Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3297763
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:678577 original size:20 final size:19
Alignment explanation
Indices: 678535--678577 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
678525 CGATAGTCAT
* *
678535 TTTCGTGTGCGATTTTCAT
1 TTTCGTGTGCGATTTTAAG
678554 TTTCGTGTTGCGATTTTAAG
1 TTTCGTG-TGCGATTTTAAG
678574 TTTC
1 TTTC
678578 AGAAACTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.12, C:0.14, G:0.21, T:0.53
Consensus pattern (19 bp):
TTTCGTGTGCGATTTTAAG
Found at i:680512 original size:20 final size:20
Alignment explanation
Indices: 680489--680555 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
680479 GAAACTTAAA
680489 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
680509 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
680529 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
680549 ATCGCAA
1 ATCGCAA
680556 TGGGATAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:680678 original size:20 final size:20
Alignment explanation
Indices: 680653--680720 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
680643 TGATTATCTT
*
680653 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAATTTCGC
680673 GTTGCGATAGTC-ATTTCCGC
1 GTTGCGATAGTCAATTT-CGC
* *
680693 GTTGTGATAGTCATTTTCGC
1 GTTGCGATAGTCAATTTCGC
680713 GTTGCGAT
1 GTTGCGAT
680721 TTTAAGTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATAGTCAATTTCGC
Found at i:680730 original size:20 final size:20
Alignment explanation
Indices: 680707--680749 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
680697 TGATAGTCAT
680707 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
680727 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
680747 TTT
1 TTT
680750 AAGAAACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.12, G:0.23, T:0.51
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:681319 original size:21 final size:21
Alignment explanation
Indices: 681226--681333 Score: 110
Period size: 21 Copynumber: 5.1 Consensus size: 21
681216 GCCTGACTCA
681226 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
681247 TCT-CCTATCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* * ** *
681268 CTTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
*
681289 CCTCTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
681310 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
681331 CCT
1 CCT
681334 CCCACCATTC
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 1 0.01
21 67 0.97
22 1 0.01
ACGTcount: A:0.19, C:0.34, G:0.19, T:0.27
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:681334 original size:42 final size:42
Alignment explanation
Indices: 681226--681348 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 42
681216 GCCTGACTCA
681226 CCTGTCATCGTTCAAGAGG--CCTCTCCTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGTCCCTCT-C-ATCGTTCAAGAGGCC
* * **
681268 CTTATCATCCCTCAAGA-GTCCCCTCTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGT-CCCTCTCATCGTTCAAGAGGCC
* * * *
681310 CCTGTCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 CCTGTCATCGTTCAAGAGGTCCCTCTCATCGTTCAAGAG
681349 CTCGATTCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
41 1 0.02
42 56 0.86
43 3 0.05
44 5 0.08
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGGTCCCTCTCATCGTTCAAGAGGCC
Found at i:682926 original size:20 final size:21
Alignment explanation
Indices: 682874--682926 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
682864 AGGTACACTT
*
682874 TCGCAACGC-TAAACTCAAAA
1 TCGCAACGCGAAAACTCAAAA
* *
682894 TCGCAATGTGAAAAC-CAAAA
1 TCGCAACGCGAAAACTCAAAA
682914 TCGCAACGCGAAA
1 TCGCAACGCGAAA
682927 GTCAATTCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.45, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
TCGCAACGCGAAAACTCAAAA
Found at i:683049 original size:20 final size:20
Alignment explanation
Indices: 682970--683174 Score: 182
Period size: 20 Copynumber: 10.8 Consensus size: 20
682960 GTGATTTTCT
* * *
682970 CGTTACGATAGTCAACTTCC
1 CGTTGCGATAGTCAAATTCG
* * *
682990 CGTTGCAATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
683010 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
683030 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
683050 TGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
683064 CATTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
683084 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
683104 CGTTGTGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
683118 CATTGCGATAGTCAAATTCT
1 CGTTGCGATAGTCAAATTCG
683138 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
683158 CGTTACGATATTCAAAT
1 CGTTGCGATAGTCAAAT
683175 GAATGTGTAA
Statistics
Matches: 148, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
14 20 0.14
16 2 0.01
18 2 0.01
20 124 0.84
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:683094 original size:54 final size:54
Alignment explanation
Indices: 683012--683166 Score: 265
Period size: 54 Copynumber: 2.9 Consensus size: 54
683002 CAAATTCACG
*
683012 TTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGTGTTGCGATTTTTGCA
1 TTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCA
* *
683066 TTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTGCA
1 TTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCA
* *
683120 TTGCGATAGTCAAATTCTCGTTGCGATAGTCAAATTCGCGTTACGAT
1 TTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
683167 ATTCAAATGA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (54 bp):
TTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCA
Found at i:683099 original size:94 final size:93
Alignment explanation
Indices: 682921--683108 Score: 229
Period size: 94 Copynumber: 2.0 Consensus size: 93
682911 AAATCGCAAC
* * *
682921 GCGAAAGTCAATTCGCGTTGCGATAGTCTAATACGCTTTGTGATTTTCTCGTTACGATAGTCAAC
1 GCGAAAGTCAATTCGCGTTGCGATAGTCAAATACGCTTTGCGATTTTCTCATTACGATAGTCAAC
682986 TTCCCGTTGCAATAATCAAATTCACGTT
66 TTCCCGTTGCAATAATCAAATTCACGTT
* * *
683014 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCG-TGTTGCGATTTT-TGCATTGCGATAGTC
1 GCGAAAGTC-AATTCGCGTTGCGATAGTCAAATACGCT-TTGCGATTTTCT-CATTACGATAGTC
* * * *
683077 ATA-TTCGCGTTGCGATAGTCAAATTCGCGTT
63 A-ACTTCCCGTTGCAATAATCAAATTCACGTT
683108 G
1 G
683109 TGATTTTTGC
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
93 10 0.12
94 70 0.86
95 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (93 bp):
GCGAAAGTCAATTCGCGTTGCGATAGTCAAATACGCTTTGCGATTTTCTCATTACGATAGTCAAC
TTCCCGTTGCAATAATCAAATTCACGTT
Found at i:683144 original size:74 final size:72
Alignment explanation
Indices: 682921--683174 Score: 219
Period size: 74 Copynumber: 3.5 Consensus size: 72
682911 AAATCGCAAC
* * * * *
682921 GCGAAAGTC-AATTCGCGTTGCGATAGTCTAATACGCTTTGTGATTTTCTCGTTACGATAGTCAA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTT-TCATT-CGATAGTCAA
* *
682985 CTTCCCGTT
64 ATTCTCGTT
* * * * **
682994 GCAATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGA-TAGTCAAATTCG-T-GTTGC
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTC--ATTCGATAG-T-C
* * * *
683056 GATTTTTGCATT
62 AAATTCT-CGTT
*
683068 GCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTGCATTGCGATAGTCAA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTT-CATT-CGATAGTCAA
683133 ATTCTCGTT
64 ATTCTCGTT
* *
683142 GCGATAGTCAAATTCGCGTTACGATATTCAAAT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
683175 GAATGTGTAA
Statistics
Matches: 140, Mismatches: 30, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
71 1 0.01
72 4 0.03
73 13 0.09
74 109 0.78
75 9 0.06
76 3 0.02
77 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (72 bp):
GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTTCATTCGATAGTCAAAT
TCTCGTT
Found at i:683397 original size:140 final size:140
Alignment explanation
Indices: 683145--683428 Score: 505
Period size: 140 Copynumber: 2.0 Consensus size: 140
683135 TCTCGTTGCG
* *
683145 ATAGTCAAATTCGCGTTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCATTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
* **
683210 TAGCAATGTTCAAACTCAAGTTACTAATACATTTCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
683275 AATACACATA
131 AATACACATA
*
683285 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
1 ATAGTCAAATTCGCATTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
*
683350 TAGCAATATTCAAACTTAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
683415 AATACACATA
131 AATACACATA
683425 ATAG
1 ATAG
683429 AACATTTGCA
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCATTACGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
TAGCAATATTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:683508 original size:18 final size:18
Alignment explanation
Indices: 683485--683519 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
683475 AAGCCGGTTG
*
683485 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
683503 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
683520 GCCTTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:690923 original size:24 final size:24
Alignment explanation
Indices: 690889--690942 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
690879 CTGAAACATC
690889 ATCAAAATCCGAGTATTGACC-AT
1 ATCAAAATCCGAGTATTGACCAAT
* *
690912 GATCAAAGTCCGGGTATTGACCAAT
1 -ATCAAAATCCGAGTATTGACCAAT
690937 ATCAAA
1 ATCAAA
690943 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAT
Found at i:692350 original size:21 final size:21
Alignment explanation
Indices: 692326--692372 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
692316 ATATTCAACT
*
692326 TTTTTAGTAATTTAATTTTTA
1 TTTTTAGTAATTTAATATTTA
* *
692347 TTTTTAGTATTTTTATATTTA
1 TTTTTAGTAATTTAATATTTA
692368 TTTTT
1 TTTTT
692373 TAAATATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTTTAGTAATTTAATATTTA
Found at i:693144 original size:20 final size:20
Alignment explanation
Indices: 693100--693367 Score: 248
Period size: 20 Copynumber: 13.2 Consensus size: 20
693090 AATGACCAAC
*
693100 AAAATCGCAACGCGAAAT-A-
1 AAAATCGCAACGCG-ATTCAG
*
693119 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
693139 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
693159 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
693179 AAAATCGCAACGCGATATTCCA-
1 AAAATCGCAACGCG--ATT-CAG
* * *
693201 AGAATCGCAATGCGATTAAG
1 AAAATCGCAACGCGATTCAG
*
693221 AGAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
693243 AGAATCGCAATGCGATTCAG
1 AAAATCGCAACGCGATTCAG
693263 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
*
693283 AAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
693303 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
693323 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
693343 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
693363 AAAAT
1 AAAAT
693368 GAGTAAATTT
Statistics
Matches: 212, Mismatches: 18, Indels: 37
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.01
19 20 0.09
20 152 0.72
21 5 0.02
22 28 0.13
23 2 0.01
25 1 0.00
26 1 0.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:693473 original size:6 final size:6
Alignment explanation
Indices: 693462--693513 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
693452 AGACACGTAT
693462 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
693510 GACC
1 GACC
693514 CGAGACGAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:694025 original size:6 final size:6
Alignment explanation
Indices: 694014--694058 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
694004 TCTCGTCTCG
694014 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
694059 AATACGTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:694377 original size:42 final size:40
Alignment explanation
Indices: 694154--694459 Score: 345
Period size: 40 Copynumber: 7.6 Consensus size: 40
694144 GAATTTACTC
*
694154 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
694194 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
* *
694234 ATTTTCTTAAACGTGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
694274 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
* *
694316 ATTCTCTTAATCGCATTGCGATTCTTGGAATATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
* **** *
694358 ATTTTCTT--TTGACCGTTGCGATT-TTCTTTTCAACGTTGCG
1 ATTTTCTTAATCG--CGTTGCGATTCTTGGAATC-GCGTTGCG
* * **
694398 ATTTTCTAAATCACGTTGCGATT-TTCTAAATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTT-GGAATCGCGTTGCG
*
694438 A-TTT-TTATTTCGCGTTGCGATT
1 ATTTTCTTA-ATCGCGTTGCGATT
694460 TTGTTGGTCA
Statistics
Matches: 230, Mismatches: 27, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 17 0.07
40 139 0.60
41 5 0.02
42 67 0.29
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (40 bp):
ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
Found at i:694425 original size:20 final size:20
Alignment explanation
Indices: 694154--694461 Score: 236
Period size: 20 Copynumber: 15.2 Consensus size: 20
694144 GAATTTACTC
*
694154 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
694174 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTAAATCGCGTTGCG
*
694194 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
694214 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTAAATCGCGTTGCG
*
694234 ATTTTCTTAAA-CGTGTTGCG
1 ATTTTC-TAAATCGCGTTGCG
**
694254 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTAAATCGCGTTGCG
*
694274 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
694294 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTCTAA-ATCGCGTTGCG
* * *
694316 ATTCTCTTAATCGCATTGCG
1 ATTTTCTAAATCGCGTTGCG
**
694336 ATTCTTGGAATATCGCGTTGCG
1 ATT-TTCTAA-ATCGCGTTGCG
* *
694358 ATTTTCT--TTTGACCGTTGCG
1 ATTTTCTAAATCG--CGTTGCG
** *
694378 ATTTTCT-TTTCAACGTTGCG
1 ATTTTCTAAATC-GCGTTGCG
*
694398 ATTTTCTAAATCACGTTGCG
1 ATTTTCTAAATCGCGTTGCG
694418 ATTTTCTAAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
694438 ATTTT-TATTTCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
694457 ATTTT
1 ATTTT
694462 GTTGGTCATT
Statistics
Matches: 234, Mismatches: 37, Indels: 35
0.76 0.12 0.11
Matches are distributed among these distances:
18 2 0.01
19 25 0.11
20 159 0.68
21 21 0.09
22 27 0.12
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
ATTTTCTAAATCGCGTTGCG
Found at i:697683 original size:17 final size:17
Alignment explanation
Indices: 697661--697718 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
697651 ATGGTTTTCA
*
697661 GAATCGGACCGATTAAC
1 GAATCGGATCGATTAAC
697678 GAATCGGATCGATTAAC
1 GAATCGGATCGATTAAC
*
697695 GAATTGGATCGATTAAC
1 GAATCGGATCGATTAAC
697712 GAATCGG
1 GAATCGG
697719 TCATACTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (17 bp):
GAATCGGATCGATTAAC
Found at i:699431 original size:23 final size:23
Alignment explanation
Indices: 699383--699443 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
699373 CGTGAACGTT
* * *
699383 TTCATTTATATGTTTACGAACGTG
1 TTCATTTA-ACGTTCACGAACATG
699407 TTCATTTAACGTTCACGAACATG
1 TTCATTTAACGTTCACGAACATG
* *
699430 TTCGTTTACCGTTC
1 TTCATTTAACGTTC
699444 GTTTATTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 24 0.75
24 8 0.25
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.43
Consensus pattern (23 bp):
TTCATTTAACGTTCACGAACATG
Found at i:708568 original size:21 final size:21
Alignment explanation
Indices: 708544--708585 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
708534 AGTTTATTTT
708544 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
708565 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
708586 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:708638 original size:14 final size:14
Alignment explanation
Indices: 708619--708647 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
708609 AATTTATCGA
708619 ACTTGGAAGTTTTT
1 ACTTGGAAGTTTTT
708633 ACTTGGAAGTTTTT
1 ACTTGGAAGTTTTT
708647 A
1 A
708648 AGTATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (14 bp):
ACTTGGAAGTTTTT
Found at i:708645 original size:47 final size:46
Alignment explanation
Indices: 708587--708680 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 46
708577 CAATTATCGA
* *
708587 ACTTGAAGTTTTTAAGTATTTGAATTTATCGAACTTGGAAGTTTTT
1 ACTTGAAGTTTTTAAGTATTTGAATTTATCAAACTTGGAAGTATTT
708633 ACTTGGAAGTTTTTAAGTATTTGAATTTATCAAACTTGGAAGTATTT
1 ACTT-GAAGTTTTTAAGTATTTGAATTTATCAAACTTGGAAGTATTT
708680 A
1 A
708681 AGTATTTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 4 0.09
47 41 0.91
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (46 bp):
ACTTGAAGTTTTTAAGTATTTGAATTTATCAAACTTGGAAGTATTT
Found at i:708767 original size:15 final size:15
Alignment explanation
Indices: 708747--708782 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
708737 ATTAAAATCA
*
708747 GTTTTTTTATAACTG
1 GTTTTTTTATAACCG
708762 GTTTTTTTATAACCG
1 GTTTTTTTATAACCG
708777 GTTTTT
1 GTTTTT
708783 AAAAAACTGT
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:0.17, C:0.08, G:0.14, T:0.61
Consensus pattern (15 bp):
GTTTTTTTATAACCG
Found at i:712875 original size:24 final size:24
Alignment explanation
Indices: 712848--712901 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
712838 GGATATTTTA
* *
712848 TCTGGTTTCAGATTTGAAATATGT
1 TCTGATTTCAGATTCGAAATATGT
* * *
712872 TCTGATTTCTGATTCGAATTCTGT
1 TCTGATTTCAGATTCGAAATATGT
712896 TCTGAT
1 TCTGAT
712902 ATATGATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.48
Consensus pattern (24 bp):
TCTGATTTCAGATTCGAAATATGT
Found at i:720207 original size:20 final size:20
Alignment explanation
Indices: 720184--720247 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
720174 ACAATTTTTT
*
720184 TAAACTATACTCTTAAAATT
1 TAAACTATACTCTTAAAATC
* *
720204 TAAATCTA-ACCCCTAAAATC
1 TAAA-CTATACTCTTAAAATC
*
720224 TAAATTATA-TCTTAAAATC
1 TAAACTATACTCTTAAAATC
720243 TAAAC
1 TAAAC
720248 CCTAAATTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 14 0.40
20 18 0.51
21 3 0.09
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAACTATACTCTTAAAATC
Found at i:721279 original size:32 final size:32
Alignment explanation
Indices: 721144--721280 Score: 113
Period size: 32 Copynumber: 4.3 Consensus size: 32
721134 CCTCGGCAAA
* * *
721144 TGTCCATATGTCCTG-AAGAACCTAGTTAA-AC
1 TGTCCATATGTCCTGAAAG-ACATAGGTAATTC
* * * *
721175 TGTCCATATGTTCCTTAGA-ACATAAGT-ATAC
1 TGTCCATATG-TCCTGAAAGACATAGGTAATTC
* * * *
721206 TGTCCATATATCCTGAAATACATATGTAATTT
1 TGTCCATATGTCCTGAAAGACATAGGTAATTC
721238 TGTCCATATGT-CTCGAAAGACATAGGTAATTC
1 TGTCCATATGTCCT-GAAAGACATAGGTAATTC
721270 TGTCCATATGT
1 TGTCCATATGT
721281 TCCGTAGAAC
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
30 7 0.08
31 35 0.41
32 42 0.49
33 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTCCATATGTCCTGAAAGACATAGGTAATTC
Found at i:721293 original size:32 final size:31
Alignment explanation
Indices: 721144--721298 Score: 111
Period size: 32 Copynumber: 4.9 Consensus size: 31
721134 CCTCGGCAAA
* * *
721144 TGTCCATATGTCCTGAAGAACCTAGTTAA-AC
1 TGTCCATATGTCC-GTAGAACATAGGTAATAC
* *
721175 TGTCCATATGTTCCTTAGAACATAAGT-ATAC
1 TGTCCATATG-TCCGTAGAACATAGGTAATAC
* * * **
721206 TGTCCATATATCC-TGAAATACATATGTAATTT
1 TGTCCATATGTCCGT-AGA-ACATAGGTAATAC
* *
721238 TGTCCATATGTCTCG-AAAGACATAGGTAATTC
1 TGTCCATATGTC-CGTAGA-ACATAGGTAATAC
721270 TGTCCATATGTTCCGTAGAACATAGGTAA
1 TGTCCATATG-TCCGTAGAACATAGGTAA
721299 ACCCTCGACT
Statistics
Matches: 100, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
29 1 0.01
30 6 0.06
31 36 0.36
32 52 0.52
33 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (31 bp):
TGTCCATATGTCCGTAGAACATAGGTAATAC
Found at i:721811 original size:2 final size:2
Alignment explanation
Indices: 721804--721851 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
721794 ACTTATGTTC
721804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
721846 AT AT AT
1 AT AT AT
721852 CACCTAACAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:723901 original size:23 final size:23
Alignment explanation
Indices: 723864--723928 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
723854 CAGCTCGTAT
*
723864 AAATGCACCGAAGTGCCATGTAG
1 AAATGCACCGTAGTGCCATGTAG
* * **
723887 AATTGCATCGTAGTGCCGCGTAG
1 AAATGCACCGTAGTGCCATGTAG
723910 AAATGCACCGTAGTGCCAT
1 AAATGCACCGTAGTGCCAT
723929 ATAAGACTGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (23 bp):
AAATGCACCGTAGTGCCATGTAG
Found at i:724680 original size:2 final size:2
Alignment explanation
Indices: 724668--724704 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
724658 ATATTATACT
*
724668 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
724705 TACTTCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:726119 original size:22 final size:22
Alignment explanation
Indices: 726073--726146 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
726063 TTCAGTATTT
726073 GTCCCGAAGGACCACT--AT--
1 GTCCCGAAGGACCACTGGATAC
726091 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
726113 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
726135 GTCCCGAAGGAC
1 GTCCCGAAGGAC
726147 TAATATACCC
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
18 16 0.31
20 2 0.04
22 34 0.65
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:730439 original size:14 final size:14
Alignment explanation
Indices: 730420--730448 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
730410 CAAATAGGTG
730420 AAGTTCCATACATT
1 AAGTTCCATACATT
730434 AAGTTCCATACATT
1 AAGTTCCATACATT
730448 A
1 A
730449 TTTCAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (14 bp):
AAGTTCCATACATT
Found at i:735827 original size:21 final size:21
Alignment explanation
Indices: 735785--735827 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
735775 TTTTTGGGCT
*
735785 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
735806 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
735827 A
1 A
735828 ACGAATATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:735879 original size:19 final size:19
Alignment explanation
Indices: 735855--735891 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
735845 GAATGCTAGA
*
735855 GGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCAG
*
735874 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
735892 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (19 bp):
GGGGAACCGATACCCCCAG
Found at i:736769 original size:4 final size:4
Alignment explanation
Indices: 736760--736940 Score: 344
Period size: 4 Copynumber: 45.2 Consensus size: 4
736750 AAATGATGAC
736760 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
736808 ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
736856 ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
736904 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
736941 AGGGTTATAT
Statistics
Matches: 173, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 173 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:737153 original size:31 final size:30
Alignment explanation
Indices: 737115--737210 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
737105 GTCAAAGAAC
737115 TACCTATGTCTTTCGAGACATATGGATAGT
1 TACCTATGTCTTTCGAGACATATGGATAGT
***
737145 ATACCTATGTTCTAAGGA-ACATATGGATAGTT
1 -TACCTATG-TCTTTCGAGACATATGGATAG-T
* * *
737177 TACCTAGGT-TCTTCGGGACCTATGGATAGT
1 TACCTATGTCT-TTCGAGACATATGGATAGT
737207 TACC
1 TACC
737211 GAGGATCTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
29 1 0.02
30 7 0.13
31 38 0.73
32 6 0.12
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (30 bp):
TACCTATGTCTTTCGAGACATATGGATAGT
Found at i:737227 original size:30 final size:30
Alignment explanation
Indices: 737193--737535 Score: 650
Period size: 30 Copynumber: 11.4 Consensus size: 30
737183 GGTTCTTCGG
*
737193 GACCTATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
737223 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
737253 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
737283 GACCTGTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
737313 GACCTCTGGATGGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
737343 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
737373 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
737403 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
737433 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
737463 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
737493 GACCTCTGGATAGTTACCGAAGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
737523 GACCTCTGGATAG
1 GACCTCTGGATAG
737536 GTCCTTCGGA
Statistics
Matches: 307, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 307 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:740962 original size:19 final size:19
Alignment explanation
Indices: 740938--740974 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
740928 GAATGCTAGA
*
740938 GGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCAG
*
740957 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
740975 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (19 bp):
GGGGAACCGATACCCCCAG
Found at i:741846 original size:4 final size:4
Alignment explanation
Indices: 741832--744295 Score: 4891
Period size: 4 Copynumber: 617.0 Consensus size: 4
741822 ATAAATGATG
*
741832 ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
741880 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
741928 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
741976 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742024 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742072 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742120 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742168 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742216 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742264 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742312 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742360 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742408 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742456 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742504 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742552 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742600 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742648 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742696 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742744 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742792 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742840 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742888 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742936 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
742984 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743032 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743080 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743128 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743176 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743224 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743272 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743320 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743368 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743416 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743464 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743512 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743560 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743608 ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743654 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743702 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743750 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743798 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743846 ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743892 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743940 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
743988 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
744036 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
744084 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
744132 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
744180 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
744228 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
744276 ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT
744296 GTATGTATGT
Statistics
Matches: 2454, Mismatches: 2, Indels: 8
1.00 0.00 0.00
Matches are distributed among these distances:
2 4 0.00
4 2450 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:744301 original size:4 final size:4
Alignment explanation
Indices: 744294--744363 Score: 140
Period size: 4 Copynumber: 17.5 Consensus size: 4
744284 ACATACATAC
744294 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
744342 ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT AT
744364 CTAAGGGTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 66 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:744579 original size:31 final size:30
Alignment explanation
Indices: 744541--744636 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
744531 GTCAAAGAAC
744541 TACCTATGTCTTTCGAGACATATGGATAGT
1 TACCTATGTCTTTCGAGACATATGGATAGT
***
744571 ATACCTATGTTCTAAGGA-ACATATGGATAGTT
1 -TACCTATG-TCTTTCGAGACATATGGATAG-T
* * *
744603 TACCTAGGT-TCTTCGGGACCTATGGATAGT
1 TACCTATGTCT-TTCGAGACATATGGATAGT
744633 TACC
1 TACC
744637 GAGGATCTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
29 1 0.02
30 7 0.13
31 38 0.73
32 6 0.12
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (30 bp):
TACCTATGTCTTTCGAGACATATGGATAGT
Found at i:744653 original size:30 final size:30
Alignment explanation
Indices: 744619--744960 Score: 641
Period size: 30 Copynumber: 11.4 Consensus size: 30
744609 GGTTCTTCGG
*
744619 GACCTATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744649 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744679 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744709 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744739 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744769 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744799 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744829 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744859 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* *
744889 GACCTCT-GATTGTTACCAAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
744918 GACCTCTGGATAGTTACCGAAGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
744948 GACCTCTGGATAG
1 GACCTCTGGATAG
744961 GTCCTTCGGA
Statistics
Matches: 305, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
29 27 0.09
30 278 0.91
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:748815 original size:12 final size:12
Alignment explanation
Indices: 748800--748830 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
748790 CAAGTTATGC
*
748800 AGCAACAGCAAG
1 AGCAACAACAAG
748812 AGCAACAACAAG
1 AGCAACAACAAG
748824 AGCAACA
1 AGCAACA
748831 CCATCATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.26, G:0.19, T:0.00
Consensus pattern (12 bp):
AGCAACAACAAG
Found at i:751623 original size:29 final size:29
Alignment explanation
Indices: 751565--751625 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
751555 TTAACTTTTT
* ** *
751565 AAATATATTTTATTTTTATTTTTATGTAA
1 AAATATATTTTATCTTTATGATAATGTAA
751594 AAATATATTTTATCTTTATGATAACT-TAA
1 AAATATATTTTATCTTTATGATAA-TGTAA
751623 AAA
1 AAA
751626 CATCTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (29 bp):
AAATATATTTTATCTTTATGATAATGTAA
Found at i:751714 original size:64 final size:64
Alignment explanation
Indices: 751637--751802 Score: 264
Period size: 64 Copynumber: 2.6 Consensus size: 64
751627 ATCTTAATTT
*
751637 AAAATATATTTTATTCTTATTTTAAA-TAAAATATATATATATATCTTACTATTATCTTCACTTA
1 AAAATATATTTTATTCTTATTTTAAATTAAAA-ATATATATATATCTTAATATTATCTTCACTTA
* *
751701 AAAATATACTTTATTCTTATTTTAAATTAAAAA-AAAGTATATATCTTAATATTATCTTCACTTA
1 AAAATATATTTTATTCTTATTTTAAATTAAAAATATA-TATATATCTTAATATTATCTTCACTTA
*
751765 AGAATATATTTTATTCTTATTTTAAATTAAAAATATAT
1 AAAATATATTTTATTCTTATTTTAAATTAAAAATATAT
751803 TTTAAAAGTT
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
63 2 0.02
64 84 0.90
65 7 0.08
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (64 bp):
AAAATATATTTTATTCTTATTTTAAATTAAAAATATATATATATCTTAATATTATCTTCACTTA
Found at i:751784 original size:29 final size:29
Alignment explanation
Indices: 751627--751806 Score: 112
Period size: 29 Copynumber: 5.8 Consensus size: 29
751617 ACTTAAAAAC
*
751627 ATCTT-AATTTAAAATATATTTTATTCTT
1 ATCTTAAATTAAAAATATATTTTATTCTT
* *
751655 ATTTTAAA-TAAAATATATATATATATCTTACTATT
1 ATCTTAAATTAAAA-ATATAT-T-T-TATT-C--TT
* * *
751690 ATCTTCACTTAAAAATATACTTTATTCTT
1 ATCTTAAATTAAAAATATATTTTATTCTT
* * *
751719 ATTTTAAATTAAAAAAAAGTATATATCTTAATATT
1 ATCTTAAATT---AAAAA-TATAT-T-TTATTCTT
* * *
751754 ATCTTCACTTAAGAATATATTTTATTCTT
1 ATCTTAAATTAAAAATATATTTTATTCTT
*
751783 ATTTTAAATTAAAAATATATTTTA
1 ATCTTAAATTAAAAATATATTTTA
751807 AAAGTTAAGA
Statistics
Matches: 113, Mismatches: 24, Indels: 29
0.68 0.14 0.17
Matches are distributed among these distances:
28 8 0.07
29 43 0.38
30 2 0.02
31 7 0.06
32 15 0.13
33 6 0.05
34 2 0.02
35 25 0.22
36 5 0.04
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (29 bp):
ATCTTAAATTAAAAATATATTTTATTCTT
Found at i:751829 original size:29 final size:29
Alignment explanation
Indices: 751792--752017 Score: 89
Period size: 29 Copynumber: 7.5 Consensus size: 29
751782 TATTTTAAAT
751792 TAAAA-ATATATTTTAAAAGTTAAGATAA
1 TAAAATATATATTTTAAAAGTTAAGATAA
*
751820 TAAAATATAT-TTTT--AAGTGAAGATAA
1 TAAAATATATATTTTAAAAGTTAAGATAA
* * *
751846 TAATAAGATATATACATTATATATATA-TATAATTTAAAA
1 T-A-AA-ATATAT--ATT-T-TA-AAAGT-TAA--GATAA
751885 TAAGAATAAAATATATTTTAAAAGTTAAGATAA
1 TAA-AAT--A-TATATTTTAAAAGTTAAGATAA
* *
751918 TAATAAAATATATTTT-AAA-TT-TGA-AA
1 TAA-AATATATATTTTAAAAGTTAAGATAA
* * *
751944 TAAAATAAAACATATTTAATAAGTTAAAATAA
1 TAAAAT-ATATAT-TTTAA-AAGTTAAGATAA
*
751976 -AAAA-ATATACTTTTAAAATTTAAGATATA
1 TAAAATATATA-TTTTAAAAGTTAAGATA-A
752005 TAAAATAT-TATTT
1 TAAAATATATATTT
752018 ATTTTGAGAA
Statistics
Matches: 147, Mismatches: 20, Indels: 61
0.64 0.09 0.27
Matches are distributed among these distances:
25 2 0.01
26 21 0.14
27 6 0.04
28 23 0.16
29 27 0.18
30 17 0.12
31 8 0.05
32 4 0.03
33 9 0.06
34 1 0.01
35 5 0.03
36 4 0.03
37 7 0.05
38 5 0.03
39 5 0.03
40 3 0.02
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.38
Consensus pattern (29 bp):
TAAAATATATATTTTAAAAGTTAAGATAA
Found at i:751844 original size:26 final size:27
Alignment explanation
Indices: 751794--751848 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
751784 TTTTAAATTA
*
751794 AAAATATATTTTAAAAGTTAAGATAAT
1 AAAATATATTTTAAAAGTGAAGATAAT
*
751821 AAAATATATTTT-TAAGTGAAGATAAT
1 AAAATATATTTTAAAAGTGAAGATAAT
751847 AA
1 AA
751849 TAAGATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (27 bp):
AAAATATATTTTAAAAGTGAAGATAAT
Found at i:751913 original size:25 final size:23
Alignment explanation
Indices: 751872--751922 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 23
751862 TTATATATAT
751872 ATATAATTTAAAATAAGAATAA-A
1 ATATAATTTAAAATAAG-ATAATA
*
751895 ATATATTTTAAAAGTTAAGATAATA
1 ATATAATTTAAAA--TAAGATAATA
751920 ATA
1 ATA
751923 AAATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 12 0.50
24 4 0.17
25 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAATTTAAAATAAGATAATA
Found at i:751925 original size:30 final size:29
Alignment explanation
Indices: 751882--752017 Score: 124
Period size: 29 Copynumber: 4.7 Consensus size: 29
751872 ATATAATTTA
*
751882 AAATAAGAATAAAATATATTTTAAAAGTT
1 AAATAATAATAAAATATATTTTAAAAGTT
*
751911 AAGATAATAATAAAATATATTTT-AAATTT
1 AA-ATAATAATAAAATATATTTTAAAAGTT
*
751940 GAAATAA-AATAAAACATA-TTTAATAAGTT
1 -AAATAATAATAAAATATATTTTAA-AAGTT
* *
751969 -AA-AATAAAAAAATATACTTTTAAAATTT
1 AAATAATAATAAAATATA-TTTTAAAAGTT
751997 AAGAT-AT-ATAAAATATTATTT
1 AA-ATAATAATAAAATA-TATTT
752018 ATTTTGAGAA
Statistics
Matches: 88, Mismatches: 8, Indels: 22
0.75 0.07 0.19
Matches are distributed among these distances:
26 2 0.02
27 14 0.16
28 15 0.17
29 31 0.35
30 26 0.30
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (29 bp):
AAATAATAATAAAATATATTTTAAAAGTT
Found at i:751970 original size:58 final size:57
Alignment explanation
Indices: 751876--751998 Score: 153
Period size: 58 Copynumber: 2.1 Consensus size: 57
751866 ATATATATAT
* *
751876 AATTTAAAATAAGAATAAAATATATTTTAAAAGTTAAGATAATAATAAAATATA-TTTTA
1 AATTTAAAATAAGAATAAAACATATTTTAAAAGTT-A-A-AATAAAAAAATATACTTTTA
*
751935 AATTTGAAATAA-AATAAAACATA-TTTAATAAGTTAAAATAAAAAAATATACTTTTAA
1 AATTTAAAATAAGAATAAAACATATTTTAA-AAGTTAAAATAAAAAAATATACTTTT-A
751992 AATTTAA
1 AATTTAA
751999 GATATATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
55 13 0.23
56 5 0.09
57 13 0.23
58 15 0.26
59 11 0.19
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (57 bp):
AATTTAAAATAAGAATAAAACATATTTTAAAAGTTAAAATAAAAAAATATACTTTTA
Found at i:752061 original size:2 final size:2
Alignment explanation
Indices: 752054--752082 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
752044 ATAAGATACA
752054 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
752083 ATTTGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:754867 original size:28 final size:29
Alignment explanation
Indices: 754835--754892 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
754825 TATTAAAGGG
754835 TAAGTAATATTTAAGAACATGATTT-TAA
1 TAAGTAATATTTAAGAACATGATTTCTAA
754863 TAAGTAATATTTAAGAACATGATTTCTAA
1 TAAGTAATATTTAAGAACATGATTTCTAA
754892 T
1 T
754893 TATTCTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (29 bp):
TAAGTAATATTTAAGAACATGATTTCTAA
Found at i:760009 original size:91 final size:91
Alignment explanation
Indices: 759854--760036 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
759844 GAACAATGTT
759854 AGAAATTATTGTTTTTAAACTGATTCAATGGATTCATGGCTCTAAAACTACATCCTTTTTCTGAT
1 AGAAATTATTGTTTTTAAACTGATTCAATGGATTCATGGCTCTAAAACTACATCCTTTTTCTGAT
759919 CAGAACAATTTAGCAGTTTGTCATGC
66 CAGAACAATTTAGCAGTTTGTCATGC
*
759945 AGAAATTATTGTTTTTAAACTGATTCAATGGATTCATGGCTCTAAAACTGCATCCTTTTTCTGAT
1 AGAAATTATTGTTTTTAAACTGATTCAATGGATTCATGGCTCTAAAACTACATCCTTTTTCTGAT
* *
760010 CAGAACAATTTGGCAGTTTGTCTTGC
66 CAGAACAATTTAGCAGTTTGTCATGC
760036 A
1 A
760037 TTTACTTACA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (91 bp):
AGAAATTATTGTTTTTAAACTGATTCAATGGATTCATGGCTCTAAAACTACATCCTTTTTCTGAT
CAGAACAATTTAGCAGTTTGTCATGC
Found at i:764286 original size:34 final size:34
Alignment explanation
Indices: 764248--764315 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
764238 TATACCTAAG
*
764248 AATTTGAGATAAATGGTTCAATTAAGTCAAATAA
1 AATTTGAGATAAATGATTCAATTAAGTCAAATAA
764282 AATTTGAGATAAATGATTCAATTAAGTCAAATAA
1 AATTTGAGATAAATGATTCAATTAAGTCAAATAA
764316 TTTCTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (34 bp):
AATTTGAGATAAATGATTCAATTAAGTCAAATAA
Found at i:767172 original size:7 final size:7
Alignment explanation
Indices: 767160--767263 Score: 52
Period size: 7 Copynumber: 14.9 Consensus size: 7
767150 TATGTGATAA
767160 GGTTTAG
1 GGTTTAG
767167 GGTTTAG
1 GGTTTAG
*
767174 GATTTAG
1 GGTTTAG
*
767181 AGTTTA-
1 GGTTTAG
** *
767187 TATGATAG
1 GGT-TTAG
* *
767195 GATTTAA
1 GGTTTAG
*
767202 GGTTTAA
1 GGTTTAG
*
767209 AGTTTAG
1 GGTTTAG
767216 GGTTTAG
1 GGTTTAG
767223 GGTTTA-
1 GGTTTAG
**
767229 TATGTTAG
1 GGT-TTAG
767237 GGTTTAG
1 GGTTTAG
767244 GGTTTA-
1 GGTTTAG
*
767250 TGTGTTAG
1 GGT-TTAG
767258 GGTTTA
1 GGTTTA
767264 AGTTATGCCA
Statistics
Matches: 72, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
6 4 0.06
7 63 0.88
8 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:767195 original size:21 final size:21
Alignment explanation
Indices: 767170--767267 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
767160 GGTTTAGGGT
*
767170 TTAGGATTTAGAGTTTATATG
1 TTAGGGTTTAGAGTTTATATG
* * *
767191 ATAGGATTTA-AGGTTTA-AAG
1 TTAGGGTTTAGA-GTTTATATG
*
767211 TTTAGGGTTTAGGGTTTATATG
1 -TTAGGGTTTAGAGTTTATATG
* *
767233 TTAGGGTTTAGGGTTTATGTG
1 TTAGGGTTTAGAGTTTATATG
767254 TTAGGGTTTA-AGTT
1 TTAGGGTTTAGAGTT
767268 ATGCCATGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
20 6 0.09
21 57 0.88
22 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTATATG
Found at i:767216 original size:42 final size:42
Alignment explanation
Indices: 767157--767249 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
767147 AATTATGTGA
**
767157 TAAGGTTTAGGGTTTAGGATTTAGAGTTTATATGATAGGATT
1 TAAGGTTTAAAGTTTAGGATTTAGAGTTTATATGATAGGATT
* * * *
767199 TAAGGTTTAAAGTTTAGGGTTTAGGGTTTATATGTTAGGGTT
1 TAAGGTTTAAAGTTTAGGATTTAGAGTTTATATGATAGGATT
*
767241 TAGGGTTTA
1 TAAGGTTTA
767250 TGTGTTAGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (42 bp):
TAAGGTTTAAAGTTTAGGATTTAGAGTTTATATGATAGGATT
Found at i:769010 original size:26 final size:26
Alignment explanation
Indices: 768942--769027 Score: 138
Period size: 26 Copynumber: 3.3 Consensus size: 26
768932 CCTAGTATTG
* *
768942 GTTTTGGTGTTTGGTTCTCTGTCCCTT
1 GTTTT-GTGCTTGGTGCTCTGTCCCTT
768969 GTTTT-TGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGCTTGGTGCTCTGTCCCTT
768994 GTTTTGTGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGCTTGGTGCTCTGTCCCTT
769020 GTTTTGTG
1 GTTTTGTG
769028 TGTCTGCAGG
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
25 23 0.41
26 28 0.50
27 5 0.09
ACGTcount: A:0.00, C:0.20, G:0.27, T:0.53
Consensus pattern (26 bp):
GTTTTGTGCTTGGTGCTCTGTCCCTT
Found at i:769427 original size:17 final size:17
Alignment explanation
Indices: 769402--769442 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
769392 TTCGAGTTTC
* *
769402 AGTTCGAGCTTTAATCG
1 AGTTTGAGCTTGAATCG
769419 AGTTTGAGCTTGAATCG
1 AGTTTGAGCTTGAATCG
*
769436 AGCTTGA
1 AGTTTGA
769443 ATCAAGCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (17 bp):
AGTTTGAGCTTGAATCG
Found at i:769438 original size:11 final size:11
Alignment explanation
Indices: 769424--769496 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
769414 AATCGAGTTT
*
769424 GAGCTTGAATC
1 GAGCTTAAATC
*
769435 GAGCTTGAATC
1 GAGCTTAAATC
* *
769446 AAGCTCAAAATC
1 GAGCT-TAAATC
*
769458 GAGCTTTAATC
1 GAGCTTAAATC
*
769469 GAGCTCAAAATC
1 GAGCT-TAAATC
*
769481 GAGCTTCAATC
1 GAGCTTAAATC
769492 GAGCT
1 GAGCT
769497 CTTGAATTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
11 33 0.66
12 17 0.34
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (11 bp):
GAGCTTAAATC
Found at i:769457 original size:23 final size:23
Alignment explanation
Indices: 769431--769497 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
769421 TTTGAGCTTG
* *
769431 AATCGAGCTTGAATCAAGCTCAA
1 AATCGAGCTTCAATCGAGCTCAA
*
769454 AATCGAGCTTTAATCGAGCTCAA
1 AATCGAGCTTCAATCGAGCTCAA
769477 AATCGAGCTTCAATCGAGCTC
1 AATCGAGCTTCAATCGAGCTC
769498 TTGAATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (23 bp):
AATCGAGCTTCAATCGAGCTCAA
Found at i:784046 original size:15 final size:15
Alignment explanation
Indices: 784028--784067 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
784018 AACTAAAACT
784028 ATTTTAAATAAAT-AA
1 ATTTTAAA-AAATAAA
*
784043 ATTTTACAAAATAAA
1 ATTTTAAAAAATAAA
784058 ATTTTAAAAA
1 ATTTTAAAAA
784068 TTATTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTTTAAAAAATAAA
Found at i:784133 original size:17 final size:16
Alignment explanation
Indices: 784113--784146 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
784103 TACTTTTTAT
*
784113 TAATAATAAATTTTAAA
1 TAATAAGAAA-TTTAAA
784130 TAATAAGAAATTTAAA
1 TAATAAGAAATTTAAA
784146 T
1 T
784147 GAGATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TAATAAGAAATTTAAA
Found at i:790848 original size:3 final size:3
Alignment explanation
Indices: 790842--790870 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
790832 TATTTGCTTA
790842 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
790871 AATAATTAAT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:792157 original size:22 final size:23
Alignment explanation
Indices: 792132--792199 Score: 57
Period size: 25 Copynumber: 2.7 Consensus size: 23
792122 ATTAACTTTA
792132 AATTATTAGTTTATTATT-TTTT
1 AATTATTAGTTTATTATTGTTTT
*
792154 AATTTCATTTATTTTAGTTATTGTTTT
1 AA-TT-A-TTAGTTTA-TTATTGTTTT
*
792181 AATTTTATATGTTTATTAT
1 AATTAT-TA-GTTTATTAT
792200 CAATATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 2 0.06
25 13 0.36
26 11 0.31
27 6 0.17
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.66
Consensus pattern (23 bp):
AATTATTAGTTTATTATTGTTTT
Found at i:792210 original size:23 final size:24
Alignment explanation
Indices: 792184--792237 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
792174 TTGTTTTAAT
* *
792184 TTTATATGT-TTATTATCAATATA
1 TTTATAAGTATTATTATAAATATA
792207 TTTA-AAGTATTATTATAAATATA
1 TTTATAAGTATTATTATAAATATA
*
792230 TATATAAG
1 TTTATAAG
792238 AAATAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 3 0.12
23 20 0.77
24 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (24 bp):
TTTATAAGTATTATTATAAATATA
Found at i:792480 original size:23 final size:23
Alignment explanation
Indices: 792453--792507 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
792443 TCTTTTCTGA
*
792453 TATTTCTAAATAAATAAATATAT
1 TATTTATAAATAAATAAATATAT
** *
792476 TATTTATATTTAAATTAATATAT
1 TATTTATAAATAAATAAATATAT
*
792499 T-TTCATAAA
1 TATTTATAAA
792508 ATTATAAATT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATAT
Found at i:792987 original size:22 final size:22
Alignment explanation
Indices: 792960--793001 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
792950 TTAGAAATTT
792960 AAAATTCATATAT-TTTATTAAA
1 AAAATT-ATATATATTTATTAAA
792982 AAAATTATATATATTTATTA
1 AAAATTATATATATTTATTA
793002 TTTTCATAAT
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:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATTATATATATTTATTAAA
Found at i:796353 original size:15 final size:15
Alignment explanation
Indices: 796333--796364 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
796323 GATCAATACC
796333 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
796348 TTTTGCATACATTCA
1 TTTTGCATACATGCA
796363 TT
1 TT
796365 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:800155 original size:9 final size:9
Alignment explanation
Indices: 800141--800172 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
800131 AAATGGCAAT
800141 CATTCTTTA
1 CATTCTTTA
800150 CATTCTTTA
1 CATTCTTTA
*
800159 CATTTTTTA
1 CATTCTTTA
800168 CATTC
1 CATTC
800173 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (9 bp):
CATTCTTTA
Found at i:805495 original size:113 final size:112
Alignment explanation
Indices: 805284--805551 Score: 365
Period size: 113 Copynumber: 2.4 Consensus size: 112
805274 ATAGATCAAT
* *
805284 ATTTCCAGAAAGAGATCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 ATTTCCAGAAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
* * *
805349 AAGAGCTTGTTCAACCTTTTACTCAAATCCATCACTTGATGGGTCAGC
65 AAGAACTTATTCAACCTTTTACTCAAATCCATCACTTGATGGATCAGC
* *
805397 TTTTCCAGATAAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAATTCATAATGAG
1 ATTTCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
* * ** ** * *
805462 AAGAATTTATTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAGC
65 AAGAACTTATTCAACCTTTTACTCAAATCCATCACTTGATGGATCAGC
*
805510 ATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 ATTTCCAGA-AAAGTTCATAATGAGAAGAACTCATCTGAAGA
805552 GAAGAGTTTG
Statistics
Matches: 135, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
113 133 0.99
114 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
ATTTCCAGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
AGAACTTATTCAACCTTTTACTCAAATCCATCACTTGATGGATCAGC
Found at i:805686 original size:20 final size:20
Alignment explanation
Indices: 805623--805687 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 20
805613 TTTCCATAAG
805623 TGTTCATAATGAGAAGAACT
1 TGTTCATAATGAGAAGAACT
* * * *
805643 CGTCTGAAGAAGGAGAAGAA--
1 TGT-T-CATAATGAGAAGAACT
805663 -GTTCATAATGAGAAGAACT
1 TGTTCATAATGAGAAGAACT
805682 TGTTCA
1 TGTTCA
805688 ACATTTTGCT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
17 11 0.33
18 1 0.03
19 2 0.06
20 7 0.21
21 1 0.03
22 11 0.33
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (20 bp):
TGTTCATAATGAGAAGAACT
Found at i:805750 original size:110 final size:116
Alignment explanation
Indices: 805624--806013 Score: 451
Period size: 121 Copynumber: 3.3 Consensus size: 116
805614 TTCCATAAGT
**
805624 GTTCATAATGAGAAGAACTCGTCTGAAGAAGG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
**
805688 ACATTTTGCTCGAATTC-ATCACTTAATG-GATAG-A-C-T-TTTCCAGAAA
66 ACATTTTGCTCG-ATTCTATCACAGAATGAGATAGAAGCATATTTCCAGAAA
*
805734 GTTCATAATGAGAAGAACTTATCTGAA-AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 GTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * *
805798 ACCTTTTGCTCGATTCTATCACAGAATGAGATAGATCAGCATCAACATTTTCAGAAG
66 ACATTTTGCTCGATTCTATCACAGAATGAGATAGA--AGCAT----ATTTCCAGAAA
805855 GTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 GTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * *
805919 ACTTTTTG-TATGATTCTATCACAGAAGGAGATAGATCAGCATCAGCATTTCCAGAAGAA
66 ACATTTTGCT-CGATTCTATCACAGAATGAGATAGA--AGCAT----ATTTCCAG-A-AA
*
805978 GTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAA
1 GTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAA
806014 CTTGTTCAAC
Statistics
Matches: 247, Mismatches: 16, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
109 8 0.03
110 76 0.31
111 5 0.02
114 1 0.00
115 1 0.00
116 1 0.00
120 1 0.00
121 117 0.47
122 1 0.00
123 36 0.15
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (116 bp):
GTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACATTTTGCTCGATTCTATCACAGAATGAGATAGAAGCATATTTCCAGAAA
Found at i:805917 original size:20 final size:20
Alignment explanation
Indices: 805855--805918 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
805845 TTTTCAGAAG
805855 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
805875 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
805894 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
805914 GTTCA
1 GTTCA
805919 ACTTTTTGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:805942 original size:121 final size:121
Alignment explanation
Indices: 805723--806013 Score: 458
Period size: 121 Copynumber: 2.4 Consensus size: 121
805713 ATGGATAGAC
* *
805723 TTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAG
1 TTTT-CAGAAGGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAG
* *
805788 AATTTGTTCAACCTTTTGCTCGATTCTATCACAGAATGAGATAGATCAGCATCAACA
65 AACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAGATAGATCAGCATCAACA
805845 TTTTCAGAAGGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGA
1 TTTTCAGAAGGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGA
* * *
805910 ACTTGTTCAACTTTTTG-TATGATTCTATCACAGAAGGAGATAGATCAGCATCAGCA
66 ACTTGTTCAACCTTTTGCT-CGATTCTATCACAGAAGGAGATAGATCAGCATCAACA
* *
805966 TTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAA
1 TTTTCAGAAG--GTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAA
806014 CTTGTTCAAC
Statistics
Matches: 157, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
120 1 0.01
121 117 0.75
122 4 0.03
123 35 0.22
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (121 bp):
TTTTCAGAAGGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGA
ACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAGATAGATCAGCATCAACA
Found at i:806405 original size:22 final size:22
Alignment explanation
Indices: 806379--806425 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
806369 AGTTTTTTTC
806379 TTATT-TGCTTATATTATTATTA
1 TTATTATG-TTATATTATTATTA
806401 TTATTATGTTATATTATTATTA
1 TTATTATGTTATATTATTATTA
806423 TTA
1 TTA
806426 AATAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (22 bp):
TTATTATGTTATATTATTATTA
Found at i:807754 original size:25 final size:25
Alignment explanation
Indices: 807684--807754 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 25
807674 AGTCATTAAC
*
807684 TTTAAATTAT-TA-GTTTATTA-TT
1 TTTAATTTATATATGTTTATTATTT
*
807706 TTTAATTTCATTTAT-TTTAGTTATTGT
1 TTTAATTT-ATATATGTTTA-TTATT-T
807733 TTTAATTT-TATATGTTTATTAT
1 TTTAATTTATATATGTTTATTAT
807755 CAATATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
22 7 0.17
23 2 0.05
24 6 0.15
25 11 0.28
26 5 0.12
27 9 0.22
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (25 bp):
TTTAATTTATATATGTTTATTATTT
Found at i:807793 original size:23 final size:23
Alignment explanation
Indices: 807748--807793 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
807738 TTTTATATGT
* *
807748 TTATTATCAATATATTTAAAATA
1 TTATTATAAATATATATAAAATA
*
807771 TTATTATAAATATATATATAATA
1 TTATTATAAATATATATAAAATA
807794 AATAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTATTATAAATATATATAAAATA
Found at i:808034 original size:23 final size:23
Alignment explanation
Indices: 808007--808061 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
807997 TCTTTTCTGA
*
808007 TATTTCTAAATAAATAAATATAT
1 TATTTATAAATAAATAAATATAT
** *
808030 TATTTATATTTAAATTAATATAT
1 TATTTATAAATAAATAAATATAT
*
808053 T-TTCATAAA
1 TATTTATAAA
808062 ATTATAAATT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATAT
Found at i:812865 original size:40 final size:40
Alignment explanation
Indices: 812821--812900 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
812811 TACAATAAAC
* * *
812821 ATTATTATTTCTATCGGTTTTATTATTATTGGACGTTTTA
1 ATTATTATTTCTACCGATTTTATTATTATTGGACATTTTA
* *
812861 ATTATTTTTTCTACCGATTTTGTTATTATTGGACATTTTA
1 ATTATTATTTCTACCGATTTTATTATTATTGGACATTTTA
812901 CCAGAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (40 bp):
ATTATTATTTCTACCGATTTTATTATTATTGGACATTTTA
Found at i:814152 original size:21 final size:21
Alignment explanation
Indices: 814127--814286 Score: 166
Period size: 21 Copynumber: 7.8 Consensus size: 21
814117 CGCGTTGCAT
814127 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTGAAA
* ***
814148 ATCGCGTTGCGAT--TTTCCA
1 TTCGCGTTGCGATAGTTGAAA
814167 TCTCGCGTTGCGATAGTTGAAA
1 T-TCGCGTTGCGATAGTTGAAA
* * ** *
814189 ATCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTGAAA
814209 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTGAAA
814230 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTGAAA
* ** *
814251 TTCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTGAAA
814271 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
814287 CTACAGTTGT
Statistics
Matches: 111, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
19 3 0.03
20 43 0.39
21 62 0.56
22 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTTGAAA
Found at i:814175 original size:41 final size:41
Alignment explanation
Indices: 814128--814242 Score: 212
Period size: 41 Copynumber: 2.8 Consensus size: 41
814118 GCGTTGCATT
814128 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATC
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATC
*
814169 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATC
*
814210 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGAT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
814243 AGTTGAAATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATC
Found at i:814201 original size:62 final size:61
Alignment explanation
Indices: 814128--814284 Score: 163
Period size: 62 Copynumber: 2.5 Consensus size: 61
814118 GCGTTGCATT
* ***
814128 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATCTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-GTTCAAAATCGCGTTGCGATATTGAAAT-TCGCGTTGCGATAGTTGAAAA
* * ** *
814190 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATAGTTGAAAT
1 TCGCGTTGCGATGTTCAAAATCGCGTTGCGATA-TTGAAATTCGCGTTGCGATAGTTGAAAA
* * **
814252 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATA
1 TCGCGTTGCGATGTTCAAAATCGCGTTGCGATA
814285 GTCTACAGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
61 15 0.18
62 65 0.77
63 4 0.05
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (61 bp):
TCGCGTTGCGATGTTCAAAATCGCGTTGCGATATTGAAATTCGCGTTGCGATAGTTGAAAA
Found at i:814285 original size:62 final size:62
Alignment explanation
Indices: 814169--814286 Score: 227
Period size: 62 Copynumber: 1.9 Consensus size: 62
814159 ATTTTCCATC
814169 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAT
*
814231 TCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
814287 CTACAGTTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (62 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAT
Found at i:814303 original size:22 final size:22
Alignment explanation
Indices: 814275--814327 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
814265 TTCCATTTCG
814275 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
814297 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
814319 CGTTGCGAT
1 CGTTGCGAT
814328 TTTCCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:814447 original size:6 final size:6
Alignment explanation
Indices: 814438--814462 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
814428 CATTACCATT
814438 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
814463 GACGGGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:817189 original size:6 final size:6
Alignment explanation
Indices: 817180--817206 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
817170 AGCTGGTGAT
817180 GATCAC GATCAC GATCAC GATCAC GAT
1 GATCAC GATCAC GATCAC GATCAC GAT
817207 GGTGATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (6 bp):
GATCAC
Found at i:823882 original size:12 final size:12
Alignment explanation
Indices: 823865--823950 Score: 53
Period size: 12 Copynumber: 7.5 Consensus size: 12
823855 AGGCATGTCA
823865 CACATTCAAAAT
1 CACATTCAAAAT
*
823877 CACATT-ATAAGT
1 CACATTCA-AAAT
*
823889 -A-A-TCAAAGT
1 CACATTCAAAAT
823898 ACACATTCAAAAT
1 -CACATTCAAAAT
*
823911 CACATT-ATAAGT
1 CACATTCA-AAAT
823923 -A-A-TCAAAAT
1 CACATTCAAAAT
823932 ACACATTCAAAAT
1 -CACATTCAAAAT
823945 CACATT
1 CACATT
823951 ATAAGTAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
9 9 0.16
10 4 0.07
11 6 0.10
12 26 0.45
13 13 0.22
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (12 bp):
CACATTCAAAAT
Found at i:823907 original size:34 final size:34
Alignment explanation
Indices: 823864--823966 Score: 197
Period size: 34 Copynumber: 3.0 Consensus size: 34
823854 AAGGCATGTC
823864 ACACATTCAAAATCACATTATAAGTAATCAAAGT
1 ACACATTCAAAATCACATTATAAGTAATCAAAGT
*
823898 ACACATTCAAAATCACATTATAAGTAATCAAAAT
1 ACACATTCAAAATCACATTATAAGTAATCAAAGT
823932 ACACATTCAAAATCACATTATAAGTAATCAAAGT
1 ACACATTCAAAATCACATTATAAGTAATCAAAGT
823966 A
1 A
823967 GGTTTGCGTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.26
Consensus pattern (34 bp):
ACACATTCAAAATCACATTATAAGTAATCAAAGT
Found at i:828158 original size:15 final size:15
Alignment explanation
Indices: 828097--828166 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 15
828087 TTTTTATTAG
* *
828097 TATGTGAACATGTTA
1 TATGTGAATATGTTC
* *
828112 TATGTAAATGTGTTC
1 TATGTGAATATGTTC
* * *
828127 TACGTGAAAATGCTC
1 TATGTGAATATGTTC
*
828142 TATGTGAATGTGTTC
1 TATGTGAATATGTTC
828157 TATGTGAATA
1 TATGTGAATA
828167 AAAGATACTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (15 bp):
TATGTGAATATGTTC
Found at i:828321 original size:24 final size:24
Alignment explanation
Indices: 828278--828347 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
828268 TTCTACGCGG
*
828278 TCCTTTGAGAT-AATTTTATGTGA
1 TCCTTTGAGATAAATTCTATGTGA
* * *
828301 TCCTTTGGGATAAATTCTATGCGG
1 TCCTTTGAGATAAATTCTATGTGA
* *
828325 TCATTTGAGACAAA-TCTATGTGA
1 TCCTTTGAGATAAATTCTATGTGA
828348 CACTTCGGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (24 bp):
TCCTTTGAGATAAATTCTATGTGA
Found at i:830721 original size:57 final size:58
Alignment explanation
Indices: 830658--830775 Score: 193
Period size: 58 Copynumber: 2.1 Consensus size: 58
830648 TTTTCTTTTT
*
830658 TGTTGGCTCATGG-TTTATAGGTGCTGCATTTTTACTTTTTCTTGTTTGTAAATAGTA
1 TGTTGGCTCATGGTTTTATAGATGCTGCATTTTTACTTTTTCTTGTTTGTAAATAGTA
* * *
830715 TGTTGGCTTATGGTTTTATAGATGCTGCATTTTTATTTTTTCTTGTTTGTAAATGGTA
1 TGTTGGCTCATGGTTTTATAGATGCTGCATTTTTACTTTTTCTTGTTTGTAAATAGTA
830773 TGT
1 TGT
830776 ATAGTGAAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
57 12 0.21
58 44 0.79
ACGTcount: A:0.17, C:0.08, G:0.21, T:0.53
Consensus pattern (58 bp):
TGTTGGCTCATGGTTTTATAGATGCTGCATTTTTACTTTTTCTTGTTTGTAAATAGTA
Found at i:835792 original size:20 final size:20
Alignment explanation
Indices: 835767--835807 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
835757 AAACGGCCAT
*
835767 GAGCCTTCGGTGGATGTGTA
1 GAGCCTTAGGTGGATGTGTA
835787 GAGCCTTAGGTGGATGTGTA
1 GAGCCTTAGGTGGATGTGTA
835807 G
1 G
835808 TGCCCTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.12, G:0.41, T:0.29
Consensus pattern (20 bp):
GAGCCTTAGGTGGATGTGTA
Found at i:840936 original size:13 final size:14
Alignment explanation
Indices: 840914--840942 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
840904 CTCTGCCAAA
840914 TTTTAGTCTTTCTT
1 TTTTAGTCTTTCTT
840928 TTTTA-TCTTTCTT
1 TTTTAGTCTTTCTT
840941 TT
1 TT
840943 ATGAGTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.07, C:0.14, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTAGTCTTTCTT
Found at i:849879 original size:2 final size:2
Alignment explanation
Indices: 849872--849921 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
849862 TATCATTCAA
849872 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
849914 AT AT AT AT
1 AT AT AT AT
849922 TCAAACTCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:853709 original size:29 final size:27
Alignment explanation
Indices: 853677--853730 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
853667 TTTTGACTCA
853677 TATAAATGATAATATTCAAATATATTTTT
1 TATAAATGATAA-ATTCAAAT-TATTTTT
* *
853706 TATAAATTATAAATTTAAATTATTT
1 TATAAATGATAAATTCAAATTATTT
853731 CGCTTCCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 7 0.30
29 11 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TATAAATGATAAATTCAAATTATTTTT
Found at i:854281 original size:16 final size:17
Alignment explanation
Indices: 854251--854282 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
854241 TTAATCCCTT
854251 AAACTAAATAAAATTAA
1 AAACTAAATAAAATTAA
854268 AAACTAAA-AAAATTA
1 AAACTAAATAAAATTA
854283 TCTTATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
AAACTAAATAAAATTAA
Found at i:856425 original size:21 final size:21
Alignment explanation
Indices: 856380--856427 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
856370 TTGTAAATAT
*
856380 TAAATTTAAAAAATATATTTA
1 TAAATTTAAAAAATATATTCA
*
856401 -AAATTTTAAAAA-ATATTCA
1 TAAATTTAAAAAATATATTCA
856420 CTAAATTT
1 -TAAATTT
856428 CTTAAGGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 11 0.48
21 6 0.26
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTAAAAAATATATTCA
Found at i:857439 original size:21 final size:20
Alignment explanation
Indices: 857412--857510 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
857402 AATCAGTTTC
857412 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
857433 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
857454 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
857474 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
857495 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
857511 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:857539 original size:20 final size:20
Alignment explanation
Indices: 857477--857766 Score: 284
Period size: 20 Copynumber: 14.5 Consensus size: 20
857467 CGATTTTCCA
* ** *
857477 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
857497 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
857517 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
857537 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
857557 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
857577 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
857597 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
857617 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
857637 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
857657 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
*
857677 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
857697 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
857717 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
857737 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
857757 AAATCACAAC
1 AAATCGCAAC
857767 ACTGAAATTT
Statistics
Matches: 230, Mismatches: 32, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 226 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:857563 original size:60 final size:60
Alignment explanation
Indices: 857497--857766 Score: 321
Period size: 60 Copynumber: 4.5 Consensus size: 60
857487 GCGAATATGA
* * * * *
857497 AAATCGCAACGCGAA-CACATAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCGT
* * * * * * * *
857557 ATATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTATATCGCAACGCGT-ATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* *
857617 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
857677 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
857737 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
857767 ACTGAAATTT
Statistics
Matches: 188, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
59 1 0.01
60 185 0.98
61 1 0.01
62 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:858488 original size:24 final size:24
Alignment explanation
Indices: 858449--858495 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
858439 AAATTTGGTC
858449 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
858473 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
858496 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:860555 original size:7 final size:7
Alignment explanation
Indices: 860543--860585 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
860533 GTCAAAGAAA
860543 GTCAACG
1 GTCAACG
860550 GTCAACG
1 GTCAACG
860557 GTC-ACG
1 GTCAACG
860563 GTCAACG
1 GTCAACG
860570 GTC-ACG
1 GTCAACG
860576 GTCAACG
1 GTCAACG
860583 GTC
1 GTC
860586 GGGTCGGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:860565 original size:13 final size:13
Alignment explanation
Indices: 860547--860585 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
860537 AAGAAAGTCA
860547 ACGGTCAACGGTC
1 ACGGTCAACGGTC
860560 ACGGTCAACGGTC
1 ACGGTCAACGGTC
860573 ACGGTCAACGGTC
1 ACGGTCAACGGTC
860586 GGGTCGGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:860568 original size:20 final size:20
Alignment explanation
Indices: 860543--860585 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
860533 GTCAAAGAAA
860543 GTCAACGGTCAACGGTCACG
1 GTCAACGGTCAACGGTCACG
860563 GTCAACGGTC-ACGGTCAACG
1 GTCAACGGTCAACGGTC-ACG
860583 GTC
1 GTC
860586 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCAACGGTCACG
Found at i:860597 original size:17 final size:17
Alignment explanation
Indices: 860575--860632 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
860565 CAACGGTCAC
*
860575 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
860592 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
860609 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
860626 GGTCAAC
1 GGTCAAC
860633 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:860650 original size:19 final size:19
Alignment explanation
Indices: 860626--860677 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
860616 AGTCGGGTCG
*
860626 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
860645 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
*
860664 GATCAAACCGGTTC
1 GGTCAAACCGGTTC
860678 GAACCGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:860656 original size:9 final size:9
Alignment explanation
Indices: 860626--860705 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
860616 AGTCGGGTCG
*
860626 GGTCAACCC
1 GGTCAAACC
*
860635 GGTTCAGACC
1 GG-TCAAACC
860645 GGTCAAACC
1 GGTCAAACC
*
860654 GGTTCAGACC
1 GG-TCAAACC
*
860664 GATCAAACC
1 GGTCAAACC
*
860673 GGTTCGAACC
1 GG-TCAAACC
* *
860683 GGTTTAAAACT
1 GG--TCAAACC
860694 GGTCAAACC
1 GGTCAAACC
860703 GGT
1 GGT
860706 TTTCCAGCAG
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
9 25 0.46
10 22 0.41
11 7 0.13
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.19
Consensus pattern (9 bp):
GGTCAAACC
Found at i:860664 original size:10 final size:10
Alignment explanation
Indices: 860633--860686 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
860623 TCGGGTCAAC
860633 CCGGTTCAGA
1 CCGGTTCAGA
*
860643 CCGG-TCAAA
1 CCGGTTCAGA
860652 CCGGTTCAGA
1 CCGGTTCAGA
* *
860662 CC-GATCAAA
1 CCGGTTCAGA
860671 CCGGTTC-GAA
1 CCGGTTCAG-A
860681 CCGGTT
1 CCGGTT
860687 TAAAACTGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 15 0.43
10 20 0.57
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (10 bp):
CCGGTTCAGA
Found at i:867893 original size:7 final size:7
Alignment explanation
Indices: 867881--867923 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
867871 GTCAAAGAAA
867881 GTCAACG
1 GTCAACG
867888 GTCAACG
1 GTCAACG
867895 GTC-ACG
1 GTCAACG
867901 GTCAACG
1 GTCAACG
867908 GTC-ACG
1 GTCAACG
867914 GTCAACG
1 GTCAACG
867921 GTC
1 GTC
867924 GGGTCGGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:867903 original size:13 final size:13
Alignment explanation
Indices: 867885--867923 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
867875 AAGAAAGTCA
867885 ACGGTCAACGGTC
1 ACGGTCAACGGTC
867898 ACGGTCAACGGTC
1 ACGGTCAACGGTC
867911 ACGGTCAACGGTC
1 ACGGTCAACGGTC
867924 GGGTCGGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:867906 original size:20 final size:20
Alignment explanation
Indices: 867881--867923 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
867871 GTCAAAGAAA
867881 GTCAACGGTCAACGGTCACG
1 GTCAACGGTCAACGGTCACG
867901 GTCAACGGTC-ACGGTCAACG
1 GTCAACGGTCAACGGTC-ACG
867921 GTC
1 GTC
867924 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCAACGGTCACG
Found at i:867935 original size:17 final size:17
Alignment explanation
Indices: 867913--867970 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
867903 CAACGGTCAC
*
867913 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
867930 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
867947 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
867964 GGTCAAC
1 GGTCAAC
867971 TCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:867988 original size:19 final size:18
Alignment explanation
Indices: 867964--868015 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 18
867954 AGTCGGGTCG
867964 GGTCAACTCGGTTCAGACC
1 GGTCAAC-CGGTTCAGACC
867983 GGTCAAACCGGTTCAGACC
1 GGTC-AACCGGTTCAGACC
*
868002 GATCAAACCGGTTC
1 GGTC-AACCGGTTC
868016 GAACCGGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 28 0.90
20 3 0.10
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (18 bp):
GGTCAACCGGTTCAGACC
Found at i:868021 original size:19 final size:19
Alignment explanation
Indices: 867972--868015 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
867962 CGGGTCAACT
*
867972 CGGTTCAGACCGGTCAAAC
1 CGGTTCAGACCGATCAAAC
867991 CGGTTCAGACCGATCAAAC
1 CGGTTCAGACCGATCAAAC
868010 CGGTTC
1 CGGTTC
868016 GAACCGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (19 bp):
CGGTTCAGACCGATCAAAC
Found at i:870774 original size:19 final size:19
Alignment explanation
Indices: 870705--870879 Score: 235
Period size: 19 Copynumber: 9.7 Consensus size: 19
870695 GCAACGAGAG
870705 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
870724 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
870738 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
870758 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
870777 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
870796 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
870815 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
870834 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
870848 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
870867 AATCGCATTGCGA
1 AATCGCAATGCGA
870880 TTCTCCCGTT
Statistics
Matches: 139, Mismatches: 6, Indels: 22
0.83 0.04 0.13
Matches are distributed among these distances:
14 22 0.16
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 93 0.67
20 16 0.12
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Done.