Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold158
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: 1811518
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 13
Found at i:725546 original size:13 final size:13
Alignment explanation
Indices: 725528--725552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725518 TTTTCCAGAT
725528 TGTATCGATACAA
1 TGTATCGATACAA
725541 TGTATCGATACA
1 TGTATCGATACA
725553 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:726397 original size:30 final size:30
Alignment explanation
Indices: 726361--726420 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
726351 GGGTGACAAC
* *
726361 GTATTAAGGGGGAGAGTTTGTATAAATTTT
1 GTATTAAGGGGGAGAGCTTGCATAAATTTT
726391 GTATTAAGGGGGAGAGCTTGCATAAATTTT
1 GTATTAAGGGGGAGAGCTTGCATAAATTTT
726421 TGGTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.37
Consensus pattern (30 bp):
GTATTAAGGGGGAGAGCTTGCATAAATTTT
Found at i:727536 original size:13 final size:13
Alignment explanation
Indices: 727518--727543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
727508 TACAGCAAGT
727518 ATGTATCGATACA
1 ATGTATCGATACA
727531 ATGTATCGATACA
1 ATGTATCGATACA
727544 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:731954 original size:28 final size:28
Alignment explanation
Indices: 731914--731990 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
731904 AGAAAAAAAT
* * *
731914 CGGGATTGGAGTATCCCC-TTGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAT-GAAATAA
731942 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
731970 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
731991 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:732036 original size:52 final size:51
Alignment explanation
Indices: 731973--732317 Score: 185
Period size: 52 Copynumber: 6.6 Consensus size: 51
731963 GAAATAACGA
*
731973 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
** * ** *
732024 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAATCG
1 G-GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCG
* * *
732076 GGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAATCGG
1 GG-TTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATC-G
* **** * *
732129 GGTTGGAGTATCCCC--TCG-GAAATAACAGGGTTGG-AGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTGTG-AA-AA-A---TTGGTA-T-TTTTGGA-AATAAAATC-G
732184 GGTTGGAGTATCCCCGATTGTGAAGAAATTAGTGT-TTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTATTTTTGGAAATAAAATCG
* * * * *
732237 GAGTTAGAGTATCCCCGA-TAT-AGAAAATTAGT-GTTTTGAAAATAAAATCG
1 G-GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCG
* *
732287 GAGTTGGAATATCCCCGATTGTGAAGAATTG
1 G-GTTGGAGTATCCCCGATTGTGAAAAATTG
732318 AGAAACTCAA
Statistics
Matches: 223, Mismatches: 41, Indels: 60
0.69 0.13 0.19
Matches are distributed among these distances:
48 1 0.00
49 2 0.01
50 38 0.17
51 10 0.04
52 89 0.40
53 28 0.13
54 23 0.10
55 20 0.09
56 3 0.01
57 8 0.04
58 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
Found at i:732123 original size:104 final size:102
Alignment explanation
Indices: 731975--732316 Score: 304
Period size: 104 Copynumber: 3.3 Consensus size: 102
731965 AATAACGAGG
* * *
731975 TTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTGG-AATAAAATCGGAGTTGGAGTATCCCC
*
732040 GATTAAAGGAAAATTGGCGTTTTGAAAATAAAATCGGGA
65 GA-TAAAGGAAAATTGGAGTTTTGAAAATAAAATCGGGA
* *
732079 TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAATCGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTTG-GAATAAAATCGGAGTTGGAGTAT-CC
* ** ** * *
732143 CTCGGAAATAACAGG---GTTGGAGTATCCCCGATGAT-TAA-CGGGG
63 C-C-G--ATAA-AGGAAAATTGGAGT-T--TTGAAAATAAAATCGGGA
*
732186 TTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
1 TTGGAGTATCCCCGATTGTGAA-AAATTAGTG-TTTTTGG-AATAAAATCGGAGTTGGAGTATCC
* * *
732251 CCGATATA-GAAAATTAGTGTTTTGAAAATAAAATC-GGA
63 CCGATAAAGGAAAATTGGAGTTTTGAAAATAAAATCGGGA
* *
732289 GTTGGAATATCCCCGATTGTGAAGAATT
1 -TTGGAGTATCCCCGATTGTGAAAAATT
732317 GAGAAACTCA
Statistics
Matches: 189, Mismatches: 28, Indels: 43
0.73 0.11 0.17
Matches are distributed among these distances:
102 5 0.03
103 9 0.05
104 64 0.34
105 23 0.12
106 12 0.06
107 36 0.19
108 13 0.07
109 27 0.14
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTGGAATAAAATCGGAGTTGGAGTATCCCCG
ATAAAGGAAAATTGGAGTTTTGAAAATAAAATCGGGA
Found at i:732189 original size:27 final size:28
Alignment explanation
Indices: 732126--732201 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
732116 GCGATAAAAT
***
732126 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
732154 CAGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
732181 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
732202 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:732283 original size:50 final size:51
Alignment explanation
Indices: 732209--732305 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 51
732199 GATTGTGAAG
* *
732209 AAATTAGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATATAGA
1 AAATTAGTG-TTTTTGAAAATAAAATCGGAGTTAGAATATCCCCGATATAGA
*
732261 AAATTAGTG-TTTTGAAAATAAAATCGGAGTTGGAATATCCCCGAT
1 AAATTAGTGTTTTTGAAAATAAAATCGGAGTTAGAATATCCCCGAT
732306 TGTGAAGAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 33 0.79
52 9 0.21
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (51 bp):
AAATTAGTGTTTTTGAAAATAAAATCGGAGTTAGAATATCCCCGATATAGA
Found at i:732303 original size:211 final size:212
Alignment explanation
Indices: 731909--732309 Score: 623
Period size: 211 Copynumber: 1.9 Consensus size: 212
731899 TCAGAAGAAA
* * *
731909 AAAATCGGGATTGGAGTATCCCCTTGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAATCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAG
* *
731974 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
* *
732039 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAATCGGGATTGGAGTATCCCCGATTGTGGAAAA
131 CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAATCGGGATTGGAATATCCCCGATTGTGGAAAA
732104 ATTAGTGTTTTAGCGAT
196 ATTAGTGTTTTAGCGAT
* * *
732121 AAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATG-ATTAACGGG
1 AAAATCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAG
732185 GTTGGAGTATCCCCGATTGTGAAGAAATTAGTGT-TTTTTGGAAATAAAATCGGAGTTAGAGTAT
66 GTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTATTTTTGGAAATAAAATCGGAGTTAGAGTAT
* *
732249 CCCCGA-TATA-GAAAATTAGTGTTTTGAAAATAAAATC-GGAGTTGGAATATCCCCGATTGTG
128 CCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAATCGGGA-TTGGAATATCCCCGATTGTG
732310 AAGAATTGAG
Statistics
Matches: 173, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
210 3 0.02
211 73 0.42
212 59 0.34
213 36 0.21
214 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (212 bp):
AAAATCGGGATTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAATCGGGATTGGAATATCCCCGATTGTGGAAAA
ATTAGTGTTTTAGCGAT
Found at i:734692 original size:13 final size:13
Alignment explanation
Indices: 734674--734699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
734664 ACAAAGATCC
734674 ATGTATCGATACA
1 ATGTATCGATACA
734687 ATGTATCGATACA
1 ATGTATCGATACA
734700 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:734695 original size:33 final size:33
Alignment explanation
Indices: 734653--734719 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
734643 AAAATTTTCA
***
734653 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
734686 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
734719 A
1 A
734720 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:734763 original size:19 final size:18
Alignment explanation
Indices: 734739--734806 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
734729 CAGTAGCTAA
734739 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
734758 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
734773 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
734790 TTATGTATCAATACAAA
1 TTATGTATCGATACAAA
734807 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:734779 original size:13 final size:13
Alignment explanation
Indices: 734761--734785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
734751 ACAATACTTA
734761 TGTATCGATACAT
1 TGTATCGATACAT
734774 TGTATCGATACA
1 TGTATCGATACA
734786 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:734783 original size:32 final size:32
Alignment explanation
Indices: 734742--734804 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
734732 TAGCTAATTA
* *
734742 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCAATACAT
734774 TGTATCGATACAAAACTTATGTATCAATACA
1 TGTATCGATACAAAACTTATGTATCAATACA
734805 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCAATACAT
Found at i:734886 original size:21 final size:21
Alignment explanation
Indices: 734862--734918 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
734852 CATTTGTAGG
734862 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
* * *
734883 ATGTATCAATATATTCTACAA
1 ATGTATCGATACATTCCACAA
734904 ATGTATCGATACATT
1 ATGTATCGATACATT
734919 TGGATAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:735971 original size:2 final size:2
Alignment explanation
Indices: 735964--736003 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
735954 ATTCACTCTA
735964 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
736004 GTATCATCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:736783 original size:18 final size:19
Alignment explanation
Indices: 736737--736784 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
736727 TAATTTACAT
736737 ATTAATACTATAAAAATATA
1 ATTAATA-TATAAAAATATA
**
736757 ATTTTTATA-AAAAATATA
1 ATTAATATATAAAAATATA
736775 ATTAATATAT
1 ATTAATATAT
736785 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 16 0.70
19 2 0.09
20 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAATATATAAAAATATA
Found at i:739914 original size:22 final size:22
Alignment explanation
Indices: 739870--739914 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
739860 TATGATCCTC
* *
739870 AAATAATCTTCTAAATATATAA
1 AAATAAACTTCTAAAAATATAA
* *
739892 AAATAAACTTTTAAAAATTTAA
1 AAATAAACTTCTAAAAATATAA
739914 A
1 A
739915 CATATTTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATAAACTTCTAAAAATATAA
Found at i:741120 original size:27 final size:27
Alignment explanation
Indices: 741082--741156 Score: 150
Period size: 27 Copynumber: 2.8 Consensus size: 27
741072 GATAATCCAA
741082 GTTGTTGATCACCATGGCTTGGTACAG
1 GTTGTTGATCACCATGGCTTGGTACAG
741109 GTTGTTGATCACCATGGCTTGGTACAG
1 GTTGTTGATCACCATGGCTTGGTACAG
741136 GTTGTTGATCACCATGGCTTG
1 GTTGTTGATCACCATGGCTTG
741157 ACCTTAAACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (27 bp):
GTTGTTGATCACCATGGCTTGGTACAG
Found at i:743268 original size:3 final size:3
Alignment explanation
Indices: 743260--743301 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
743250 TGTTTGCCCG
743260 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT
743302 TGAAGTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:743846 original size:19 final size:21
Alignment explanation
Indices: 743824--743862 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
743814 TAAATATATT
743824 ATTTAA-AAAT-AAATAAAAA
1 ATTTAATAAATAAAATAAAAA
*
743843 ATTTAATTAATAAAATAAAA
1 ATTTAATAAATAAAATAAAA
743863 TAAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
ATTTAATAAATAAAATAAAAA
Found at i:743997 original size:15 final size:15
Alignment explanation
Indices: 743979--744019 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 15
743969 ATCTTAAATC
743979 TAAAAATAAATAATT
1 TAAAAATAAATAATT
743994 TAAAAAT-AA-AA-T
1 TAAAAATAAATAATT
*
744006 TAAAAATAATTAAT
1 TAAAAATAAATAAT
744020 AAAATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 4 0.18
15 7 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAATAAATAATT
Found at i:744138 original size:14 final size:14
Alignment explanation
Indices: 744119--744145 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
744109 AAAAATAAAA
744119 TAAAATTTTAAATC
1 TAAAATTTTAAATC
744133 TAAAATTTTAAAT
1 TAAAATTTTAAAT
744146 TAAGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAAATTTTAAATC
Found at i:744374 original size:24 final size:24
Alignment explanation
Indices: 744347--744408 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
744337 AATTATCAAT
*
744347 TGTCAGGCAAAACAATTTGAAACA
1 TGTCAAGCAAAACAATTTGAAACA
* * *
744371 TGTCAAGCAATAA-AGTTTGACACG
1 TGTCAAGCAA-AACAATTTGAAACA
744395 TGTCAAGCAAAACA
1 TGTCAAGCAAAACA
744409 CTCAGTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 28 0.88
25 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (24 bp):
TGTCAAGCAAAACAATTTGAAACA
Found at i:744484 original size:29 final size:29
Alignment explanation
Indices: 744451--744541 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
744441 AATACAATTA
744451 TATATTTATATTATATTAATATTTATTTT
1 TATATTTATATTATATTAATATTTATTTT
*
744480 TATA--TATATCATATGTGAATATTTATTATT
1 TATATTTATATTATAT-T-AATATTTATT-TT
* * *
744510 T-TATTTAT-TT-TA-AAATATATAATTT
1 TATATTTATATTATATTAATATTTATTTT
744535 TATATTT
1 TATATTT
744542 TATAAATAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
25 3 0.06
26 13 0.25
27 9 0.18
28 1 0.02
29 18 0.35
30 4 0.08
31 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (29 bp):
TATATTTATATTATATTAATATTTATTTT
Found at i:744590 original size:18 final size:17
Alignment explanation
Indices: 744551--744603 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
744541 TTATAAATAA
**
744551 TTAAAATTAAAAAATAT
1 TTAAAATTAAAATTTAT
*
744568 ATTAATATGTAAAATTTAT
1 -TTAAAAT-TAAAATTTAT
*
744587 TTAAAATTCAAATTTAT
1 TTAAAATTAAAATTTAT
744604 AAACTTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 9 0.31
18 12 0.41
19 8 0.28
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAATTAAAATTTAT
Found at i:745053 original size:35 final size:35
Alignment explanation
Indices: 745001--745087 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
744991 GTGTTATAAT
745001 TATATTTAA-AATATTATATA-TTTACATAAATTTTAA
1 TATA-TTAATAAT-TTATATATTTTA-ATAAATTTTAA
*
745037 TATATTAATAATTTATATATTTTAATATATTTTAA
1 TATATTAATAATTTATATATTTTAATAAATTTTAA
*
745072 TAT-TTATATTATTTAT
1 TATATTA-ATAATTTAT
745088 TAATTAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 3 0.07
35 32 0.70
36 11 0.24
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (35 bp):
TATATTAATAATTTATATATTTTAATAAATTTTAA
Found at i:745066 original size:10 final size:10
Alignment explanation
Indices: 745015--745074 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
745005 TTTAAAATAT
745015 TATATATTTACA
1 TATAT-TTTA-A
*
745027 TAAATTTTAA
1 TATATTTTAA
745037 TATA--TTAA
1 TATATTTTAA
745045 TA-A-TTT-A
1 TATATTTTAA
745052 TATATTTTAA
1 TATATTTTAA
745062 TATATTTTAA
1 TATATTTTAA
745072 TAT
1 TAT
745075 TTATATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
7 4 0.10
8 9 0.21
9 3 0.07
10 18 0.43
11 4 0.10
12 4 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
TATATTTTAA
Found at i:745084 original size:27 final size:27
Alignment explanation
Indices: 744994--745085 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
744984 ATTTTACGTG
* *
744994 TTATAATTATATTTAAAATATTAT-ATAT
1 TTAT-ATTAT-TTTAATATATTTTAATAT
* *
745022 TTACATAAATTTTAATATA--TTAATAAT
1 TTATAT-TATTTTAATATATTTTAAT-AT
745049 TTATA-TATTTTAATATATTTTAATAT
1 TTATATTATTTTAATATATTTTAATAT
745075 TTATATTATTT
1 TTATATTATTT
745086 ATTAATTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
25 12 0.23
26 9 0.17
27 26 0.50
28 5 0.10
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATATTATTTTAATATATTTTAATAT
Found at i:745286 original size:28 final size:27
Alignment explanation
Indices: 745238--745299 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
745228 CTCTTATTCT
* *
745238 ATATTATTTTTAATTAAATATTTAAAA
1 ATATTATTTTTAAATAAATATCTAAAA
* *
745265 ATATTTTTATTTAAATATATATCT-AAA
1 ATATTATT-TTTAAATAAATATCTAAAA
*
745292 TTATTATT
1 ATATTATT
745300 AATCTGGATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTATTTTTAAATAAATATCTAAAA
Found at i:745470 original size:17 final size:17
Alignment explanation
Indices: 745450--745485 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
745440 TTAAAAATAT
*
745450 TTAAAAAATAAATATAA
1 TTAAAAAATAAATAAAA
*
745467 TTAAAAGATAAATAAAA
1 TTAAAAAATAAATAAAA
745484 TT
1 TT
745486 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
TTAAAAAATAAATAAAA
Found at i:745831 original size:13 final size:13
Alignment explanation
Indices: 745815--745871 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
745805 TATTTTATTA
745815 ATTTTAATTATAT
1 ATTTTAATTATAT
*
745828 ATTTTAA-CA-AT
1 ATTTTAATTATAT
*
745839 ATTTTAATTTTAAT
1 ATTTTAATTAT-AT
*
745853 ATTTTTATTTATAT
1 A-TTTTAATTATAT
745867 ATTTT
1 ATTTT
745872 TTAAATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
11 9 0.26
12 1 0.03
13 11 0.31
14 6 0.17
15 8 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTTAATTATAT
Found at i:745855 original size:14 final size:14
Alignment explanation
Indices: 745836--745895 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
745826 ATATTTTAAC
745836 AATATTTTAATTTT
1 AATATTTTAATTTT
*
745850 AATATTTTTATTTAT
1 AATATTTTAATTT-T
* *
745865 ATATTTTTTAAATTT
1 A-ATATTTTAATTTT
745880 AA-ATTTT-ATTTT
1 AATATTTTAATTTT
745892 AATA
1 AATA
745896 ATTATTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
12 6 0.16
13 5 0.14
14 13 0.35
15 4 0.11
16 9 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATATTTTAATTTT
Found at i:747527 original size:19 final size:21
Alignment explanation
Indices: 747503--747541 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
747493 AATTTATTAT
747503 TTTAAATTT-T-AATATAAAG
1 TTTAAATTTATGAATATAAAG
747522 TTTAAATTTATGAATATAAA
1 TTTAAATTTATGAATATAAA
747542 AATCAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTAAATTTATGAATATAAAG
Found at i:748570 original size:3 final size:3
Alignment explanation
Indices: 748562--748599 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
748552 TTAAAAATAA
748562 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
748600 ATTTTTCAAA
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:750071 original size:7 final size:7
Alignment explanation
Indices: 750059--750084 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
750049 TTAAACAAAT
750059 AATTATA
1 AATTATA
750066 AATTATA
1 AATTATA
750073 AATTATA
1 AATTATA
750080 AATTA
1 AATTA
750085 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTATA
Found at i:750773 original size:51 final size:52
Alignment explanation
Indices: 750710--750829 Score: 170
Period size: 51 Copynumber: 2.3 Consensus size: 52
750700 TCTGTAAAGA
* * *
750710 AAATCTATCGATACATTTTTCATTATATCGATACATTCT-GGGTTTTGACCT
1 AAATGTATCGATACATTTTTCATTATATCGATACATTCTAAGGTTTTGACCC
* * *
750761 AAATGTATCGATACATTTTTCATTATATTGATACTTTCTAAGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTATATCGATACATTCTAAGGTTTTGACCC
*
750813 AAATGTATCAATACATT
1 AAATGTATCGATACATT
750830 CTTAAATGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
51 36 0.59
52 25 0.41
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTATATCGATACATTCTAAGGTTTTGACCC
Found at i:750838 original size:20 final size:20
Alignment explanation
Indices: 750813--750866 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
750803 TTTTTGACCC
750813 AAATGTATCAATACATTCTT
1 AAATGTATCAATACATTCTT
750833 AAATGTATCAATACATTCTT
1 AAATGTATCAATACATTCTT
* *
750853 TAATGTATCGATAC
1 AAATGTATCAATAC
750867 TTGCAGACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (20 bp):
AAATGTATCAATACATTCTT
Found at i:752210 original size:13 final size:13
Alignment explanation
Indices: 752192--752231 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
752182 CATTATTCAA
752192 TGTATCGATACAT
1 TGTATCGATACAT
*
752205 TGTATCGATACAA
1 TGTATCGATACAT
752218 TGTATCGATACAT
1 TGTATCGATACAT
752231 T
1 T
752232 TGGAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:753534 original size:21 final size:21
Alignment explanation
Indices: 753508--753553 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
753498 TGGTATTGAT
753508 CAAAGGGCTATTTCATCATCC
1 CAAAGGGCTATTTCATCATCC
753529 CAAAGGGCTATTTCATCATCC
1 CAAAGGGCTATTTCATCATCC
753550 CAAA
1 CAAA
753554 CTTCTTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
CAAAGGGCTATTTCATCATCC
Found at i:756963 original size:96 final size:96
Alignment explanation
Indices: 756794--757026 Score: 290
Period size: 96 Copynumber: 2.4 Consensus size: 96
756784 AAAATTTTAT
* *
756794 TCATCGGGATACTCCAACCCCATT-ATTCTGAGGGGATACTCTAACCTCGTTTTTAAACTCGTTA
1 TCATCGGGATACTCCAACCCCATTCATTC-GAGGGGATACTCCAACCTCGTTTTTAAACTCGTCA
* ** * *
756858 AGGTTTAAATCTTATTTTTGCTTAAATTGTCA
65 AGATTTAAATCTTATTTTCACTCAAATTATCA
* *
756890 TCATCGAGGATACTCCAACCCCATTCTTTCGAGGGGATACTCCAACC-CGTTTTTAAACTTGTCA
1 TCATCG-GGATACTCCAACCCCATTCATTCGAGGGGATACTCCAACCTCGTTTTTAAACTCGTCA
756954 AGATTTAAATCTTATTTTCACTCAAATTATCA
65 AGATTTAAATCTTATTTTCACTCAAATTATCA
* * * * * *
756986 TCGTCGGGGACATTCCAACCCCATTCCTTAGAGGAGATACT
1 TCATC-GGGATACTCCAACCCCATTCATTCGAGGGGATACT
757027 TTAGCTCCAC
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
96 81 0.68
97 35 0.29
98 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (96 bp):
TCATCGGGATACTCCAACCCCATTCATTCGAGGGGATACTCCAACCTCGTTTTTAAACTCGTCAA
GATTTAAATCTTATTTTCACTCAAATTATCA
Found at i:758653 original size:20 final size:21
Alignment explanation
Indices: 758628--758666 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
758618 ATATACTTTA
758628 AATAT-AAATAAAATAAAACC
1 AATATAAAATAAAATAAAACC
*
758648 AATATAAAATAAACTAAAA
1 AATATAAAATAAAATAAAA
758667 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (21 bp):
AATATAAAATAAAATAAAACC
Found at i:759799 original size:21 final size:21
Alignment explanation
Indices: 759773--759828 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
759763 TGTATCTTTA
759773 GATGAAAGAATGCATGTTTTG
1 GATGAAAGAATGCATGTTTTG
759794 GATGAAAGAATGCATGTTTTG
1 GATGAAAGAATGCATGTTTTG
*
759815 GATGAAAAAATGCA
1 GATGAAAGAATGCA
759829 ACTTTAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (21 bp):
GATGAAAGAATGCATGTTTTG
Found at i:766073 original size:18 final size:16
Alignment explanation
Indices: 766030--766073 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
766020 CGTTTATTTG
766030 AAATTATTATAATTAA
1 AAATTATTATAATTAA
*
766046 AAGTT-TTATAATTAA
1 AAATTATTATAATTAA
766061 CAAATTATATATA
1 -AAATTAT-TATA
766074 TTTCTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 8 0.35
17 1 0.04
18 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
AAATTATTATAATTAA
Found at i:768080 original size:19 final size:20
Alignment explanation
Indices: 768039--768090 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
768029 TACACCCAAA
*
768039 TGTATCGATACATTATGCTT
1 TGTATCGATACATGATGCTT
*
768059 TGTATCGATACATGCT-CTT
1 TGTATCGATACATGATGCTT
768078 TGTATCGATACAT
1 TGTATCGATACAT
768091 ACTCAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATGATGCTT
Found at i:768105 original size:20 final size:19
Alignment explanation
Indices: 768061--768107 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
768051 TTATGCTTTG
* * *
768061 TATCGATACATGCTCTTTG
1 TATCGATACATACTCATTA
768080 TATCGATACATACTCAATTA
1 TATCGATACATACTC-ATTA
768100 TATCGATA
1 TATCGATA
768108 TATGAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
TATCGATACATACTCATTA
Found at i:768174 original size:13 final size:13
Alignment explanation
Indices: 768156--768238 Score: 64
Period size: 13 Copynumber: 7.3 Consensus size: 13
768146 GATACATGGG
768156 ACATTGTATCGAT
1 ACATTGTATCGAT
768169 ACATTGTATCGAT
1 ACATTGTATCGAT
*
768182 ACA-TG----G-G
1 ACATTGTATCGAT
768189 ACATTGTATCGAT
1 ACATTGTATCGAT
*
768202 ACA-TG-A---AG
1 ACATTGTATCGAT
768210 A-ATTGTATCGAT
1 ACATTGTATCGAT
768222 ACATTGTATCGAT
1 ACATTGTATCGAT
768235 ACAT
1 ACAT
768239 GAAGAATTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 24
0.66 0.05 0.29
Matches are distributed among these distances:
7 4 0.07
8 7 0.13
9 1 0.02
11 1 0.02
12 7 0.13
13 34 0.63
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:768183 original size:33 final size:33
Alignment explanation
Indices: 768140--768205 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
768130 CTAAGTGAAA
*
768140 TGTATTGATACATGGGACATTGTATCGATACAT
1 TGTATCGATACATGGGACATTGTATCGATACAT
768173 TGTATCGATACATGGGACATTGTATCGATACAT
1 TGTATCGATACATGGGACATTGTATCGATACAT
768206 GAAGAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGGGACATTGTATCGATACAT
Found at i:768220 original size:53 final size:53
Alignment explanation
Indices: 768140--768258 Score: 179
Period size: 53 Copynumber: 2.2 Consensus size: 53
768130 CTAAGTGAAA
* * *
768140 TGTATTGATACATGGGACATTGTATCGATACATTGTATCGATACATG-GGACAT
1 TGTATCGATACATGAGACATTGTATCGATACATTGTATCGATACATGAAGA-AT
768193 TGTATCGATACATGAAGA-ATTGTATCGATACATTGTATCGATACATGAAGAAT
1 TGTATCGATACATG-AGACATTGTATCGATACATTGTATCGATACATGAAGAAT
768246 TGTATCGATACAT
1 TGTATCGATACAT
768259 TATGCCCAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
53 57 0.93
54 4 0.07
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (53 bp):
TGTATCGATACATGAGACATTGTATCGATACATTGTATCGATACATGAAGAAT
Found at i:768226 original size:33 final size:33
Alignment explanation
Indices: 768189--768259 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
768179 GATACATGGG
768189 ACATTGTATCGATACATGAAGAATTGTATCGAT
1 ACATTGTATCGATACATGAAGAATTGTATCGAT
768222 ACATTGTATCGATACATGAAGAATTGTATCGAT
1 ACATTGTATCGATACATGAAGAATTGTATCGAT
768255 ACATT
1 ACATT
768260 ATGCCCAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (33 bp):
ACATTGTATCGATACATGAAGAATTGTATCGAT
Found at i:768249 original size:20 final size:19
Alignment explanation
Indices: 768171--768258 Score: 98
Period size: 20 Copynumber: 4.8 Consensus size: 19
768161 GTATCGATAC
*
768171 ATTGTATCGATACATGGGA
1 ATTGTATCGATACATGAGA
768190 CATTGTATCGATACATGAAGA
1 -ATTGTATCGATACATG-AGA
768211 ATTGTATCGATAC------
1 ATTGTATCGATACATGAGA
768224 ATTGTATCGATACATGAAGA
1 ATTGTATCGATACATG-AGA
768244 ATTGTATCGATACAT
1 ATTGTATCGATACAT
768259 TATGCCCAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
13 13 0.22
20 44 0.75
21 2 0.03
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (19 bp):
ATTGTATCGATACATGAGA
Found at i:770358 original size:16 final size:15
Alignment explanation
Indices: 770315--770349 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
770305 TCAAAATTTG
* *
770315 TTGAAAATAAAATTC
1 TTGAAAAGAAAATTA
770330 TTGAAAAGAAAATTA
1 TTGAAAAGAAAATTA
770345 TTGAA
1 TTGAA
770350 CTAGAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31
Consensus pattern (15 bp):
TTGAAAAGAAAATTA
Found at i:774359 original size:20 final size:21
Alignment explanation
Indices: 774334--774372 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
774324 TTTTTTCAGA
*
774334 ATGTATCGATACAT-TGAATG
1 ATGTATCAATACATCTGAATG
774354 ATGTATCAATACATCTGAA
1 ATGTATCAATACATCTGAA
774373 AAAACACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
ATGTATCAATACATCTGAATG
Found at i:777653 original size:20 final size:20
Alignment explanation
Indices: 777624--777780 Score: 278
Period size: 20 Copynumber: 7.8 Consensus size: 20
777614 GTAAAAAGAT
* *
777624 AGAATCTATCGATACATTAA
1 AGAATGTATCGATACATTGA
777644 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
777664 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
777684 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
777704 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
777724 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
777744 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
777764 AAAATATATCGATACAT
1 AGAATGTATCGATACAT
777781 CTGGGTACTT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 133 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:780731 original size:20 final size:20
Alignment explanation
Indices: 780706--780746 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
780696 ATTAAGGTTG
780706 ACTTAGGCTACAAAGGTCAA
1 ACTTAGGCTACAAAGGTCAA
780726 ACTTAGGCTACAAAGGTCAA
1 ACTTAGGCTACAAAGGTCAA
780746 A
1 A
780747 ACCCTAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
ACTTAGGCTACAAAGGTCAA
Found at i:784134 original size:13 final size:13
Alignment explanation
Indices: 784116--784140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
784106 ATACATTGAA
784116 CAATGTATCGATG
1 CAATGTATCGATG
784129 CAATGTATCGAT
1 CAATGTATCGAT
784141 ACAACACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATG
Found at i:784533 original size:19 final size:20
Alignment explanation
Indices: 784509--784563 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
784499 GTATCGATAC
* *
784509 ATTGTATCAATACATGCT-T
1 ATTGTATCGATACATGCTCA
*
784528 ATTGTATCGATACATACTCA
1 ATTGTATCGATACATGCTCA
784548 ATTGTATCGATACATG
1 ATTGTATCGATACATG
784564 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGCTCA
Found at i:784620 original size:20 final size:20
Alignment explanation
Indices: 784591--784643 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
784581 CTAAGTGAAA
* *
784591 TGTATTGATACAT-AGGACAT
1 TGTATCGATACATGAAGA-AT
784611 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
784631 TGTATCGATACAT
1 TGTATCGATACAT
784644 TATGCCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:785535 original size:2 final size:2
Alignment explanation
Indices: 785528--785557 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
785518 GCTAAAAATC
785528 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
785558 GCAAAAGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:786085 original size:2 final size:2
Alignment explanation
Indices: 786080--786105 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
786070 ACACACACAC
786080 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
786106 GGTGAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:790826 original size:18 final size:19
Alignment explanation
Indices: 790797--790833 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
790787 ATTTTGTAGT
790797 TCTTATTTTGGAAACCACA
1 TCTTATTTTGGAAACCACA
790816 TCTTA-TTTGGAAACCACA
1 TCTTATTTTGGAAACCACA
790834 CCAAAACGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTTATTTTGGAAACCACA
Found at i:791727 original size:2 final size:2
Alignment explanation
Indices: 791722--791798 Score: 68
Period size: 2 Copynumber: 38.5 Consensus size: 2
791712 AATATATGTT
* * * * *
791722 TA TA TA TA TA TA TA TA TA TA TA T- TT TA TC TT TGA TC T- TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
*
791763 TC TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
791799 TTTCCTAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
1 2 0.03
2 59 0.94
3 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.53
Consensus pattern (2 bp):
TA
Found at i:791962 original size:11 final size:9
Alignment explanation
Indices: 791923--791965 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
791913 ACAATAAAGG
791923 AAAAGAAAT
1 AAAAGAAAT
*
791932 AAATATAAAT
1 AAA-AGAAAT
791942 AAAAGAAAT
1 AAAAGAAAT
791951 AATAAGGAAAT
1 AA-AA-GAAAT
791962 AAAA
1 AAAA
791966 AAGAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 10 0.34
10 12 0.41
11 7 0.24
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (9 bp):
AAAAGAAAT
Found at i:792835 original size:13 final size:13
Alignment explanation
Indices: 792817--792841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
792807 TTAAATATAA
792817 AAATAAAAATATC
1 AAATAAAAATATC
792830 AAATAAAAATAT
1 AAATAAAAATAT
792842 TTAAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAAATATC
Found at i:793848 original size:23 final size:25
Alignment explanation
Indices: 793821--793889 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
793811 TGTTAACTAT
*
793821 ATTTAATATTT-A-ATTAACAATAA
1 ATTTAAGATTTAATATTAACAATAA
*
793844 ATTTAGGATTTGAATATTAACAATAA
1 ATTTAAGATTT-AATATTAACAATAA
*
793870 ATTTAGGATTTGAATATTAA
1 ATTTAAGATTT-AATATTAA
793890 AAAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.22
25 1 0.02
26 31 0.76
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (25 bp):
ATTTAAGATTTAATATTAACAATAA
Found at i:793867 original size:26 final size:26
Alignment explanation
Indices: 793833--793889 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
793823 TTAATATTTA
793833 ATTAACAATAAATTTAGGATTTGAAT
1 ATTAACAATAAATTTAGGATTTGAAT
793859 ATTAACAATAAATTTAGGATTTGAAT
1 ATTAACAATAAATTTAGGATTTGAAT
793885 ATTAA
1 ATTAA
793890 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.39
Consensus pattern (26 bp):
ATTAACAATAAATTTAGGATTTGAAT
Found at i:793976 original size:7 final size:7
Alignment explanation
Indices: 793964--794000 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
793954 CAATCTCTTC
793964 TTTTATT
1 TTTTATT
793971 TTTTATT
1 TTTTATT
793978 TTTTATT
1 TTTTATT
793985 TTTTATT
1 TTTTATT
*
793992 TTTAATT
1 TTTTATT
793999 TT
1 TT
794001 AATCATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:797283 original size:6 final size:6
Alignment explanation
Indices: 797272--797300 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
797262 TGTAGCTTAA
797272 TATATC TATATC TATATC TATATC TATAT
1 TATATC TATATC TATATC TATATC TATAT
797301 TAAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (6 bp):
TATATC
Found at i:797443 original size:16 final size:16
Alignment explanation
Indices: 797424--797465 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
797414 AAGTGACTCG
**
797424 AATTTGAAATAATTTA
1 AATTTGAAATAATCCA
797440 AATTT-AAAGTAATCCA
1 AATTTGAAA-TAATCCA
797456 AATTTGAAAT
1 AATTTGAAAT
797466 GACCCGAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (16 bp):
AATTTGAAATAATCCA
Found at i:799546 original size:5 final size:5
Alignment explanation
Indices: 799536--799569 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
799526 AAACTAGTTA
799536 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
799570 GATTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:804420 original size:20 final size:20
Alignment explanation
Indices: 804373--804424 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
804363 TGCCAACTAG
804373 ATGTATTGATACATTTACAT
1 ATGTATTGATACATTTACAT
*
804393 AATGTATTGATACATTTTCACT
1 -ATGTATTGATACATTTACA-T
804415 -TGTATTGATA
1 ATGTATTGATA
804425 AAAATAAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.34
21 18 0.62
22 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.46
Consensus pattern (20 bp):
ATGTATTGATACATTTACAT
Found at i:804476 original size:92 final size:93
Alignment explanation
Indices: 804302--804500 Score: 231
Period size: 92 Copynumber: 2.2 Consensus size: 93
804292 CATTGTGCAT
* * * * *
804302 TGTATTAATATATTTTCATGTGTATCGATATAGATAAGGGTTTCGAGATTTCTATAGCTATTGCC
1 TGTATTAATACATTTTCATGTGTATCGATAAAAATAAGGATTTCGAGATTTCTATAGCTACTGCC
* * *
804367 AACTAGATGTATTGATACATTTACATAA
66 AACCAGATGTATCGATACATTCACATAA
* * * *
804395 TGTATTGATACATTTTCACT-TGTATTGATAAAAATAAGGATTTCTATATTTCT-TAGCTACTGC
1 TGTATTAATACATTTTCA-TGTGTATCGATAAAAATAAGGATTTCGAGATTTCTATAGCTACTGC
* *
804458 CAACCATATGTATCGATACATTCACATGA
65 CAACCAGATGTATCGATACATTCACATAA
* *
804487 TATATCAATACATT
1 TGTATTAATACATT
804501 CAATCCTGAA
Statistics
Matches: 88, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
92 44 0.50
93 43 0.49
94 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (93 bp):
TGTATTAATACATTTTCATGTGTATCGATAAAAATAAGGATTTCGAGATTTCTATAGCTACTGCC
AACCAGATGTATCGATACATTCACATAA
Found at i:804645 original size:12 final size:13
Alignment explanation
Indices: 804630--804660 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
804620 GAGAATTTAT
804630 TAAAATATTTTC-
1 TAAAATATTTTCA
804642 TAAAATATTTTCA
1 TAAAATATTTTCA
804655 TAAAAT
1 TAAAAT
804661 TAAAGGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAAATATTTTCA
Found at i:805942 original size:27 final size:28
Alignment explanation
Indices: 805900--805979 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 28
805890 TTTGGAGATA
*
805900 ATAACGGGGTTAGAGTATCCCCGATGA-
1 ATAACGGGGTTGGAGTATCCCCGATGAG
*
805927 TTAACGGGGTTGGAGTATCCCCGATGAG
1 ATAACGGGGTTGGAGTATCCCCGATGAG
** *
805955 ATAACAAGGTTGGAGTATCCTCGAT
1 ATAACGGGGTTGGAGTATCCCCGAT
805980 TGTGAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 25 0.54
28 21 0.46
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (28 bp):
ATAACGGGGTTGGAGTATCCCCGATGAG
Found at i:805968 original size:28 final size:27
Alignment explanation
Indices: 805907--805979 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 27
805897 ATAATAACGG
* * **
805907 GGTTAGAGTATCCCCGATGATTAACGG
1 GGTTGGAGTATCCCCGATGAATAACAA
805934 GGTTGGAGTATCCCCGATGAGATAACAA
1 GGTTGGAGTATCCCCGATGA-ATAACAA
*
805962 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCCCGAT
805980 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 19 0.47
28 21 0.52
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGATGAATAACAA
Found at i:806022 original size:52 final size:51
Alignment explanation
Indices: 805963--806348 Score: 244
Period size: 51 Copynumber: 7.4 Consensus size: 51
805953 AGATAACAAG
* * * *
805963 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGGAAATAAAATCGGA
* * * *
806015 GTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT--ATGAAAAATTAGTGTTTTGGAAATAAAATCGGA
* * * *
806067 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTAGCAATAAAACCGGG
1 -GTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAAATCGGA
* * * * * *
806120 GTTAGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGGA
** * * ***** * *
806171 GTTGGAGTATCCCC---TCGGAAATAACGGGGTTAGAGTATCCCCTATGATTAA-CGGG
1 GTTGGAGTATCCCCGATTATGAAA-AA-----TTAGTGTTTTGGAAAT-A-AAATCGGA
* * *
806226 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG---TTTTGGAAATAAAATCGGA
* * *
806280 GTTGGAGTATCCCTGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGGAAATAAAATCGGA
* *
806331 GTTGAAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
806349 GTGGAGAATT
Statistics
Matches: 255, Mismatches: 58, Indels: 43
0.72 0.16 0.12
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 70 0.27
52 65 0.25
53 36 0.14
54 47 0.18
55 23 0.09
56 1 0.00
57 1 0.00
58 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGGA
Found at i:806072 original size:53 final size:51
Alignment explanation
Indices: 805961--806184 Score: 211
Period size: 52 Copynumber: 4.3 Consensus size: 51
805951 TGAGATAACA
* * * *
805961 AGGTTGGAGTATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 AGGTTGGAGTATCCCCGATTAG-GAAAAATTGGT-GTTTTGAAAATAAAACCG
806013 -GAGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCG
1 AG-GTTGGAGTATCCCCGATT--AGGAAAAATTGGTGTTTTGAAAATAAAACCG
* *
806066 AGGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTT-AGCAATAAAACCG
1 AGGTTGGAGTATCCCCGATTA-GGAAAAATTGGTGTTTTGA-AAATAAAACCG
* * * *** * * **
806118 GGGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCG
1 AGGTTGGAGTATCCCCGATTAGGAAAAATTGGTGTTTTGAAAATAAAACCG
*
806169 GGGTTGGAGTATCCCC
1 AGGTTGGAGTATCCCC
806185 TCGGAAATAA
Statistics
Matches: 147, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
51 39 0.27
52 62 0.42
53 33 0.22
54 12 0.08
55 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
AGGTTGGAGTATCCCCGATTAGGAAAAATTGGTGTTTTGAAAATAAAACCG
Found at i:806233 original size:27 final size:28
Alignment explanation
Indices: 806167--806239 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
806157 GAAATAAAGT
*
806167 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTAGGAAATAA
* * *
806195 CGGGGTTAGAGTATCCCCTATG-ATTAA
1 CGGGGTTGGAGTATCCCCTAGGAAATAA
806222 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
806240 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTAGGAAATAA
Found at i:808724 original size:13 final size:13
Alignment explanation
Indices: 808701--808731 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
808691 TCGATACAAA
808701 GATAC-ATGTATC
1 GATACAATGTATC
808713 GATACAATGTATC
1 GATACAATGTATC
808726 GATACA
1 GATACA
808732 TAGAAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
GATACAATGTATC
Found at i:808727 original size:33 final size:33
Alignment explanation
Indices: 808685--808751 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
808675 AAAATTTCCA
* *
808685 AATGTATCGATACAAAGATACATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
808718 AATGTATCGATACATAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
808751 A
1 A
808752 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:808795 original size:19 final size:18
Alignment explanation
Indices: 808771--808838 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
808761 CAGTAGCTAA
808771 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
808790 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
808805 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
808822 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
808839 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:808811 original size:13 final size:13
Alignment explanation
Indices: 808793--808817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
808783 ACAATACTTA
808793 TGTATCGATACAT
1 TGTATCGATACAT
808806 TGTATCGATACA
1 TGTATCGATACA
808818 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:808815 original size:32 final size:32
Alignment explanation
Indices: 808774--808836 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
808764 TAGCTAATTA
*
808774 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
808806 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
808837 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:809746 original size:55 final size:55
Alignment explanation
Indices: 809671--810354 Score: 707
Period size: 55 Copynumber: 12.1 Consensus size: 55
809661 CTCTTTGAAA
*
809671 AAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-G
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGG
* *
809725 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGATTGG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTGG
* * *
809781 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACT-G
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGG
* * *
809835 AAAGGTGCCACTAACTTTTGTGGGCTTT-AAGAGGTGTCCTGCTCTTT---GA--GG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTGG
* * *
809886 --A-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGA-TTG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGG
* * *
809937 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAG-GTCTTGCTTTTTGGGGA-TGG
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG-GCGTCCTGCTCTTTGAGGACTGG
* * *
809992 AAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGAAAAGGCGTCCCGCTCTTTGAGGACTAG
1 AAA-GTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGCTCTTTGAGGACTGG
*
810053 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
1 AAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGGACT-GG
*
810115 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGGACTGG
* * *
810176 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-G
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGG
*
810230 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGGACTGG
*
810291 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGCTCTTTGAGGACTGG
810351 AAAG
1 AAAG
810355 CGGAAGGAGA
Statistics
Matches: 556, Mismatches: 39, Indels: 64
0.84 0.06 0.10
Matches are distributed among these distances:
47 37 0.07
48 2 0.00
49 1 0.00
50 2 0.00
51 2 0.00
52 2 0.00
53 1 0.00
54 37 0.07
55 220 0.40
56 8 0.01
59 3 0.01
60 96 0.17
61 85 0.15
62 60 0.11
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (55 bp):
AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGG
Found at i:809829 original size:26 final size:26
Alignment explanation
Indices: 809800--809882 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
809790 CCAACTTGTG
809800 TGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGGGCTTTGAAAGGTGTCCTGCTCTT
*** * * *
809826 TGGGGACTGAAAGGTGCCACTAACTTTT
1 TGGGCTTTGAAAGGTGTC-CT-GCTCTT
809854 GTGGGCTTT-AAGAGGTGTCCTGCTCTT
1 -TGGGCTTTGAA-AGGTGTCCTGCTCTT
809881 TG
1 TG
809883 AGGATGCCAC
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
26 16 0.39
27 6 0.15
28 8 0.20
29 11 0.27
ACGTcount: A:0.16, C:0.18, G:0.31, T:0.35
Consensus pattern (26 bp):
TGGGCTTTGAAAGGTGTCCTGCTCTT
Found at i:809909 original size:47 final size:47
Alignment explanation
Indices: 809840--809934 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
809830 GACTGAAAGG
* *
809840 TGCCACTAACTTTTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGA
*
809887 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
809934 T
1 T
809935 TGAAAGGTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 42 0.95
48 2 0.05
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (47 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
Found at i:809968 original size:29 final size:29
Alignment explanation
Indices: 809887--809969 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 29
809877 TCTTTGAGGA
809887 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
** * *
809916 TGTCCTGC-TCTT-TG-GGG-ATTGAAAGG
1 TG-CCACCAACTTGTGTGGGCTTTGAAAGG
809942 TGCCACCAACTTGTGTGGGCTTTGAAAG
1 TGCCACCAACTTGTGTGGGCTTTGAAAG
809970 AGGTCTTGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
25 3 0.07
26 13 0.32
27 5 0.12
28 5 0.12
29 12 0.29
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.30
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:810259 original size:115 final size:110
Alignment explanation
Indices: 809887--810354 Score: 444
Period size: 115 Copynumber: 4.0 Consensus size: 110
809877 TCTTTGAGGA
* * *
809887 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGATTGAAAGGTGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
* * * *
809952 TTGTGTGGGCTTTGAAAGAG-GTCTTGCTTTTTGGGGA-TGGAAAGG
66 TTGTGTGGGCTTTAAAAG-GTGTCCTGCTCTTTGAGGACTGGAAA-G
* * *
809997 TGCCACCAACTTGTGTAGGCTTTGAAAGAAAAGGCGTCCCGCTCTTTGAGGACTAGAAA-ATGCC
1 TGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCC
* *
810061 ACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAAA
60 ACCAACTTGTGTGGGCTTT---A--A-AAGGTGTCCTGCTCTTTGAGGACT-GGAAAG
*
810119 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-GTGC
1 TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGC
*
810183 CACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-GAAGG
59 CACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAG
*
810234 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-GTGC
1 TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGC
*
810298 CACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAG
59 CACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCTGCTCTTTGAGGACTGGAAAG
810355 CGGAAGGAGA
Statistics
Matches: 312, Mismatches: 23, Indels: 35
0.84 0.06 0.09
Matches are distributed among these distances:
110 22 0.07
114 1 0.00
115 131 0.42
116 4 0.01
117 23 0.07
118 1 0.00
120 28 0.09
121 21 0.07
122 24 0.08
123 57 0.18
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (110 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
TTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAG
Found at i:810301 original size:238 final size:227
Alignment explanation
Indices: 809670--810350 Score: 835
Period size: 238 Copynumber: 3.0 Consensus size: 227
809660 GCTCTTTGAA
*
809670 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
* **
809735 CCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTG
65 CCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGA-TGGAAGGTGCCACCAACTTGTG
* * * *
809800 TGGGCTTT---GAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACTAACTTTTGTGGGCTT
129 TGGGCTTTAAAGAAAGGCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTT
*
809862 T---A-AG-AGGTGTCCTGCTCTTT---GA---GG
193 TAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
* * *
809886 ---ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGATTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
* * * *
809948 CAACTTGTGTGGGCTTTGAAAGAG-GTCTTGCTTTTTGGGGATGGAAAGGTGCCACCAACTTGTG
66 CAACTTGTGTGGGCTTTAAAAG-GTGTCCTGCTCTTTGAGGATGG-AAGGTGCCACCAACTTGTG
* * *
810012 TAGGCTTTGAAAGAAAAGGCGTCCCGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGC
129 TGGGCTTT-AAAG-AAAGGCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGC
810077 TTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
191 TTTAAAA-GAGAAGGCGTCCTGCTCTTTGAGGACTGGG
*
810115 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAA-
1 AAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGGACT-GAAAG
810179 GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAA
59 GTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGA-TGGAAGGTGCCACCAA
*
810243 CTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTG
123 CTTGTGTGGGCTTT-AAA-GA-AAGGCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTG
*
810308 TGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGG
184 TGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGG
810351 AAAGCGGAAG
Statistics
Matches: 397, Mismatches: 34, Indels: 47
0.83 0.07 0.10
Matches are distributed among these distances:
211 3 0.01
212 115 0.29
213 2 0.01
216 1 0.00
217 43 0.11
218 4 0.01
220 1 0.00
222 2 0.01
223 15 0.04
226 2 0.01
229 2 0.01
232 24 0.06
237 61 0.15
238 118 0.30
239 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (227 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
CAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATGGAAGGTGCCACCAACTTGTGTG
GGCTTTAAAGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAA
AAGAGAAGGCGTCCTGCTCTTTGAGGACTGGG
Found at i:811325 original size:1 final size:1
Alignment explanation
Indices: 811315--811374 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
811305 CTTAAGCAGA
* * * * * * *
811315 TTTTTCTTTTTTTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTGTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
811375 GAAGAGAAGG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:811346 original size:17 final size:17
Alignment explanation
Indices: 811324--811364 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
811314 ATTTTTCTTT
811324 TTTTTTTCTTTGTTTTG
1 TTTTTTTCTTTGTTTTG
* *
811341 TTTTTTTGTTTTTTTTG
1 TTTTTTTCTTTGTTTTG
811358 TTTTTTT
1 TTTTTTT
811365 TTTCTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (17 bp):
TTTTTTTCTTTGTTTTG
Found at i:811352 original size:22 final size:20
Alignment explanation
Indices: 811315--811373 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
811305 CTTAAGCAGA
811315 TTTTTCTTTTTTTTTTCTTTG
1 TTTTT-TTTTTTTTTTCTTTG
*
811336 TTTTGTTTTTTTGTTTTTTTTG
1 TTTT-TTTTTTT-TTTTCTTTG
811358 TTTTTTTTTTCTTTTT
1 TTTTTTTTTT-TTTTT
811374 TGAAGAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (20 bp):
TTTTTTTTTTTTTTTCTTTG
Found at i:811365 original size:9 final size:9
Alignment explanation
Indices: 811323--811375 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
811313 GATTTTTCTT
*
811323 TTTTTTTTC
1 TTTTTTTTG
*
811332 TTTGTTTTG
1 TTTTTTTTG
811341 -TTTTTTTG
1 TTTTTTTTG
811349 TTTTTTTTG
1 TTTTTTTTG
811358 TTTTTTTT-
1 TTTTTTTTG
811366 TTCTTTTTTG
1 TT-TTTTTTG
811376 AAGAGAAGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
8 9 0.24
9 29 0.76
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:817059 original size:17 final size:17
Alignment explanation
Indices: 817037--817070 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
817027 ACATCGATTC
*
817037 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
817054 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
817071 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:823822 original size:27 final size:28
Alignment explanation
Indices: 823780--823859 Score: 117
Period size: 27 Copynumber: 2.9 Consensus size: 28
823770 TTTGGAGATA
*
823780 ATAACGGGGTTAGAGTATCCCCGATGA-
1 ATAACGGGGTTGGAGTATCCCCGATGAG
*
823807 TTAACGGGGTTGGAGTATCCCCGATGAG
1 ATAACGGGGTTGGAGTATCCCCGATGAG
* *
823835 ATAACGAGGTTGGAGTATCCTCGAT
1 ATAACGGGGTTGGAGTATCCCCGAT
823860 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 25 0.53
28 22 0.47
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
ATAACGGGGTTGGAGTATCCCCGATGAG
Found at i:823902 original size:52 final size:51
Alignment explanation
Indices: 823842--824064 Score: 236
Period size: 52 Copynumber: 4.3 Consensus size: 51
823832 GAGATAACGA
* * * *
823842 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATC-G
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGT-GTTTTGAAAATAAAATCAG
* * *
823893 GAGTTGGAGTATCCCCGATTAAAG-GAAAAATTGGTGTTTTGAAAATAAAACCAA
1 G-GTTGGAGTATCCCCGATT---GTGAAAAATTAGTGTTTTGAAAATAAAATCAG
* *
823947 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCAG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTGA-AAATAAAATCAG
* * * * *
823999 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGAAAATAAAGTCAG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCAG
824050 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
824065 TCGGAAATAA
Statistics
Matches: 148, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.01
51 39 0.26
52 63 0.43
53 32 0.22
54 12 0.08
55 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCAG
Found at i:823992 original size:105 final size:103
Alignment explanation
Indices: 823841--824064 Score: 272
Period size: 105 Copynumber: 2.2 Consensus size: 103
823831 TGAGATAACG
* * * * *
823841 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATC-GGAGTTGGAGTAT
1 AGGTTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTTAGAAATAAAACCAGG-GTTGGAGTAT
*** *
823905 CCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCA
65 CCCCGATT--AGGAAAAATCAATATTTTGAAAATAAAACCA
*
823946 AGGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCAGGGTTGGAGTAT
1 AGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTAGTTTTAGAAATAAAACCAGGGTTGGAGTAT
* **
824010 CCCCGATTATGAAAAATCAATATTTTGAAAATAAAGTCA
65 CCCCGATTAGGAAAAATCAATATTTTGAAAATAAAACCA
*
824049 GGGTTGGAGTATCCCC
1 AGGTTGGAGTATCCCC
824065 TCGGAAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
103 39 0.38
105 52 0.50
106 12 0.12
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (103 bp):
AGGTTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTTAGAAATAAAACCAGGGTTGGAGTATC
CCCGATTAGGAAAAATCAATATTTTGAAAATAAAACCA
Found at i:824113 original size:27 final size:28
Alignment explanation
Indices: 824047--824122 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
824037 AAAATAAAGT
***
824047 CAGGGTTGGAGTATCCCCTCGGAAATAA
1 CAGGGTTGGAGTATCCCCGATGAAATAA
* *
824075 CAGGGTTAGAGTATCCCCGATG-ATTAA
1 CAGGGTTGGAGTATCCCCGATGAAATAA
*
824102 CGGGGTTGGAGTATCCCCGAT
1 CAGGGTTGGAGTATCCCCGAT
824123 TATAGAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (28 bp):
CAGGGTTGGAGTATCCCCGATGAAATAA
Found at i:825998 original size:12 final size:11
Alignment explanation
Indices: 825981--826012 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
825971 TGGAATAGTG
825981 TTTTTTTTTGT
1 TTTTTTTTTGT
825992 TTTTTTTTTGT
1 TTTTTTTTTGT
826003 TTTTTCTTTT
1 TTTTT-TTTT
826013 TTGCTAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:826552 original size:20 final size:20
Alignment explanation
Indices: 826527--826593 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
826517 AAATTTCCAA
826527 ATGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGATCC
826547 ATGTATCGATAC----AT--
1 ATGTATCGATACAAAGATCC
826561 -TGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGATCC
826580 ATGTATCGATACAA
1 ATGTATCGATACAA
826594 TGTATCGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 25 0.62
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCC
Found at i:826566 original size:13 final size:13
Alignment explanation
Indices: 826548--826572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
826538 CAAAGATCCA
826548 TGTATCGATACAT
1 TGTATCGATACAT
826561 TGTATCGATACA
1 TGTATCGATACA
826573 AAGATCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:826570 original size:33 final size:33
Alignment explanation
Indices: 826528--826627 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 33
826518 AATTTCCAAA
826528 TGTATCGATACAAAGATCCATGTATCGATACAT
1 TGTATCGATACAAAGATCCATGTATCGATACAT
*
826561 TGTATCGATACAAAGATCCATGTATCGATACAA
1 TGTATCGATACAAAGATCCATGTATCGATACAT
***
826594 TGTATCGATACACAA-AAAAATGTATCGATACAT
1 TGTATCGATACA-AAGATCCATGTATCGATACAT
826627 T
1 T
826628 TCCTTGGCAG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 59 0.97
34 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (33 bp):
TGTATCGATACAAAGATCCATGTATCGATACAT
Found at i:826598 original size:13 final size:13
Alignment explanation
Indices: 826580--826605 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
826570 ACAAAGATCC
826580 ATGTATCGATACA
1 ATGTATCGATACA
826593 ATGTATCGATACA
1 ATGTATCGATACA
826606 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:829482 original size:10 final size:11
Alignment explanation
Indices: 829455--829481 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
829445 ACACTTTCAA
829455 AAAAAATCATG
1 AAAAAATCATG
829466 AAAAAATCATG
1 AAAAAATCATG
829477 AAAAA
1 AAAAA
829482 TGGTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAAATCATG
Found at i:833936 original size:37 final size:36
Alignment explanation
Indices: 833895--834035 Score: 157
Period size: 37 Copynumber: 4.0 Consensus size: 36
833885 ACTTCACCCG
*
833895 GACTTAGGTGCCACCAGCTTGTGCGGGCTTTGACTCA
1 GACTT-GGTGCCACCAGCTTGTGTGGGCTTTGACTCA
* *
833932 GACTTGGTGCCACCAGCTTATGTGGGCTTTAACTC-
1 GACTTGGTGCCACCAGCTTGTGTGGGCTTTGACTCA
* * *
833967 G----GGTGCTACCAGCTTGTGTGAGCTTTGACTTA
1 GACTTGGTGCCACCAGCTTGTGTGGGCTTTGACTCA
* *
833999 GACTTAGGTGCCACGAACTTGTGTGGGCTTTGACTCA
1 GACTT-GGTGCCACCAGCTTGTGTGGGCTTTGACTCA
834036 AGTGTCATCA
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
31 25 0.29
32 1 0.01
35 1 0.01
36 27 0.32
37 31 0.36
ACGTcount: A:0.17, C:0.23, G:0.29, T:0.30
Consensus pattern (36 bp):
GACTTGGTGCCACCAGCTTGTGTGGGCTTTGACTCA
Found at i:833978 original size:67 final size:68
Alignment explanation
Indices: 833900--834065 Score: 192
Period size: 68 Copynumber: 2.5 Consensus size: 68
833890 ACCCGGACTT
* *
833900 AGGTGCCACCAGCTTGTGCGGGCTTTGACTCAGACTT-GGTGCCACCAGCTTATGTGGGCTTTAA
1 AGGTGCTACCAGCTTGTGCGGGCTTTGACTCAGACTTAGGTGCCACCAACTTATGTGGGCTTTAA
833964 CTC
66 CTC
* * * * * * *
833967 GGGTGCTACCAGCTTGTGTGAGCTTTGACTTAGACTTAGGTGCCACGAACTTGTGTGGGCTTTGA
1 AGGTGCTACCAGCTTGTGCGGGCTTTGACTCAGACTTAGGTGCCACCAACTTATGTGGGCTTTAA
834032 CTC
66 CTC
* * * *
834035 AAGTG-TCATCAACTTGTGCGGGCTTAGACTC
1 AGGTGCT-ACCAGCTTGTGCGGGCTTTGACTC
834066 GGGTGCCGCT
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
67 33 0.41
68 47 0.59
ACGTcount: A:0.17, C:0.23, G:0.29, T:0.30
Consensus pattern (68 bp):
AGGTGCTACCAGCTTGTGCGGGCTTTGACTCAGACTTAGGTGCCACCAACTTATGTGGGCTTTAA
CTC
Found at i:834097 original size:99 final size:101
Alignment explanation
Indices: 833895--834350 Score: 235
Period size: 99 Copynumber: 4.6 Consensus size: 101
833885 ACTTCACCCG
* * *
833895 GACTTAGGTGCCACCAGCTTGTGCGGGCTTTGACTCAGACTTGGTGCCACCAGCTTATGTGGGCT
1 GACTTAGGTGCCACCAACTTGTGCGGGCTTTGACTCAGA--T-GTGCCACCAACTTATGCGGGCT
* *
833960 TTAACTCGGGTGCTACCAGCTTGTGTGAGCTTTGACTTA
63 TTAACTCGGGTGCCACCAGCTTGTGTGAGCTTTAACTTA
* * * * *
833999 GACTTAGGTGCCACGAACTTGTGTGGGCTTTGACTCA-A-GTGTCATCAACTTGTGCGGGC-TTA
1 GACTTAGGTGCCACCAACTTGTGCGGGCTTTGACTCAGATGTGCCACCAACTTATGCGGGCTTTA
* * *
834061 GACTCGGGTGCCGCTAGTTTGTGTGAGC--T---TTA
66 -ACTCGGGTGCCACCAGCTTGTGTGAGCTTTAACTTA
* * * * * * * * *** * *** * *
834093 -ACTTAGGTGTCGCTAGCTCGTGCGGGCTTAGACT-TG-TGTACCACTTGCTTGTGTAAGCTCTG
1 GACTTAGGTGCCACCAACTTGTGCGGGCTTTGACTCAGATGTGCCACCAACTTATGCGGGCTTTA
* * * * * * *
834155 ATTAGGATGCCACCAACTCGTGTGGGCTTTAACTCA
66 ACTCGGGTGCCACCAGCTTGTGTGAGCTTTAACTTA
* ** * * * **
834191 AACTTAGGTGCCACCGGCTTGTGTGGGCTTTGACTTA-A-GTGCCTCCAACTCGTGCGGG-TTTA
1 GACTTAGGTGCCACCAACTTGTGCGGGCTTTGACTCAGATGTGCCACCAACTTATGCGGGCTTTA
** ** *
834253 GACTTAGGTGCCGTCAGCTTGTGCGAGC-TTAGACTTA
66 -ACTCGGGTGCCACCAGCTTGTGTGAGCTTTA-ACTTA
* * * * **
834290 GACTTAAGTGCCACCAGCTTGTGTGGGCTTTGACTCAG--GTGCCAGCAACTCGTGCGGGCTT
1 GACTTAGGTGCCACCAACTTGTGCGGGCTTTGACTCAGATGTGCCACCAACTTATGCGGGCTT
834351 AGACTTAGAT
Statistics
Matches: 259, Mismatches: 77, Indels: 36
0.70 0.21 0.10
Matches are distributed among these distances:
93 57 0.22
94 4 0.02
95 1 0.00
97 1 0.00
98 10 0.04
99 149 0.58
100 2 0.01
103 1 0.00
104 34 0.13
ACGTcount: A:0.17, C:0.23, G:0.29, T:0.30
Consensus pattern (101 bp):
GACTTAGGTGCCACCAACTTGTGCGGGCTTTGACTCAGATGTGCCACCAACTTATGCGGGCTTTA
ACTCGGGTGCCACCAGCTTGTGTGAGCTTTAACTTA
Found at i:834227 original size:31 final size:31
Alignment explanation
Indices: 834192--834358 Score: 120
Period size: 31 Copynumber: 5.2 Consensus size: 31
834182 TTTAACTCAA
* *
834192 ACTTAGGTGCCACCGGCTTGTGTGGGCTTTG
1 ACTTAGGTGCCACCAGCTTGTGCGGGCTTTG
* * * *
834223 ACTTAAGTGCCTCCAACTCGTGCGGG-TTTAG
1 ACTTAGGTGCCACCAGCTTGTGCGGGCTTT-G
** *
834254 ACTTAGGTGCCGTCAGCTTGTGCGAGCTTAGACTTAG
1 ACTTAGGTGCCACCAGCTTGTGCG-G----G-CTTTG
* *
834291 ACTTAAGTGCCACCAGCTTGTGTGGGCTTTG
1 ACTTAGGTGCCACCAGCTTGTGCGGGCTTTG
* * * * *
834322 ACTCAGGTGCCAGCAACTCGTGCGGGCTTAG
1 ACTTAGGTGCCACCAGCTTGTGCGGGCTTTG
834353 ACTTAG
1 ACTTAG
834359 ATTTAGGTGC
Statistics
Matches: 103, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
30 3 0.03
31 73 0.71
32 2 0.02
36 2 0.02
37 21 0.20
38 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (31 bp):
ACTTAGGTGCCACCAGCTTGTGCGGGCTTTG
Found at i:834345 original size:68 final size:68
Alignment explanation
Indices: 834222--834455 Score: 249
Period size: 68 Copynumber: 3.4 Consensus size: 68
834212 TGTGGGCTTT
* * * * * *
834222 GACTTAAGTGCCTCCAACTCGTGCGGG-TTTAGACTTAGGTGCC-GTCAGCTTGTGCGAGCTTAG
1 GACTTAAGTGCCACCAACTTGTGTGGGCTTT-GACTCAGGTGCCAG-CAACTCGTGCGAGCTTAG
834285 ACTTA
64 ACTTA
* *
834290 GACTTAAGTGCCACCAGCTTGTGTGGGCTTTGACTCAGGTGCCAGCAACTCGTGCGGGCTTAGAC
1 GACTTAAGTGCCACCAACTTGTGTGGGCTTTGACTCAGGTGCCAGCAACTCGTGCGAGCTTAGAC
834355 TTA
66 TTA
* * * * * * *
834358 GATTTAGGTGCCACCAGCTTGTGTGGGCTTTAACTCAAGTGCCA-CTAAATCGTGTGAGCTTAGA
1 GACTTAAGTGCCACCAACTTGTGTGGGCTTTGACTCAGGTGCCAGC-AACTCGTGCGAGCTTAGA
834422 CTTA
65 CTTA
* * * *
834426 AATTTAGGTGCCACCAACTTGTGTGAGCTT
1 GACTTAAGTGCCACCAACTTGTGTGGGCTT
834456 ATAAAAGAGG
Statistics
Matches: 145, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
67 1 0.01
68 140 0.97
69 4 0.03
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (68 bp):
GACTTAAGTGCCACCAACTTGTGTGGGCTTTGACTCAGGTGCCAGCAACTCGTGCGAGCTTAGAC
TTA
Found at i:834386 original size:37 final size:37
Alignment explanation
Indices: 834250--834387 Score: 135
Period size: 37 Copynumber: 3.9 Consensus size: 37
834240 TCGTGCGGGT
** *
834250 TTAGACTTAGGTGCCGTCAGCTTGTGCGAGCTTAGAC
1 TTAGACTTAGGTGCCACCAGCTTGTGCGGGCTTAGAC
* *
834287 TTAGACTTAAGTGCCACCAGCTTGTGTGGGC-T----
1 TTAGACTTAGGTGCCACCAGCTTGTGCGGGCTTAGAC
* * * *
834319 TT-GACTCAGGTGCCAGCAACTCGTGCGGGCTTAGAC
1 TTAGACTTAGGTGCCACCAGCTTGTGCGGGCTTAGAC
* *
834355 TTAGATTTAGGTGCCACCAGCTTGTGTGGGCTT
1 TTAGACTTAGGTGCCACCAGCTTGTGCGGGCTT
834388 TAACTCAAGT
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
31 22 0.28
32 3 0.04
36 3 0.04
37 50 0.64
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (37 bp):
TTAGACTTAGGTGCCACCAGCTTGTGCGGGCTTAGAC
Found at i:834398 original size:99 final size:93
Alignment explanation
Indices: 834156--834402 Score: 206
Period size: 99 Copynumber: 2.5 Consensus size: 93
834146 TAAGCTCTGA
* * *
834156 TTAGGATGCCACCAACTCGTGTGGGCTTTAACTCAAACTTAGGTGCCACCGGCTTGTGTGGGCTT
1 TTAGG-TGCCACCAGCTTGTGTGGGCTTTAACTC--A---A-GTGCCACCAGCTTGTGTGGGCTT
* *
834221 TGACTTAAGTGCCTCCAACTCGTGCGGGTTTAGAC
59 TGACTCAAGTGCCACCAACTCGTGCGGGTTTAGAC
** * * *
834256 TTAGGTGCCGTCAGCTTGTGCGAGCTTAGACTTAGACTTAAGTGCCACCAGCTTGTGTGGGCTTT
1 TTAGGTGCCACCAGCTTGTGTGGGC-T----TTA-ACTCAAGTGCCACCAGCTTGTGTGGGCTTT
* * *
834321 GACTCAGGTGCCAGCAACTCGTGCGGGCTTAGACTTAGAT
60 GACTCAAGTGCCACCAACTCGTGCGGG--T----TTAGAC
834361 TTAGGTGCCACCAGCTTGTGTGGGCTTTAACTCAAGTGCCAC
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTAACTCAAGTGCCAC
834403 TAAATCGTGT
Statistics
Matches: 117, Mismatches: 18, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
99 72 0.62
100 10 0.09
101 1 0.01
103 1 0.01
104 4 0.03
105 29 0.25
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (93 bp):
TTAGGTGCCACCAGCTTGTGTGGGCTTTAACTCAAGTGCCACCAGCTTGTGTGGGCTTTGACTCA
AGTGCCACCAACTCGTGCGGGTTTAGAC
Found at i:834400 original size:31 final size:31
Alignment explanation
Indices: 833902--834402 Score: 85
Period size: 31 Copynumber: 15.2 Consensus size: 31
833892 CCGGACTTAG
* *
833902 GTGCCACCAGCTTGTGCGGGCTTTGACTCAGA
1 GTGCCACCAGCTTGTGTGGGCTTTAACTCA-A
* **
833934 CTTGGTGCCACCAGCTTATGTGGGCTTTAACTCGG
1 ----GTGCCACCAGCTTGTGTGGGCTTTAACTCAA
* * * *
833969 GTGCTACCAGCTTGTGTGAGCTTTGACTTAGACTTAG
1 GTGCCACCAGCTTGTGTGGGC--T---TTA-ACTCAA
* * *
834006 GTGCCACGAACTTGTGTGGGCTTTGACTCAA
1 GTGCCACCAGCTTGTGTGGGCTTTAACTCAA
* * * * **
834037 GTGTCATCAACTTGTGCGGGC-TTAGACTCGG
1 GTGCCACCAGCTTGTGTGGGCTTTA-ACTCAA
* * * * * *
834068 GTGCCGCTAGTTTGTGTGAGCTTTAACTTAG
1 GTGCCACCAGCTTGTGTGGGCTTTAACTCAA
* * * * * ***
834099 GTGTCGCTAGCTCGTGCGGGC-TTAGACTTGT
1 GTGCCACCAGCTTGTGTGGGCTTTA-ACTCAA
* ** ** * * * *
834130 GTACCACTTGCTTGTGTAAGCTCTGA-TTAG
1 GTGCCACCAGCTTGTGTGGGCTTTAACTCAA
* *
834160 GATGCCACCAACTCGTGTGGGCTTTAACTCAAACTTA
1 G-TGCCACCAGCTTGTGTGGGCTTTAACTC--A---A
* * *
834197 GGTGCCACCGGCTTGTGTGGGCTTTGACTTAA
1 -GTGCCACCAGCTTGTGTGGGCTTTAACTCAA
* * * * * *
834229 GTGCCTCCAACTCGTGCGGG-TTTAGACTTAG
1 GTGCCACCAGCTTGTGTGGGCTTTA-ACTCAA
** * * *
834260 GTGCCGTCAGCTTGTGCGAGCTTAGACTTAGACTTAA
1 GTGCCACCAGCTTGTGTGGGC-T----TTA-ACTCAA
* *
834297 GTGCCACCAGCTTGTGTGGGCTTTGACTCAG
1 GTGCCACCAGCTTGTGTGGGCTTTAACTCAA
* * * * *
834328 GTGCCAGCAACTCGTGCGGGC-TTAGACTTAGATTTA
1 GTGCCACCAGCTTGTGTGGGCTTTA-AC-T-CA---A
834364 GGTGCCACCAGCTTGTGTGGGCTTTAACTCAA
1 -GTGCCACCAGCTTGTGTGGGCTTTAACTCAA
834396 GTGCCAC
1 GTGCCAC
834403 TAAATCGTGT
Statistics
Matches: 331, Mismatches: 101, Indels: 71
0.66 0.20 0.14
Matches are distributed among these distances:
30 13 0.04
31 175 0.53
32 12 0.04
33 3 0.01
34 1 0.00
35 3 0.01
36 31 0.09
37 89 0.27
38 4 0.01
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (31 bp):
GTGCCACCAGCTTGTGTGGGCTTTAACTCAA
Found at i:834565 original size:35 final size:34
Alignment explanation
Indices: 834482--834565 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
834472 AATGAGTGGG
* * *
834482 CATCCTGTTCTTTGAAGACAAAGGAAAAGGAGTG
1 CATCCTGCTCTTTGAAAACAAAGGAAAAGGAGTA
* *
834516 CATCTTACTCTTTGAAAACAGAA-GAAAAGGAAGTA
1 CATCCTGCTCTTTGAAAACA-AAGGAAAAGG-AGTA
834551 CATCCTGCTCTTTGA
1 CATCCTGCTCTTTGA
834566 GGATAAAGCA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 23 0.56
35 18 0.44
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (34 bp):
CATCCTGCTCTTTGAAAACAAAGGAAAAGGAGTA
Found at i:843188 original size:19 final size:20
Alignment explanation
Indices: 843145--843193 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
843135 TATCAATTTC
843145 ATGTATCGATACAATTGAAT
1 ATGTATCGATACAATTGAAT
*
843165 ATGTATCGATACAA-TGAGT
1 ATGTATCGATACAATTGAAT
843184 ATGTATCGAT
1 ATGTATCGAT
843194 GCAAAGCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAT
Found at i:845573 original size:39 final size:39
Alignment explanation
Indices: 845529--845608 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
845519 TGCCTTTTGG
*
845529 AATCCATTGCATTTTAGTAGCTTTATCTTGAAATGTGCT
1 AATCCATTGCATTTTAGTAGCTTCATCTTGAAATGTGCT
*
845568 AATCCATTTCATTTTAGTAGCTTCATCTTGAAATGTGCT
1 AATCCATTGCATTTTAGTAGCTTCATCTTGAAATGTGCT
845607 AA
1 AA
845609 CTCCTTTAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (39 bp):
AATCCATTGCATTTTAGTAGCTTCATCTTGAAATGTGCT
Found at i:848025 original size:20 final size:20
Alignment explanation
Indices: 848000--848050 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
847990 ATTTAGGGAA
848000 GTATCGATACATTGTGCAT-T
1 GTATCGATACATT-TGCATGT
*
848020 GTATCGATACATTTTCATGT
1 GTATCGATACATTTGCATGT
*
848040 GTATTGATACA
1 GTATCGATACA
848051 AATAGGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTTGCATGT
Found at i:850984 original size:22 final size:20
Alignment explanation
Indices: 850948--850988 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
850938 TTTGATCAAA
850948 TAATTTATTTAAATTTAATC
1 TAATTTATTTAAATTTAATC
850968 TAATTTGATTATAAATTTAAT
1 TAATTT-ATT-TAAATTTAAT
850989 AAATTGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TAATTTATTTAAATTTAATC
Found at i:856030 original size:20 final size:20
Alignment explanation
Indices: 855994--856032 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
855984 GAAATTTAAT
*
855994 GCATATAATCTACTAATAAA
1 GCATAAAATCTACTAATAAA
856014 GCATAAAATACTA-TAATAA
1 GCATAAAAT-CTACTAATAA
856033 TTAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (20 bp):
GCATAAAATCTACTAATAAA
Found at i:856942 original size:21 final size:20
Alignment explanation
Indices: 856913--856951 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
856903 CTTTTAAGAA
856913 TTTAAAAATTTTATTTCCTTT
1 TTTAAAAA-TTTATTTCCTTT
*
856934 TTTACAAATTTATTTCCT
1 TTTAAAAATTTATTTCCT
856952 ATATCATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAAAAATTTATTTCCTTT
Found at i:857239 original size:25 final size:25
Alignment explanation
Indices: 857211--857265 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
857201 TATAAGATCT
857211 TTTAATATA-TAGTTTTTGCTATTT-A
1 TTTAATATACTA-TTTTTGCT-TTTGA
* *
857236 TTTATTATACTATTTTTTCTTTTGA
1 TTTAATATACTATTTTTGCTTTTGA
857261 TTTAA
1 TTTAA
857266 CATTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 3 0.12
25 20 0.80
26 2 0.08
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (25 bp):
TTTAATATACTATTTTTGCTTTTGA
Done.