Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001978.1 Hibiscus syriacus cultivar Beakdansim tig00004013_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: 2594977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 10
Found at i:2436432 original size:14 final size:14
Alignment explanation
Indices: 2436403--2436471 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
2436393 ATTTAAAAAA
*
2436403 ATTAAATT-TTAAT
1 ATTAAATTATAAAT
2436416 ATTAAATTATAAAT
1 ATTAAATTATAAAT
2436430 ATTTAAA-TA-AAA-
1 A-TTAAATTATAAAT
* *
2436442 A-TATA-TAAAAAT
1 ATTAAATTATAAAT
*
2436454 ATTAAATTATAAGT
1 ATTAAATTATAAAT
2436468 ATTA
1 ATTA
2436472 TAATAAGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
10 5 0.11
11 3 0.07
12 2 0.04
13 14 0.31
14 16 0.36
15 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (14 bp):
ATTAAATTATAAAT
Found at i:2439440 original size:39 final size:39
Alignment explanation
Indices: 2439397--2439502 Score: 158
Period size: 39 Copynumber: 2.7 Consensus size: 39
2439387 AGCAGTAAAT
2439397 TATTTGATTTAGTAGTTTAGATTAACTAGAACACTATCC
1 TATTTGATTTAGTAGTTTAGATTAACTAGAACACTATCC
* ** *
2439436 TATTTGATTTAGTAGTTTAGATTAACTTGAACTTTTTCC
1 TATTTGATTTAGTAGTTTAGATTAACTAGAACACTATCC
* *
2439475 TATTTGATTTAGTAGTTTATATGAACTA
1 TATTTGATTTAGTAGTTTAGATTAACTA
2439503 TAAATTTATC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (39 bp):
TATTTGATTTAGTAGTTTAGATTAACTAGAACACTATCC
Found at i:2442341 original size:63 final size:63
Alignment explanation
Indices: 2442264--2442390 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
2442254 TCAATTTGAC
2442264 ATACTTCATACTTTTCATATTTCACTTTTCATAGCCCAATGCATATTTAAGAGAATACAAATT
1 ATACTTCATACTTTTCATATTTCACTTTTCATAGCCCAATGCATATTTAAGAGAATACAAATT
2442327 ATACTTCATACTTTTCATATTTCACTTTTCATAGCCCAATGCATATTTAAGAGAATACAAATT
1 ATACTTCATACTTTTCATATTTCACTTTTCATAGCCCAATGCATATTTAAGAGAATACAAATT
2442390 A
1 A
2442391 CATAAGTAGA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (63 bp):
ATACTTCATACTTTTCATATTTCACTTTTCATAGCCCAATGCATATTTAAGAGAATACAAATT
Found at i:2442668 original size:16 final size:16
Alignment explanation
Indices: 2442647--2442702 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
2442637 CATAAACATT
2442647 TAAAAATTCATCATCG
1 TAAAAATTCATCATCG
* *
2442663 TAAAAATT-ATAATCATT
1 TAAAAATTCATCATC--G
2442680 TAAAAATTCATCATCG
1 TAAAAATTCATCATCG
*
2442696 TCAAAAT
1 TAAAAAT
2442703 CGTACTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 5 0.16
16 14 0.44
17 8 0.25
18 5 0.16
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (16 bp):
TAAAAATTCATCATCG
Found at i:2442685 original size:33 final size:33
Alignment explanation
Indices: 2442638--2442702 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
2442628 TCTTATAATC
2442638 ATAAACATTTAAAAATTCATCATCGTAAAAATT
1 ATAAACATTTAAAAATTCATCATCGTAAAAATT
* *
2442671 ATAATCATTTAAAAATTCATCATCGTCAAAAT
1 ATAAACATTTAAAAATTCATCATCGTAAAAAT
2442703 CGTACTTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (33 bp):
ATAAACATTTAAAAATTCATCATCGTAAAAATT
Found at i:2449089 original size:3 final size:3
Alignment explanation
Indices: 2449081--2449106 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2449071 CACTATTAAC
2449081 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2449107 TTTAAACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2456443 original size:20 final size:20
Alignment explanation
Indices: 2456420--2456458 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2456410 TCCAAATTTC
2456420 ACTTTCTAACCTTAAATTCA
1 ACTTTCTAACCTTAAATTCA
*
2456440 ACTTTCTAACTTTAAATTC
1 ACTTTCTAACCTTAAATTC
2456459 CAGCATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (20 bp):
ACTTTCTAACCTTAAATTCA
Found at i:2459010 original size:16 final size:16
Alignment explanation
Indices: 2458979--2459016 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2458969 CTGAATTAAC
2458979 TGAAAT-TATTAAATA
1 TGAAATATATTAAATA
*
2458994 TGAAATATATTATATA
1 TGAAATATATTAAATA
*
2459010 TTAAATA
1 TGAAATA
2459017 CATATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
TGAAATATATTAAATA
Found at i:2474767 original size:23 final size:22
Alignment explanation
Indices: 2474734--2474776 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
2474724 TGATCATTGA
2474734 TTATTATATATGATGTTATTAT
1 TTATTATATATGATGTTATTAT
2474756 TTATATATATATGATGTTATT
1 TTAT-TATATATGATGTTATT
2474777 TCAGGTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (22 bp):
TTATTATATATGATGTTATTAT
Found at i:2475071 original size:61 final size:61
Alignment explanation
Indices: 2474942--2475073 Score: 156
Period size: 61 Copynumber: 2.2 Consensus size: 61
2474932 GTGCAAGGAT
* * * * * **
2474942 ACTTAGTGCAGGTGGTGGGCATAACCTTATGTGTCATATGCAGATCAAGACTAAAGTGTAA
1 ACTTAGTGCAGGTGGTGGGCACAACCTTATGCGTCATATCCAAATCAACACTAAAGCATAA
* * * *
2475003 ACCTAGTGTAGGTGGTGGGCACGACCTTATGCGTCATATCCAAATCAACACTAGAGCATAA
1 ACTTAGTGCAGGTGGTGGGCACAACCTTATGCGTCATATCCAAATCAACACTAAAGCATAA
*
2475064 GCTTAGTGCA
1 ACTTAGTGCA
2475074 TGTTTAGCAG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (61 bp):
ACTTAGTGCAGGTGGTGGGCACAACCTTATGCGTCATATCCAAATCAACACTAAAGCATAA
Found at i:2483963 original size:100 final size:100
Alignment explanation
Indices: 2483858--2484057 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
2483848 TTGAATAAAT
2483858 AGTTGGACTAATTGTTTTCTAATGATTTTAGTTTTTCTAAAAAGAAAAAACAACACTCATCTCAA
1 AGTTGGACTAATTGTTTTCTAATGATTTTAGTTTTTCTAAAAAGAAAAAACAACACTCATCTCAA
2483923 GTTCTATACCCAACTCCAATTTTTTTTAAATGGGG
66 GTTCTATACCCAACTCCAATTTTTTTTAAATGGGG
2483958 AGTTGGACTAATTGTTTTCTAATGATTTTAGTTTTTCTAAAAAGAAAAAACAACACTCATCTCAA
1 AGTTGGACTAATTGTTTTCTAATGATTTTAGTTTTTCTAAAAAGAAAAAACAACACTCATCTCAA
2484023 GTTCTATACCCAACTCCAATTTTTTTTAAATGGGG
66 GTTCTATACCCAACTCCAATTTTTTTTAAATGGGG
2484058 TGAAAGCGAC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (100 bp):
AGTTGGACTAATTGTTTTCTAATGATTTTAGTTTTTCTAAAAAGAAAAAACAACACTCATCTCAA
GTTCTATACCCAACTCCAATTTTTTTTAAATGGGG
Found at i:2494824 original size:17 final size:17
Alignment explanation
Indices: 2494804--2494867 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
2494794 ATCTTTTTTC
*
2494804 GTACTAATCCTTTCATT
1 GTACTATTCCTTTCATT
*
2494821 GTACTATTCTTTTTC-TT
1 GTACTATTC-CTTTCATT
* * *
2494838 GTATTGTTCCGTTCATT
1 GTACTATTCCTTTCATT
2494855 GTACTATTCCTTT
1 GTACTATTCCTTT
2494868 TTATGTGATG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
16 3 0.08
17 29 0.81
18 4 0.11
ACGTcount: A:0.16, C:0.20, G:0.09, T:0.55
Consensus pattern (17 bp):
GTACTATTCCTTTCATT
Found at i:2506188 original size:34 final size:34
Alignment explanation
Indices: 2506115--2506189 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
2506105 TTTCATACTA
*
2506115 ATTCTTTCAATGTACTATTATTTTTCCTGTATCG
1 ATTCTTTCAACGTACTATTATTTTTCCTGTATCG
* *
2506149 TTTCTTTCAACGTACTATTCCTTTTT-CTGTGAT-G
1 ATTCTTTCAACGTACTATT-ATTTTTCCTGT-ATCG
2506183 ATTCTTT
1 ATTCTTT
2506190 TGCTGTATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 28 0.80
35 7 0.20
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (34 bp):
ATTCTTTCAACGTACTATTATTTTTCCTGTATCG
Found at i:2507185 original size:19 final size:19
Alignment explanation
Indices: 2507161--2507198 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2507151 AACTAGTCCA
2507161 AAATCAATATTTCAATATT
1 AAATCAATATTTCAATATT
*
2507180 AAATCAATATTTTAATATT
1 AAATCAATATTTCAATATT
2507199 CGATTCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATCAATATTTCAATATT
Found at i:2511211 original size:20 final size:20
Alignment explanation
Indices: 2511186--2511223 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2511176 TCTTCGAAAG
*
2511186 ATTGCTTCAATCGATAAAAC
1 ATTGCTTCAATCCATAAAAC
2511206 ATTGCTTCAATCCATAAA
1 ATTGCTTCAATCCATAAA
2511224 GCAACTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (20 bp):
ATTGCTTCAATCCATAAAAC
Found at i:2519489 original size:29 final size:29
Alignment explanation
Indices: 2519455--2519542 Score: 176
Period size: 29 Copynumber: 3.0 Consensus size: 29
2519445 CCTAAATTAA
2519455 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2519484 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2519513 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2519542 T
1 T
2519543 AGGTGAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:2521023 original size:87 final size:87
Alignment explanation
Indices: 2520837--2521023 Score: 243
Period size: 90 Copynumber: 2.1 Consensus size: 87
2520827 TGTTCATAGA
* * * *
2520837 ATTTTACTGT-AAATATAATAATTAAACTTGTATTGTTTCTTTTCCTATATTTATCTTTTTTTTT
1 ATTTT-CTGTAAAATATAATAATTAAACTTGCATCGTTTCTTTTCCTATACTTATC--TTTTTTC
* * *
2520901 GTACTAATCCTTTCAGTGTATTATT
63 ATACTAATCCTTTCAATGTACTATT
2520926 ATGTTTCTGTAAAATATAATAATTAAACTTGCATCGTTTCTTTTCCTATACTTATC-TTTTTCAT
1 AT-TTTCTGTAAAATATAATAATTAAACTTGCATCGTTTCTTTTCCTATACTTATCTTTTTTCAT
*
2520990 ACTAATCCTTTCAATTTACTATT
65 ACTAATCCTTTCAATGTACTATT
2521013 ATTTTCCTGTA
1 ATTTT-CTGTA
2521024 GCGTTTCTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
86 3 0.03
87 33 0.38
89 6 0.07
90 45 0.52
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (87 bp):
ATTTTCTGTAAAATATAATAATTAAACTTGCATCGTTTCTTTTCCTATACTTATCTTTTTTCATA
CTAATCCTTTCAATGTACTATT
Found at i:2522053 original size:19 final size:19
Alignment explanation
Indices: 2522029--2522066 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2522019 AACTAGTCCA
2522029 AAATCAACATTTCAATATT
1 AAATCAACATTTCAATATT
* *
2522048 AAATCAATATTTTAATATT
1 AAATCAACATTTCAATATT
2522067 CGATTCCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATCAACATTTCAATATT
Found at i:2527610 original size:22 final size:24
Alignment explanation
Indices: 2527585--2527628 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
2527575 CTTGATTTTT
*
2527585 TAAAATCTAA-TTAAT-TAATATA
1 TAAAACCTAATTTAATATAATATA
2527607 TAAAACCTAATTTAATATAATA
1 TAAAACCTAATTTAATATAATA
2527629 ATATTTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAAACCTAATTTAATATAATATA
Found at i:2528458 original size:22 final size:22
Alignment explanation
Indices: 2528430--2528472 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2528420 CCCAATAACA
2528430 TTCATGATAAATATCATATATT
1 TTCATGATAAATATCATATATT
*
2528452 TTCATGATAAATATTATATAT
1 TTCATGATAAATATCATATAT
2528473 ATTAACCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (22 bp):
TTCATGATAAATATCATATATT
Found at i:2534044 original size:23 final size:24
Alignment explanation
Indices: 2533995--2534045 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
2533985 ACTTGTTCAT
* *
2533995 GAACACGTTCGTGAACATATAAAC
1 GAACACATTCGCGAACATATAAAC
2534019 GAACACATTCGCGAACAT-TAAAC
1 GAACACATTCGCGAACATATAAAC
2534042 GAAC
1 GAAC
2534046 GTTAAACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (24 bp):
GAACACATTCGCGAACATATAAAC
Found at i:2535391 original size:87 final size:86
Alignment explanation
Indices: 2535293--2535462 Score: 229
Period size: 87 Copynumber: 2.0 Consensus size: 86
2535283 TCCCCCTTTG
* *
2535293 CCCATGAATTACGTCTATGTAAAAAGGTA-TATATTTTATGGTAAATATTAC-AATTTGAACCAA
1 CCCATGAATTACATCTATGTAAAAAGGTATTATATTTGA-GGTAAATATTACGAA-TTGAACCAA
*
2535356 CA-AAGAGAGAGATAATATAACAC
64 CACAA-AGAGAGACAATATAACAC
* *
2535379 CCCATGAAATTACATCTATGTAAAGAGGTATTATATTTGAGGTAAATATTACGAATTGAACCTAC
1 CCCATG-AATTACATCTATGTAAAAAGGTATTATATTTGAGGTAAATATTACGAATTGAACCAAC
*
2535444 ACAAAGTGAGACAATATAA
65 ACAAAGAGAGACAATATAA
2535463 ACATCTTGAC
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
86 6 0.08
87 56 0.76
88 12 0.16
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (86 bp):
CCCATGAATTACATCTATGTAAAAAGGTATTATATTTGAGGTAAATATTACGAATTGAACCAACA
CAAAGAGAGACAATATAACAC
Found at i:2539892 original size:33 final size:33
Alignment explanation
Indices: 2539850--2539916 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
2539840 TATAGAAGAG
*
2539850 AAAGCATCCTATACCTCGATAACGGCCAAGAAC
1 AAAGCATCCTATACCTCGATAACAGCCAAGAAC
2539883 AAAGCATCCTATACCTCGATAACAGCCAAGAAC
1 AAAGCATCCTATACCTCGATAACAGCCAAGAAC
2539916 A
1 A
2539917 CTATATCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.30, G:0.13, T:0.15
Consensus pattern (33 bp):
AAAGCATCCTATACCTCGATAACAGCCAAGAAC
Found at i:2541001 original size:18 final size:18
Alignment explanation
Indices: 2540978--2541014 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2540968 TCAAGTATGG
2540978 AGGTGATACCATTAGAGA
1 AGGTGATACCATTAGAGA
2540996 AGGTGATACCATTAGAGA
1 AGGTGATACCATTAGAGA
2541014 A
1 A
2541015 AAGTCAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
AGGTGATACCATTAGAGA
Found at i:2542066 original size:17 final size:18
Alignment explanation
Indices: 2542033--2542066 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2542023 CCGTTATTAG
2542033 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
2542051 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
2542067 GACCGACTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:2543600 original size:2 final size:2
Alignment explanation
Indices: 2543593--2543632 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
2543583 ATACTTTATT
*
2543593 TA TA TA TA TA TA TA TA TA TA TA TA T- TT 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 TA TA T
2543633 TACTTTGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2543694 original size:27 final size:25
Alignment explanation
Indices: 2543652--2543707 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
2543642 TTTCATATTC
*
2543652 TTTATCATTCTTTTATTTTTGTTT-T
1 TTTATCATTCTATTATTTTT-TTTAT
2543677 TTTATTCATTACTATTATTTTTTTTAT
1 TTTA-TCATT-CTATTATTTTTTTTAT
2543704 TTTA
1 TTTA
2543708 ATACTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 4 0.15
26 8 0.30
27 15 0.56
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTATCATTCTATTATTTTTTTTAT
Found at i:2543716 original size:24 final size:22
Alignment explanation
Indices: 2543673--2543719 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
2543663 TTTATTTTTG
*
2543673 TTTTTTTATTCATTACTATTAT
1 TTTTTTTATTCAATACTATTAT
*
2543695 TTTTTTTATTTTAATACTTATTAT
1 TTTTTTTA-TTCAATAC-TATTAT
2543719 T
1 T
2543720 ACTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 6 0.29
24 7 0.33
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTTATTCAATACTATTAT
Found at i:2543719 original size:27 final size:27
Alignment explanation
Indices: 2543652--2543720 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
2543642 TTTCATATTC
*
2543652 TTTAT-CATT-CTTTTATTTTTGTTTT
1 TTTATACATTACTATTATTTTTGTTTT
*
2543677 TTTATTCATTACTATTATTTTT-TTTAT
1 TTTATACATTACTATTATTTTTGTTT-T
*
2543704 TTTAATAC-TTATTATTA
1 TTT-ATACATTACTATTA
2543721 CTATTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 5 0.14
26 7 0.19
27 22 0.59
28 3 0.08
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTATACATTACTATTATTTTTGTTTT
Found at i:2545040 original size:22 final size:23
Alignment explanation
Indices: 2545007--2545057 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
2544997 TGTTTACTTA
2545007 TATTTCCATTATTA-TTA-TTTTT
1 TATTTCCATTA-TACTTATTTTTT
2545029 TATTT-CATTTATACTTTATTTTTT
1 TATTTCCA-TTATAC-TTATTTTTT
2545053 TATTT
1 TATTT
2545058 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.16
22 8 0.32
23 3 0.12
24 10 0.40
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (23 bp):
TATTTCCATTATACTTATTTTTT
Found at i:2545162 original size:23 final size:21
Alignment explanation
Indices: 2545120--2545165 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2545110 TTTATTTTTG
*
2545120 TTTTTTTATTCATTACTATTA
1 TTTTTTTATTCAATACTATTA
*
2545141 TTTTTTTATTTTAATACTTATTA
1 TTTTTTTA-TTCAATAC-TATTA
2545164 TT
1 TT
2545166 ACTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 6 0.29
23 7 0.33
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTTTATTCAATACTATTA
Found at i:2553273 original size:16 final size:16
Alignment explanation
Indices: 2553252--2553283 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2553242 AACATGATGC
2553252 ACAAATAAATTGAGGT
1 ACAAATAAATTGAGGT
2553268 ACAAATAAATTGAGGT
1 ACAAATAAATTGAGGT
2553284 TTATGTCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (16 bp):
ACAAATAAATTGAGGT
Found at i:2558464 original size:2 final size:2
Alignment explanation
Indices: 2558457--2558497 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2558447 ATACTTATTT
2558457 TA TA TA TA TA 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 TA TA T
2558498 TTACTTTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2558540 original size:19 final size:19
Alignment explanation
Indices: 2558513--2558573 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
2558503 TTGATTTTCA
* * *
2558513 TATTCTTTATAATTTCTTT
1 TATTTTTTATAATTACTAT
*
2558532 TATTTTTTATTCATTACTAT
1 TATTTTTTA-TAATTACTAT
2558552 TATTTTTT-TAA-TACTTAT
1 TATTTTTTATAATTAC-TAT
2558570 TATT
1 TATT
2558574 ACTATTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 8 0.23
20 15 0.43
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTTATAATTACTAT
Found at i:2558609 original size:2 final size:2
Alignment explanation
Indices: 2558602--2558636 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2558592 TGTTATAAGT
2558602 TA TA 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 T
2558637 TCATATAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2565561 original size:15 final size:15
Alignment explanation
Indices: 2565541--2565570 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2565531 ACTAATTGGA
2565541 AATTAAAAAAAAAAT
1 AATTAAAAAAAAAAT
*
2565556 AATTAAAAAATAAAT
1 AATTAAAAAAAAAAT
2565571 CAAACGATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATTAAAAAAAAAAT
Found at i:2566701 original size:240 final size:239
Alignment explanation
Indices: 2565937--2566884 Score: 1572
Period size: 239 Copynumber: 3.9 Consensus size: 239
2565927 TAGCTGCCTA
* * * * *
2565937 AACCTAGCCTCAAAATTGTCCAGATTCATTCACAAATTAGTTGTTGACACGATTTTTAAATCAGC
1 AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAGC
* * * * *
2566002 AAAACAAATTGTTGAAATCAAGCCCCGAAAATAAGTTGTTATATGTTGTGATAAATATTCAAACC
66 AAAACGAATTGTTGAAAT-AAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACC
* ** * * *
2566067 TAGCCCCAAAAAACATACAAGTTCAAATAGTGGTGCTAGTTGTTAAACAACGAGTAGATTAATTT
130 TA-CCCC-AGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTT
*
2566132 TAGGATTTCCACAATTCTTCTGTATTTTCTCTAAACATAGCTAGCTG
193 TAGGATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGCTG
*
2566179 AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACAACTTTTAAATCAGC
1 AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAGC
*
2566244 AAAAGGAATTGTTGAAATAAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCT
66 AAAACGAATTGTTGAAATAAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCT
*
2566309 ATCCCAGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAG
131 ACCCCAGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAG
*
2566374 GATTTCCACAATTCTTCCTTATTTTCTCTAAACATAGCTAGCTG
196 GATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGCTG
*
2566418 AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAGT
1 AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAGC
*
2566483 AAAACGAATTGTTGAAATAAGCCCCGACAATAAGTTATTATCTATTGTGATAAATATTCGAACCT
66 AAAACGAATTGTTGAAATAAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCT
*
2566548 AGCCCCAGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTT
131 A-CCCCAGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTA
*
2566613 GGATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGTTG
195 GGATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGCTG
*
2566658 AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAAC
1 AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAGC
*
2566723 AAAACGAATTGTTGAAATAAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTTGAACCT
66 AAAACGAATTGTTGAAATAAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCT
* * *
2566788 ATCCTAGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAA
131 ACCCCAGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAG
* *
2566853 GATTTCCATAATTCTTCCATATTTTCTCTAAA
196 GATTTCCACAATTCTTCCGTATTTTCTCTAAA
2566885 AGTAGAACAC
Statistics
Matches: 667, Mismatches: 38, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
239 313 0.47
240 234 0.35
241 44 0.07
242 76 0.11
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (239 bp):
AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAGC
AAAACGAATTGTTGAAATAAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCT
ACCCCAGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAG
GATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGCTG
Found at i:2566824 original size:479 final size:481
Alignment explanation
Indices: 2565937--2566884 Score: 1621
Period size: 479 Copynumber: 2.0 Consensus size: 481
2565927 TAGCTGCCTA
* *
2565937 AACCTAGCCTCAAAATTGTCCAGATTCATTCACAAATTAGTTGTTGACACGATTTTTAAATCAGC
1 AACCTAGCCTCAAAACTGTCCAGATTCATTCACAAATTAGTTGTTGACACGACTTTTAAATCAGC
* *
2566002 AAAACAAATTGTTGAAATCAAGCCCCGAAAATAAGTTGTTATATGTTGTGATAAATATTCAAACC
66 AAAACAAATTGTTGAAATCAAGCCCCGAAAATAAGTTATTATATATTGTGATAAATATTCAAACC
*
2566067 TAGCCCCAAAAAACATACAAGTTCAAATAGTGGTGCTAGTTGTTAAACAACGAGTAGATTAATTT
131 TAGCCCCAAAAAACATACAAGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTT
*
2566132 TAGGATTTCCACAATTCTTCTGTATTTTCTCTAAACATAGCTAGCTGAACCTAGCCTCAAAACTG
196 TAGGATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGCTGAACCTAGCCTCAAAACTG
* *
2566197 TCCATATTCATTTACAAATTAGTTGTTGACACAACTTTTAAATCAGCAAAAGGAATTGTTGAAAT
261 TCCATATTCATTTACAAATTAGTTGTTGACACAACTTTTAAATCAACAAAACGAATTGTTGAAAT
2566262 AAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCTATCCCAGAAAGGTTCAGG
326 AAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCTATCCCAGAAAGGTTCAGG
*
2566327 TTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAGGATTTCCACAATTCTTCC
391 TTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAAGATTTCCACAATTCTTCC
*
2566392 TTATTTTCTCTAAACATAGCTAGCTG
456 ATATTTTCTCTAAACATAGCTAGCTG
* * * *
2566418 AACCTAGCCTCAAAACTGTCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAGT
1 AACCTAGCCTCAAAACTGTCCAGATTCATTCACAAATTAGTTGTTGACACGACTTTTAAATCAGC
* * * *
2566483 AAAACGAATTGTTGAAAT-AAGCCCCGACAATAAGTTATTATCTATTGTGATAAATATTCGAACC
66 AAAACAAATTGTTGAAATCAAGCCCCGAAAATAAGTTATTATATATTGTGATAAATATTCAAACC
* ** * *
2566547 TAGCCCC-AGAAAGGTTCAGGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTT
131 TAGCCCCAAAAAACATACAAGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTT
* *
2566611 TTGGATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGTTGAACCTAGCCTCAAAACTG
196 TAGGATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGCTGAACCTAGCCTCAAAACTG
*
2566676 TCCATATTCATTTACAAATTAGTTGTTGACACTACTTTTAAATCAACAAAACGAATTGTTGAAAT
261 TCCATATTCATTTACAAATTAGTTGTTGACACAACTTTTAAATCAACAAAACGAATTGTTGAAAT
* *
2566741 AAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTTGAACCTATCCTAGAAAGGTTCAGG
326 AAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCTATCCCAGAAAGGTTCAGG
*
2566806 TTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAAGATTTCCATAATTCTTCC
391 TTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAAGATTTCCACAATTCTTCC
2566871 ATATTTTCTCTAAA
456 ATATTTTCTCTAAA
2566885 AGTAGAACAC
Statistics
Matches: 438, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
479 314 0.72
480 48 0.11
481 76 0.17
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (481 bp):
AACCTAGCCTCAAAACTGTCCAGATTCATTCACAAATTAGTTGTTGACACGACTTTTAAATCAGC
AAAACAAATTGTTGAAATCAAGCCCCGAAAATAAGTTATTATATATTGTGATAAATATTCAAACC
TAGCCCCAAAAAACATACAAGTTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTT
TAGGATTTCCACAATTCTTCCGTATTTTCTCTAAACATAGCTAGCTGAACCTAGCCTCAAAACTG
TCCATATTCATTTACAAATTAGTTGTTGACACAACTTTTAAATCAACAAAACGAATTGTTGAAAT
AAGCCCCGACAATAAGTTGTTATCTATTGTGATAAATATTCGAACCTATCCCAGAAAGGTTCAGG
TTCAAATAGTGGTGCTAGCTGTTAAACAACGAGTAGATTAATTTTAAGATTTCCACAATTCTTCC
ATATTTTCTCTAAACATAGCTAGCTG
Found at i:2568740 original size:28 final size:28
Alignment explanation
Indices: 2568700--2568782 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 28
2568690 TTGACTCCCT
2568700 AATTTTTTTGGGATTTTTAGGAATTTAC
1 AATTTTTTTGGGATTTTTAGGAATTTAC
2568728 AATTTTTTTGGGATTTTTAGGAATTTAC
1 AATTTTTTTGGGATTTTTAGGAATTTAC
*
2568756 AAGTTTTTTT-AGATTTTCT-GGAATTTA
1 AA-TTTTTTTGGGATTTT-TAGGAATTTA
2568783 AGGTGAGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
28 44 0.85
29 8 0.15
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (28 bp):
AATTTTTTTGGGATTTTTAGGAATTTAC
Found at i:2577193 original size:2 final size:2
Alignment explanation
Indices: 2577188--2577212 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2577178 TTTTTAAAAC
2577188 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 A
2577213 CACCCCCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2577400 original size:12 final size:12
Alignment explanation
Indices: 2577375--2577432 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
2577365 ACGTAGACAT
* *
2577375 CAGAAATCAAAA
1 CAGAATTCAGAA
2577387 CAGAATTCAGAA
1 CAGAATTCAGAA
* *
2577399 CAGAATCCAGAT
1 CAGAATTCAGAA
*
2577411 CAGAAATCAGAA
1 CAGAATTCAGAA
*
2577423 CAAAATTCAG
1 CAGAATTCAG
2577433 GTAATGTATC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2582154 original size:12 final size:12
Alignment explanation
Indices: 2582129--2582212 Score: 62
Period size: 12 Copynumber: 7.0 Consensus size: 12
2582119 ATGGAGATAT
* *
2582129 CAGAAATCAAAA
1 CAGAATTCAGAA
2582141 CAGAATTCAGAA
1 CAGAATTCAGAA
*
2582153 CA-TATATCAGAA
1 CAGAAT-TCAGAA
* *
2582165 CAGAATCCAGAT
1 CAGAATTCAGAA
*
2582177 CAGAAATCAGAA
1 CAGAATTCAGAA
* * *
2582189 CAAAATCCAGAT
1 CAGAATTCAGAA
*
2582201 CAGAAATCAGAA
1 CAGAATTCAGAA
2582213 AAAAAATTCA
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
11 2 0.04
12 49 0.92
13 2 0.04
ACGTcount: A:0.54, C:0.19, G:0.13, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2582166 original size:24 final size:24
Alignment explanation
Indices: 2582129--2582212 Score: 105
Period size: 24 Copynumber: 3.5 Consensus size: 24
2582119 ATGGAGATAT
* *
2582129 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATCCAGAA
* * *
2582153 CATATATCAGAACAGAATCCAGAT
1 CAGAAATCAGAACAGAATCCAGAA
* *
2582177 CAGAAATCAGAACAAAATCCAGAT
1 CAGAAATCAGAACAGAATCCAGAA
2582201 CAGAAATCAGAA
1 CAGAAATCAGAA
2582213 AAAAAATTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.54, C:0.19, G:0.13, T:0.14
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATCCAGAA
Found at i:2587085 original size:21 final size:21
Alignment explanation
Indices: 2587061--2587100 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2587051 AAAATATCCA
*
2587061 AAACAAGCAAATATTCAAAAC
1 AAACAACCAAATATTCAAAAC
*
2587082 AAACATCCAAATATTCAAA
1 AAACAACCAAATATTCAAA
2587101 TACATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (21 bp):
AAACAACCAAATATTCAAAAC
Found at i:2591033 original size:11 final size:11
Alignment explanation
Indices: 2591017--2591042 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2591007 CAACATAATT
2591017 ATAAATGCAAC
1 ATAAATGCAAC
2591028 ATAAATGCAAC
1 ATAAATGCAAC
2591039 ATAA
1 ATAA
2591043 TCACCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.08, T:0.19
Consensus pattern (11 bp):
ATAAATGCAAC
Done.