Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002276.1 Hibiscus syriacus cultivar Beakdansim tig00004630_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: 831455
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:737773 original size:48 final size:48
Alignment explanation
Indices: 737668--737776 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
737658 AAATATTTTA
* *
737668 TCTGATTTCCGA-CTTGAATTCTGTTCTGATAAATGACCTGAATTCTGT
1 TCTGATTTCTGATC-TGGATTCTGTTCTGATAAATGACCTGAATTCTGT
** **
737716 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGGATTCTGTTCTGATAAATGACCTGAATTCTGT
*
737764 TTTGATTTCTGAT
1 TCTGATTTCTGAT
737777 ATCTTCGTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 52 0.98
49 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGGATTCTGTTCTGATAAATGACCTGAATTCTGT
Found at i:747893 original size:31 final size:32
Alignment explanation
Indices: 747850--747920 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
747840 AAGTTCGTCC
* *
747850 CCTAACATAAAATCA-CGTCTGTCCCTACAGT
1 CCTATCATAAAATCACCGTATGTCCCTACAGT
*
747881 CCTATCATAAAATCATCCGTATGTCCCTACGGT
1 CCTATCATAAAATCA-CCGTATGTCCCTACAGT
747914 CCTATCA
1 CCTATCA
747921 ACCATAGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 14 0.40
33 21 0.60
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.28
Consensus pattern (32 bp):
CCTATCATAAAATCACCGTATGTCCCTACAGT
Found at i:753440 original size:24 final size:24
Alignment explanation
Indices: 753413--753492 Score: 124
Period size: 24 Copynumber: 3.3 Consensus size: 24
753403 CTATTCTTTC
* * *
753413 GCTTCAATTGAGCTAAAACTTTAG
1 GCTTCAATTGAGTTCAAATTTTAG
753437 GCTTCAATTGAGTTCAAATTTTAG
1 GCTTCAATTGAGTTCAAATTTTAG
*
753461 ACTTCAATTGAGTTCAAATTTTAG
1 GCTTCAATTGAGTTCAAATTTTAG
753485 GCTTCAAT
1 GCTTCAAT
753493 CAAACTTCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (24 bp):
GCTTCAATTGAGTTCAAATTTTAG
Found at i:753769 original size:20 final size:20
Alignment explanation
Indices: 753732--753779 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
753722 TGGCGGTTCA
**
753732 AACCGGTTTTGTCAGTTTTC
1 AACCGGTTTTCCCAGTTTTC
*
753752 AACCGGTTTTCCCGGTTTTC
1 AACCGGTTTTCCCAGTTTTC
*
753772 AGCCGGTT
1 AACCGGTT
753780 CTTTACCGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (20 bp):
AACCGGTTTTCCCAGTTTTC
Found at i:755354 original size:20 final size:20
Alignment explanation
Indices: 755317--755359 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
755307 AAAATAAGAG
* *
755317 AAAAATAAAAATGAAATATA
1 AAAAATAAAAAGGAAATACA
755337 AAAAAT-AAAAGGACAATACA
1 AAAAATAAAAAGGA-AATACA
755357 AAA
1 AAA
755360 TACCGGCTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (20 bp):
AAAAATAAAAAGGAAATACA
Found at i:757343 original size:20 final size:20
Alignment explanation
Indices: 757314--757374 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
757304 AGTCAACGGG
*
757314 TCAAACCGGTTTGGGTTGAC
1 TCAAATCGGTTTGGGTTGAC
*
757334 TCAAATCGGTTCGGGTTGAC
1 TCAAATCGGTTTGGGTTGAC
* * *
757354 TCGATTCGGTTTGAGTTGAC
1 TCAAATCGGTTTGGGTTGAC
757374 T
1 T
757375 AGGACCGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (20 bp):
TCAAATCGGTTTGGGTTGAC
Found at i:758724 original size:2 final size:2
Alignment explanation
Indices: 758717--758751 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
758707 TTCATGGTAT
*
758717 TC TC TC TC TC TC TC TC TC TC TC TG TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
758752 GATGTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.03, T:0.51
Consensus pattern (2 bp):
TC
Found at i:759139 original size:20 final size:20
Alignment explanation
Indices: 759045--759413 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
759035 GATTTTCCAT
* ** *
759045 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
759065 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
759085 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
759105 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
759125 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
759145 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
759165 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
759185 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
759205 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
759225 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
759245 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
759265 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
759285 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
759305 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
759325 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
759345 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
759365 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
759385 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
759405 AATCACAAC
1 AATCGCAAC
759414 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:760124 original size:24 final size:24
Alignment explanation
Indices: 760085--760131 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
760075 AAATTTGGTC
760085 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
760109 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
760132 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:762642 original size:19 final size:19
Alignment explanation
Indices: 762620--762921 Score: 320
Period size: 19 Copynumber: 17.4 Consensus size: 19
762610 CGGAAAATAC
*
762620 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
762639 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
762653 AATCGCAACGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
762671 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
762685 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
762704 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
762723 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
762737 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
762755 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
762774 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
762788 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
762807 AATCGCAATACGAAATG-A
1 AATCGCAATGCGAAATGAA
762825 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
762844 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
762863 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
762877 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
762896 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
762914 AATCGCAA
1 AATCGCAA
762922 CGAGATAATC
Statistics
Matches: 242, Mismatches: 13, Indels: 57
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.00
14 44 0.18
15 3 0.01
16 18 0.07
17 14 0.06
18 56 0.23
19 106 0.44
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:762745 original size:52 final size:52
Alignment explanation
Indices: 762648--762921 Score: 323
Period size: 52 Copynumber: 5.2 Consensus size: 52
762638 AAATCCCAAC
* *
762648 ATGAAAATCGCAACGCGAAATGAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
762699 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATG-AAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
762751 ATG-AAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATG-AAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
762802 ATTAAAATCGCAATACGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
762858 ATGAAAATCGCAA--CGAAA-G-AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
762910 ATG-AAATCGCAA
1 ATGAAAATCGCAA
762922 CGAGATAATC
Statistics
Matches: 206, Mismatches: 9, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
50 2 0.01
51 81 0.39
52 87 0.42
53 3 0.01
54 5 0.02
55 1 0.00
56 27 0.13
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:762759 original size:70 final size:70
Alignment explanation
Indices: 762620--762921 Score: 337
Period size: 70 Copynumber: 4.4 Consensus size: 70
762610 CGGAAAATAC
* *
762620 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAACGCGAAATGAAATCGCAA-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G-AATCGCAAT
*
762679 -CGAGA-G-
62 GCGAAATGA
*
762685 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
762750 AATGA
66 AATGA
* * *
762755 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
762815 TACGAAATGA
61 TGCGAAATGA
762825 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
762890 AATGAA
66 AATG-A
762896 AATCGCAATGCGAAATG-AAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
762922 CGAGATAATC
Statistics
Matches: 204, Mismatches: 13, Indels: 35
0.81 0.05 0.14
Matches are distributed among these distances:
65 33 0.16
66 8 0.04
67 4 0.02
68 14 0.07
69 3 0.01
70 105 0.51
71 20 0.10
72 7 0.03
73 2 0.01
75 8 0.04
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGA
Found at i:762863 original size:89 final size:89
Alignment explanation
Indices: 762620--762943 Score: 341
Period size: 84 Copynumber: 3.8 Consensus size: 89
762610 CGGAAAATAC
* * *
762620 AATCGCAACGCGAAATGAAAATC-CCA-AC---ATGAAAATCGCAACGCGAAATG-AAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATACGAAATG-AAATCGCAATGCGAAATGAAAATCGCAA
*
762679 --CG--A-GAGAATCGCAATGCGAAATG
65 TGCGAAATGAAAATCGCAA--CGAAA-G
*
762702 AAAATCGCAATGCGAAATGAAAATCGC-A-ACGAGA-G-AATCGCAATGCGAAATG-AAATCGCA
1 --AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAATCGCAATGCGAAATGAAAATCGCA
* *
762762 ATGCGAAATGAAAATCG-AACCGACAT
64 ATGCGAAATGAAAATCGCAA-CGAAAG
*
762788 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAATCGCAATGCGAAATGAAAATCGCAAT
1 AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAATCGCAATGCGAAATGAAAATCGCAAT
762853 GCGAAATGAAAATCGCAACGAAAG
66 GCGAAATGAAAATCGCAACGAAAG
* *
762877 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAA--CG--A-GATAATCGCAAT
1 AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAATCGCAATGCGAAATGAAAATCGCAAT
762937 GCGAAAT
66 GCGAAAT
762944 TATAAACATT
Statistics
Matches: 212, Mismatches: 13, Indels: 30
0.83 0.05 0.12
Matches are distributed among these distances:
84 92 0.43
85 3 0.01
86 8 0.04
87 8 0.04
88 20 0.09
89 79 0.37
90 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (89 bp):
AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAATCGCAATGCGAAATGAAAATCGCAAT
GCGAAATGAAAATCGCAACGAAAG
Found at i:762867 original size:140 final size:136
Alignment explanation
Indices: 762620--762945 Score: 473
Period size: 140 Copynumber: 2.4 Consensus size: 136
762610 CGGAAAATAC
* * * * * *
762620 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAACGCGAAA-TGAAATCGCAACGAG
1 AATCGCAATGCGAAATGAAAAT-CGAAC-CGAATAATCGCAATGCGAAATTAAAATCGCAACGAA
*
762683 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
64 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGC
762748 GAAATG-A
129 GAAATGAA
762755 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
1 AATCGCAATGCGAAATGAAAATCGAACCGA-ATAATCGCAATGCGAAATTAAAATCGC-A-ACGA
762820 AATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAA
63 AA-G-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAA
762885 TGCGAAATGAA
126 TGCGAAATGAA
762896 AATCGCAATGCGAAATG-AAATCGCAA-CGAGATAATCGCAATGCGAAATTA
1 AATCGCAATGCGAAATGAAAATCG-AACCGA-ATAATCGCAATGCGAAATTA
762946 TAAACATTGC
Statistics
Matches: 174, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
133 2 0.01
134 5 0.03
135 35 0.20
136 8 0.05
137 1 0.01
138 5 0.03
139 1 0.01
140 97 0.56
141 20 0.11
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (136 bp):
AATCGCAATGCGAAATGAAAATCGAACCGAATAATCGCAATGCGAAATTAAAATCGCAACGAAAG
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:763057 original size:19 final size:19
Alignment explanation
Indices: 762950--763049 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
762940 AAATTATAAA
762950 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
762970 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
762989 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
*
763005 --TTACGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
763022 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
763041 CATTGCGAT
1 CATTGCGAT
763050 AGTCATTTTG
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
14 5 0.07
16 7 0.10
17 7 0.10
19 35 0.49
20 17 0.24
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:763170 original size:13 final size:14
Alignment explanation
Indices: 763154--763189 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
763144 CATCAATTAC
763154 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
763167 ACAAATCATCTTTT
1 ACAAATCAACTTTT
763181 ACAAATCAA
1 ACAAATCAA
763190 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:765102 original size:20 final size:19
Alignment explanation
Indices: 765077--765141 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
765067 TAGTTTACTT
*
765077 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
765097 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
765115 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
765134 TCGCAACG
1 TCGCAACG
765142 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:765117 original size:18 final size:19
Alignment explanation
Indices: 765077--765174 Score: 82
Period size: 19 Copynumber: 5.4 Consensus size: 19
765067 TAGTTTACTT
* *
765077 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TCAAAA
*
765097 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATCAAAA
*
765115 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
765134 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAATCAAAA
* *
765148 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
765167 TCGCAACG
1 TCGCAACG
765175 AAGAATCGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 2 0.03
17 2 0.03
18 17 0.27
19 19 0.31
20 12 0.19
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:765185 original size:32 final size:33
Alignment explanation
Indices: 765113--765203 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
765103 CGCGAAACCA
765113 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
*
765146 AATCGCAATGCGAAATGAAAATCGCAACGA-AG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
765178 AATCGCAACGCGAAATGAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
765204 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 27 0.48
33 29 0.52
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:765209 original size:19 final size:19
Alignment explanation
Indices: 765093--765209 Score: 87
Period size: 19 Copynumber: 6.8 Consensus size: 19
765083 CACGAAACTT
* *
765093 AAAATCGCAACGCGAAA-C
1 AAAATCGCAATGCGAAATG
* *
765111 CAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
*
765130 AAAATCGCAA--CGACA-G
1 AAAATCGCAATGCGAAATG
765146 --AATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
765163 AAAATCGCAA--CG-AA-G
1 AAAATCGCAATGCGAAATG
*
765178 --AATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
*
765195 AAAATCGCATTGCGA
1 AAAATCGCAATGCGA
765210 TTTTCATTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
13 8 0.10
14 8 0.10
15 3 0.04
16 9 0.11
17 8 0.10
18 16 0.20
19 28 0.35
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:765246 original size:33 final size:33
Alignment explanation
Indices: 765204--765296 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
765194 GAAAATCGCA
765204 TTGCGATTTTCATTTCGCGTTGCGA-TCTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTC-TGTCG
**
765237 TTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
765270 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
765297 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:765325 original size:20 final size:19
Alignment explanation
Indices: 765199--765333 Score: 105
Period size: 19 Copynumber: 7.6 Consensus size: 19
765189 GAAATGAAAA
*
765199 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
765218 TCGCGTTGCGATCTT-G--
1 TCGCGTTGCGATTTTAGTT
*
765234 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
765251 TCGCGTTGCGATTCT-G--
1 TCGCGTTGCGATTTTAGTT
765267 T--CGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
765284 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
765303 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
765323 TCGTGTTGCGA
1 TCGCGTTGCGA
765334 AAGTAAACTA
Statistics
Matches: 94, Mismatches: 8, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
14 22 0.23
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 53 0.56
20 13 0.14
ACGTcount: A:0.10, C:0.19, G:0.27, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:765512 original size:92 final size:93
Alignment explanation
Indices: 765377--765844 Score: 892
Period size: 92 Copynumber: 5.1 Consensus size: 93
765367 TTGAATGGAT
765377 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
765442 GTTTAGCA-AATTGGCAGCAACCGAACA
66 GTTTAGCAGAATTGGCAGCAACCGAACA
765469 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
765534 GTTTAGCAGAATTGGCAGCAACCGAACA
66 GTTTAGCAGAATTGGCAGCAACCGAACA
765562 AATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
765626 GTTTAGCAGAATTGGCAGCAACCGAACA
66 GTTTAGCAGAATTGGCAGCAACCGAACA
*
765654 AATTTACTTTCAACCAAAAGACAAAACAACGAC-AATA-TATTTCACA-TGTTAAAGAATACACA
1 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
765716 GTTTAGCAGAATTGGCAGCAACCGAACA
66 GTTTAGCAGAATTGGCAGCAACCGAACA
765744 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
765809 GTTTAGCAGAATTGGCAGCAACCGAACA
66 GTTTAGCAGAATTGGCAGCAACCGAACA
765837 AATTTACT
1 AATTTACT
765845 AAGCAATCTA
Statistics
Matches: 369, Mismatches: 2, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
90 76 0.21
91 13 0.04
92 178 0.48
93 102 0.28
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACA
Found at i:767551 original size:14 final size:14
Alignment explanation
Indices: 767532--767621 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
767522 TTGAAATGAA
767532 AATCGCAACGAGAG
1 AATCGCAACGAGAG
767546 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
767563 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
767579 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
767598 AATCGCAACGAGAG
1 AATCGCAACGAGAG
767612 AATCGCAACG
1 AATCGCAACG
767622 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:767569 original size:33 final size:33
Alignment explanation
Indices: 767524--767638 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
767514 TCTTTTGGTT
767524 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
767557 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
767590 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
767623 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
767639 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:767570 original size:19 final size:18
Alignment explanation
Indices: 767531--767643 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
767521 GTTGAAATGA
767531 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
767546 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
767563 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
767579 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
767596 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
767612 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
767629 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
767644 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:767674 original size:14 final size:14
Alignment explanation
Indices: 767655--767709 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
767645 TTTGGTTTCG
767655 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
767669 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
767688 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
767702 CGTTGCGA
1 CGTTGCGA
767710 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:767872 original size:33 final size:33
Alignment explanation
Indices: 767830--767900 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
767820 AATACTAACT
*
767830 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
767863 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
767896 TGAAA
1 TGAAA
767901 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:768132 original size:22 final size:22
Alignment explanation
Indices: 768080--768134 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
768070 TGGTTGTGAG
**
768080 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
768102 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
768124 GGATTTCTTCG
1 GGATTTCTTCG
768135 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:768305 original size:20 final size:20
Alignment explanation
Indices: 768280--768473 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
768270 CTTTAAATAT
768280 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
768300 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
768322 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
768341 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
768361 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
768381 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
768401 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
768421 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
768441 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
768461 CGCGTTGCGATTT
1 CGCGTTGCGATTT
768474 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:768467 original size:60 final size:60
Alignment explanation
Indices: 768280--768473 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
768270 CTTTAAATAT
**
768280 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
768341 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
768401 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
768461 CGCGTTGCGATTT
1 CGCGTTGCGATTT
768474 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:768490 original size:21 final size:20
Alignment explanation
Indices: 768466--768542 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
768456 ATATTCGCGT
768466 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
768487 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
768507 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
768529 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
768543 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:768553 original size:20 final size:20
Alignment explanation
Indices: 768528--768579 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
768518 AAGAATCGCG
*
768528 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
768548 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
768568 TTGCGATTCTGG
1 TTGCGATTCTGG
768580 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:769103 original size:2 final size:2
Alignment explanation
Indices: 769096--769142 Score: 62
Period size: 2 Copynumber: 24.0 Consensus size: 2
769086 CATAATCTTA
*
769096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAC AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
769138 -T AT AT
1 AT AT AT
769143 TACATAACCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
1 2 0.05
2 37 0.93
3 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:769959 original size:3 final size:3
Alignment explanation
Indices: 769946--769976 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
769936 AAAATACATG
*
769946 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
769977 ACCATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:770052 original size:3 final size:3
Alignment explanation
Indices: 770044--770149 Score: 106
Period size: 3 Copynumber: 34.3 Consensus size: 3
770034 AAAATACATG
770044 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* ** * * * *
770092 TCCT CCT T-T GGT ATCAC CCT TCAA ACT TCT TCT TCT TCT TCT TCT TCT
1 T-CT TCT TCT TCT -TC-T TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT
770140 TCT TCT TCT T
1 TCT TCT TCT T
770150 ACCATTATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
2 1 0.01
3 80 0.94
4 4 0.05
ACGTcount: A:0.05, C:0.34, G:0.02, T:0.59
Consensus pattern (3 bp):
TCT
Found at i:770259 original size:3 final size:3
Alignment explanation
Indices: 770251--771080 Score: 1263
Period size: 3 Copynumber: 280.3 Consensus size: 3
770241 ACCCTTCAAA
770251 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTTT CTT CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT
* * ** ** *
770296 CTT CTT CTT CTT CTT CTT -TT TTT GGTAT CACC CTT CAA ATT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT -CT-T C-TT CTT CTT CTT CTT CTT
*
770343 TTT CTT CTT CTT CTT CTT -TT CTT CTT CTCT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT CTT
770388 -TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770435 CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTTT CTT CTT CTT CTT
1 C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT
770482 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770530 -TT CTT CTT CTT CTT -TT -TT CTT CTT CTT CTT CTT -TT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
770574 CTT CTT CTT C-T CTT CTT TTT CTT CTT CTT CTT CTT -TT CTT CTTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT
770618 CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770663 CTT CTT CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770709 CTT CTT CTT CTT CTT CTT CTT CTT -TT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770756 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT CTT CTT C-T
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770802 CTT CTT CTT CTT CTT CTT -TT CTT CTT C-T CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770848 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770896 CTT CTT CTT CTT CTT C-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
770943 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
770991 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CCTT -TG GTAT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT CT-T
** ** *
771037 CACC CTT CAA ATT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
771081 CTTTGGTATC
Statistics
Matches: 766, Mismatches: 29, Indels: 64
0.89 0.03 0.07
Matches are distributed among these distances:
2 43 0.06
3 701 0.92
4 21 0.03
5 1 0.00
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:770313 original size:173 final size:173
Alignment explanation
Indices: 769946--770272 Score: 537
Period size: 173 Copynumber: 1.9 Consensus size: 173
769936 AAAATACATG
*
769946 TCTTTTTCTTCTTCTTCTTCTTCTTCTTCTTACCATTATTTCTTCCATTAACCTATTAACACAAG
1 TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTACCATTATTTCTTCCATTAACCTATTAACACAAG
** **
770011 TTTAAGTTGATAATCGAAAAATAAAAATACATGTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTC
66 TTTAAGTTGATAATCGAAAAATAAAAATACATGTCTTCTTCTTCTTCTTCTTCCCCTTCAACTTC
*
770076 TTCTTCTTCTTCTTCTTCCTCCTTTGGTATCACCCTTCAAACT
131 TTCTTCTTCTTCTTCTTCCTCCTTTGCTATCACCCTTCAAACT
770119 TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTACCATTATTTCTTCCATTAACCTATTAACACAAG
1 TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTACCATTATTTCTTCCATTAACCTATTAACACAAG
*
770184 TTTAAGTTGATAATCGAAAAATAAAAATACATGTCTTCTTCTTCTTCCTTTGGTATCACCCTTCA
66 TTTAAGTTGATAATCGAAAAATAAAAATACATGTCTTCTTCTTCTT-C-TT-CT-TC-CCCTTC-
770249 AACTTCTTCTTCTTCTTCTTCTTC
125 AACTTCTTCTTCTTCTTCTTCTTC
770273 TTCTTCTTCT
Statistics
Matches: 142, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
173 110 0.77
174 1 0.01
175 2 0.01
176 1 0.01
177 2 0.01
178 4 0.03
179 22 0.15
ACGTcount: A:0.21, C:0.26, G:0.04, T:0.49
Consensus pattern (173 bp):
TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTACCATTATTTCTTCCATTAACCTATTAACACAAG
TTTAAGTTGATAATCGAAAAATAAAAATACATGTCTTCTTCTTCTTCTTCTTCCCCTTCAACTTC
TTCTTCTTCTTCTTCTTCCTCCTTTGCTATCACCCTTCAAACT
Found at i:780253 original size:28 final size:28
Alignment explanation
Indices: 780210--780266 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
780200 ATCTTTGTTT
*
780210 ACATTATGTGGTCGAG-CTAGTACTTGAA
1 ACATTATGTGGACGAGTC-AGTACTTGAA
* *
780238 ACATTATGTTGACGAGTCAGTGCTTGAA
1 ACATTATGTGGACGAGTCAGTACTTGAA
780266 A
1 A
780267 GCAACGACGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
ACATTATGTGGACGAGTCAGTACTTGAA
Found at i:784467 original size:27 final size:26
Alignment explanation
Indices: 784428--784484 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
784418 TGTTATATAA
*
784428 AAAATGTAAGAAATAAATAAATAAAATT
1 AAAATGTAAGAAA-AAACAAATAAAA-T
*
784456 AAAATG-AAGAAAAAACAAATTAAAT
1 AAAATGTAAGAAAAAACAAATAAAAT
784481 AAAA
1 AAAA
784485 GATAAGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 5 0.19
26 10 0.37
27 6 0.22
28 6 0.22
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (26 bp):
AAAATGTAAGAAAAAACAAATAAAAT
Found at i:784528 original size:4 final size:4
Alignment explanation
Indices: 784521--784647 Score: 54
Period size: 4 Copynumber: 32.2 Consensus size: 4
784511 ATAGTAAGTA
* * * * * *
784521 AAAT AAAT --AT AAAA AAAT AAAA AAAT AAAG AAAA AGAAA AAAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
*
784568 AAAT AAAAC AAAT AAAT AAA- ATAAT -AAT AAA- AAAGT -AA- AAAT AATAT
1 AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAA-T AAAT AAAT AA-AT
* * *
784615 ATAT ATAT ATAAT AAAT AAAA AAAT AAA- AAAT A
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT A
784648 GTAAATATAT
Statistics
Matches: 94, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
2 2 0.02
3 12 0.13
4 67 0.71
5 13 0.14
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:784542 original size:8 final size:8
Alignment explanation
Indices: 784529--784645 Score: 78
Period size: 8 Copynumber: 14.0 Consensus size: 8
784519 TAAAATAAAT
784529 ATAAAAAA
1 ATAAAAAA
784537 ATAAAAAA
1 ATAAAAAA
784545 ATAAAGAAA
1 ATAAA-AAA
784554 A-AGAAAAA
1 ATA-AAAAA
* *
784562 ATATATAA
1 ATAAAAAA
784570 ATAAAACAA
1 ATAAAA-AA
784579 ATAAATAAA
1 ATAAA-AAA
*
784588 AT--AATA
1 ATAAAAAA
784594 ATAAAAAA
1 ATAAAAAA
*
784602 GTAAAAATA
1 ATAAAAA-A
* *
784611 ATATATATAT
1 ATA-A-AAAA
*
784621 ATATAATAA
1 ATA-AAAAA
784630 ATAAAAAA
1 ATAAAAAA
784638 ATAAAAAA
1 ATAAAAAA
784646 TAGTAAATAT
Statistics
Matches: 87, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
6 4 0.05
7 1 0.01
8 46 0.53
9 27 0.31
10 7 0.08
11 2 0.02
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.21
Consensus pattern (8 bp):
ATAAAAAA
Found at i:784574 original size:47 final size:46
Alignment explanation
Indices: 784521--784670 Score: 169
Period size: 46 Copynumber: 3.2 Consensus size: 46
784511 ATAGTAAGTA
* *
784521 AAATAAATATAAAAAAATAAAAAAATAAAGAAAAAGAAAAAATATAT
1 AAATAAATATAAATAAATAAAAAAATAAA-AAAAAGTAAAAATATAT
* *
784568 AAATAAA-ACAAATAAATAAAATAATAATAAAAAAGTAAAAATA-AT
1 AAATAAATATAAATAAATAAAAAAATAA-AAAAAAGTAAAAATATAT
* * * *
784613 ATATATATATATAATAAATAAAAAAATAAAAAATAGTAAATATATAT
1 AAATAAATATA-AATAAATAAAAAAATAAAAAAAAGTAAAAATATAT
* *
784660 ATATATATATA
1 AAATAAATATA
784671 TATATATATA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
45 7 0.08
46 45 0.51
47 37 0.42
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.25
Consensus pattern (46 bp):
AAATAAATATAAATAAATAAAAAAATAAAAAAAAGTAAAAATATAT
Found at i:784600 original size:39 final size:37
Alignment explanation
Indices: 784506--784601 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
784496 GAAAGCAAAT
* *
784506 ATAAAATAGTAAGTAAAATAAATATAAAAAAATAAAAAA
1 ATAAAATAATAA-TAAAA-AAATATAAAAAAACAAAAAA
* *
784545 ATAAAGA-AA-AAGAAAAAATATATAAATAAAACAAATAA
1 ATAAA-ATAATAATAAAAAA-ATATAAA-AAAACAAAAAA
784583 ATAAAATAATAATAAAAAA
1 ATAAAATAATAATAAAAAA
784602 GTAAAAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
36 2 0.04
37 12 0.26
38 18 0.38
39 14 0.30
40 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (37 bp):
ATAAAATAATAATAAAAAAATATAAAAAAACAAAAAA
Found at i:784636 original size:35 final size:36
Alignment explanation
Indices: 784568--784662 Score: 60
Period size: 34 Copynumber: 2.8 Consensus size: 36
784558 AAAAATATAT
* *
784568 AAATAAAACA-AATAAATA-AAATAATAATAA-AAAA
1 AAATAAAAAATAATAAATATATAT-ATAATAATAAAA
* * *
784602 GTAA-AAATAAT-ATATATATATAT--AATAAATAAAA
1 -AAATAAAAAATAATAAATATATATATAAT-AATAAAA
*
784636 AAATAAAAAATAGTAAATATATATATA
1 AAATAAAAAATAATAAATATATATATA
784663 TATATATATA
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
32 3 0.07
33 4 0.09
34 20 0.47
35 15 0.35
37 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (36 bp):
AAATAAAAAATAATAAATATATATATAATAATAAAA
Found at i:784657 original size:2 final size:2
Alignment explanation
Indices: 784652--784680 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
784642 AAAATAGTAA
784652 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
784681 AATTAATAAA
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:784756 original size:27 final size:26
Alignment explanation
Indices: 784699--784757 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
784689 AAACTGATAA
* *
784699 TAAAAAAAATATATATATATATAATC
1 TAAAAAAAATATAAATATATATAAAC
*
784725 TAAAAAAAATA-AAATATATACTAAAG
1 TAAAAAAAATATAAATATATA-TAAAC
784751 TAAAAAA
1 TAAAAAA
784758 GAAAATGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAAAAAAATATAAATATATATAAAC
Found at i:790042 original size:15 final size:15
Alignment explanation
Indices: 790024--790082 Score: 109
Period size: 15 Copynumber: 3.9 Consensus size: 15
790014 GATCACTACA
790024 TCCCGAAGGACTATG
1 TCCCGAAGGACTATG
*
790039 TCCCGAAGGAATATG
1 TCCCGAAGGACTATG
790054 TCCCGAAGGACTATG
1 TCCCGAAGGACTATG
790069 TCCCGAAGGACTAT
1 TCCCGAAGGACTAT
790083 TATACCCTCG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.20
Consensus pattern (15 bp):
TCCCGAAGGACTATG
Found at i:792951 original size:162 final size:159
Alignment explanation
Indices: 792687--793002 Score: 589
Period size: 162 Copynumber: 2.0 Consensus size: 159
792677 TCCCTCCCGA
792687 ATGCATTGTCAATGGACTACAATGAGCTTCATTTAAAAAATCATTCTTTAATTCATCATCATCCG
1 ATGCATTGTCAATGGACTACAATGAGCTTCATTTAAAAAATCATTCTTTAATTCATCATCATCCG
792752 GAATTATCAATCTTTCTCGATAATACAAGTTCTCATCA-GACTTAATCTCATAATCTATACCCTC
66 GAATTATCAATCTTTCTCGATAATACAAGTTCTCATCAGGACTTAATCTCATAATCTATACCCTC
792816 TCAATTCTTTATATGTTGTATCTTCCTCCG
131 TCAATTCTTT-TATGTTGTATCTTCCTCCG
792846 ATGCATTGTCAATGGACTACAATGAGCTTCATTTAAAAAATCATCATTCTTTAATTCATCATCAT
1 ATGCATTGTCAATGGACTACAATGAGCTTCATTT-AAAAA--ATCATTCTTTAATTCATCATCAT
792911 CCGGAATTATCAATCTTTCTCGATAATACAAGTTCTCATCAGGACTTAATCTCATAATCTATACC
63 CCGGAATTATCAATCTTTCTCGATAATACAAGTTCTCATCAGGACTTAATCTCATAATCTATACC
792976 CTCTCAATTCTTTTATGTTGTATCTTC
128 CTCTCAATTCTTTTATGTTGTATCTTC
793003 GCTTCATTTA
Statistics
Matches: 153, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
159 34 0.22
160 5 0.03
162 78 0.51
163 36 0.24
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (159 bp):
ATGCATTGTCAATGGACTACAATGAGCTTCATTTAAAAAATCATTCTTTAATTCATCATCATCCG
GAATTATCAATCTTTCTCGATAATACAAGTTCTCATCAGGACTTAATCTCATAATCTATACCCTC
TCAATTCTTTTATGTTGTATCTTCCTCCG
Found at i:793048 original size:129 final size:131
Alignment explanation
Indices: 792871--793131 Score: 483
Period size: 129 Copynumber: 2.0 Consensus size: 131
792861 ACTACAATGA
792871 GCTTCATTTAAAAAATCATCATTCTTTAATTCATCATCATCCGGAATTATCAATCTTTCTCGATA
1 GCTTCATTTAAAAAA-CATCATTCTTTAATTCATCATCATCCGGAATTATCAATCTTTCTCGATA
792936 ATACAAGTTCTCATCAGGACTTAATCTCATAATCTATACCCTCTCAATTCTTT-TATGTTGTATC
65 ATACAAGTTCTCATCA-GACTTAATCTCATAATCTATACCCTCTCAATTCTTTATATGTTGTATC
793000 TTC
129 TTC
793003 GCTTCATTT-AAAAA-ATCATTCTTTAATTCATCATCATCCGGAATTATCAATCTTTCTCGATAA
1 GCTTCATTTAAAAAACATCATTCTTTAATTCATCATCATCCGGAATTATCAATCTTTCTCGATAA
793066 TACAAGTTCTCATCAGACTTAATCTCATAATCTATACCCTCTCAATTCTTTATATGTTGTATCTT
66 TACAAGTTCTCATCAGACTTAATCTCATAATCTATACCCTCTCAATTCTTTATATGTTGTATCTT
793131 C
131 C
793132 TTTAAACACT
Statistics
Matches: 128, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
128 36 0.28
129 78 0.61
131 5 0.04
132 9 0.07
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (131 bp):
GCTTCATTTAAAAAACATCATTCTTTAATTCATCATCATCCGGAATTATCAATCTTTCTCGATAA
TACAAGTTCTCATCAGACTTAATCTCATAATCTATACCCTCTCAATTCTTTATATGTTGTATCTT
C
Found at i:793167 original size:15 final size:15
Alignment explanation
Indices: 793147--793185 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
793137 ACACTTTCCA
*
793147 TCTTTAGTTTGCAAT
1 TCTTTAATTTGCAAT
*
793162 TCTTTAATTTGTAAT
1 TCTTTAATTTGCAAT
793177 TCTTTAATT
1 TCTTTAATT
793186 CGATCTAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.59
Consensus pattern (15 bp):
TCTTTAATTTGCAAT
Found at i:797088 original size:15 final size:15
Alignment explanation
Indices: 797064--797097 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
797054 CCGTAGGACC
797064 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
797079 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
797094 ACTA
1 ACTA
797098 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:797699 original size:64 final size:64
Alignment explanation
Indices: 797630--797779 Score: 182
Period size: 64 Copynumber: 2.3 Consensus size: 64
797620 GGCATGTATT
* *
797630 GATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGATGTTT-TATTATTAATAA-AATGCA
1 GATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATGTTTATATT-TTAA-AAGAATACA
797692 TC
63 TC
* * * *
797694 GATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTATATTTTAAAAGAGTACATC
1 GATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATGTTTATATTTTAAAAGAATACATC
797758 GATGCACTACTTGTGCATCGAT
1 GATGCACTACTTGTGCATCGAT
797780 ACACCTTCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
63 3 0.04
64 64 0.88
65 6 0.08
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (64 bp):
GATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATGTTTATATTTTAAAAGAATACATC
Found at i:806501 original size:81 final size:81
Alignment explanation
Indices: 806335--806510 Score: 182
Period size: 81 Copynumber: 2.2 Consensus size: 81
806325 CGCTTTTTGC
* * *
806335 AAAACGCCACTAAAGTATAATATTTAGCGGAGTTTATAATCAAACATCACTAAAATACGAGTCTT
1 AAAACGCCACTAAAGTACAATATTTAGCGGAGTTTATAATAAAACATCACTAAAATACGAGTATT
* *
806400 TAGCGGTGTTTGTAAG
66 TAGCAGAGTTTGTAAG
* * * *
806416 AAAACGCCACTAATGTACAATATTTAGCGGCA-TTTAT-ATAAAAACGTCACTAAAATATG-TTA
1 AAAACGCCACTAAAGTACAATATTTAGCGG-AGTTTATAAT-AAAACATCACTAAAATACGAGTA
806478 TTTA-CTAGAGTTTGTTCAA-
64 TTTAGC-AGAGTTTG-T-AAG
*
806497 AAAACGCCGCTAAA
1 AAAACGCCACTAAA
806511 AATATCACTA
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
79 1 0.01
80 13 0.16
81 62 0.78
82 3 0.04
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.30
Consensus pattern (81 bp):
AAAACGCCACTAAAGTACAATATTTAGCGGAGTTTATAATAAAACATCACTAAAATACGAGTATT
TAGCAGAGTTTGTAAG
Found at i:819830 original size:6 final size:6
Alignment explanation
Indices: 819823--819874 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
819813 CCTGAATCCG
*
819823 TCTCCG TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA
1 TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA
819871 TCTC
1 TCTC
819875 GATTGATAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.13, C:0.50, G:0.02, T:0.35
Consensus pattern (6 bp):
TCTCCA
Found at i:822953 original size:6 final size:6
Alignment explanation
Indices: 822944--822987 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
822934 CGCCGCCGCC
822944 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
822988 AATACGTGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GTCGTG
Found at i:825009 original size:12 final size:13
Alignment explanation
Indices: 824979--825014 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
824969 AATTTCGTCC
824979 TTATATTATACAA
1 TTATATTATACAA
824992 TATATATTATA-AA
1 T-TATATTATACAA
825005 TTATATTATA
1 TTATATTATA
825015 TTTACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 4 0.18
14 9 0.41
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATATTATACAA
Found at i:827563 original size:10 final size:10
Alignment explanation
Indices: 827548--827581 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
827538 TTCATTTACC
827548 ATTTATTTTT
1 ATTTATTTTT
827558 ATTTATTTTT
1 ATTTATTTTT
* *
827568 ATCTATTTCT
1 ATTTATTTTT
827578 ATTT
1 ATTT
827582 TACTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:829860 original size:19 final size:21
Alignment explanation
Indices: 829836--829876 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
829826 CATTTCTTGC
829836 ATTTTATA-TTT-CATGTTTT
1 ATTTTATATTTTCCATGTTTT
829855 ATTTTATATTTTCCATGTTTT
1 ATTTTATATTTTCCATGTTTT
829876 A
1 A
829877 CATTCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (21 bp):
ATTTTATATTTTCCATGTTTT
Done.