Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009566.1 Hibiscus syriacus cultivar Beakdansim tig00116925_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: 439029
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:246 original size:36 final size:37
Alignment explanation
Indices: 198--269 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
188 CAAAGATTGC
*
198 CAAATCTGGGAAATA-GGCGGTTCTTTACCTTTCTCG
1 CAAATCTAGGAAATAGGGCGGTTCTTTACCTTTCTCG
*
234 CAAATCTAGGAAATAGGGTGGTTCTTTACCTTTCTC
1 CAAATCTAGGAAATAGGGCGGTTCTTTACCTTTCTC
270 TTCTTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 14 0.42
37 19 0.58
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (37 bp):
CAAATCTAGGAAATAGGGCGGTTCTTTACCTTTCTCG
Found at i:2267 original size:3 final size:3
Alignment explanation
Indices: 2259--2331 Score: 139
Period size: 3 Copynumber: 24.7 Consensus size: 3
2249 ATATAATATA
2259 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2307 AAT AAT AAT AAT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2332 CCGATTATTA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2666 original size:20 final size:20
Alignment explanation
Indices: 2641--2678 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2631 TTTGGTTCAC
*
2641 GGAATGTAAGATTATCAGTG
1 GGAATGTAAGATAATCAGTG
2661 GGAATGTAAGATAATCAG
1 GGAATGTAAGATAATCAG
2679 GGAATATGAT
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:0.05, G:0.29, T:0.26
Consensus pattern (20 bp):
GGAATGTAAGATAATCAGTG
Found at i:7658 original size:16 final size:17
Alignment explanation
Indices: 7637--7672 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7627 GAATATAATT
*
7637 AAATTAT-ATTTTTTTA
1 AAATTATAATTATTTTA
7653 AAATTATAATTATTTTA
1 AAATTATAATTATTTTA
7670 AAA
1 AAA
7673 ACTTTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTATAATTATTTTA
Found at i:14142 original size:25 final size:25
Alignment explanation
Indices: 14110--14174 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
14100 ATTTTAACTT
14110 AATATA-TTATTATTAACTTAATTTA
1 AATATATTTATT-TTAACTTAATTTA
* *
14135 AATATATTTATTTTTATTTAATTTA
1 AATATATTTATTTTAACTTAATTTA
*
14160 AA-ATTATATATTTTA
1 AATA-TATTTATTTTA
14175 TGTTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 28 0.82
26 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
AATATATTTATTTTAACTTAATTTA
Found at i:14180 original size:25 final size:25
Alignment explanation
Indices: 14097--14173 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
14087 GATGACTAAA
*
14097 TTTATTTTAACTT-AATATAT-TATT
1 TTTA-TTTAATTTAAATATATATATT
* * *
14121 ATTAACTTAATTTAAATATATTTATT
1 -TTTATTTAATTTAAATATATATATT
14147 TTTATTTAATTTAAA-ATTATATATT
1 TTTATTTAATTTAAATA-TATATATT
14172 TT
1 TT
14174 ATGTTAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
24 7 0.16
25 32 0.74
26 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTATTTAATTTAAATATATATATT
Found at i:14879 original size:22 final size:23
Alignment explanation
Indices: 14837--14880 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
14827 CTATAAAAAT
*
14837 AATATAATTAATATTATATTTTA
1 AATATAATTAATATTAGATTTTA
14860 AATA-AATTACAT-TTAGATTTT
1 AATATAATTA-ATATTAGATTTT
14881 CAACTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
AATATAATTAATATTAGATTTTA
Found at i:15063 original size:16 final size:18
Alignment explanation
Indices: 15020--15065 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
15010 AATTTTAAAT
*
15020 TTAATATATTTAAGCTCC
1 TTAATATTTTTAAGCTCC
15038 TTAA-ATTTTTTAA-CT-C
1 TTAATA-TTTTTAAGCTCC
15054 TTAATATTTTTA
1 TTAATATTTTTA
15066 CCCTTGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 10 0.40
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (18 bp):
TTAATATTTTTAAGCTCC
Found at i:16153 original size:35 final size:35
Alignment explanation
Indices: 16105--16216 Score: 127
Period size: 35 Copynumber: 3.2 Consensus size: 35
16095 TCTAAACCTT
* * *
16105 AAATTGAAGTATTTTAGAATTTGGGGTTTA-AATTT
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAA-TA
* *
16140 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATA
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATA
** * *
16175 AAATTGAATTACATTGGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATA
16210 AAATTGA
1 AAATTGA
16217 GGACTGTTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 63 0.97
36 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAGAATA
Found at i:19956 original size:57 final size:57
Alignment explanation
Indices: 19887--20000 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
19877 TTTATGCCAA
19887 GGCTACAACCTATTCCCCGTTAACCATTAAATAAGATAGGTTTCTGCACCTACTGTT
1 GGCTACAACCTATTCCCCGTTAACCATTAAATAAGATAGGTTTCTGCACCTACTGTT
*
19944 GGCTACAACCTATTCCTCGTTAACCATTAAATAAGATAGGTTTCTGCACCTACTGTT
1 GGCTACAACCTATTCCCCGTTAACCATTAAATAAGATAGGTTTCTGCACCTACTGTT
20001 TGTGCTTGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (57 bp):
GGCTACAACCTATTCCCCGTTAACCATTAAATAAGATAGGTTTCTGCACCTACTGTT
Found at i:23068 original size:27 final size:26
Alignment explanation
Indices: 23008--23071 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
22998 TTTGAATTTT
23008 TTATAAATATATTGAATTTTTTTTTAATA
1 TTATAAA-ATATTGAA-TTTTTTTTAA-A
*
23037 TTA-AAAGTATT-AATTTTTTCTTAAA
1 TTATAAAATATTGAATTTTTT-TTAAA
23062 TTATAAAATA
1 TTATAAAATA
23072 GCATTCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
25 10 0.32
26 11 0.35
27 4 0.13
28 3 0.10
29 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
TTATAAAATATTGAATTTTTTTTAAA
Found at i:23431 original size:20 final size:21
Alignment explanation
Indices: 23398--23443 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
23388 TGAAATGAAG
23398 ATTTTCAAAGTTTTG-GGTTT
1 ATTTTCAAAGTTTTGTGGTTT
* * *
23418 ATTTTGAAATTTTTGTGTTTT
1 ATTTTCAAAGTTTTGTGGTTT
23439 ATTTT
1 ATTTT
23444 TTTAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.20, C:0.02, G:0.15, T:0.63
Consensus pattern (21 bp):
ATTTTCAAAGTTTTGTGGTTT
Found at i:25784 original size:29 final size:29
Alignment explanation
Indices: 25742--25824 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
25732 ACTGAAATGG
25742 AGGTCGCCATGTATGCCGGGCGACCTTAT
1 AGGTCGCCATGTATGCCGGGCGACCTTAT
25771 AGGTCGCCATGTATGCCGGGCGACCTTAT
1 AGGTCGCCATGTATGCCGGGCGACCTTAT
*
25800 AGGTCGCCATGTGAT-CCCGGCGACC
1 AGGTCGCCATGT-ATGCCGGGCGACC
25825 AAACTGACGA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
29 50 0.96
30 2 0.04
ACGTcount: A:0.17, C:0.30, G:0.31, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTATGCCGGGCGACCTTAT
Found at i:28076 original size:26 final size:27
Alignment explanation
Indices: 28025--28076 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
28015 CTAACTGCTT
* *
28025 AATACATGTGCATATTTCTTTAACAGC
1 AATACACGTGCATAGTTCTTTAACAGC
28052 AATACACGTGCAT-GTTCTTTAACAG
1 AATACACGTGCATAGTTCTTTAACAG
28077 TCTAACATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
AATACACGTGCATAGTTCTTTAACAGC
Found at i:28173 original size:36 final size:36
Alignment explanation
Indices: 28126--28338 Score: 313
Period size: 36 Copynumber: 5.9 Consensus size: 36
28116 AGATGAATAA
* *
28126 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
28162 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
* * * *
28197 CTTGAATCGAAAGTGCGGATGCTTCATTCCATTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
28234 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
28269 CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
28306 TTGAATCGAAAGTGCTGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
28339 TTCTTATTCA
Statistics
Matches: 158, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
35 2 0.01
36 154 0.97
37 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
Found at i:28243 original size:72 final size:72
Alignment explanation
Indices: 28126--28343 Score: 391
Period size: 72 Copynumber: 3.0 Consensus size: 72
28116 AGATGAATAA
28126 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
28191 GTTCTTC
66 GTTCTTC
* *
28198 TTGAATCGAAAGTGCGGATGCTTCATTCCATTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
28263 GTTCTTC
66 GTTCTTC
* * *
28270 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACTTTGAATCGAAAGTGCTGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
28335 GTTCTTC
66 GTTCTTC
28342 TT
1 TT
28344 ATTCACCTTC
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 139 1.00
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (72 bp):
TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
GTTCTTC
Found at i:29994 original size:26 final size:27
Alignment explanation
Indices: 29943--29994 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
29933 CTAACTGCTT
* *
29943 AATACATGTGCATATTTCTTTAACAGC
1 AATACACGTGCATAGTTCTTTAACAGC
29970 AATACACGTGCAT-GTTCTTTAACAG
1 AATACACGTGCATAGTTCTTTAACAG
29995 TCTAACACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
AATACACGTGCATAGTTCTTTAACAGC
Found at i:31829 original size:60 final size:60
Alignment explanation
Indices: 31732--31844 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
31722 AATGATTCTC
* * *
31732 TGATTATAGGATGTTGTTTTGTTGAGTCATCTGACTATTAAATGTTACAAAATGGTCCCT
1 TGATTATAGGATGTTGCTTTGTTGAGTCATCTAACTATTAAAAGTTACAAAATGGTCCCT
*
31792 TGATTATAGGATGTTGCTTTGTTGAGTC-TCTCAACTATTAAAAGTTGCAAAAT
1 TGATTATAGGATGTTGCTTTGTTGAGTCATCT-AACTATTAAAAGTTACAAAAT
31845 AATCACCCGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 3 0.06
60 45 0.94
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (60 bp):
TGATTATAGGATGTTGCTTTGTTGAGTCATCTAACTATTAAAAGTTACAAAATGGTCCCT
Found at i:36988 original size:20 final size:20
Alignment explanation
Indices: 36894--37085 Score: 244
Period size: 20 Copynumber: 9.6 Consensus size: 20
36884 GATTTTCAAG
* ** *
36894 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
36914 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
36934 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
36954 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
36974 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
36994 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37014 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
37034 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
*
37054 AATCGCAACGAGTATCCGTA
1 AATCGCAACGCGTATCCGTA
37074 AATCGCAACGCG
1 AATCGCAACGCG
37086 ATTTTTAAAG
Statistics
Matches: 150, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.01
20 145 0.97
21 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:37511 original size:33 final size:33
Alignment explanation
Indices: 37472--37542 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
37462 TTCACTTAGA
37472 TTTCATTTCGCATTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCATTACGATTCTCTCGTTGCGAT
* * *
37505 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCATTACGATTCTCTCGTTGCGAT
37538 TTTCA
1 TTTCA
37543 AGTTAGTATT
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:0.13, C:0.24, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCATTACGATTCTCTCGTTGCGAT
Found at i:37659 original size:20 final size:20
Alignment explanation
Indices: 37622--37727 Score: 109
Period size: 21 Copynumber: 5.5 Consensus size: 20
37612 TGCAGAAGAG
37622 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
37643 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
37663 TCGCAACGAGAAAAATGAAAA
1 TCGCAACGAG-AAAATGAAAA
37684 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
37698 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
37717 TCGCAACGAGA
1 TCGCAACGAGA
37728 GAATCGCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 16 0.23
21 28 0.40
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:37701 original size:14 final size:14
Alignment explanation
Indices: 37682--37738 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
37672 GAAAAATGAA
37682 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
37696 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
37715 AATCGCAACGAGAG
1 AATCGCAACGAGAG
37729 AATCGCAACG
1 AATCGCAACG
37739 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:37716 original size:33 final size:33
Alignment explanation
Indices: 37675--37754 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
37665 GCAACGAGAA
37675 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
37708 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
37741 AAACCAAAATCGCA
1 AAATGAAAATCGCA
37755 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:37806 original size:21 final size:21
Alignment explanation
Indices: 37780--37844 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
37770 CGCGTTGCGA
37780 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
37801 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
37821 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
37842 TTC
1 TTC
37845 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:37841 original size:20 final size:20
Alignment explanation
Indices: 37779--37842 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
37769 TCGCGTTGCG
37779 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
37799 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
37820 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
37840 ATT
1 ATT
37843 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:39052 original size:12 final size:12
Alignment explanation
Indices: 39035--39059 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39025 TCTTCGGGGA
39035 CTTTTTCTTCTT
1 CTTTTTCTTCTT
39047 CTTTTTCTTCTT
1 CTTTTTCTTCTT
39059 C
1 C
39060 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:39999 original size:20 final size:20
Alignment explanation
Indices: 39971--40199 Score: 226
Period size: 20 Copynumber: 11.4 Consensus size: 20
39961 AAATTTCAGT
* ** *
39971 GTTGTGATTTACATATTCTC
1 GTTGCGATTTACGGATTCGC
**
39991 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
40011 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* * **
40031 GTTGTGATTTACTGATTATC
1 GTTGCGATTTACGGATTCGC
*
40051 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
40071 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
40091 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
40111 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
40131 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
40151 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
40171 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
40191 GTTGCGATT
1 GTTGCGATT
40200 CTGTAAAATC
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:40217 original size:21 final size:20
Alignment explanation
Indices: 40193--40263 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
40183 ATATTCGCGT
40193 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
40214 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
**
40235 TGCGA-TTGTCAAGAATCGCGT
1 TGCGATTTGT-AA-AATCGCAA
40256 TGCGATTT
1 TGCGATTT
40264 TGGAAACTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 29 0.73
22 5 0.12
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:49748 original size:50 final size:50
Alignment explanation
Indices: 49694--49795 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
49684 GTAGCAGTAA
* * * *
49694 AGCGCGCCCCATGAACCGCGCTATATGCTGATTTGACGTCACGTGGGTAT
1 AGCGCGCCCCATGAACCGCGATATACGATGATTTGACGCCACGTGGGTAT
* * ** * *
49744 AGCGCGCTCCTTGCCCCGCGATATACGATGATTTGGCGCCACGTTGGTAT
1 AGCGCGCCCCATGAACCGCGATATACGATGATTTGACGCCACGTGGGTAT
49794 AG
1 AG
49796 TGCACCCCCT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (50 bp):
AGCGCGCCCCATGAACCGCGATATACGATGATTTGACGCCACGTGGGTAT
Found at i:49978 original size:12 final size:10
Alignment explanation
Indices: 49939--49978 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
49929 TTATCACACA
49939 AAATTCTCTC
1 AAATTCTCTC
49949 AAATTCTCT-
1 AAATTCTCTC
49958 AAATTTCTCTC
1 AAA-TTCTCTC
*
49969 AAATACTCTC
1 AAATTCTCTC
49979 CCTTTTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:50316 original size:111 final size:111
Alignment explanation
Indices: 50122--50343 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
50112 TGGAAATCAT
*
50122 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
50187 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
*
50233 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
50298 TAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
50344 TTTTTGTAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
Found at i:56186 original size:51 final size:51
Alignment explanation
Indices: 56080--56210 Score: 140
Period size: 51 Copynumber: 2.6 Consensus size: 51
56070 CTACATGGCG
* * * * * *
56080 TATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGTAACCTAGTCAGCG
1 TATAGCGCGGTACAGGGGGCGCGCTATACTCCACGTGTAACCAAATCAACA
* *
56131 TATAGCGCGGTACAGGAGGCGCGCTATACTCCACGTG-ACGCCAAATCAACA
1 TATAGCGCGGTACAGGGGGCGCGCTATACTCCACGTGTA-ACCAAATCAACA
* * *
56182 TATAGCACGGTTCAGGGGGTGCGCT-TACT
1 TATAGCGCGGTACAGGGGGCGCGCTATACT
56211 GCTACAGGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
50 5 0.07
51 62 0.93
ACGTcount: A:0.23, C:0.27, G:0.31, T:0.19
Consensus pattern (51 bp):
TATAGCGCGGTACAGGGGGCGCGCTATACTCCACGTGTAACCAAATCAACA
Found at i:59550 original size:2 final size:2
Alignment explanation
Indices: 59507--59531 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59497 GAGTTTTATC
59507 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
59532 AATAGGGATG
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:59715 original size:15 final size:15
Alignment explanation
Indices: 59697--59725 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59687 AACCGAACCG
59697 AACCGAATTAACCAT
1 AACCGAATTAACCAT
59712 AACCGAATTAACCA
1 AACCGAATTAACCA
59726 AACTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:60156 original size:183 final size:183
Alignment explanation
Indices: 59870--60238 Score: 625
Period size: 183 Copynumber: 2.0 Consensus size: 183
59860 AATTAAATGT
*
59870 TTTTTTAATTAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
1 TTTTTTAATAAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
* *
59935 ATAAATTTTTTAATTAATTAATATTGATTTATGTTTAAAAGTTATTGGATCTTAAATTATTAATT
66 ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAATT
* * *
60000 GGGTTTTAAATGGTTTGGGCTTAGCCCATATGTTATATATAATATATATAATA
131 GGATTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATATAAAA
*
60053 TTTTTTAATAAAAAAACAGTTT-TCAATTAATTTAAATAATATATAATTATAAAATAAAAATTTT
1 TTTTTTAATAAAAAAA-AGTTTAT-AATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
*
60117 ATAT-AATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAA
64 AGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAA
*
60181 TTGGATTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATTTAAAA
129 TTGGATTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATATAAAA
60236 TTT
1 TTT
60239 AAAATTTAAT
Statistics
Matches: 175, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
183 128 0.73
184 47 0.27
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (183 bp):
TTTTTTAATAAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAATT
GGATTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATATAAAA
Found at i:60277 original size:9 final size:9
Alignment explanation
Indices: 60265--60324 Score: 70
Period size: 9 Copynumber: 6.4 Consensus size: 9
60255 TAATTCGGTT
60265 AATTAACCG
1 AATTAACCG
60274 AATTCGAACCG
1 AATT--AACCG
60285 AATTAACCG
1 AATTAACCG
60294 AATTCGAACCG
1 AATT--AACCG
60305 AATTAACCG
1 AATTAACCG
60314 --TTAACCG
1 AATTAACCG
60321 AATT
1 AATT
60325 CTAAAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 7 0.16
9 20 0.44
11 18 0.40
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:60285 original size:11 final size:11
Alignment explanation
Indices: 60269--60308 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
60259 TCGGTTAATT
60269 AACCGAATTCG
1 AACCGAATTCG
60280 AACCGAATT--
1 AACCGAATTCG
60289 AACCGAATTCG
1 AACCGAATTCG
60300 AACCGAATT
1 AACCGAATT
60309 AACCGTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.33
11 18 0.67
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (11 bp):
AACCGAATTCG
Found at i:60290 original size:20 final size:20
Alignment explanation
Indices: 60265--60313 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
60255 TAATTCGGTT
60265 AATTAACCGAATTCGAACCG
1 AATTAACCGAATTCGAACCG
60285 AATTAACCGAATTCGAACCG
1 AATTAACCGAATTCGAACCG
60305 AATTAACCG
1 AATTAACCG
60314 TTAACCGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.20
Consensus pattern (20 bp):
AATTAACCGAATTCGAACCG
Found at i:71847 original size:149 final size:149
Alignment explanation
Indices: 71572--71886 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
71562 GAGTCGAGGG
* * * *
71572 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTAAAACACACAT
71637 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
71702 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
71721 TCTATGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTAAAACACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTAAAACACACAT
71786 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
71851 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
71870 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
71887 TGCAATTATA
Statistics
Matches: 158, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 157 0.99
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTAAAACACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:71887 original size:23 final size:23
Alignment explanation
Indices: 71854--71898 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
71844 ATTATTATAT
*
71854 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
71877 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
71899 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:75185 original size:64 final size:62
Alignment explanation
Indices: 75100--75260 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 62
75090 TTGTTTAAGG
* * * *
75100 TGCATCGATGCACATGTAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA--TAAATA-AAAACATCGAATAGGATTTA
*
75164 TGCATCGATGCATAAGGAGTGCATCGATGCATCTCCAATAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCA--TCCAATAAATAAAAACATCGAATAGGATTTA
*
75228 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
75261 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
63 2 0.02
64 61 0.71
65 20 0.23
66 1 0.01
67 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (62 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATAAATAAAAACATCGAATAGGATTTA
Found at i:76772 original size:149 final size:149
Alignment explanation
Indices: 76502--76808 Score: 553
Period size: 149 Copynumber: 2.1 Consensus size: 149
76492 GAGTCGAGGG
* * *
76502 TCTACGTGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTAAAAGACACAT
1 TCTACGCGGTCCTTCAGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTAAAAGACACAT
76567 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
76632 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
76651 TCTACGCGGTTCTTCAGGATATATATATATT-TTGTGGAACATGTGTGAAGTCTTAAAAGACACA
1 TCTACGCGGTCCTTCAGGACATATATATATTCTT-TGGAACATGTGTGAAGTCTTAAAAGACACA
76715 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATT
65 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATT
76780 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
76800 TCTACGCGG
1 TCTACGCGG
76809 CACTTCGGTG
Statistics
Matches: 152, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 2 0.01
149 150 0.99
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTCCTTCAGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTAAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:76817 original size:23 final size:23
Alignment explanation
Indices: 76784--76828 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
76774 ATTATTATAT
*
76784 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
76807 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
76829 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:82636 original size:17 final size:19
Alignment explanation
Indices: 82614--82652 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
82604 TAAAAGCATA
*
82614 ATTATTT-TTTT-AAAATT
1 ATTATTTATTTTCAAAAAT
82631 ATTATTTATTTTCAAAAAT
1 ATTATTTATTTTCAAAAAT
82650 ATT
1 ATT
82653 CATTAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTATTTATTTTCAAAAAT
Found at i:82772 original size:6 final size:7
Alignment explanation
Indices: 82751--82775 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
82741 GTAGAGTTGT
82751 AATTAAA
1 AATTAAA
82758 AATTAAA
1 AATTAAA
82765 AATTAAA
1 AATTAAA
82772 AATT
1 AATT
82776 TAGGTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:94356 original size:51 final size:51
Alignment explanation
Indices: 94280--94383 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
94270 CACAGCAACC
94280 CTGCTACGAACATCATCAGCAGGATGCTGTTCGGAGGAAATCTTTGTTTGT
1 CTGCTACGAACATCATCAGCAGGATGCTGTTCGGAGGAAATCTTTGTTTGT
94331 CTGCTACGAACATCATCAGCAGGATGCTGTTCGGAGGAAATCTTTGTTTGT
1 CTGCTACGAACATCATCAGCAGGATGCTGTTCGGAGGAAATCTTTGTTTGT
94382 CT
1 CT
94384 TGTGTTAGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (51 bp):
CTGCTACGAACATCATCAGCAGGATGCTGTTCGGAGGAAATCTTTGTTTGT
Found at i:102325 original size:22 final size:22
Alignment explanation
Indices: 102256--102326 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 22
102246 AGAGTTAATT
*
102256 AAATATATGTTTTAA-TAATTCTG
1 AAATATA-GATTTAATTAATT-TG
*
102279 AATATTTA-ATTTCAATTAA-TT-
1 AA-ATATAGATTT-AATTAATTTG
102300 AAATATAGATTTAATTAATTTG
1 AAATATAGATTTAATTAATTTG
102322 AAATA
1 AAATA
102327 ATAAAATCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
20 10 0.26
21 8 0.21
22 9 0.23
23 5 0.13
24 7 0.18
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (22 bp):
AAATATAGATTTAATTAATTTG
Found at i:102393 original size:90 final size:88
Alignment explanation
Indices: 102284--102457 Score: 267
Period size: 90 Copynumber: 2.0 Consensus size: 88
102274 TTCTGAATAT
* * *
102284 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCTCTAATAAAATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATAAAATTAA
*
102349 GGTAATTTGGATATAAAAGGATTA
65 GGTAACTTGGATATAAAAGGATTA
**
102373 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATAAAATTAA
*
102438 GGTAACTTGGCTATAAAAGG
65 GGTAACTTGGATATAAAAGG
102458 GTGTGTTAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 36 0.47
90 41 0.53
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATAAAATTAAG
GTAACTTGGATATAAAAGGATTA
Found at i:106478 original size:20 final size:20
Alignment explanation
Indices: 106384--106752 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
106374 GATTTTCCAT
* ** *
106384 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
106404 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
106424 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
106444 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
106464 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
106484 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
106504 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
106524 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
106544 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
106564 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
106584 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
106604 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
106624 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
106644 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
106664 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
106684 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
106704 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
106724 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
106744 AATCACAAC
1 AATCGCAAC
106753 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:107465 original size:24 final size:24
Alignment explanation
Indices: 107426--107472 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
107416 AAATTTGGTC
107426 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
107450 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
107473 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:107664 original size:12 final size:12
Alignment explanation
Indices: 107647--107671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
107637 ATATAATCCT
107647 GAAGAAGAAAAA
1 GAAGAAGAAAAA
107659 GAAGAAGAAAAA
1 GAAGAAGAAAAA
107671 G
1 G
107672 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:110000 original size:19 final size:19
Alignment explanation
Indices: 109978--110284 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
109968 CGGAAAATAC
*
109978 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
109997 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
110011 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
110031 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
110045 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110064 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
110083 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
110097 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110116 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
110135 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
110149 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
110168 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
110187 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110206 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110225 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
110239 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110258 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
110277 AATCGCAA
1 AATCGCAA
110285 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 15 0.06
18 5 0.02
19 151 0.61
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:110093 original size:52 final size:53
Alignment explanation
Indices: 110006--110284 Score: 358
Period size: 52 Copynumber: 5.2 Consensus size: 53
109996 AAATCCCAAC
*
110006 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
110059 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
110111 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
110163 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
110220 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
110272 ATGAAAATCGCAA
1 ATGAAAATCGCAA
110285 CGAGATAATC
Statistics
Matches: 212, Mismatches: 8, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
51 2 0.01
52 156 0.74
53 18 0.08
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:110129 original size:71 final size:71
Alignment explanation
Indices: 110045--110284 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
110035 GCAACGAGAG
*
110045 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
110110 AATGAA
66 AATGAA
* * *
110116 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
110176 TACGAAATGAA
61 TGCGAAATGAA
110187 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
110252 AATGAA
66 AATGAA
110258 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
110285 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 113 0.75
72 2 0.01
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:110230 original size:142 final size:137
Alignment explanation
Indices: 109978--110316 Score: 497
Period size: 142 Copynumber: 2.4 Consensus size: 137
109968 CGGAAAATAC
* * * *
109978 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGC-AACG
1 AATCGCAATGCGAAATGAAAAT-CGAAC-CGAATAATCGCAATGC-GAAATTAAAATCGCAAACG
* *
110041 AGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAAT
63 AGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAAT
110106 GCGAAATGAA
128 GCGAAATGAA
110116 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
1 AATCGCAATGCGAAATGAAAATCGAACCGA-ATAATCGCAATGCGAAATTAAAATCGCAA-ACG-
110181 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
63 -A-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
110246 ATGCGAAATGAA
126 ATGCGAAATGAA
110258 AATCGCAATGCGAAATGAAAATCGCAA-CGAGATAATCGCAATGCGAAATTATAAA-CGCA
1 AATCGCAATGCGAAATGAAAATCG-AACCGA-ATAATCGCAATGCGAAATTA-AAATCGCA
110317 TTGCGATTTT
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 33 0.18
139 3 0.02
141 1 0.01
142 123 0.66
143 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (137 bp):
AATCGCAATGCGAAATGAAAATCGAACCGAATAATCGCAATGCGAAATTAAAATCGCAAACGAGA
AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCG
AAATGAA
Found at i:110422 original size:19 final size:19
Alignment explanation
Indices: 110313--110414 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
110303 AAATTATAAA
110313 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
110332 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
110352 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
110368 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
110385 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
110404 CGCATTGCGAT
1 CGCATTGCGAT
110415 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:110540 original size:14 final size:14
Alignment explanation
Indices: 110521--110557 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
110511 CATCAATTAC
110521 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
110535 ACAAATCATCTTTT
1 ACAAATCAACTTTT
110549 ACAAATCAA
1 ACAAATCAA
110558 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:110569 original size:12 final size:12
Alignment explanation
Indices: 110552--110624 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
110542 ATCTTTTACA
110552 AATCAATTAAAC
1 AATCAATTAAAC
*
110564 AATCAA--AAATTG
1 AATCAATTAAA--C
**
110576 AATCAACTTTTAC
1 AATCAA-TTAAAC
110589 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
110602 AATCAA-AAAAC
1 AATCAATTAAAC
110613 AATCAATTAAAC
1 AATCAATTAAAC
110625 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:110586 original size:38 final size:38
Alignment explanation
Indices: 110538--110610 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
110528 AACTTTTACA
*
110538 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
110576 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
110611 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:112504 original size:14 final size:14
Alignment explanation
Indices: 112485--112541 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
112475 GCGAAATGAA
*
112485 AATCGCAACGACAG
1 AATCGCAACGAAAG
112499 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
112516 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
112532 AATCGCAACG
1 AATCGCAACG
112542 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:112512 original size:33 final size:33
Alignment explanation
Indices: 112466--112558 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
112456 GCGAAACCAA
*
112466 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
112499 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
112532 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
112559 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:112523 original size:19 final size:19
Alignment explanation
Indices: 112429--112563 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
112419 TAGTTTACTT
* *
112429 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
112449 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
112468 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
112487 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
112501 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
112520 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
112534 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
112553 TCGCAATGCGA
1 TCGCAACGCGA
112564 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:112581 original size:19 final size:19
Alignment explanation
Indices: 112559--112687 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
112549 AAAATCGCAA
112559 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
112578 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
112592 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
112611 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
112625 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
112644 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
112663 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
112683 TGCGA
1 TGCGA
112688 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:112601 original size:33 final size:33
Alignment explanation
Indices: 112559--112650 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
112549 AAAATCGCAA
112559 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
112592 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
112625 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
112651 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:112890 original size:93 final size:93
Alignment explanation
Indices: 112731--113110 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
112721 TTGAATGGAT
112731 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
112796 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
112824 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
112889 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
112917 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
112981 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
113009 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
113074 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
113102 AAATTTACT
1 AAATTTACT
113111 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:113044 original size:185 final size:186
Alignment explanation
Indices: 112731--113110 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
112721 TTGAATGGAT
112731 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
112796 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
112861 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
112917 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
112981 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
113046 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
113102 AAATTTACT
1 AAATTTACT
113111 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:114833 original size:14 final size:14
Alignment explanation
Indices: 114814--114903 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
114804 TTGAAATGAA
114814 AATCGCAACGAGAG
1 AATCGCAACGAGAG
114828 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
114845 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
114861 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
114880 AATCGCAACGAGAG
1 AATCGCAACGAGAG
114894 AATCGCAACG
1 AATCGCAACG
114904 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:114851 original size:33 final size:33
Alignment explanation
Indices: 114806--114920 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
114796 TCTTTTGGTT
114806 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
114839 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
114872 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
114905 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
114921 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:114852 original size:19 final size:18
Alignment explanation
Indices: 114813--114925 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
114803 GTTGAAATGA
114813 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
114828 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
114845 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
114861 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
114878 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
114894 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
114911 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
114926 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:114956 original size:14 final size:14
Alignment explanation
Indices: 114937--114991 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
114927 TTTGGTTTCG
114937 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
114951 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
114970 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
114984 CGTTGCGA
1 CGTTGCGA
114992 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:115154 original size:33 final size:33
Alignment explanation
Indices: 115112--115182 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
115102 AATACTAACT
115112 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
115145 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
115178 TGAAA
1 TGAAA
115183 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:115416 original size:22 final size:22
Alignment explanation
Indices: 115364--115418 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
115354 TGGTTGTGAG
**
115364 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
115386 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
115408 GGATTTCTTCG
1 GGATTTCTTCG
115419 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:115589 original size:20 final size:20
Alignment explanation
Indices: 115564--115757 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
115554 CTTTAAATAT
115564 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
115584 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
115606 -TCGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
*
115625 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
115645 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
115665 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
115685 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
115705 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
115725 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
115745 CGCGTTGCGATTT
1 CGCGTTGCGATTT
115758 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:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:115729 original size:60 final size:60
Alignment explanation
Indices: 115566--115737 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 60
115556 TTAAATATCG
** * *
115566 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTATGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** *
115627 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
115687 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
115738 TCATATTCGC
Statistics
Matches: 94, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 68 0.72
61 26 0.28
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:115774 original size:21 final size:20
Alignment explanation
Indices: 115750--115826 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
115740 ATATTCGCGT
115750 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
115771 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
115791 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
115813 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
115827 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:115837 original size:20 final size:20
Alignment explanation
Indices: 115812--115863 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
115802 AAGAATCGCG
*
115812 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
115832 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
115852 TTGCGATTCTGG
1 TTGCGATTCTGG
115864 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:123761 original size:32 final size:30
Alignment explanation
Indices: 123704--123764 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
123694 CCCCCCCCAG
* *
123704 AATTTTATAAGTTTAAGTTTGCCCCCTAAA
1 AATTTTATAAGTTCAAGTTTCCCCCCTAAA
*
123734 AATTTTTTAAGTTCAAGTTCGTCCCCCCTAA
1 AATTTTATAAGTTCAAGTT--TCCCCCCTAA
123765 CATGAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 17 0.65
32 9 0.35
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (30 bp):
AATTTTATAAGTTCAAGTTTCCCCCCTAAA
Found at i:129608 original size:15 final size:15
Alignment explanation
Indices: 129590--129623 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
129580 TTGAAATTCT
129590 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
129605 AATTATTTATATAAA
1 AATTATTTAAATAAA
129620 AATT
1 AATT
129624 CATCGATAAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:137389 original size:21 final size:20
Alignment explanation
Indices: 137303--137460 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
137293 AAATGACCAA
**
137303 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
137322 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
137342 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
137362 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
137383 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
137404 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
137424 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
137445 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
137461 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:137489 original size:20 final size:20
Alignment explanation
Indices: 137427--137620 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
137417 CGATTTTCCA
* ** *
137427 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
137447 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
137467 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
137487 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
137507 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
137527 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
137547 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * * *
137567 ATATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
137587 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
137608 AAATCGCAACGCG
1 AAATCGCAACGCG
137621 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 16 0.11
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:137511 original size:60 final size:60
Alignment explanation
Indices: 137427--137620 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
137417 CGATTTTCCA
* ** * *
137427 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
137487 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * **
137547 ATATCGCAACGCGTATCCGTATATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
137608 AAATCGCAACGCG
1 AAATCGCAACGCG
137621 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:138040 original size:33 final size:33
Alignment explanation
Indices: 138001--138071 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
137991 TTCACTTAGA
* *
138001 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
138034 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
138067 TTTCA
1 TTTCA
138072 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:138177 original size:21 final size:20
Alignment explanation
Indices: 138151--138258 Score: 95
Period size: 21 Copynumber: 5.7 Consensus size: 20
138141 TGCAGAAGAG
138151 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
138172 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
138192 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
138213 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
138227 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
*
138246 TCGCAACGCGAAA
1 TCGCAACGAGAAA
138259 CCAAAATCGC
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
14 11 0.15
16 2 0.03
17 2 0.03
19 12 0.17
20 18 0.25
21 26 0.37
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:138195 original size:20 final size:20
Alignment explanation
Indices: 138151--138227 Score: 100
Period size: 21 Copynumber: 3.8 Consensus size: 20
138141 TGCAGAAGAG
*
138151 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
138172 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
138192 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
138213 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
138228 CGCAACGCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 20 0.42
21 28 0.58
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:138208 original size:41 final size:41
Alignment explanation
Indices: 138150--138227 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
138140 TTGCAGAAGA
*
138150 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
138191 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
138228 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:138249 original size:19 final size:19
Alignment explanation
Indices: 138163--138269 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 19
138153 GCAACGAGAT
*
138163 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
*** *
138182 AGAATGACTGTCGCAACGAGAG
1 A-AATGAAAATCGCAAC--GCG
138204 AAATGAAAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
138221 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
138237 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
**
138256 AAACCAAAATCGCA
1 AAATGAAAATCGCA
138270 TTGCGATTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 1 0.01
18 1 0.01
19 27 0.39
20 12 0.17
21 11 0.16
22 4 0.06
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.10
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:138287 original size:19 final size:19
Alignment explanation
Indices: 138265--138362 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
138255 GAAACCAAAA
*
138265 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
138284 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
138298 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
138317 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
138331 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
138350 TCGCGTTGCGATT
1 TCGCGTTGCGATT
138363 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:138306 original size:14 final size:14
Alignment explanation
Indices: 138287--138376 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
138277 TTTCATTTCG
138287 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
138301 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
138320 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
138334 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
138351 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
138367 CGTTGCGATT
1 CGTTGCGATT
138377 TTCATTTCAA
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:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:138312 original size:33 final size:33
Alignment explanation
Indices: 138270--138384 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
138260 CAAAATCGCA
138270 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
138303 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
138336 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
138369 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
138385 AACCAAAAGA
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:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:140240 original size:93 final size:93
Alignment explanation
Indices: 140081--140461 Score: 735
Period size: 93 Copynumber: 4.1 Consensus size: 93
140071 TAGATTGCTT
* *
140081 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
140146 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
140174 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
140239 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
140267 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
140332 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
140360 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
140425 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
140453 AGTAAATTT
1 AGTAAATTT
140462 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 284 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:140545 original size:19 final size:19
Alignment explanation
Indices: 140505--140633 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
140495 TAGTTTACTC
* *
140505 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
140525 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
140544 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
140563 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
140577 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
140596 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
140610 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
140629 TCGCA
1 TCGCA
140634 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:140584 original size:33 final size:32
Alignment explanation
Indices: 140541--140633 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
140531 CGCGAAACCA
**
140541 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
140573 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
140606 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
140634 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:140631 original size:52 final size:52
Alignment explanation
Indices: 140505--140633 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
140495 TAGTTTACTC
**
140505 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
140557 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
140610 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
140634 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:140651 original size:19 final size:19
Alignment explanation
Indices: 140629--140763 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
140619 GAAACCAAAA
*
140629 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
140648 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
140664 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
140681 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
140697 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
140714 TCGTGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
140733 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
140753 TCGTGTTGCGA
1 TCGCGTTGCGA
140764 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 44 0.47
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:140670 original size:14 final size:14
Alignment explanation
Indices: 140651--140707 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
140641 TTTCATTTCG
140651 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
140665 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
140682 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
140698 CGTTGCGATT
1 CGTTGCGATT
140708 TTCATTTCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:140676 original size:33 final size:33
Alignment explanation
Indices: 140634--140726 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
140624 CAAAATCGCA
*
140634 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
140667 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
140700 TTGCGATTTTCATTTCGTGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
140727 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:142705 original size:14 final size:14
Alignment explanation
Indices: 142686--142721 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
142676 ATTGTTTAAT
142686 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
142700 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
142714 TGATTTGT
1 TGATTTGT
142722 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:142852 original size:19 final size:19
Alignment explanation
Indices: 142828--142963 Score: 166
Period size: 19 Copynumber: 7.6 Consensus size: 19
142818 AAAATTGACT
142828 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
142847 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
142866 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
142880 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
142899 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
*
142919 ATCGCAATG-G----GAGA
1 ATCGCAATGCGAAATGAAA
142933 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
142952 ATCGCATTGCGA
1 ATCGCAATGCGA
142964 TTCTCTCGTT
Statistics
Matches: 101, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
14 22 0.22
15 2 0.02
16 2 0.02
17 2 0.02
18 2 0.02
19 53 0.52
20 18 0.18
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:142937 original size:53 final size:53
Alignment explanation
Indices: 142828--142962 Score: 236
Period size: 53 Copynumber: 2.6 Consensus size: 53
142818 AAAATTGACT
142828 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
142880 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
142933 ATCGCAATGCGAAATGAAAATCGCATTGCG
1 ATCGCAATGCGAAATGAAAATCGCAATGCG
142963 ATTCTCTCGT
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 29 0.37
53 50 0.63
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:142952 original size:33 final size:32
Alignment explanation
Indices: 142828--142957 Score: 111
Period size: 33 Copynumber: 3.8 Consensus size: 32
142818 AAAATTGACT
*
142828 ATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATCGCAATGCGAAATGAAAATCGCAATGGGAA
* * *
142860 AT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCG-CAATGCGAAATGA-A-AATCGCAATG-G----G-AA
142899 ATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGGGA-A
142933 ATCGCAATGCGAAATGAAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCA
142958 TTGCGATTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
31 7 0.09
32 6 0.08
33 26 0.33
34 12 0.15
38 2 0.03
39 17 0.22
40 3 0.04
41 5 0.06
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.15
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAAATCGCAATGGGAA
Found at i:142990 original size:33 final size:33
Alignment explanation
Indices: 142953--143101 Score: 133
Period size: 33 Copynumber: 4.3 Consensus size: 33
142943 GAAATGAAAA
142953 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
142986 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 TCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TCATT
* * * *
143026 GCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCA-TTGCGATTCTCTCGTTGCGATTTTCATT
*
143057 TCGCATTGCGATTCTCTCGTTGCCATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
143090 TCCGCATTGCGA
1 T-CGCATTGCGA
143102 AATGTAATGG
Statistics
Matches: 91, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
31 9 0.10
32 5 0.05
33 36 0.40
34 10 0.11
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.09
39 3 0.03
40 9 0.10
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:142996 original size:19 final size:19
Alignment explanation
Indices: 142972--143101 Score: 154
Period size: 19 Copynumber: 7.3 Consensus size: 19
142962 GATTCTCTCG
142972 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
142991 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
143010 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
143024 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
143043 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
143062 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
143076 TTGCCATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
143096 TTGCGA
1 TTGCGA
143102 AATGTAATGG
Statistics
Matches: 94, Mismatches: 6, Indels: 21
0.78 0.05 0.17
Matches are distributed among these distances:
14 11 0.12
16 14 0.15
17 12 0.13
18 2 0.02
19 50 0.53
20 5 0.05
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:143012 original size:52 final size:52
Alignment explanation
Indices: 142953--143101 Score: 280
Period size: 52 Copynumber: 2.8 Consensus size: 52
142943 GAAATGAAAA
142953 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
143005 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
*
143057 TCGCATTGCGATTCTCTCGTTGCCATTTTCATTTCCGCATTGCGA
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGA
143102 AATGTAATGG
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 85 0.89
53 10 0.11
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:143184 original size:19 final size:19
Alignment explanation
Indices: 143160--143257 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
143150 AAAATTGACT
143160 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
143179 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
143198 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
143212 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
143231 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
143251 ATCGCAA
1 ATCGCAA
143258 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:143289 original size:53 final size:53
Alignment explanation
Indices: 143160--143276 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
143150 AAAATTGACT
143160 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
143212 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
143265 ATCGCAATGCGA
1 ATCGCAATGCGA
143277 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:145609 original size:12 final size:12
Alignment explanation
Indices: 145592--145616 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
145582 TCTTCGGGGA
145592 CTTTTTCTTCTT
1 CTTTTTCTTCTT
145604 CTTTTTCTTCTT
1 CTTTTTCTTCTT
145616 C
1 C
145617 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:145825 original size:24 final size:24
Alignment explanation
Indices: 145791--145837 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
145781 CTGAAACATC
145791 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
145815 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
145838 GACCAAATTT
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:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:146548 original size:20 final size:20
Alignment explanation
Indices: 146533--146769 Score: 260
Period size: 20 Copynumber: 11.8 Consensus size: 20
146523 GTGATTTTCA
146533 GATTCTCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* *
146553 GATTATCGTTGCGATTTACA
1 GATTCTCGTTGCGATTTACG
146573 GATTCTCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* *
146593 GATTATCGTTGCGATTTACA
1 GATTCTCGTTGCGATTTACG
146613 GATTCTCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
*
146633 GATTATCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* * *
146653 GATACGCGTTGCGATATACG
1 GATTCTCGTTGCGATTTACG
* * *
146673 GATACGCATTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* * *
146693 GATACGCGTTGCGATATACG
1 GATTCTCGTTGCGATTTACG
* * *
146713 GATACACGTTGCGATTTATG
1 GATTCTCGTTGCGATTTACG
* * *
146733 TG-TTCGCGTTGCGATTTTCA
1 -GATTCTCGTTGCGATTTACG
* *
146753 TATTCGCGTTGCGATTT
1 GATTCTCGTTGCGATTT
146770 TGGAAAATCG
Statistics
Matches: 189, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 188 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GATTCTCGTTGCGATTTACG
Found at i:146786 original size:21 final size:21
Alignment explanation
Indices: 146756--146838 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
146746 ATTTTCATAT
*
146756 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
146777 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
146798 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
146819 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
146839 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:146829 original size:42 final size:43
Alignment explanation
Indices: 146736--146834 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
146726 ATTTATGTGT
* *
146736 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
146777 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
146819 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
146835 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:147716 original size:23 final size:23
Alignment explanation
Indices: 147685--147756 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
147675 AAATTAACTC
*
147685 AAACCGAAAGCAACCCGAATCGA
1 AAACTGAAAGCAACCCGAATCGA
* **
147708 AAACTGAAAGAAACCCGAATAAA
1 AAACTGAAAGCAACCCGAATCGA
* *
147731 AAACTAAAAGCAAACCGAATCGA
1 AAACTGAAAGCAACCCGAATCGA
147754 AAA
1 AAA
147757 ATAACTTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.57, C:0.22, G:0.14, T:0.07
Consensus pattern (23 bp):
AAACTGAAAGCAACCCGAATCGA
Found at i:148287 original size:16 final size:19
Alignment explanation
Indices: 148243--148288 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 19
148233 AAAATTCACT
*
148243 TTAATTCAAACTATCAAAG
1 TTAATTTAAACTATCAAAG
*
148262 TTATTTTAAA-TAT-AAA-
1 TTAATTTAAACTATCAAAG
148278 TTAATTTAAAC
1 TTAATTTAAAC
148289 AAACTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.39
17 3 0.13
18 3 0.13
19 8 0.35
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (19 bp):
TTAATTTAAACTATCAAAG
Found at i:150043 original size:32 final size:32
Alignment explanation
Indices: 149992--150052 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
149982 ACTCAAATTA
*
149992 AAAAATCAACCGATTTGATATTAACCCGATCC
1 AAAAATCAACCGATCTGATATTAACCCGATCC
* *
150024 AAAAATCGATCGATCTGATATTAACCCGA
1 AAAAATCAACCGATCTGATATTAACCCGA
150053 CCCGAAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (32 bp):
AAAAATCAACCGATCTGATATTAACCCGATCC
Found at i:166010 original size:19 final size:20
Alignment explanation
Indices: 165967--166014 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
165957 CAAAGTGAAC
*
165967 AAAATATAAAATTCAATTAA
1 AAAATATAAAATTCAATAAA
* *
165987 GAAAT-TAAAATTTAATAAA
1 AAAATATAAAATTCAATAAA
166006 AAAATATAA
1 AAAATATAA
166015 TTTTCAGTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATATAAAATTCAATAAA
Found at i:171709 original size:2 final size:2
Alignment explanation
Indices: 171650--171696 Score: 60
Period size: 2 Copynumber: 23.5 Consensus size: 2
171640 GTCAAGCTTT
* *
171650 TA TA AA TA TA AA TA TA CTA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
171692 TA TA T
1 TA TA T
171697 TAGGCATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:173504 original size:17 final size:16
Alignment explanation
Indices: 173482--173515 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
173472 TTAAAGGCTA
*
173482 TTTGTATTATTTCTCTC
1 TTTGTAATATTTC-CTC
173499 TTTGTAATATTTCCTC
1 TTTGTAATATTTCCTC
173515 T
1 T
173516 ATTAGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTGTAATATTTCCTC
Found at i:179791 original size:31 final size:31
Alignment explanation
Indices: 179756--179823 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
179746 TTAAAAATAT
*
179756 GTGTCTAACGTTTTCTCCGTTAC-TATTTTAG
1 GTGTCTAACGTTTTCTCCATTACATA-TTTAG
*
179787 GTGTCTAACGTTTTCTTCATTACATATTTAG
1 GTGTCTAACGTTTTCTCCATTACATATTTAG
179818 GTGTCT
1 GTGTCT
179824 GATGTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (31 bp):
GTGTCTAACGTTTTCTCCATTACATATTTAG
Found at i:182787 original size:37 final size:37
Alignment explanation
Indices: 182732--182810 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
182722 ACGGAATATC
*
182732 GTTTTTAGCCATTGTTAAGGTACACACAAACTCAGTT
1 GTTTATAGCCATTGTTAAGGTACACACAAACTCAGTT
182769 GTTTATAGCCATTGTTAAGGTACACACAAACTCAGTT
1 GTTTATAGCCATTGTTAAGGTACACACAAACTCAGTT
182806 GTTTA
1 GTTTA
182811 AACTCGGGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (37 bp):
GTTTATAGCCATTGTTAAGGTACACACAAACTCAGTT
Found at i:189069 original size:14 final size:15
Alignment explanation
Indices: 189046--189078 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
189036 TTTTTTTATA
*
189046 AAAATTAATTAT-GT
1 AAAATAAATTATGGT
189060 AAAATAAATTATGGT
1 AAAATAAATTATGGT
189075 AAAA
1 AAAA
189079 ATTCTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (15 bp):
AAAATAAATTATGGT
Found at i:191676 original size:18 final size:18
Alignment explanation
Indices: 191653--191687 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
191643 TTCCATCCGG
*
191653 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
191671 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
191688 GTCCTGTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Done.