG
1 TTGCGATTTTAGTTTCGCG
*
9938615 TTGCGATTTTAAGTTTCGTG
1 TTGCGATTTT-AGTTTCGCG
9938635 TTGCGA
1 TTGCGA
9938641 AAGTAAACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTAGTTTCGCG
Found at i:9940581 original size:14 final size:14
Alignment explanation
Indices: 9940562--9940597 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
9940552 ATTGTTTAAT
9940562 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
9940576 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
9940590 TGATTTGT
1 TGATTTGT
9940598 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:9940731 original size:19 final size:19
Alignment explanation
Indices: 9940704--9940801 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
9940694 AAAATTGACT
9940704 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9940723 ATTGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9940742 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
9940756 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9940775 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
9940795 ATCGCAA
1 ATCGCAA
9940802 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 37 0.54
20 16 0.23
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9940833 original size:53 final size:53
Alignment explanation
Indices: 9940704--9940820 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
9940694 AAAATTGACT
*
9940704 ATCGCAATGCGAAATGAAAATTGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
9940756 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
9940809 ATCGCAATGCGA
1 ATCGCAATGCGA
9940821 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.44
53 35 0.56
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:9943148 original size:12 final size:12
Alignment explanation
Indices: 9943131--9943155 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9943121 TCTTCGGGGA
9943131 CTTTTTCTTCTT
1 CTTTTTCTTCTT
9943143 CTTTTTCTTCTT
1 CTTTTTCTTCTT
9943155 C
1 C
9943156 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:9943363 original size:24 final size:24
Alignment explanation
Indices: 9943329--9943375 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9943319 CTGAAACATC
9943329 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
9943353 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
9943376 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:9944190 original size:99 final size:98
Alignment explanation
Indices: 9944075--9944265 Score: 251
Period size: 99 Copynumber: 1.9 Consensus size: 98
9944065 TACAGATTCT
* * * * *
9944075 CGTTGCGATTTACGGATTATCG-TTGCGATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGT
1 CGTTGCGATATACGGA-TA-CGATTGCGATTTACACATACGCGTTGCGATTTACGGA-TACGCGT
* *
9944138 TGCGATTTACAGATTCTCGTTGCGATTTACGGATAG
63 TGCGATTTACAGATACGCGTTGCGATTTACGGATAG
*
9944174 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATATACGGATACG-ATTGCGATTTACACATACGCGTTGCGATTTACGGATACGCGTTG
*
9944239 CGATTTACGGATACGCGTTGCGATTTA
65 CGATTTACAGATACGCGTTGCGATTTA
9944266 TGTGTTCGCG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
97 2 0.03
98 4 0.05
99 74 0.93
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (98 bp):
CGTTGCGATATACGGATACGATTGCGATTTACACATACGCGTTGCGATTTACGGATACGCGTTGC
GATTTACAGATACGCGTTGCGATTTACGGATAG
Found at i:9944305 original size:20 final size:20
Alignment explanation
Indices: 9944056--9944304 Score: 259
Period size: 20 Copynumber: 12.5 Consensus size: 20
9944046 AAATTTCAGT
* * *
9944056 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
9944076 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
9944096 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
9944116 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
9944136 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
9944156 GTTGCGATTTACGGA-TAGC
1 GTTGCGATTTACGGATTCGC
* *
9944175 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
9944195 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
9944215 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
9944235 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
9944255 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
9944275 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
9944295 GTTGCGATTT
1 GTTGCGATTT
9944305 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.08
20 181 0.91
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:9944321 original size:21 final size:21
Alignment explanation
Indices: 9944291--9944373 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
9944281 ATTTTCATAT
*
9944291 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
9944312 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
9944333 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
9944354 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
9944374 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:9944364 original size:42 final size:43
Alignment explanation
Indices: 9944271--9944369 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
9944261 ATTTATGTGT
* *
9944271 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
9944312 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
9944354 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
9944370 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:9947304 original size:29 final size:29
Alignment explanation
Indices: 9947262--9947350 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
9947252 TACCGGGGGT
*
9947262 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
9947291 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
9947320 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
9947349 AG
1 AG
9947351 CCAACGACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:9947617 original size:28 final size:29
Alignment explanation
Indices: 9947562--9947619 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
9947552 CATGCATGAA
9947562 TCCTTGGTCGCCCCGAGTGCATGGCGACC
1 TCCTTGGTCGCCCCGAGTGCATGGCGACC
* *
9947591 TCCTTGGTCG-CCGGCGTGCATGGCGACC
1 TCCTTGGTCGCCCCGAGTGCATGGCGACC
9947619 T
1 T
9947620 AGGAGGTCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.09, C:0.36, G:0.33, T:0.22
Consensus pattern (29 bp):
TCCTTGGTCGCCCCGAGTGCATGGCGACC
Found at i:9947627 original size:28 final size:29
Alignment explanation
Indices: 9947567--9947649 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
9947557 ATGAATCCTT
* * * **
9947567 GGTCGCCCCGAGTGCATGGCGACCTCCTT
1 GGTCGCTCGGAGTGCATGGCGACCTACGA
* *
9947596 GGTCGC-CGGCGTGCATGGCGACCTAGGA
1 GGTCGCTCGGAGTGCATGGCGACCTACGA
*
9947624 GGTCGCTGGGAGTGCATGGCGACCTA
1 GGTCGCTCGGAGTGCATGGCGACCTA
9947650 TGGTTGGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.18
Consensus pattern (29 bp):
GGTCGCTCGGAGTGCATGGCGACCTACGA
Found at i:9963611 original size:17 final size:17
Alignment explanation
Indices: 9963589--9963622 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9963579 CGTGGTAAAC
9963589 AAGGAAAGAAATCAGAG
1 AAGGAAAGAAATCAGAG
*
9963606 AAGGAAAGAAATTAGAG
1 AAGGAAAGAAATCAGAG
9963623 CCAACCCTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.29, T:0.09
Consensus pattern (17 bp):
AAGGAAAGAAATCAGAG
Found at i:9965775 original size:20 final size:19
Alignment explanation
Indices: 9965752--9965798 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
9965742 CGATATAACA
9965752 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
9965772 GGTATCAAAATGATGAAACC
1 GGTA-AAAAATGATAAAACC
9965792 GGTAAAA
1 GGTAAAA
9965799 CGCTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:9965919 original size:182 final size:183
Alignment explanation
Indices: 9965539--9966010 Score: 702
Period size: 183 Copynumber: 2.6 Consensus size: 183
9965529 GATCCAAATT
* * * * **
9965539 AAAAATGTATCGATCTACAACGATATAACAGGTAAAACTATGACAAAACCGATATTGAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
9965604 AAACTGGTAAAGCGGTACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
9965669 GTTAATTTAAAAGAGAAGTAATTTTAGCGCCTATAAAATGTCGATACTTTAAA
131 GTGAATTTAAAAGAGAAGTAATTTTAGCGCCTATAAAATGTCGATACTTTAAA
*
9965722 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
9965787 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATCCTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* ** *
9965851 GTGAATTTAAAAGAGAAGCT-GTTTTAGCGTTTATAAAGTGTCGATACTTTAAA
131 GTGAATTTAAAAGAGAAG-TAATTTTAGCGCCTATAAAATGTCGATACTTTAAA
*
9965904 AAAAATGTATCGATCCACAACGATATAAC---TAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
**
9965966 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTTAATACTTT
66 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
9966011 CGTAAGTACG
Statistics
Matches: 264, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
179 73 0.28
182 93 0.35
183 98 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (183 bp):
AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGTAATTTTAGCGCCTATAAAATGTCGATACTTTAAA
Found at i:9966934 original size:16 final size:16
Alignment explanation
Indices: 9966913--9966943 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9966903 AAAAACGTTT
9966913 ATATTTAATATTAAAA
1 ATATTTAATATTAAAA
9966929 ATATTTAATATTAAA
1 ATATTTAATATTAAA
9966944 GATGTGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTTAATATTAAAA
Found at i:9980240 original size:17 final size:18
Alignment explanation
Indices: 9980203--9980244 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9980193 TTTATGAGGA
*
9980203 AATTAGAATCTGTGAAGG
1 AATTGGAATCTGTGAAGG
*
9980221 AATTGGAATCTGT-CAGG
1 AATTGGAATCTGTGAAGG
9980238 AATTGGA
1 AATTGGA
9980245 GTCTAATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (18 bp):
AATTGGAATCTGTGAAGG
Found at i:9980750 original size:12 final size:12
Alignment explanation
Indices: 9980733--9980759 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9980723 GAAAAAATTA
9980733 TATATAGAGGGG
1 TATATAGAGGGG
9980745 TATATAGAGGGG
1 TATATAGAGGGG
9980757 TAT
1 TAT
9980760 TATTGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (12 bp):
TATATAGAGGGG
Found at i:9981874 original size:365 final size:365
Alignment explanation
Indices: 9981204--9981906 Score: 1370
Period size: 365 Copynumber: 1.9 Consensus size: 365
9981194 CGACCCGAAA
*
9981204 TAATAAAAAAATATTTTTATTTAATATATGAATAAGTTACCAAAAGATTGATGAGGGTAGTATGG
1 TAATAAAAAAATATTTTTATTTAATATATGAATAAGTTACCAAAAGATTAATGAGGGTAGTATGG
9981269 TCAAATTTCAATTCCCTCAAATAAGGGAATTGAATTCCATCCATTCTTGGATGAAATTCATTTTC
66 TCAAATTTCAATTCCCTCAAATAAGGGAATTGAATTCCATCCATTCTTGGATGAAATTCATTTTC
*
9981334 CCTAATTTAATAGAAAGTTGAAGCCATGAGGTATTCCAATTTCTTTGGAAAACTTGAACCAAACA
131 CCTAATTTAATAGAAAGTTGAAGCCATGAGGTATTCCAATTCCTTTGGAAAACTTGAACCAAACA
*
9981399 TGGGAAAGTGGTGGAATTAGATTTCAATTCTCTCCAATTCCATTCAACCAAACGTCACCTCATTG
196 TGGGAAAGTGGTGGAATTAGATTTCAATTCTCTCCAATTCCATCCAACCAAACGTCACCTCATTG
9981464 TTATTTGATTACATAAAATTATGGCTGAACAAATGCCAATAAATCTGGAATATCCCTTCCACAAG
261 TTATTTGATTACATAAAATTATGGCTGAACAAATGCCAATAAATCTGGAATATCCCTTCCACAAG
9981529 AAGCGAGCCCCGAATATATGATGAGGGTAGTATTTTTATT
326 AAGCGAGCCCCGAATATATGATGAGGGTAGTATTTTTATT
9981569 TAATAAAAAAATATTTTTATTTAATATATGAATAAGTTACCAAAAGATTAATGAGGGTAGTATGG
1 TAATAAAAAAATATTTTTATTTAATATATGAATAAGTTACCAAAAGATTAATGAGGGTAGTATGG
9981634 TCAAATTTCAATTCCCTCAAATAAGGGAATTGAATTCCATCCATTCTTGGATGAAATTCATTTTC
66 TCAAATTTCAATTCCCTCAAATAAGGGAATTGAATTCCATCCATTCTTGGATGAAATTCATTTTC
9981699 CCTAATTTAATAGAAAGTTGAAGCCATGAGGTATTCCAATTCCTTTGGAAAACTTGAACCAAACA
131 CCTAATTTAATAGAAAGTTGAAGCCATGAGGTATTCCAATTCCTTTGGAAAACTTGAACCAAACA
9981764 TGGGAAAGTGGTGGAATTAGATTTCAATTCTCTCCAATTCCATCCAACCAAACGTCACCTCATTG
196 TGGGAAAGTGGTGGAATTAGATTTCAATTCTCTCCAATTCCATCCAACCAAACGTCACCTCATTG
*
9981829 TTATTTGATTACATAAAATTATGGCTGAACAAATGCCAATAAATCTGGAATATCCCTTCCACAGG
261 TTATTTGATTACATAAAATTATGGCTGAACAAATGCCAATAAATCTGGAATATCCCTTCCACAAG
9981894 AAGCGAGCCCCGA
326 AAGCGAGCCCCGA
9981907 CTCCCGATTA
Statistics
Matches: 334, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
365 334 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (365 bp):
TAATAAAAAAATATTTTTATTTAATATATGAATAAGTTACCAAAAGATTAATGAGGGTAGTATGG
TCAAATTTCAATTCCCTCAAATAAGGGAATTGAATTCCATCCATTCTTGGATGAAATTCATTTTC
CCTAATTTAATAGAAAGTTGAAGCCATGAGGTATTCCAATTCCTTTGGAAAACTTGAACCAAACA
TGGGAAAGTGGTGGAATTAGATTTCAATTCTCTCCAATTCCATCCAACCAAACGTCACCTCATTG
TTATTTGATTACATAAAATTATGGCTGAACAAATGCCAATAAATCTGGAATATCCCTTCCACAAG
AAGCGAGCCCCGAATATATGATGAGGGTAGTATTTTTATT
Found at i:9983418 original size:18 final size:19
Alignment explanation
Indices: 9983392--9983427 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9983382 ATTTATCCTC
9983392 ATTATTTTATTTTCTTTAT
1 ATTATTTTATTTTCTTTAT
9983411 ATTA-TTTATTTTCTTTA
1 ATTATTTTATTTTCTTTA
9983428 CTCTAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTATTTTATTTTCTTTAT
Found at i:9985388 original size:3 final size:3
Alignment explanation
Indices: 9985382--9985503 Score: 154
Period size: 3 Copynumber: 40.0 Consensus size: 3
9985372 TTCATTTAAA
** * * *
9985382 ATT ATT ATT ATT AAA ATT ATT ATT ATT AGT ATT ATT ATT AGT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
9985430 ATT ATT ATT ATT ATA ATA ATT ATT ATT ATT ATT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
*
9985476 ATT ATT AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT
9985504 TAATAAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
3 97 0.94
4 6 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:9987019 original size:18 final size:18
Alignment explanation
Indices: 9986985--9987019 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9986975 TAATTATGTC
* *
9986985 AATATATATAGTCTTATA
1 AATATATATAATATTATA
9987003 AATATATATAATATTAT
1 AATATATATAATATTAT
9987020 TTATTTATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
AATATATATAATATTATA
Found at i:9987831 original size:17 final size:15
Alignment explanation
Indices: 9987799--9987842 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
9987789 TTTCTTTCAA
9987799 ATTTTTATTATTTATT
1 ATTTTTA-TATTTATT
9987815 ATTTTTATATTAATATT
1 ATTTTTATATT--TATT
*
9987832 ATTTTTTTATT
1 ATTTTTATATT
9987843 CAGGTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 14 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTATATTTATT
Found at i:9992486 original size:16 final size:17
Alignment explanation
Indices: 9992456--9992491 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
9992446 CTCATCCAGC
*
9992456 AAAGAAAGAATAAAAAA
1 AAAGAAAGAAGAAAAAA
9992473 AAAG-AAGAAGAAAAAA
1 AAAGAAAGAAGAAAAAA
9992489 AAA
1 AAA
9992492 AAGGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAGAAAGAAGAAAAAA
Found at i:9995082 original size:185 final size:185
Alignment explanation
Indices: 9994769--9995143 Score: 592
Period size: 185 Copynumber: 2.0 Consensus size: 185
9994759 TAAGGAGACC
* *
9994769 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
* * *
9994834 TTATTAAATTTGGAAGAGGAATGTGCTGATAACATCTTCTGGAAATGTTCTTTGAGTTATCTGAT
66 TCATTAAATTTGGAAGAGGAATGTGCTCATAACATCTTCTGGAAATGTTCTTTGAATTATCTGAT
* *
9994899 CTGGTTTGGTATG-AACCACATGAA-CTAGTTATTGAATTTGGAAGAGGAATATGCT
131 CTGGTTTGGTATGAAACCACA-GAATC-AATCATTGAATTTGGAAGAGGAATATGCT
*
9994954 GATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
1 CATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
* * * *
9995019 TCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGAT
66 TCATTAAATTTGGAAGAGGAATGTGCTCATAACATCTTCTGGAAATGTTCTTTGAATTATCTGAT
* *
9995084 CTGGTTTGGTATGAAACCACAGAATCAATCATTGAATTTGGAAGATGAATTTGCT
131 CTGGTTTGGTATGAAACCACAGAATCAATCATTGAATTTGGAAGAGGAATATGCT
9995139 CATAG
1 CATAG
9995144 GAGGAAGAGG
Statistics
Matches: 173, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
185 165 0.95
186 8 0.05
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (185 bp):
CATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
TCATTAAATTTGGAAGAGGAATGTGCTCATAACATCTTCTGGAAATGTTCTTTGAATTATCTGAT
CTGGTTTGGTATGAAACCACAGAATCAATCATTGAATTTGGAAGAGGAATATGCT
Found at i:9995086 original size:92 final size:92
Alignment explanation
Indices: 9994769--9995143 Score: 579
Period size: 92 Copynumber: 4.1 Consensus size: 92
9994759 TAAGGAGACC
* *
9994769 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
* *
9994834 TTATTAAATTTGGAAGAGGAATGTGCT
66 TCATTGAATTTGGAAGAGGAATGTGCT
* * *
9994861 GATAACATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACATGAACTA
1 CATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA-GAACCA
* * *
9994926 GTTATTGAATTTGGAAGAGGAATATGCT
65 ATCATTGAATTTGGAAGAGGAATGTGCT
*
9994954 GATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
1 CATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
*
9995019 TCATTGAATTTGGAAGATGAATGTGCT
66 TCATTGAATTTGGAAGAGGAATGTGCT
* * *
9995046 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
* *
9995111 ATCATTGAATTTGGAAGATGAATTTGCT
65 ATCATTGAATTTGGAAGAGGAATGTGCT
9995139 CATAG
1 CATAG
9995144 GAGGAAGAGG
Statistics
Matches: 264, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
92 132 0.50
93 132 0.50
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (92 bp):
CATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
TCATTGAATTTGGAAGAGGAATGTGCT
Found at i:9997673 original size:22 final size:22
Alignment explanation
Indices: 9997644--9997698 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
9997634 ATCTACACTC
9997644 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
9997666 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
9997688 TTCAAAGATGA
1 TTCAAAGATGA
9997699 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:9998560 original size:76 final size:76
Alignment explanation
Indices: 9998372--9998868 Score: 878
Period size: 76 Copynumber: 6.6 Consensus size: 76
9998362 CTATTTCTCA
9998372 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGAGGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
9998435 ATCCTTCGGGT
66 ATCCTTCGGGT
9998446 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
9998511 ATCCTTCGGGT
66 ATCCTTCGGGT
*
9998522 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
*
9998587 AACCTTCGGGT
66 ATCCTTCGGGT
*
9998598 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
9998663 ATCCTTCGGGT
66 ATCCTTCGGGT
*
9998674 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG-GCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
*
9998738 AGCCTTCGGGT
66 ATCCTTCGGGT
*
9998749 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
*
9998814 AACCTTCGGGT
66 ATCCTTCGGGT
* *
9998825 CATCTGTAAGTCCTCCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
9998869 TCATCTGTAA
Statistics
Matches: 409, Mismatches: 11, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
74 57 0.14
75 90 0.22
76 262 0.64
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
ATCCTTCGGGT
Found at i:9998834 original size:151 final size:152
Alignment explanation
Indices: 9998372--9998868 Score: 887
Period size: 151 Copynumber: 3.3 Consensus size: 152
9998362 CTATTTCTCA
*
9998372 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGAGGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
9998435 ATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
9998500 GAGGTTTTCAAATCCTTCGGGT
131 GAGGTTTTCAAATCCTTCGGGT
9998522 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
9998587 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
9998652 GAGGTTTTCAAATCCTTCGGGT
131 GAGGTTTTCAAATCCTTCGGGT
9998674 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG-GCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
9998738 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
9998803 GATGTTTTCAAAACCTTCGGGT
131 GAGGTTTTCAAATCCTTCGGGT
* *
9998825 CATCTGTAAGTCCTCCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
9998869 TCATCTGTAA
Statistics
Matches: 336, Mismatches: 9, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
149 8 0.02
150 53 0.16
151 143 0.43
152 132 0.39
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (152 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GAGGTTTTCAAATCCTTCGGGT
Found at i:9998866 original size:45 final size:45
Alignment explanation
Indices: 9998802--9998915 Score: 201
Period size: 45 Copynumber: 2.5 Consensus size: 45
9998792 GGGAGCTTTT
9998802 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
9998847 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
*
9998892 TGATGTTTCCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
9998916 AGCTTTTTGA
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
45 54 0.82
46 4 0.06
47 8 0.12
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
Found at i:9998929 original size:76 final size:76
Alignment explanation
Indices: 9998847--9999197 Score: 608
Period size: 76 Copynumber: 4.7 Consensus size: 76
9998837 CTCCAGTGCA
9998847 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
9998912 CGGGAGCTTTT
66 CGGGAGCTTTT
9998923 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATG-TG-TTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
9998986 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
9998997 TGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
9999061 CGGGAGCTTTT
66 CGGGAGCTTTT
9999072 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCC-AAAAGCCT
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCT
9999136 TC-GGAGC-TTT
65 TCGGGAGCTTTT
* *
9999146 TGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTT
9999198 TTAACGTTTC
Statistics
Matches: 265, Mismatches: 6, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
72 41 0.15
73 43 0.16
74 40 0.15
75 37 0.14
76 61 0.23
77 43 0.16
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (76 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTT
Found at i:9998930 original size:227 final size:228
Alignment explanation
Indices: 9998372--9998884 Score: 743
Period size: 227 Copynumber: 2.3 Consensus size: 228
9998362 CTATTTCTCA
* * * * **
9998372 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCT-TTTGAGGTTTTC-A
1 CATCTGTAAGCCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTCTGTGAAGTCCTCAA
* ***
9998435 ATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 ATCCATCGGGTCATCAAAAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
9998500 GAGGTTTTCAAATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GAGGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
9998565 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
* * * * **
9998598 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAGGTTTTCAA
1 CATCTGTAAGCCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTCTGTGAAGTCCTCAA
* ***
9998663 ATCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGG-GCTTTTT
66 ATCCATCGGGTCATCAAAAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
9998727 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GAGGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
9998792 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
* * *
9998825 CATCTGTAAGTCCTCCAGTGCATGATGTTTTC-AAAA-CCTTCGGG-TCATCTGT-AAGTCCTC
1 CATCTGTAAGCCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TCTGTGAAGTCCTC
9998885 CAGTGCATGA
Statistics
Matches: 272, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
224 6 0.02
225 11 0.04
226 53 0.19
227 144 0.53
228 58 0.21
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGCCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTCTGTGAAGTCCTCAA
ATCCATCGGGTCATCAAAAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GAGGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
Found at i:9998940 original size:121 final size:121
Alignment explanation
Indices: 9998726--9998973 Score: 471
Period size: 121 Copynumber: 2.1 Consensus size: 121
9998716 CGGGGCTTTT
* *
9998726 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
9998791 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
9998847 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
9998912 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
66 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
9998968 TG-TGTT
1 TGATGTT
9998974 CCAAAAAGCC
Statistics
Matches: 125, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
120 4 0.03
121 121 0.97
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (121 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCA
Found at i:9999147 original size:149 final size:149
Alignment explanation
Indices: 9998847--9999197 Score: 627
Period size: 149 Copynumber: 2.3 Consensus size: 149
9998837 CTCCAGTGCA
* *
9998847 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
9998912 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGTGTTCCA
65 CGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGTGTTCCA
9998977 AAAAGCCTTCGGGAGCTTTT
130 AAAAGCCTTCGGGAGCTTTT
9998997 TGATGTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
1 TGATGTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
9999062 GGGAGCTTTTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGATGTTTC
66 GGGAGCTTTTTGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATG-TG-TTC
9999127 C-AAAAGCCTTC-GGAGC-TTT
128 CAAAAAGCCTTCGGGAGCTTTT
9999146 TGATGTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
1 TGATGTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
9999198 TTAACGTTTC
Statistics
Matches: 196, Mismatches: 2, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
149 133 0.68
150 47 0.24
151 12 0.06
152 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (149 bp):
TGATGTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAGTGCATGTGTTCCAA
AAAGCCTTCGGGAGCTTTT
Found at i:9999335 original size:3 final size:3
Alignment explanation
Indices: 9999329--9999450 Score: 154
Period size: 3 Copynumber: 40.0 Consensus size: 3
9999319 TTCATTTAAA
** * * *
9999329 ATT ATT ATT ATT AAA ATT ATT ATT ATT AGT ATT ATT ATT AGT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
9999377 ATT ATT ATT ATT ATA ATA ATT ATT ATT ATT ATT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
*
9999423 ATT ATT AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT
9999451 TAATAAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
3 97 0.94
4 6 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:10001211 original size:109 final size:110
Alignment explanation
Indices: 10001036--10001233 Score: 283
Period size: 109 Copynumber: 1.8 Consensus size: 110
10001026 AATAATCATA
* * *** *
10001036 TTTTGATATTTATTTGTTTTAATATCAAAGAAAAAGTTGTCTTAAGGTACCTAGAAGCTCTTTTC
1 TTTTGATATTTATTTGTTTAAATATCAAAGAAAAAGCTGTCTTAAAACACCTAGAAGCCCTTTTC
* *
10001101 TGATATTTTTGAATAAATAAATATCTTACTATATTAATAAAAGGT
66 TGATATTTCTAAATAAATAAATATCTTACTATATTAATAAAAGGT
*
10001146 TTTTGATATTTA-TT-TTTAAATATTAAAGAAAAGAGCTGTCTTAAAACACCTAGAAGCCCTTTT
1 TTTTGATATTTATTTGTTTAAATATCAAAGAAAA-AGCTGTCTTAAAACACCTAGAAGCCCTTTT
*
10001209 CTGATATTTCTAAATAAGTAAATAT
65 CTGATATTTCTAAATAAATAAATAT
10001234 TATTTATGTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 16 0.21
109 49 0.64
110 12 0.16
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (110 bp):
TTTTGATATTTATTTGTTTAAATATCAAAGAAAAAGCTGTCTTAAAACACCTAGAAGCCCTTTTC
TGATATTTCTAAATAAATAAATATCTTACTATATTAATAAAAGGT
Found at i:10002246 original size:22 final size:22
Alignment explanation
Indices: 10002218--10002264 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10002208 AATTCAACCG
10002218 TTTGTAACTCATGCAATAAAGC
1 TTTGTAACTCATGCAATAAAGC
* * *
10002240 TTTGTAACTCTTGTATTAAAGC
1 TTTGTAACTCATGCAATAAAGC
10002262 TTT
1 TTT
10002265 AACTCTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (22 bp):
TTTGTAACTCATGCAATAAAGC
Found at i:10006589 original size:28 final size:29
Alignment explanation
Indices: 10006558--10006618 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
10006548 AAAAACAGAT
*
10006558 GATTAGAGCATTAAAGAA-AAGCTCCAAA
1 GATTAGAGCAATAAAGAACAAGCTCCAAA
10006586 GATTAGAGCAATAAAGAACAAGCTCCAAA
1 GATTAGAGCAATAAAGAACAAGCTCCAAA
10006615 GATT
1 GATT
10006619 CGAGTAAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (29 bp):
GATTAGAGCAATAAAGAACAAGCTCCAAA
Found at i:10015683 original size:3 final size:3
Alignment explanation
Indices: 10015675--10015727 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
10015665 CGTATTTGTC
* * *
10015675 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TAT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
10015723 TCT TC
1 TCT TC
10015728 AAATCTTCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:10018962 original size:18 final size:17
Alignment explanation
Indices: 10018935--10018968 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10018925 TTATTACTGT
*
10018935 CTAAAATTGTGTTTATG
1 CTAAAATTGTGATTATG
10018952 CTAATAATTGTGATTAT
1 CTAA-AATTGTGATTAT
10018969 AAACCCTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (17 bp):
CTAAAATTGTGATTATG
Found at i:10020562 original size:19 final size:17
Alignment explanation
Indices: 10020507--10020555 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
10020497 GATGCGTATA
10020507 TAAATTAATTTTATTTT
1 TAAATTAATTTTATTTT
*
10020524 TAAATT-ATGGTTTTTATTT
1 TAAATTAAT--TTTAT-TTT
10020543 TAAATTAATTTTA
1 TAAATTAATTTTA
10020556 AATTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 2 0.08
17 6 0.23
18 7 0.27
19 9 0.35
20 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TAAATTAATTTTATTTT
Found at i:10020605 original size:41 final size:41
Alignment explanation
Indices: 10020534--10020612 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
10020524 TAAATTATGG
*
10020534 TTTTTATTTTAAATTAATTTTAAAT-TTTTTAAACATTTTA
1 TTTTTATTTTAAATTAATTTTAAATATTTTAAAACATTTTA
*
10020574 TTTTTATTTTAAAATTATTTTCTAAA-ATTTTAAAACATT
1 TTTTTATTTT-AAATTAATTT-TAAATATTTTAAAACATT
10020613 CTAATTTACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 10 0.29
41 9 0.26
42 15 0.44
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (41 bp):
TTTTTATTTTAAATTAATTTTAAATATTTTAAAACATTTTA
Done.