Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 24 of 206
Found at i:7071309 original size:13 final size:13
Alignment explanation
Indices: 7071275--7071311 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
7071265 GCTTCCTTAA
7071275 TATTTGA-TTTAT
1 TATTTGATTTTAT
7071287 TATTTGATTTTAGT
1 TATTTGATTTTA-T
7071301 TATTT-ATTTTA
1 TATTTGATTTTA
7071312 ATTTTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TATTTGATTTTAT
Found at i:7071774 original size:15 final size:16
Alignment explanation
Indices: 7071754--7071787 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7071744 CCGACCCGTT
7071754 AAACAAATA-AAGCCC
1 AAACAAATACAAGCCC
*
7071769 AAACAATTACAAGCCC
1 AAACAAATACAAGCCC
7071785 AAA
1 AAA
7071788 TCAGCCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.26, G:0.06, T:0.09
Consensus pattern (16 bp):
AAACAAATACAAGCCC
Found at i:7073452 original size:16 final size:16
Alignment explanation
Indices: 7073426--7073473 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 16
7073416 ACTTTACTGT
7073426 TATAT-TGTATTTGTA
1 TATATATGTATTTGTA
7073441 TATATATGTATTTGTA
1 TATATATGTATTTGTA
* *
7073457 -A-ATATTTATTCGTA
1 TATATATGTATTTGTA
7073471 TAT
1 TAT
7073474 GCTGTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 11 0.39
15 7 0.25
16 10 0.36
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (16 bp):
TATATATGTATTTGTA
Found at i:7073602 original size:19 final size:20
Alignment explanation
Indices: 7073565--7073602 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7073555 TACATCAAAG
*
7073565 TTTTTTTCTTGATTCAAAAC
1 TTTTTTTCTTGAATCAAAAC
*
7073585 TTTTTTTTTTGAAT-AAAA
1 TTTTTTTCTTGAATCAAAA
7073603 GCAATATTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTTTTCTTGAATCAAAAC
Found at i:7079567 original size:133 final size:133
Alignment explanation
Indices: 7079387--7080322 Score: 1127
Period size: 133 Copynumber: 7.1 Consensus size: 133
7079377 GTAGAGCAAG
* * * * *
7079387 TTGAAGATAGCAGATCTTGCCTTTCTGCATAGACAGCGAATCTGATCGAAGATGGCAGATTTTTC
1 TTGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAAGATGGCAGATTTTAC
* * * * *
7079452 CTCCATGTAGTTACAGTGGAGTACATTGATGACAGTAATTCTACTTCCCTGGGCAGCAGTGGAAC
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
7079517 AGA
131 AGA
* *
7079520 TTAAAGATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGATGGCAGATTTTAC
1 TTGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAAGATGGCAGATTTTAC
* *
7079585 CT-CCTCGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTA-TCTCCCTGGGCAGCAGCGGA
66 CTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGA
7079648 ATAGA
129 ATAGA
** * ** * * * * * *
7079653 TTGAAGATTTCAGAGCTTATCTCCCT--A-AGCAGTAGTGAGGCAGATTAAAGATGG-TGAATTT
1 TTGAAGATAGCAGATCTTGCCTTCCTGCATAG-A-CAGCGAAGCAGATCAAAGATGGCAG-ATTT
* *
7079714 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCTCTGGGCAGCAGCG
63 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTG
7079778 GAATAGA
127 GAATAGA
* ** * *
7079785 TTGGAGATTTCAGATCTTGCCTCCCTAAGCAGTAG--TG-G-AGCAGATCAAAGATGGC-GAATT
1 TTGAAGATAGCAGATCTTGCCTTCCT--GCA-TAGACAGCGAAGCAGATCAAAGATGGCAG-ATT
7079845 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC-GATAATTCTACTTCCCTGGGCAGCAGT
62 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAG-TAATTCTACTTCCCTGGGCAGCAGT
7079909 GGAATAGA
126 GGAATAGA
** * * *
7079917 TCAAAGATAGCAGATCTTGCCTTACTGCATAGACAGCGAAGCAAATCGAAGATGGCAGATTTTAC
1 TTGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAAGATGGCAGATTTTAC
* *
7079982 CT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAA
66 CTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAA
7080046 TAGA
130 TAGA
** * * *
7080050 TCAAAGATAGCAGATCTTGCCTTCCTGTATAGACAGCGAAGCTGATCAAAGATGGTAGATTTTAC
1 TTGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAAGATGGCAGATTTTAC
*
7080115 CTCCCTGTGGTTACAGTGGAGTACACTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
7080180 AGA
131 AGA
** * * * *
7080183 TTGAAGATTTCAGATTTTGTC-TCCTTAAGCAGTAG-TAG-G--GCAGATCAAATATGGCAGATT
1 TTGAAGATAGCAGATCTTGCCTTCC-T--GCA-TAGACAGCGAAGCAGATCAAAGATGGCAGATT
*
7080243 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTG
62 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTG
7080308 GAATAGA
127 GAATAGA
7080315 TTGAAGAT
1 TTGAAGAT
7080323 TTCAAATCTT
Statistics
Matches: 706, Mismatches: 70, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
129 3 0.00
130 5 0.01
131 5 0.01
132 318 0.45
133 358 0.51
134 7 0.01
135 4 0.01
136 4 0.01
138 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (133 bp):
TTGAAGATAGCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAAGATGGCAGATTTTAC
CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
AGA
Found at i:7079746 original size:132 final size:132
Alignment explanation
Indices: 7079420--7080333 Score: 1064
Period size: 132 Copynumber: 6.9 Consensus size: 132
7079410 TCTGCATAGA
* * * * * * * *
7079420 CAGCGAATCTGATCGAAGATGGCAGATTTTTCCTCCATGTAGTTACAGTGGAGTACATTGATGAC
1 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
* * ** *
7079485 AGTAATTCTACTTCCCTGGGCAGCAGTGGAACAGATTAAAGATAGCAGATCTTGCCTTCCT--GC
66 AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGC
7079548 ATAG
131 --AG
*
7079552 ACAGCGAAGCAGATCGAAGATGGCAGATTTTACCT-CCTCGTGGTTACAGTGGAGTACATTGAAG
1 -CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAG
* * * **
7079616 CTAGTAATTCTA-TCTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGAGCTTATCTCCCTA
64 CCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTA
7079680 AGCAG
128 AGCAG
* * * * *
7079685 TAGTGAGGCAGATTAAAGATGG-TGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 CAGCGAAGCAGATCAAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * *
7079749 CAGTAATTCTA-TCTCTCTGGGCAGCAGCGGAATAGATTGGAGATTTCAGATCTTGCCTCCCTAA
65 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAA
7079813 GCAG
129 GCAG
* * *
7079817 TAGTGGAGCAGATCAAAGATGGC-GAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 CAGCGAAGCAGATCAAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
** ** **
7079881 C-GATAATTCTACTTCCCTGGGCAGCAGTGGAATAGATCAAAGATAGCAGATCTTGCCTTACT--
65 CAG-TAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAA
7079943 GCATAG
129 GC--AG
* *
7079949 ACAGCGAAGCAAATCGAAGATGGCAGATTTTACCT-CCTCGTGGTTACAGTGGAGTACATTGAAG
1 -CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAG
* * ** ** *
7080013 CCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATCAAAGATAGCAGATCTTGCCTTCCTGT
64 CCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCC-TCC-CT
7080078 ATAG-A-
127 A-AGCAG
* * *
7080083 CAGCGAAGCTGATCAAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGGAGTACACTGAAGCC
1 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
* * *
7080148 AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATTTTGTCTCCTTAAGC
66 AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGC
7080213 AG
131 AG
* * * *
7080215 TAG-TAGGGCAGATCAAATATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
1 CAGCGA-AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* *
7080279 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAAATCTTG
65 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTG
7080334 TCTTCCCATA
Statistics
Matches: 682, Mismatches: 75, Indels: 49
0.85 0.09 0.06
Matches are distributed among these distances:
130 4 0.01
131 6 0.01
132 341 0.50
133 320 0.47
134 6 0.01
135 4 0.01
138 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGC
AG
Found at i:7080411 original size:44 final size:44
Alignment explanation
Indices: 7080354--7080498 Score: 166
Period size: 44 Copynumber: 3.3 Consensus size: 44
7080344 CTGGTGGTGG
*
7080354 AGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGA
* * ** * *
7080398 AGTAGATCAAAG-AAACAGGTCTTGTCTCCCCGTACTAGTGGTGG
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTAG-CGTGA
* * * * *
7080442 AGTAGATCGAAGAAAATAGATTTTATCTTCATGTACTGGCGTGA
1 AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGA
7080486 AGTAGATCAAAGA
1 AGTAGATCAAAGA
7080499 TAGCAGGTCC
Statistics
Matches: 80, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
43 22 0.28
44 40 0.50
45 18 0.22
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (44 bp):
AGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGA
Found at i:7080441 original size:88 final size:89
Alignment explanation
Indices: 7080329--7080513 Score: 282
Period size: 88 Copynumber: 2.1 Consensus size: 89
7080319 AGATTTCAAA
* * *
7080329 TCTTGTCTTCCCATACTGGTGGTGGAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTAGC
1 TCTTGTCTCCCCATACTAGTGGTGGAGTAGATCGAAGAAAACAGATCTTATCTTCATGTACTAGC
7080394 GTGAAGTAGATCAAAGA-AACAGG
66 GTGAAGTAGATCAAAGATAACAGG
* * * *
7080417 TCTTGTCTCCCCGTACTAGTGGTGGAGTAGATCGAAGAAAATAGATTTTATCTTCATGTACTGGC
1 TCTTGTCTCCCCATACTAGTGGTGGAGTAGATCGAAGAAAACAGATCTTATCTTCATGTACTAGC
*
7080482 GTGAAGTAGATCAAAGATAGCAGG
66 GTGAAGTAGATCAAAGATAACAGG
*
7080506 TCCTGTCT
1 TCTTGTCT
7080514 TCTTATATCG
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
88 75 0.86
89 12 0.14
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (89 bp):
TCTTGTCTCCCCATACTAGTGGTGGAGTAGATCGAAGAAAACAGATCTTATCTTCATGTACTAGC
GTGAAGTAGATCAAAGATAACAGG
Found at i:7082795 original size:16 final size:16
Alignment explanation
Indices: 7082769--7082816 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 16
7082759 ACTTTACTGT
7082769 TATAT-TGTATTTGTA
1 TATATATGTATTTGTA
7082784 TATATATGTATTTGTA
1 TATATATGTATTTGTA
* *
7082800 -A-ATATTTATTCGTA
1 TATATATGTATTTGTA
7082814 TAT
1 TAT
7082817 GTTGTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 11 0.39
15 7 0.25
16 10 0.36
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (16 bp):
TATATATGTATTTGTA
Found at i:7083687 original size:132 final size:131
Alignment explanation
Indices: 7083514--7084197 Score: 1041
Period size: 132 Copynumber: 5.2 Consensus size: 131
7083504 AAAAAAAAAC
* *
7083514 GGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGAT-AA
1 GGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAA
* *
7083578 AAAGTGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCC
66 AGA-TGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TTCC
7083643 CTG
129 CTG
* * *
7083646 GGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAATGGGGCAGATCAA
1 GGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAA
*
7083711 AGATGGTGAATTTTACCTCCCTGAGGTTACAGTGAAGTACATTGAAGCCAGTAATTCTATTTCCC
66 AGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TTCCC
7083776 TG
130 TG
*
7083778 GGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAACAGTAGTGGAGCAGATCAA
1 GGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAA
* *
7083843 AGATGGT-AGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCC
66 AGATGGTGA-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TTCC
7083907 CTG
129 CTG
* * * *
7083910 GGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
1 GGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAA
* *
7083975 AGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
66 AGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT-TCCC
7084040 TG
130 TG
* * *
7084042 GGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA
1 GGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAA
* * *
7084107 AGATGG-CAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAATTCTATCTCC
66 AGATGGTGA-ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAT-TCC
7084171 CTG
129 CTG
* * *
7084174 GTCAGCAGTGGAATCGATCGAAGA
1 GGCAGCAGTGGAATAGATTGAAGA
7084198 AAGTAGGTCT
Statistics
Matches: 512, Mismatches: 35, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
131 2 0.00
132 506 0.99
133 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (131 bp):
GGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAA
AGATGGTGAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATTCCCT
G
Found at i:7083964 original size:44 final size:44
Alignment explanation
Indices: 7083916--7084097 Score: 131
Period size: 44 Copynumber: 4.1 Consensus size: 44
7083906 CCTGGGCAAC
7083916 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
** * ** * * * *
7083960 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAG--GTT
1 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG-T
* * * * ** * *
7084003 ACAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAGC
1 --AGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCTAAGCAGT
7084048 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
7084092 AGTGGA
1 AGTGGA
7084098 GCAGATCAAA
Statistics
Matches: 99, Mismatches: 29, Indels: 20
0.67 0.20 0.14
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 18 0.18
44 59 0.60
45 15 0.15
46 1 0.01
47 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
Found at i:7084171 original size:44 final size:45
Alignment explanation
Indices: 7083991--7084185 Score: 120
Period size: 44 Copynumber: 4.4 Consensus size: 45
7083981 CGGATTTTAC
*
7083991 CTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-ATTCTAT
1 CTCCCTGAGG-TAGCAGTGGAGTAGATTGAAGCCAGTACATTCTAT
* * *
7084035 CTCCCTG-GGTAGCAGTGGAATAGATTGAAG--ATTACAGATCTTAT
1 CTCCCTGAGGTAGCAGTGGAGTAGATTGAAGCCAGTACA-TTC-TAT
* * * * ** *** * * * *
7084079 CTCCCT-AAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGAGGTAGCAGTGGAGTAGATTGAAGCCAGTACATTCTAT
* *
7084123 CTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTA-ATTCTAT
1 CTCCCTGAGGTAGCAGTGGAGTAGATTGAAGCCAGTACATTCTAT
7084167 CTCCCT--GGTCAGCAGTGGA
1 CTCCCTGAGGT-AGCAGTGGA
7084186 ATCGATCGAA
Statistics
Matches: 109, Mismatches: 33, Indels: 19
0.68 0.20 0.12
Matches are distributed among these distances:
41 3 0.03
42 6 0.06
43 28 0.26
44 51 0.47
45 19 0.17
46 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (45 bp):
CTCCCTGAGGTAGCAGTGGAGTAGATTGAAGCCAGTACATTCTAT
Found at i:7084294 original size:45 final size:44
Alignment explanation
Indices: 7084189--7084371 Score: 177
Period size: 44 Copynumber: 4.1 Consensus size: 44
7084179 CAGTGGAATC
* * ** *
7084189 GATCGAAGAAAGTAGGTCTTATCTTTATGTATTGGCGTGAAGTA
1 GATCGAAGAAAGTAGATCTTATCTTCACATATTGGCGCGAAGTA
* * * *
7084233 GATCGACGAAACTAGATCTTATCTTCCCATATTGGTGGCGAAGTA
1 GATCGAAGAAAGTAGATCTTATCTTCACATATTGG-CGCGAAGTA
** ** * *
7084278 GATCGAAGAAAGTAGATCTCGTCTTCATGTATTGACGTGAAGTA
1 GATCGAAGAAAGTAGATCTTATCTTCACATATTGGCGCGAAGTA
* * * *
7084322 GATCGAAGATAGCAGATCTTATCTTCCCATACTGGCGGCGAAGTA
1 GATCGAAGAAAGTAGATCTTATCTTCACATATTGGC-GCGAAGTA
7084367 GATCG
1 GATCG
7084372 GAGATACAAG
Statistics
Matches: 108, Mismatches: 29, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
44 62 0.57
45 46 0.43
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
GATCGAAGAAAGTAGATCTTATCTTCACATATTGGCGCGAAGTA
Found at i:7084340 original size:89 final size:89
Alignment explanation
Indices: 7084189--7084371 Score: 269
Period size: 89 Copynumber: 2.1 Consensus size: 89
7084179 CAGTGGAATC
* * * * *
7084189 GATCGAAGAAAGTAGGTCTTATCTTTATGTATTGGCGTGAAGTAGATCGACGAAACTAGATCTTA
1 GATCGAAGAAAGTAGATCTCATCTTCATGTATTGACGTGAAGTAGATCGAAGAAACTAGATCTTA
* *
7084254 TCTTCCCATATTGGTGGCGAAGTA
66 TCTTCCCATACTGGCGGCGAAGTA
* *
7084278 GATCGAAGAAAGTAGATCTCGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAGC-AGATCTT
1 GATCGAAGAAAGTAGATCTCATCTTCATGTATTGACGTGAAGTAGATCGAAGA-AACTAGATCTT
7084342 ATCTTCCCATACTGGCGGCGAAGTA
65 ATCTTCCCATACTGGCGGCGAAGTA
7084367 GATCG
1 GATCG
7084372 GAGATACAAG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
89 82 0.98
90 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (89 bp):
GATCGAAGAAAGTAGATCTCATCTTCATGTATTGACGTGAAGTAGATCGAAGAAACTAGATCTTA
TCTTCCCATACTGGCGGCGAAGTA
Found at i:7084377 original size:45 final size:45
Alignment explanation
Indices: 7084218--7084377 Score: 155
Period size: 45 Copynumber: 3.6 Consensus size: 45
7084208 TATCTTTATG
* * *
7084218 TATTGGC-GTGAAGTAGATCGACGA-AACTAGATCTTATCTTCCCA
1 TATTGGCGGCGAAGTAGATCGAAGATAGC-AGATCTTATCTTCCCA
* * * ** ***
7084262 TATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTCGTCTTCATG
1 TATTGGCGGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCCA
* *
7084307 TATTGAC-GTGAAGTAGATCGAAGATAGCAGATCTTATCTTCCCA
1 TATTGGCGGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCCA
* *
7084351 TACTGGCGGCGAAGTAGATCGGAGATA
1 TATTGGCGGCGAAGTAGATCGAAGATA
7084378 CAAGTCTTGC
Statistics
Matches: 89, Mismatches: 24, Indels: 5
0.75 0.20 0.04
Matches are distributed among these distances:
44 40 0.45
45 48 0.54
46 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (45 bp):
TATTGGCGGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCCA
Found at i:7084756 original size:15 final size:16
Alignment explanation
Indices: 7084736--7084769 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7084726 CCGACCCGTT
7084736 AAACAAATA-AAGCCC
1 AAACAAATACAAGCCC
*
7084751 AAACAATTACAAGCCC
1 AAACAAATACAAGCCC
7084767 AAA
1 AAA
7084770 TCAGCCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.26, G:0.06, T:0.09
Consensus pattern (16 bp):
AAACAAATACAAGCCC
Found at i:7086913 original size:51 final size:51
Alignment explanation
Indices: 7086837--7086935 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
7086827 ATCGTAATTG
* **
7086837 GGAAGATAAGGTTGATCAGCCTCGTCTTCGTGTAAATAATGCTCGACGCTA
1 GGAAGATAAAGTTGATCAGCCTCGTCTTCGTACAAATAATGCTCGACGCTA
7086888 GGAAGATAAAGTTGATCAGCCTCGTCTTCGTACAAATAATGCTCGACG
1 GGAAGATAAAGTTGATCAGCCTCGTCTTCGTACAAATAATGCTCGACG
7086936 TGTCTCTCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (51 bp):
GGAAGATAAAGTTGATCAGCCTCGTCTTCGTACAAATAATGCTCGACGCTA
Found at i:7089298 original size:28 final size:28
Alignment explanation
Indices: 7089259--7089384 Score: 171
Period size: 28 Copynumber: 4.5 Consensus size: 28
7089249 TGACTTTCGA
* *
7089259 CACTAAGTGTGCGAATTTAATTGTAAAA
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
7089287 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
7089315 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
7089343 CACTACGTGTGCGAGTTTGATTATTCAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
7089371 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
7089385 ACTTATTAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:7096150 original size:18 final size:18
Alignment explanation
Indices: 7096110--7096150 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7096100 TTAATCTTTG
7096110 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
7096127 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
7096146 -TTTAT
1 ATTTAT
7096151 CTGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:7096166 original size:15 final size:15
Alignment explanation
Indices: 7096146--7096177 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7096136 TTTTAATTTT
7096146 TTTATCTGACTTGGA
1 TTTATCTGACTTGGA
7096161 TTTATCTGACTTGGA
1 TTTATCTGACTTGGA
7096176 TT
1 TT
7096178 CAATTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (15 bp):
TTTATCTGACTTGGA
Found at i:7097072 original size:3 final size:3
Alignment explanation
Indices: 7097064--7097091 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7097054 TCAGTATTAT
7097064 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7097092 ACTTGAGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7100097 original size:50 final size:50
Alignment explanation
Indices: 7099975--7100217 Score: 342
Period size: 50 Copynumber: 4.8 Consensus size: 50
7099965 GATAATAACA
* ** * *
7099975 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
7100026 TGCCCATGCCATGTCCCAGACATGGTTTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
7100076 TGCCAACGCCATGTCCCAGACATGGTCCTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
7100126 TGCCAATGTCATGTCCCAAACATGGTCTTACATGGGACCCCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
7100176 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7100218 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 135 0.80
51 33 0.20
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:7100589 original size:30 final size:30
Alignment explanation
Indices: 7100555--7100612 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7100545 CCTCGACTCT
*
7100555 AACTTTGTA-AAAATTATAATTTTGCCCCTA
1 AACTTT-TACAAAATTACAATTTTGCCCCTA
* *
7100585 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
7100613 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:7102145 original size:20 final size:21
Alignment explanation
Indices: 7102108--7102146 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
7102098 TAATAATTTC
*
7102108 TAAAAATATGTATATATATTA
1 TAAAAATATGCATATATATTA
*
7102129 TAAAAA-ATGCATGTATAT
1 TAAAAATATGCATATATAT
7102147 GTGCATGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (21 bp):
TAAAAATATGCATATATATTA
Found at i:7102362 original size:3 final size:3
Alignment explanation
Indices: 7102354--7102401 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
7102344 AAAAACGTAC
* *
7102354 TAA TAA TAA TTA TAA TAA TAA TAA T-T TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7102400 TA
1 TA
7102402 GTAGTGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:7102388 original size:16 final size:16
Alignment explanation
Indices: 7102354--7102394 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7102344 AAAAACGTAC
*
7102354 TAATAATAA-TTATAA
1 TAATAATAATTTAAAA
7102369 TAATAATAATTTAAAA
1 TAATAATAATTTAAAA
7102385 TAATAATAAT
1 TAATAATAAT
7102395 AATAATAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATAATTTAAAA
Found at i:7102411 original size:28 final size:28
Alignment explanation
Indices: 7102355--7102412 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
7102345 AAAACGTACT
* *
7102355 AATAATAATTATAATAATAATAATTTAA
1 AATAATAATAATAATAATAATAATGTAA
* *
7102383 AATAATAATAATAATAATAGTAGTGTAA
1 AATAATAATAATAATAATAATAATGTAA
7102411 AA
1 AA
7102413 AAATGACAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (28 bp):
AATAATAATAATAATAATAATAATGTAA
Found at i:7105634 original size:17 final size:17
Alignment explanation
Indices: 7105603--7105650 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
7105593 TAAAAAATAT
* *
7105603 ATATAATCTAGAAAAAA
1 ATATAATTTATAAAAAA
7105620 ATATAATTTAT--AAAA
1 ATATAATTTATAAAAAA
*
7105635 ATAAAATTTATAAAAA
1 ATATAATTTATAAAAA
7105651 TTTGATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 14 0.54
17 12 0.46
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATATAATTTATAAAAAA
Found at i:7105649 original size:14 final size:15
Alignment explanation
Indices: 7105616--7105651 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
7105606 TAATCTAGAA
*
7105616 AAAAATATAATTTAT
1 AAAAATAAAATTTAT
7105631 AAAAATAAAATTTAT
1 AAAAATAAAATTTAT
7105646 AAAAAT
1 AAAAAT
7105652 TTGATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATAAAATTTAT
Found at i:7106488 original size:32 final size:30
Alignment explanation
Indices: 7106405--7106499 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
7106395 TTTCAACTAA
*
7106405 TTTATTTTC-AATTATCTTATTTTTGTAAAT
1 TTTATTTTCTAATTAT-TTATATTTGTAAAT
* * *
7106435 TTTATTTTATAATTTTTTATATTTGTATAT
1 TTTATTTTCTAATTATTTATATTTGTAAAT
* * *
7106465 GTTTATTTTCTAGATTATATATATTTCTGAAT
1 -TTTATTTTCTA-ATTATTTATATTTGTAAAT
7106497 TTT
1 TTT
7106500 TATATATTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
30 20 0.38
31 18 0.35
32 14 0.27
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.64
Consensus pattern (30 bp):
TTTATTTTCTAATTATTTATATTTGTAAAT
Found at i:7115430 original size:13 final size:14
Alignment explanation
Indices: 7115414--7115455 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
7115404 TTTCAATTTT
7115414 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
7115427 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
7115442 ATTTTAAATAATAT
1 ATTTT-AATAATAT
7115456 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:7115440 original size:16 final size:16
Alignment explanation
Indices: 7115418--7115454 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
7115408 AATTTTATTT
7115418 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
7115435 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
7115450 TAATA
1 TAATA
7115455 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:7115504 original size:15 final size:15
Alignment explanation
Indices: 7115486--7115542 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7115476 ATTCAATATT
7115486 AATATTTTAATAATA
1 AATATTTTAATAATA
*
7115501 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
7115520 AATATATTAATAATA
1 AATATTTTAATAATA
*
7115535 AATGTTTT
1 AATATTTT
7115543 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:7122082 original size:21 final size:22
Alignment explanation
Indices: 7122033--7122082 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
7122023 GGGGTTTTGT
*
7122033 AGGAAATTACTTTGAATTTTTAT
1 AGGAAATTA-TTTGAATTTTTAG
*
7122056 AAGAAATT-TTTGAATTTTTAG
1 AGGAAATTATTTGAATTTTTAG
7122077 AGGAAA
1 AGGAAA
7122083 ATTTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.71
23 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
AGGAAATTATTTGAATTTTTAG
Found at i:7122115 original size:17 final size:17
Alignment explanation
Indices: 7122082--7122114 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7122072 TTTAGAGGAA
7122082 AATTTATTTTATCTTTT
1 AATTTATTTTATCTTTT
*
7122099 AATTTCTTTTA-CTTTT
1 AATTTATTTTATCTTTT
7122115 TCTTTTTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (17 bp):
AATTTATTTTATCTTTT
Found at i:7124862 original size:16 final size:16
Alignment explanation
Indices: 7124843--7124925 Score: 71
Period size: 18 Copynumber: 4.9 Consensus size: 16
7124833 AACTCGATAA
7124843 TTTTGAAACACAATATT
1 TTTTGAAACACAA-ATT
*
7124860 TTTTGAAGACA-AGGAAAT
1 TTTTGAA-ACACA--AATT
7124878 TTTTGAAACACAGGAATT
1 TTTTGAAACACA--AATT
*
7124896 TTTTGAAACACGAAA-C
1 TTTTGAAACAC-AAATT
7124912 TTTTGAAACACAAA
1 TTTTGAAACACAAA
7124926 AAATTTTTGA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
15 3 0.05
16 11 0.19
17 13 0.22
18 29 0.50
19 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (16 bp):
TTTTGAAACACAAATT
Found at i:7124882 original size:18 final size:18
Alignment explanation
Indices: 7124859--7124956 Score: 98
Period size: 18 Copynumber: 5.7 Consensus size: 18
7124849 AACACAATAT
7124859 TTTTTGAAGACA-AGGAAA
1 TTTTTGAA-ACACAGGAAA
*
7124877 TTTTTGAAACACAGGAAT
1 TTTTTGAAACACAGGAAA
7124895 TTTTTGAAACAC--GAAA
1 TTTTTGAAACACAGGAAA
* **
7124911 CTTTTGAAACACAAAAAA
1 TTTTTGAAACACAGGAAA
*
7124929 TTTTTGAAA-ACACGAAA
1 TTTTTGAAACACAGGAAA
*
7124946 -ATTTGAAACAC
1 TTTTTGAAACAC
7124957 GAGAATTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
16 21 0.31
17 11 0.16
18 36 0.53
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (18 bp):
TTTTTGAAACACAGGAAA
Found at i:7124952 original size:16 final size:15
Alignment explanation
Indices: 7124897--7124964 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 15
7124887 ACAGGAATTT
*
7124897 TTTGAAACACGAAACT
1 TTTGAAACACGAAA-A
*
7124913 TTTGAAACACAAAAAA
1 TTTGAAACAC-GAAAA
7124929 TTTTTGAAAACACGAAAA
1 --TTTG-AAACACGAAAA
*
7124947 TTTGAAACACGAGAA
1 TTTGAAACACGAAAA
7124962 TTT
1 TTT
7124965 TTTTAAAAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
15 13 0.30
16 14 0.32
17 3 0.07
18 8 0.18
19 6 0.14
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (15 bp):
TTTGAAACACGAAAA
Found at i:7124968 original size:35 final size:34
Alignment explanation
Indices: 7124810--7124972 Score: 122
Period size: 34 Copynumber: 4.7 Consensus size: 34
7124800 CGTGATCCGA
* * *
7124810 TTGAAATACGAAATTTTTTTTAAAACTCGATAA-TT
1 TTGAAACAC-AAATTTTTTTGAAAACACGA-AACTT
* * *
7124845 TTGAAACAC-AATATTTTTTGAAGACAAGGAAATTT
1 TTGAAACACAAAT-TTTTTTGAAAAC-ACGAAACTT
7124880 TTGAAACACAGGAA-TTTTTTG-AAACACGAAACTT
1 TTGAAACACA--AATTTTTTTGAAAACACGAAACTT
** *
7124914 TTGAAACACAAAAAATTTTTGAAAACACGAAA-AT
1 TTGAAACAC-AAATTTTTTTGAAAACACGAAACTT
7124948 TTGAAACACGAGAATTTTTTT-AAAA
1 TTGAAACAC-A-AATTTTTTTGAAAA
7124973 GGACGTATCG
Statistics
Matches: 105, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
33 5 0.05
34 49 0.47
35 42 0.40
36 7 0.07
38 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (34 bp):
TTGAAACACAAATTTTTTTGAAAACACGAAACTT
Found at i:7125450 original size:14 final size:13
Alignment explanation
Indices: 7125431--7125476 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
7125421 ACGAGCTTGG
7125431 TTTTTTCCTTTTT
1 TTTTTTCCTTTTT
*
7125444 CTTTTTTTCTTTTT
1 -TTTTTTCCTTTTT
7125458 TTTTCTTCCTCTTTT
1 TTTT-TTCCT-TTTT
7125473 TTTT
1 TTTT
7125477 CTGGACTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 4 0.14
14 16 0.57
15 8 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTCCTTTTT
Found at i:7125451 original size:15 final size:14
Alignment explanation
Indices: 7125431--7125476 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
7125421 ACGAGCTTGG
7125431 TTTTTTCCTTTTTCT
1 TTTTTTCCTTTTT-T
7125446 TTTTTT-CTTTTTT
1 TTTTTTCCTTTTTT
*
7125459 TTTCTTCCTCTTTTT
1 TTTTTTCCT-TTTTT
7125474 TTT
1 TTT
7125477 CTGGACTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.21
14 8 0.29
15 14 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCCTTTTTT
Found at i:7125730 original size:10 final size:10
Alignment explanation
Indices: 7125717--7125761 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
7125707 TTCTTTCCCT
7125717 TTCTTCTTCC
1 TTCTTCTTCC
*
7125727 TTCTTCTTTC
1 TTCTTCTTCC
*
7125737 TTCTTCTTCT
1 TTCTTCTTCC
*
7125747 TTCTTTCTTTC
1 TTC-TTCTTCC
7125758 TTCT
1 TTCT
7125762 CTTTTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:7125737 original size:4 final size:4
Alignment explanation
Indices: 7125730--7125784 Score: 66
Period size: 4 Copynumber: 14.8 Consensus size: 4
7125720 TTCTTCCTTC
7125730 TTCT TTC- TTC- TTC- TTCT TTCT TTCT TTC- TTCT CTT-T TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTCT
7125774 TTCT TTCT TTC
1 TTCT TTCT TTC
7125785 ACGATCAGCG
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 14 0.30
4 31 0.66
5 2 0.04
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTCT
Found at i:7125764 original size:23 final size:21
Alignment explanation
Indices: 7125731--7125784 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 21
7125721 TCTTCCTTCT
7125731 TCTTTC-TTCTTCTTCTTTCTT
1 TCTTTCTTTCTT-TTCTTTCTT
7125752 TCTTTCTTCTCTTTTTCTTTCTT
1 TCTTTCTT-TC-TTTTCTTTCTT
7125775 TCTTTCTTTC
1 TCTTTCTTTC
7125785 ACGATCAGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.20
22 3 0.10
23 19 0.63
24 2 0.07
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
TCTTTCTTTCTTTTCTTTCTT
Found at i:7125783 original size:27 final size:28
Alignment explanation
Indices: 7125704--7125784 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 28
7125694 GAATTAAATT
*
7125704 TTTTTCTTTCCCTTTC-TTCTTCCTTCTTC
1 TTTTTCTTT--CTTTCTTTCTTTCTTCTTC
7125733 TTTCTTCTTCTTCTTTCTTTCTTTCTTC-TC
1 TTT-TTC-T-TTCTTTCTTTCTTTCTTCTTC
7125763 TTTTTCTTTCTTTCTTTCTTTC
1 TTTTTCTTTCTTTCTTTCTTTC
7125785 ACGATCAGCG
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
27 15 0.32
28 1 0.02
29 6 0.13
30 13 0.28
31 10 0.21
32 2 0.04
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTTTCTTTCTTTCTTTCTTTCTTCTTC
Found at i:7126396 original size:29 final size:29
Alignment explanation
Indices: 7126307--7126413 Score: 106
Period size: 30 Copynumber: 3.6 Consensus size: 29
7126297 GGAAATTTTA
* * * * *
7126307 GGGTCAAAATGTAATTCTAGGAAAGTTCAA
1 GGGTTAAAATGCAATTTTAAGAAAGTT-AG
*
7126337 GGGTTAAAATACAATTTTAAGAAAGTTTAG
1 GGGTTAAAATGCAATTTTAAGAAAG-TTAG
* * *
7126367 GGGTTGAAATGTAATTTTAAAAAAGTTAG
1 GGGTTAAAATGCAATTTTAAGAAAGTTAG
*
7126396 GGGTCAAAATGCAATTTT
1 GGGTTAAAATGCAATTTT
7126414 TTTTAAAAAC
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
29 19 0.30
30 42 0.67
31 2 0.03
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (29 bp):
GGGTTAAAATGCAATTTTAAGAAAGTTAG
Found at i:7126893 original size:154 final size:155
Alignment explanation
Indices: 7126608--7126985 Score: 564
Period size: 154 Copynumber: 2.4 Consensus size: 155
7126598 ACTGAAATTG
* * *
7126608 AAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTC-G-GTGTCACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* * *
7126673 AATAGAAATTTAAAAGAAATACATCGGCATTTGTCCGAGGCTCAACTCACTTCTCGCAATATGAG
64 AACAGAAATTTAAAAGAAATACATCGGCATGTGTCCGAGGCTCAACTCACTTCTCGCAATACGAG
7126738 TTGA-TTTTTTGAAAAACAGAAA-CT-
129 TTGATTTTTTTGAAAAACAGAAATCTA
* *
7126762 GAAAATACCTCAGGATGTCACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAA
1 AAAAATACCTC-GG-TGTCACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
7126827 AACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACTTCTCGCAATACGAG
64 AACAGAAATTTAAAAGAAATACATCGGCATGTGTCCGAGGCTCAACTCACTTCTCGCAATACGAG
*
7126892 TTGATTTTTTTGAAAAACAGAAATTTA
129 TTGATTTTTTTGAAAAACAGAAATCTA
* * *
7126919 AAAAATACCTCGGCGTGCGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGCAAA
1 AAAAATACCTCGGTGT-CACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA
7126984 AA
64 AA
7126986 TTGAAAATTA
Statistics
Matches: 202, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
153 1 0.00
154 122 0.60
155 20 0.10
156 44 0.22
157 15 0.07
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (155 bp):
AAAAATACCTCGGTGTCACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
CAGAAATTTAAAAGAAATACATCGGCATGTGTCCGAGGCTCAACTCACTTCTCGCAATACGAGTT
GATTTTTTTGAAAAACAGAAATCTA
Found at i:7126994 original size:78 final size:77
Alignment explanation
Indices: 7126608--7126985 Score: 478
Period size: 78 Copynumber: 4.9 Consensus size: 77
7126598 ACTGAAATTG
* * *
7126608 AAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTCGGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
7126673 AATAGAAATTTAA
65 AACAGAAATTTAA
* * * *
7126686 AAGAAATACATCGGCATTTGTCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAA
1 AA-AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
*
7126751 AAACAGAAA-CT--
64 AAACAGAAATTTAA
* * *
7126762 GAAAATACCTCAGG-ATGTCACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAA
1 AAAAATACCTC-GGCATGT-GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
7126826 AAACAGAAATTTAA
64 AAACAGAAATTTAA
* * *
7126840 AAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTTTGA
1 AA-AAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
7126905 AAAACAGAAATTT-A
63 AAAACAGAAATTTAA
* * *
7126919 AAAAATACCTCGGCGTGCGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGCAAA
1 AAAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA
7126984 AA
65 AA
7126986 TTGAAAATTA
Statistics
Matches: 259, Mismatches: 29, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
75 28 0.11
76 43 0.17
77 5 0.02
78 117 0.45
79 46 0.18
80 20 0.08
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (77 bp):
AAAAATACCTCGGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
ACAGAAATTTAA
Found at i:7129075 original size:43 final size:42
Alignment explanation
Indices: 7129026--7129177 Score: 168
Period size: 43 Copynumber: 3.6 Consensus size: 42
7129016 GTTTTCATGA
*
7129026 AAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTATGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGA-TTGTGATTATGTGT
* * *
7129069 AAGACCATGTCTGGGACATTGGCATCGTATT-TGATT-TGTAT
1 AAGACCACGTCTGGGACGTTGGCATCG-ATTGTGATTATGTGT
**
7129110 AAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTACATGT
1 AAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TGTGATTATGTGT
*
7129153 AAGACCACGTTTGGGACGTTGGCAT
1 AAGACCACGTCTGGGACGTTGGCAT
7129178 TGTACGAGTC
Statistics
Matches: 91, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
40 2 0.02
41 28 0.31
42 10 0.11
43 49 0.54
44 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
AAGACCACGTCTGGGACGTTGGCATCGATTGTGATTATGTGT
Found at i:7129125 original size:41 final size:42
Alignment explanation
Indices: 7129026--7129147 Score: 133
Period size: 41 Copynumber: 2.9 Consensus size: 42
7129016 GTTTTCATGA
* * *
7129026 AAGACCAC-GTCTGGGACGTTGGCATCG-ACTTGTGTTTATGTGT
1 AAGACC-CTGTCTGGGACATTGGCATCGTA-TT-TGATTATGTAT
*
7129069 AAGACCATGTCTGGGACATTGGCATCGTATTTGATT-TGTAT
1 AAGACCCTGTCTGGGACATTGGCATCGTATTTGATTATGTAT
* *
7129110 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTA
1 AAGACCCTGTCTGGGACATTGGCATCG-TATTTGATTA
7129148 CATGTAAGAC
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 29 0.43
42 12 0.18
43 26 0.38
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (42 bp):
AAGACCCTGTCTGGGACATTGGCATCGTATTTGATTATGTAT
Found at i:7129367 original size:16 final size:17
Alignment explanation
Indices: 7129338--7129369 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7129328 TGAATTGATG
7129338 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
7129355 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
7129370 TTGCACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:7141162 original size:4 final size:4
Alignment explanation
Indices: 7141153--7141189 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
7141143 ATGTACATGC
*
7141153 AATG AATG AATG AATG AATG ACT- AATG AAT- AATG AAT
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AAT
7141190 ATTAGTTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 5 0.17
4 24 0.83
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27
Consensus pattern (4 bp):
AATG
Found at i:7144588 original size:35 final size:35
Alignment explanation
Indices: 7144549--7144713 Score: 140
Period size: 35 Copynumber: 4.7 Consensus size: 35
7144539 CGTGATCCGA
*
7144549 TTGAAATAAGAAAATTTTTTTAAAACACGATAA-TT
1 TTGAAACAAGAAAATTTTTTTAAAACACGA-AACTT
* * * * *
7144584 TTGAAAC-ACAATATTTTTTGAAGACACGGAAATTT
1 TTGAAACAAGAAAATTTTTTTAAAACAC-GAAACTT
* * *
7144619 TTGAAACGCAG-GAA-TTTTTTGAAACACGAAACTT
1 TTGAAAC-AAGAAAATTTTTTTAAAACACGAAACTT
* * * *
7144653 TTGAAACACGAAAAATTTTTGAAAACACGAAAATT
1 TTGAAACAAGAAAATTTTTTTAAAACACGAAACTT
*
7144688 TTGAAACACGAGAAATTTTTTTAAAA
1 TTGAAACAAGA-AAATTTTTTTAAAA
7144714 GGACGTATCG
Statistics
Matches: 103, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
33 1 0.01
34 33 0.32
35 55 0.53
36 13 0.13
37 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (35 bp):
TTGAAACAAGAAAATTTTTTTAAAACACGAAACTT
Found at i:7144619 original size:18 final size:17
Alignment explanation
Indices: 7144565--7144707 Score: 118
Period size: 18 Copynumber: 8.3 Consensus size: 17
7144555 TAAGAAAATT
*
7144565 TTTTTAAAACAC-GATAA
1 TTTTTGAAACACGGA-AA
7144582 -TTTTGAAACAC--AATA
1 TTTTTGAAACACGGAA-A
7144597 TTTTTTGAAGACACGGAAA
1 -TTTTTGAA-ACACGGAAA
* *
7144616 TTTTTGAAACGCAGGAAT
1 TTTTTGAAACAC-GGAAA
7144634 TTTTTGAAACAC-GAAA
1 TTTTTGAAACACGGAAA
* *
7144650 CTTTTGAAACACGAAAAA
1 TTTTTGAAACACG-GAAA
7144668 TTTTTGAAAACAC-GAAA
1 TTTTTG-AAACACGGAAA
*
7144685 ATTTTGAAACACGAGAAA
1 TTTTTGAAACACG-GAAA
7144703 TTTTT
1 TTTTT
7144708 TTAAAAGGAC
Statistics
Matches: 103, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
14 1 0.01
15 2 0.02
16 30 0.29
17 18 0.17
18 43 0.42
19 7 0.07
20 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGGAAA
Found at i:7145489 original size:4 final size:4
Alignment explanation
Indices: 7145477--7145531 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
7145467 TTTTCTTTCC
* *
7145477 CTTT C-TT CTTT CTTT CTTT CTTT C-TT CTCTT -TTT CTTA ATTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT-TT CTTT CTTT CTTT CTTT
7145523 CTTT CTTT C
1 CTTT CTTT C
7145532 ACGATCAGCG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
3 8 0.19
4 33 0.77
5 2 0.05
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:7146048 original size:29 final size:30
Alignment explanation
Indices: 7145988--7146048 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
7145978 AAATGCAGTA
* * *
7145988 AAAATTCTAGGGCCAAAGTGTAATTTTGGG
1 AAAATTCTAGGGCCAAAATGTAATTCTAGG
*
7146018 AAAATT-TAGGGTCAAAATGTAATTCTAGG
1 AAAATTCTAGGGCCAAAATGTAATTCTAGG
7146047 AA
1 AA
7146049 TGTTCAAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATTCTAGGGCCAAAATGTAATTCTAGG
Found at i:7146065 original size:30 final size:30
Alignment explanation
Indices: 7146025--7146131 Score: 101
Period size: 30 Copynumber: 3.6 Consensus size: 30
7146015 GGGAAAATTT
* * *
7146025 AGGGTCAAAATGTAA-TTCTAGGAATGTTCA
1 AGGGTTAAAATGTAATTTC-AAGAAAGTTCA
* *
7146055 AGGGTTAAAATGCAATTTCAAGAAAGTTTA
1 AGGGTTAAAATGTAATTTCAAGAAAGTTCA
* *
7146085 AGGGTTGAAATGTAATTTCAAAAAAGTT-A
1 AGGGTTAAAATGTAATTTCAAGAAAGTTCA
* * *
7146114 GGGGTCAAAATGCAATTT
1 AGGGTTAAAATGTAATTT
7146132 TTTTAAAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
29 15 0.23
30 46 0.72
31 3 0.05
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTCAAGAAAGTTCA
Found at i:7146130 original size:29 final size:30
Alignment explanation
Indices: 7146054--7146131 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
7146044 AGGAATGTTC
*
7146054 AAGGGTTAAAATGCAATTTCAAGAAAGTTT
1 AAGGGTTAAAATGCAATTTCAAAAAAGTTT
* *
7146084 AAGGGTTGAAATGTAATTTCAAAAAAG-TT
1 AAGGGTTAAAATGCAATTTCAAAAAAGTTT
* *
7146113 AGGGGTCAAAATGCAATTT
1 AAGGGTTAAAATGCAATTT
7146132 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 17 0.41
30 24 0.59
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.29
Consensus pattern (30 bp):
AAGGGTTAAAATGCAATTTCAAAAAAGTTT
Found at i:7147233 original size:23 final size:23
Alignment explanation
Indices: 7147204--7147247 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
7147194 TAGTAATAAC
7147204 ATTTAGTGATAATATTTAGGATT
1 ATTTAGTGATAATATTTAGGATT
7147227 ATTTAGTGATAATATTTAGGA
1 ATTTAGTGATAATATTTAGGA
7147248 AAAATTTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (23 bp):
ATTTAGTGATAATATTTAGGATT
Found at i:7147244 original size:13 final size:13
Alignment explanation
Indices: 7147190--7147245 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
7147180 AAATTTGAAT
*
7147190 TATTTAGTAATAA
1 TATTTAGTGATAA
*
7147203 CATTTAGTGATAA
1 TATTTAGTGATAA
7147216 TATTTAG-GAT--
1 TATTTAGTGATAA
7147226 TATTTAGTGATAA
1 TATTTAGTGATAA
7147239 TATTTAG
1 TATTTAG
7147246 GAAAAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.19
11 3 0.08
12 3 0.08
13 24 0.65
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:7149057 original size:18 final size:19
Alignment explanation
Indices: 7149034--7149073 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
7149024 TATTTTCTTC
*
7149034 TTTGTTTTCTCTTA-TTTA
1 TTTGTTTTATCTTATTTTA
7149052 TTTGTTTTATCTTATTTTA
1 TTTGTTTTATCTTATTTTA
7149071 TTT
1 TTT
7149074 TACTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTGTTTTATCTTATTTTA
Found at i:7150050 original size:13 final size:14
Alignment explanation
Indices: 7150032--7150060 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7150022 ATATGGTTGT
7150032 TTTTTTATT-TTTA
1 TTTTTTATTATTTA
7150045 TTTTTTATTATTTA
1 TTTTTTATTATTTA
7150059 TT
1 TT
7150061 CGAGATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTATTATTTA
Found at i:7163795 original size:3 final size:3
Alignment explanation
Indices: 7163787--7163815 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7163777 ATTATATTAA
7163787 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7163816 ACTTGAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7165020 original size:3 final size:3
Alignment explanation
Indices: 7165012--7165071 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
7165002 TTTTAATTGT
*
7165012 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7165060 TTA TTA TT- TTA T
1 TTA TTA TTA TTA T
7165072 AACATACAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7172791 original size:68 final size:68
Alignment explanation
Indices: 7172682--7172832 Score: 284
Period size: 68 Copynumber: 2.2 Consensus size: 68
7172672 CCTGCTTCAT
*
7172682 TGGGGTATATGGTTGGCAACAAAGTCTTGCGTCCAAATCATGCTATTATTGCTCAACTGTCAAAG
1 TGGGGTATACGGTTGGCAACAAAGTCTTGCGTCCAAATCATGCTATTATTGCTCAACTGTCAAAG
7172747 CTA
66 CTA
*
7172750 TGGGGTATACGGTTGGCAACAAAGTCTTGCGTCCAAATCATGCTATTATTGCTCGACTGTCAAAG
1 TGGGGTATACGGTTGGCAACAAAGTCTTGCGTCCAAATCATGCTATTATTGCTCAACTGTCAAAG
7172815 CTA
66 CTA
7172818 TGGGGTATACGGTTG
1 TGGGGTATACGGTTG
7172833 AAGAATACTA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (68 bp):
TGGGGTATACGGTTGGCAACAAAGTCTTGCGTCCAAATCATGCTATTATTGCTCAACTGTCAAAG
CTA
Found at i:7174336 original size:31 final size:31
Alignment explanation
Indices: 7174278--7174336 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
7174268 GTGTAATTCA
*
7174278 TATTCGAGTTAAACCGAAAAACTTAATTTTT
1 TATTCGAGTTAAACCGAAAAACCTAATTTTT
* * * *
7174309 TATTCGAGTTGATCCTAATAACCTAATT
1 TATTCGAGTTAAACCGAAAAACCTAATT
7174337 AACTCAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACCTAATTTTT
Found at i:7176476 original size:16 final size:18
Alignment explanation
Indices: 7176439--7176475 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7176429 TTATGGTAAA
7176439 TTATTATTATTTGATATTT
1 TTATTATTATTTGA-ATTT
7176458 TTATTATTATTTG-ATTT
1 TTATTATTATTTGAATTT
7176475 T
1 T
7176476 AATATGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
19 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTATTATTATTTGAATTT
Found at i:7182641 original size:17 final size:17
Alignment explanation
Indices: 7182619--7182651 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7182609 TCCCAGATTT
7182619 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
7182636 TGATACCCATATCTTT
1 TGATACCCATATCTTT
7182652 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:7187483 original size:3 final size:3
Alignment explanation
Indices: 7187323--7187471 Score: 174
Period size: 3 Copynumber: 49.3 Consensus size: 3
7187313 ATGTTTTTGC
*
7187323 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
7187369 TAT TCT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
7187417 TAT TAC TAC TAC TAT T-T TCAT TAT TAT TAG TAT TTT TAC TAT TAC
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
7187462 TAT TAT TAT T
1 TAT TAT TAT T
7187472 GATAATATTA
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.02
3 118 0.94
4 5 0.04
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:7187814 original size:2 final size:2
Alignment explanation
Indices: 7187807--7187834 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7187797 TTCGAATAAT
7187807 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
7187835 CACCTACACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7193899 original size:30 final size:30
Alignment explanation
Indices: 7193864--7193922 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
7193854 TATTTTATTG
7193864 TTAATTTTGTTATTATTTTA-AAGGTATTTA
1 TTAATTTTGTTATTATTTTAGAA-GTATTTA
7193894 TTAATTTTGTTATTATTTTAGAAGTATTT
1 TTAATTTTGTTATTATTTTAGAAGTATTT
7193923 GCTTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAGAAGTATTTA
Found at i:7204701 original size:2 final size:2
Alignment explanation
Indices: 7204694--7204750 Score: 52
Period size: 2 Copynumber: 31.0 Consensus size: 2
7204684 TAATAATTTA
7204694 AT AT AT AT AT AT AT AT AT AT AT AT A- AT A- AT -T AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
7204732 -T CT AT CT AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
7204751 TCAATCCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
1 5 0.11
2 40 0.89
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7205634 original size:5 final size:6
Alignment explanation
Indices: 7205582--7205635 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
7205572 ACTTGACTTG
* * *
7205582 AAATAGA AAAGAA AATATAA AATATAA AAATAA GAACAA AAATAA AAATAA
1 AAATA-A AAATAA AA-ATAA AA-ATAA AAATAA AAATAA AAATAA AAATAA
7205633 AAA
1 AAA
7205636 GCAACTTACC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
6 24 0.60
7 16 0.40
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:7205679 original size:14 final size:14
Alignment explanation
Indices: 7205660--7205686 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7205650 TCAACTCCAG
7205660 TTTATATATATATA
1 TTTATATATATATA
7205674 TTTATATATATAT
1 TTTATATATATAT
7205687 TGCCCCCATT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTATATATATATA
Found at i:7207421 original size:21 final size:21
Alignment explanation
Indices: 7207388--7207431 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7207378 TTCCGCTGAT
* *
7207388 CACCCCCACCAACACCACCAA
1 CACCACCAACAACACCACCAA
*
7207409 CACCACCAACAACAGCACCAA
1 CACCACCAACAACACCACCAA
7207430 CA
1 CA
7207432 GCAACAGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.55, G:0.02, T:0.00
Consensus pattern (21 bp):
CACCACCAACAACACCACCAA
Found at i:7207434 original size:9 final size:9
Alignment explanation
Indices: 7207393--7207419 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7207383 CTGATCACCC
7207393 CCACCAACA
1 CCACCAACA
7207402 CCACCAACA
1 CCACCAACA
7207411 CCACCAACA
1 CCACCAACA
7207420 ACAGCACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (9 bp):
CCACCAACA
Found at i:7207542 original size:10 final size:10
Alignment explanation
Indices: 7207509--7207546 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
7207499 CTGTCTACAC
7207509 AAAGAAGAAGG
1 AAAGAA-AAGG
*
7207520 AAA-AAAAGA
1 AAAGAAAAGG
7207529 AAAGAAAAGG
1 AAAGAAAAGG
7207539 AAAGAAAA
1 AAAGAAAA
7207547 TTTGCAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 6 0.25
10 15 0.62
11 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAGAAAAGG
Found at i:7209164 original size:2 final size:2
Alignment explanation
Indices: 7209123--7209152 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7209113 ATGACATTAA
7209123 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
7209153 TTGACAATAT
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:7210135 original size:18 final size:18
Alignment explanation
Indices: 7210112--7210153 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7210102 TAATACGTTT
*
7210112 TTAATTTAATAAATTT-AA
1 TTAATTCAA-AAATTTAAA
*
7210130 TTAATTCAAAATTTTAAA
1 TTAATTCAAAAATTTAAA
7210148 TTAATT
1 TTAATT
7210154 ACACCTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAATTCAAAAATTTAAA
Found at i:7211303 original size:22 final size:22
Alignment explanation
Indices: 7211275--7211316 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7211265 ACATATATAT
7211275 ATATATATAATGATT-GTAAAAG
1 ATATATAT-ATGATTAGTAAAAG
7211297 ATATATATATGATTAGTAAA
1 ATATATATATGATTAGTAAA
7211317 TATTAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (22 bp):
ATATATATATGATTAGTAAAAG
Found at i:7211814 original size:9 final size:9
Alignment explanation
Indices: 7211789--7211857 Score: 66
Period size: 9 Copynumber: 7.2 Consensus size: 9
7211779 ACTTTATCAG
7211789 AAATTATAAA
1 AAATTAT-AA
7211799 AATATTATAA
1 AA-ATTATAA
7211809 AAATTATAA
1 AAATTATAA
*
7211818 AAGTTATTAA
1 AAATTA-TAA
7211828 AAATTATTAA
1 AAATTA-TAA
**
7211838 ATCTTATAA
1 AAATTATAA
*
7211847 AAATTTTAA
1 AAATTATAA
7211856 AA
1 AA
7211858 TACTCCTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
9 23 0.46
10 22 0.44
11 5 0.10
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (9 bp):
AAATTATAA
Found at i:7211814 original size:20 final size:19
Alignment explanation
Indices: 7211789--7211859 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
7211779 ACTTTATCAG
7211789 AAATTATAAAAATATTATAA
1 AAATTAT-AAAATATTATAA
*
7211809 AAATTATAAAA-GTTATTAA
1 AAATTATAAAATATTA-TAA
* *
7211828 AAATTATTAAATCTTATAA
1 AAATTATAAAATATTATAA
*
7211847 AAATTTTAAAATA
1 AAATTATAAAATA
7211860 CTCCTTTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 3 0.07
19 30 0.70
20 10 0.23
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (19 bp):
AAATTATAAAATATTATAA
Found at i:7215947 original size:48 final size:48
Alignment explanation
Indices: 7215876--7215971 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
7215866 CAATTTTCTA
7215876 GAGAAAAACAAGAGCTTGAGGTAGCACTCATGTTAGATCAACAAATGT
1 GAGAAAAACAAGAGCTTGAGGTAGCACTCATGTTAGATCAACAAATGT
7215924 GAGAAAAACAAGAGCTTGAGGTAGCACTCATGTTAGATCAACAAATGT
1 GAGAAAAACAAGAGCTTGAGGTAGCACTCATGTTAGATCAACAAATGT
7215972 TTAAAAACTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (48 bp):
GAGAAAAACAAGAGCTTGAGGTAGCACTCATGTTAGATCAACAAATGT
Found at i:7217873 original size:72 final size:72
Alignment explanation
Indices: 7217747--7217888 Score: 239
Period size: 72 Copynumber: 2.0 Consensus size: 72
7217737 GTTAAAAGTT
* * *
7217747 TCATCATATTCATGTAGAAATTGATGCTCAAATTATTGGAGAGCGGCAACCTTTGCGAATTATAA
1 TCATAATATTCATGTAGAAATTGATGCTCAAATTATAGGAGAGCGGCAAACTTTGCGAATTATAA
7217812 TTTTTGC
66 TTTTTGC
* *
7217819 TCATAATATTCATGTAGAAATTGATGCTCAAATTATAGGAGAGCGGCAAACTTTGTGAATTATAG
1 TCATAATATTCATGTAGAAATTGATGCTCAAATTATAGGAGAGCGGCAAACTTTGCGAATTATAA
7217884 TTTTT
66 TTTTT
7217889 TGCTTTTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (72 bp):
TCATAATATTCATGTAGAAATTGATGCTCAAATTATAGGAGAGCGGCAAACTTTGCGAATTATAA
TTTTTGC
Found at i:7219867 original size:12 final size:13
Alignment explanation
Indices: 7219852--7219882 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7219842 CTTATTAAAG
7219852 AATTTAT-GAGAT
1 AATTTATAGAGAT
7219864 AATTTATAGAGAT
1 AATTTATAGAGAT
7219877 AATTTA
1 AATTTA
7219883 AAGGATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (13 bp):
AATTTATAGAGAT
Found at i:7219920 original size:32 final size:32
Alignment explanation
Indices: 7219878--7219949 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
7219868 TATAGAGATA
*
7219878 ATTTAAAGGATAAATTCAGATTTTATATGAGT
1 ATTTCAAGGATAAATTCAGATTTTATATGAGT
7219910 ATTTCAAGGATAAATTCAGATTTTATATGAGT
1 ATTTCAAGGATAAATTCAGATTTTATATGAGT
7219942 ATTTCAAG
1 ATTTCAAG
7219950 CCTATCTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (32 bp):
ATTTCAAGGATAAATTCAGATTTTATATGAGT
Found at i:7221445 original size:20 final size:19
Alignment explanation
Indices: 7221422--7221483 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 19
7221412 TTTTTTAGAT
7221422 AATTATGTTTATTTTCTTTA
1 AATTATGTTTATTTT-TTTA
* *
7221442 AATTAAGAGTTATTTTTTTA
1 AATTATG-TTTATTTTTTTA
*
7221462 ATTTCATGTATTATTTATTTTA
1 AATT-ATGT-TTATTT-TTTTA
7221484 TTATTTTCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 13 0.39
21 15 0.45
22 5 0.15
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (19 bp):
AATTATGTTTATTTTTTTA
Found at i:7223560 original size:6 final size:6
Alignment explanation
Indices: 7223549--7223585 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
7223539 AAAACCCGTC
7223549 CGGGTT CGGGTT CGGGTT CGGGTT CGGGTT CCGGGTT
1 CGGGTT CGGGTT CGGGTT CGGGTT CGGGTT -CGGGTT
7223586 GAGGCAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.00, C:0.19, G:0.49, T:0.32
Consensus pattern (6 bp):
CGGGTT
Found at i:7237176 original size:22 final size:21
Alignment explanation
Indices: 7237141--7237198 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
7237131 AAAGGGTATC
* *
7237141 TACAAATTAAATCTCTAAAAT
1 TACAAATCATATCTCTAAAAT
*
7237162 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAAAT
* *
7237185 TGCATATCATATCT
1 TACAAATCATATCT
7237199 AAGATTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:7237201 original size:19 final size:19
Alignment explanation
Indices: 7237177--7237287 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
7237167 AATCATATCT
7237177 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
7237196 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
7237215 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
7237234 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
7237253 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
7237272 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
7237288 CCTGAAGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7237223 original size:38 final size:38
Alignment explanation
Indices: 7237177--7237280 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
7237167 AATCATATCT
7237177 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
7237215 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
7237253 TCTAAGATTGCATATCATATATAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
7237281 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:7249253 original size:43 final size:44
Alignment explanation
Indices: 7249153--7249255 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 44
7249143 TCCTAGACGA
* * *
7249153 GGTCTTGCATGT-AATCAAATATCGATGCCACTGTCCCGGACAG
1 GGTCTTACATGTAAATCAAATATCGATGCCAATGTACCGGACAG
* * *
7249196 GGTCTTACACGTAAATCATATA-CGATGCCAATGTACCGGACAT
1 GGTCTTACATGTAAATCAAATATCGATGCCAATGTACCGGACAG
7249239 GGTCTTACATGTAAATC
1 GGTCTTACATGTAAATC
7249256 TCAAATCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 44 0.85
44 8 0.15
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
GGTCTTACATGTAAATCAAATATCGATGCCAATGTACCGGACAG
Found at i:7258285 original size:44 final size:44
Alignment explanation
Indices: 7258212--7258377 Score: 206
Period size: 44 Copynumber: 3.6 Consensus size: 44
7258202 TTGAGTACTC
* *
7258212 CTGATCAGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTAT
1 CTGATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTAT
7258256 CTGATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTAT
1 CTGATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTAT
*
7258300 CTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTAT
1 CTG---A-T--C-AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTAT
* * * *
7258351 CTTATTAGGGACAAGTGACAAGTGATA
1 CTGATCAGTGACAAGTGATAAGTGATA
7258378 AATGTGATCC
Statistics
Matches: 107, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
44 63 0.59
47 2 0.02
48 2 0.02
50 1 0.01
51 39 0.36
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (44 bp):
CTGATCAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTAT
Found at i:7258317 original size:51 final size:51
Alignment explanation
Indices: 7258262--7258378 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
7258252 TTATCTGATC
*
7258262 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGGGACA
* * *
7258313 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATTAGGGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGGGACA
7258364 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
7258379 ATGTGATCCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGGGACA
Found at i:7260980 original size:20 final size:20
Alignment explanation
Indices: 7260946--7260987 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7260936 AACTATTTAA
** *
7260946 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
7260966 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
7260986 AT
1 AT
7260988 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:7266800 original size:34 final size:35
Alignment explanation
Indices: 7266742--7266808 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
7266732 CAAGCAGCAG
7266742 AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
*
7266777 AAAATATTTTCCAG-AAATCATTTTACGAAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAAAAAA
7266809 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:7297273 original size:11 final size:11
Alignment explanation
Indices: 7297257--7297287 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7297247 TTTTTTCTTG
7297257 TTTATTAATTA
1 TTTATTAATTA
7297268 TTTATTAATTA
1 TTTATTAATTA
7297279 TTT-TTAATT
1 TTTATTAATT
7297288 TTAATTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTAATTA
Found at i:7309315 original size:3 final size:3
Alignment explanation
Indices: 7309307--7309351 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
7309297 ACTTGTGTAC
7309307 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7309352 GCACTCCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7314790 original size:26 final size:25
Alignment explanation
Indices: 7314728--7314792 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
7314718 TATGCTATTT
7314728 TAACCTTTTTGAA-TATATTTTGGA
1 TAACCTTTTTGAATTATATTTTGGA
7314752 TATA--TTTTATGAATTATTATTTAT-GA
1 TA-ACCTTTT-TGAATTA-TATTT-TGGA
7314778 TAACCTTTTTGAATT
1 TAACCTTTTTGAATT
7314793 TGTCAAGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
23 4 0.12
24 6 0.18
25 4 0.12
26 15 0.44
27 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (25 bp):
TAACCTTTTTGAATTATATTTTGGA
Found at i:7314980 original size:5 final size:5
Alignment explanation
Indices: 7314970--7314994 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7314960 AAGTAAATTT
7314970 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
7314995 GAAAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:7320486 original size:21 final size:22
Alignment explanation
Indices: 7320462--7320510 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
7320452 ATAATTACGT
7320462 TTATTTTCTTTAAATT-AAGAG
1 TTATTTTCTTTAAATTCAAGAG
* * *
7320483 TTATTTTTTTTAACTTCATGAG
1 TTATTTTCTTTAAATTCAAGAG
7320505 TTATTT
1 TTATTT
7320511 AGTATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (22 bp):
TTATTTTCTTTAAATTCAAGAG
Found at i:7324679 original size:26 final size:26
Alignment explanation
Indices: 7324650--7324703 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
7324640 AATTACAAAT
7324650 AATT-TAATAAATAAAAATAAAAATAA
1 AATTCTAA-AAATAAAAATAAAAATAA
* * *
7324676 AATTCTAAAACTAAAACTAAAACTAA
1 AATTCTAAAAATAAAAATAAAAATAA
7324702 AA
1 AA
7324704 CTAAAGTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (26 bp):
AATTCTAAAAATAAAAATAAAAATAA
Found at i:7324689 original size:6 final size:6
Alignment explanation
Indices: 7324661--7324708 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
7324651 ATTTAATAAA
* *
7324661 TAAAAA TAAAAA TAAAATTC TAAAAC TAAAAC TAAAAC TAAAAC TAAA
1 TAAAAC TAAAAC TAAAA--C TAAAAC TAAAAC TAAAAC TAAAAC TAAA
7324709 GTCTAAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 34 0.87
8 5 0.13
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (6 bp):
TAAAAC
Found at i:7324703 original size:18 final size:19
Alignment explanation
Indices: 7324661--7324708 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
7324651 ATTTAATAAA
*
7324661 TAAAAATAAAAATAAAATTC
1 TAAAACTAAAAATAAAA-TC
*
7324681 TAAAACTAAAACTAAAA-C
1 TAAAACTAAAAATAAAATC
7324699 TAAAACTAAA
1 TAAAACTAAA
7324709 GTCTAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
20 15 0.58
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAACTAAAAATAAAATC
Found at i:7324762 original size:9 final size:9
Alignment explanation
Indices: 7324748--7324823 Score: 116
Period size: 9 Copynumber: 8.4 Consensus size: 9
7324738 GTAGTGATTC
7324748 AATTCGGTT
1 AATTCGGTT
7324757 AATTCGGTT
1 AATTCGGTT
*
7324766 AATTCGGGT
1 AATTCGGTT
*
7324775 AATCCGGTT
1 AATTCGGTT
7324784 AATTCGGTT
1 AATTCGGTT
*
7324793 AATTCGGGT
1 AATTCGGTT
7324802 AATTCGGTT
1 AATTCGGTT
*
7324811 AATTCAGTT
1 AATTCGGTT
7324820 AATT
1 AATT
7324824 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7325001 original size:12 final size:12
Alignment explanation
Indices: 7324984--7325008 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7324974 TGTTATTTCG
7324984 GGTCGGTTAACC
1 GGTCGGTTAACC
7324996 GGTCGGTTAACC
1 GGTCGGTTAACC
7325008 G
1 G
7325009 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:7325439 original size:46 final size:46
Alignment explanation
Indices: 7325372--7325602 Score: 297
Period size: 46 Copynumber: 5.0 Consensus size: 46
7325362 CATGGCAAAG
* * *
7325372 TGTGAAAATTAGGTATGGTATTTCGATAAAGAAAACTATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATGAAGAAAACCATATTGAGT
*
7325418 TGTGAAAAGTAGGTATGGTA-TTCCAGTGAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGA-TGAAGAAAACCATATTGAGT
* * * * *
7325464 TGTAAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTAAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATGAAGAAAACCATATTGAGT
*
7325510 TGTGAAAAGTAGGTATGGTGTTTC-AGTGAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGA-TGAAGAAAACCATATTGAGT
* * *
7325556 TCTGAAAAGTAGGTATGGTAATTCCG-TGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGT-ATTTCGATGAAGAAAACCATATTGAGT
7325602 T
1 T
7325603 ATAGCCTTGT
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
45 4 0.03
46 150 0.94
47 6 0.04
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGATGAAGAAAACCATATTGAGT
Found at i:7325538 original size:92 final size:92
Alignment explanation
Indices: 7325376--7325602 Score: 346
Period size: 92 Copynumber: 2.5 Consensus size: 92
7325366 GCAAAGTGTG
* * * *
7325376 AAAATTAGGTATGGTATTTCGATAAAGAAAACTATATTGAGTTGTGAAAAGTAGGTATGGTATTC
1 AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTC
*
7325441 CAGTGAAGAAAACCATATTGAGTTGTA
66 CAGTGAAGAAAACCATATTGAGTTCTA
* * *
7325468 AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTAAGTTGTGAAAAGTAGGTATGGTGTTT
1 AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTC
*
7325533 CAGTGAAGAAAACCATATTGAGTTCTG
66 CAGTGAAGAAAACCATATTGAGTTCTA
* * *
7325560 AAAAGTAGGTATGGTAATTCCGTGAAGAAAACCATACTGAGTT
1 AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTT
7325603 ATAGCCTTGT
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 122 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (92 bp):
AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTC
CAGTGAAGAAAACCATATTGAGTTCTA
Found at i:7339344 original size:3 final size:3
Alignment explanation
Indices: 7339336--7339376 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7339326 ACAAAAGTTA
7339336 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7339377 AAGATGGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7341740 original size:24 final size:24
Alignment explanation
Indices: 7341684--7341732 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7341674 CACATTTAGA
7341684 GAATTTTGTGTTTACGTTTTGAGG
1 GAATTTTGTGTTTACGTTTTGAGG
7341708 GAATTTTGTGTTTACGTTTTGAGG
1 GAATTTTGTGTTTACGTTTTGAGG
7341732 G
1 G
7341733 TTCTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.04, G:0.31, T:0.49
Consensus pattern (24 bp):
GAATTTTGTGTTTACGTTTTGAGG
Found at i:7351489 original size:33 final size:33
Alignment explanation
Indices: 7351447--7351533 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
7351437 GAAGAGGGAT
* *
7351447 TAACAGGTATAGAAGATGAAGGTGAAATAGAGG
1 TAACAGGTATAGAAGGTGAAGGAGAAATAGAGG
* *
7351480 TAACCGGTATA-AAGGGTGAAGGAGATATAGAGG
1 TAACAGGTATAGAA-GGTGAAGGAGAAATAGAGG
7351513 TAACAGGTATAGAAGGTGAAG
1 TAACAGGTATAGAAGGTGAAG
7351534 CTACAGGCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 2 0.04
33 43 0.91
34 2 0.04
ACGTcount: A:0.43, C:0.05, G:0.34, T:0.18
Consensus pattern (33 bp):
TAACAGGTATAGAAGGTGAAGGAGAAATAGAGG
Found at i:7356606 original size:29 final size:27
Alignment explanation
Indices: 7356540--7356606 Score: 62
Period size: 31 Copynumber: 2.3 Consensus size: 27
7356530 GTGTTTCACG
* *
7356540 TGTATAATTGCATCAAATTAAAGTTCA
1 TGTATAATTGCATCAAATCAAAATTCA
* *
7356567 TGTATACAATTGTACATTAAATCAAAATTTA
1 TGTAT--AATTG--CATCAAATCAAAATTCA
7356598 TGTATAATT
1 TGTATAATT
7356607 TTAAGATTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 5 0.16
29 9 0.28
31 18 0.56
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAATTCA
Found at i:7356629 original size:3 final size:3
Alignment explanation
Indices: 7356621--7356660 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7356611 GATTTGTCAC
7356621 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7356661 CTTCTAACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7358234 original size:31 final size:31
Alignment explanation
Indices: 7358196--7358255 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
7358186 AGGGGTAAGT
7358196 TTTTTTTTTCTTTTTTGTTATATATTTGTAG
1 TTTTTTTTTCTTTTTTGTTATATATTTGTAG
7358227 TTTTTTTTTCTTTTTTGTTATATATTTGT
1 TTTTTTTTTCTTTTTTGTTATATATTTGT
7358256 TATATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.12, C:0.03, G:0.08, T:0.77
Consensus pattern (31 bp):
TTTTTTTTTCTTTTTTGTTATATATTTGTAG
Found at i:7358254 original size:11 final size:11
Alignment explanation
Indices: 7358240--7358273 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
7358230 TTTTTTCTTT
7358240 TTTGTTATATA
1 TTTGTTATATA
7358251 TTTGTTATATA
1 TTTGTTATATA
*
7358262 TATGTGTATATA
1 TTTGT-TATATA
7358274 GTTTTTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (11 bp):
TTTGTTATATA
Found at i:7358492 original size:10 final size:10
Alignment explanation
Indices: 7358477--7358515 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
7358467 TGTGCTATTG
7358477 TTTCTTGCTT
1 TTTCTTGCTT
*
7358487 TTTCTTGCTG
1 TTTCTTGCTT
*
7358497 TTTCTTTCTCT
1 TTTCTTGCT-T
7358508 TTTCTTGC
1 TTTCTTGC
7358516 AAGTGGTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.23, G:0.10, T:0.67
Consensus pattern (10 bp):
TTTCTTGCTT
Found at i:7358498 original size:20 final size:21
Alignment explanation
Indices: 7358475--7358515 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
7358465 TTTGTGCTAT
7358475 TGTTTCTTGCT-TTTTCTTGC
1 TGTTTCTTGCTCTTTTCTTGC
*
7358495 TGTTTCTTTCTCTTTTCTTGC
1 TGTTTCTTGCTCTTTTCTTGC
7358516 AAGTGGTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.00, C:0.22, G:0.12, T:0.66
Consensus pattern (21 bp):
TGTTTCTTGCTCTTTTCTTGC
Found at i:7361578 original size:13 final size:13
Alignment explanation
Indices: 7361560--7361639 Score: 108
Period size: 13 Copynumber: 6.1 Consensus size: 13
7361550 TTTGGATTAA
7361560 ATATATACAAAAT
1 ATATATACAAAAT
7361573 ATATATACAAAAT
1 ATATATACAAAAT
*
7361586 ATATATATACAAA-
1 ATATATACA-AAAT
7361599 ATATATACAAAAT
1 ATATATACAAAAT
* *
7361612 ATATATTAAAAAAA
1 ATATA-TACAAAAT
7361626 ATATATACAAAAT
1 ATATATACAAAAT
7361639 A
1 A
7361640 ATGAAAAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
12 3 0.05
13 41 0.71
14 14 0.24
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATATACAAAAT
Found at i:7361648 original size:11 final size:11
Alignment explanation
Indices: 7361558--7361648 Score: 58
Period size: 13 Copynumber: 7.3 Consensus size: 11
7361548 TCTTTGGATT
7361558 AAATATATACAA
1 AAATATATA-AA
7361570 AATATATATACAA
1 AA-ATATATA-AA
7361583 AATATATATATACA
1 AA-ATATATA-A-A
7361597 AAATATATACAA
1 AAATATATA-AA
7361609 AATATATATTAAAAA
1 AA-ATATA-T--AAA
*
7361624 AAATATATACA
1 AAATATATAAA
7361635 AAATA-ATGAAA
1 AAATATAT-AAA
7361646 AAA
1 AAA
7361649 CATACCTGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
10 2 0.03
11 12 0.18
12 5 0.07
13 35 0.51
14 9 0.13
15 4 0.06
16 1 0.01
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.27
Consensus pattern (11 bp):
AAATATATAAA
Found at i:7367491 original size:28 final size:30
Alignment explanation
Indices: 7367459--7367540 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 30
7367449 GTTTGATATA
7367459 TATTTTTAATTTGATACTTAATTT-G-TCT
1 TATTTTTAATTTGATACTTAATTTGGCTCT
* *
7367487 TA-TTTCAATTTGAAACTTAAATTTGGCTCT
1 TATTTTTAATTTGATACTT-AATTTGGCTCT
* *
7367517 T-TTTCTTAATTTAATACCTAATTT
1 TATTT-TTAATTTGATACTTAATTT
7367541 TTTTAGCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 14 0.33
28 7 0.16
29 1 0.02
30 11 0.26
31 10 0.23
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.55
Consensus pattern (30 bp):
TATTTTTAATTTGATACTTAATTTGGCTCT
Done.