Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000649.1 Hibiscus syriacus cultivar Beakdansim tig00001255_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: 85629
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:2410 original size:20 final size:20
Alignment explanation
Indices: 2385--2424 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2375 AGCAACAGAA
2385 TAAAAATGATTC-TATCTAAT
1 TAAAAATGA-TCATATCTAAT
2405 TAAAAATGATCATATCTAAT
1 TAAAAATGATCATATCTAAT
2425 AACTAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCATATCTAAT
Found at i:2453 original size:53 final size:52
Alignment explanation
Indices: 2381--2530 Score: 257
Period size: 53 Copynumber: 2.9 Consensus size: 52
2371 AATTAGCAAC
*
2381 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCATATCTAATAACTAAT
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
2432 AGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
* *
2485 AGAATAAAGACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
2531 TTTAATTTAG
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 5 0.05
52 44 0.47
53 45 0.48
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (52 bp):
AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:2467 original size:20 final size:21
Alignment explanation
Indices: 2438--2477 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2428 TAATAGAATA
*
2438 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
2459 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
2478 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:2519 original size:20 final size:21
Alignment explanation
Indices: 2489--2529 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
2479 ACTAATAGAA
*
2489 TAAAGACTGATTCTATCTAAT
1 TAAAGACTGATCCTATCTAAT
2510 TAAA-ACTGATCCTATCTAAT
1 TAAAGACTGATCCTATCTAAT
2530 ATTTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (21 bp):
TAAAGACTGATCCTATCTAAT
Found at i:3235 original size:46 final size:46
Alignment explanation
Indices: 3168--3260 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
3158 TCAATGTCGG
3168 ATTCGTTTCGGATGATTAGTAGAATAGCCAAATGGCTTTAGCAGCT
1 ATTCGTTTCGGATGATTAGTAGAATAGCCAAATGGCTTTAGCAGCT
3214 ATTCGTTTCGGATGATTAGTAGAATAGCCAAATGGCTTTAGCAGCT
1 ATTCGTTTCGGATGATTAGTAGAATAGCCAAATGGCTTTAGCAGCT
3260 A
1 A
3261 AAGACTAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (46 bp):
ATTCGTTTCGGATGATTAGTAGAATAGCCAAATGGCTTTAGCAGCT
Found at i:6474 original size:17 final size:17
Alignment explanation
Indices: 6441--6473 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6431 ACAAGAAAGC
*
6441 CAAATGTCCGGTTTTTT
1 CAAATGTCCAGTTTTTT
6458 CAAATGTCCA-TTTTTT
1 CAAATGTCCAGTTTTTT
6474 TATCGTCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (17 bp):
CAAATGTCCAGTTTTTT
Found at i:7650 original size:24 final size:23
Alignment explanation
Indices: 7622--7667 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
7612 TATTATAATT
7622 TAAAA-TTTATTATTAATAAAAATA
1 TAAAACTTT-TTATT-ATAAAAATA
*
7646 TAAAACTTTTTATTTTAAAAAT
1 TAAAACTTTTTATTATAAAAAT
7668 CTTCAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 10 0.50
25 3 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAAACTTTTTATTATAAAAATA
Found at i:19464 original size:94 final size:96
Alignment explanation
Indices: 19287--19467 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 96
19277 CGTCTTGTAT
*
19287 TTATACACATATCTAATTATATATCAAATGGTTGAACTTGAGTGAGTGTCATATTTAGACATGTC
1 TTATACACATATCTAATTATATATCAAATGGTTGAACTTGAGTGAGTGTCAGATTTAGACATGTC
* *
19352 CTGCATGATATGCACAATTTTTGGATGTTTG
66 CTACATGACATGCACAATTTTTGGATGTTTG
* * * *
19383 TTATACACCTATCTAA-T-TATATCATATGGTTGAACTTGGGTGAGTGTCAGATTTAGACATTTC
1 TTATACACATATCTAATTATATATCAAATGGTTGAACTTGAGTGAGTGTCAGATTTAGACATGTC
* *
19446 CTATAT-AGCATGCTCAATTTTT
66 CTACATGA-CATGCACAATTTTT
19468 TTTTATGTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 1 0.01
94 58 0.77
95 1 0.01
96 15 0.20
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (96 bp):
TTATACACATATCTAATTATATATCAAATGGTTGAACTTGAGTGAGTGTCAGATTTAGACATGTC
CTACATGACATGCACAATTTTTGGATGTTTG
Found at i:19508 original size:104 final size:103
Alignment explanation
Indices: 19383--19646 Score: 271
Period size: 103 Copynumber: 2.5 Consensus size: 103
19373 TGGATGTTTG
* **
19383 TTATACACCTATCTAAT-TATATCATATGGTTGAACTTGGGTGAGTGTCAGATTTAGACATTTCC
1 TTATACACATATCTAATATATATCATATGGTTGAACTTGGGTGAGTGTCAGATTT-GACACGTCC
* * ** ** *
19447 TATATAGCATGCTCAATTTTTTTTTATGTTTGTCTTGTAT
65 TACATAACATGCTCAA-TTTTTTCGAAATTTGTCTTGCAT
* * * * *
19487 TTATACACATATCTAAATATATATCATATGATTGAATTTGCGTGCGTGTCGGATTTGA-ACGTCC
1 TTATACACATATCT-AATATATATCATATGGTTGAACTTGGGTGAGTGTCAGATTTGACACGTCC
* *
19551 TACATAATATGTTCAATTTTTTCGAAATTTGTCTTGCAT
65 TACATAACATGCTCAATTTTTTCGAAATTTGTCTTGCAT
* * * * * *
19590 TTATGCACATATCTAACTATATGTCAAATAGTTAAACTCGGGTGAGTGTCAGATTTG
1 TTATACACATATCTAA-TATATATCATATGGTTGAACTTGGGTGAGTGTCAGATTTG
19647 GACAAGTGTC
Statistics
Matches: 129, Mismatches: 28, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
102 2 0.02
103 61 0.47
104 29 0.22
105 5 0.04
106 32 0.25
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (103 bp):
TTATACACATATCTAATATATATCATATGGTTGAACTTGGGTGAGTGTCAGATTTGACACGTCCT
ACATAACATGCTCAATTTTTTCGAAATTTGTCTTGCAT
Found at i:21302 original size:3 final size:3
Alignment explanation
Indices: 21296--21350 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
21286 AATATTATAT
* *
21296 TTA TTA TTTA TTA GTA TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21342 GTT- TTA TTA
1 -TTA TTA TTA
21351 ATGATAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:26586 original size:72 final size:72
Alignment explanation
Indices: 26469--26609 Score: 248
Period size: 72 Copynumber: 2.0 Consensus size: 72
26459 TTAGTCTTAA
*
26469 CTTCAAATGAATTCCAGTCAAAGCAGCTTGTGATAATTTCATAACTCAAATAACGAATAAACCAT
1 CTTCAAATGAATTCCACTCAAAGCAGCTTGTGATAATTTCATAACTCAAATAACGAATAAACCAT
26534 CAAAGCT
66 CAAAGCT
*
26541 CTTCAAATGAA-TCCAACTCAAAGCAGGTTGTGATAATTTCATAACTCAAATAACGAATAAACCA
1 CTTCAAATGAATTCC-ACTCAAAGCAGCTTGTGATAATTTCATAACTCAAATAACGAATAAACCA
26605 TCAAA
65 TCAAA
26610 ACTCCATCTA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 3 0.05
72 63 0.95
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.26
Consensus pattern (72 bp):
CTTCAAATGAATTCCACTCAAAGCAGCTTGTGATAATTTCATAACTCAAATAACGAATAAACCAT
CAAAGCT
Found at i:27700 original size:23 final size:23
Alignment explanation
Indices: 27654--27700 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
27644 TTTCGTATTG
* ***
27654 AAAATTTAAAAAATCTATCGATA
1 AAAAATTAAAAAATCTAAAAATA
27677 AAAAATTAAAAAATCTAAAAATA
1 AAAAATTAAAAAATCTAAAAATA
27700 A
1 A
27701 CGATAATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAAATTAAAAAATCTAAAAATA
Found at i:34926 original size:16 final size:16
Alignment explanation
Indices: 34890--34920 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34880 AATGCAGACC
34890 ATTTTTCTTTAAAATG
1 ATTTTTCTTTAAAATG
34906 ATTTTTCTTTAAAAT
1 ATTTTTCTTTAAAAT
34921 TGTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTTTCTTTAAAATG
Found at i:36014 original size:31 final size:32
Alignment explanation
Indices: 35979--36040 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
35969 ATTTTACATG
35979 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
36010 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
36041 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:38501 original size:26 final size:25
Alignment explanation
Indices: 38472--38550 Score: 78
Period size: 26 Copynumber: 3.3 Consensus size: 25
38462 AATTTTTGAC
38472 ATTCTATTTCTTTGAGACCTTGAAAT
1 ATTCT-TTTCTTTGAGACCTTGAAAT
*
38498 ATTCTTTTC-----GACCTTGAAAC
1 ATTCTTTTCTTTGAGACCTTGAAAT
* *
38518 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTTTCTTTGAGACCTTGAAAT
38544 ATTCTTT
1 ATTCTTT
38551 CTACCTTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 13 0.32
21 4 0.10
25 6 0.15
26 18 0.44
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (25 bp):
ATTCTTTTCTTTGAGACCTTGAAAT
Found at i:38504 original size:20 final size:20
Alignment explanation
Indices: 38479--38550 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
38469 GACATTCTAT
38479 TTCTTTGAGACCTTGAAATA
1 TTCTTTGAGACCTTGAAATA
** *
38499 TTCTTTTCGACCTTGAAACATTCCC
1 TTCTTTGAGACCTTG-AA-A-T--A
38524 TCTCTTTGAGACCTTGAAATA
1 T-TCTTTGAGACCTTGAAATA
38545 TTCTTT
1 TTCTTT
38551 CTACCTTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
20 18 0.45
21 3 0.08
22 1 0.03
23 2 0.05
24 1 0.03
25 3 0.08
26 12 0.30
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (20 bp):
TTCTTTGAGACCTTGAAATA
Found at i:40380 original size:4 final size:4
Alignment explanation
Indices: 40373--40410 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
40363 ATACATCAAC
*
40373 ACAT ACAT ACAT ATAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
40411 GATACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.07
4 28 0.93
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:40382 original size:16 final size:16
Alignment explanation
Indices: 40361--40405 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
40351 GATTGAGAAA
40361 ACATACATCA-ACACAT
1 ACATACAT-ATACACAT
*
40377 ACATACATATATACAT
1 ACATACATATACACAT
*
40393 ACATACACATACA
1 ACATACATATACA
40406 TACATGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (16 bp):
ACATACATATACACAT
Found at i:41007 original size:36 final size:36
Alignment explanation
Indices: 40955--41072 Score: 159
Period size: 36 Copynumber: 3.3 Consensus size: 36
40945 TGAGAATTTT
*
40955 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGCTTGAGACAATTTCTTTA
* *
40992 AAAGCAAATTTTGTCTCGCTTGAGACAGCTTTC--TA
1 AAAACAAATTTTGTCTCGCTTGAGACA-ATTTCTTTA
* *
41027 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTA
41063 AAAACAAATT
1 AAAACAAATT
41073 CCGTCTCACT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
34 4 0.06
35 26 0.37
36 30 0.42
37 11 0.15
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTA
Found at i:41079 original size:71 final size:72
Alignment explanation
Indices: 40955--41089 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 72
40945 TGAGAATTTT
** * ** * *
40955 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTCAAAGCAAATTTTGTCTCGCTTGAGACAG
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACAG
41020 CTTTCTA
66 CTTTCTA
*
41027 AAAACAAA-TTTTGTCTCGTTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACA
41090 TTTTTCCTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
71 47 0.85
72 8 0.15
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACAG
CTTTCTA
Found at i:41236 original size:167 final size:166
Alignment explanation
Indices: 40996--41314 Score: 423
Period size: 167 Copynumber: 1.9 Consensus size: 166
40986 TCTTTCAAAG
* * * ** *
40996 CAAATTTTGTCTCGCTTGAGACAGCTTTCTAAAAACAAATTTTGTCTCGTTTGAGACAATTTCTT
1 CAAATTTTGTCTCGCTTGAGACAGATTTCTAAAAACAAAGTTTGTATCACTTAAGACAATTTCTT
41061 GAAAAACAAA-TTCCGTCTCACTGGAGACATTTTTCC-TTGAGATACAAATTTCGAATTTGATTC
66 -AAAAACAAACTT-CGTCTCACTGGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTC
* *
41124 ACATT-AAACAAAGTTGATCTCACTTGAGATCGTTTTCT
129 AC-TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCT
* *
41162 CAAATTTTGTTTTGCTTGAGACA-ATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTC
1 CAAATTTTGTCTCGCTTGAGACAGATTTC--TAAAAACAAAGTTTGTATCACTTAAGAC-AATT-
* * *
41226 TCTT-AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGAT
62 TCTTAAAAACAAACTTCGTCTCACTGGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
41290 TCACTTAAAACAAAATTAATCTCAC
127 TCACTTAAAACAAAATTAATCTCAC
41315 CTTAGATTGT
Statistics
Matches: 133, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
165 4 0.03
166 21 0.16
167 54 0.41
168 50 0.38
169 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (166 bp):
CAAATTTTGTCTCGCTTGAGACAGATTTCTAAAAACAAAGTTTGTATCACTTAAGACAATTTCTT
AAAAACAAACTTCGTCTCACTGGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCAC
TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCT
Found at i:41256 original size:36 final size:36
Alignment explanation
Indices: 41175--41256 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
41165 ATTTTGTTTT
* * *
41175 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
* * *
41211 ACTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAACTTCGTATC
41247 GCTTGAGACA
1 GCTTGAGACA
41257 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
Found at i:41355 original size:105 final size:102
Alignment explanation
Indices: 41230--41468 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 102
41220 AAATTCTCTT
* * *
41230 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
41294 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAAATCG-T-TTTC--TCA
* * *
41335 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
41400 TTAAACAAAGTTGATCTCACTTGAAATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAAATCGTTTTCTCA
*
41437 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
41469 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 77 0.65
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAAATCGTTTTCTCA
Found at i:41406 original size:273 final size:267
Alignment explanation
Indices: 41063--41695 Score: 801
Period size: 273 Copynumber: 2.3 Consensus size: 267
41053 AATTTCTTGA
* * * *
41063 AAAACAAATTCCGTCTCACTGGAGACATTTTTCC-TTGAGATACAAATTTCGAATTTGATTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACA-TTTTCCTTTGAGATACAAATTTCGAATTTGTTTCACA
* * *
41127 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT-CAAATTTTGTTTTGCTTGAGACAATTTCT
65 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTACAAACTTTGTCTCGCTTGAGACAATTTCT
* *
41191 TTAAAAACAAAGTTTGTATCACTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGAC
130 CTAAAAACAAAGTTTGTATCACTTAAGAC-AA-TATCTTAAAACAAACTTCGTCTCGCTTGAGAC
41256 ATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTT-AG
193 ATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAAC--AA--AATCTCA-CTTGAG
*
41320 ATTGTTGTTTCTTTC
253 ATTGTTGTTTATTTC
* *
41335 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTT-CCTTTGAGATACAAATTTCGAATTTGTTTCACA
*
41400 TTAAACAAAGTTGATCTCACTTGAAATCGTTTTCTCAAAAACAAACTTTGTCTCGCTTGAGACAA
65 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT-----ACAAACTTTGTCTCGCTTGAGACAA
* * * * * * *
41465 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTATATCTTAAAGCAAATTTCGTCTCGCTTGA
125 TTTCTCTAAAAACAAAGTTTGTATCACTTAAGACAATATCTTAAAACAAACTTCGTCTCGCTTGA
* * *
41530 GACATTTTTCCTTTGAGATACTAATTTTGAATTTGTTTCACTTAAAACAAAATCTCACTTGATAT
190 GACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATCTCACTTGAGAT
41595 TGTTGTTTATTTC
255 TGTTGTTTATTTC
* * * * *
41608 GAAACAAATTTCGTTTCGCTTGAGACATTTTTCTCTGAGATACAAATTT-AAATTTGTTGT-AC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTCGAATTTGTT-TCACA
* * *
41670 TTGAAACAAAATTAATATCACTTGAG
65 TT-AAACAAAGTTGATCTCACTTGAG
41696 TTTTTCAAAA
Statistics
Matches: 316, Mismatches: 34, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
270 2 0.01
271 33 0.10
272 44 0.14
273 112 0.35
275 2 0.01
277 72 0.23
278 1 0.00
279 50 0.16
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (267 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTCGAATTTGTTTCACAT
TAAACAAAGTTGATCTCACTTGAGATCGTTTTCTACAAACTTTGTCTCGCTTGAGACAATTTCTC
TAAAAACAAAGTTTGTATCACTTAAGACAATATCTTAAAACAAACTTCGTCTCGCTTGAGACATT
TTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATCTCACTTGAGATTGTTGT
TTATTTC
Found at i:41459 original size:36 final size:36
Alignment explanation
Indices: 41414--41495 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
41404 ACAAAGTTGA
**
41414 TCTCACTTGAAATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAAA-CAATTTCTCTAAAAACAAACTTTG
* * *
41450 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAAACAATTTCTCTAAAAACAAACTTTG
*
41486 TCTCATTTGA
1 TCTCACTTGA
41496 GACTATATCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 7 0.18
36 31 0.82
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (36 bp):
TCTCACTTGAAACAATTTCTCTAAAAACAAACTTTG
Found at i:41496 original size:36 final size:36
Alignment explanation
Indices: 41430--41533 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
41420 TTGAAATCGT
*
41430 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
** *
41465 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* * *
41501 TATCT-T-AAAGCAAATTTCGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
41534 TTTTTCCTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 22 0.38
35 7 0.12
36 29 0.50
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:41881 original size:29 final size:29
Alignment explanation
Indices: 41847--41944 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 29
41837 CTCTTGAGAT
41847 AAATCTTTGAGTCTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
* *
41876 AAATCTTGGAGTTTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
* *
41905 ATATCTTTGAGT-TGTTTCTTTTG-A-AA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
41931 AAATCTTTGAGTCT
1 AAATCTTTGAGTCT
41945 ATTTATTTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.21
27 2 0.03
28 10 0.16
29 37 0.60
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTCCTTTTGAATAA
Found at i:41928 original size:28 final size:28
Alignment explanation
Indices: 41833--41956 Score: 137
Period size: 29 Copynumber: 4.4 Consensus size: 28
41823 TCTGGAGACA
*
41833 GTTTCTCTTGAGAT-AAATCTTTGAGTCT
1 GTTTCTTTTGA-ATAAAATCTTTGAGTCT
* * *
41861 GTTCCTTTTGAATAAAAATCTTGGAGTTT
1 GTTTCTTTTGAAT-AAAATCTTTGAGTCT
*
41890 GTTCCTTTTGAATAAATATCTTTGAGT-T
1 GTTTCTTTTGAATAAA-ATCTTTGAGTCT
41918 GTTTCTTTTGAA-AAAATCTTTGAGTCT
1 GTTTCTTTTGAATAAAATCTTTGAGTCT
* *
41945 ATTTATTTTGAA
1 GTTTCTTTTGAA
41957 ACAAAGTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
26 10 0.12
27 16 0.19
28 24 0.29
29 34 0.40
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.48
Consensus pattern (28 bp):
GTTTCTTTTGAATAAAATCTTTGAGTCT
Found at i:42031 original size:52 final size:53
Alignment explanation
Indices: 41953--42056 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 53
41943 CTATTTATTT
*
41953 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
42005 TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAG
1 TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTG-AAAAAATCTTTGAG
42057 AGTGTTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 35 0.73
54 13 0.27
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (53 bp):
TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:42078 original size:30 final size:30
Alignment explanation
Indices: 42044--42107 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
42034 ATTTTGTGAA
*
42044 AAAAATCTTTGAGAGTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGAGTGTTTCTTTGGAAAC
**
42074 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGAGTGTTTCTTTGGAAAC
42104 AAAA
1 AAAA
42108 TTTTGTCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (30 bp):
AAAAATCTTTGAGAGTGTTTCTTTGGAAAC
Found at i:42108 original size:29 final size:29
Alignment explanation
Indices: 42036--42112 Score: 95
Period size: 30 Copynumber: 2.7 Consensus size: 29
42026 TTGAGACAAT
42036 TTTGTGAAA-AAAATCTTTGAGAGTGTTTC
1 TTTG-GAAACAAAATCTTTGAGAGTGTTTC
* **
42065 TTTTGAAACAAAAATCTTTGAGTTTGTTTC
1 TTTGGAAAC-AAAATCTTTGAGAGTGTTTC
42095 TTTGGAAACAAAAT-TTTG
1 TTTGGAAACAAAATCTTTG
42113 TCTCTCTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.19
29 8 0.19
30 26 0.62
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (29 bp):
TTTGGAAACAAAATCTTTGAGAGTGTTTC
Found at i:43009 original size:28 final size:28
Alignment explanation
Indices: 42931--43019 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
42921 GAAACAAAAC
* * *
42931 AAACAAAGTCTTTGAGTATGTTTTTCTTG
1 AAACAAA-TCTTTGAATTTGTTTCTCTTG
** *
42960 AAACAAATCTTTGGGTTTGTTTCTTTTG
1 AAACAAATCTTTGAATTTGTTTCTCTTG
42988 AAACAAATCTTT-AATTTGGTTTCTCTTG
1 AAACAAATCTTTGAATTT-GTTTCTCTTG
43016 AAAC
1 AAAC
43020 CATAACTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 3 0.06
28 42 0.81
29 7 0.13
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (28 bp):
AAACAAATCTTTGAATTTGTTTCTCTTG
Found at i:43184 original size:46 final size:46
Alignment explanation
Indices: 43132--43313 Score: 168
Period size: 46 Copynumber: 4.1 Consensus size: 46
43122 CCAGCCGTCC
43132 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * * * * *
43178 TCATCACGTATGAGCCGTGTCAT-TCC--TCGA---CCAGACCTCT
1 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * ** * *
43218 TCATCACGTAGGAGCCGTG---TCACCCTTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC-TCT
43261 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
1 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
43308 TCATCA
1 TCATCA
43314 TGTATGAGTA
Statistics
Matches: 108, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
37 1 0.01
38 2 0.02
40 30 0.28
42 2 0.02
43 27 0.25
45 2 0.02
46 33 0.31
47 10 0.09
48 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:43223 original size:40 final size:41
Alignment explanation
Indices: 43045--43373 Score: 204
Period size: 40 Copynumber: 7.7 Consensus size: 41
43035 TGGCCAGCCG
* ** *
43045 TCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATC
1 TCTTCATCACGTATGAGCCGTGTCATACCTTAGACCAGACC
*
43086 TCTTCATCACGTATGAGCCGTGTCA-ACCATAGATAACCAG-CC
1 TCTTCATCACGTATGAGCCGTGTCATACCTTAG---ACCAGACC
* * * * *
43128 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCTTCATCACGTATGAGCCGTGTCAT-ACC-TTAGA---CCAGACC
* *
43175 TCTTCATCACGTATGAGCCGTGTCATTCC-TCGACCAGACC
1 TCTTCATCACGTATGAGCCGTGTCATACCTTAGACCAGACC
* *
43215 TCTTCATCACGTAGGAGCCGTGTCA-CCCTTAGATAACCAG-CC
1 TCTTCATCACGTATGAGCCGTGTCATACCTTAG---ACCAGACC
* * * * *
43257 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAAC
1 -TCTTCATCACGTATGAGCCGTGTCAT-ACC-TTAGA---CC-AGACC
* *** * * *
43305 TCTTCATCATGTATGAGTAATGTCATCCCCT-GACCAGAAC
1 TCTTCATCACGTATGAGCCGTGTCATACCTTAGACCAGACC
43345 TCTTCATCACGTATGAGCCGTGTCA-ACCT
1 TCTTCATCACGTATGAGCCGTGTCATACCT
43374 CAGATAACCA
Statistics
Matches: 223, Mismatches: 41, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
39 4 0.02
40 62 0.28
41 27 0.12
42 3 0.01
43 58 0.26
44 2 0.01
45 8 0.04
46 37 0.17
47 21 0.09
48 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (41 bp):
TCTTCATCACGTATGAGCCGTGTCATACCTTAGACCAGACC
Found at i:43329 original size:130 final size:130
Alignment explanation
Indices: 43032--43464 Score: 568
Period size: 130 Copynumber: 3.3 Consensus size: 130
43022 TAACTCCTAA
* *
43032 AGATGGCCAG-CCGTCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCTTCATCAC
1 AGATGGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGAACTCTTCATCAC
*
43096 GTATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
65 GTATGAGCCGTGTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
43161 T
130 T
* *
43162 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCTC-GACCAGACCTCTTCATCACG
1 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGAACTCTTCATCACG
* *
43226 TAGGAGCCGTGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTT
66 TATGAGCCGTGTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTT
* *** *
43291 AGATGGCCAAGAACTCTTCATCATGTATGAGTAATGTCA-TCCCCTGACCAGAACTCTTCATCAC
1 AGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGAACTCTTCATCAC
* * * *
43355 GTATGAGCCGTGTCAACCTCAGATAACCAGCCGTCCGCAGCAGAGT-GGAACCGTGTTAGCATCA
65 GTATGAGCCGTGTCAACCTTAGATAACCAGCCGTCCTCATCA-CGTAGGAACCGTGTT---ATCA
**
43419 TTCCTAA
126 --CCTTT
* * **
43426 AGATGGCCAGAACTCTTCATCGCGGATGAGAAGTGTCAT
1 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCAT
43465 CCCTCGGCCA
Statistics
Matches: 268, Mismatches: 25, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
129 93 0.35
130 132 0.49
131 3 0.01
133 4 0.01
134 25 0.09
135 11 0.04
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (130 bp):
AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGAACTCTTCATCACG
TATGAGCCGTGTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTT
Found at i:43515 original size:91 final size:93
Alignment explanation
Indices: 43387--43555 Score: 270
Period size: 91 Copynumber: 1.8 Consensus size: 93
43377 ATAACCAGCC
* *
43387 GTCCGCAGCAGAGTGGAACCGTGTTAGCATCATTCCTAAAGATGGCC-AGA-ACTCTTCATCGCG
1 GTCCCCAGCAGAGTGGAACCATGTTAGCATCATTCCTAAAGATGGCCAAGATACTCTTCATCGCG
43450 GATGAGAAGTGTCATCCCTCGGCCAAAT
66 GATGAGAAGTGTCATCCCTCGGCCAAAT
* * *
43478 GTCCCCAGCAGAGTGGAACCATGTTATCATCTTTCCTAAAGATGGCCAAGATTCTCTTCATCGCG
1 GTCCCCAGCAGAGTGGAACCATGTTAGCATCATTCCTAAAGATGGCCAAGATACTCTTCATCGCG
*
43543 GATGAGCAGTGTC
66 GATGAGAAGTGTC
43556 GTCTTCAACA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 43 0.61
92 3 0.04
93 24 0.34
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (93 bp):
GTCCCCAGCAGAGTGGAACCATGTTAGCATCATTCCTAAAGATGGCCAAGATACTCTTCATCGCG
GATGAGAAGTGTCATCCCTCGGCCAAAT
Found at i:45863 original size:16 final size:16
Alignment explanation
Indices: 45827--45857 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45817 AATGCAGACC
45827 ATTTTTCTTTAAAATG
1 ATTTTTCTTTAAAATG
45843 ATTTTTCTTTAAAAT
1 ATTTTTCTTTAAAAT
45858 TGTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTTTCTTTAAAATG
Found at i:49345 original size:851 final size:852
Alignment explanation
Indices: 47704--50210 Score: 5000
Period size: 851 Copynumber: 2.9 Consensus size: 852
47694 AATCTACATC
47704 TGTCTTACTCTATTTTCTCTCATTTTTCTTCTTTTCAACAAATATTGTGATTATTCTTTAAATTG
1 TGTCTTACTCTATTTTCTCTCATTTTTCTTCTTTTCAACAAATATTGTGATTATTCTTTAAATTG
47769 CAGTTTCTTAGGATCTGGGGGGGAGGAAATTAGGAAAAGATACTTAAAGATTTTTCAACATATTA
66 CAGTTTCTTAGGATCTGGGGGGGAGGAAATTAGGAAAAGATACTTAAAGATTTTTCAACATATTA
47834 TAAATGTTCTTTCAGCTGAGAATTTTCTACCTTTCAAAAATGGACCAAGATGAACAAACACCAGC
131 TAAATGTTCTTTCAGCTGAGAATTTTCTACCTTTCAAAAATGGACCAAGATGAACAAACACCAGC
47899 AAATTTGAAAATTGCGTCTTGGAAATCATCATTGAGACCATATCATAGTAAGAATTTCCCCAGAA
196 AAATTTGAAAATTGCGTCTTGGAAATCATCATTGAGACCATATCATAGTAAGAATTTCCCCAGAA
47964 ATTTGTGGTTCGACTAGGACACTATTAAAGGAAGAATTTTGGTATGTGGTGGCAGCTTGCTGC-T
261 ATTTGTGGTTCGACTAGGACACTATTAAAGGAAGAATTTTGGTATGTGGTGGCAGCTTGCTGCTT
48028 TCGGATAAATAAAATGCATTTATCCGGGGGTGGGGGGGAAGGAAGAATTTTGGCCTGAATTTTCC
326 TCGGATAAATAAAATGCATTTATCCGGGGGTGGGGGGGAAGGAAGAATTTTGGCCTGAATTTTCC
48093 TTTTTACAACAAAAATTAACAAATCATGTTAGTAAGGGTTTGTATAATATTTTAAGCTGAGCAGA
391 TTTTTACAACAAAAATTAACAAATCATGTTAGTAAGGGTTTGTATAATATTTTAAGCTGAGCAGA
48158 TAACATTTTAGGTTGAAAATCATGTTAAATTAACCTTAAATTAGACAGACATAGCAAAAATACCC
456 TAACATTTTAGGTTGAAAATCATGTTAAATTAACCTTAAATTAGACAGACATAGCAAAAATACCC
48223 CAGAATCAAACATGACAATGAGAATAAACAAGCTTCACTATCTCATCACAGTACAAAGGCGATTA
521 CAGAATCAAACATGACAATGAGAATAAACAAGCTTCACTATCTCATCACAGTACAAAGGCGATTA
48288 TAGCCAACTAACAACAAGATAACTGATGAAAACAGGATGATTACTTAATTGAGAAACAAAACTTT
586 TAGCCAACTAACAACAAGATAACTGATGAAAACAGGATGATTACTTAATTGAGAAACAAAACTTT
48353 TAAGGTCTCAAACTTAAACTCAACAAGGATAAGCACATTATCTTAAAAAGATCCTTCAATTTCAA
651 TAAGGTCTCAAACTTAAACTCAACAAGGATAAGCACATTATCTTAAAAAGATCCTTCAATTTCAA
48418 AAGCCTGTTCTTCATTGCCCATGTTAAAGTTCGTTCTTCAGCGGTACTGCACAGGGTAAAAAATG
716 AAGCCTGTTCTTCATTGCCCATGTTAAAGTTCGTTCTTCAGCGGTACTGCACAGGGTAAAAAATG
48483 ACACGAATGTTACAATACTGCTCATGATTCATTCCGAAACTTGATTTAATCTTTTAGGTAAAAAT
781 ACACGAATGTTACAATACTGCTCATGATTCATTCCGAAACTTGATTTAATCTTTTAGGTAAAAAT
48548 TTGCATT
846 TTGCATT
48555 TGTCTTACTCTATTTTCTCTCATTTTTCTTCTTTTCAACAAATATTGTGATTATTCTTTAAATTG
1 TGTCTTACTCTATTTTCTCTCATTTTTCTTCTTTTCAACAAATATTGTGATTATTCTTTAAATTG
48620 CAGTTTCTTAGGATCTGGGGGGGAGGAAATTAGGAAAAGATACTTAAAGATTTTTCAACATATTA
66 CAGTTTCTTAGGATCTGGGGGGGAGGAAATTAGGAAAAGATACTTAAAGATTTTTCAACATATTA
48685 TAAATGTTCTTTCAGCTGAGAATTTTCTACCTTTCAAAAATGGACCAAGATGAACAAACACCAGC
131 TAAATGTTCTTTCAGCTGAGAATTTTCTACCTTTCAAAAATGGACCAAGATGAACAAACACCAGC
48750 AAATTTG-AAATTGCGTCTTGGAAATCATCATTGAGACCATATCATAGTAAGAATTTCCCCAGAA
196 AAATTTGAAAATTGCGTCTTGGAAATCATCATTGAGACCATATCATAGTAAGAATTTCCCCAGAA
48814 ATTTGTGGTTCGACTAGGACACTATTAAAGGAAGAATTTTGGTATGTGGTGGCAGCTTGCTGCTT
261 ATTTGTGGTTCGACTAGGACACTATTAAAGGAAGAATTTTGGTATGTGGTGGCAGCTTGCTGCTT
48879 TCGGATAAATAAAATGCATTTATCCGGGGGTGGGGGGGAAGGAAGAATTTTGGCCTGAATTTTCC
326 TCGGATAAATAAAATGCATTTATCCGGGGGTGGGGGGGAAGGAAGAATTTTGGCCTGAATTTTCC
48944 TTTTTACAACAAAAATTAACAAATCATGTTAGTAAGGGTTTGTATAATATTTTAAGCTGAGCAGA
391 TTTTTACAACAAAAATTAACAAATCATGTTAGTAAGGGTTTGTATAATATTTTAAGCTGAGCAGA
49009 TAACATTTTAGGTTGAAAATCATGTTAAATTAACCTTAAATTAGACAGACATAGCAAAAATACCC
456 TAACATTTTAGGTTGAAAATCATGTTAAATTAACCTTAAATTAGACAGACATAGCAAAAATACCC
49074 CAGAATCAAACATGACAATGAGAATAAACAAGCTTCACTATCTCATCACAGTACAAAGGCGATTA
521 CAGAATCAAACATGACAATGAGAATAAACAAGCTTCACTATCTCATCACAGTACAAAGGCGATTA
49139 TAGCCAACTAACAACAAGATAACTGATGAAAACAGGATGATTACTTAATTGAGAAACAAAACTTT
586 TAGCCAACTAACAACAAGATAACTGATGAAAACAGGATGATTACTTAATTGAGAAACAAAACTTT
49204 TAAGGTCTCAAACTTAAACTCAACAAGGATAAGCACATTATCTTAAAAAGATCCTTCAATTTCAA
651 TAAGGTCTCAAACTTAAACTCAACAAGGATAAGCACATTATCTTAAAAAGATCCTTCAATTTCAA
49269 AAGCCTGTTCTTCATTGCCCATGTTAAAGTTCGTTCTTCAGCGGTACTGCACAGGGTAAAAAATG
716 AAGCCTGTTCTTCATTGCCCATGTTAAAGTTCGTTCTTCAGCGGTACTGCACAGGGTAAAAAATG
49334 ACACGAATGTTACAATACTGCTCATGATTCATTCCGAAACTTGATTTAATCTTTTAGGTAAAAAT
781 ACACGAATGTTACAATACTGCTCATGATTCATTCCGAAACTTGATTTAATCTTTTAGGTAAAAAT
49399 TTGCATT
846 TTGCATT
49406 TGTCTTACTCTATTTTCTCTCATTTTTCTTCTTTTCAACAAATATTGTGATTATTCTTTAAATTG
1 TGTCTTACTCTATTTTCTCTCATTTTTCTTCTTTTCAACAAATATTGTGATTATTCTTTAAATTG
49471 CAGTTTCTTAGGATCTGGGGGGGAGGAAATTAGGAAAAGATACTTAAAGATTTTTCAACATATTA
66 CAGTTTCTTAGGATCTGGGGGGGAGGAAATTAGGAAAAGATACTTAAAGATTTTTCAACATATTA
49536 TAAATGTTCTTTCAGCTGAGAATTTTCTACCTTTCAAAAATGGACCAAGATGAACAAACACCAGC
131 TAAATGTTCTTTCAGCTGAGAATTTTCTACCTTTCAAAAATGGACCAAGATGAACAAACACCAGC
49601 AAATTTGAAAATTGCGTCTTGGAAATCATCATTGAGACCATATCATAGTAAGAATTTCCCCAGAA
196 AAATTTGAAAATTGCGTCTTGGAAATCATCATTGAGACCATATCATAGTAAGAATTTCCCCAGAA
49666 ATTTGTGGTTCGACTAGGACACTATTAAAGGAAGAATTTTGGTATGTGGTGGCAGCTTGCTGCTT
261 ATTTGTGGTTCGACTAGGACACTATTAAAGGAAGAATTTTGGTATGTGGTGGCAGCTTGCTGCTT
49731 TCGGATAAATAAAATGCATTTATCCGGGGGTGGGGGGGAAGGAAGAATTTTGGCCTGAATTTTCC
326 TCGGATAAATAAAATGCATTTATCCGGGGGTGGGGGGGAAGGAAGAATTTTGGCCTGAATTTTCC
49796 TTTTTACAACAAAAATTAACAAATCATGTTAGTAAGGGTTTGTATAATATTTTAAGCTGAGCAGA
391 TTTTTACAACAAAAATTAACAAATCATGTTAGTAAGGGTTTGTATAATATTTTAAGCTGAGCAGA
49861 TAACATTTTAGGTTGAAAATCATGTTAAATTAACCTTAAATTAGACAGACATAGCAAAAATACCC
456 TAACATTTTAGGTTGAAAATCATGTTAAATTAACCTTAAATTAGACAGACATAGCAAAAATACCC
49926 CAGAATCAAACATGACAATGAGAATAAACAAGCTTCACTATCTCATCACAGTACAAAGGCGATTA
521 CAGAATCAAACATGACAATGAGAATAAACAAGCTTCACTATCTCATCACAGTACAAAGGCGATTA
49991 TAGCCAACTAACAACAAGATAACTGATGAAAACAGGATGATTACTTAATTGAGAAACAAAACTTT
586 TAGCCAACTAACAACAAGATAACTGATGAAAACAGGATGATTACTTAATTGAGAAACAAAACTTT
50056 TAAGGTCTCAAACTTAAACTCAACAAGGATAAGCACATTATCTTAAAAAGATCCTTCAATTTCAA
651 TAAGGTCTCAAACTTAAACTCAACAAGGATAAGCACATTATCTTAAAAAGATCCTTCAATTTCAA
50121 AAGCCTGTTCTTCATTGCCCATGTTAAAGTTCGTTCTTCAGCGGTACTGCACAGGGTAAAAAATG
716 AAGCCTGTTCTTCATTGCCCATGTTAAAGTTCGTTCTTCAGCGGTACTGCACAGGGTAAAAAATG
50186 ACACGAATGTTACAATACTGCTCAT
781 ACACGAATGTTACAATACTGCTCAT
50211 ACAAAAGAAA
Statistics
Matches: 1654, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
850 120 0.07
851 932 0.56
852 602 0.36
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (852 bp):
TGTCTTACTCTATTTTCTCTCATTTTTCTTCTTTTCAACAAATATTGTGATTATTCTTTAAATTG
CAGTTTCTTAGGATCTGGGGGGGAGGAAATTAGGAAAAGATACTTAAAGATTTTTCAACATATTA
TAAATGTTCTTTCAGCTGAGAATTTTCTACCTTTCAAAAATGGACCAAGATGAACAAACACCAGC
AAATTTGAAAATTGCGTCTTGGAAATCATCATTGAGACCATATCATAGTAAGAATTTCCCCAGAA
ATTTGTGGTTCGACTAGGACACTATTAAAGGAAGAATTTTGGTATGTGGTGGCAGCTTGCTGCTT
TCGGATAAATAAAATGCATTTATCCGGGGGTGGGGGGGAAGGAAGAATTTTGGCCTGAATTTTCC
TTTTTACAACAAAAATTAACAAATCATGTTAGTAAGGGTTTGTATAATATTTTAAGCTGAGCAGA
TAACATTTTAGGTTGAAAATCATGTTAAATTAACCTTAAATTAGACAGACATAGCAAAAATACCC
CAGAATCAAACATGACAATGAGAATAAACAAGCTTCACTATCTCATCACAGTACAAAGGCGATTA
TAGCCAACTAACAACAAGATAACTGATGAAAACAGGATGATTACTTAATTGAGAAACAAAACTTT
TAAGGTCTCAAACTTAAACTCAACAAGGATAAGCACATTATCTTAAAAAGATCCTTCAATTTCAA
AAGCCTGTTCTTCATTGCCCATGTTAAAGTTCGTTCTTCAGCGGTACTGCACAGGGTAAAAAATG
ACACGAATGTTACAATACTGCTCATGATTCATTCCGAAACTTGATTTAATCTTTTAGGTAAAAAT
TTGCATT
Found at i:55841 original size:243 final size:244
Alignment explanation
Indices: 55413--55905 Score: 961
Period size: 243 Copynumber: 2.0 Consensus size: 244
55403 GTTAACTAAT
*
55413 CACTTGCAATGTTATCCAAGTTGAGGTCAGCCTAATTTCAAATTGTAGCGTATCTCAAAGCGTAC
1 CACTTGCAATGTTATCCAAGTTGAGGTCAGCCTAATTTCAAATTCTAGCGTATCTCAAAGCGTAC
55478 ATACACATTTCTCAAGAAGATGAAAGTAATATGAGTACATAATTTCTATAGCAATTAACAGAGGA
66 ATACACATTTCTCAAGAAGATGAAAGTAATATGAGTACATAATTTCTATAGCAATTAACAGAGGA
55543 CAAAGAAACAAGAAGATCAAACCCCCGGAAGCTGAAGTTATGGGAATCGGTCGCAAAGTTATCTA
131 CAAAGAAACAAGAAGATCAAACCCCCGGAAGCTGAAGTTATGGGAATCGGTCGCAAAGTTATCTA
55608 GCATGAATCGGCTCGATTACAAATGCCGATGTGTCTGGAAGAATAAGC-
196 GCATGAATCGGCTCGATTACAAATGCCGATGTGTCTGGAAGAATAAGCA
55656 CACTTGCAATGTTATCCAAGTTGAGGTCAGCCTAATTTCAAATTCTAGCGTATCTCAAAGCGTAC
1 CACTTGCAATGTTATCCAAGTTGAGGTCAGCCTAATTTCAAATTCTAGCGTATCTCAAAGCGTAC
55721 ATACACATTTCTCAAGAAGATGAAAGTAATATGAGTACATAATTTCTATAGCAATTAACAGAGGA
66 ATACACATTTCTCAAGAAGATGAAAGTAATATGAGTACATAATTTCTATAGCAATTAACAGAGGA
55786 CAAAGAAACAAGAAGATCAAACCCCCGGAAGCTGAAGTTATGGGAATCGGTCGCAAAGTTATCTA
131 CAAAGAAACAAGAAGATCAAACCCCCGGAAGCTGAAGTTATGGGAATCGGTCGCAAAGTTATCTA
*
55851 GCATGAATCGGCTCGATTACAAATGCCGATGTGTCTGGAAGCATAAGCA
196 GCATGAATCGGCTCGATTACAAATGCCGATGTGTCTGGAAGAATAAGCA
55900 CACTTG
1 CACTTG
55906 AATCATTTCT
Statistics
Matches: 247, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
243 241 0.98
244 6 0.02
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (244 bp):
CACTTGCAATGTTATCCAAGTTGAGGTCAGCCTAATTTCAAATTCTAGCGTATCTCAAAGCGTAC
ATACACATTTCTCAAGAAGATGAAAGTAATATGAGTACATAATTTCTATAGCAATTAACAGAGGA
CAAAGAAACAAGAAGATCAAACCCCCGGAAGCTGAAGTTATGGGAATCGGTCGCAAAGTTATCTA
GCATGAATCGGCTCGATTACAAATGCCGATGTGTCTGGAAGAATAAGCA
Found at i:57427 original size:15 final size:15
Alignment explanation
Indices: 57407--57437 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57397 AAATTTTGAT
*
57407 AGTCTAGGTAATTAA
1 AGTCTAAGTAATTAA
57422 AGTCTAAGTAATTAA
1 AGTCTAAGTAATTAA
57437 A
1 A
57438 TTATATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (15 bp):
AGTCTAAGTAATTAA
Found at i:59723 original size:12 final size:12
Alignment explanation
Indices: 59694--59725 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
59684 CATCACAAAC
59694 CAAATCATTTAA
1 CAAATCATTTAA
59706 -AAATCATTTAA
1 CAAATCATTTAA
59717 CAAATCATT
1 CAAATCATT
59726 ATGACAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (12 bp):
CAAATCATTTAA
Found at i:67684 original size:64 final size:64
Alignment explanation
Indices: 67606--67754 Score: 237
Period size: 64 Copynumber: 2.3 Consensus size: 64
67596 AAATTGATGT
67606 ATTTGTAAAAGTTGATTTGTTTAATTGATGAAG-AAATAAGAATTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATG-AGTAAATAAGAATTATTTTTTGCTTGTTTAATTG
* *** *
67670 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGTTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGTAAATAAGAATTATTTTTTGCTTGTTTAATTG
67734 ATTTGTAAAAGTTGATTTGTT
1 ATTTGTAAAAGTTGATTTGTT
67755 GTTTTAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
63 1 0.01
64 78 0.99
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.52
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGTAAATAAGAATTATTTTTTGCTTGTTTAATTG
Found at i:69275 original size:18 final size:18
Alignment explanation
Indices: 69252--69288 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
69242 CGAAATTTAT
69252 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
69270 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
69288 A
1 A
69289 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:69722 original size:24 final size:25
Alignment explanation
Indices: 69674--69722 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
69664 CATTATTTTC
*
69674 CAAATAATGTACCTATAACAATGTT
1 CAAATAATGTACCTACAACAATGTT
69699 CAAATAATGTACC-ACAACAATGTT
1 CAAATAATGTACCTACAACAATGTT
69723 TTATTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (25 bp):
CAAATAATGTACCTACAACAATGTT
Found at i:70161 original size:18 final size:18
Alignment explanation
Indices: 70138--70173 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
70128 GAGCCGGTTG
70138 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
70156 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
70174 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:70898 original size:14 final size:15
Alignment explanation
Indices: 70862--70899 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
70852 GAAATCATTG
70862 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
70877 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
70892 AAAAATTA
1 AAAAATTA
70900 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:71093 original size:21 final size:21
Alignment explanation
Indices: 71067--71130 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
71057 TTGCAAAATT
*
71067 AAAATTCGTGTTGCGAATTCA
1 AAAATTCGAGTTGCGAATTCA
*
71088 AAAATT-GAGTTGCGGATTCA
1 AAAATTCGAGTTGCGAATTCA
* * *
71108 GAAA-TCGAGTTTCGAATTTA
1 AAAATTCGAGTTGCGAATTCA
71128 AAA
1 AAA
71131 TTCAGTGTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.03
20 28 0.80
21 6 0.17
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (21 bp):
AAAATTCGAGTTGCGAATTCA
Found at i:71167 original size:20 final size:20
Alignment explanation
Indices: 71142--71188 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
71132 TCAGTGTTGT
*
71142 GAATTTGTAAATCGCAACGC
1 GAATTTGTAAATCACAACGC
**
71162 GAATTTGTAAATCACGTCGC
1 GAATTTGTAAATCACAACGC
71182 GAATTTG
1 GAATTTG
71189 ATTTCTGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (20 bp):
GAATTTGTAAATCACAACGC
Found at i:71862 original size:15 final size:15
Alignment explanation
Indices: 71839--71873 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
71829 AGACAACATC
*
71839 AAAACAATGTCATTT
1 AAAATAATGTCATTT
71854 AAAATAATGTCATTT
1 AAAATAATGTCATTT
*
71869 TAAAT
1 AAAAT
71874 GCCTATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (15 bp):
AAAATAATGTCATTT
Found at i:72693 original size:29 final size:31
Alignment explanation
Indices: 72637--72699 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
72627 GTAATAATCA
* *
72637 TTGTGTTTAGTACTTAAATTATTTTTTTGTT
1 TTGTGTTTAGTACTTAAAGTATTATTTTGTT
72668 TTGT-TTTAGTACTTAAAGT-TTATTTTGTT
1 TTGTGTTTAGTACTTAAAGTATTATTTTGTT
72697 TTG
1 TTG
72700 AAATTATACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 12 0.40
30 14 0.47
31 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.14, T:0.63
Consensus pattern (31 bp):
TTGTGTTTAGTACTTAAAGTATTATTTTGTT
Found at i:75915 original size:2 final size:2
Alignment explanation
Indices: 75908--75934 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
75898 AATTTTTCAG
75908 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
75935 TGTCAATAAA
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:76618 original size:20 final size:19
Alignment explanation
Indices: 76595--76649 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
76585 TGGAATATTC
76595 TGGAGATGTGTGGAACCTTA
1 TGGAGA-GTGTGGAACCTTA
76615 TGGAAGAGTGTGGAACCTTA
1 TGG-AGAGTGTGGAACCTTA
*
76635 TGGAAGAGTATGGAA
1 TGG-AGAGTGTGGAA
76650 GAATATGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.31, C:0.07, G:0.36, T:0.25
Consensus pattern (19 bp):
TGGAGAGTGTGGAACCTTA
Found at i:76646 original size:10 final size:10
Alignment explanation
Indices: 76613--76673 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
76603 TGTGGAACCT
76613 TATGGAAGAG
1 TATGGAAGAG
* ***
76623 TGTGGAACCT
1 TATGGAAGAG
76633 TATGGAAGAG
1 TATGGAAGAG
*
76643 TATGGAAGAA
1 TATGGAAGAG
76653 TATGGAAG-G
1 TATGGAAGAG
*
76662 AAGTGGAAGAG
1 TA-TGGAAGAG
76673 T
1 T
76674 GTAGAGCTTC
Statistics
Matches: 37, Mismatches: 12, Indels: 3
0.71 0.23 0.06
Matches are distributed among these distances:
9 1 0.03
10 35 0.95
11 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.38, T:0.21
Consensus pattern (10 bp):
TATGGAAGAG
Found at i:76656 original size:20 final size:20
Alignment explanation
Indices: 76613--76660 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
76603 TGTGGAACCT
* **
76613 TATGGAAGAGTGTGGAACCT
1 TATGGAAGAGTATGGAACAA
*
76633 TATGGAAGAGTATGGAAGAA
1 TATGGAAGAGTATGGAACAA
76653 TATGGAAG
1 TATGGAAG
76661 GAAGTGGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.35, T:0.23
Consensus pattern (20 bp):
TATGGAAGAGTATGGAACAA
Done.