Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_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: 2529503
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 13
Found at i:2321153 original size:17 final size:18
Alignment explanation
Indices: 2321122--2321168 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
2321112 GATTATTATA
2321122 TATTTATGTATTTATT-CT
1 TATTTAT-TATTTATTCCT
2321140 T-TTTATTATGTTATTCCT
1 TATTTATTAT-TTATTCCT
2321158 TATTTATTATT
1 TATTTATTATT
2321169 ACCGTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.12
17 10 0.38
18 5 0.19
19 8 0.31
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.68
Consensus pattern (18 bp):
TATTTATTATTTATTCCT
Found at i:2321202 original size:12 final size:13
Alignment explanation
Indices: 2321175--2321208 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2321165 TATTACCGTA
2321175 TTTTTATTTAACC
1 TTTTTATTTAACC
* *
2321188 TTTTTATTTATCT
1 TTTTTATTTAACC
2321201 TTTTTATT
1 TTTTTATT
2321209 GTTTTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTATTTAACC
Found at i:2323575 original size:139 final size:138
Alignment explanation
Indices: 2323292--2323583 Score: 412
Period size: 139 Copynumber: 2.1 Consensus size: 138
2323282 GAATAATTAC
* * * *
2323292 ATAATTGATTAAAATTAATTAGGAATAATATTAGAGCCTCCATCTTAGGCTTAATTTCACACTTA
1 ATAATTGGTTAAAATTAATTAGGAATAAAATTAGAACCTCCATCTTAGGCCTAATTTCACACTTA
*
2323357 GTCCTTAAATTTAGGGAATTTTTAATTTGGTCCTCACTTTTGCTAGAGGTTCCATTTTAATTATT
66 GTCCTTAAATTTAGGGAATTTTTAATTTGGTCATCACTTTTGCTAGAGGTTCCATTTTAATTATT
*
2323422 TGAATCAA
131 CGAATCAA
* * * *
2323430 AGAATTGGTTAAAATTTATTAGG-TTAACAATTAGAACCTTCA-CTTTAGGCCTAATTTCACACT
1 ATAATTGGTTAAAATTAATTAGGAATAA-AATTAGAACCTCCATC-TTAGGCCTAATTTCACACT
*
2323493 TAG-CTTTTAAATTTAGGAGAATTTTTAATTTGGTCATCACTTTTGCTCA-AGGTTCCATTTTAA
64 TAGTC-CTTAAATTTAGG-GAATTTTTAATTTGGTCATCACTTTTGCT-AGAGGTTCCATTTTAA
2323556 TTATTCGAATCAA
126 TTATTCGAATCAA
2323569 ATAATTGGTTAAAAT
1 ATAATTGGTTAAAAT
2323584 CGACTAGATT
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
137 5 0.04
138 63 0.46
139 68 0.50
140 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (138 bp):
ATAATTGGTTAAAATTAATTAGGAATAAAATTAGAACCTCCATCTTAGGCCTAATTTCACACTTA
GTCCTTAAATTTAGGGAATTTTTAATTTGGTCATCACTTTTGCTAGAGGTTCCATTTTAATTATT
CGAATCAA
Found at i:2323601 original size:139 final size:138
Alignment explanation
Indices: 2323336--2323635 Score: 401
Period size: 139 Copynumber: 2.2 Consensus size: 138
2323326 AGCCTCCATC
* *
2323336 TTAGGCTTAATTTCACACTTAGTCCTTAAATTTAGGGAATTTTTAATTTGGTCCTCACTTTTGCT
1 TTAGGCCTAATTTCACACTTAGTCCTTAAATTTAGGGAATTTTTAATTTGGTCATCACTTTTGCT
* ** * *
2323401 AGAGGTTCCATTTTAATTATTTGAATCAAAGAATTGGTTAAAATTTATTAGGTTAACAATTAGAA
66 AGAGGTTCCATTTTAATTATTCGAATCAAAGAATTGGTTAAAATCGACTAGATTAACAATTAGAA
2323466 CCTTCACT
131 CCTTCACT
*
2323474 TTAGGCCTAATTTCACACTTAG-CTTTTAAATTTAGGAGAATTTTTAATTTGGTCATCACTTTTG
1 TTAGGCCTAATTTCACACTTAGTC-CTTAAATTTAGG-GAATTTTTAATTTGGTCATCACTTTTG
* *
2323538 CTCA-AGGTTCCATTTTAATTATTCGAATCAAATAATTGGTTAAAATCGACTAGATTAATAATTA
64 CT-AGAGGTTCCATTTTAATTATTCGAATCAAAGAATTGGTTAAAATCGACTAGATTAACAATTA
* *
2323602 -AAGCTTTC-TT
128 GAA-CCTTCACT
* *
2323612 TCTAGGCTTAATTTCAAACTTAGT
1 T-TAGGCCTAATTTCACACTTAGT
2323636 GTCACACCCC
Statistics
Matches: 142, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
137 1 0.01
138 36 0.25
139 104 0.73
140 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (138 bp):
TTAGGCCTAATTTCACACTTAGTCCTTAAATTTAGGGAATTTTTAATTTGGTCATCACTTTTGCT
AGAGGTTCCATTTTAATTATTCGAATCAAAGAATTGGTTAAAATCGACTAGATTAACAATTAGAA
CCTTCACT
Found at i:2326767 original size:24 final size:24
Alignment explanation
Indices: 2326685--2326772 Score: 113
Period size: 24 Copynumber: 3.7 Consensus size: 24
2326675 ATTTTCGATT
*
2326685 TGAATTCTGTTATGATACCTGACC
1 TGAATTCTGTTTTGATACCTGACC
*
2326709 TGGATTCTGTTTTGATACCTGACC
1 TGAATTCTGTTTTGATACCTGACC
* * * *
2326733 TGGATTCTGTTCTGATATCTGACA
1 TGAATTCTGTTTTGATACCTGACC
*
2326757 TGAATTATGTTTTGAT
1 TGAATTCTGTTTTGAT
2326773 TTTTGATATC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGAATTCTGTTTTGATACCTGACC
Found at i:2327273 original size:21 final size:20
Alignment explanation
Indices: 2327247--2327290 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
2327237 AAATGAACTA
2327247 AAAAAAAGAGGAAAAATA-AAT
1 AAAAAAAGA--AAAAATATAAT
*
2327268 AAAAAATGAAAAAATATAAT
1 AAAAAAAGAAAAAATATAAT
2327288 AAA
1 AAA
2327291 TATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 6 0.29
21 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (20 bp):
AAAAAAAGAAAAAATATAAT
Found at i:2327295 original size:2 final size:2
Alignment explanation
Indices: 2327281--2327354 Score: 132
Period size: 2 Copynumber: 37.5 Consensus size: 2
2327271 AAATGAAAAA
*
2327281 AT AT A- AT AA 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 AT AT
2327322 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 A
2327355 CAAAAAATCA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2327415 original size:20 final size:20
Alignment explanation
Indices: 2327392--2327468 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
2327382 TGAAAAATTA
2327392 AATAAAAAAATAAAAGAAGT
1 AATAAAAAAATAAAAGAAGT
* **
2327412 AATAAAAAAATGAAGAGAAAA
1 AATAAAAAAAT-AAAAGAAGT
2327433 AATGAAAAAAAT-AAA-AAGTT
1 AAT-AAAAAAATAAAAGAAG-T
2327453 AATAAAAATAATAAAA
1 AATAAAAA-AATAAAA
2327469 TAAAAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 7 0.15
20 19 0.41
21 12 0.26
22 8 0.17
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (20 bp):
AATAAAAAAATAAAAGAAGT
Found at i:2327443 original size:9 final size:8
Alignment explanation
Indices: 2327429--2327533 Score: 50
Period size: 8 Copynumber: 12.4 Consensus size: 8
2327419 AAATGAAGAG
2327429 AAAAAATGA
1 AAAAAAT-A
2327438 AAAAAATA
1 AAAAAATA
**
2327446 AAAAGTTA
1 AAAAAATA
2327454 ATAAAAATA
1 A-AAAAATA
*
2327463 ATAAAATA
1 AAAAAATA
*
2327471 AAAATAATT
1 AAAA-AATA
**
2327480 AAAAAGGA
1 AAAAAATA
**
2327488 AAAAAGGA
1 AAAAAATA
2327496 AAAATAATGA
1 AAAA-AAT-A
*
2327506 TTAAAAAT-
1 -AAAAAATA
*
2327514 AATAAATA
1 AAAAAATA
2327522 AAAGAAATA
1 AAA-AAATA
2327531 AAA
1 AAA
2327534 TGAAAATTTT
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
7 5 0.07
8 32 0.44
9 29 0.40
10 4 0.05
11 3 0.04
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (8 bp):
AAAAAATA
Found at i:2327472 original size:14 final size:15
Alignment explanation
Indices: 2327453--2327483 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2327443 ATAAAAAGTT
2327453 AATAAAAATAA-TAA
1 AATAAAAATAATTAA
2327467 AATAAAAATAATTAA
1 AATAAAAATAATTAA
2327482 AA
1 AA
2327484 AGGAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAATAATTAA
Found at i:2327474 original size:41 final size:41
Alignment explanation
Indices: 2327374--2327474 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 41
2327364 AAGGAAGGGA
**
2327374 AAAAGAAATGAAAA-ATTAAATAAAAAAATAAAAGAAGTAAT
1 AAAA-AAATGAAAAGAAAAAATAAAAAAATAAAAGAAGTAAT
*
2327415 AAAAAAATGAAGAGAAAAAATGAAAAAAAT-AAA-AAGTTAAT
1 AAAAAAATGAAAAGAAAAAAT-AAAAAAATAAAAGAAG-TAAT
*
2327456 AAAAATAAT-AAAATAAAAA
1 AAAAA-AATGAAAAGAAAAA
2327475 TAATTAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
40 11 0.22
41 29 0.57
42 11 0.22
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (41 bp):
AAAAAAATGAAAAGAAAAAATAAAAAAATAAAAGAAGTAAT
Found at i:2327484 original size:25 final size:25
Alignment explanation
Indices: 2327429--2327524 Score: 65
Period size: 25 Copynumber: 3.8 Consensus size: 25
2327419 AAATGAAGAG
*
2327429 AAAAAATGAAAAAAATAAAAAGTTAA-T
1 AAAAAAT-AATAAAATAAAAA--TAATT
2327456 -AAAAATAATAAAATAAAAATAATT
1 AAAAAATAATAAAATAAAAATAATT
** *
2327480 AAAAAGGAA-AAAAGGAAAAATAATGAT
1 AAAAAATAATAAAA-TAAAAATAAT--T
*
2327507 TAAAAATAAT-AAATAAAA
1 AAAAAATAATAAAATAAAA
2327525 GAAATAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
23 3 0.05
24 5 0.09
25 27 0.49
26 10 0.18
27 10 0.18
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (25 bp):
AAAAAATAATAAAATAAAAATAATT
Found at i:2328329 original size:18 final size:20
Alignment explanation
Indices: 2328306--2328345 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2328296 TGTGGCACTG
2328306 TTGTTTTC-G-TGATGATGT
1 TTGTTTTCTGTTGATGATGT
*
2328324 TTGTTTTCTGTTGATGGTGT
1 TTGTTTTCTGTTGATGATGT
2328344 TT
1 TT
2328346 TGGTGCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.07, C:0.05, G:0.28, T:0.60
Consensus pattern (20 bp):
TTGTTTTCTGTTGATGATGT
Found at i:2328838 original size:34 final size:34
Alignment explanation
Indices: 2328783--2328864 Score: 94
Period size: 36 Copynumber: 2.4 Consensus size: 34
2328773 TAATAATATG
*
2328783 ATATATATATATATTTCAAAAAAAAATTT-AAACT
1 ATATAT-TATATATTTAAAAAAAAAATTTAAAACT
* **
2328817 ATATATTATATTTTTAAAAAAAAGGTTTTCAAAACT
1 ATATATTATATATTTAAAAAAAA-AATTT-AAAACT
2328853 ATATATTATATA
1 ATATATTATATA
2328865 GTTTTCAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 15 0.38
34 9 0.22
36 16 0.40
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (34 bp):
ATATATTATATATTTAAAAAAAAAATTTAAAACT
Found at i:2328984 original size:35 final size:35
Alignment explanation
Indices: 2328836--2329031 Score: 226
Period size: 36 Copynumber: 5.6 Consensus size: 35
2328826 ATTTTTAAAA
* *
2328836 AAAAGGTTTTCAAAACTATATATTATATAGTTTTC
1 AAAATGTTTTAAAAACTATATATTATATAGTTTTC
*
2328871 AAAATGTTATAAAAA-TAT-TA-TATA-A-TTTTC
1 AAAATGTTTTAAAAACTATATATTATATAGTTTTC
2328901 AAAAAATGTTTTCAAAAACTATATATT-TATTAGTTTTC
1 --AAAATGTTTT-AAAAACTATATATTATA-TAGTTTTC
*
2328939 AAAATGATTTTAAAAACCATATATTATATA-TTTTC
1 AAAATG-TTTTAAAAACTATATATTATATAGTTTTC
* *
2328974 TAAAATATTTTAAAAATTATATATTATATAGTTTTC
1 -AAAATGTTTTAAAAACTATATATTATATAGTTTTC
2329010 AAAAGTGTTTTAAAAACTATAT
1 AAAA-TGTTTTAAAAACTATAT
2329032 TATATACGTA
Statistics
Matches: 137, Mismatches: 10, Indels: 27
0.79 0.06 0.16
Matches are distributed among these distances:
30 5 0.04
31 1 0.01
32 13 0.09
33 7 0.05
34 6 0.04
35 46 0.34
36 47 0.34
37 7 0.05
38 5 0.04
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (35 bp):
AAAATGTTTTAAAAACTATATATTATATAGTTTTC
Found at i:2329068 original size:71 final size:68
Alignment explanation
Indices: 2328812--2329075 Score: 220
Period size: 71 Copynumber: 3.7 Consensus size: 68
2328802 AAAAAAATTT
* *
2328812 AAACTATA-TAT-TATATTTTTAAAAAAAAGGTTTTCAAAACTATATATTATATAGTTTTCAAAA
1 AAACTATATTATATATATTTTT---AAAAATGTTTAC-AAACTATATA-TATATAGTTTTCAAAA
*
2328875 TGTTAT-A
61 TGTTTTAA
* * *
2328882 AAA--ATATTATATA-ATTTTCAAAAAATGTTTTCAAAAACTATATATTTATTAGTTTTCAAAAT
1 AAACTATATTATATATATTTT-TAAAAATG-TTT-ACAAACTATATATATA-TAGTTTTCAAAAT
2328944 GATTTTAA
62 G-TTTTAA
* * *
2328952 AAACCATATATTATATAT-TTTCTAAAATAT-TTTAAAAATTATATATTATATAGTTTTCAAAAG
1 AAA-C-TATATTATATATATTTTTAAAA-ATGTTTACAAACTATATA-TATATAGTTTTCAAAA-
2329015 TGTTTTAA
61 TGTTTTAA
*
2329023 AAACTATATTATATACGTATTTTTAAAAACTGTTTGCAAACTATATATATATA
1 AAACTATATTATATA--TATTTTTAAAAA-TGTTTACAAACTATATATATATA
2329076 TATATATATA
Statistics
Matches: 159, Mismatches: 14, Indels: 40
0.75 0.07 0.19
Matches are distributed among these distances:
67 9 0.06
68 30 0.19
69 22 0.14
70 10 0.06
71 34 0.21
72 23 0.14
73 16 0.10
74 15 0.09
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (68 bp):
AAACTATATTATATATATTTTTAAAAATGTTTACAAACTATATATATATAGTTTTCAAAATGTTT
TAA
Found at i:2329071 original size:2 final size:2
Alignment explanation
Indices: 2329064--2329096 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2329054 GTTTGCAAAC
2329064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2329097 GGACGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2331094 original size:21 final size:21
Alignment explanation
Indices: 2331063--2331126 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
2331053 AATAGGTTAT
*
2331063 CCGACCTGGTCCAACCCCGAC
1 CCGACCCGGTCCAACCCCGAC
* * **
2331084 TCGACCCGGTCTAACCTTGAC
1 CCGACCCGGTCCAACCCCGAC
2331105 CCGACCCGGTCCAACCCCGAC
1 CCGACCCGGTCCAACCCCGAC
2331126 C
1 C
2331127 TTCATGCCCG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (21 bp):
CCGACCCGGTCCAACCCCGAC
Found at i:2333630 original size:45 final size:45
Alignment explanation
Indices: 2333523--2333693 Score: 263
Period size: 45 Copynumber: 3.8 Consensus size: 45
2333513 TATAAAATCT
* * *
2333523 CTTACCATTTATCCCATAAGCTTGTAAGCTTATTTTCCCAATTATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAA-TATA
* *
2333569 CTTACTATTTAATCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
2333614 CTTACCATTTATTCCATAAGCTTGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
2333659 CTTACCA-TTATTCCATAAGCTCATAAGCTTATTTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
2333694 CCAGTTTATC
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
44 26 0.23
45 53 0.46
46 36 0.31
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.42
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:2335602 original size:240 final size:240
Alignment explanation
Indices: 2335173--2335660 Score: 904
Period size: 240 Copynumber: 2.0 Consensus size: 240
2335163 TACAACTTAC
* *
2335173 TCAAAATCCTAAGTAAATTACTTGAAAATTGAGTTGAAACTTTCTCTCACCTTTGAAGAACACCC
1 TCAAAGTCCTAAGTAAATTACTTGAAAATTGAGTTGAAACTTTCTCTCACCTTTGAAAAACACCC
2335238 ACGACAGCTTGGAGAAGAAGATGACCAAGTGAAATGATATGTTGGGTGCATTTCATAGTATTTTA
66 ACGACAGCTTGGAGAAGAAGATGACCAAGTGAAATGATATGTTGGGTGCATTTCATAGTATTTTA
*
2335303 CATTATTTTCCACTTAAATGAATATAATGTAAAATTGGGATAAGACCAAATCACCCTTAATGAAT
131 CATTATATTCCACTTAAATGAATATAATGTAAAATTGGGATAAGACCAAATCACCCTTAATGAAT
* *
2335368 CTTCTTATTTACCACAAAACCATGACAAGTCATCCTTATCATCTT
196 CTTCTTATTTACCACAAAACCATGACAACTCATCATTATCATCTT
* *
2335413 TCAAAGTCCTAAGTAAATTGCTTGAAAATTGAGTTGAAGCTTTCTCTCACCTTTGAAAAACACCC
1 TCAAAGTCCTAAGTAAATTACTTGAAAATTGAGTTGAAACTTTCTCTCACCTTTGAAAAACACCC
2335478 ACGACAGCTTGGAGAAGAAGATGACCAAGTGAAATGATATGTTGGGTGCATTTCATAGTATTTTA
66 ACGACAGCTTGGAGAAGAAGATGACCAAGTGAAATGATATGTTGGGTGCATTTCATAGTATTTTA
2335543 CATTATATTCCACTTAAATGAATATAATGTAAAATTGGGATAAGACCAAATCACCCTTAATGAAT
131 CATTATATTCCACTTAAATGAATATAATGTAAAATTGGGATAAGACCAAATCACCCTTAATGAAT
*
2335608 CTTCTTATTTACCACAAAACCATGACAACTCATCATTATCATTTT
196 CTTCTTATTTACCACAAAACCATGACAACTCATCATTATCATCTT
2335653 TCAAAGTC
1 TCAAAGTC
2335661 AAAGATGAAT
Statistics
Matches: 240, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
240 240 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (240 bp):
TCAAAGTCCTAAGTAAATTACTTGAAAATTGAGTTGAAACTTTCTCTCACCTTTGAAAAACACCC
ACGACAGCTTGGAGAAGAAGATGACCAAGTGAAATGATATGTTGGGTGCATTTCATAGTATTTTA
CATTATATTCCACTTAAATGAATATAATGTAAAATTGGGATAAGACCAAATCACCCTTAATGAAT
CTTCTTATTTACCACAAAACCATGACAACTCATCATTATCATCTT
Found at i:2336725 original size:24 final size:24
Alignment explanation
Indices: 2336698--2336753 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
2336688 ATTTGAATTA
2336698 TGTTATGATACCTGACCTGGATTC
1 TGTTATGATACCTGACCTGGATTC
*
2336722 TGTTTTGATACCTGACCTGGATTC
1 TGTTATGATACCTGACCTGGATTC
*
2336746 TATTATGA
1 TGTTATGA
2336754 CATCTGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (24 bp):
TGTTATGATACCTGACCTGGATTC
Found at i:2337518 original size:19 final size:19
Alignment explanation
Indices: 2337494--2337533 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2337484 GTGTGACACT
2337494 CCATATCGGATCGGGTTAC
1 CCATATCGGATCGGGTTAC
2337513 CCATATCGGATCGGGTTAC
1 CCATATCGGATCGGGTTAC
2337532 CC
1 CC
2337534 GCATCAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (19 bp):
CCATATCGGATCGGGTTAC
Found at i:2337992 original size:138 final size:138
Alignment explanation
Indices: 2337553--2338166 Score: 579
Period size: 138 Copynumber: 4.5 Consensus size: 138
2337543 TGAGGGGGTT
* * ** * ** ** *
2337553 ACACTTAGTCCTTAAATTTAGG-GAATTTTTAATTTGGTCTTTTCTTTTTTTAAAGGTTTCATTT
1 ACACTTAGTCCTTAAATTTAGGAGAATTTTTGATTTGGTCATCGCTTATGCTCGAGGTTCCATTT
* * * * ** **** *
2337617 TAATTATTTGAATAAAATAATTCGTTAAAATTGATTAGTTTAACAATTAGAGCCT-TCACTTTAG
66 TAATTATTCGAAT-CAATAATTGGTTAAAATTAATTAGGATATTTTTTAGAGCCTCT-ATTTTAG
* *
2337681 GCCTAATTTT
129 GCTTAATTTC
* * *
2337691 ACACTTAGTCCTTAAATTTAGGAGAATTTTT-AATTGGTCATCGCTT-TGCTTGAGGTTTCATTT
1 ACACTTAGTCCTTAAATTTAGGAGAATTTTTGATTTGGTCATCGCTTATGCTCGAGGTTCCATTT
* * * * ** * * *
2337754 TAA-TATTCAAATCAATAATTGGTTAAAATTGACTAGGTTAACTATTAGAGCTTCCATTTTA-GC
66 TAATTATTCGAATCAATAATTGGTTAAAATTAATTAGGATATTTTTTAGAGCCTCTATTTTAGGC
2337817 TTAATTTC
131 TTAATTTC
* * * *
2337825 ACACTTAGTCCTTAAATTTAGGGGGATTTTTTTTATTTGGTCCTCGCTTATGCTCGAGGTTCCA-
1 ACACTTAGTCCTTAAATTTA-GGAGA-ATTTTTGATTTGGTCATCGCTTATGCTCGAGGTTCCAT
*
2337889 TTTAATTATTCGAATCAAGTAATTGGTT-AAATTAATTAGGATATTTTTTAGAACCTCTATTCTT
64 TTTAATTATTCGAATCAA-TAATTGGTTAAAATTAATTAGGATATTTTTTAGAGCCTCTATT-TT
2337953 AGGCTTAATTTC
127 AGGCTTAATTTC
* * **
2337965 ACATTTAG-CCTTAAATTTAGG-GAATTTTTGATTTGGTCATCGCTTATGCTCAAGGTTTTTATT
1 ACACTTAGTCCTTAAATTTAGGAGAATTTTTGATTTGGTCATCGCTTATGCTCGAGG-TTCCATT
* *
2338028 TTAATTATTCGAATAAAATAATT-GTTAAAATTAATTAGGATGTTTTTTAGAGCCTCTACTTTTA
65 TTAATTATTCGAAT-CAATAATTGGTTAAAATTAATTAGGATATTTTTTAGAGCCTCTA-TTTTA
*
2338092 GGTTTAATTTC
128 GGCTTAATTTC
** * * *
2338103 AC-C-TAGTCCTTTTATCTAGGAGAATTTTTCGATTTGGTCCTCGCTTTTGCTCGAGGTTCCATT
1 ACACTTAGTCCTTAAATTTAGGAGAATTTTT-GATTTGGTCATCGCTTATGCTCGAGGTTCCATT
2338166 T
65 T
2338167 GACTATTTAA
Statistics
Matches: 402, Mismatches: 56, Indels: 36
0.81 0.11 0.07
Matches are distributed among these distances:
134 28 0.07
135 44 0.11
136 43 0.11
137 52 0.13
138 160 0.40
139 58 0.14
140 17 0.04
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (138 bp):
ACACTTAGTCCTTAAATTTAGGAGAATTTTTGATTTGGTCATCGCTTATGCTCGAGGTTCCATTT
TAATTATTCGAATCAATAATTGGTTAAAATTAATTAGGATATTTTTTAGAGCCTCTATTTTAGGC
TTAATTTC
Found at i:2342184 original size:15 final size:15
Alignment explanation
Indices: 2342164--2342196 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2342154 GTGGCGTTTT
2342164 TATACAATGATAATC
1 TATACAATGATAATC
*
2342179 TATACAATGATATTC
1 TATACAATGATAATC
2342194 TAT
1 TAT
2342197 GATTTGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (15 bp):
TATACAATGATAATC
Found at i:2343729 original size:60 final size:57
Alignment explanation
Indices: 2343619--2343729 Score: 132
Period size: 60 Copynumber: 1.9 Consensus size: 57
2343609 TATATAGTCA
* * * * * **
2343619 TTGCTTTGTTGGGTCTCCAACTATTAAAAAACAAAATGGTCTCTGGACTATAGGACG
1 TTGCTTTATTGAGTCTCAAACTATTAAAAAACAAAATGGCCACTCAACTATAGGACG
2343676 TTGCTTTATTGAGTCCTCAAACTATTAAAAATTACAAAATGGCCACTCAACTAT
1 TTGCTTTATTGAGT-CTCAAACTATTAAAAA--ACAAAATGGCCACTCAACTAT
2343730 TTGTATGTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
57 12 0.27
58 15 0.34
60 17 0.39
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (57 bp):
TTGCTTTATTGAGTCTCAAACTATTAAAAAACAAAATGGCCACTCAACTATAGGACG
Found at i:2347131 original size:54 final size:54
Alignment explanation
Indices: 2347020--2347303 Score: 272
Period size: 54 Copynumber: 5.3 Consensus size: 54
2347010 TTCGTTACGA
* * * * * * * **
2347020 TGCACACGTAGTGCCTATACGGTAATTCATAAAC-TATTATGAATTAT-GTGGGT
1 TGCACACTTAGTGCCAAAACGATTATTCATCAACATATGATGAATT-TCGTGAAT
* * * * *
2347073 TGCACACATAATGCCAAAACAATTATTCATCAACATATGATGAATTTCAT-ACTT
1 TGCACACTTAGTGCCAAAACGATTATTCATCAACATATGATGAATTTCGTGA-AT
** * * *
2347127 TGCACACTTAGTGCTGAAATGGTTATTCATCAACATATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCAAAACGATTATTCATCAACATATGATGAATTTCGTGAAT
* *
2347181 TGCACACTTAGTACCGAAAA-GTTTATTCATCAACATATGATGAA-TTCTGTGAAT
1 TGCACACTTAGTGCC-AAAACGATTATTCATCAACATATGATGAATTTC-GTGAAT
* * * *
2347235 TACACACTTAGTGCCGAAACGATTATTTATCAACATATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCAAAACGATTATTCATCAACATATGATGAATTTCGTGAAT
2347289 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
2347304 TATTTGGTAA
Statistics
Matches: 189, Mismatches: 34, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
53 32 0.17
54 151 0.80
55 6 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (54 bp):
TGCACACTTAGTGCCAAAACGATTATTCATCAACATATGATGAATTTCGTGAAT
Found at i:2347296 original size:108 final size:108
Alignment explanation
Indices: 2347095--2347300 Score: 317
Period size: 108 Copynumber: 1.9 Consensus size: 108
2347085 GCCAAAACAA
* * * * *
2347095 TTATTCATCAACATATGATGAATTTCATACTTTGCACACTTAGTGCTGAAATGGTTATTCATCAA
1 TTATTCATCAACATATGATGAATTTCATACATTACACACTTAGTGCCGAAACGATTATTCATCAA
2347160 CATATGATGAATTCCGTGAATTGCACACTTAGTACCGAAAAGT
66 CATATGATGAATTCCGTGAATTGCACACTTAGTACCGAAAAGT
* *
2347203 TTATTCATCAACATATGATGAA-TTCTGTGA-ATTACACACTTAGTGCCGAAACGATTATTTATC
1 TTATTCATCAACATATGATGAATTTC-AT-ACATTACACACTTAGTGCCGAAACGATTATTCATC
2347266 AACATATGATGAATTCCGTGAATTGCACACTTAGT
64 AACATATGATGAATTCCGTGAATTGCACACTTAGT
2347301 GCCTATTTGG
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.03
108 85 0.96
109 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (108 bp):
TTATTCATCAACATATGATGAATTTCATACATTACACACTTAGTGCCGAAACGATTATTCATCAA
CATATGATGAATTCCGTGAATTGCACACTTAGTACCGAAAAGT
Found at i:2347377 original size:15 final size:15
Alignment explanation
Indices: 2347357--2347388 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2347347 TGACTAGTAT
2347357 AACATATAGTTACAC
1 AACATATAGTTACAC
2347372 AACATATAGTTACAC
1 AACATATAGTTACAC
2347387 AA
1 AA
2347389 TTAAATGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
AACATATAGTTACAC
Found at i:2349659 original size:2 final size:2
Alignment explanation
Indices: 2349654--2349680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2349644 TGTGTGTGTG
2349654 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2349681 TTGTTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2358060 original size:42 final size:42
Alignment explanation
Indices: 2357997--2358117 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
2357987 CTTATTAAGA
* * * *
2357997 CCTTTGGGCCATCAGTAAGTCTTTTGAGCATGATGATTAAAT
1 CCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGATTAAAT
* * * *
2358039 CTTTCGGGTCATCTTTCAGTCTTTCGAACATGATGATTAAAT
1 CCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGATTAAAT
* * *
2358081 CCTTCGGGTTATCTGTAAGCCTTTCGAGCAAGATGAT
1 CCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGAT
2358118 AGGTTCTCTG
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (42 bp):
CCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGATTAAAT
Found at i:2358176 original size:37 final size:37
Alignment explanation
Indices: 2358132--2358243 Score: 172
Period size: 37 Copynumber: 3.0 Consensus size: 37
2358122 TCTCTGGGCT
*
2358132 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGTAAATCA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
*
2358169 ATCTTAAGCCTTCACAGG-AGAGTAGTGAAGCAAATAA
1 ATCTTAAGCCTTCAC-GGAAGAGTAGTGAAGCAAATCA
* *
2358206 ATCTTAAGCATTCACAGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
2358243 A
1 A
2358244 GATCGAGTCT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
36 1 0.01
37 65 0.96
38 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (37 bp):
ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
Found at i:2364119 original size:95 final size:95
Alignment explanation
Indices: 2363952--2364159 Score: 231
Period size: 95 Copynumber: 2.2 Consensus size: 95
2363942 TAAATTGGTC
* * ** * * *
2363952 CGATATCATATATGATATTGATATTATTTAGAGTTGTAGTACTGATACTTCTCAAGCAGTACAGA
1 CGATATCATATATAATATTGATACTACATAGAGTAGTAGTACTGATACTGCTCAAGCAATACAGA
* *
2364017 TACTGTCAAAACATAATGCTAAAATGGTAT
66 TACTGTCAAAACAGAATGCTAAAATGATAT
* * *
2364047 CGATATTATATATAATATTGATACTACATAGAGTAGTAGTATTGATACTGCTGATA-CAATATC-
1 CGATATCATATATAATATTGATACTACATAGAGTAGTAGTACTGATACTGCTCA-AGCAATA-CA
* * *
2364110 GATATTGTCAAAATAGAATGCTAGAATGATAT
64 GATACTGTCAAAACAGAATGCTAAAATGATAT
* *
2364142 CGATACCATATATGATAT
1 CGATATCATATATAATAT
2364160 CAATACTCTT
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
95 91 0.98
96 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (95 bp):
CGATATCATATATAATATTGATACTACATAGAGTAGTAGTACTGATACTGCTCAAGCAATACAGA
TACTGTCAAAACAGAATGCTAAAATGATAT
Found at i:2365528 original size:17 final size:17
Alignment explanation
Indices: 2365506--2365539 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2365496 GGGATTCCAA
2365506 TTTCTAGTTAGTTGCAG
1 TTTCTAGTTAGTTGCAG
2365523 TTTCTAGTTAGTTGCAG
1 TTTCTAGTTAGTTGCAG
2365540 GAGATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCTAGTTAGTTGCAG
Found at i:2371629 original size:89 final size:90
Alignment explanation
Indices: 2371466--2371656 Score: 294
Period size: 89 Copynumber: 2.1 Consensus size: 90
2371456 CCAAAACTGC
* * * * *
2371466 GTCCGTAGGGCTTACCCTAAGCACACAGCAAAAGGGAGCCAACCTAAGGATATTCTTTGGGGCCT
1 GTCCGTAAGG-TTACCCTAAGCACACAGCAAAAGGGAACCAACCTAAGGATATACCTTAGGGCCT
*
2371531 ATGGGCCTACCCAATGGTATCCTTAG
65 ATGGGCCTACCCAATGATATCCTTAG
* *
2371557 GTCTGTAAGGTTACCCTAAGCACACAGC-AAAGGTAACCAACCTAAGGATATACCTTAGGGCCTA
1 GTCCGTAAGGTTACCCTAAGCACACAGCAAAAGGGAACCAACCTAAGGATATACCTTAGGGCCTA
2371621 TGGGCCTACCCAATGATATCCTTAG
66 TGGGCCTACCCAATGATATCCTTAG
2371646 GTCCGTAAGGT
1 GTCCGTAAGGT
2371657 CTTACCAGCT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 65 0.71
90 18 0.20
91 8 0.09
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (90 bp):
GTCCGTAAGGTTACCCTAAGCACACAGCAAAAGGGAACCAACCTAAGGATATACCTTAGGGCCTA
TGGGCCTACCCAATGATATCCTTAG
Found at i:2378059 original size:19 final size:19
Alignment explanation
Indices: 2378012--2378061 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
2378002 TGTACTTATC
*
2378012 ATTCATGT-ATATCATATA
1 ATTCATGTAACATCATATA
* **
2378030 ATACACATAACATCATATA
1 ATTCATGTAACATCATATA
2378049 ATTCATGTAACAT
1 ATTCATGTAACAT
2378062 ATTTCATATC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (19 bp):
ATTCATGTAACATCATATA
Found at i:2378436 original size:31 final size:31
Alignment explanation
Indices: 2378398--2378525 Score: 123
Period size: 31 Copynumber: 4.1 Consensus size: 31
2378388 GAACCTCGGC
* * *
2378398 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
2378429 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* * *
2378460 TACTGTCCATATGTTCCGAA-AGACATATGCA
1 AACTGTCCATATGTTCCGAAGA-ACATAGGTA
* * * *
2378491 ATTCTATCCATATGTTCCGTATAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
2378523 AAC
1 AAC
2378526 CCTCTACTCT
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
30 1 0.01
31 51 0.66
32 24 0.31
33 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:2378518 original size:32 final size:31
Alignment explanation
Indices: 2378434--2378519 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 31
2378424 AGGTAAACTG
* * ** *
2378434 TCCATATGTTCCTTAGAACATAGGTATACTG
1 TCCATATGTTCCGTAAAACATAGCAATACTA
*
2378465 TCCATATGTTCCG-AAAGACATATGCAATTCTA
1 TCCATATGTTCCGTAAA-ACATA-GCAATACTA
*
2378497 TCCATATGTTCCGTATAACATAG
1 TCCATATGTTCCGTAAAACATAG
2378520 GTAAACCCTC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 2 0.04
31 18 0.40
32 23 0.51
33 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (31 bp):
TCCATATGTTCCGTAAAACATAGCAATACTA
Found at i:2382281 original size:20 final size:20
Alignment explanation
Indices: 2382248--2382285 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2382238 CTTTTTTGTT
*
2382248 AAAGTCAACTGTCAACTGTC
1 AAAGTCAACGGTCAACTGTC
*
2382268 AAAGTTAACGGTCAACTG
1 AAAGTCAACGGTCAACTG
2382286 ATTGACTCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
AAAGTCAACGGTCAACTGTC
Found at i:2382341 original size:14 final size:13
Alignment explanation
Indices: 2382307--2382345 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
2382297 AAAAGTCAAC
*
2382307 GAGTTGACCCAGT
1 GAGTTGACTCAGT
*
2382320 GCGTTGACTCAGTT
1 GAGTTGACTCAG-T
2382334 GAGTTGACTCAG
1 GAGTTGACTCAG
2382346 CACGGGTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (13 bp):
GAGTTGACTCAGT
Found at i:2387853 original size:101 final size:103
Alignment explanation
Indices: 2387672--2387870 Score: 305
Period size: 101 Copynumber: 2.0 Consensus size: 103
2387662 GGCTCGTGAT
* * * *
2387672 GAGTTTTAATTATTTATTATATTTTAAGGAATTCTTCATTCTCACGTAACGAATTTTACATGTAT
1 GAGTTTTAATTATTTATTATATTTTAAGAAATTCTTCATTCTCACATAACGAATTTCACACGTAT
*
2387737 TACCGTAAATAGTCTAAATTTTAAATTAATTCTACGAC
66 TACCGTAAATAGTCTAAATCTTAAATTAATTCTACGAC
*
2387775 GAGTTTTAATTATTTATTATATTTTAA-AAATT-TGTCATT-TCACATAACGAATTTCACGCGTA
1 GAGTTTTAATTATTTATTATATTTTAAGAAATTCT-TCATTCTCACATAACGAATTTCACACGTA
*
2387837 TTACCGTAAATGGTCTAAATCTTAAATTAATTCT
65 TTACCGTAAATAGTCTAAATCTTAAATTAATTCT
2387871 CAAGCATATG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
101 52 0.59
102 9 0.10
103 27 0.31
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (103 bp):
GAGTTTTAATTATTTATTATATTTTAAGAAATTCTTCATTCTCACATAACGAATTTCACACGTAT
TACCGTAAATAGTCTAAATCTTAAATTAATTCTACGAC
Found at i:2388615 original size:48 final size:48
Alignment explanation
Indices: 2388544--2388640 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
2388534 TTTTCTTTGC
*
2388544 TCGTTTTTCTCACTACTTTTTCTCTGAGACGAA-TGAAAGAAGAAGAAA
1 TCGTTTTTCTCACTACTTTTTCTCTCAGACGAATTG-AAGAAGAAGAAA
*
2388592 TCGTTTTTCTCACTACTTTTTCTCTCAGACGAATTGAAGAAGGAGAAA
1 TCGTTTTTCTCACTACTTTTTCTCTCAGACGAATTGAAGAAGAAGAAA
2388640 T
1 T
2388641 GAGTTTATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 44 0.96
49 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (48 bp):
TCGTTTTTCTCACTACTTTTTCTCTCAGACGAATTGAAGAAGAAGAAA
Found at i:2388654 original size:22 final size:22
Alignment explanation
Indices: 2388626--2388716 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 22
2388616 TCAGACGAAT
*
2388626 TGAAGAAGGAGAAATGAGTTTA
1 TGAAGAAGAAGAAATGAGTTTA
*
2388648 TGAAGAAGAAGAAATGGGTTTA
1 TGAAGAAGAAGAAATGAGTTTA
2388670 TG--GTAA-AA-AAAT-ATGTTTA
1 TGAAG-AAGAAGAAATGA-GTTTA
*
2388689 TGGAAGAAGAAGAAA-GGGATTTA
1 T-GAAGAAGAAGAAATGAG-TTTA
2388712 TGAAG
1 TGAAG
2388717 CTCAATTGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
19 10 0.18
20 4 0.07
21 4 0.07
22 30 0.54
23 8 0.14
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (22 bp):
TGAAGAAGAAGAAATGAGTTTA
Found at i:2393895 original size:18 final size:18
Alignment explanation
Indices: 2393856--2393895 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
2393846 TTGTCTCGAC
*
2393856 AAAAATATAGAAAATTTG
1 AAAAATATAGAAAATTTA
2393874 AAAAATATA-AAAATTCTA
1 AAAAATATAGAAAATT-TA
2393892 AAAA
1 AAAA
2393896 TCTATTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (18 bp):
AAAAATATAGAAAATTTA
Found at i:2406805 original size:20 final size:20
Alignment explanation
Indices: 2406768--2406807 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2406758 ATACTTATAT
*
2406768 ATTTGGTTTTGATTATTTGA
1 ATTTGGTTTTGATAATTTGA
2406788 ATTTGG-TTTGATCAATTTGA
1 ATTTGGTTTTGAT-AATTTGA
2406808 GCTTTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.23, C:0.03, G:0.20, T:0.55
Consensus pattern (20 bp):
ATTTGGTTTTGATAATTTGA
Found at i:2408573 original size:7 final size:7
Alignment explanation
Indices: 2408545--2408615 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
2408535 TGAACCGAAA
2408545 AATAATAT
1 AATAA-AT
2408553 AATAAAT
1 AATAAAT
2408560 -ATAAAAT
1 AAT-AAAT
2408567 AATAAAT
1 AATAAAT
*
2408574 AA-AACT
1 AATAAAT
2408580 -ATAAAT
1 AATAAAT
*
2408586 AATATAT
1 AATAAAT
*
2408593 AATATAT
1 AATAAAT
2408600 AAT--AT
1 AATAAAT
2408605 AATAAAT
1 AATAAAT
2408612 AATA
1 AATA
2408616 CTTACACTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
5 6 0.11
6 8 0.15
7 33 0.61
8 7 0.13
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (7 bp):
AATAAAT
Found at i:2408594 original size:26 final size:26
Alignment explanation
Indices: 2408544--2408615 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
2408534 TTGAACCGAA
* *
2408544 AAATAATATAATAAAT-ATAAAATAAT
1 AAATAAAATAATAAATAAT-ATATAAT
2408570 AAATAAAACT-ATAAATAATATATAAT
1 AAATAAAA-TAATAAATAATATATAAT
* *
2408596 ATATAATATAATAAATAATA
1 AAATAAAATAATAAATAATA
2408616 CTTACACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.03
26 35 0.90
27 3 0.08
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (26 bp):
AAATAAAATAATAAATAATATATAAT
Found at i:2408698 original size:21 final size:21
Alignment explanation
Indices: 2408649--2408698 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
2408639 ACTATATAAC
2408649 ATATATTATATTTTCAAAAACT
1 ATATA-TATATTTTCAAAAACT
* *
2408671 ATA-ATATGTTTTCAAAAATT
1 ATATATATATTTTCAAAAACT
2408691 ATATATAT
1 ATATATAT
2408699 TATATATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 5 0.20
22 3 0.12
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (21 bp):
ATATATATATTTTCAAAAACT
Found at i:2408767 original size:23 final size:21
Alignment explanation
Indices: 2408736--2408826 Score: 77
Period size: 18 Copynumber: 4.6 Consensus size: 21
2408726 AAAAGCCATA
* *
2408736 TATATTATATGTTTTCAAAAC
1 TATATAATATATTTTCAAAAC
2408757 TATATAATATATTTTCAAAA-
1 TATATAATATATTTTCAAAAC
*
2408777 -A-ATTATATATTTTCAAAA-
1 TATATAATATATTTTCAAAAC
*
2408795 -A-ATTATATATTTTCAAAAAC
1 TATATAATATATTTTC-AAAAC
* *
2408815 CATATTATATAT
1 TATATAATATAT
2408827 ATATATTAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
18 30 0.48
19 5 0.08
21 19 0.30
22 9 0.14
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (21 bp):
TATATAATATATTTTCAAAAC
Found at i:2408786 original size:18 final size:18
Alignment explanation
Indices: 2408739--2408813 Score: 105
Period size: 18 Copynumber: 4.0 Consensus size: 18
2408729 AGCCATATAT
*
2408739 ATTATATGTTTTCAAAACTA
1 ATTATATATTTTCAAAA--A
*
2408759 TATAATATATTTTCAAAAA
1 -ATTATATATTTTCAAAAA
2408778 ATTATATATTTTCAAAAA
1 ATTATATATTTTCAAAAA
2408796 ATTATATATTTTCAAAAA
1 ATTATATATTTTCAAAAA
2408814 CCATATTATA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
18 35 0.69
19 1 0.02
21 15 0.29
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (18 bp):
ATTATATATTTTCAAAAA
Found at i:2409787 original size:40 final size:40
Alignment explanation
Indices: 2409708--2409787 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
2409698 ATAGGAGTCA
* * * *
2409708 AATATTGCACCGAAGTGCTGAGGTCGAGCTTTTCTCACCT
1 AATAATGCACCGAACTGCTGAGGTCGAGCTTTACCCACCT
* *
2409748 AATAATGCACCGTACTGCTGAGGTCGGGCTTTACCCACCT
1 AATAATGCACCGAACTGCTGAGGTCGAGCTTTACCCACCT
2409788 TGTACACCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.28
Consensus pattern (40 bp):
AATAATGCACCGAACTGCTGAGGTCGAGCTTTACCCACCT
Found at i:2411580 original size:31 final size:29
Alignment explanation
Indices: 2411545--2411612 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
2411535 TAATCATTCA
*
2411545 CAACTTTTCCA-AAATTATCAAATTGGTTCCC
1 CAACTTTT-CATAAATTA-CAAAATGG-TCCC
*
2411576 CAACTTTTTATAAATTACAAAATGGTCCC
1 CAACTTTTCATAAATTACAAAATGGTCCC
*
2411605 CAATTTTT
1 CAACTTTT
2411613 TTTAAAGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.33
30 8 0.24
31 14 0.42
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (29 bp):
CAACTTTTCATAAATTACAAAATGGTCCC
Found at i:2412600 original size:30 final size:30
Alignment explanation
Indices: 2412563--2412628 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
2412553 ATTTTAGTCC
* *
2412563 CTAAACTTTTCAAAGTTTATACTTTGGTCA
1 CTAAACTTTTCAAAGTTTATAATTTGATCA
* *
2412593 TTAAAC-TTTCAAATTTTATAATTTGATCA
1 CTAAACTTTTCAAAGTTTATAATTTGATCA
2412622 CTAAACT
1 CTAAACT
2412629 AAATCCATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (30 bp):
CTAAACTTTTCAAAGTTTATAATTTGATCA
Found at i:2415951 original size:134 final size:135
Alignment explanation
Indices: 2415788--2416039 Score: 425
Period size: 134 Copynumber: 1.9 Consensus size: 135
2415778 TATACATGCT
*
2415788 AGCTAAGACTTTTATAACACAGCAGGATGTCATCATTGTTACCTGTAAATATTTCCTTGGTGATT
1 AGCTAAGACTTTTAGAACACAGCAGGATGTCATCATTGTTACCTGTAAATATTTCCTTGGTGATT
*
2415853 GATT-CAAACTCAACTCCTTACTCGTCTTCTTCCTTTTTCCTACACGTGAAAACATTTAATTCTC
66 GATTCCAAACTCAACTCCTTACTCCTCTTCTTCCTTTTTCCTACACGTGAAAACATTTAATTCTC
2415917 GTGCC
131 GTGCC
* * *
2415922 AGCTAAGACTTTTAGAATACAGTAGGATGTCATCATTGTTACCTGTAAATATTTCCTTTGTGATT
1 AGCTAAGACTTTTAGAACACAGCAGGATGTCATCATTGTTACCTGTAAATATTTCCTTGGTGATT
* * *
2415987 GATTCCAAACTCAACTCCTTACTCCTTTTCTTTCTTTTTTCTACACGTGAAAA
66 GATTCCAAACTCAACTCCTTACTCCTCTTCTTCCTTTTTCCTACACGTGAAAA
2416040 TCATCACACG
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
134 65 0.60
135 44 0.40
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (135 bp):
AGCTAAGACTTTTAGAACACAGCAGGATGTCATCATTGTTACCTGTAAATATTTCCTTGGTGATT
GATTCCAAACTCAACTCCTTACTCCTCTTCTTCCTTTTTCCTACACGTGAAAACATTTAATTCTC
GTGCC
Found at i:2418509 original size:19 final size:19
Alignment explanation
Indices: 2418481--2418518 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2418471 CAGAGGTTCA
*
2418481 AAAACCGGTTTGAGCATTT
1 AAAACCGGTTTGACCATTT
*
2418500 AAAACTGGTTTGACCATTT
1 AAAACCGGTTTGACCATTT
2418519 CTGACTCGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (19 bp):
AAAACCGGTTTGACCATTT
Found at i:2418610 original size:29 final size:29
Alignment explanation
Indices: 2418562--2418796 Score: 260
Period size: 29 Copynumber: 8.1 Consensus size: 29
2418552 TGTTGACCGA
* **
2418562 GTGTTAGTTTT-GTAATTATTTTTAAAATT
1 GTGTTA-TTTTCGTAAATATTTTTAAAAAG
* *
2418591 GTGATATTTTCGTAATTATTTTTAAAAAG
1 GTGTTATTTTCGTAAATATTTTTAAAAAG
* * *
2418620 GTGCTATTTTTGTAATTATTTTT-AAAAG
1 GTGTTATTTTCGTAAATATTTTTAAAAAG
* * * *
2418648 GGGTTATTTTTGTAAATATTTTTAGAAGG
1 GTGTTATTTTCGTAAATATTTTTAAAAAG
*
2418677 GTGTTATTTTCGTAATTATTTTTAAAAAG
1 GTGTTATTTTCGTAAATATTTTTAAAAAG
* *
2418706 GTGTTATTTTCGTAAATATTTTAAAAAAA
1 GTGTTATTTTCGTAAATATTTTTAAAAAG
* *
2418735 GTGTTAGTTTCGTAAATATTTTTAAAATG
1 GTGTTATTTTCGTAAATATTTTTAAAAAG
*
2418764 GTGTTAGTTTT-GTAAATATTTCTTAAAAGG
1 GTGTTA-TTTTCGTAAATATTT-TTAAAAAG
2418794 GTG
1 GTG
2418797 ATAATTGTGT
Statistics
Matches: 178, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
28 29 0.16
29 136 0.76
30 13 0.07
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.50
Consensus pattern (29 bp):
GTGTTATTTTCGTAAATATTTTTAAAAAG
Found at i:2418714 original size:86 final size:87
Alignment explanation
Indices: 2418564--2418796 Score: 299
Period size: 86 Copynumber: 2.7 Consensus size: 87
2418554 TTGACCGAGT
* * *
2418564 GTTAGTTTTGTAATTATTTTTAAAATTGTGATATTTTCGTAATTATTTTTAAAAAGGTGCTATTT
1 GTTAGTTTTGTAAATATTTTTAAAATGGTGTTATTTTCGTAATTATTTTTAAAAAGGTGCTATTT
* * * *
2418629 TTGTAATTATTTT-TAAAAGGG
66 TCGTAAATATTTTAAAAAAAGG
* * * *
2418650 GTTATTTTTGTAAATATTTTTAGAAGGGTGTTATTTTCGTAATTATTTTTAAAAAGGTGTTATTT
1 GTTAGTTTTGTAAATATTTTTAAAATGGTGTTATTTTCGTAATTATTTTTAAAAAGGTGCTATTT
*
2418715 TCGTAAATATTTTAAAAAAAGT
66 TCGTAAATATTTTAAAAAAAGG
* * *
2418737 GTTAGTTTCGTAAATATTTTTAAAATGGTGTTAGTTTT-GTAAATATTTCTTAAAAGGGTG
1 GTTAGTTTTGTAAATATTTTTAAAATGGTGTTA-TTTTCGTAATTATTT-TTAAAAAGGTG
2418797 ATAATTGTGT
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
86 69 0.55
87 43 0.34
88 14 0.11
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (87 bp):
GTTAGTTTTGTAAATATTTTTAAAATGGTGTTATTTTCGTAATTATTTTTAAAAAGGTGCTATTT
TCGTAAATATTTTAAAAAAAGG
Found at i:2426798 original size:21 final size:20
Alignment explanation
Indices: 2426774--2426827 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
2426764 GAAAATATTT
* *
2426774 ATTTTAGGTAGCGAAATTAAC
1 ATTTTAGGTAG-AAAAATAAC
**
2426795 ATTTCCGGTAGAAAAATAAC
1 ATTTTAGGTAGAAAAATAAC
*
2426815 ATTTTAGATAGAA
1 ATTTTAGGTAGAA
2426828 CTCTATCGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (20 bp):
ATTTTAGGTAGAAAAATAAC
Found at i:2426978 original size:21 final size:21
Alignment explanation
Indices: 2426949--2427006 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
2426939 ACAACATAAT
*
2426949 ATAACATTTTCGGTAGGAAAA
1 ATAACATTTTAGGTAGGAAAA
* *
2426970 ATAATATTTTTGGTAGGAAAA
1 ATAACATTTTAGGTAGGAAAA
2426991 ATAACATTTTAGGTAG
1 ATAACATTTTAGGTAG
2427007 TGCTCTACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.34
Consensus pattern (21 bp):
ATAACATTTTAGGTAGGAAAA
Found at i:2428899 original size:22 final size:22
Alignment explanation
Indices: 2428871--2428929 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
2428861 TAGACTCACT
2428871 AGAATGATAAGTGTTAATGGGA
1 AGAATGATAAGTGTTAATGGGA
2428893 AGAATGATAAGTGTTAATGGGA
1 AGAATGATAAGTGTTAATGGGA
*
2428915 AGAATGATGAGTGTT
1 AGAATGATAAGTGTT
2428930 GACGAAGGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (22 bp):
AGAATGATAAGTGTTAATGGGA
Found at i:2430381 original size:2 final size:2
Alignment explanation
Indices: 2430309--2430369 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
2430299 AAACGTGAAG
2430309 AT AT 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 AT AT
2430351 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
2430370 ACTGTATATA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2433219 original size:32 final size:32
Alignment explanation
Indices: 2433178--2433238 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
2433168 ATGGAAAGTG
2433178 CCCATTTCTTTTTCAATCTCTATTGAAAATTT
1 CCCATTTCTTTTTCAATCTCTATTGAAAATTT
2433210 CCCATTTCTTTTTCAATCTCTATTGAAAA
1 CCCATTTCTTTTTCAATCTCTATTGAAAA
2433239 AGGACTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.48
Consensus pattern (32 bp):
CCCATTTCTTTTTCAATCTCTATTGAAAATTT
Found at i:2435299 original size:84 final size:83
Alignment explanation
Indices: 2434937--2435772 Score: 713
Period size: 83 Copynumber: 10.0 Consensus size: 83
2434927 ACCATGCAGT
* * * * * * * * *
2434937 TGATATGCCCTTGATCTGAATGAAATCGAACTCGAAGGTCTTTGATGACAGATAGCTCTTTTCGC
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGC
* * *
2435002 CTTGAGCTATACTGTAAA
66 CTTGAGTTATGCTGCAAA
* * * * * * * * *
2435020 TTTGATATGCCCTTCAACTGAATGTAATTGGACTCGAAGG--TTTGTTGACAAATAACGCTTCTC
1 --TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTC
**
2435083 GCCTTGAGTTATGCTATAAA
64 GCCTTGAGTTATGCTGCAAA
** * * * *
2435103 TTTGACATGCCTCTGAGTTGAATGTAATCGAACTCAAAGG---TTGTTGACAGATAACCCTTCTC
1 --TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTC
* *
2435165 GCCTTGAGTTATGTTGTAAA
64 GCCTTGAGTTATGCTGCAAA
** * * * * * *
2435185 TTGACATGCCTCTGAGTTCAATGTAATCGAACTCGAAGGTATTTGTTGATAG-TAACCCTTCTCG
1 -TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCG
* * *
2435249 CCTTGAGTTACGCTGTAACT
65 CCTTGAGTTATGCTGCAA-A
* * * * * * * *
2435269 TAAATATGACTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTTTA
1 T-GATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTC
*
2435334 GCCTTGAGTTATGTTGCAAA
64 GCCTTGAGTTATGCTGCAAA
* * * * *
2435354 TAATGTGCCTTTGAACTGAGTGTAATCGAGCTCGAAGGTCTTTGGTT-AGTAGATAGCCCTTCTC
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGA-CAGATAACCCTTCTC
* * *
2435418 GACTTAAGCTATGCTGCAAA
64 GCCTTGAGTTATGCTGCAAA
* * * * *
2435438 TGATTTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTG-GAGATAACCCTTCTAG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT-CTTTGTTGACAGATAACCCTTCTCG
* *
2435502 CCTTGAGTGATGCTACAAA
65 CCTTGAGTTATGCTGCAAA
* * * *
2435521 TGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTCG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTCG
* *
2435586 ACTTAAG-TATG-TGCAAA
65 CCTTGAGTTATGCTGCAAA
* * *
2435603 TGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTTTAGC
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGC
* * *
2435668 CTTGAGATATGTTGTAAA
66 CTTGAGTTATGCTGCAAA
* * *
2435686 TGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTT-AGCAGATAGCCCTTCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGA-CAGATAACCCTTCTC
* * *
2435750 GCCTTGAGCTAAGTTGCAAA
64 GCCTTGAGTTATGCTGCAAA
2435770 TGA
1 TGA
2435773 GCACGATATC
Statistics
Matches: 626, Mismatches: 108, Indels: 35
0.81 0.14 0.05
Matches are distributed among these distances:
81 58 0.09
82 91 0.15
83 212 0.34
84 195 0.31
85 45 0.07
86 25 0.04
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (83 bp):
TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGC
CTTGAGTTATGCTGCAAA
Found at i:2435744 original size:165 final size:167
Alignment explanation
Indices: 2434937--2435772 Score: 744
Period size: 165 Copynumber: 5.0 Consensus size: 167
2434927 ACCATGCAGT
* * * * * * * * *
2434937 TGATATGCCCTTGATCTGAATGAAATCGAACTCGAAGGTCTTTGATGACAGATAGCTCTTTTCGC
1 TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGC
* ** * * * * * * * *
2435002 CTTGAGCTATACTGTAAATTTGATATGCCCTTCAACTGAATGTAATTGGACTCGAAGG--TTT-G
66 CTTGAGTTATGTTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
* * * * * * **
2435064 TT-GACAAATAACGCTTCTCGCCTTGAGTTATGCTATAAA
129 TTAG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
* * * * * *
2435103 TTTGACATGCCTCTGAGTTGAATGTAATCGAACTCAAAGG---TTGTTGACAGATAACCCTTCTC
1 --TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTA
* ** * * * * *
2435165 GCCTTGAGTTATGTTGTAAATTGACATGCCTCTGAGTTCAATGTAATCGAACTCGAAGGTATTT-
64 GCCTTGAGTTATGTTGCAAA-TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
* * * * * * * *
2435229 GTT-G-ATAGTAACCCTTCTCGCCTTGAGTTACGCTGTAACT
128 GTTAGCAGA-TAGCCCTTCTCGACTTAAGCTATGCTGCAA-A
* * * * * *
2435269 TAAATATGACTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTTTA
1 T-GATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTA
* * *
2435334 GCCTTGAGTTATGTTGCAAATAATGTGCCTTTGAACTGAGTGTAATCGAGCTCGAAGGTCTTTGG
64 GCCTTGAGTTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
*
2435399 TTAGTAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
129 TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
* * * *
2435438 TGATTTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTG-GAGATAACCCTTCTAG
1 TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT-CTTTGTTGACAGATAACCCTTCTAG
* * * *
2435502 CCTTGAGTGATGCTACAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGT
65 CCTTGAGTTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGT
* *
2435567 TGGCAAATAGCCCTTCTCGACTTAAG-TATG-TGCAAA
130 TAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
* * *
2435603 TGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTTTAGC
1 TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGC
* * * *
2435668 CTTGAGATATGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTT
66 CTTGAGTTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTT
* * * * *
2435733 AGCAGATAGCCCTTCTTGCCTTGAGCTAAGTTGCAAA
131 AGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
2435770 TGA
1 TGA
2435773 GCACGATATC
Statistics
Matches: 555, Mismatches: 97, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
164 40 0.07
165 226 0.41
166 14 0.03
167 104 0.19
168 103 0.19
169 41 0.07
170 25 0.05
171 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (167 bp):
TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGC
CTTGAGTTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTT
AGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
Found at i:2436424 original size:42 final size:43
Alignment explanation
Indices: 2436355--2436460 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
2436345 ATTCCCTTAA
* * **
2436355 TCGTGAAGTTGAAACCGTGG-TGTGTGGGCACGATATCCT-CG
1 TCGTGGAGTTGAAATCGTGGATCCGTGGGCACGATATCCTCCG
*
2436396 TCGTGGAGTTGAAATCGTGGATCCGTGGGTACGATATCCTCCG
1 TCGTGGAGTTGAAATCGTGGATCCGTGGGCACGATATCCTCCG
*
2436439 TCGTTGAGTTGAAATCGTGGAT
1 TCGTGGAGTTGAAATCGTGGAT
2436461 GGCCCCTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 18 0.32
42 16 0.28
43 23 0.40
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (43 bp):
TCGTGGAGTTGAAATCGTGGATCCGTGGGCACGATATCCTCCG
Found at i:2436520 original size:204 final size:200
Alignment explanation
Indices: 2436139--2436552 Score: 598
Period size: 204 Copynumber: 2.0 Consensus size: 200
2436129 GATGTTGTGT
** *
2436139 ACGATTCCCTTCGTCGTAAGTTGAAACCGTTGTGTGAAACCGGCACGATATCCTCTGTCGTGGAG
1 ACGATTCCCTTAATCGTAAGTTGAAACCGTGGTGTG--ACCGGCACGATATCCTCTGTCGTGGAG
* *
2436204 TTAAAATCGTGGATCGTTGGTACGATATCCTCTCGTGGAGTTGAAATCATGGATGGCCCTTCGTC
64 TTAAAATCGTGGATCGTGGGTACGATATCCTCTCGTGGAGTTGAAATCATGGATGGCCCTTCATC
* * *
2436269 ATGAAGTTGAGCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGTTAT
129 ATAAAGTTGACCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGTTAC
2436334 GGGTGGAC
194 GGG-GGAC
**
2436342 ACGATTCCCTTAATCGTGAAGTTGAAACCGTGGTGTG-TGGGCACGATATCCTC-GTCGTGGAGT
1 ACGATTCCCTTAATCGT-AAGTTGAAACCGTGGTGTGACCGGCACGATATCCTCTGTCGTGGAGT
* * *
2436405 TGAAATCGTGGATCCGTGGGTACGATATCCTCCGTCGTTGAGTTGAAATCGTGGATGGCCCCTTC
65 TAAAATCGTGGAT-CGTGGGTACGATATCCT-C-TCGTGGAGTTGAAATCATGGATGG-CCCTTC
*
2436470 ATCGTAAAGTTGACCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGT
126 ATCATAAAGTTGACCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGT
*
2436535 TGCGGGGGAC
191 TACGGGGGAC
*
2436545 ATGATTCC
1 ACGATTCC
2436553 TTCGGCGTTC
Statistics
Matches: 190, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
200 22 0.12
201 30 0.16
202 1 0.01
203 48 0.25
204 89 0.47
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (200 bp):
ACGATTCCCTTAATCGTAAGTTGAAACCGTGGTGTGACCGGCACGATATCCTCTGTCGTGGAGTT
AAAATCGTGGATCGTGGGTACGATATCCTCTCGTGGAGTTGAAATCATGGATGGCCCTTCATCAT
AAAGTTGACCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGTTACGG
GGGAC
Found at i:2441729 original size:16 final size:17
Alignment explanation
Indices: 2441689--2441729 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
2441679 CACTTTTTTC
2441689 TTTGTT-TTTTCTCTTT
1 TTTGTTCTTTTCTCTTT
2441705 TTTGCTTCTTTTCTC-TT
1 TTTG-TTCTTTTCTCTTT
2441722 TTTGTTCT
1 TTTGTTCT
2441730 GATTAGATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (17 bp):
TTTGTTCTTTTCTCTTT
Found at i:2444811 original size:25 final size:25
Alignment explanation
Indices: 2444738--2444811 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 25
2444728 GTAAAAGAAA
* *
2444738 AACATAAATTTAAGGGATTAAATAAC
1 AACAAAAATTTAAAGGATTAAA-AAC
* * **
2444764 AA-AAAAAATTAAAGTACAAAAAAAC
1 AACAAAAATTTAAAGGA-TTAAAAAC
*
2444789 AACAGAAATTTAAAGGATTAAAA
1 AACAAAAATTTAAAGGATTAAAA
2444812 TAGTATTAAC
Statistics
Matches: 35, Mismatches: 11, Indels: 5
0.69 0.22 0.10
Matches are distributed among these distances:
25 19 0.54
26 16 0.46
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (25 bp):
AACAAAAATTTAAAGGATTAAAAAC
Found at i:2444811 original size:26 final size:26
Alignment explanation
Indices: 2444729--2444811 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
2444719 AAATGAGCTG
* * *
2444729 TAAAAGAAAAACATAAATTTAAGGGAT
1 TAAAA-AACAACAAAAATTTAAAGGAT
* * * *
2444756 TAAATAACAA-AAAAAATTAAAGTAC
1 TAAAAAACAACAAAAATTTAAAGGAT
* *
2444781 AAAAAAACAACAGAAATTTAAAGGAT
1 TAAAAAACAACAAAAATTTAAAGGAT
2444807 TAAAA
1 TAAAA
2444812 TAGTATTAAC
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
25 18 0.44
26 19 0.46
27 4 0.10
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (26 bp):
TAAAAAACAACAAAAATTTAAAGGAT
Found at i:2445713 original size:14 final size:15
Alignment explanation
Indices: 2445694--2445725 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2445684 CTAAAATCAT
2445694 AATTAAAGTA-AAAA
1 AATTAAAGTACAAAA
2445708 AATTAAAGTACAAAA
1 AATTAAAGTACAAAA
2445723 AAT
1 AAT
2445726 GACTAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
AATTAAAGTACAAAA
Found at i:2446368 original size:16 final size:16
Alignment explanation
Indices: 2446347--2446402 Score: 103
Period size: 16 Copynumber: 3.5 Consensus size: 16
2446337 TTTAATAAAT
2446347 AACGAACACGAACATA
1 AACGAACACGAACATA
2446363 AACGAACACGAACATA
1 AACGAACACGAACATA
*
2446379 AATGAACACGAACATA
1 AACGAACACGAACATA
2446395 AACGAACA
1 AACGAACA
2446403 TAAACGTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.07
Consensus pattern (16 bp):
AACGAACACGAACATA
Found at i:2447443 original size:10 final size:10
Alignment explanation
Indices: 2447428--2447475 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
2447418 ATAAAAGAAT
2447428 GAACATAAAC
1 GAACATAAAC
2447438 GAACATAACCGAAC
1 GAACAT-A---AAC
2447452 GAACATAAAC
1 GAACATAAAC
*
2447462 GAACATAACC
1 GAACATAAAC
2447472 GAAC
1 GAAC
2447476 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:2447444 original size:24 final size:24
Alignment explanation
Indices: 2447415--2447469 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
2447405 TATTGGGTTA
*
2447415 AACATAAAAGAATGAACATAAACG
1 AACATAAAAGAACGAACATAAACG
**
2447439 AACATAACCGAACGAACATAAACG
1 AACATAAAAGAACGAACATAAACG
2447463 AACATAA
1 AACATAA
2447470 CCGAACGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.60, C:0.18, G:0.11, T:0.11
Consensus pattern (24 bp):
AACATAAAAGAACGAACATAAACG
Found at i:2447452 original size:14 final size:14
Alignment explanation
Indices: 2447435--2447476 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
2447425 AATGAACATA
2447435 AACGAACATAACCG
1 AACGAACATAACCG
2447449 AACGAACAT-A---
1 AACGAACATAACCG
2447459 AACGAACATAACCG
1 AACGAACATAACCG
2447473 AACG
1 AACG
2447477 TTCACGAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:2447470 original size:24 final size:24
Alignment explanation
Indices: 2447428--2447476 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
2447418 ATAAAAGAAT
2447428 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
2447452 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
2447476 G
1 G
2447477 TTCACGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.24, G:0.14, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:2448975 original size:85 final size:83
Alignment explanation
Indices: 2448650--2449030 Score: 393
Period size: 85 Copynumber: 4.6 Consensus size: 83
2448640 ATATGTTATC
* * * * *
2448650 GAGCTGAATGGAATCGAACTCGGCA-GT-TTTTTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTC-GAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
2448713 CTGTAAATTTGATATG-CTCTT
65 CTGTAAA--TGATGTGCCT-TT
* * * * * *
2448734 GAGCTGAATGTAATCGAATTCGAAGGTCTTTGTTCACAGATAGCCCTTCTTGCCTT--GCTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
2448797 TGT-AA--ATGTGCCTCT
66 TGTAAATGATGTGCCTTT
* * * * * *
2448812 AAGCTGAGTGTAATCAAACT-GAAAGGTTTTTGTTGACAGATAACCCCTCTAGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCG-AAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
2448876 CTGTAAATGATGTGCCTTT
65 CTGTAAATGATGTGCCTTT
* * * *
2448895 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTAGTTGGCAGATATCCCTTCTCGACTTAAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTT-GTTGACAGATAACCCTTCTCGCCTTGAGCTAT
*
2448960 GCTGCAAATGATGTGCCTTT
64 GCTGTAAATGATGTGCCTTT
* * *
2448980 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTGTAGGCAGATAACCCTTCTC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTC
2449031 TGAGTTGGAT
Statistics
Matches: 250, Mismatches: 35, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.00
78 50 0.20
79 2 0.01
80 8 0.03
81 2 0.01
82 2 0.01
83 61 0.24
84 28 0.11
85 96 0.38
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (83 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATGATGTGCCTTT
Found at i:2449186 original size:43 final size:40
Alignment explanation
Indices: 2449105--2449212 Score: 108
Period size: 43 Copynumber: 2.6 Consensus size: 40
2449095 TGATTCCCTT
* * ** *
2449105 CGTCGTGAAGTTGAAACCGTGGATGTGTGGGCACGATATTATC
1 CGTCGTGGAGTTGAAATCGTGGATCCGTGAGCACG--A-TATC
* *
2449148 CGTCGTGGAGTTGAAATCGTGGATCCGTGAGTATGATATC
1 CGTCGTGGAGTTGAAATCGTGGATCCGTGAGCACGATATC
*
2449188 CTGTCGTGGAGTTGAAATCGCGGAT
1 C-GTCGTGGAGTTGAAATCGTGGAT
2449213 GACCCCTTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 5 0.09
41 23 0.41
43 28 0.50
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (40 bp):
CGTCGTGGAGTTGAAATCGTGGATCCGTGAGCACGATATC
Found at i:2449492 original size:43 final size:43
Alignment explanation
Indices: 2449437--2449537 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
2449427 CGATTCCCTT
* * * *
2449437 CGTTGTGAAGTTGAAACCGTGGATCTGTGGGCACGATATCCTC
1 CGTTGTGGAGTTGAAACCGTGGATCCGTGGGCACGACATCATC
* * *
2449480 CGTTGTGGAGTTGAAATCGTGGATCCGTTGGTACGACATCATC
1 CGTTGTGGAGTTGAAACCGTGGATCCGTGGGCACGACATCATC
*
2449523 CGTCGTGGAGTTGAA
1 CGTTGTGGAGTTGAA
2449538 TCGTAGAGAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (43 bp):
CGTTGTGGAGTTGAAACCGTGGATCCGTGGGCACGACATCATC
Found at i:2449621 original size:32 final size:32
Alignment explanation
Indices: 2449576--2449674 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
2449566 GGCTTCGAGT
2449576 TAGATATCCTTCGTCGTGAAGTTGAAATCTAC
1 TAGATATCCTTCGTCGTGAAGTTGAAATCTAC
* ** * *
2449608 TAGATATCATTCGTCGTGAAGTTTG-GCTCGAGT
1 TAGATATCCTTCGTCGTGAAG-TTGAAATCTA-C
* *
2449641 TAGATATCCTTAGTCATGAAGTTGAAATCTAC
1 TAGATATCCTTCGTCGTGAAGTTGAAATCTAC
2449673 TA
1 TA
2449675 CGAGCAAATT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
32 28 0.54
33 24 0.46
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (32 bp):
TAGATATCCTTCGTCGTGAAGTTGAAATCTAC
Found at i:2449661 original size:33 final size:33
Alignment explanation
Indices: 2449551--2449663 Score: 122
Period size: 33 Copynumber: 3.4 Consensus size: 33
2449541 TAGAGACCCA
*
2449551 TTCGTTGTGAAGTTTGGCTTCGAGTTAGATATCC
1 TTCGTCGTGAAGTTTGGC-TCGAGTTAGATATCC
** * * *
2449585 TTCGTCGTGAAG-TTGAAATCTA-CTAGATATCA
1 TTCGTCGTGAAGTTTG-GCTCGAGTTAGATATCC
2449617 TTCGTCGTGAAGTTTGGCTCGAGTTAGATATCC
1 TTCGTCGTGAAGTTTGGCTCGAGTTAGATATCC
* *
2449650 TTAGTCATGAAGTT
1 TTCGTCGTGAAGTT
2449664 GAAATCTACT
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
32 23 0.37
33 29 0.46
34 11 0.17
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (33 bp):
TTCGTCGTGAAGTTTGGCTCGAGTTAGATATCC
Found at i:2449661 original size:65 final size:66
Alignment explanation
Indices: 2449549--2449674 Score: 218
Period size: 65 Copynumber: 1.9 Consensus size: 66
2449539 CGTAGAGACC
* * *
2449549 CATTCGTTGTGAAGTTTGGCTTCGAGTTAGATATCCTTCGTCGTGAAGTTGAAATCTACTAGATA
1 CATTCGTCGTGAAGTTTGGCTTCGAGTTAGATATCCTTAGTCATGAAGTTGAAATCTACTAGATA
2449614 T
66 T
2449615 CATTCGTCGTGAAGTTTGGC-TCGAGTTAGATATCCTTAGTCATGAAGTTGAAATCTACTA
1 CATTCGTCGTGAAGTTTGGCTTCGAGTTAGATATCCTTAGTCATGAAGTTGAAATCTACTA
2449675 CGAGCAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
65 38 0.67
66 19 0.33
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (66 bp):
CATTCGTCGTGAAGTTTGGCTTCGAGTTAGATATCCTTAGTCATGAAGTTGAAATCTACTAGATA
T
Found at i:2450634 original size:27 final size:27
Alignment explanation
Indices: 2450596--2450650 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2450586 TCCAACTCCA
2450596 GCCTCCATGGTCACACTCAGATTGTGC
1 GCCTCCATGGTCACACTCAGATTGTGC
2450623 GCCTCCATGGTCACACTCAGATTGTGC
1 GCCTCCATGGTCACACTCAGATTGTGC
2450650 G
1 G
2450651 ATGCCTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.25
Consensus pattern (27 bp):
GCCTCCATGGTCACACTCAGATTGTGC
Found at i:2451197 original size:19 final size:17
Alignment explanation
Indices: 2451168--2451216 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
2451158 CCTTTTTCTC
*
2451168 TTTGTTTCTTTTCTTTTGA
1 TTTG-TTCTTTGC-TTTGA
2451187 TCTTGTTCTTTGCTTTGA
1 T-TTGTTCTTTGCTTTGA
*
2451205 TTTGATCTTTGC
1 TTTGTTCTTTGC
2451217 ACTTGGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 10 0.37
18 6 0.22
19 8 0.30
20 3 0.11
ACGTcount: A:0.06, C:0.14, G:0.14, T:0.65
Consensus pattern (17 bp):
TTTGTTCTTTGCTTTGA
Found at i:2451215 original size:17 final size:18
Alignment explanation
Indices: 2451182--2451216 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2451172 TTTCTTTTCT
*
2451182 TTTGATCTTGTTCTTTGC
1 TTTGATCTTGATCTTTGC
2451200 TTTGAT-TTGATCTTTGC
1 TTTGATCTTGATCTTTGC
2451217 ACTTGGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.09, C:0.14, G:0.17, T:0.60
Consensus pattern (18 bp):
TTTGATCTTGATCTTTGC
Found at i:2451370 original size:2 final size:2
Alignment explanation
Indices: 2451363--2451406 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
2451353 ACAATAAGGG
2451363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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 AT
2451404 AT A
1 AT A
2451407 CATGGATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2453653 original size:210 final size:212
Alignment explanation
Indices: 2453359--2453780 Score: 782
Period size: 210 Copynumber: 2.0 Consensus size: 212
2453349 GGCTCTAATT
2453359 CCTTGTATTTCTCTGTTTAGGTTCTAAAAGGTACTCGAGTTCTCCTTGCTGGTGCCCCTTGGGCT
1 CCTTGTATTTCTCTGTTTAGGTTCTAAAAGGTACTCGAGTTCTCCTTGCTGGTGCCCCTTGGGCT
2453424 TGCCAGACCCTTAGTCCTAAGCCTATTACAAGC-TATGTGGACTAAGTTAAACTC-A-ATGAAAC
66 TGCCAGACCCTTAGTCCTAAGCCTATTACAAGCTTATGTGGACTAAGTTAAACTCAAGATGAAAC
2453486 ATTCCCTTATGCCTATGCGGTGAAT-AATTCACGAAGACATAAGGTATATGAAT-CCGAAGGCTA
131 ATTCCCTTATGCCTATGCGGTGAATAAATTCACGAAGACATAAGGTATATGAATCCCGAAGGCTA
2453549 CTTGCTAGGCCTATGCG
196 CTTGCTAGGCCTATGCG
2453566 CCTTGTATTTTCTCTGTTTAGGTTCTAAAAAGGTACTCGAGTTCTCCTTGCTGGTGCTCCCTTGG
1 CCTTGTA-TTTCTCTGTTTAGGTTCT-AAAAGGTACTCGAGTTCTCCTTGCTGGTGC-CCCTTGG
2453631 GCTTGCCAGACCCTTAGTCCTAAGCCTATTACAAGCTTATGTGGACTAAGTTAAACTCAAGATGA
63 GCTTGCCAGACCCTTAGTCCTAAGCCTATTACAAGCTTATGTGGACTAAGTTAAACTCAAGATGA
2453696 AACATTCCCTTATGCCTATGCGGTGAATAAATTCACGAAGACATAAGGTATATGAATCCCGAAGG
128 AACATTCCCTTATGCCTATGCGGTGAATAAATTCACGAAGACATAAGGTATATGAATCCCGAAGG
2453761 CTACTTGCTAGGCCTATGCG
193 CTACTTGCTAGGCCTATGCG
2453781 GAGAGTAAAT
Statistics
Matches: 207, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
207 7 0.03
208 18 0.09
209 30 0.14
210 43 0.21
211 21 0.10
212 1 0.00
213 32 0.15
214 28 0.14
215 27 0.13
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (212 bp):
CCTTGTATTTCTCTGTTTAGGTTCTAAAAGGTACTCGAGTTCTCCTTGCTGGTGCCCCTTGGGCT
TGCCAGACCCTTAGTCCTAAGCCTATTACAAGCTTATGTGGACTAAGTTAAACTCAAGATGAAAC
ATTCCCTTATGCCTATGCGGTGAATAAATTCACGAAGACATAAGGTATATGAATCCCGAAGGCTA
CTTGCTAGGCCTATGCG
Found at i:2454301 original size:6 final size:6
Alignment explanation
Indices: 2454290--2454328 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
2454280 TTAATTGCGA
* *
2454290 AAATTT AAATTT AAATTT AAATTT AAAATT AAAATT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA
2454329 AATTTGATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
AAATTT
Found at i:2454324 original size:13 final size:13
Alignment explanation
Indices: 2454289--2454333 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
2454279 CTTAATTGCG
2454289 AAAATTTAAATTT
1 AAAATTTAAATTT
2454302 -AAATTTAAATTT
1 AAAATTTAAATTT
* *
2454314 AAAATTAAAATTA
1 AAAATTTAAATTT
2454327 AAAATTT
1 AAAATTT
2454334 GATCATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATTTAAATTT
Found at i:2454471 original size:18 final size:16
Alignment explanation
Indices: 2454439--2454481 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
2454429 ATTAAAATTG
*
2454439 AAATAAAATAAATAAA
1 AAATAAAAGAAATAAA
2454455 TAAATAAAAGGAAATAAA
1 -AAATAAAA-GAAATAAA
2454473 AACATAAAA
1 AA-ATAAAA
2454482 TTAAGGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (16 bp):
AAATAAAAGAAATAAA
Found at i:2454511 original size:26 final size:26
Alignment explanation
Indices: 2454466--2454541 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
2454456 AAATAAAAGG
* *
2454466 AAATAAAAACATAAAATTAAGGGATT
1 AAATAAAAACAGAAAATTAAAGGATT
* * *
2454492 AAATAAAAATAGAAATTTAAAGTATT
1 AAATAAAAACAGAAAATTAAAGGATT
*
2454518 AAAATAGTGAAACAGAAAATTAAA
1 -AAATA--AAAACAGAAAATTAAA
2454542 AGACCAAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
26 21 0.54
27 5 0.13
29 13 0.33
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.24
Consensus pattern (26 bp):
AAATAAAAACAGAAAATTAAAGGATT
Found at i:2455638 original size:3 final size:3
Alignment explanation
Indices: 2455630--2455672 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
2455620 GTAAATATGT
* *
2455630 TAA TAA TAA TAA TAA TAA TAG TAA TAA TTA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2455673 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2457046 original size:87 final size:87
Alignment explanation
Indices: 2456900--2457062 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
2456890 TATGTTATAT
* **
2456900 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAAGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAACACTTATATAATGTAATAAGT
2456965 AGTGCTTATATAATAAAATAGA
66 AGTGCTTATATAATAAAATAGA
* *
2456987 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAACACTTATATAATGTAATAAGT
2457052 AGTGCTTATAT
66 AGTGCTTATAT
2457063 TAACATATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAACACTTATATAATGTAATAAGT
AGTGCTTATATAATAAAATAGA
Found at i:2457943 original size:182 final size:181
Alignment explanation
Indices: 2457444--2458120 Score: 913
Period size: 182 Copynumber: 3.7 Consensus size: 181
2457434 ATGTTGATCT
* * * * * *
2457444 ATTTTCTCATATTTTTAGCTGTTATATTGTTATCGATCGATACATTTTCATAAATTGTCGGCACT
1 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
* *
2457509 TTTTATGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCG
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCA-AAAGTGTCGATACTTATATTAAAGTATCG
*
2457574 ACACTTTCAACATATCCGGTAGTGT-TTTACCGATTTTGTCATTTTGAGACCG
130 ACACTTTCAACATATCTGGTAGT-TATTTACCGATTTTGTCATTTTGAGACCG
* * **
2457626 ATTTTGTCATATTTTTACCTATTATATTGTTATGGATCGACACATTTTTTTAAAAGTATCGACAC
1 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCAT-AAAGTATCGACAC
* *
2457691 TTTATAGGCTCTATAA---CTTCTCTTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATC
65 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAA-TTCAAAAGTGTCGATACTTATATTAAAGTATC
* * *
2457753 GACACTTTCAATATATCTGGTAGTTATTTACTTG-TTTTGTCATTTTGAGACAG
129 GACACTTTCAACATATCTGGTAGTTATTTAC-CGATTTTGTCATTTTGAGACCG
* * * * *
2457806 GTTTTGTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACACT
1 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
* *
2457871 TTTTAGGCTCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCG
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCA-AAAGTGTCGATACTTATATTAAAGTATCG
* * *
2457936 ACACTTTCAACATAT-TCGATAG-CATTTTACCGATTTTATCATTTTGAGACCG
130 ACACTTTCAACATATCT-GGTAGTTA-TTTACCGATTTTGTCATTTTGAGACCG
* **
2457988 ATTTTGTCATATTTTTACCTGTAATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
1 ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
* *
2458053 TTTTAGGCGCTATAACTTCTTCTCTTTTTATTTCCAAAAGTGTCGATAC-T-TATTAAAGTATCG
66 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATTAAAGTATCG
2458116 ACACT
130 ACACT
2458121 GTTAATTACC
Statistics
Matches: 436, Mismatches: 47, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
179 28 0.06
180 145 0.33
181 13 0.03
182 225 0.52
183 25 0.06
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (181 bp):
ATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAGTGTCGATACTTATATTAAAGTATCGA
CACTTTCAACATATCTGGTAGTTATTTACCGATTTTGTCATTTTGAGACCG
Found at i:2458115 original size:362 final size:362
Alignment explanation
Indices: 2457445--2458120 Score: 1124
Period size: 362 Copynumber: 1.9 Consensus size: 362
2457435 TGTTGATCTA
* * * *
2457445 TTTTCTCATATTTTTAGCTGTTATATTGTTATCGATCGATACATTTTCATAAATTGTCGGCACTT
1 TTTTCTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACACTT
*
2457510 TTTATGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* ** *
2457575 CACTTTCAACATATCCGGTAGTGTTTTACCGATTTTGTCATTTTGAGACCGATTTTGTCATATTT
131 CACTTTCAACATATCCGATAGCATTTTACCGATTTTATCATTTTGAGACCGATTTTGTCATATTT
* *
2457640 TTACCTATTATATTGTTATGGATCGACACATTTTTTTAAAAGTATCGACACTTTATAGGCTCTAT
196 TTACCTATAATATTGTTATGGATCGACACATTTTTTTAAAAGTATCGACACTTTATAGGCGCTAT
2457705 AACTTCTCTTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATC
261 AACTTCTCTTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATC
2457770 TGGTAGTTATTTACTTGTTTTGTCATTTTGAGACAGG
326 TGGTAGTTATTTACTTGTTTTGTCATTTTGAGACAGG
*
2457807 TTTTGTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACACTT
1 TTTTCTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACACTT
* *
2457872 TTTAGGCTCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
*
2457937 CACTTTCAACATATTCGATAGCATTTTACCGATTTTATCATTTTGAGACCGATTTTGTCATATTT
131 CACTTTCAACATATCCGATAGCATTTTACCGATTTTATCATTTTGAGACCGATTTTGTCATATTT
* * *
2458002 TTACCTGTAATATTGTTATGGATCGATACATTTTTTT-AAAGTATCGACACTTTTTAGGCGCTAT
196 TTACCTATAATATTGTTATGGATCGACACATTTTTTTAAAAGTATCGACACTTTATAGGCGCTAT
**
2458066 AACTTCTTCTCTTTTTATTTCCAAAAGTGTCGATAC-T-TATTAAAGTATCGACACT
261 AACTTC-TCT-TTTAAATTT-CAAAAGTGTCGATACTTATATTAAAGTATCGACACT
2458121 GTTAATTACC
Statistics
Matches: 291, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
361 31 0.11
362 237 0.81
363 8 0.03
364 15 0.05
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.45
Consensus pattern (362 bp):
TTTTCTCATATTTTTAGCTGTTATATTATTATAGATCGATACATTTTCATAAAGTGTCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
CACTTTCAACATATCCGATAGCATTTTACCGATTTTATCATTTTGAGACCGATTTTGTCATATTT
TTACCTATAATATTGTTATGGATCGACACATTTTTTTAAAAGTATCGACACTTTATAGGCGCTAT
AACTTCTCTTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATC
TGGTAGTTATTTACTTGTTTTGTCATTTTGAGACAGG
Found at i:2462066 original size:201 final size:198
Alignment explanation
Indices: 2461585--2462130 Score: 657
Period size: 201 Copynumber: 2.7 Consensus size: 198
2461575 GCGTAATTTT
* * * *
2461585 AAAAAGTGTCGACACATTATGTT-GACCTATTTTCT-ATTTACACCGGTAAATTTCAACCGGTTA
1 AAAAAGTGTCGATACATTAT-TTAGACCTATTTTCTCA-TAAAACCGGTAAATTTAAACCGGTTA
* * *
2461648 CATTGTAAATTGACCTATTACATTATAATTTACGGTCTCGATGTATTTGGGGTCGATACTTTTTA
64 CATTGTAAATTAACCTATTACATTATAATTTTCAGTCTCGATGTATTTGGGGTCGATAC-TTTTA
* * * * * * *
2461713 TAAATGTATCGAAACGTTATGCGTGGACATCGGTTGGTATTAATTATGGACATAAGTATCGACAC
128 TAAATGTATCGAAACTTTAAGCGTGCACATAGGTTGGAATTAATTATGGAAAAAAGTATCGACAC
*
2461778 AAATGT
193 AAATGA
* * * *
2461784 AAAAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAACTGGTAAATTTAAACCGGTTACA
1 AAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACA
* * ** *
2461849 TTGTAAAGTAACCTATTACATTATAATTTTTAGTCTATATGTATTTGGGGTTGATACTTTTAATA
66 TTGTAAATTAACCTATTACATTATAATTTTCAGTCTCGATGTATTTGGGGTCGATACTTTT-ATA
* * * *
2461914 AATATATCGACACTTTAAGCGTGCACATAGTTTGGGAATTCATTATGGATAAAAAGTATCGACAC
130 AATGTATCGAAACTTTAAGCGTGCACATAGGTT-GGAATTAATTATGGA-AAAAAGTATCGACAC
2461979 AAAT-A
193 AAATGA
* * *
2461984 AATAAAGTGTCAATACATTATTTAGATCTATTTTCTCATAAAACCGATAAATTTAAACCGGTTAC
1 AA-AAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTAC
* * * * * * *
2462049 ACTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGATACTTGTTAT
65 ATTGTAAATTAACCTATTACATTATAATTTTCAGTCTCGATGTATTTGGGGTCGATACTT-TTAT
2462114 AAATGTATCGAAACTTT
129 AAATGTATCGAAACTTT
2462131 GTTGTGCACT
Statistics
Matches: 292, Mismatches: 48, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
198 5 0.02
199 131 0.45
200 16 0.05
201 138 0.47
202 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (198 bp):
AAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACA
TTGTAAATTAACCTATTACATTATAATTTTCAGTCTCGATGTATTTGGGGTCGATACTTTTATAA
ATGTATCGAAACTTTAAGCGTGCACATAGGTTGGAATTAATTATGGAAAAAAGTATCGACACAAA
TGA
Found at i:2462176 original size:201 final size:196
Alignment explanation
Indices: 2461587--2462360 Score: 633
Period size: 201 Copynumber: 3.8 Consensus size: 196
2461577 GTAATTTTAA
* * * * *
2461587 AAAGTGTCGACACATTATGTT-GACCTATTTTCT-ATTTACACCGGTAAATTTCAACCGGTTACA
1 AAAGTGTCGATACATTAT-TTAGACCTATTTTCTCA-TAAAACCGATAAATTTAAACCGGTTACA
* * *
2461650 TTGTAAATTGACCTATTACATTATAATTTACG-GTCTCGATGTATTTGGGGTCGATACTTTTTAT
64 TTGTAAATTTACCTATTACATTATAA-TTATGAGTCTCGATGTATTTGGGATCGATAC-TTTTAT
* * ** * *
2461714 AAATGTATCGAAACGTTATGCGTGGACATCGGTTGGTATTA-ATTATGGACATAAGTATCGACAC
127 AAATGTATCGAAAC-TT-TGCGTGCAC-TTGGTTTTTAATACATTATGGACAAAAGTATCGACAC
*
2461778 AAATGTAA-
189 AAAT-AAAT
* * * * *
2461786 AAAGTATCGATACATTATGTAGACCTATTTGCTCATAAAACTGGTAAATTTAAACCGGTTACATT
1 AAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGATAAATTTAAACCGGTTACATT
* * * * ** * *
2461851 GTAAAGTAACCTATTACATTATAATTTTTAGTCTATATGTATTTGGGGTTGATACTTTTAATAAA
66 GTAAATTTACCTATTACATTATAATTATGAGTCTCGATGTATTTGGGATCGATACTTTT-ATAAA
* * * * ** * *
2461916 TATATCGACACTTTAAGCGTGCACATAGTTTGGGAATTCATTATGGATAAAAAGTATCGACACAA
130 TGTATCGAAACTTT--GCGTGCACTTGGTTT-TTAATACATTATGGA-CAAAAGTATCGACACAA
2461981 ATAAAT
191 ATAAAT
* * *
2461987 AAAGTGTCAATACATTATTTAGATCTATTTTCTCATAAAACCGATAAATTTAAACCGGTTACACT
1 AAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGATAAATTTAAACCGGTTACATT
* *
2462052 GTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGATACTTGTTATAAA
66 GTAAATTTACCTATTACATTATAATTATGAGTCTCGATGTATTTGGGATCGATACTT-TTATAAA
* * *
2462117 TGTATCGAAACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAACGTATCGACACTT
130 TGTATCGAAACTTTG-CGTGCACTTGGTTTTT--AATACATTATGGACAAAA-GTATCGACAC--
* **
2462182 GTTAGATTTGTGTCGAT
189 ---A-A-----ATAAAT
* * * * * * * **
2462199 AACAAGTGTCGATACTTTATGTATACATGTTTTCTCAT-AAACCGATATATTTAGATTGGTTACA
1 -A-AAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGATAAATTTAAACCGGTTACA
* * * * *
2462263 TTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTCTTATA
64 TTGTAAATTTACCTATTACATTATAATTATGAGTCTCGATGTATTTGGGATCGATACTT-TTATA
* **
2462328 AATGTATCGACACTTTTTAGTGCACTTGGTTTT
128 AATGTATCGAAAC-TTTGCGTGCACTTGGTTTT
2462361 GAAATATTTA
Statistics
Matches: 466, Mismatches: 80, Indels: 44
0.79 0.14 0.07
Matches are distributed among these distances:
197 1 0.00
198 12 0.03
199 122 0.26
200 26 0.06
201 158 0.34
202 2 0.00
206 1 0.00
207 1 0.00
212 3 0.01
213 109 0.23
214 31 0.07
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (196 bp):
AAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGATAAATTTAAACCGGTTACATT
GTAAATTTACCTATTACATTATAATTATGAGTCTCGATGTATTTGGGATCGATACTTTTATAAAT
GTATCGAAACTTTGCGTGCACTTGGTTTTTAATACATTATGGACAAAAGTATCGACACAAATAAA
T
Found at i:2464685 original size:15 final size:15
Alignment explanation
Indices: 2464665--2464708 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
2464655 AGGAGGTTGT
2464665 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
2464680 GGTTGAGAAGATG-TG
1 GGTTGAGAAGA-GCTG
2464695 GGTTGAGAAGAGCT
1 GGTTGAGAAGAGCT
2464709 TTGAGAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.27, C:0.05, G:0.45, T:0.23
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:2465505 original size:199 final size:199
Alignment explanation
Indices: 2465052--2466528 Score: 1410
Period size: 199 Copynumber: 7.5 Consensus size: 199
2465042 TTTTCAAATT
* * * *
2465052 AAACCGGTATTTTTATA-TCGGTTACATTGTTAATTTACCTATTATATTATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACT-GGTTAAATTGTTAATTTACCTATTACATTATAATTATGGGTTTCG
* *
2465116 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAACTTTGTT-GTGCACTTGGTTTTTAAA
65 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTAGTGCACTTGG-TTTTGAA
* * * ** * * *
2465180 ATACACTCTGGACAAAAAGTATAGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATGTT
128 ATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTT
*
2465245 TTCTCAT
193 TTCTCAA
* * *
2465252 AAACCGATATATTTAGACTGGTTATATTGTTAATTTACCTATTACATTATAATTATGAGTTTCGA
1 AAACCGGTATATTTAGACTGGTTAAATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * *
2465317 TATTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCAATTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
*
2465382 CATTCTGGACCAAAGGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
2465447 TCAA
196 TCAA
* *
2465451 AAACCGGTATATTTAGACTAGTTAAATTGTTAATTTACCTTTTAC-TTCATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACTGGTTAAATTGTTAATTTACCTATTACATT-ATAATTATGGGTTTCG
* * **
2465515 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGGTTAAGAAAT
65 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
* *
2465580 ACATTCTGGACCAACAGTATCGACACTTGTTTT-TGTTGTTTCGATACTTTTTGTACACCTGTTT
130 ACATTCTGGACCAAAAGTATCGACACTTGTTTTAT-TTGTGTCGATACTTTTTGTACACCTG-TT
* *
2465644 TTATAAA
193 TTCTCAA
* * *
2465651 AAACTGGTATATTTAGACCGG-TAACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACTGGTTAA-ATTGTTAATTTACCTATTACATTATAATTATGGGTTTCG
* * *** *
2465715 ATGTTTTTGGGATCGACACTT-TT-T--A-G--T-G-CACTTGGTTT--TGAAATACATTCTGGA
65 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTT--TTTAGTGCACTTGGTT-TTGA
* * * *** ** * * * * *
2465769 CCAA-A-AGTATCGA-CACTTGT-T--TTATTTGTGTCGATATTT-T-TTGTACACATGTTTTCT
127 --AATACATTCTGGACCAAAAGTATCGACACTTGT-T--TTATTTGTGTCG-ATAC-T-TTTTGT
* *
2465826 CAAAAACCGGTATATT-T---
184 ---ACACCTGT-T-TTCTCAA
* * * ** * * * *
2465843 AGACCGATTAAATTGTTA-A-T--TT-ATCTATTACATCATA-AT-TA------------TGGGT
1 AAACCG-GTATA-T-TTAGACTGGTTAAATTGTTA-AT-TTACCTATTACATTATAATTATGGGT
* * ** **
2465889 TTCGATGTTTCTGGGATCGACACTTGTTATAAATGTATTGACACTTTTCCGTGCACTTGGTTCAG
61 TTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTG
* * * *
2465954 AAATACATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTATGTCGACACTTTTTGTACACCTA
126 AAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTG
2466019 TTTTCTCAA
191 TTTTCTCAA
* * * * * *
2466028 AAACCAGTATATTTAGACCGTTTACATTATTAATTTAACTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACTGGTTAAATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * *
2466093 TGTTTTTGGGATTGACATTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
2466158 CATTCTAGACCAAAAGTATTGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
2466223 TCAA
196 TCAA
* * * **
2466227 AAATCGGTATATTTAGACCGGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTTAA
1 AAACCGGTATATTTAGACTGGTTAAATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
2466292 TGTTTTTGGGATCGATACTTGTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * * *
2466357 CATTCTAGACCAAAAGTATCGACACTTGTTTTAGTTGTGTAGATATTTTTTGTACACCTATTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
2466422 TCAA
196 TCAA
** * *
2466426 AAACCAATATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACTGGTTAAATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
** * *
2466491 TGTTTTTAAGATCTACACTTCTTATAAATGTATCGACA
66 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACA
2466529 TATAAGTTTA
Statistics
Matches: 1042, Mismatches: 163, Indels: 145
0.77 0.12 0.11
Matches are distributed among these distances:
178 29 0.03
179 2 0.00
180 1 0.00
181 2 0.00
182 6 0.01
183 8 0.01
184 5 0.00
185 10 0.01
186 18 0.02
187 26 0.02
188 11 0.01
189 6 0.01
190 14 0.01
191 22 0.02
192 21 0.02
193 8 0.01
194 5 0.00
195 11 0.01
196 3 0.00
198 4 0.00
199 642 0.62
200 185 0.18
201 3 0.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (199 bp):
AAACCGGTATATTTAGACTGGTTAAATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
TCAA
Found at i:2466907 original size:19 final size:19
Alignment explanation
Indices: 2466883--2466932 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2466873 TTACATTCAC
*
2466883 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
2466902 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
2466921 ATACAAAATTAA
1 ATACAAAATTAA
2466933 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:2468427 original size:18 final size:18
Alignment explanation
Indices: 2468404--2468442 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2468394 TTCTCCGCAT
* *
2468404 TTCCTCTATCTTTTCTTC
1 TTCCTCCATCTTCTCTTC
2468422 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTCTCTTC
2468440 TTC
1 TTC
2468443 AAATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTCTCTTC
Found at i:2469150 original size:22 final size:21
Alignment explanation
Indices: 2469122--2469177 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
2469112 AACCTGCATT
*
2469122 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
2469144 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
2469168 TATAA-AAAAC
1 TATAATAAAAC
2469178 AAAAACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 8 0.27
23 2 0.07
24 16 0.53
25 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:2470460 original size:19 final size:19
Alignment explanation
Indices: 2470432--2470499 Score: 109
Period size: 19 Copynumber: 3.6 Consensus size: 19
2470422 CATTTATACA
* *
2470432 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTTTT
2470451 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTTT
2470470 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTTT
*
2470489 ACATATAATAT
1 ACCTATAATAT
2470500 TAAATAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (19 bp):
ACCTATAATATCATTTTTT
Found at i:2471214 original size:181 final size:182
Alignment explanation
Indices: 2470887--2471975 Score: 1584
Period size: 182 Copynumber: 6.0 Consensus size: 182
2470877 TACGTGTACT
* *
2470887 TATTAAAGTATCGACACTTTCAACATATCCGGTA-ATACTTTACCGGTTTTTTCATTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTA-TTTACCGGTTTTGTCATTTTGAGACC
*
2470951 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT-TTAAAGTATCGACAC
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACAC
* * * * *
2471015 TTTATAGGCACTATAACTTCTTCTCTTTTAAATTTCAAAATTGTCGATATTTA
130 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* **
2471068 TATTAAAGTATCGACAGTTTCAACATATCCGGTAGTTATTTACATGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCG
** *
2471133 GTTTTGTCATATTTTTAGATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
*
2471198 TTTTAGGTGC-ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * *
2471249 TATTAAATTATCGACACTTTCAACATATCCGATA-TCTTTTTACCGGTTTTGTCATTTTTTAGAC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGT-TATTTACCGGTTTTGTCA-TTTTGAGAC
** * * * **
2471313 CTCTTTTGTTAAATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACA
64 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACA
**
2471378 CTTTATT-GGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTTTATACTTA
129 CTTT-TTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
2471432 TATTCAAGTATCGACACTTTCAACATATCCGGTAATTATTTACCTGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCG
** *
2471497 GTTTTGTCATATTTTTAGTTGTTATATTGTTATGGATCGATACA-TTTCATAAAGTGTCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
*
2471561 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAATGTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * * *
2471613 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGT-TTGACCGGTTTTGTCATTTTGATACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAG-TTATTTACCGGTTTTGTCATTTTGAGACC
** *
2471677 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCAACAC
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACAC
* *
2471742 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTA
130 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
2471795 TATTAAAATATCGACACTTTCAACATATCCAGTAGTTATTTACCTGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCG
* * * *
2471860 GTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATATATTCTCATAAAGTTTCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
*
2471925 TTTTAAGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTT
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTT
2471976 TCTAGAAATT
Statistics
Matches: 808, Mismatches: 86, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
180 5 0.01
181 348 0.43
182 364 0.45
183 90 0.11
184 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCGGTTTTGTCATTTTGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:2471923 original size:545 final size:545
Alignment explanation
Indices: 2470887--2471967 Score: 1638
Period size: 545 Copynumber: 2.0 Consensus size: 545
2470877 TACGTGTACT
*
2470887 TATTAAAGTATCGACACTTTCAACATATCCGGTAATACTTTACCGGTTTTTTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAATACTTTACCGGTTTTGTCATTTTGAGACCG
**
2470952 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAGTATCGACACTT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTCATAAAGTATCGACACTT
* *
2471017 TATAGGCACTATAACTTCTTCTCTTTTAAATTTCAAAATTGTCGATATTTATATTAAAGTATCGA
131 TATAGGCACTATAACTTCTTCTCTTTTAAATTTCAAAAATGTCGATACTTATATTAAAGTATCGA
* * * *
2471082 CAGTTTCAACATATCCGGTAGTTATTTACATGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
196 CACTTTCAACATATCCGGTAGGTATTGACAGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
* * * * *
2471147 TTAGATGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGTGCATAA
261 TTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCAACACTTTATAGGCGCATAA
* *
2471212 CTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATAT
326 CTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCGACACTTTCAACATAT
* * * *
2471277 CCGATATCTTTTTACCGGTTTTGTCATTTTTTAGACCTCTTTTGTTAAATTTTTACCTGTTATAT
391 CCGATATCTATTTACCGGTTTTGTCATTTTTGAGACCGCTTTTGTCAAATTTTTACCTGTTATAT
* ** *
2471342 TGTTATAGATCGATACATTTTTTTAAAGTATCGACACTTTATT-GGCGCTATAACTTCTTCTCTT
456 TGTTATAGATCGATACATTCTCATAAAGTATCGACACTTT-TTAAGCGCTATAACTTCTTCTCTT
2471406 TTAAATTCCA-AAAGTGTTTATACTTA
520 TTAAATT-CAGAAAGTGTTTATACTTA
* *
2471432 TATTCAAGTATCGACACTTTCAACATATCCGGTAATTA-TTTACCTGTTTTGTCATTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAA-TACTTTACCGGTTTTGTCATTTTGAGACC
** *
2471496 GGTTTTGTCATATTTTTAGTTGTTATATTGTTATGGATCGATACATTTCATAAAGTGTCGACACT
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTCATAAAGTATCGACACT
* * *
2471561 TTTTAGGCGCTATAACTTCTTCTCTTTTAAA-TTCAGAAAATGTCGATACTTATATTAAATTATC
130 TTATAGGCACTATAACTTCTTCTCTTTTAAATTTCA-AAAATGTCGATACTTATATTAAAGTATC
* *
2471625 GACACTTTCAACATATCCGGTAGCGT-TTGACCGGTTTTGTCATTTTGATACCGGTTTTGTCATA
194 GACACTTTCAACATATCCGGTAG-GTATTGACAGGTTTTGTCATTTTGAGACCGGTTTTGTCATA
* **
2471689 TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCAACACTTTATAGGCGCT
258 TTTTTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCAACACTTTATAGGCGC-
2471754 ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCGACACTTTCAAC
322 ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCGACACTTTCAAC
* * * *
2471819 ATATCC-AGTAGT-TATTTACCTGTTTTGTCA-TTTTGAGACCGGTTTTGTCATATTTTTAGCTG
387 ATATCCGA-TA-TCTATTTACCGGTTTTGTCATTTTTGAGACCGCTTTTGTCAAATTTTTACCTG
* * *
2471881 TTATATTGTTATGGATCGATATATTCTCATAAAGTTTCGACACTTTTTAAGCGCTATAACTTCTT
450 TTATATTGTTATAGATCGATACATTCTCATAAAGTATCGACACTTTTTAAGCGCTATAACTTCTT
2471946 CTCTTTTAAATTCAGAAAGTGT
515 CTCTTTTAAATTCAGAAAGTGT
2471968 CGATACTTTC
Statistics
Matches: 484, Mismatches: 44, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
544 8 0.02
545 385 0.80
546 90 0.19
547 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (545 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAATACTTTACCGGTTTTGTCATTTTGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTCATAAAGTATCGACACTT
TATAGGCACTATAACTTCTTCTCTTTTAAATTTCAAAAATGTCGATACTTATATTAAAGTATCGA
CACTTTCAACATATCCGGTAGGTATTGACAGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
TTACATGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCAACACTTTATAGGCGCATAA
CTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAATATCGACACTTTCAACATAT
CCGATATCTATTTACCGGTTTTGTCATTTTTGAGACCGCTTTTGTCAAATTTTTACCTGTTATAT
TGTTATAGATCGATACATTCTCATAAAGTATCGACACTTTTTAAGCGCTATAACTTCTTCTCTTT
TAAATTCAGAAAGTGTTTATACTTA
Found at i:2472642 original size:14 final size:14
Alignment explanation
Indices: 2472625--2472663 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2472615 ATGTGAATAA
2472625 TATTATTAAAATTT
1 TATTATTAAAATTT
2472639 TATT-TCTAAAATTT
1 TATTAT-TAAAATTT
*
2472653 TATTAATAAAA
1 TATTATTAAAA
2472664 ATATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTATTAAAATTT
Found at i:2478475 original size:21 final size:21
Alignment explanation
Indices: 2478451--2478492 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2478441 AAGGGTTAAG
2478451 TCCTTTCGATGAAAGAACTTA
1 TCCTTTCGATGAAAGAACTTA
* *
2478472 TCCTTTTGATGAAAGGACTTA
1 TCCTTTCGATGAAAGAACTTA
2478493 ATTTTTTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (21 bp):
TCCTTTCGATGAAAGAACTTA
Found at i:2478499 original size:21 final size:21
Alignment explanation
Indices: 2478453--2478526 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
2478443 GGGTTAAGTC
* *
2478453 CTTTCGATGAAAGAACTT-AT
1 CTTTTGATGAAAGGACTTAAT
2478473 CCTTTTGATGAAAGGACTTAAT
1 -CTTTTGATGAAAGGACTTAAT
* * *
2478495 TTTTTCG-TGAAATGATTTAAT
1 CTTTT-GATGAAAGGACTTAAT
*
2478516 CTTTTCATGAA
1 CTTTTGATGAA
2478527 GAGAATTGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 40 0.93
22 3 0.07
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (21 bp):
CTTTTGATGAAAGGACTTAAT
Found at i:2478624 original size:35 final size:35
Alignment explanation
Indices: 2478576--2478647 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
2478566 TAAACTAAAA
2478576 AATAAGTTCATTCACCAAGTAACATGACTTATTAT
1 AATAAGTTCATTCACCAAGTAACATGACTTATTAT
* *
2478611 AATAAGTTTATTCACCAAGTGACATGACTTATTAT
1 AATAAGTTCATTCACCAAGTAACATGACTTATTAT
2478646 AA
1 AA
2478648 ATAGCATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (35 bp):
AATAAGTTCATTCACCAAGTAACATGACTTATTAT
Found at i:2481575 original size:21 final size:21
Alignment explanation
Indices: 2481550--2481596 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2481540 TATCCTTATG
*
2481550 ATGAAATGACTTAACATTTTC
1 ATGAAAAGACTTAACATTTTC
* * *
2481571 GTGAAAAGATTTAATATTTTC
1 ATGAAAAGACTTAACATTTTC
2481592 ATGAA
1 ATGAA
2481597 GAGAATTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (21 bp):
ATGAAAAGACTTAACATTTTC
Found at i:2481744 original size:3 final size:3
Alignment explanation
Indices: 2481736--2481765 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
2481726 ATTTATTTAT
2481736 TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
2481766 TTTTATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2483012 original size:21 final size:20
Alignment explanation
Indices: 2482987--2483034 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
2482977 TATAGGTTCC
2482987 TTTTTTTCAT-TTATTTTAT
1 TTTTTTTCATGTTATTTTAT
2483006 TACTTTTTT-ATGTTATTTTAT
1 T--TTTTTTCATGTTATTTTAT
2483027 TTTTTTTC
1 TTTTTTTC
2483035 CCTTTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 16 0.64
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTTCATGTTATTTTAT
Found at i:2483104 original size:19 final size:18
Alignment explanation
Indices: 2483075--2483117 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2483065 CTTTATTTTC
*
2483075 TTATTTTCTT-CTTCTTAT
1 TTATTTCCTTCCTT-TTAT
2483093 TATATTTCCTTCCTTTTAT
1 T-TATTTCCTTCCTTTTAT
2483112 TTATTT
1 TTATTT
2483118 AATATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 13 0.59
20 3 0.14
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTCCTTCCTTTTAT
Found at i:2486968 original size:106 final size:106
Alignment explanation
Indices: 2486783--2488433 Score: 2782
Period size: 106 Copynumber: 15.6 Consensus size: 106
2486773 TTTGCTCGAA
* * *
2486783 AGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
2486848 AAGGGACCACTGGTTGTCAACAAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
*
2486889 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
2486954 AAGGGACCGCTGGTTGTCAAAAAACAACTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
* *
2486995 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGAAG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
2487060 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
*
2487101 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* ** * *
2487166 AAGGGACCGCTGGTCGTCAATTAATAATTTCCCAATTTTAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
*
2487207 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
2487272 AAGGGACCGCTGGTTGTCAA-AATACAACTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAA-ACAATTTCCCAATTTCAG
* *
2487313 AGCCAATTTCAACTTCACAGCGAAGGATATTGTACTCCAGACAACGCAAGTTCAACTTCACGAAG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
2487378 AAGGGACTGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
*
2487419 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
**
2487484 AAGGGACCGCTGGTTGTCAATTAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
*
2487525 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * *
2487590 AAGGGACCGCTTGTTGTCAAAAAACAACTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
*
2487631 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAAG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
2487696 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
* *
2487737 AGCCAATTTCAACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
**
2487802 AAGGGACCGCTGGTTGTCAATTAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
** * *
2487843 AGTTAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCATGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * * * *
2487908 AAGGGACCGCTAGTTGTTAAAAAATAACTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
*
2487949 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTTAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * *
2488014 AAGGGACCGCTGATTGTCAACAAACAACTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
* * *
2488055 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGTAAGTACAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * *
2488120 AAGGGACCGCTGGTTGTCAAAAAATAACTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
2488161 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
*
2488226 AAGGGACCGCTGGATGTCAACAAACAATTTCCCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
2488267 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* *
2488332 AAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
66 AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
* *
2488373 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGCTCAACTTCAC
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
2488434 AACAAATGAG
Statistics
Matches: 1448, Mismatches: 95, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
105 1 0.00
106 1445 1.00
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
AGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
AAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
Found at i:2488648 original size:3 final size:3
Alignment explanation
Indices: 2488642--2488696 Score: 58
Period size: 3 Copynumber: 17.3 Consensus size: 3
2488632 TAAAAAAATA
*
2488642 TAT TAT TGT TTAT TTAT TTAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT -TAT -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2488689 TAT ATAT T
1 TAT -TAT T
2488697 TTTTATCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 2 0.04
3 32 0.70
4 12 0.26
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2489943 original size:21 final size:21
Alignment explanation
Indices: 2489917--2489957 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2489907 CTATAGGTTC
2489917 CTTTTTTCAT-TTATTTTATTA
1 CTTTTTT-ATGTTATTTTATTA
2489938 CTTTTTTATGTTATTTTATT
1 CTTTTTTATGTTATTTTATT
2489958 TTTTTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
CTTTTTTATGTTATTTTATTA
Found at i:2491020 original size:2 final size:2
Alignment explanation
Indices: 2491013--2491073 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
2491003 TCATTCAAAA
2491013 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2491055 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
2491074 CCATTAAGTA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2492699 original size:2 final size:2
Alignment explanation
Indices: 2492692--2492733 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2492682 CTTTGTTTTG
2492692 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2492734 TTTTGTTTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2500201 original size:2 final size:2
Alignment explanation
Indices: 2500194--2500231 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2500184 AAACTGTTGT
2500194 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
2500232 GTTTTTCTTT
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):
TA
Found at i:2501386 original size:24 final size:23
Alignment explanation
Indices: 2501354--2501403 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
2501344 TAGAAAGTTC
*
2501354 TCCACTTCCTTCTTCCTTTCCATT
1 TCCACTTCCTTCCT-CTTTCCATT
* *
2501378 TCCATTTCCTTCCTCTTTCCTTT
1 TCCACTTCCTTCCTCTTTCCATT
2501401 TCC
1 TCC
2501404 TCTTTTGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.06, C:0.42, G:0.00, T:0.52
Consensus pattern (23 bp):
TCCACTTCCTTCCTCTTTCCATT
Found at i:2503735 original size:25 final size:25
Alignment explanation
Indices: 2503698--2503749 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
2503688 GTATTGGTCC
* **
2503698 CCCATCCTCGTCCCCGTTTAAAAAA
1 CCCATACTCGTCCCCACTTAAAAAA
*
2503723 CCCATACTTGTCCCCACTTAAAAAA
1 CCCATACTCGTCCCCACTTAAAAAA
2503748 CC
1 CC
2503750 GCGGGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.40, G:0.06, T:0.23
Consensus pattern (25 bp):
CCCATACTCGTCCCCACTTAAAAAA
Found at i:2503942 original size:38 final size:37
Alignment explanation
Indices: 2503855--2503942 Score: 124
Period size: 38 Copynumber: 2.4 Consensus size: 37
2503845 TCGGGCCGAG
2503855 TATATATAT-ATTTAAATTAAATATATAAATATTATA
1 TATATATATAATTTAAATTAAATATATAAATATTATA
* * *
2503891 TATATATTTTAATTTAAATTAAATTTATTAATATTATA
1 TATATA-TATAATTTAAATTAAATATATAAATATTATA
2503929 TATATATAATAATT
1 TATATAT-ATAATT
2503943 ATTTTTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
36 6 0.13
37 3 0.07
38 36 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (37 bp):
TATATATATAATTTAAATTAAATATATAAATATTATA
Done.