Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004242.1 Hibiscus syriacus cultivar Beakdansim tig00009301_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: 129552
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:2516 original size:23 final size:23
Alignment explanation
Indices: 2489--2539 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
2479 TGCATCTTTG
2489 GCAAACAAAAGAAAGTCAGTTTT
1 GCAAACAAAAGAAAGTCAGTTTT
*
2512 GCAAACAAAATAAAGTCAGTTTT
1 GCAAACAAAAGAAAGTCAGTTTT
2535 GCAAA
1 GCAAA
2540 GATTGGCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (23 bp):
GCAAACAAAAGAAAGTCAGTTTT
Found at i:9314 original size:32 final size:31
Alignment explanation
Indices: 9246--9351 Score: 90
Period size: 32 Copynumber: 3.4 Consensus size: 31
9236 TTGGGGTCTT
* *
9246 AGAGCCCACCCAAGGAACACCTTAGGGCCTT
1 AGAGCCTACCCAAGGAACACCTTAGGGCCTG
* *
9277 AGAGCCTACCCAATGAAGCA-CTTTGGGACCTG
1 AGAGCCTACCCAAGGAA-CACCTTAGGG-CCTG
* * * *
9309 AGAGCCTACCAAAGGGAACAAC-TCGAGGCCTA
1 AGAGCCTACCCAA-GGAACACCTTAG-GGCCTG
9341 AGAGCCTACCC
1 AGAGCCTACCC
9352 GAGGGTCACA
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
31 21 0.34
32 34 0.56
33 6 0.10
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.13
Consensus pattern (31 bp):
AGAGCCTACCCAAGGAACACCTTAGGGCCTG
Found at i:10375 original size:29 final size:29
Alignment explanation
Indices: 10335--10394 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
10325 AATTTTCACC
10335 AAACTAAATTGATGTAAGCAATGACATCA
1 AAACTAAATTGATGTAAGCAATGACATCA
10364 AAACTAAATTGATGTAAGCAATGACATCA
1 AAACTAAATTGATGTAAGCAATGACATCA
10393 AA
1 AA
10395 TTAATTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (29 bp):
AAACTAAATTGATGTAAGCAATGACATCA
Found at i:14987 original size:29 final size:29
Alignment explanation
Indices: 14947--15006 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
14937 AATTTTCACC
14947 AAACTAAATTGATGTAAGCAATGACATCA
1 AAACTAAATTGATGTAAGCAATGACATCA
14976 AAACTAAATTGATGTAAGCAATGACATCA
1 AAACTAAATTGATGTAAGCAATGACATCA
15005 AA
1 AA
15007 TTAATTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (29 bp):
AAACTAAATTGATGTAAGCAATGACATCA
Found at i:21854 original size:44 final size:42
Alignment explanation
Indices: 21787--21869 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 42
21777 ACAACGCGAT
* *
21787 TTTGAAAAAATGTGTTGCAATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAAATGTGTTGCAATAGTGAAAAAGTGTTGCGAGAG
* *
21829 TTTGAAAAACGTGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTGAAAAA-ATG-TGTTGCAATAGTGAAAAAGTGTTGCGA
21870 TAGTGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 9 0.26
43 2 0.06
44 24 0.69
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (42 bp):
TTTGAAAAAATGTGTTGCAATAGTGAAAAAGTGTTGCGAGAG
Found at i:21867 original size:19 final size:20
Alignment explanation
Indices: 21792--21880 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 20
21782 GCGATTTTGA
*
21792 AAAAATGTGTTGCAATAGT-
1 AAAAATGTGTTGCGATAGTG
* *
21811 TAAAATGTGTTGCGAGAGTTTG
1 AAAAATGTGTTGCGATAG--TG
21833 AAAAACGTGTTGTTGCGATAGTG
1 AAAAA--TG-TGTTGCGATAGTG
21856 AAAAA-GTGTTGCGATAGTG
1 AAAAATGTGTTGCGATAGTG
21875 AAAAAT
1 AAAAAT
21881 CTAAAATAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
19 33 0.57
20 1 0.02
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 10 0.17
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (20 bp):
AAAAATGTGTTGCGATAGTG
Found at i:22259 original size:19 final size:19
Alignment explanation
Indices: 22232--22387 Score: 141
Period size: 19 Copynumber: 7.9 Consensus size: 19
22222 TCGTTGCGAT
22232 TTTGGAAAATCGCAACGAA
1 TTTGGAAAATCGCAACGAA
*
22251 TTTGAAAAATCGCAACGTGAA
1 TTTGGAAAATCGCAAC--GAA
* * **
22272 CTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGAA
22291 TTTGGAAAATCGCAATGCGAA
1 TTTGGAAAATCGCAA--CGAA
* * **
22312 CTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGAA
22331 TTTGGAAAATCGCAACGTGAA
1 TTTGGAAAATCGCAAC--GAA
* **
22352 CTTGGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGAA
*
22371 TTTGAAAAATCGCAACG
1 TTTGGAAAATCGCAACG
22388 CGAACTTCGA
Statistics
Matches: 106, Mismatches: 25, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
19 61 0.58
21 45 0.42
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (19 bp):
TTTGGAAAATCGCAACGAA
Found at i:22285 original size:21 final size:20
Alignment explanation
Indices: 22259--22515 Score: 105
Period size: 19 Copynumber: 13.3 Consensus size: 20
22249 AATTTGAAAA
*
22259 ATCGCAACGTGAACTTCGACT
1 ATCGCAACG-GAACTTGGACT
* **
22280 ATCGCAAC-GAATTTGGAAA
1 ATCGCAACGGAACTTGGACT
* *
22299 ATCGCAATGCGAACTTCGACT
1 ATCGCAACG-GAACTTGGACT
* **
22320 ATCGCAAC-GAATTTGGAAA
1 ATCGCAACGGAACTTGGACT
22339 ATCGCAACGTGAACTTGGACT
1 ATCGCAACG-GAACTTGGACT
* * **
22360 ATCGCAAC-GAATTTGAAAA
1 ATCGCAACGGAACTTGGACT
*
22379 ATCGCAAC-G--C--GAACT
1 ATCGCAACGGAACTTGGACT
22394 -TCG-AACGTGAACTTGGACT
1 ATCGCAACG-GAACTTGGACT
* * * **
22413 ATCGCAA-TGAATTTAGAAA
1 ATCGCAACGGAACTTGGACT
*
22432 ATCGCAACGCGAACTTCGACT
1 ATCGCAACG-GAACTTGGACT
* *
22453 ATCGCAA-TGAATTTGGACT
1 ATCGCAACGGAACTTGGACT
* * * **
22472 AACG-TA---AATTTGGAAA
1 ATCGCAACGGAACTTGGACT
22488 ATCGCAACGCGAACTTGGACT
1 ATCGCAACG-GAACTTGGACT
22509 ATCGCAA
1 ATCGCAA
22516 AATCGCGTTG
Statistics
Matches: 170, Mismatches: 47, Indels: 38
0.67 0.18 0.15
Matches are distributed among these distances:
13 3 0.02
14 3 0.02
15 4 0.02
16 11 0.06
17 2 0.01
18 1 0.01
19 75 0.44
20 3 0.02
21 68 0.40
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAACGGAACTTGGACT
Found at i:22300 original size:40 final size:40
Alignment explanation
Indices: 22240--22397 Score: 262
Period size: 40 Copynumber: 4.0 Consensus size: 40
22230 ATTTTGGAAA
*
22240 ATCGCAACGAATTTGAAAAATCGCAACGTGAACTTCGACT
1 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
* *
22280 ATCGCAACGAATTTGGAAAATCGCAATGCGAACTTCGACT
1 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
* * *
22320 ATCGCAACGAATTTGGAAAATCGCAACGTGAACTTGGACT
1 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
22360 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGA
1 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGA
22398 ACGTGAACTT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (40 bp):
ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
Found at i:22425 original size:53 final size:53
Alignment explanation
Indices: 22344--22450 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
22334 GGAAAATCGC
22344 AACGTGAACTTGGACTATCGCAACGAATTT-GAAAAATCGCAACGCGAACTTCG
1 AACGTGAACTTGGACTATCGCAACGAATTTAG-AAAATCGCAACGCGAACTTCG
*
22397 AACGTGAACTTGGACTATCGCAATGAATTTAGAAAATCGCAACGCGAACTTCG
1 AACGTGAACTTGGACTATCGCAACGAATTTAGAAAATCGCAACGCGAACTTCG
22450 A
1 A
22451 CTATCGCAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 51 0.98
54 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (53 bp):
AACGTGAACTTGGACTATCGCAACGAATTTAGAAAATCGCAACGCGAACTTCG
Found at i:22500 original size:56 final size:57
Alignment explanation
Indices: 22369--22515 Score: 173
Period size: 56 Copynumber: 2.7 Consensus size: 57
22359 TATCGCAACG
* * *
22369 AATTTGAAAAATCGCAACGCGAACTTCGA--A-CG---TGAACTTGGACTATCGCAATG
1 AATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGAACTTGGACTAACG--ATA
* *
22422 AATTTAGAAAATCGCAACGCGAACTTCGACTATCGCAATGAATTTGGACTAACG-TA
1 AATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGAACTTGGACTAACGATA
*
22478 AATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAA
1 AATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA
22516 AATCGCGTTG
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
53 27 0.33
55 1 0.01
56 39 0.48
59 14 0.17
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (57 bp):
AATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGAACTTGGACTAACGATA
Found at i:24013 original size:31 final size:31
Alignment explanation
Indices: 23978--24057 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
23968 TAATAGTCGG
* *
23978 GGACTCAATTAAGAAACATCCTATAATCGAA
1 GGACTCAATTAAGAAACACCCTATAATCAAA
*
24009 GGACTCAA-TAAAATAACACCCTATAATCAAA
1 GGACTCAATTAAGA-AACACCCTATAATCAAA
* *
24040 GGACTCAATAAAGTAACA
1 GGACTCAATTAAGAAACA
24058 ACTTATAGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 4 0.10
31 35 0.85
32 2 0.05
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (31 bp):
GGACTCAATTAAGAAACACCCTATAATCAAA
Found at i:27303 original size:13 final size:13
Alignment explanation
Indices: 27287--27314 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27277 TGAAAATATA
27287 TTATTAATTTTAT
1 TTATTAATTTTAT
27300 TTATTAATTTTAT
1 TTATTAATTTTAT
27313 TT
1 TT
27315 TATTTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTAATTTTAT
Found at i:27785 original size:11 final size:12
Alignment explanation
Indices: 27769--27819 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
27759 AAAAATAAAT
27769 TTTAAAA-TTAA
1 TTTAAAATTTAA
27780 TTTAAAATTTAA
1 TTTAAAATTTAA
27792 TTTTATAAAAATTTAA
1 --TT-T-AAAATTTAA
*
27808 TTCAAAATTTAA
1 TTTAAAATTTAA
27820 ATTAGAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 7 0.21
12 13 0.38
14 4 0.12
15 1 0.03
16 9 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTAAAATTTAA
Found at i:28764 original size:33 final size:33
Alignment explanation
Indices: 28726--28794 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
28716 AAATGTTAAC
28726 TGAAGATGAGATGATTGAATGTATTTAAATAGT
1 TGAAGATGAGATGATTGAATGTATTTAAATAGT
28759 TGAAGATGAGATGATTGAATGTATTTAAATAGT
1 TGAAGATGAGATGATTGAATGTATTTAAATAGT
28792 TGA
1 TGA
28795 GTGGTCTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (33 bp):
TGAAGATGAGATGATTGAATGTATTTAAATAGT
Found at i:29505 original size:38 final size:37
Alignment explanation
Indices: 29442--29532 Score: 130
Period size: 38 Copynumber: 2.4 Consensus size: 37
29432 ATTTTGTTCG
29442 GGTCGGGTCGGGTTTTTAAAGTGTGATATTCGGGTC-
1 GGTCGGGTCGGGTTTTTAAAGTGTGATATTCGGGTCA
* *
29478 GAGTCGGGTCGTGTTTTTTTAAGTGTGATATTCGGGTCA
1 G-GTCGGGTCG-GGTTTTTAAAGTGTGATATTCGGGTCA
29517 GGTCGGGTTCGGGTTT
1 GGTCGGG-TCGGGTTT
29533 AGGGTGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
36 1 0.02
37 9 0.19
38 34 0.71
39 4 0.08
ACGTcount: A:0.12, C:0.11, G:0.38, T:0.38
Consensus pattern (37 bp):
GGTCGGGTCGGGTTTTTAAAGTGTGATATTCGGGTCA
Found at i:29687 original size:28 final size:28
Alignment explanation
Indices: 29645--29710 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
29635 TTTGTTCGGG
*
29645 TCGGGTCGGG-TTTTTTAATTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
29672 TCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
29700 TCGGGTCGGGT
1 TCGGGTCGGGT
29711 CGGGTTCGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 10 0.27
28 27 0.73
ACGTcount: A:0.12, C:0.09, G:0.35, T:0.44
Consensus pattern (28 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATAT
Found at i:29718 original size:191 final size:197
Alignment explanation
Indices: 29377--29764 Score: 608
Period size: 201 Copynumber: 2.0 Consensus size: 197
29367 TTTTATTATT
29377 TCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCAGGTCGGATGAAACTTTATTTTGTTCG
1 TCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCAGGTCGGATGAAACTTTATTTTGTTCG
29442 GGTCGGGTCGGGTTTTTAAAGTGTGATATTCGGGTCGAGTCGGGTCGTGTTTTTTTAAGTGTGAT
66 GGTCGGGTCGGGTTTTTAAAGTGTGATATTC-GG-CGAGTC-GG-CGTGTTTTTTTAAGTGTGAT
* * * * *
29507 ATTCGGGTCAGGTCGGGTTCGGGTTTAGGGTGAAAAAAATCAGACTGACCCGATAATATATATAA
127 ATTCGGGTCAGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAAAAAATATAA
29572 TTCGGG
192 TTCGGG
* *
29578 TCGGGTCGGGTCGGATTTCTAATTCGTATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCG
1 TCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCAGGTCGGATGAAACTTTATTTTGTTCG
* *
29643 GGTCGGGTCGGGTTTTTTAATTGTGATATTC-G-G-GTC-G-G-GTTTTTTTAAGTGTGATATTC
66 GGTCGGGTCGGGTTTTTAAAGTGTGATATTCGGCGAGTCGGCGTGTTTTTTTAAGTGTGATATTC
*
29702 GGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAAAAAATATAATT
131 GGGTCAGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAAAAAATATAATT
29765 TTACCTTATA
Statistics
Matches: 177, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
191 78 0.44
192 1 0.01
194 1 0.01
196 3 0.02
197 1 0.01
199 1 0.01
201 92 0.52
ACGTcount: A:0.21, C:0.13, G:0.31, T:0.35
Consensus pattern (197 bp):
TCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCAGGTCGGATGAAACTTTATTTTGTTCG
GGTCGGGTCGGGTTTTTAAAGTGTGATATTCGGCGAGTCGGCGTGTTTTTTTAAGTGTGATATTC
GGGTCAGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAAAAAATATAATTCG
GG
Found at i:31090 original size:9 final size:9
Alignment explanation
Indices: 31076--31110 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
31066 TACACCCCTA
31076 GACGAGAGG
1 GACGAGAGG
31085 GACGAGTGAGG
1 GACGA--GAGG
31096 GACGAGAGG
1 GACGAGAGG
31105 GACGAG
1 GACGAG
31111 TGAGGGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 15 0.62
11 9 0.38
ACGTcount: A:0.31, C:0.11, G:0.54, T:0.03
Consensus pattern (9 bp):
GACGAGAGG
Found at i:31097 original size:11 final size:11
Alignment explanation
Indices: 31081--31117 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
31071 CCCTAGACGA
31081 GAGGGACGAGT
1 GAGGGACGAGT
31092 GAGGGACGA--
1 GAGGGACGAGT
31101 GAGGGACGAGT
1 GAGGGACGAGT
31112 GAGGGA
1 GAGGGA
31118 TGAGAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.30, C:0.08, G:0.57, T:0.05
Consensus pattern (11 bp):
GAGGGACGAGT
Found at i:31101 original size:20 final size:20
Alignment explanation
Indices: 31076--31123 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
31066 TACACCCCTA
31076 GACGAGAGGGACGAGTGAGG
1 GACGAGAGGGACGAGTGAGG
31096 GACGAGAGGGACGAGTGAGG
1 GACGAGAGGGACGAGTGAGG
*
31116 GATGAGAG
1 GACGAGAG
31124 AGAGCCGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.54, T:0.06
Consensus pattern (20 bp):
GACGAGAGGGACGAGTGAGG
Found at i:31912 original size:22 final size:21
Alignment explanation
Indices: 31880--31921 Score: 50
Period size: 24 Copynumber: 1.9 Consensus size: 21
31870 CAATAGAGAT
31880 TATATTAATTT-AATATTATA
1 TATATTAATTTAAATATTATA
31900 TATATATATATTTCAAATATTA
1 TATAT-TA-ATTT-AAATATTA
31922 AAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 4 0.22
24 7 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATTAATTTAAATATTATA
Found at i:34349 original size:2 final size:2
Alignment explanation
Indices: 34342--34402 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
34332 ATTTTAGTCC
34342 TA TA TA TA TA TA TA TA TA TA 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
34384 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
34403 GAAAGCTCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36636 original size:20 final size:21
Alignment explanation
Indices: 36613--36660 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
36603 ATTTCCTTTG
* *
36613 TTGCATTTATATTTTGCAT-T
1 TTGCATTCACATTTTGCATCT
*
36633 TTGCATTCCCATTTTGCATCT
1 TTGCATTCACATTTTGCATCT
36654 TTGCATT
1 TTGCATT
36661 AGCATTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.17, C:0.19, G:0.10, T:0.54
Consensus pattern (21 bp):
TTGCATTCACATTTTGCATCT
Found at i:36666 original size:21 final size:20
Alignment explanation
Indices: 36623--36667 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
36613 TTGCATTTAT
*
36623 ATTTTGCATTTTGCATTCCC
1 ATTTTGCATTTTGCATTACC
*
36643 ATTTTGCATCTTTGCATTAGC
1 ATTTTGCAT-TTTGCATTACC
36664 ATTT
1 ATTT
36668 ATACATCGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (20 bp):
ATTTTGCATTTTGCATTACC
Found at i:39817 original size:2 final size:2
Alignment explanation
Indices: 39810--39925 Score: 223
Period size: 2 Copynumber: 58.0 Consensus size: 2
39800 CATTTAAGTG
39810 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
39852 CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
39894 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
39926 TTTCCTAGGG
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 112 1.00
ACGTcount: A:0.50, C:0.49, G:0.00, T:0.01
Consensus pattern (2 bp):
CA
Found at i:40137 original size:55 final size:54
Alignment explanation
Indices: 40076--40335 Score: 199
Period size: 54 Copynumber: 4.8 Consensus size: 54
40066 TTACCCAGCT
*
40076 AATGAGTTTTTAAATAAACTAAGTCTAATTTTCAGAAGTTTCTTGACGATATTTA
1 AATGAG-TTTTAAAGAAACTAAGTCTAATTTTCAGAAGTTTCTTGACGATATTTA
* * *
40131 AATGAGTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTA
1 AATGAGTTTTAAAGAAACTAAGTCTAATTTTCAGAAGTTTCTTGACGATATTTA
* * * * * * **
40185 AAAGAACTTTCAAAAAAATTAAGCCTAATTTAT-AGGGGTTTCTTGACG-T-TTTCA
1 AATG-AGTTTTAAAGAAACTAAGTCTAATTT-TCAGAAGTTTCTTGACGATATTT-A
* * * ** * * * *
40239 AATGAATTTGAAAGAAGCTAAACCTGATTTTCAGGAGTTTCTTGATG-T-TTCA
1 AATGAGTTTTAAAGAAACTAAGTCTAATTTTCAGAAGTTTCTTGACGATATTTA
* * * * *
40291 AATGAATTTCAAAGAAA-TCAAGCCTAATTTTTAGGAGTTTCTTGA
1 AATGAGTTTTAAAGAAACT-AAGTCTAATTTTCAGAAGTTTCTTGA
40336 TGTTTTCAAA
Statistics
Matches: 170, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
51 1 0.01
52 40 0.24
53 38 0.22
54 52 0.31
55 38 0.22
56 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (54 bp):
AATGAGTTTTAAAGAAACTAAGTCTAATTTTCAGAAGTTTCTTGACGATATTTA
Found at i:40305 original size:52 final size:53
Alignment explanation
Indices: 40091--40390 Score: 277
Period size: 53 Copynumber: 5.6 Consensus size: 53
40081 GTTTTTAAAT
* * * * *
40091 AAACTAAGTCTAATTTTCAGAAGTTTCTTGACGATATTT-AAATGAGTTTTAAAG
1 AAACTAAGCCTAATTTTCAGGAGTTTCTTGATG-T-TTTCAAATGAATTTCAAAG
* * * * * *
40145 AAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAAAGAACTTTCAAAA
1 AAACTAAGCCTAATTTTCAGGAGTTTCTTGATG-TTTTCAAATGAA-TTTCAAAG
* * * *
40200 AAATTAAGCCTAATTTAT-AGGGGTTTCTTGACGTTTTCAAATGAATTTGAAAG
1 AAACTAAGCCTAATTT-TCAGGAGTTTCTTGATGTTTTCAAATGAATTTCAAAG
* * *
40253 AAGCTAAACCTGATTTTCAGGAGTTTCTTGATG-TTTCAAATGAATTTCAAAG
1 AAACTAAGCCTAATTTTCAGGAGTTTCTTGATGTTTTCAAATGAATTTCAAAG
* *
40305 AAA-TCAAGCCTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTTTTAAA-
1 AAACT-AAGCCTAATTTTCAGGAGTTTCTTGATGTTTTCAAATGAA-TTTCAAAG
* * * * *
40358 AAGCTAAGCATACTTTTTAGGGGTTTCTTGATG
1 AAACTAAGCCTAATTTTCAGGAGTTTCTTGATG
40391 ATAACTGTAA
Statistics
Matches: 206, Mismatches: 32, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
51 1 0.00
52 46 0.22
53 72 0.35
54 55 0.27
55 31 0.15
56 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (53 bp):
AAACTAAGCCTAATTTTCAGGAGTTTCTTGATGTTTTCAAATGAATTTCAAAG
Found at i:40362 original size:105 final size:107
Alignment explanation
Indices: 40100--40392 Score: 344
Period size: 105 Copynumber: 2.7 Consensus size: 107
40090 TAAACTAAGT
* * * * *
40100 CTAATTTTCAGAAGTTTCTTGACGATATTT-AAATGAGTTTTAAAGAAACTAAGTCTGATTTTCA
1 CTAATTTTTAGGAGTTTCTTGACG-T-TTTCAAATGAATTTTAAAGAAGCTAAGCCTGATTTTCA
* * *
40164 GAAGTTTCTTGATGATTTTTAAAAGAACTTTCAAAAAAATTAAGC
64 GGAGTTTCTTGATGA-TTTCAAAAGAACTTTCAAAAAAATCAAGC
* * * *
40209 CTAATTTATAGGGGTTTCTTGACGTTTTCAAATGAATTTGAAAGAAGCTAAACCTGATTTTCAGG
1 CTAATTTTTAGGAGTTTCTTGACGTTTTCAAATGAATTTTAAAGAAGCTAAGCCTGATTTTCAGG
* *
40274 AGTTTCTTGATG-TTTCAAATGAA-TTTCAAAGAAATCAAGC
66 AGTTTCTTGATGATTTCAAAAGAACTTTCAAAAAAATCAAGC
* * *
40314 CTAATTTTTAGGAGTTTCTTGATGTTTTCAAATGAATTTTTAAA-AAGCTAAGCAT-ACTTTTTA
1 CTAATTTTTAGGAGTTTCTTGACGTTTTCAAATGAA-TTTTAAAGAAGCTAAGCCTGA-TTTTCA
*
40377 GGGGTTTCTTGATGAT
64 GGAGTTTCTTGATGAT
40393 AACTGTAAAC
Statistics
Matches: 158, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
104 1 0.01
105 75 0.47
106 16 0.10
107 3 0.02
108 43 0.27
109 20 0.13
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (107 bp):
CTAATTTTTAGGAGTTTCTTGACGTTTTCAAATGAATTTTAAAGAAGCTAAGCCTGATTTTCAGG
AGTTTCTTGATGATTTCAAAAGAACTTTCAAAAAAATCAAGC
Found at i:40503 original size:42 final size:41
Alignment explanation
Indices: 40445--40557 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
40435 AGGGTTTCTT
* *
40445 GATGAGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGA-ACAT
1 GATGA-TAAATCCTTCGGGCCATCTA-TAAGTCTTTCGAGA-AA
* * *
40487 GATGCTTAAATCCTTCGAGTCATCTATAAGTCTTTCGAGAAA
1 GATG-ATAAATCCTTCGGGCCATCTATAAGTCTTTCGAGAAA
* *
40529 GATGATAAGTCCTTCGGGCCATCCATAAG
1 GATGATAAATCCTTCGGGCCATCTATAAG
40558 ACCTTCGACA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
41 20 0.34
42 36 0.62
43 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
GATGATAAATCCTTCGGGCCATCTATAAGTCTTTCGAGAAA
Found at i:41112 original size:13 final size:13
Alignment explanation
Indices: 41094--41119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41084 GGAGGCTTGT
41094 AAAATCTATTTTG
1 AAAATCTATTTTG
41107 AAAATCTATTTTG
1 AAAATCTATTTTG
41120 TCCTTCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
AAAATCTATTTTG
Found at i:41610 original size:18 final size:19
Alignment explanation
Indices: 41587--41628 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
41577 GTAAGAAAAT
*
41587 ATTAAAATAA-TAAAAGCG
1 ATTAAAATAAGTAAAAGCA
41605 ATT-AAATAAGTAAAAGCA
1 ATTAAAATAAGTAAAAGCA
41623 ATTAAA
1 ATTAAA
41629 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (19 bp):
ATTAAAATAAGTAAAAGCA
Found at i:49239 original size:16 final size:16
Alignment explanation
Indices: 49214--49244 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49204 TTTCAAAAAT
49214 AAGGGACTGAAGATTC
1 AAGGGACTGAAGATTC
*
49230 AAGGGGCTGAAGATT
1 AAGGGACTGAAGATT
49245 TTCAACAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.35, T:0.19
Consensus pattern (16 bp):
AAGGGACTGAAGATTC
Found at i:51549 original size:29 final size:29
Alignment explanation
Indices: 51513--51694 Score: 197
Period size: 30 Copynumber: 6.1 Consensus size: 29
51503 GGGTAGGTCG
* **
51513 CCATGCACGCCCAGCGACCTACCAGGTCG-
1 CCATGCACGCCCAACGACCT-CCAGCACGC
* ** **
51542 CCATGCACGCCCAGCGACCTGGTAGGTCG-
1 CCATGCACGCCCAACGACCT-CCAGCACGC
*
51571 CCATGCACGCCCAGCGACCTACCAGCACGC
1 CCATGCACGCCCAACGACCT-CCAGCACGC
*
51601 CCAGAGCACGCCCAACGACCTCCATGCACGC
1 CCA-TGCACGCCCAACGACCTCCA-GCACGC
51632 CCATGCACGCCCAACGACCTCCATGCACGC
1 CCATGCACGCCCAACGACCTCCA-GCACGC
51662 CCATGCACGCCCAACGACCTCCATGCACGC
1 CCATGCACGCCCAACGACCTCCA-GCACGC
51692 CCA
1 CCA
51695 GCTCGCCAAA
Statistics
Matches: 139, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
29 50 0.36
30 65 0.47
31 24 0.17
ACGTcount: A:0.23, C:0.47, G:0.21, T:0.09
Consensus pattern (29 bp):
CCATGCACGCCCAACGACCTCCAGCACGC
Found at i:51637 original size:10 final size:10
Alignment explanation
Indices: 51622--51674 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
51612 CCAACGACCT
51622 CCATGCACGC
1 CCATGCACGC
51632 CCATGCACGC
1 CCATGCACGC
*
51642 CCA-ACGAC-C
1 CCATGC-ACGC
51651 TCCATGCACGC
1 -CCATGCACGC
51662 CCATGCACGC
1 CCATGCACGC
51672 CCA
1 CCA
51675 ACGACCTCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 2 0.05
10 33 0.89
11 2 0.05
ACGTcount: A:0.23, C:0.51, G:0.17, T:0.09
Consensus pattern (10 bp):
CCATGCACGC
Found at i:51642 original size:30 final size:30
Alignment explanation
Indices: 51571--51694 Score: 205
Period size: 30 Copynumber: 4.1 Consensus size: 30
51561 TGGTAGGTCG
*
51571 CCATGCACGCCCAGCGACCTACCA-GCACGC
1 CCATGCACGCCCAACGACCT-CCATGCACGC
*
51601 CCAGAGCACGCCCAACGACCTCCATGCACGC
1 CCA-TGCACGCCCAACGACCTCCATGCACGC
51632 CCATGCACGCCCAACGACCTCCATGCACGC
1 CCATGCACGCCCAACGACCTCCATGCACGC
51662 CCATGCACGCCCAACGACCTCCATGCACGC
1 CCATGCACGCCCAACGACCTCCATGCACGC
51692 CCA
1 CCA
51695 GCTCGCCAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
30 65 0.73
31 24 0.27
ACGTcount: A:0.24, C:0.50, G:0.18, T:0.08
Consensus pattern (30 bp):
CCATGCACGCCCAACGACCTCCATGCACGC
Found at i:52367 original size:21 final size:21
Alignment explanation
Indices: 52342--52385 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
52332 AATTTAGTTA
52342 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
52363 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
52384 AT
1 AT
52386 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:52399 original size:28 final size:28
Alignment explanation
Indices: 52362--52415 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
52352 TAGTATAAAT
*
52362 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAGTTTAAGTTATATTA
52390 TATTAATTTGTTAGTTTAAGTTATAT
1 TATTAATTTGTTAGTTTAAGTTATAT
52416 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAATTTGTTAGTTTAAGTTATATTA
Found at i:55489 original size:60 final size:59
Alignment explanation
Indices: 55417--55994 Score: 718
Period size: 60 Copynumber: 10.2 Consensus size: 59
55407 TTTATAAGAT
* *
55417 TTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAA--TGA
*
55478 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
*
55536 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
55596 -T--TACT-A--A-TAAT-A--AAATTATTATTAATATTTAATGA-TT--T-G--AT-A
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
55638 -T--TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
55694 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* * *
55754 TTTAGTAATGATAAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATATTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* *
55814 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATATTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
55874 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
55934 TTAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
55982 TTTAGTAATGATT
1 -TTAGTAATGATT
55995 TGATAGTAAT
Statistics
Matches: 473, Mismatches: 15, Indels: 64
0.86 0.03 0.12
Matches are distributed among these distances:
42 5 0.01
43 3 0.01
45 2 0.00
46 5 0.01
47 1 0.00
48 34 0.07
49 49 0.10
50 2 0.00
51 1 0.00
52 13 0.03
53 3 0.01
55 4 0.01
56 5 0.01
58 5 0.01
59 7 0.01
60 330 0.70
61 4 0.01
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (59 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
Found at i:55565 original size:120 final size:120
Alignment explanation
Indices: 55414--55994 Score: 691
Period size: 109 Copynumber: 5.1 Consensus size: 120
55404 GTATTTATAA
*
55414 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
* *
55479 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
66 AGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATATTAAT
55534 GATTTAGTAATGATTAGTAATAATGAAATTATTATT-A-A--T--T--TTTAAT-G--ATTTGAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
* *
55588 AGTAATGATTACTAATAATAAAATTATTATTAATATTTAATGATTTGATATTAAT
66 AGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
* * * * * *
55643 GA-TTAGTAAT-AAT-GAAATTAT--TATTAATATTTAATGATTTGAT-A-TTAAT-G--A-TT-
1 GATTTAGTAATGATTAGTAATAATGAAATTATTA-TTAAT-ATTTAATGATTTAATAGTAATTTG
55696 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
64 ATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
* * * *
55752 GATTTAGTAATGATAAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATATTAA--TGAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGA-
*
55815 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATATTAAT
65 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
55872 GATTTAGTAATGATTAGTAATAATGAAATTATTATT-A-A--T--T--TTTAAT-G--ATTTGAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
*
55926 AGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAAT
66 AGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
55980 GATTTAGTAATGATT
1 GATTTAGTAATGATT
55995 TGATAGTAAT
Statistics
Matches: 406, Mismatches: 29, Indels: 64
0.81 0.06 0.13
Matches are distributed among these distances:
104 6 0.01
105 2 0.00
106 7 0.02
107 2 0.00
108 61 0.15
109 132 0.33
110 9 0.02
111 7 0.02
112 30 0.07
113 6 0.01
114 12 0.03
116 3 0.01
117 1 0.00
118 1 0.00
119 2 0.00
120 125 0.31
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (120 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
AGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
Found at i:55703 original size:25 final size:24
Alignment explanation
Indices: 55625--55706 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 24
55615 TATTAATATT
55625 TAATGATTTGATATTAATGATTAGTAA
1 TAATGATTTGATATTAATGATT--T-A
*
55652 TAATGAAATT-ATTATTAAT-A-TT-
1 TAATG-ATTTGA-TATTAATGATTTA
55674 TAATGATTTGATATTAATGATTTA
1 TAATGATTTGATATTAATGATTTA
55698 GTAATGATT
1 -TAATGATT
55707 AGTAATAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
21 10 0.22
22 7 0.15
23 2 0.04
24 1 0.02
25 8 0.17
26 1 0.02
27 7 0.15
28 10 0.22
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (24 bp):
TAATGATTTGATATTAATGATTTA
Found at i:55965 original size:21 final size:22
Alignment explanation
Indices: 55941--56010 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
55931 TGATTAGTAA
55941 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
55962 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
55985 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
56009 TA
1 TA
56011 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:55978 original size:14 final size:14
Alignment explanation
Indices: 55962--56009 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
55952 TATTAATATT
*
55962 TAATGATTTGATAT
1 TAATGATTTGATAG
55976 TAATGA-TT--TAG
1 TAATGATTTGATAG
55987 TAATGATTTGATAG
1 TAATGATTTGATAG
56001 TAATGATTT
1 TAATGATTT
56010 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:57947 original size:30 final size:31
Alignment explanation
Indices: 57910--57984 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
57900 TTTCCCTTAA
57910 ACAACTAATAAACTATTCTTTAA-TATAAATT
1 ACAACTAATAAACTATT-TTTAATTATAAATT
*
57941 A-AACTAATAAA-TGATTTTTAATTATAATTT
1 ACAACTAATAAACT-ATTTTTAATTATAAATT
*
57971 ACTACTAA-AAACTA
1 ACAACTAATAAACTA
57985 ATTAACTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
29 6 0.16
30 25 0.66
31 7 0.18
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (31 bp):
ACAACTAATAAACTATTTTTAATTATAAATT
Found at i:58186 original size:21 final size:21
Alignment explanation
Indices: 58162--58201 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
58152 TTTCTATATG
58162 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
58183 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
58202 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:58341 original size:34 final size:35
Alignment explanation
Indices: 58299--58368 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 35
58289 TCTTTTATAT
*
58299 AACTT-AA-ACTAATAAACTATTTTTTATTATAATA
1 AACTTAAACACTAATAAACTAATTTTTA-TATAATA
58333 AACTTAAACTACTAATAAACTAATTTTTATATAATA
1 AACTTAAAC-ACTAATAAACTAATTTTTATATAATA
58369 TAAATTCAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 5 0.16
35 2 0.06
36 7 0.22
37 18 0.56
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (35 bp):
AACTTAAACACTAATAAACTAATTTTTATATAATA
Found at i:58422 original size:27 final size:29
Alignment explanation
Indices: 58392--58456 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
58382 CAAATATAAC
*
58392 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
58419 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
58447 TTAATTATTT
1 TTAAATATTT
58457 TTTAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:58569 original size:9 final size:9
Alignment explanation
Indices: 58537--58574 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
58527 CTAACAAACT
58537 AATAATTTAA
1 AATAA-TTAA
58547 AATAA-TAA
1 AATAATTAA
*
58555 ACTAATTAA
1 AATAATTAA
58564 AATAATTAA
1 AATAATTAA
58573 AA
1 AA
58575 AAAAACTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:58776 original size:12 final size:11
Alignment explanation
Indices: 58745--58780 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
58735 ACGTTCACGG
58745 GCTGCAATAAT
1 GCTGCAATAAT
*
58756 GCAGCAATAAGT
1 GCTGCAATAA-T
58768 GCTGCAATAAT
1 GCTGCAATAAT
58779 GC
1 GC
58781 AGTTGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (11 bp):
GCTGCAATAAT
Found at i:59013 original size:33 final size:33
Alignment explanation
Indices: 58971--59036 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
58961 AAGCATGGAC
58971 TGCATGGTGACCTTCGGCGAGCTGGGCGTGCAT
1 TGCATGGTGACCTTCGGCGAGCTGGGCGTGCAT
*
59004 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCAT
1 TGCATGGTGACCTTCGGCGAGCTGGGCGTGCAT
59037 GGAGGTCGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.12, C:0.23, G:0.39, T:0.26
Consensus pattern (33 bp):
TGCATGGTGACCTTCGGCGAGCTGGGCGTGCAT
Found at i:59061 original size:10 final size:10
Alignment explanation
Indices: 59046--59098 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
59036 TGGAGGTCGT
59046 TGGGCGTGCA
1 TGGGCGTGCA
*
59056 TGGGCGTACA
1 TGGGCGTGCA
*
59066 TGGAG-GT-CGT
1 TGG-GCGTGC-A
59076 TGGGCGTGCA
1 TGGGCGTGCA
59086 TGGGCGTGCA
1 TGGGCGTGCA
59096 TGG
1 TGG
59099 AGGTCGTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.11, C:0.17, G:0.49, T:0.23
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:59062 original size:30 final size:30
Alignment explanation
Indices: 59026--59149 Score: 196
Period size: 30 Copynumber: 4.1 Consensus size: 30
59016 TTTGGCGAGC
59026 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
*
59056 TGGGCGTACATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
*
59086 TGGGCGTGCATGGAGGTCGTTGGGCGTGCTC
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGC-A
*
59117 TGGGCGTGC-TGGTAGGTCGCTGGGCGTGCA
1 TGGGCGTGCATGG-AGGTCGTTGGGCGTGCA
59147 TGG
1 TGG
59150 CGACCTACCC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
30 63 0.72
31 24 0.28
ACGTcount: A:0.09, C:0.18, G:0.49, T:0.24
Consensus pattern (30 bp):
TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
Found at i:62339 original size:24 final size:24
Alignment explanation
Indices: 62305--62399 Score: 118
Period size: 24 Copynumber: 4.0 Consensus size: 24
62295 TACATTTACC
* * *
62305 TGAATTTTGTTCTGATTTCTGATT
1 TGAATTCTGTTTTGATATCTGATT
* * *
62329 TGGATTCTGTTATGATATCTTATT
1 TGAATTCTGTTTTGATATCTGATT
*
62353 TGAATTCTGTTTTGATATCTTATT
1 TGAATTCTGTTTTGATATCTGATT
*
62377 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTTTGATATCTGAT
62400 ATCTCCGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.19, C:0.08, G:0.16, T:0.57
Consensus pattern (24 bp):
TGAATTCTGTTTTGATATCTGATT
Found at i:62384 original size:48 final size:48
Alignment explanation
Indices: 62266--62392 Score: 130
Period size: 48 Copynumber: 2.6 Consensus size: 48
62256 AAATATTTTA
* * * *
62266 TCTGATTTCTGACTTGAATTCTATTATGATACATTTACCTGAATTTTGT
1 TCTGATATCTGATTTGAATTCTGTTATGATACA-TTACCTGAATTCTGT
* * **
62315 TCTGATTTCTGATTTGGATTCTGTTATGATATC-TTATTTGAATTCTGT
1 TCTGATATCTGATTTGAATTCTGTTATGATA-CATTACCTGAATTCTGT
* * *
62363 TTTGATATCTTATTTGAATTCTGTTTTGAT
1 TCTGATATCTGATTTGAATTCTGTTATGAT
62393 TTCTGATATC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 37 0.56
49 28 0.42
50 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (48 bp):
TCTGATATCTGATTTGAATTCTGTTATGATACATTACCTGAATTCTGT
Found at i:74853 original size:72 final size:72
Alignment explanation
Indices: 74764--75051 Score: 531
Period size: 72 Copynumber: 4.0 Consensus size: 72
74754 GAAATAAAGA
* * *
74764 GTGAGAGCATTGACGAAACTGGGGGTTTTCTGATAACTTGTGGCGAGTGCTCTCGATTCATGACC
1 GTGAGAGCATTGACGAAACTGGGGGTTTTCCGATAATTTGTGGCGAGTGCACTCGATTCATGACC
74829 AAAACTG
66 AAAACTG
74836 GTGAGAGCATTGACGAAACTGGGGGTTTTCCGATAATTTGTGGCGAGTGCACTCGATTCATGACC
1 GTGAGAGCATTGACGAAACTGGGGGTTTTCCGATAATTTGTGGCGAGTGCACTCGATTCATGACC
74901 AAAACTG
66 AAAACTG
74908 GTGAGAGCATTGACGAAACTGGGGGTTTTCCGATAATTTGTGGCGAGTGCACTCGATTCATGACC
1 GTGAGAGCATTGACGAAACTGGGGGTTTTCCGATAATTTGTGGCGAGTGCACTCGATTCATGACC
74973 AAAACTG
66 AAAACTG
* *
74980 GTGAGAGCATTGACGAAACTGGGGGTTTTCTGATAATTTGTGGCGAGTGCTCTCGATTCATGACC
1 GTGAGAGCATTGACGAAACTGGGGGTTTTCCGATAATTTGTGGCGAGTGCACTCGATTCATGACC
75045 AAAACTG
66 AAAACTG
75052 TTAAATCCGC
Statistics
Matches: 211, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 211 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (72 bp):
GTGAGAGCATTGACGAAACTGGGGGTTTTCCGATAATTTGTGGCGAGTGCACTCGATTCATGACC
AAAACTG
Found at i:76031 original size:87 final size:89
Alignment explanation
Indices: 75895--76121 Score: 323
Period size: 87 Copynumber: 2.6 Consensus size: 89
75885 ATTATTAAGT
* * *
75895 AAAATAACAAATTATGTAACGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTA
1 AAAATAACATATTAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTA
*
75960 ATTACTAGAAACATTATC-AA-GC
66 ATTACTAGAAACATTATCAAATAC
* ** ** *
75982 ACAATAACATATTAGGTAGTGTTTATATAATGTAATATATAGCGCTTATATAATAAAATAGGTTA
1 AAAATAACATATTAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTA
* *
76047 ATTACTGGAAATATTATCAAATAC
66 ATTACTAGAAACATTATCAAATAC
*
76071 AAAATAACATATTAGGTAACGTTTATATAATGTAATAGGTAGCGTTTATAT
1 AAAATAACATATTAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATAT
76122 TGATTTATTC
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
87 72 0.60
88 2 0.02
89 46 0.38
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (89 bp):
AAAATAACATATTAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAAGTTA
ATTACTAGAAACATTATCAAATAC
Found at i:76766 original size:200 final size:199
Alignment explanation
Indices: 76134--76802 Score: 915
Period size: 198 Copynumber: 3.4 Consensus size: 199
76124 ATTTATTCTA
*
76134 TCATAAAATCGGTATATTTATACC-GTTAACATTGTAAATTTACCTATTACATTATAATTATCAG
1 TCATAAAACCGGTATATTTATACCGGTT-ACATTGTAAATTTACCTATTACATTATAATTATCAG
* * * *
76198 TTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACCTTATGCGTGCATCTCGTT
65 TTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTT
* * * *
76261 AGGCATTCATTCTGGAAAAAAGTATCGACACAAGCTTAAAACGTGTCGATACATTATGTATAAC-
129 TGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTA-GACT
76325 TATTTTC
193 TATTTTC
* * *
76332 TCATAAAACCGGTATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCAGT
1 TCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGT
* *
76397 TTGGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTC-ATTG
66 TTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTG
** *
76460 GACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTTAATACATTATGTAGACCTA
131 G-CATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACTTA
76525 TTTTC
195 TTTTC
* * * *
76530 TCATAAAACCGATATATTTCTACCGAG-TACATTGTAAATTTACCTATTACATTGTAATTATCGG
1 TCATAAAACCGGTATATTTATACCG-GTTACATTGTAAATTTACCTATTACATTATAATTATCAG
* *
76594 TTTCGATGTTTTTTGGATCGATACTTTTAATAAATGTATCAACACTTTATGTGTGCACCTCGTTT
65 TTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTT
* *** * *
76659 GGCATTCATTCTGGACAAAATGTATCGACAC-TTTTTAAATTTGAGTCGATACATTATGTAGACT
130 GGCATTCATTCTGGA-AAAAAGTATCGACACAAACTTAAA-ATGTGTCGATACATTATGTAGACT
76723 TATTCTT-
193 TATT-TTC
* * *
76730 TCATAAAACCGGTATATTTATACTGGTTATATTGTAAATTTACCTATTACATTATAATTATCGGT
1 TCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGT
76795 TTCGATGT
66 TTCGATGT
76803 AACATATGTG
Statistics
Matches: 423, Mismatches: 36, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
196 3 0.01
197 21 0.05
198 217 0.51
199 73 0.17
200 107 0.25
201 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
TCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGT
TTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTG
GCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACTTAT
TTTC
Found at i:77053 original size:20 final size:20
Alignment explanation
Indices: 77028--77074 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
77018 ATTATTCTAA
*
77028 TATTTTAAAAATAATATTAT
1 TATTTTAAAAATAATAATAT
***
77048 TATTTTATTCATAATAATAT
1 TATTTTAAAAATAATAATAT
77068 TATTTTA
1 TATTTTA
77075 TTGTATTTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTAAAAATAATAATAT
Found at i:77075 original size:20 final size:20
Alignment explanation
Indices: 77038--77076 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
77028 TATTTTAAAA
*
77038 ATAATATTATTATTTTATTC
1 ATAATAATATTATTTTATTC
77058 ATAATAATATTATTTTATT
1 ATAATAATATTATTTTATT
77077 GTATTTGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATAATAATATTATTTTATTC
Found at i:77765 original size:28 final size:31
Alignment explanation
Indices: 77684--77766 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 31
77674 TAAAAAATAA
* *
77684 AAAATATAAT-TTATAATAATTTATTTTAAT
1 AAAATATAATAATATAATATTTTATTTTAAT
*
77714 AAAATATAATAATCATAATTTTTTA-TTT-AT
1 AAAATATAATAAT-ATAATATTTTATTTTAAT
77744 AAAAT-T-ATAGATATAATATTTTA
1 AAAATATAATA-ATATAATATTTTA
77767 ATAATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 13 0.28
29 3 0.07
30 17 0.37
31 4 0.09
32 9 0.20
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
AAAATATAATAATATAATATTTTATTTTAAT
Found at i:77773 original size:28 final size:27
Alignment explanation
Indices: 77705--77792 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 27
77695 TATAATAATT
* *
77705 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATTATAAT-ATAA
* * *
77732 TTTTTTATTTATAAAATTATAGATATAA
1 TATTTTAATAATAAAATTATA-ATATAA
* *
77760 TATTTTAATAATAATATTTATATAAATAA
1 TATTTTAATAATAA-AATTATA-ATATAA
77789 TATT
1 TATT
77793 AAATAAATTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 8 0.17
28 22 0.47
29 17 0.36
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
TATTTTAATAATAAAATTATAATATAA
Found at i:77789 original size:15 final size:14
Alignment explanation
Indices: 77692--77792 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
77682 AAAAAATATA
*
77692 ATTTATAATAAT-TT
1 ATTT-TAATAATAAT
77706 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
77719 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
77733 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
77747 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
77761 ATTTTAATAATAAT
1 ATTTTAATAATAAT
77775 A-TTTATATAAATAAT
1 ATTTTA-AT-AATAAT
77790 ATT
1 ATT
77793 AAATAAATTA
Statistics
Matches: 65, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
13 20 0.31
14 36 0.55
15 8 0.12
16 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:77798 original size:14 final size:15
Alignment explanation
Indices: 77756--77800 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
77746 AATTATAGAT
*
77756 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
77770 ATAATATTTATATAA
1 ATAATATTTAAATAA
77785 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
77799 AT
1 AT
77801 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:78137 original size:23 final size:23
Alignment explanation
Indices: 78111--78160 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
78101 ACATATTTTA
*
78111 TTATATAAGCGCTACCTATTATG
1 TTATATAAGCGCTACCTAATATG
* *
78134 TTATATAAGTGTTACCTAATATG
1 TTATATAAGCGCTACCTAATATG
78157 TTAT
1 TTAT
78161 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATATG
Found at i:78241 original size:87 final size:87
Alignment explanation
Indices: 78095--78325 Score: 363
Period size: 87 Copynumber: 2.7 Consensus size: 87
78085 ACAAATTAAA
* ** * *
78095 TAATTAACATATTTTATTATATAAGCGCTACCTATTATGTTATATAAGTGTTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
78160 TTGTGCTTGATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
* * *
78182 TAATTAACCTATTTTATTATATAAGCTCTACATATTACATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
* **
78247 TTGTGTTTGATAATGTTTTTAG
66 TTGTGCTTGATAATGTTTCCAG
78269 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
78326 TTACATTATA
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 131 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTA
TTGTGCTTGATAATGTTTCCAG
Found at i:78302 original size:110 final size:110
Alignment explanation
Indices: 78188--78447 Score: 412
Period size: 110 Copynumber: 2.4 Consensus size: 110
78178 CCAGTAATTA
** * * * *
78188 ACCTATTTTATTATATAAGCTCTACATATTACATTATATAAGCGGTACCTAATATGTTATTGTGT
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTATGC
* *
78253 TTGATAATGTTTTTAGTAATTAACCTATTTTATTATATAAGCGCT
66 TTGATAATGTTTTCAGTAATTAACCTATTTTATTATATAAACGCT
*
78298 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGTGGTACCTAATATGTTATTATGC
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTATGC
78363 TTGATAATGTTTTCAGTAATTAACCTATTTTATTATATAAACGCT
66 TTGATAATGTTTTCAGTAATTAACCTATTTTATTATATAAACGCT
* *
78408 ACATAATTACATCATATAAGCGCTACCTATTACATTATAT
1 ACCT-ATTACATTATATAAGCGCTACCTATTACATTATAT
78448 TTTTACCTGT
Statistics
Matches: 138, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 104 0.75
111 34 0.25
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (110 bp):
ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTATGC
TTGATAATGTTTTCAGTAATTAACCTATTTTATTATATAAACGCT
Found at i:78357 original size:23 final size:23
Alignment explanation
Indices: 78275--78348 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
78265 TTAGTAATTA
**
78275 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
78298 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
78321 ACCTATTACATTATATAAGTGGT
1 ACCTATTACATTATATAAGCGCT
78344 ACCTA
1 ACCTA
78349 ATATGTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:78447 original size:23 final size:23
Alignment explanation
Indices: 78385--78447 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
78375 TCAGTAATTA
**
78385 ACCTATTTTATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
* * *
78408 ACATAATTACATCATATAAGCGCT
1 ACCT-ATTACATTATATAAACGCT
78432 ACCTATTACATTATAT
1 ACCTATTACATTATAT
78448 TTTTACCTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGCT
Found at i:79299 original size:19 final size:19
Alignment explanation
Indices: 79275--79312 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
79265 TTAAACTAAG
79275 AAATATCT-CATATTATAAT
1 AAATATCTACA-ATTATAAT
*
79294 AAATATTTACAATTATAAT
1 AAATATCTACAATTATAAT
79313 CGTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATATCTACAATTATAAT
Found at i:83148 original size:190 final size:191
Alignment explanation
Indices: 82780--83158 Score: 469
Period size: 190 Copynumber: 2.0 Consensus size: 191
82770 GATAAATTTT
* * * *
82780 AATTTGAATATTAGTAGGATAAGTATTCTTTTAATAAATCAATTTAAAAAGGTATTTGTTATCTT
1 AATTTGAATATTAGTAGGATAAGTAATCTTTGAATAAATCAATTTAAAAAGGTATTTATTACCTT
* * * ** *
82845 TTTAATTTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATTTGT
66 TTTAACTTTGAACATTAAAAGATAATTATACACTTTTAAATATTTCAAATTAAAATAATATTTAT
* * * * * *
82910 TTAAGTTTGAATAGTAATAGGAATTTACATTTTTACCATTGTAAATT-AAATATATTATCC
131 TTAACTTTGAATAGTAAAAAGAATTTACATTTTGAACATTGTAAATTAAAAGATATTATCC
* ** *
82970 AATTTGAATATTAGTAGGATAATTAATCTTTGAATATGTCAATTTAAAATGGTATTTATTACCTT
1 AATTTGAATATTAGTAGGATAAGTAATCTTTGAATAAATCAATTTAAAAAGGTATTTATTACCTT
* *
83035 TTTAACTTTGAACATT-AAAGATAGTTATACACTTTTAAATATTTTAAATTAAAATAATATTTAT
66 TTTAACTTTGAACATTAAAAGATAATTATACACTTTTAAATATTTCAAATTAAAATAATATTTAT
* * * *
83099 TTAACTTTGAATGGTAAAAATAGTTTTATC-TTTTGAATATT-TCAAATTAAAAGATATTAT
131 TTAACTTTGAATAGTAAAAAGA-ATTTA-CATTTTGAACATTGT-AAATTAAAAGATATTAT
83159 TATATGTTTA
Statistics
Matches: 159, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
189 60 0.38
190 88 0.55
191 11 0.07
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (191 bp):
AATTTGAATATTAGTAGGATAAGTAATCTTTGAATAAATCAATTTAAAAAGGTATTTATTACCTT
TTTAACTTTGAACATTAAAAGATAATTATACACTTTTAAATATTTCAAATTAAAATAATATTTAT
TTAACTTTGAATAGTAAAAAGAATTTACATTTTGAACATTGTAAATTAAAAGATATTATCC
Found at i:85928 original size:66 final size:66
Alignment explanation
Indices: 85846--85989 Score: 279
Period size: 66 Copynumber: 2.2 Consensus size: 66
85836 AGAGTTACGG
85846 ATTGACACATGAGGGCTCGCATACACAATTGTAAGATATACTGGAGTCGATAAATTTGGAGACTG
1 ATTGACACATGAGGGCTCGCATACACAATTGTAAGATATACTGGAGTCGATAAATTTGGAGACTG
85911 A
66 A
85912 ATTGACACATGAGGGCTCGCATACACAATTGTAAGATATACTGGAGTCGATAAATTTGGAGACTG
1 ATTGACACATGAGGGCTCGCATACACAATTGTAAGATATACTGGAGTCGATAAATTTGGAGACTG
85977 A
66 A
*
85978 ATTAACACATGA
1 ATTGACACATGA
85990 AAGAATTGAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (66 bp):
ATTGACACATGAGGGCTCGCATACACAATTGTAAGATATACTGGAGTCGATAAATTTGGAGACTG
A
Found at i:87952 original size:13 final size:13
Alignment explanation
Indices: 87934--87981 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
87924 ATTTTTAGTT
*
87934 TTAAAATAAAATA
1 TTAAAATAATATA
*
87947 TTAAAAGAATATA
1 TTAAAATAATATA
*
87960 TTAATATTAATATA
1 TTAA-AATAATATA
87974 TTAAAATA
1 TTAAAATA
87982 TAACTGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
TTAAAATAATATA
Found at i:90970 original size:20 final size:20
Alignment explanation
Indices: 90945--90983 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
90935 ACGGGGTGAC
90945 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
90965 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
90984 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:90977 original size:9 final size:9
Alignment explanation
Indices: 90944--90983 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
90934 TACGGGGTGA
90944 CATACGAGC
1 CATACGAGC
*
90953 CATACAAGC
1 CATACGAGC
90962 CATATACGAGC
1 C--ATACGAGC
90973 CATACGAGC
1 CATACGAGC
90982 CA
1 CA
90984 ATGGAGAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (9 bp):
CATACGAGC
Found at i:91026 original size:28 final size:28
Alignment explanation
Indices: 90986--91042 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
90976 ACGAGCCAAT
* *
90986 GGAGAGGTCGCCATGCAGTCTTATACGA
1 GGAGAGGTCGCCATGCAGGCTTAGACGA
91014 GGAGAGGTCGCCATGCAGGCTTAGACGA
1 GGAGAGGTCGCCATGCAGGCTTAGACGA
91042 G
1 G
91043 TCGTACAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.37, T:0.18
Consensus pattern (28 bp):
GGAGAGGTCGCCATGCAGGCTTAGACGA
Found at i:91110 original size:29 final size:29
Alignment explanation
Indices: 91078--91139 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
91068 ATGCAGCCTA
91078 GGCGACCTTGTAGGTCGCCATGTAGTCCC
1 GGCGACCTTGTAGGTCGCCATGTAGTCCC
91107 GGCGACCTTGTAGGTCGCCATGTAGTCCC
1 GGCGACCTTGTAGGTCGCCATGTAGTCCC
91136 GGCG
1 GGCG
91140 CCATTCCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.13, C:0.31, G:0.34, T:0.23
Consensus pattern (29 bp):
GGCGACCTTGTAGGTCGCCATGTAGTCCC
Found at i:91247 original size:27 final size:27
Alignment explanation
Indices: 91215--91270 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
91205 CCTACAGCTC
91215 CCAATGCATGCATGTGAACCATTTGAG
1 CCAATGCATGCATGTGAACCATTTGAG
91242 CCAATGCATGCATGTGAACCATTTGAG
1 CCAATGCATGCATGTGAACCATTTGAG
91269 CC
1 CC
91271 GTGAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (27 bp):
CCAATGCATGCATGTGAACCATTTGAG
Found at i:91443 original size:27 final size:23
Alignment explanation
Indices: 91416--91461 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
91406 AAAAGAAAGA
91416 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
91439 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
91462 CCGAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.39, T:0.09
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:91476 original size:25 final size:23
Alignment explanation
Indices: 91416--91476 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
91406 AAAAGAAAGA
**
91416 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
**
91439 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
*
91462 CCGAGAAAGAAAGAA
1 --AAGAAAGAAAGAA
91477 AGGGAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.70
25 10 0.30
ACGTcount: A:0.51, C:0.07, G:0.36, T:0.07
Consensus pattern (23 bp):
AAGAAAGAAAGAAGAGATTGCAG
Found at i:91677 original size:41 final size:41
Alignment explanation
Indices: 91632--91720 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
91622 TATATGATTG
* *
91632 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
91673 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
91714 TTAGTTT
1 TTAGTTT
91721 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:91764 original size:46 final size:48
Alignment explanation
Indices: 91701--91792 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 48
91691 TTATATAGTT
*
91701 AAAAAATAATTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATATAA
1 AAAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATATAA
*
91746 AAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
91793 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 6 0.15
46 15 0.37
47 5 0.12
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (48 bp):
AAAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATATAA
Found at i:91869 original size:32 final size:33
Alignment explanation
Indices: 91833--91909 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
91823 TTAGTTAGTA
91833 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
91865 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
91899 ATTTTATTAGT
1 AGTTTATTAGT
91910 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:91987 original size:16 final size:16
Alignment explanation
Indices: 91955--92001 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
91945 TTTAAAAAGT
*
91955 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
91971 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
91987 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
92002 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:91996 original size:15 final size:14
Alignment explanation
Indices: 91976--92006 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
91966 GTTTATTAGT
91976 TTATTATATTATAAG
1 TTATTATATTA-AAG
91991 TTATTATATTAAAG
1 TTATTATATTAAAG
92005 TT
1 TT
92007 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:95759 original size:26 final size:24
Alignment explanation
Indices: 95701--95759 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
95691 CTAATAAACC
*
95701 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
95725 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
95753 TAATAAT
1 TAATAAT
95760 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:96609 original size:28 final size:30
Alignment explanation
Indices: 96569--96631 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
96559 ATTTTTTATA
*
96569 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
96599 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
96627 TAATA
1 TAATA
96632 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:96638 original size:28 final size:28
Alignment explanation
Indices: 96573--96638 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
96563 TTTATATAAT
*
96573 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
96601 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
96629 ATAATTTATA
1 ATAATATATA
96639 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:96641 original size:21 final size:21
Alignment explanation
Indices: 96608--96656 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
96598 CTAATATAAT
96608 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
96629 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
96650 ATTAACT
1 A-TAACT
96657 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:97306 original size:29 final size:29
Alignment explanation
Indices: 97264--97354 Score: 173
Period size: 29 Copynumber: 3.1 Consensus size: 29
97254 AAATACACAC
*
97264 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
97293 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
97322 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
97351 AGGT
1 AGGT
97355 TACTGTAGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:107611 original size:21 final size:21
Alignment explanation
Indices: 107585--107624 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
107575 GACTATAGCA
107585 TTGCGATTTCCCAAATTCGTG
1 TTGCGATTTCCCAAATTCGTG
* *
107606 TTGCGATTTTCCTAATTCG
1 TTGCGATTTCCCAAATTCG
107625 CAATGCGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGTG
Found at i:107643 original size:20 final size:21
Alignment explanation
Indices: 107582--107973 Score: 425
Period size: 20 Copynumber: 19.1 Consensus size: 21
107572 TCTGACTATA
* **
107582 GCATTGCGATTTCCCAAATTC
1 GCATTGCGATTTACGTAATTC
** * *
107603 GTGTTGCGATTTTCCTAATTC
1 GCATTGCGATTTACGTAATTC
* *
107624 GCAATGCGA-ATACGTAATTC
1 GCATTGCGATTTACGTAATTC
107644 GCATTGCGATTTACGTAA-TC
1 GCATTGCGATTTACGTAATTC
* *
107664 GCATTGCGATTTTCCTAATTC
1 GCATTGCGATTTACGTAATTC
107685 GCATTGCGATTTACGTAA-TC
1 GCATTGCGATTTACGTAATTC
* *
107705 GCATTGCGATTTTCCTAATTC
1 GCATTGCGATTTACGTAATTC
*
107726 GCATTGTGATTTACGTAA-TC
1 GCATTGCGATTTACGTAATTC
* *
107746 GCATTGCGATTTTCCTAATTC
1 GCATTGCGATTTACGTAATTC
* *
107767 GCATTACGATTTTTC-TAATTC
1 GCATTGCGA-TTTACGTAATTC
*
107788 GCATTGCGATTTACGTAA-CC
1 GCATTGCGATTTACGTAATTC
107808 GCATTGCGATTTACGTAA-TC
1 GCATTGCGATTTACGTAATTC
*
107828 GCATTGCGATTTACGCAATT-
1 GCATTGCGATTTACGTAATTC
*
107848 TCATTGCGATTTTAC-TAATTC
1 GCATTGCGA-TTTACGTAATTC
107869 GCATTGCGATTTACGTAA-TC
1 GCATTGCGATTTACGTAATTC
107889 GCATTGCGATTTTAC-TAATTC
1 GCATTGCGA-TTTACGTAATTC
* * *
107910 GCATTACGATTTTCCTAATTC
1 GCATTGCGATTTACGTAATTC
107931 GCACTT-CGATTTACGTAA-TC
1 GCA-TTGCGATTTACGTAATTC
*
107951 GCATTGCGATTTA-GTAAATC
1 GCATTGCGATTTACGTAATTC
107971 GCA
1 GCA
107974 ACGAGATTCT
Statistics
Matches: 318, Mismatches: 37, Indels: 33
0.82 0.10 0.09
Matches are distributed among these distances:
19 6 0.02
20 162 0.51
21 143 0.45
22 7 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (21 bp):
GCATTGCGATTTACGTAATTC
Found at i:107668 original size:82 final size:82
Alignment explanation
Indices: 107582--107973 Score: 485
Period size: 82 Copynumber: 4.8 Consensus size: 82
107572 TCTGACTATA
* * ** * *
107582 GCATTGCGATTTCCCAAATTCGTGTTGCGATTTTCCTAATTCGCAATGCGA-ATACGTAATTCGC
1 GCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAA-TCGC
107646 ATTGCGATTTACGTAATC
65 ATTGCGATTTACGTAATC
* * * *
107664 GCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAA-TCGCATTGCGATTTTCCTAATTCGC
1 GCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAA-TCGC
*
107728 ATTGTGATTTACGTAATC
65 ATTGCGATTTACGTAATC
* * *
107746 GCATTGCGATTTTCCTAATTCGCATTACGATTTTTCTAATTCGCATTGCGATTTACGTAACCGCA
1 GCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCA
107811 TTGCGATTTACGTAATC
66 TTGCGATTTACGTAATC
* * *
107828 GCATTGCGATTTACGC-AATT-TCATTGCGATTTTACTAATTCGCATTGCGATTTACGTAATCGC
1 GCATTGCGATTTTC-CTAATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCGC
107891 ATTGCGATTTTAC-TAATTC
65 ATTGCGA-TTTACGTAA-TC
* * *
107910 GCATTACGATTTTCCTAATTCGCACTT-CGATTTACGTAA-TCGCATTGCGATTTA-GTAAATCG
1 GCATTGCGATTTTCCTAATTCGCA-TTGCGATTTTCCTAATTCGCATTGCGATTTACGT-AATCG
107972 CA
64 CA
107974 ACGAGATTCT
Statistics
Matches: 271, Mismatches: 30, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
81 62 0.23
82 177 0.65
83 30 0.11
84 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (82 bp):
GCATTGCGATTTTCCTAATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCA
TTGCGATTTACGTAATC
Found at i:107683 original size:41 final size:41
Alignment explanation
Indices: 107582--107963 Score: 431
Period size: 41 Copynumber: 9.3 Consensus size: 41
107572 TCTGACTATA
* * ** * *
107582 GCATTGCGATTTCCCAAATTCGTGTTGCGATTTTCCTAATTC
1 GCATTGCGATTTACCTAATTCGCATTGCGATTTACGTAA-TC
* * *
107624 GCAATGCGA-ATACGTAATTCGCATTGCGATTTACGTAATC
1 GCATTGCGATTTACCTAATTCGCATTGCGATTTACGTAATC
*
107664 GCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATC
1 GCATTGCGATTTACCTAATTCGCATTGCGATTTACGTAATC
* *
107705 GCATTGCGATTTTCCTAATTCGCATTGTGATTTACGTAATC
1 GCATTGCGATTTACCTAATTCGCATTGCGATTTACGTAATC
* * *
107746 GCATTGCGATTTTCCTAATTCGCATTACGATTTTTC-TAATTC
1 GCATTGCGATTTACCTAATTCGCATTGCGA-TTTACGTAA-TC
* *
107788 GCATTGCGATTTACGTAA-CCGCATTGCGATTTACGTAATC
1 GCATTGCGATTTACCTAATTCGCATTGCGATTTACGTAATC
*
107828 GCATTGCGATTTACGC-AATT-TCATTGCGATTTTAC-TAATTC
1 GCATTGCGATTTAC-CTAATTCGCATTGCGA-TTTACGTAA-TC
*
107869 GCATTGCGATTTACGTAA-TCGCATTGCGATTTTAC-TAATTC
1 GCATTGCGATTTACCTAATTCGCATTGCGA-TTTACGTAA-TC
* *
107910 GCATTACGATTTTCCTAATTCGCACTT-CGATTTACGTAATC
1 GCATTGCGATTTACCTAATTCGCA-TTGCGATTTACGTAATC
107951 GCATTGCGATTTA
1 GCATTGCGATTTA
107964 GTAAATCGCA
Statistics
Matches: 295, Mismatches: 32, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
40 44 0.15
41 208 0.71
42 41 0.14
43 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (41 bp):
GCATTGCGATTTACCTAATTCGCATTGCGATTTACGTAATC
Found at i:107971 original size:143 final size:143
Alignment explanation
Indices: 107606--107973 Score: 544
Period size: 143 Copynumber: 2.6 Consensus size: 143
107596 CAAATTCGTG
* * * * *
107606 TTGCGATTTTCCTAATTCGCAATGCGA-ATACGTAATTCGCATTGCGATTTACGTAATCGCATTG
1 TTGCGATTTTCCTAATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCATTG
** * * * *
107670 CGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCATTGTGA
66 CGA-TTTAGTAAATCGCATTGCGATTTACGCAATCGCATTGCGATTTTACTAATTCGCATTGCGA
107735 TTTACGTAATCGCA
130 TTTACGTAATCGCA
* *
107749 TTGCGATTTTCCTAATTCGCATTACGATTTTTCTAATTCGCATTGCGATTTACGTAACCGCATTG
1 TTGCGATTTTCCTAATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCATTG
**
107814 CGATTTACGT-AATCGCATTGCGATTTACGCAATTTCATTGCGATTTTACTAATTCGCATTGCGA
66 CGATTTA-GTAAATCGCATTGCGATTTACGCAATCGCATTGCGATTTTACTAATTCGCATTGCGA
107878 TTTACGTAATCGCA
130 TTTACGTAATCGCA
*
107892 TTGCGATTTTACTAATTCGCATTACGATTTTCCTAATTCGCACTT-CGATTTACGTAATCGCATT
1 TTGCGATTTTCCTAATTCGCATTACGATTTTCCTAATTCGCA-TTGCGATTTACGTAATCGCATT
107956 GCGATTTAGTAAATCGCA
65 GCGATTTAGTAAATCGCA
107974 ACGAGATTCT
Statistics
Matches: 203, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
142 2 0.01
143 163 0.80
144 38 0.19
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (143 bp):
TTGCGATTTTCCTAATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCATTG
CGATTTAGTAAATCGCATTGCGATTTACGCAATCGCATTGCGATTTTACTAATTCGCATTGCGAT
TTACGTAATCGCA
Found at i:108034 original size:143 final size:142
Alignment explanation
Indices: 107606--108023 Score: 407
Period size: 143 Copynumber: 2.9 Consensus size: 142
107596 CAAATTCGTG
* * * * * * *
107606 TTGCGATTTTCCTAATTCGCAATGCGA-ATACGTAATTCGCATTGCGATTTACGTAATCGCATTG
1 TTGCGATTTTACTAATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACGTAACCGCATTG
* * ** * * * * * * * * *
107670 CGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCATTGTGA
66 CGATTTACGTAA-TCGCAACGAGATTTAC-CAATCGCAATACGAATTTACAAATTCGCACTGCGA
107735 TTTACGTAATCGCA
129 TTTACGTAATCGCA
* *
107749 TTGCGATTTTCCTAATTCGCATTACGATTTTTCTAATTCGCATTGCGATTTACGTAACCGCATTG
1 TTGCGATTTTACTAATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACGTAACCGCATTG
** * ** * * * * *
107814 CGATTTACGTAATCGCATTGCGATTTACGCAATTTCATTGCGATTTTACTAATTCGCATTGCGAT
66 CGATTTACGTAATCGCAACGAGATTTAC-CAATCGCAATACGAATTTACAAATTCGCACTGCGAT
107879 TTACGTAATCGCA
130 TTACGTAATCGCA
*
107892 TTGCGATTTTACTAATTCGCATTACGATTTTCCTAATTCGCACTT-CGATTTACGTAATCGCATT
1 TTGCGATTTTACTAATTCGCATTACGATTTTCCTAATTCGCA-TTGCGATTTACGTAACCGCATT
*
107956 GCGATTTA-GTAAATCGCAACGAGATTCTGA-CTATCGCAATACTGAATTT-CAAATTCGCAACT
65 GCGATTTACGT-AATCGCAACGAGATT-T-ACCAATCGCAATAC-GAATTTACAAATTCGC-ACT
108018 -CGATTT
125 GCGATTT
108024 TTGAATTCGC
Statistics
Matches: 240, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
142 2 0.01
143 185 0.77
144 52 0.22
145 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (142 bp):
TTGCGATTTTACTAATTCGCATTACGATTTTCCTAATTCGCATTGCGATTTACGTAACCGCATTG
CGATTTACGTAATCGCAACGAGATTTACCAATCGCAATACGAATTTACAAATTCGCACTGCGATT
TACGTAATCGCA
Found at i:108765 original size:24 final size:24
Alignment explanation
Indices: 108738--108791 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
108728 GTATTCGAAA
108738 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
108762 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
108786 TTTGAT
1 TTTGAT
108792 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:111301 original size:20 final size:20
Alignment explanation
Indices: 111276--111325 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
111266 ATCTTAATGT
111276 CTATCGCAACGCGGAAAT-AA
1 CTATCGCAACGC-GAAATGAA
*
111296 CTATCGCAATGCGAAATGAA
1 CTATCGCAACGCGAAATGAA
*
111316 -AATCGCAACG
1 CTATCGCAACG
111326 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAATGAA
Found at i:111320 original size:19 final size:19
Alignment explanation
Indices: 111298--111428 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
111288 GGAAATAACT
111298 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
111317 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
111331 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
111350 ATCGCAA--CG--AT-AGA
1 ATCGCAATGCGAAATGAAA
111364 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
111383 ATCGCAAT----AA-GGGA
1 ATCGCAATGCGAAATGAAA
*
111397 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
111416 ATCGCAACGCGAA
1 ATCGCAATGCGAA
111429 TTTAGTTTTG
Statistics
Matches: 87, Mismatches: 10, Indels: 30
0.69 0.08 0.24
Matches are distributed among these distances:
14 28 0.32
15 5 0.06
16 4 0.05
17 4 0.05
18 5 0.06
19 41 0.47
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:111340 original size:33 final size:33
Alignment explanation
Indices: 111298--111424 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
111288 GGAAATAACT
111298 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
111331 ATCGCAATGCGAAATGAAAATCGCAACGATAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
** *
111364 ATCGCAATGCGAAATGAAAATCGCAATAAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
111397 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
111425 CGAATTTAGT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:111466 original size:19 final size:19
Alignment explanation
Indices: 111424--111469 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
111414 AAATCGCAAC
* *
111424 GCGAATTTAGTTTTGCCTT
1 GCGATTTTAGTTTCGCCTT
*
111443 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCCTT
111462 GCGATTTT
1 GCGATTTT
111470 GTCGTTGCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.13, C:0.15, G:0.24, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCCTT
Found at i:111477 original size:14 final size:14
Alignment explanation
Indices: 111453--111498 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
111443 GCGATTTTAG
*
111453 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
*
111467 TTTGTCGTTGCGAT
1 TTTCTCGTTGCGAT
*
111481 TCTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
111495 TTTC
1 TTTC
111499 ATTTCGCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.07, C:0.22, G:0.24, T:0.48
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:111637 original size:14 final size:14
Alignment explanation
Indices: 111618--111654 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
111608 CATCAATTAA
111618 ACAAATCAACTTTT
1 ACAAATCAACTTTT
**
111632 ACAAATCGTCTTTT
1 ACAAATCAACTTTT
111646 ACAAATCAA
1 ACAAATCAA
111655 TTAAACAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:113535 original size:19 final size:19
Alignment explanation
Indices: 113495--113565 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
113485 AATGGAACTT
*
113495 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
113516 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
113535 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
113554 AAAATCACAACG
1 AAAATCGCAACG
113566 ATAGGATTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
19 33 0.75
21 11 0.25
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:113600 original size:20 final size:20
Alignment explanation
Indices: 113577--113639 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
113567 TAGGATTGCG
*
113577 ATTTTGTCATTGCGATTTTC
1 ATTTTGTCGTTGCGATTTTC
*
113597 ATTTCG-CGTTGCGATTTTC
1 ATTTTGTCGTTGCGATTTTC
* *
113616 ATTCTCTCGTTGCGATTTTC
1 ATTTTGTCGTTGCGATTTTC
113636 ATTT
1 ATTT
113640 CAACCAAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
19 15 0.42
20 21 0.58
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (20 bp):
ATTTTGTCGTTGCGATTTTC
Found at i:113610 original size:19 final size:19
Alignment explanation
Indices: 113586--113640 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 19
113576 GATTTTGTCA
113586 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
113605 TTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATT-TCGCG
113625 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
113641 AACCAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.11, C:0.22, G:0.16, T:0.51
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:113841 original size:94 final size:93
Alignment explanation
Indices: 113729--114030 Score: 541
Period size: 94 Copynumber: 3.2 Consensus size: 93
113719 ATGGATTGCA
* *
113729 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
113794 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
113822 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
113887 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
113916 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
113981 TTAGCAGAATTGGCAGCAACCAAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
114010 TTACTTCAACCAAAAGACAAA
1 TTACTTCAACCAAAAGACAAA
114031 TACTAACTTC
Statistics
Matches: 203, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
93 21 0.10
94 182 0.90
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:114089 original size:78 final size:79
Alignment explanation
Indices: 113940--114092 Score: 236
Period size: 78 Copynumber: 1.9 Consensus size: 79
113930 AAGACAAAAC
* *
113940 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCAAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTGACAGCAACCAAA
114005 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
* *
114022 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGACAGCAACCGAATAA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGACAGCAACCAAATAA
114086 ATTTACT
66 ATTTACT
114093 AAGCAATCTA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
78 40 0.60
82 27 0.40
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTGACAGCAACCAAATAA
ATTTACTTCAACCA
Found at i:115771 original size:20 final size:20
Alignment explanation
Indices: 115746--115818 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
115736 ATTTGGTTGA
115746 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
115766 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
115785 AAATGACTATCGCAACGCA-A-
1 -AATGAAAATCGCAACG-AGAG
115805 AATGAAAATCGCAA
1 AATGAAAATCGCAA
115819 TGCGATTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 13 0.30
20 31 0.70
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:115841 original size:19 final size:19
Alignment explanation
Indices: 115830--115866 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
115820 GCGATTTTGG
115830 TTTCGCGTTGCGATTCTCA
1 TTTCGCGTTGCGATTCTCA
115849 TTTCGCGTTGCGATTCTC
1 TTTCGCGTTGCGATTCTC
115867 TCGTTGCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.27, G:0.22, T:0.43
Consensus pattern (19 bp):
TTTCGCGTTGCGATTCTCA
Found at i:116469 original size:20 final size:20
Alignment explanation
Indices: 116446--116559 Score: 174
Period size: 20 Copynumber: 5.7 Consensus size: 20
116436 CGATAGTCAG
*
116446 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
116466 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
116486 AATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGT
* *
116507 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
116527 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
116547 ATTCGCATTGCGA
1 ATTCGCATTGCGA
116560 ATTAGGAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
20 66 0.79
21 18 0.21
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:117652 original size:16 final size:17
Alignment explanation
Indices: 117631--117664 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
117621 AAAATGATAT
117631 AAAAT-ATAAAATTTAA
1 AAAATAATAAAATTTAA
*
117647 AAAATAATAAATTTTAA
1 AAAATAATAAAATTTAA
117664 A
1 A
117665 GATTCGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATAATAAAATTTAA
Found at i:118429 original size:3 final size:3
Alignment explanation
Indices: 118421--118447 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
118411 GAGGTAAAGA
118421 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
118448 TATGAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:120382 original size:15 final size:15
Alignment explanation
Indices: 120341--120375 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
120331 TTTTATTGTA
120341 ATTTT-ATAATTTTT
1 ATTTTAATAATTTTT
120355 ATTTTAATAATTTTT
1 ATTTTAATAATTTTT
120370 ATTTTA
1 ATTTTA
120376 GAAATTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTAATAATTTTT
Found at i:122428 original size:25 final size:25
Alignment explanation
Indices: 122400--122449 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
122390 TTTGACCAAA
122400 TCAGCCGCCCCATTTGCCATTTTTT
1 TCAGCCGCCCCATTTGCCATTTTTT
122425 TCAGCCGCCCCATTTGCCATTTTTT
1 TCAGCCGCCCCATTTGCCATTTTTT
122450 GACTTTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.36, G:0.12, T:0.40
Consensus pattern (25 bp):
TCAGCCGCCCCATTTGCCATTTTTT
Found at i:128671 original size:67 final size:66
Alignment explanation
Indices: 128564--128697 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 66
128554 ATCTTTGTCG
128564 AAAAGTTGTTCGGCACGGTTCCTTTAAACTCGTTGAACCTCAAATCCAAGAACTTGAGCGAAGGC
1 AAAAGTTGTTCGGCACGGTTCCTTTAAACTCGTTGAACCTCAAATCCAAGAACTTGAGCGAAGGC
128629 A
66 A
128630 AAAAGTTGTTTCGGCACGGTTCCTTTAAACTCGTTGAACCTCAAATCCAAGAACTTGAGCGAAGG
1 AAAAGTTG-TTCGGCACGGTTCCTTTAAACTCGTTGAACCTCAAATCCAAGAACTTGAGCGAAGG
128695 CA
65 CA
128697 A
1 A
128698 CTCGAGAATT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 8 0.12
67 59 0.88
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (66 bp):
AAAAGTTGTTCGGCACGGTTCCTTTAAACTCGTTGAACCTCAAATCCAAGAACTTGAGCGAAGGC
A
Done.