Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009383.1 Hibiscus syriacus cultivar Beakdansim tig00113269_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: 146338
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 2
Found at i:5018 original size:31 final size:32
Alignment explanation
Indices: 4981--5051 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 32
4971 GGGGTGTAAC
4981 TCGAAAACTT-TGAAATGAAGTTCGATTCGAT
1 TCGAAAACTTCTGAAATGAAGTTCGATTCGAT
*
5012 TTGAAAA-TTCTGAAATGAAGTTCGATTCGAT
1 TCGAAAACTTCTGAAATGAAGTTCGATTCGAT
5043 TCGAAAACT
1 TCGAAAACT
5052 CGGGAGCTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 2 0.06
31 33 0.92
32 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (32 bp):
TCGAAAACTTCTGAAATGAAGTTCGATTCGAT
Found at i:6108 original size:22 final size:22
Alignment explanation
Indices: 6083--6125 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6073 TTGGTGTTGT
* *
6083 TGTCCTTGTCATTAATCGGTGC
1 TGTCCTTGTCAATAATAGGTGC
6105 TGTCCTTGTCAATAATAGGTG
1 TGTCCTTGTCAATAATAGGTG
6126 TTTCTGGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (22 bp):
TGTCCTTGTCAATAATAGGTGC
Found at i:8297 original size:15 final size:16
Alignment explanation
Indices: 8259--8299 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
8249 ACAGAGCCTA
*
8259 TGAATCATTCAACATT
1 TGAATCATTCAACACT
*
8275 TGAATCATTCAACGCT
1 TGAATCATTCAACACT
8291 T-AATCATTC
1 TGAATCATTC
8300 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAACACT
Found at i:9337 original size:22 final size:22
Alignment explanation
Indices: 9293--9381 Score: 69
Period size: 22 Copynumber: 4.0 Consensus size: 22
9283 TTTATAATAT
* *
9293 ATATATTTTTT-ATAATGTTAAA
1 ATATATTTTTTAATTAT-TAAAA
9315 ATATATTTTTTAATTATTAAAA
1 ATATATTTTTTAATTATTAAAA
* *
9337 ATATA---ATAAATTATTATAAA
1 ATATATTTTTTAATTATTA-AAA
*
9357 ATATATTATTTTATTTATTTAAAA
1 ATATATT-TTTTAATTA-TTAAAA
9381 A
1 A
9382 ATAATATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
19 9 0.17
20 8 0.15
22 20 0.38
23 4 0.08
24 9 0.17
25 3 0.06
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (22 bp):
ATATATTTTTTAATTATTAAAA
Found at i:13497 original size:60 final size:60
Alignment explanation
Indices: 13391--13544 Score: 159
Period size: 60 Copynumber: 2.6 Consensus size: 60
13381 CTCAATTATA
* * * * *
13391 ACCTTCATTTTAAATTTGTTCTTAAACTTTTGAATATTCTAGTTTCAT-CTTCAAACTATG
1 ACCTTCATTCTAAATTAGTTCTTAAACTTTTGAACATTCTAATTTCATCCCT-AAACTATG
* * *
13451 ACTTTCATTCTAAATTAGTGT-TTAAATTTTTGAACATTTTAATTTCATCCCTAAACTATG
1 ACCTTCATTCTAAATTAGT-TCTTAAACTTTTGAACATTCTAATTTCATCCCTAAACTATG
* * ** *
13511 ACCCTCTTTCTAAATTAGGCCCTAAACTTTTGAA
1 ACCTTCATTCTAAATTAGTTCTTAAACTTTTGAA
13545 TAATCCAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
60 73 0.96
61 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (60 bp):
ACCTTCATTCTAAATTAGTTCTTAAACTTTTGAACATTCTAATTTCATCCCTAAACTATG
Found at i:14609 original size:22 final size:19
Alignment explanation
Indices: 14582--14635 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 19
14572 GTTCAGTATT
14582 CGTCCCGAAGGACTGCTATATA
1 CGTCCCGAAGGACT-C-AT-TA
* *
14604 TGTCCCGTAGGAC-CATTA
1 CGTCCCGAAGGACTCATTA
14622 CGTCCCGAAGGACT
1 CGTCCCGAAGGACT
14636 ACAGAACCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 1 0.04
22 11 0.41
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (19 bp):
CGTCCCGAAGGACTCATTA
Found at i:18460 original size:156 final size:156
Alignment explanation
Indices: 18273--18576 Score: 608
Period size: 156 Copynumber: 1.9 Consensus size: 156
18263 ATAACTAAAT
18273 CATATCATATCCTTTATACTCACATGCTCTTATATATCACATATATTTATCCTTAACTATCACTC
1 CATATCATATCCTTTATACTCACATGCTCTTATATATCACATATATTTATCCTTAACTATCACTC
18338 CTTGTCACATTTTCATGATTTGGATAGTCATCTTTACTAGCACAGAACTTTATTCTTTATCATTT
66 CTTGTCACATTTTCATGATTTGGATAGTCATCTTTACTAGCACAGAACTTTATTCTTTATCATTT
18403 TTATACTTGTATCTTTATCATTTATC
131 TTATACTTGTATCTTTATCATTTATC
18429 CATATCATATCCTTTATACTCACATGCTCTTATATATCACATATATTTATCCTTAACTATCACTC
1 CATATCATATCCTTTATACTCACATGCTCTTATATATCACATATATTTATCCTTAACTATCACTC
18494 CTTGTCACATTTTCATGATTTGGATAGTCATCTTTACTAGCACAGAACTTTATTCTTTATCATTT
66 CTTGTCACATTTTCATGATTTGGATAGTCATCTTTACTAGCACAGAACTTTATTCTTTATCATTT
18559 TTATACTTGTATCTTTAT
131 TTATACTTGTATCTTTAT
18577 TCCTCAAAGC
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 148 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (156 bp):
CATATCATATCCTTTATACTCACATGCTCTTATATATCACATATATTTATCCTTAACTATCACTC
CTTGTCACATTTTCATGATTTGGATAGTCATCTTTACTAGCACAGAACTTTATTCTTTATCATTT
TTATACTTGTATCTTTATCATTTATC
Found at i:20947 original size:22 final size:19
Alignment explanation
Indices: 20920--20988 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 19
20910 GTTCAGTATT
20920 CGTCCCGAAGGACTGCTATATA
1 CGTCCCGAAGGACT-C-AT-TA
* *
20942 TGTCCCGTAGGAC-CATTA
1 CGTCCCGAAGGACTCATTA
20960 CGTCCCGAAGGA--C--TA
1 CGTCCCGAAGGACTCATTA
20975 CGTCCCGAAGGACT
1 CGTCCCGAAGGACT
20989 ACAGAACCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
15 14 0.34
17 1 0.02
18 12 0.29
19 2 0.05
20 1 0.02
22 11 0.27
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (19 bp):
CGTCCCGAAGGACTCATTA
Found at i:20978 original size:15 final size:15
Alignment explanation
Indices: 20958--20990 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
20948 GTAGGACCAT
20958 TACGTCCCGAAGGAC
1 TACGTCCCGAAGGAC
20973 TACGTCCCGAAGGAC
1 TACGTCCCGAAGGAC
20988 TAC
1 TAC
20991 AGAACCCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.15
Consensus pattern (15 bp):
TACGTCCCGAAGGAC
Found at i:27266 original size:12 final size:12
Alignment explanation
Indices: 27247--27276 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27237 AAATAAATAT
27247 AAATATTTATAA
1 AAATATTTATAA
*
27259 ATATATTTATAA
1 AAATATTTATAA
27271 AAATAT
1 AAATAT
27277 CAAAAATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:27555 original size:14 final size:14
Alignment explanation
Indices: 27519--27558 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
27509 TAAAATGATA
* *
27519 AACGAACACAAATG
1 AACGAACATAAACG
27533 AACGAACATAAACG
1 AACGAACATAAACG
27547 AACGAACATAAA
1 AACGAACATAAA
27559 ACTAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.60, C:0.20, G:0.12, T:0.07
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:29619 original size:25 final size:24
Alignment explanation
Indices: 29591--29638 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
29581 TAAAATAATT
*
29591 AAAATAATATATT-TTAATAGTATAA
1 AAAATAA-AAATTCTTAATA-TATAA
29616 AAAATAAAAATTCTTAATATATA
1 AAAATAAAAATTCTTAATATATA
29639 TATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAATAAAAATTCTTAATATATAA
Found at i:29637 original size:2 final size:2
Alignment explanation
Indices: 29632--29672 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
29622 AAAATTCTTA
29632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29673 AATTAATCGG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34026 original size:60 final size:60
Alignment explanation
Indices: 33962--34081 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
33952 AAATTGTCCC
* * * * *
33962 CTGATTATA-AAATATTATTTTATTGAGTCATTTGATTATTAAAAGTTATAAAATGATCAT
1 CTGATTATAGAAA-ATTACTTTACTAAGTCATTTGACTATTAAAAATTATAAAATGATCAT
* * * *
34022 CTGATTATAGAGAGTTACTTTGCTAAGTCCTTTGACTATTAAAAATTATAAAATGATCAT
1 CTGATTATAGAAAATTACTTTACTAAGTCATTTGACTATTAAAAATTATAAAATGATCAT
34082 TTGAGTATTC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 48 0.96
61 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (60 bp):
CTGATTATAGAAAATTACTTTACTAAGTCATTTGACTATTAAAAATTATAAAATGATCAT
Found at i:34407 original size:60 final size:60
Alignment explanation
Indices: 34298--34410 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
34288 TCGAATGACA
* * * *
34298 ATTTTATAACTTTTAATAGTCGAGTGACTAAACAAAATAATTCTCTATAGTTGAAAGATC
1 ATTTTATAACTTTCAATAGTCAAATGACTAAACAAAACAATTCTCTATAGTTGAAAGATC
* * * *
34358 ATTTTGTAACTTTCAATAGTCAAATGACTCAATAAAAC-ATTATCTTATAGTTG
1 ATTTTATAACTTTCAATAGTCAAATGACTAAACAAAACAATTCTC-TATAGTTG
34411 GAGACTATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
59 5 0.11
60 39 0.89
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (60 bp):
ATTTTATAACTTTCAATAGTCAAATGACTAAACAAAACAATTCTCTATAGTTGAAAGATC
Found at i:36032 original size:21 final size:21
Alignment explanation
Indices: 36006--36046 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
35996 GTAAAAAAAT
*
36006 TACTTAAAACATTATTATTTC
1 TACTTAAAACATTAATATTTC
36027 TACTTAAAACATTAATATTT
1 TACTTAAAACATTAATATTT
36047 TTTAACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (21 bp):
TACTTAAAACATTAATATTTC
Found at i:54426 original size:43 final size:43
Alignment explanation
Indices: 54378--54463 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
54368 TATCCACTAC
*
54378 TTAGTACCATGTCTTTAGCATGCTCATGTTTATGAAACTCATA
1 TTAGTACCATGTCTTTAGCATGCTCATGTTTATGAAACCCATA
* *
54421 TTAGTATCATGTCTTTAGCATGCTTATGTTTATGAAACCCATA
1 TTAGTACCATGTCTTTAGCATGCTCATGTTTATGAAACCCATA
54464 ATGCTGCTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (43 bp):
TTAGTACCATGTCTTTAGCATGCTCATGTTTATGAAACCCATA
Found at i:55360 original size:25 final size:25
Alignment explanation
Indices: 55329--55384 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
55319 ATATCAATAT
55329 TATTAAGAAAGATATCGACAAGTTA
1 TATTAAGAAAGATATCGACAAGTTA
55354 TATTAAGAAAGATATCGACAAGTTA
1 TATTAAGAAAGATATCGACAAGTTA
55379 TATTAA
1 TATTAA
55385 AATGTGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.30
Consensus pattern (25 bp):
TATTAAGAAAGATATCGACAAGTTA
Found at i:63137 original size:2 final size:2
Alignment explanation
Indices: 63130--63159 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
63120 ATCGATGCCT
63130 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
63160 ATGTCTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:66373 original size:3 final size:3
Alignment explanation
Indices: 66356--66406 Score: 75
Period size: 3 Copynumber: 16.3 Consensus size: 3
66346 ACCTCTCTTT
*
66356 TAA TAA TTA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
66403 TAA T
1 TAA T
66407 TTAAGATTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 39 0.89
4 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:70298 original size:120 final size:120
Alignment explanation
Indices: 70074--70313 Score: 437
Period size: 120 Copynumber: 2.0 Consensus size: 120
70064 AATACGGAGA
*
70074 TAGGCCAAGTGTGAAACATTAATAAATCATATAATAATATAGCATAATTTCAAAATTAGCCCCCA
1 TAGGCCAAGTGTGAAACATTAATAAATCATATAATAATAAAGCATAATTTCAAAATTAGCCCCCA
70139 CGTTTACTAAAATGATTATTTTACCCCTATTCTATTTTTTTGGAGCATTTGACCC
66 CGTTTACTAAAATGATTATTTTACCCCTATTCTATTTTTTTGGAGCATTTGACCC
*
70194 TAGGCCAAGTGTGAAACATTAATAAATCATATAATAATAAAGCATAATTTCAAAATTATCCCCCA
1 TAGGCCAAGTGTGAAACATTAATAAATCATATAATAATAAAGCATAATTTCAAAATTAGCCCCC-
*
70259 ACGTTTACTAAAATGATTATTTTGCCCCTATTCTA-TTTTTTGGAGCATTTGACCC
65 ACGTTTACTAAAATGATTATTTTACCCCTATTCTATTTTTTTGGAGCATTTGACCC
70314 CCAAAGTTTC
Statistics
Matches: 116, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
120 82 0.71
121 34 0.29
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (120 bp):
TAGGCCAAGTGTGAAACATTAATAAATCATATAATAATAAAGCATAATTTCAAAATTAGCCCCCA
CGTTTACTAAAATGATTATTTTACCCCTATTCTATTTTTTTGGAGCATTTGACCC
Found at i:70798 original size:21 final size:20
Alignment explanation
Indices: 70771--70868 Score: 79
Period size: 21 Copynumber: 4.8 Consensus size: 20
70761 AATCAGTTTC
70771 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
70792 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
70813 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
70833 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
70854 GAAAATCGCAACGCG
1 CAAAATCGCAACGCG
70869 TATCCGTAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 15 0.25
21 45 0.75
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:70879 original size:20 final size:20
Alignment explanation
Indices: 70836--70969 Score: 153
Period size: 20 Copynumber: 6.7 Consensus size: 20
70826 CGATTTTCCA
* ** *
70836 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
70856 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
70876 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
70896 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * * *
70916 AAAGCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
70936 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
70957 AAATCGCAACGCG
1 AAATCGCAACGCG
70970 ATATTTAAAG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.01
20 79 0.83
21 14 0.15
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:71391 original size:33 final size:33
Alignment explanation
Indices: 71352--71422 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
71342 TTCACTTAGA
*
71352 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
71385 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
71418 TTTCA
1 TTTCA
71423 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:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:71546 original size:20 final size:20
Alignment explanation
Indices: 71502--71611 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
71492 TGCAGAAGAG
*
71502 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
71523 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
71543 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
71564 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
71578 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
71597 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
71612 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:71559 original size:41 final size:38
Alignment explanation
Indices: 71495--71611 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
71485 TTCAATTTGC
* *
71495 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
71533 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
71574 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
71607 AGAAT
1 AGAAT
71612 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:71581 original size:14 final size:14
Alignment explanation
Indices: 71562--71618 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
71552 GAGAAATGAA
71562 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
71576 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
71595 AATCGCAACGAGAG
1 AATCGCAACGAGAG
71609 AATCGCAACG
1 AATCGCAACG
71619 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:71594 original size:33 final size:33
Alignment explanation
Indices: 71554--71634 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
71544 CGCAACGAGA
71554 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
71587 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
71620 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
71635 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:71652 original size:19 final size:19
Alignment explanation
Indices: 71630--71727 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
71620 GAAACCAAAA
*
71630 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
71649 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
71663 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
71682 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
71696 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
71715 TCGAGTTGCGATT
1 TCGCGTTGCGATT
71728 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 19 0.30
16 6 0.10
17 6 0.10
19 32 0.51
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:71671 original size:14 final size:14
Alignment explanation
Indices: 71652--71741 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
71642 TTTCATTTCG
71652 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
71666 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
71685 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
71699 AGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
71716 CGAGTTGCGATTCTCT
1 C--GTTGCGATTCTCT
71732 CGTTGCGATT
1 CGTTGCGATT
71742 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 26 0.43
16 9 0.15
17 8 0.13
19 17 0.28
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:71677 original size:33 final size:33
Alignment explanation
Indices: 71635--71749 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
71625 CAAAATCGCA
71635 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
71668 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
71701 TTGCGATTTTCATTTCGAGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
71734 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
71750 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:73607 original size:93 final size:93
Alignment explanation
Indices: 73448--74009 Score: 1099
Period size: 93 Copynumber: 6.1 Consensus size: 93
73438 TAGATTGCTT
*
73448 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73513 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
73541 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73606 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
73634 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73699 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
73727 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73792 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
73820 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73885 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
73913 AGTAAATTTGTTCGGTTGCTCCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
73978 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
74005 AGTAA
1 AGTAA
74010 TGCAATCCAT
Statistics
Matches: 467, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.01
93 461 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:74097 original size:19 final size:19
Alignment explanation
Indices: 74057--74166 Score: 105
Period size: 19 Copynumber: 6.3 Consensus size: 19
74047 TAGTTTACTT
* *
74057 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
74077 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
74096 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
74110 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
74129 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
74143 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
74162 TCGCA
1 TCGCA
74167 TTGCGATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.27
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 29 0.39
20 13 0.18
ACGTcount: A:0.45, C:0.30, G:0.16, T:0.08
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:74117 original size:33 final size:32
Alignment explanation
Indices: 74074--74166 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 32
74064 ACGAAACTTA
74074 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
74106 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
74139 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
74167 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 2 0.03
33 57 0.97
ACGTcount: A:0.46, C:0.30, G:0.17, T:0.06
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:74184 original size:19 final size:19
Alignment explanation
Indices: 74162--74296 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
74152 GAAACCAAAA
*
74162 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
74181 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
*
74197 T--CGTTGCGATTTTCAAT
1 TCGCGTTGCGATTTTCATT
* *
74214 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
74230 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
74247 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
74266 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
74286 TCGTGTTGCGA
1 TCGCGTTGCGA
74297 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 10 0.11
17 10 0.11
19 46 0.49
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:74203 original size:14 final size:14
Alignment explanation
Indices: 74184--74240 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
74174 TTTCATTTCG
74184 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
74198 CGTTGCGATTTTCAATT
1 CGTTGCGA--TTC-TTT
*
74215 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
74231 CGTTGCGATT
1 CGTTGCGATT
74241 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 7 0.20
19 6 0.17
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:74209 original size:33 final size:33
Alignment explanation
Indices: 74167--74259 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
74157 CAAAATCGCA
*
74167 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
* *
74200 TTGCGATTTTCAATTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
74233 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
74260 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:76237 original size:14 final size:14
Alignment explanation
Indices: 76218--76253 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
76208 ATTGTTTAAT
76218 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
76232 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
76246 TGATTTGT
1 TGATTTGT
76254 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:76384 original size:19 final size:19
Alignment explanation
Indices: 76360--76469 Score: 114
Period size: 19 Copynumber: 6.3 Consensus size: 19
76350 AAAATTGACT
76360 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
76379 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
76398 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
76412 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
76431 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
* *
76445 ATCGCAATGCAAAATTAAA
1 ATCGCAATGCGAAATGAAA
76464 ATCGCA
1 ATCGCA
76470 TTGTGATTCT
Statistics
Matches: 75, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
14 20 0.27
15 2 0.03
16 3 0.04
17 4 0.05
18 2 0.03
19 44 0.59
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:76416 original size:14 final size:14
Alignment explanation
Indices: 76397--76451 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
76387 GCGAAATGAA
76397 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
76411 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
76430 AATCGCAACGAGAG
1 AATCGCAACGAGAG
76444 AATCGCAA
1 AATCGCAA
76452 TGCAAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:76420 original size:33 final size:33
Alignment explanation
Indices: 76378--76469 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
76368 GCGAAATGAA
76378 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
76411 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
76444 AATCGCAATGCAAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
76470 TTGTGATTCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:76524 original size:19 final size:19
Alignment explanation
Indices: 76484--76635 Score: 198
Period size: 19 Copynumber: 8.4 Consensus size: 19
76474 GATTCTCCCG
76484 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
76504 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
76523 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
76537 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
76556 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
76575 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
76595 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
76609 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
76628 TTGCGATT
1 TTGCGATT
76636 CTCTCGTTGC
Statistics
Matches: 117, Mismatches: 4, Indels: 23
0.81 0.03 0.16
Matches are distributed among these distances:
14 17 0.15
16 9 0.08
17 8 0.07
18 1 0.01
19 51 0.44
20 31 0.26
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:76545 original size:53 final size:52
Alignment explanation
Indices: 76465--76649 Score: 236
Period size: 53 Copynumber: 3.5 Consensus size: 52
76455 AAAATTAAAA
* *
76465 TCGCATTGTGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
76518 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
* *
76570 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA--T-G--TTGGGATTTTCATT
1 TCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTTCGCATTGCGATTTTCATT
76623 TCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTCTCTCGTTGCGATT
76650 GTAATTTCCG
Statistics
Matches: 121, Mismatches: 5, Indels: 18
0.84 0.03 0.12
Matches are distributed among these distances:
47 8 0.07
49 2 0.02
50 2 0.02
51 3 0.02
52 29 0.24
53 56 0.46
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.10
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:76601 original size:72 final size:72
Alignment explanation
Indices: 76484--76635 Score: 254
Period size: 72 Copynumber: 2.1 Consensus size: 72
76474 GATTCTCCCG
76484 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTC-TCGTTGCGATTTTC
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCAT-GTTGCGATTTTC
76548 ATTTCGCA
65 ATTTCGCA
* *
76556 TTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTC
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCATGTTGCGATTTTC
76620 ATTTCGCA
65 ATTTCGCA
76628 TTGCGATT
1 TTGCGATT
76636 CTCTCGTTGC
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
71 19 0.25
72 56 0.74
73 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (72 bp):
TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCATGTTGCGATTTTCA
TTTCGCA
Found at i:76657 original size:33 final size:33
Alignment explanation
Indices: 76504--76649 Score: 195
Period size: 33 Copynumber: 4.2 Consensus size: 33
76494 CATTTCCGCA
76504 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
76537 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
76573 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
76609 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
76642 TTGCGATT
1 TTGCGATT
76650 GTAATTTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.01
33 47 0.47
34 14 0.14
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:79113 original size:24 final size:24
Alignment explanation
Indices: 79079--79125 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
79069 CTGAAACATC
79079 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
79103 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
79126 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:79836 original size:20 final size:20
Alignment explanation
Indices: 79808--80077 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
79798 AAATTTCAGT
* * *
79808 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
79828 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
79848 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
79868 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
79888 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
79908 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
79928 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
79948 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
79968 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
79988 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
80008 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
80028 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
80048 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
80068 GTTGCGATTT
1 GTTGCGATTT
80078 TGGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:80094 original size:21 final size:21
Alignment explanation
Indices: 80064--80146 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
80054 ATTTTCATAT
*
80064 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
80085 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
80106 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
80127 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
80147 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:80137 original size:42 final size:43
Alignment explanation
Indices: 80044--80142 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
80034 ATTTATGTGT
* *
80044 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
80085 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
80127 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
80143 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:91612 original size:18 final size:18
Alignment explanation
Indices: 91589--91623 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91579 TTGATATATG
*
91589 AATTTAGTTTTAAAATTC
1 AATTTAATTTTAAAATTC
*
91607 AATTTAATTTTTAAATT
1 AATTTAATTTTAAAATT
91624 TTATTTGTTC
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:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
AATTTAATTTTAAAATTC
Found at i:91758 original size:16 final size:15
Alignment explanation
Indices: 91733--91762 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
91723 GATTATCTTT
91733 AAAAATAAAATTATC
1 AAAAATAAAATTATC
91748 AAAATATAAAATTAT
1 AAAA-ATAAAATTAT
91763 TTATCATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATAAAATTATC
Found at i:92237 original size:23 final size:24
Alignment explanation
Indices: 92211--92256 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
92201 ACTTTATATG
92211 ATAT-ATATATATTACATATAAAA
1 ATATAATATATATTACATATAAAA
*
92234 ATATAAATATATATTATATATAA
1 ATAT-AATATATATTACATATAA
92257 TTATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
25 16 0.80
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATAATATATATTACATATAAAA
Found at i:93722 original size:11 final size:11
Alignment explanation
Indices: 93685--93740 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
93675 AAATTTTAAT
93685 TTTTTTATATA
1 TTTTTTATATA
* *
93696 TATTTTTGTGTA
1 T-TTTTTATATA
93708 -TTTTTATATA
1 TTTTTTATATA
93718 TTTTTTA-A-A
1 TTTTTTATATA
*
93727 TTTTTTATAAA
1 TTTTTTATATA
93738 TTT
1 TTT
93741 ACTCTTAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 8 0.22
10 10 0.27
11 11 0.30
12 8 0.22
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:93731 original size:20 final size:20
Alignment explanation
Indices: 93678--93740 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
93668 CCTTTGAAAA
*
93678 TTTTAATTTTTTTATATATAT
1 TTTTAAATTTTTTATATAT-T
***
93699 TTTTGTGTATTTTTATATATT
1 TTTTAAAT-TTTTTATATATT
*
93720 TTTTAAATTTTTTATAAATT
1 TTTTAAATTTTTTATATATT
93740 T
1 T
93741 ACTCTTAAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 12 0.35
21 11 0.32
22 11 0.32
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTAAATTTTTTATATATT
Found at i:96270 original size:2 final size:2
Alignment explanation
Indices: 96263--96300 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
96253 TTTAGATAAA
96263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96301 TGATCGGATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96436 original size:4 final size:4
Alignment explanation
Indices: 96427--96467 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
96417 GAACATACTA
96427 ATTT ATTT ATTT ATTT ATTAT ATTT ATTT ATTCT -TTT ATTT
1 ATTT ATTT ATTT ATTT ATT-T ATTT ATTT ATT-T ATTT ATTT
96468 TAGTTAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 28 0.82
5 5 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:96451 original size:21 final size:21
Alignment explanation
Indices: 96427--96466 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
96417 GAACATACTA
96427 ATTTATTTATT-TATTTATTAT
1 ATTTATTTATTCT-TTTATTAT
96448 ATTTATTTATTCTTTTATT
1 ATTTATTTATTCTTTTATT
96467 TTAGTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTATTTATTCTTTTATTAT
Found at i:96751 original size:24 final size:25
Alignment explanation
Indices: 96724--96771 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
96714 TGGATTGAAA
* *
96724 TTAAACAAT-AATTATCTAATTTTC
1 TTAAAAAATGAATAATCTAATTTTC
*
96748 TTAAAAAATGAATAATTTAATTTT
1 TTAAAAAATGAATAATCTAATTTT
96772 GAAATATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (25 bp):
TTAAAAAATGAATAATCTAATTTTC
Found at i:97962 original size:30 final size:30
Alignment explanation
Indices: 97928--98038 Score: 120
Period size: 30 Copynumber: 3.7 Consensus size: 30
97918 AACAAGTTTA
* *
97928 TGTTCGTTTTCATTTATTTATTTTTAAATG
1 TGTTCGTGTTCGTTTATTTATTTTTAAATG
* *
97958 TGTTCGTGTTCGTTTA--AATTTTCAATATTG
1 TGTTCGTGTTCGTTTATTTATTTTTAA-A-TG
* *
97988 TGTTCATGTTCGTTTATTT-TTTTTAAAGG
1 TGTTCGTGTTCGTTTATTTATTTTTAAATG
*
98017 TGTTCGTGTTTGTTTATTTATT
1 TGTTCGTGTTCGTTTATTTATT
98039 GTTCACAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
28 7 0.11
29 19 0.29
30 34 0.52
31 6 0.09
ACGTcount: A:0.17, C:0.07, G:0.15, T:0.60
Consensus pattern (30 bp):
TGTTCGTGTTCGTTTATTTATTTTTAAATG
Found at i:98086 original size:23 final size:24
Alignment explanation
Indices: 98060--98112 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
98050 AGTTCGTTTA
98060 GTGTTCGCTTA-ATGCTCACGAAC
1 GTGTTCGCTTATATGCTCACGAAC
* * *
98083 GTGTTCGTTTATATGTTCATGAAC
1 GTGTTCGCTTATATGCTCACGAAC
98107 GTGTTC
1 GTGTTC
98113 ATGAACATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (24 bp):
GTGTTCGCTTATATGCTCACGAAC
Found at i:98111 original size:12 final size:12
Alignment explanation
Indices: 98095--98124 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
98085 GTTCGTTTAT
98095 ATGTTCATGAAC
1 ATGTTCATGAAC
*
98107 GTGTTCATGAAC
1 ATGTTCATGAAC
98119 ATGTTC
1 ATGTTC
98125 GTTTAGCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (12 bp):
ATGTTCATGAAC
Found at i:99178 original size:41 final size:43
Alignment explanation
Indices: 99097--99182 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 43
99087 ATATTTTTAT
*
99097 AATAATATATTGTATAACTATTTATTATAGTTTAAATAATTAA
1 AATAATATATTGTATAACTAGTTATTATAGTTTAAATAATTAA
* * *
99140 AATAATATATTTTATAA-TAGTT-TTATATTTTCAATAATTAA
1 AATAATATATTGTATAACTAGTTATTATAGTTTAAATAATTAA
99181 AA
1 AA
99183 ATATTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 19 0.49
42 4 0.10
43 16 0.41
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AATAATATATTGTATAACTAGTTATTATAGTTTAAATAATTAA
Found at i:99195 original size:18 final size:20
Alignment explanation
Indices: 99164--99204 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
99154 TAATAGTTTT
99164 ATATTTTCAATAAT-TAAAA
1 ATATTTTCAATAATATAAAA
99183 ATATTTT-AATAATATAAAA
1 ATATTTTCAATAATATAAAA
99202 ATA
1 ATA
99205 AAATTCCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATTTTCAATAATATAAAA
Found at i:104190 original size:21 final size:21
Alignment explanation
Indices: 104165--104212 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
104155 AGAAAAAGGA
104165 AAAAAAATAAAAATAATTT-AG
1 AAAAAAA-AAAAATAATTTGAG
* * *
104186 AAAAAGAAAAACTATTTTGAG
1 AAAAAAAAAAAATAATTTGAG
104207 AAAAAA
1 AAAAAA
104213 GCGTCAGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (21 bp):
AAAAAAAAAAAATAATTTGAG
Found at i:104195 original size:19 final size:21
Alignment explanation
Indices: 104167--104211 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
104157 AAAAAGGAAA
*
104167 AAAAATAAAAA-TAATTT-AG
1 AAAAAGAAAAACTAATTTGAG
*
104186 AAAAAGAAAAACTATTTTGAG
1 AAAAAGAAAAACTAATTTGAG
104207 AAAAA
1 AAAAA
104212 AGCGTCAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 5 0.23
21 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (21 bp):
AAAAAGAAAAACTAATTTGAG
Found at i:104311 original size:20 final size:20
Alignment explanation
Indices: 104286--104474 Score: 132
Period size: 20 Copynumber: 9.2 Consensus size: 20
104276 AATGACCAAC
*
104286 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* *
104306 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
104326 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
***
104346 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
*
104367 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* ***
104388 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
* *
104409 AAGAATCGCAATGCGATTCAG
1 AA-AATCGCAACGCGATTAAG
* *
104430 AAAATCACAACGCGATAAAG
1 AAAATCGCAACGCGATTAAG
* *
104450 AAAATCGCAATGCGATTCAG
1 AAAATCGCAACGCGATTAAG
104470 AAAAT
1 AAAAT
104475 GAGTAAATTC
Statistics
Matches: 130, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
18 1 0.01
20 90 0.69
21 12 0.09
22 27 0.21
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:104376 original size:22 final size:22
Alignment explanation
Indices: 104348--104425 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
104338 GTCAAAAGAA
104348 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATCTTCCAAG
* *
104370 AATCGCAATGCGA--TT-AAGAG
1 AATCGCAACGCGATCTTCCA-AG
104390 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATCTTCCAAG
*
104412 AATCGCAATGCGAT
1 AATCGCAACGCGAT
104426 TCAGAAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 16 0.34
22 29 0.62
23 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (22 bp):
AATCGCAACGCGATCTTCCAAG
Found at i:104394 original size:42 final size:42
Alignment explanation
Indices: 104343--104445 Score: 179
Period size: 42 Copynumber: 2.5 Consensus size: 42
104333 CAACGGTCAA
104343 AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
*
104385 AAGAGAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
1 AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
* *
104427 CAGAAAATCACAACGCGAT
1 AAGAAAATCGCAACGCGAT
104446 AAAGAAAATC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.17
Consensus pattern (42 bp):
AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATT
Found at i:104467 original size:40 final size:42
Alignment explanation
Indices: 104344--104474 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 42
104334 AACGGTCAAA
* *** *
104344 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTA
1 AGAAAATCACAACGCGATCAAACAAGAATCGCAATGCGATTC
* * ***
104386 AGAGAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTC
1 AGAAAATCACAACGCGATCAAACAAGAATCGCAATGCGATTC
*
104428 AGAAAATCACAACGCGAT-AAAGAA-AATCGCAATGCGATTC
1 AGAAAATCACAACGCGATCAAACAAGAATCGCAATGCGATTC
104468 AGAAAAT
1 AGAAAAT
104475 GAGTAAATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 23 0.28
41 2 0.02
42 56 0.69
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (42 bp):
AGAAAATCACAACGCGATCAAACAAGAATCGCAATGCGATTC
Found at i:104608 original size:5 final size:5
Alignment explanation
Indices: 104586--104630 Score: 72
Period size: 5 Copynumber: 8.6 Consensus size: 5
104576 ACCATTACCA
104586 CGACC ACGACC ACGACC CGACC CGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGACC CGA
104631 GACGAGACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
5 28 0.72
6 11 0.28
ACGTcount: A:0.24, C:0.56, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:105130 original size:6 final size:6
Alignment explanation
Indices: 105121--105171 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
105111 CGCCGTCTCG
105121 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
105169 GGT
1 GGT
105172 AATACGTGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:105302 original size:20 final size:20
Alignment explanation
Indices: 105277--105428 Score: 152
Period size: 20 Copynumber: 7.3 Consensus size: 20
105267 ATTTTCTGAA
105277 TGCGATTCTTGGAATCGCGT
1 TGCGATTCTTGGAATCGCGT
105297 TGCGATTTTCTT--AATCGCGT
1 TGCGA--TTCTTGGAATCGCGT
105317 TGCGATTCTTGGAAGATCGCGT
1 TGCGATTCTTGG-A-ATCGCGT
105339 TGCGATAT-TCT-GAATCGCGT
1 TGCGAT-TCT-TGGAATCGCGT
105359 TGCGATTCTTGGAAGATCGCGT
1 TGCGATTCTTGG-A-ATCGCGT
* *
105381 TGCGATT-TTATGAATCGCAT
1 TGCGATTCTT-GGAATCGCGT
105401 TGCGATTCTTGGAAGATCGCGT
1 TGCGATTCTTGG-A-ATCGCGT
105423 TGCGAT
1 TGCGAT
105429 CTTCTTTTCA
Statistics
Matches: 112, Mismatches: 4, Indels: 30
0.77 0.03 0.21
Matches are distributed among these distances:
18 5 0.04
19 2 0.02
20 47 0.42
21 9 0.08
22 47 0.42
23 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
TGCGATTCTTGGAATCGCGT
Found at i:105355 original size:42 final size:42
Alignment explanation
Indices: 105277--105433 Score: 255
Period size: 42 Copynumber: 3.8 Consensus size: 42
105267 ATTTTCTGAA
*
105277 TGCGATTCTTGG-A-ATCGCGTTGCGATTTTCTTAATCGCGT
1 TGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGT
*
105317 TGCGATTCTTGGAAGATCGCGTTGCGATATTCTGAATCGCGT
1 TGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGT
* *
105359 TGCGATTCTTGGAAGATCGCGTTGCGATTTTATGAATCGCAT
1 TGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGT
*
105401 TGCGATTCTTGGAAGATCGCGTTGCGATCTTCT
1 TGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
105434 TTTCAACGTT
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 12 0.11
41 1 0.01
42 95 0.88
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (42 bp):
TGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGT
Found at i:105444 original size:84 final size:82
Alignment explanation
Indices: 105277--105488 Score: 261
Period size: 84 Copynumber: 2.6 Consensus size: 82
105267 ATTTTCTGAA
*
105277 TGCGATTCTTGG-AATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTG
1 TGCGATTCTTGGAAATCGCGTTGCGATTTT-TGAATCGCGTTGCGATTCTTGGAAGATCGCGTTG
*
105341 CGATATTCTGAATCGCGT
65 CGATATTCTGAATCACGT
*
105359 TGCGATTCTTGGAAGATCGCGTTGCGATTTTATGAATCGCATTGCGATTCTTGGAAGATCGCGTT
1 TGCGATTCTTGGAA-ATCGCGTTGCGATTTT-TGAATCGCGTTGCGATTCTTGGAAGATCGCGTT
* **
105424 GCGATCTTCT-TTTCAACGT
64 GCGATATTCTGAATC-ACGT
* ** *
105443 TGCGCTT-TTCTAAATCGCGTTGCG-GTTTTGATATCGCGTTGCGATT
1 TGCGATTCTTGGAAATCGCGTTGCGATTTTTGA-ATCGCGTTGCGATT
105489 TTGTTGGTCA
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
80 3 0.03
81 16 0.14
82 23 0.20
83 7 0.06
84 65 0.57
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (82 bp):
TGCGATTCTTGGAAATCGCGTTGCGATTTTTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGC
GATATTCTGAATCACGT
Found at i:105446 original size:42 final size:40
Alignment explanation
Indices: 105277--105488 Score: 184
Period size: 42 Copynumber: 5.2 Consensus size: 40
105267 ATTTTCTGAA
*
105277 TGCGATTCTTGG-A-ATCGCGTTGCGATTTTCTTAATCGCGT
1 TGCGATTCTTGGAAGATCGCGTTGCGA-TTTCTT-ATCACGT
* *
105317 TGCGATTCTTGGAAGATCGCGTTGCGATATTCTGAATCGCGT
1 TGCGATTCTTGGAAGATCGCGTTGCGAT-TTCT-TATCACGT
* *
105359 TGCGATTCTTGGAAGATCGCGTTGCGATTT-TATGAATCGCAT
1 TGCGATTCTTGGAAGATCGCGTTGCGATTTCT-T--ATCACGT
*
105401 TGCGATTCTTGGAAGATCGCGTTGCGATCTTCTTTTCAACGT
1 TGCGATTCTTGGAAGATCGCGTTGCGAT-TTCTTATC-ACGT
* ** * *
105443 TGCGCTT-TTCTAA-ATCGCGTTGCGGTTT-TGATATCGCGT
1 TGCGATTCTTGGAAGATCGCGTTGCGATTTCT--TATCACGT
105482 TGCGATT
1 TGCGATT
105489 TTGTTGGTCA
Statistics
Matches: 147, Mismatches: 14, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
38 1 0.01
39 11 0.07
40 28 0.19
41 10 0.07
42 93 0.63
43 3 0.02
44 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (40 bp):
TGCGATTCTTGGAAGATCGCGTTGCGATTTCTTATCACGT
Found at i:105463 original size:20 final size:20
Alignment explanation
Indices: 105289--105490 Score: 147
Period size: 20 Copynumber: 9.8 Consensus size: 20
105279 CGATTCTTGG
*
105289 AATCGCGTTGCGATTTTCTT
1 AATCGCGTTGCGATTTTCTA
**
105309 AATCGCGTTGCGATTCTTGGA
1 AATCGCGTTGCGATT-TTCTA
* *
105330 AGATCGCGTTGCGATATTCTG
1 A-ATCGCGTTGCGATTTTCTA
**
105351 AATCGCGTTGCGATTCTTGGA
1 AATCGCGTTGCGATT-TTCTA
* *
105372 AGATCGCGTTGCGATTTTATG
1 A-ATCGCGTTGCGATTTTCTA
* **
105393 AATCGCATTGCGATTCTTGGA
1 AATCGCGTTGCGATT-TTCTA
*
105414 AGATCGCGTTGCGATCTTCT-
1 A-ATCGCGTTGCGATTTTCTA
** * *
105434 TTTCAACGTTGCGCTTTTCTA
1 AATC-GCGTTGCGATTTTCTA
* *
105455 AATCGCGTTGCGGTTTT-GA
1 AATCGCGTTGCGATTTTCTA
*
105474 TATCGCGTTGCGATTTT
1 AATCGCGTTGCGATTTT
105491 GTTGGTCATT
Statistics
Matches: 140, Mismatches: 34, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
19 18 0.13
20 64 0.46
21 19 0.14
22 39 0.28
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
AATCGCGTTGCGATTTTCTA
Found at i:108255 original size:31 final size:31
Alignment explanation
Indices: 108218--108282 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
108208 TAACCACATT
108218 TTAATTAAATAAAAATAAAAGTGATCATATA
1 TTAATTAAATAAAAATAAAAGTGATCATATA
* *
108249 TTAATTAAATAAAAATGAATGTGATCATATA
1 TTAATTAAATAAAAATAAAAGTGATCATATA
108280 TTA
1 TTA
108283 TGATTTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (31 bp):
TTAATTAAATAAAAATAAAAGTGATCATATA
Found at i:109852 original size:2 final size:2
Alignment explanation
Indices: 109845--109884 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
109835 AGGAATTAAG
*
109845 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109885 GTATGTATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110188 original size:23 final size:24
Alignment explanation
Indices: 110137--110189 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
110127 GACCGAGGCT
*
110137 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGGCA
110161 A-CCGAGCGAGCTATGCGAGGG-A
1 ATCCGAGCGAGCTATGCGAGGGCA
110183 ATCCGAG
1 ATCCGAG
110190 GGCAACCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.07
23 24 0.89
24 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.36, T:0.11
Consensus pattern (24 bp):
ATCCGAGCGAGCTATGCGAGGGCA
Found at i:110295 original size:33 final size:33
Alignment explanation
Indices: 110235--110315 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
110225 GGCGACTACC
* *
110235 CTCGTTCGGTTG--CTCGGATTCCCTCGCATAG
1 CTCGTTCGGTTGCCCTCGGATGCCATCGCATAG
*
110266 CTCGCTCGGTTGCCCTCGGATGCCATCGCATAG
1 CTCGTTCGGTTGCCCTCGGATGCCATCGCATAG
*
110299 CTCGTTCGGATGCCCTC
1 CTCGTTCGGTTGCCCTC
110316 ACATAGCTCG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 11 0.26
33 32 0.74
ACGTcount: A:0.10, C:0.36, G:0.26, T:0.28
Consensus pattern (33 bp):
CTCGTTCGGTTGCCCTCGGATGCCATCGCATAG
Found at i:110307 original size:23 final size:23
Alignment explanation
Indices: 110281--110359 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 23
110271 TCGGTTGCCC
110281 TCGGATGCCATCGCATAGCTCGT
1 TCGGATGCCATCGCATAGCTCGT
* *
110304 TCGGATGCCCTCACATAGCTCGT
1 TCGGATGCCATCGCATAGCTCGT
* *
110327 TCGGATGGCATCGGAT-GCT--T
1 TCGGATGCCATCGCATAGCTCGT
*
110347 TCGGATGGCATCG
1 TCGGATGCCATCG
110360 GATGCTTTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 14 0.28
22 3 0.06
23 33 0.66
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.27
Consensus pattern (23 bp):
TCGGATGCCATCGCATAGCTCGT
Found at i:110351 original size:20 final size:20
Alignment explanation
Indices: 110326--110380 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
110316 ACATAGCTCG
110326 TTCGGATGGCATCGGATGCT
1 TTCGGATGGCATCGGATGCT
110346 TTCGGATGGCATCGGATGCT
1 TTCGGATGGCATCGGATGCT
*
110366 TTCGGATGGCCTCGG
1 TTCGGATGGCATCGG
110381 TCGGATGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.13, C:0.22, G:0.36, T:0.29
Consensus pattern (20 bp):
TTCGGATGGCATCGGATGCT
Found at i:110386 original size:14 final size:14
Alignment explanation
Indices: 110367--110394 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
110357 TCGGATGCTT
110367 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
110381 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
110395 ATGTCCAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:110734 original size:29 final size:29
Alignment explanation
Indices: 110692--110751 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
110682 AACACCCCAC
110692 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
*
110721 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
110750 AG
1 AG
110752 CTCACTGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:111665 original size:23 final size:22
Alignment explanation
Indices: 111639--111681 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
111629 TATACCATTT
111639 ATTTACACGTTAAAAAAATTAAG
1 ATTTA-ACGTTAAAAAAATTAAG
* *
111662 ATTTATCTTTAAAAAAATTA
1 ATTTAACGTTAAAAAAATTA
111682 GATAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (22 bp):
ATTTAACGTTAAAAAAATTAAG
Found at i:113129 original size:19 final size:19
Alignment explanation
Indices: 113107--113145 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
113097 TGGGTTAGGG
*
113107 TTAGGGATTTAGGTTTTTT
1 TTAGGAATTTAGGTTTTTT
*
113126 TTAGGAATTTGGGTTTTTT
1 TTAGGAATTTAGGTTTTTT
113145 T
1 T
113146 GTAATTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (19 bp):
TTAGGAATTTAGGTTTTTT
Found at i:113144 original size:18 final size:19
Alignment explanation
Indices: 113107--113145 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
113097 TGGGTTAGGG
* *
113107 TTAGGGATTTAGGTTTTTT
1 TTAGGAATTTAGGGTTTTT
113126 TTAGGAATTT-GGGTTTTT
1 TTAGGAATTTAGGGTTTTT
113144 TT
1 TT
113146 GTAATTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (19 bp):
TTAGGAATTTAGGGTTTTT
Found at i:113554 original size:35 final size:34
Alignment explanation
Indices: 113510--113622 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
113500 AAAACAATTC
* *
113510 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCTAAAATAAT
113545 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCTAAAATAAT
* *
113580 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCTAAAATAAT
113615 TCAATTTC
1 TCAATTTC
113623 TGTCTTTTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.90
36 6 0.08
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCTAAAATAAT
Found at i:114682 original size:35 final size:34
Alignment explanation
Indices: 114634--114745 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 34
114624 ATTTCTCCTT
*
114634 AAATTGAAGTATTTTAGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTAGGGTTTAGAATG
*
114669 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTAGGGTTTAGAATG
* *
114704 AAATTGAATTACTTTGAAATTT-GGGATTTATAATG
1 AAATTGAATTATTTTG-AATTTAGGG-TTTAGAATG
114739 AAATTGA
1 AAATTGA
114746 GGAATGTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 4 0.06
35 65 0.94
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTGAATTTAGGGTTTAGAATG
Found at i:115932 original size:18 final size:18
Alignment explanation
Indices: 115909--115946 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
115899 AAGACATAGG
115909 AATTCTTAAACAAAATTT
1 AATTCTTAAACAAAATTT
115927 AATTCTTAAACAAAATTT
1 AATTCTTAAACAAAATTT
115945 AA
1 AA
115947 AATTTGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTCTTAAACAAAATTT
Found at i:117180 original size:21 final size:20
Alignment explanation
Indices: 117094--117251 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
117084 AAATGACCAA
**
117094 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
117113 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
117133 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
117153 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
117174 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
117195 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
117215 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
117236 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
117252 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:117244 original size:20 final size:20
Alignment explanation
Indices: 117219--117412 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
117209 GATTTTCAAT
* *
117219 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
117239 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
117259 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
117279 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
117299 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
117319 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
117339 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
117359 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
117380 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
117400 AATCGCAACGCGA
1 AATCGCAACGCGA
117413 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:117264 original size:40 final size:39
Alignment explanation
Indices: 117219--117412 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
117209 GATTTTCAAT
* ** *
117219 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
117259 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
117299 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
117339 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
117380 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
117413 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:117302 original size:60 final size:60
Alignment explanation
Indices: 117219--117411 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
117209 GATTTTCAAT
* ** * *
117219 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
117279 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
117339 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
117400 AATCGCAACGCG
1 AATCGCAACGCG
117412 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, 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:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:117830 original size:33 final size:33
Alignment explanation
Indices: 117791--117861 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
117781 TTCACTTAGA
*
117791 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
117824 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
117857 TTTCA
1 TTTCA
117862 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:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:117993 original size:22 final size:20
Alignment explanation
Indices: 117939--117994 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
117929 TTTGCAGAAG
*
117939 AGTCGCAACGAGATAAATGA
1 AGTCGCAACGAGAGAAATGA
*
117959 AATCGCAACGAGAG-AATGA
1 AGTCGCAACGAGAGAAATGA
*
117978 CTGTCGCAACGAGAGAA
1 -AGTCGCAACGAGAGAA
117995 TCGCAACGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 24 0.80
21 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.27, T:0.12
Consensus pattern (20 bp):
AGTCGCAACGAGAGAAATGA
Found at i:118000 original size:14 final size:14
Alignment explanation
Indices: 117981--118035 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
117971 AGAATGACTG
117981 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
117995 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
118014 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
118028 TCGCAACG
1 TCGCAACG
118036 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:118018 original size:33 final size:33
Alignment explanation
Indices: 117981--118051 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
117971 AGAATGACTG
**
117981 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
118014 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
118047 TCGCA
1 TCGCA
118052 TTGCGATTTT
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:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:118069 original size:19 final size:19
Alignment explanation
Indices: 118047--118144 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
118037 GAAACCAAAA
*
118047 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
118066 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
118080 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
118099 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
118113 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
118132 TCGCGTTGCGATT
1 TCGCGTTGCGATT
118145 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:118088 original size:14 final size:14
Alignment explanation
Indices: 118069--118158 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
118059 TTTCATTTCG
118069 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
118083 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
118102 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
118116 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
118133 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
118149 CGTTGCGATT
1 CGTTGCGATT
118159 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:118094 original size:33 final size:33
Alignment explanation
Indices: 118052--118166 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
118042 CAAAATCGCA
118052 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
118085 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
118118 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
118151 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
118167 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:120062 original size:92 final size:93
Alignment explanation
Indices: 119856--120233 Score: 726
Period size: 92 Copynumber: 4.1 Consensus size: 93
119846 TAGATTGCTT
*
119856 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
119921 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
119949 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
120013 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
120041 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
120105 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
120133 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
120198 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
120225 AGTAAATTT
1 AGTAAATTT
120234 ATCCATTCAA
Statistics
Matches: 283, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 210 0.74
93 73 0.26
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:120317 original size:19 final size:19
Alignment explanation
Indices: 120277--120404 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
120267 TAGTTTACTT
* *
120277 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
120297 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
120316 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
120335 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
120349 TCGCAACGCGAAACC-AAA
1 TCGCAACGCGAAACCAAAA
*
120367 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
120381 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
120400 TCGCA
1 TCGCA
120405 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 1 0.01
14 18 0.20
15 1 0.01
16 6 0.07
17 2 0.02
18 10 0.11
19 37 0.42
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:120373 original size:32 final size:31
Alignment explanation
Indices: 120313--120404 Score: 130
Period size: 32 Copynumber: 2.8 Consensus size: 31
120303 CGCGAAACCA
**
120313 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAA-CCAAATCGCAACGAC
120345 AGAATCGCAACGCGAAACCAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAATCGCAACGAC
120377 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACC-AAATCGCA
120405 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
31 1 0.02
32 31 0.56
33 23 0.42
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (31 bp):
AAATCGCAACGCGAAACCAAATCGCAACGAC
Found at i:120422 original size:19 final size:19
Alignment explanation
Indices: 120400--120519 Score: 126
Period size: 19 Copynumber: 6.6 Consensus size: 19
120390 GAAACCAAAA
*
120400 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
120419 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
120438 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
120454 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
120471 TCGCGTTGCGA-TTTGGTT
1 TCGCGTTGCGATTTTCATT
*
120489 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
120509 TCGTGTTGCGA
1 TCGCGTTGCGA
120520 AAGTAAACTA
Statistics
Matches: 84, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
17 5 0.06
18 16 0.19
19 39 0.46
20 12 0.14
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:122426 original size:14 final size:14
Alignment explanation
Indices: 122407--122442 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
122397 ATTGTTTAAT
122407 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
122421 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
122435 TGATTTGT
1 TGATTTGT
122443 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:122617 original size:20 final size:19
Alignment explanation
Indices: 122549--122631 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
122539 AAAAATGACT
122549 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
122568 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
122582 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
122601 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
122621 ATCGCAATGCG
1 ATCGCAATGCG
122632 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:122684 original size:19 final size:19
Alignment explanation
Indices: 122660--122931 Score: 336
Period size: 19 Copynumber: 15.4 Consensus size: 19
122650 GATTATCTCG
122660 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
122679 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
122697 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
122711 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
122730 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
122749 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
122768 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
122787 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
122806 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
122820 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
122839 TTGCGATTTTCA-TTCGCA
1 TTGCGATTTTCATTTCGCA
*
122857 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
122871 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
122891 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
122905 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
122924 TTGCGATT
1 TTGCGATT
122932 GTATTTTCCG
Statistics
Matches: 223, Mismatches: 8, Indels: 44
0.81 0.03 0.16
Matches are distributed among these distances:
14 29 0.13
16 26 0.12
17 18 0.08
18 33 0.15
19 105 0.47
20 12 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:122699 original size:51 final size:52
Alignment explanation
Indices: 122638--122903 Score: 437
Period size: 51 Copynumber: 5.0 Consensus size: 52
122628 TGCGTTTATA
*
122638 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGA-TTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
122689 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
122741 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
122798 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
122850 A-TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
122902 AT
1 AT
122904 GTTGGGATTT
Statistics
Matches: 204, Mismatches: 3, Indels: 14
0.92 0.01 0.06
Matches are distributed among these distances:
51 80 0.39
52 65 0.32
53 2 0.01
54 5 0.02
55 6 0.03
56 2 0.01
57 44 0.22
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:125225 original size:12 final size:12
Alignment explanation
Indices: 125208--125232 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
125198 TCTTCGGGGA
125208 CTTTTTCTTCTT
1 CTTTTTCTTCTT
125220 CTTTTTCTTCTT
1 CTTTTTCTTCTT
125232 C
1 C
125233 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:125441 original size:24 final size:24
Alignment explanation
Indices: 125407--125453 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
125397 CTGAAACATC
125407 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
125431 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
125454 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:126158 original size:20 final size:20
Alignment explanation
Indices: 126130--126519 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
126120 AAATTTCAGT
* * * *
126130 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
126150 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
126170 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
126190 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
126210 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
126230 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
126250 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
126270 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
126290 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
126310 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
126330 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
126350 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
126371 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
126391 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
126411 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
126431 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
126451 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
126471 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
126491 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
126511 GTTGCGATT
1 GTTGCGATT
126520 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:129840 original size:120 final size:120
Alignment explanation
Indices: 129619--129858 Score: 381
Period size: 120 Copynumber: 2.0 Consensus size: 120
129609 AAGTCCATAC
* * *
129619 TTTATCTTAAAAAATCAGGTTAGATTTCAATTCAGTTTAAGCCTCCTTAAATCTGAGTCGAGTTC
1 TTTAACTTAAAAAATCAGGTTAGATTTCAATTCAGTTTAAACATCCTTAAATCTGAGTCGAGTTC
*
129684 AATAACGATGGAAGAGGTAGAATACTTAAATTAAATTAGGGTTGATAAAAAATCT
66 AATAACGATGGAAGAGGTAGAATACTTAAATCAAATTAGGGTTGATAAAAAATCT
** *
129739 TTTAACTTAAAAAATCAGGTTAGATTTTGATTCAGTTTAAACATCCTTAAATTTGAGTCGAGTTC
1 TTTAACTTAAAAAATCAGGTTAGATTTCAATTCAGTTTAAACATCCTTAAATCTGAGTCGAGTTC
* * * *
129804 AATTACGATGTAAGAGGTAGAATACTTAAATCAAATTAGTGTTGATCAAAAATCT
66 AATAACGATGGAAGAGGTAGAATACTTAAATCAAATTAGGGTTGATAAAAAATCT
129859 AATTCGACTA
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (120 bp):
TTTAACTTAAAAAATCAGGTTAGATTTCAATTCAGTTTAAACATCCTTAAATCTGAGTCGAGTTC
AATAACGATGGAAGAGGTAGAATACTTAAATCAAATTAGGGTTGATAAAAAATCT
Found at i:131972 original size:26 final size:26
Alignment explanation
Indices: 131933--131982 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
131923 TTTTTTAATA
**
131933 ATAAATTTTTTATAATTTT-AAAAATT
1 ATAAATTTCATAT-ATTTTGAAAAATT
131959 ATAAATTTCATATATTTTGAAAAA
1 ATAAATTTCATATATTTTGAAAAA
131983 AATATTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
ATAAATTTCATATATTTTGAAAAATT
Found at i:132432 original size:26 final size:26
Alignment explanation
Indices: 132385--132434 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
132375 GGTAATAATT
*
132385 TTTTTAAAAATATATGAAATTTATAA
1 TTTTTAAAAATATATAAAATTTATAA
*
132411 TTTTTAAAATTATA-AAATATTTAT
1 TTTTTAAAAATATATAAA-ATTTAT
132435 CATCATCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTTAAAAATATATAAAATTTATAA
Found at i:132442 original size:337 final size:335
Alignment explanation
Indices: 132048--132764 Score: 1097
Period size: 340 Copynumber: 2.1 Consensus size: 335
132038 TATTTTTATA
* * *
132048 TTTTTAAAAAATATATGAAATTTATGATTTTTTAAATTA-AAAATATT-TAT--T-ATCATCATC
1 TTTTTTAAAAATATATGAAATTTATAATTTTTAAAATTATAAAATATTATATCATCATCATCATC
*
132108 ATCATTTTGTAAAAGAAATACTAGTTATAAAACTTT-TATAAATTATTCATATTTTAAAATGCTT
66 ATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTATA-AAATTATTCATATTTTAAAATACTT
* * * * **
132172 ACCTTCAAAGTTTTTATATACTAGATTATATGTATTATGTAATTTTAATACAAAAATTTAAATAA
130 ACCCTCAAAG--TTT-CATACTAGATTATACGTATTACGTAATTTTAATACAAAAATCAAAATAA
* *
132237 TTTTATTAAAAATGAATAAACATTATTAACTGTTGTTAAAAATTAAAAATTAATGAATAATAATT
192 TTTTATTAAAAATGAATAAACAATATTAACTGTTGTTAAAAACTAAAAATTAATGAATAATAATT
132302 CATTTGATCCCTCAA-TAGTAATTAAAAGTTTATTTTAATATTTTTTTATATTTTTAAACAATTA
257 CATTTGATCCCTCAATTA-TAATTAAAAGTTTATTTTAATA--TTTTTATATTTTTAAACAATTA
**
132366 ATTTTAAAAGGTAATAAT
319 ATTTTAAAAGAAAAT-AT
132384 TTTTTTAAAAATATATGAAATTTATAATTTTTAAAATTATAAAATATTTATCATCATCATCATCA
1 TTTTTTAAAAATATATGAAATTTATAATTTTTAAAATTATAAAATA-TTAT-ATCATCATCATCA
132449 TCATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTATAAAATTATTCATATTTTAAAATACT
64 TCATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTATAAAATTATTCATATTTTAAAATACT
* * *
132514 TACCCTCAAAGTTTCCTACTAGATTATACGTATTGCGTAATTTTAATACAAAAATCAAAATAGTT
129 TACCCTCAAAGTTTCATACTAGATTATACGTATTACGTAATTTTAATACAAAAATCAAAATAATT
*
132579 TTATTAAAAATGAATAAACAATATTAACTGTTGTTAAAAGCTAAAAATTAATGAATAATAATTCA
194 TTATTAAAAATGAATAAACAATATTAACTGTTGTTAAAAACTAAAAATTAATGAATAATAATTCA
*
132644 TTTGATCCCTTAATTATAATTAAAAGTTTATTTTAATATTTTTATATTTTTAAACAATTAATTTT
259 TTTGATCCCTCAATTATAATTAAAAGTTTATTTTAATATTTTTATATTTTTAAACAATTAATTTT
132709 AAAAGAAAATAT
324 AAAAGAAAATAT
* * *
132721 TTTTTTCAAAATATATGAAATTTATAAATTTCAAAATTATAAAA
1 TTTTTTAAAAATATATGAAATTTATAATTTTTAAAATTATAAAA
132765 AAATTATTAT
Statistics
Matches: 350, Mismatches: 22, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
336 36 0.10
337 49 0.14
338 37 0.11
339 1 0.00
340 141 0.40
341 5 0.01
342 1 0.00
343 78 0.22
344 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.43
Consensus pattern (335 bp):
TTTTTTAAAAATATATGAAATTTATAATTTTTAAAATTATAAAATATTATATCATCATCATCATC
ATCATTTTGTAAAAGAAATACTAGTTATAAAACTTTATAAAATTATTCATATTTTAAAATACTTA
CCCTCAAAGTTTCATACTAGATTATACGTATTACGTAATTTTAATACAAAAATCAAAATAATTTT
ATTAAAAATGAATAAACAATATTAACTGTTGTTAAAAACTAAAAATTAATGAATAATAATTCATT
TGATCCCTCAATTATAATTAAAAGTTTATTTTAATATTTTTATATTTTTAAACAATTAATTTTAA
AAGAAAATAT
Found at i:133223 original size:11 final size:11
Alignment explanation
Indices: 133207--133261 Score: 67
Period size: 11 Copynumber: 4.8 Consensus size: 11
133197 TTACTATGTT
133207 TATATTTAAAA
1 TATATTTAAAA
133218 TATATTTAATAATA
1 TATATTT-A-AA-A
133232 TATATTTAAAA
1 TATATTTAAAA
*
133243 TATATTTAATA
1 TATATTTAAAA
133254 -ATATTTAA
1 TATATTTAA
133262 TAAAATAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 8 0.20
11 18 0.45
12 3 0.08
13 3 0.08
14 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATATTTAAAA
Found at i:133236 original size:14 final size:14
Alignment explanation
Indices: 133217--133257 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
133207 TATATTTAAA
133217 ATATATTTAATAAT
1 ATATATTTAATAAT
133231 ATATATTT-A-AA-
1 ATATATTTAATAAT
133242 ATATATTTAATAAT
1 ATATATTTAATAAT
133256 AT
1 AT
133258 TTAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 3 0.12
14 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTTAATAAT
Found at i:133239 original size:25 final size:25
Alignment explanation
Indices: 133207--133257 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
133197 TTACTATGTT
133207 TATATTTAAAATATATTTAATAATA
1 TATATTTAAAATATATTTAATAATA
133232 TATATTTAAAATATATTTAATAATA
1 TATATTTAAAATATATTTAATAATA
133257 T
1 T
133258 TTAATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATATTTAAAATATATTTAATAATA
Found at i:139463 original size:4 final size:4
Alignment explanation
Indices: 139450--139497 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
139440 ATCCTTGTGC
* * *
139450 ATGT -TGT ATGT ATGT ATGC ATGT -TGT ATGT ATGT ATGC ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
139496 AT
1 AT
139498 TACCATTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 6 0.16
4 32 0.84
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (4 bp):
ATGT
Done.