Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 274 of 292
Found at i:78712817 original size:18 final size:18
Alignment explanation
Indices: 78712794--78712835 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
78712784 TTTAAAATGC
78712794 AATTAATTTAAAATT-TTT
1 AATTAA-TTAAAATTATTT
*
78712812 AATTAATTAAATTTATTT
1 AATTAATTAAAATTATTT
78712830 AATTAA
1 AATTAA
78712836 AAACTTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAATTAAAATTATTT
Found at i:78723960 original size:3 final size:3
Alignment explanation
Indices: 78723952--78723991 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
78723942 TTTTACTTCT
78723952 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
78723992 ATAACAACGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:78724518 original size:30 final size:31
Alignment explanation
Indices: 78724484--78724542 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
78724474 ATAACTGGAC
**
78724484 CTAAATTTTTAAATTTA-AAAAATAAAAAAA
1 CTAAATTCCTAAATTTATAAAAATAAAAAAA
*
78724514 CTAAATTCCTAAATTTATAAATATAAAAA
1 CTAAATTCCTAAATTTATAAAAATAAAAA
78724543 TATAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (31 bp):
CTAAATTCCTAAATTTATAAAAATAAAAAAA
Found at i:78727783 original size:20 final size:20
Alignment explanation
Indices: 78727758--78727803 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
78727748 ATGGAAGTAT
78727758 GGTGTTTGCTATTTGATTGC
1 GGTGTTTGCTATTTGATTGC
78727778 GGTGTTTGCTATTTGATTGC
1 GGTGTTTGCTATTTGATTGC
*
78727798 AGTGTT
1 GGTGTT
78727804 AGAAACATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.09, G:0.30, T:0.50
Consensus pattern (20 bp):
GGTGTTTGCTATTTGATTGC
Found at i:78731240 original size:15 final size:14
Alignment explanation
Indices: 78731212--78731275 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 14
78731202 ATAACTTCTT
**
78731212 TTTTTTAATTATTA
1 TTTTTTAAAAATTA
78731226 TTTATTTAAAAATTA
1 TTT-TTTAAAAATTA
78731241 TTTTTTCAAAAAAGTTA
1 TTTTTT--AAAAA-TTA
*
78731258 TTCTTTAAAAATTA
1 TTTTTTAAAAATTA
78731272 TTTT
1 TTTT
78731276 ATCACATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 12 0.29
15 17 0.40
16 5 0.12
17 8 0.19
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (14 bp):
TTTTTTAAAAATTA
Found at i:78731267 original size:16 final size:16
Alignment explanation
Indices: 78731233--78731273 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
78731223 TTATTTATTT
*
78731233 AAAAATTATTTTTTCA
1 AAAAATTATTCTTTCA
78731249 AAAAAGTTATTCTTT--
1 AAAAA-TTATTCTTTCA
78731264 AAAAATTATT
1 AAAAATTATT
78731274 TTATCACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 5 0.22
17 8 0.35
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (16 bp):
AAAAATTATTCTTTCA
Found at i:78731806 original size:31 final size:29
Alignment explanation
Indices: 78731768--78731833 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 29
78731758 ATTTCTTTAA
*
78731768 ATGTATATGATTGAATCAAAATTAAAATTTT
1 ATGTATATAATTGAAT-AAAATTAAAA-TTT
** *
78731799 ATGTATATAATTTCATTAAATTAAAATTT
1 ATGTATATAATTGAATAAAATTAAAATTT
78731828 ATGTAT
1 ATGTAT
78731834 CAAATTATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 9 0.29
30 9 0.29
31 13 0.42
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (29 bp):
ATGTATATAATTGAATAAAATTAAAATTT
Found at i:78731839 original size:29 final size:32
Alignment explanation
Indices: 78731786--78731866 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 32
78731776 GATTGAATCA
78731786 AAATTAAAATTTTATGTATATAATT-T-CATT
1 AAATTAAAATTTTATGTATATAATTATACATT
78731816 AAATTAAAA-TTTATGTATCA-AATTATACATT
1 AAATTAAAATTTTATGTAT-ATAATTATACATT
* * *
78731847 -AACTCAAATTTCATGTATAT
1 AAATTAAAATTTTATGTATAT
78731867 TTTTATGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
29 13 0.30
30 18 0.42
31 12 0.28
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (32 bp):
AAATTAAAATTTTATGTATATAATTATACATT
Found at i:78737538 original size:19 final size:17
Alignment explanation
Indices: 78737506--78737540 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
78737496 GAATCGTCAT
78737506 TTTAAAATTTTTAAATA
1 TTTAAAATTTTTAAATA
78737523 TTTAATAATATTTTAAAT
1 TTTAA-AAT-TTTTAAAT
78737541 GATGGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAAATTTTTAAATA
Found at i:78740341 original size:18 final size:17
Alignment explanation
Indices: 78740301--78740363 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
78740291 ATTAAATCAA
*
78740301 TTTTATTTTTTTGTAAT
1 TTTTATTTTTTTGAAAT
78740318 TTTTATTTTTTT-AAAT
1 TTTTATTTTTTTGAAAT
* * *
78740334 ATTCTTATTTTATGGAATT
1 -TT-TTATTTTTTTGAAAT
78740353 TTTTATTTTTT
1 TTTTATTTTTT
78740364 AATTAATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 3 0.08
17 22 0.58
18 10 0.26
19 3 0.08
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTTTGAAAT
Found at i:78743920 original size:30 final size:30
Alignment explanation
Indices: 78743885--78743956 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 30
78743875 TCAAATGAAT
78743885 ATTTTATGTATAAAATTACACA-AAATTAA
1 ATTTTATGTATAAAATTACACATAAATTAA
* *
78743914 ATTTT-TATATAAAATTGCACATTAAATTAA
1 ATTTTATGTATAAAATTACACA-TAAATTAA
*
78743944 AATTTATGTATAA
1 ATTTTATGTATAA
78743957 TTTTGAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.39
29 5 0.14
30 11 0.31
31 6 0.17
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (30 bp):
ATTTTATGTATAAAATTACACATAAATTAA
Found at i:78758209 original size:2 final size:2
Alignment explanation
Indices: 78758204--78758240 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
78758194 TTAAAGTTTC
*
78758204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78758241 AGCATGAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78759360 original size:75 final size:74
Alignment explanation
Indices: 78759239--78759410 Score: 216
Period size: 75 Copynumber: 2.4 Consensus size: 74
78759229 TCCATGGCAA
** *
78759239 AGTGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTA
1 AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-
*
78759299 T-CCATACTG
65 TCCCATACCG
78759308 AGCTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
1 AG-TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
78759373 TCCCATACCG
65 TCCCATACCG
*
78759383 AGT-TAAAAATGTAGGTATGGTATT-TCAA
1 AGTGT-GAAATGTAGGTATGGTATTATCAA
78759411 TGAGGAAAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
69 2 0.02
70 18 0.20
73 9 0.10
74 20 0.22
75 41 0.46
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (74 bp):
AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTT
CCCATACCG
Found at i:78759379 original size:35 final size:35
Alignment explanation
Indices: 78759244--78759408 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
78759234 GGCAAAGTGT
* **
78759244 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
78759279 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
78759314 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
78759354 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
78759389 -AAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
78759409 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
34 19 0.16
35 66 0.57
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:78766341 original size:75 final size:75
Alignment explanation
Indices: 78766222--78766393 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
78766212 CATGGCAAAG
** *
78766222 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
78766281 CCATACTGAGC
65 CCATACCGAGC
78766292 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
78766357 CATACCGAGT
66 CATACCGAGC
***
78766367 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
78766394 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:78766360 original size:35 final size:35
Alignment explanation
Indices: 78766225--78766391 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
78766215 GGCAAAGTGT
* **
78766225 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
78766260 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
78766295 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
78766335 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
78766371 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
78766392 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:78766383 original size:36 final size:35
Alignment explanation
Indices: 78766321--78766391 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
78766311 ATTATCAAAT
* *
78766321 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
78766356 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
78766392 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:78768255 original size:21 final size:20
Alignment explanation
Indices: 78768231--78768282 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
78768221 TTATGCTACA
*
78768231 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTAAATT
*
78768252 TCAGGATTTTATCCTAAATT
1 TCAGTATTTTATCCTAAATT
78768272 TCAGTATTTTA
1 TCAGTATTTTA
78768283 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (20 bp):
TCAGTATTTTATCCTAAATT
Found at i:78768328 original size:20 final size:20
Alignment explanation
Indices: 78768300--78768351 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
78768290 TTTAATTTTT
*
78768300 TTCAGGATAAAATCTTGAAA
1 TTCAGGATAAAATCCTGAAA
*
78768320 TTTAGGATAAAATCCTGAAA
1 TTCAGGATAAAATCCTGAAA
78768340 TTCAGGATAAAA
1 TTCAGGATAAAA
78768352 ATACTAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (20 bp):
TTCAGGATAAAATCCTGAAA
Found at i:78778683 original size:3 final size:3
Alignment explanation
Indices: 78778675--78778704 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
78778665 CTTTATACCT
78778675 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
78778705 CACAGAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:78782986 original size:17 final size:16
Alignment explanation
Indices: 78782959--78783015 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
78782949 TTTGTTCTTG
* *
78782959 TTTAATTATTTAAATA
1 TTTATTTATTTAATTA
78782975 TTTGATTTATTTAATTA
1 TTT-ATTTATTTAATTA
*
78782992 TTTTTTTATTTTAATTA
1 TTTATTTA-TTTAATTA
78783009 TTTATTT
1 TTTATTT
78783016 TAATTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.20
17 28 0.80
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTATTTATTTAATTA
Found at i:78782992 original size:8 final size:8
Alignment explanation
Indices: 78782959--78783012 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
78782949 TTTGTTCTTG
78782959 TTTAATTA
1 TTTAATTA
*
78782967 TTTAAATA
1 TTTAATTA
*
78782975 TTTGATTTA
1 TTT-AATTA
78782984 TTTAATTA
1 TTTAATTA
**
78782992 TTTTTTTA
1 TTTAATTA
78783000 TTTTAATTA
1 -TTTAATTA
78783009 TTTA
1 TTTA
78783013 TTTTAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
8 24 0.67
9 12 0.33
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
TTTAATTA
Found at i:78783014 original size:13 final size:13
Alignment explanation
Indices: 78782996--78783020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78782986 TAATTATTTT
78782996 TTTATTTTAATTA
1 TTTATTTTAATTA
78783009 TTTATTTTAATT
1 TTTATTTTAATT
78783021 TTTTTATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTTAATTA
Found at i:78787362 original size:15 final size:16
Alignment explanation
Indices: 78787340--78787377 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
78787330 TCAATTAATC
78787340 TTAATTAAATT-AAAT
1 TTAATTAAATTAAAAT
*
78787355 TTACTT-AATTAAAAT
1 TTAATTAAATTAAAAT
78787370 TTAATTAA
1 TTAATTAA
78787378 CCTCTCACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 4 0.21
15 14 0.74
16 1 0.05
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATTAAATTAAAAT
Found at i:78791478 original size:24 final size:24
Alignment explanation
Indices: 78791432--78791477 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
78791422 CCATCATTTT
*
78791432 AAAACATTTGTTTATCTTTAAAAG
1 AAAACATTAGTTTATCTTTAAAAG
*
78791456 AAAAC-TTAGTTTATTTTTAAAA
1 AAAACATTAGTTTATCTTTAAAA
78791478 AAATTCATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (24 bp):
AAAACATTAGTTTATCTTTAAAAG
Found at i:78794580 original size:52 final size:52
Alignment explanation
Indices: 78794519--78794622 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
78794509 ATGGTAATCA
* *
78794519 AGCCATTAACAATAAATGAGGCCGCATATATTTAATAAAAATCTAAGATTTT
1 AGCCATTAACAAGAAATGAGGCCGCATATATTTAATAAAAATCTAAAATTTT
* *
78794571 AGCCATTAACAAGAAATGAGGCCGTATATATTTAATAAAAATTTAAAATTTT
1 AGCCATTAACAAGAAATGAGGCCGCATATATTTAATAAAAATCTAAAATTTT
78794623 TATGTTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (52 bp):
AGCCATTAACAAGAAATGAGGCCGCATATATTTAATAAAAATCTAAAATTTT
Found at i:78794822 original size:3 final size:3
Alignment explanation
Indices: 78794814--78794874 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
78794804 AAATAGACAT
* * *
78794814 TTA TTA TTA TAA TTA TTAA TTA TTA TTA TTG TT- TATA TTA TTA TTT
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA TTA
78794860 TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA T
78794875 GGAATAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
2 3 0.06
3 42 0.86
4 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:78794854 original size:15 final size:15
Alignment explanation
Indices: 78794813--78794869 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
78794803 TAAATAGACA
*
78794813 TTTATTATTATAATT
1 TTTATTATTATTATT
*
78794828 ATTAATTATTATTATT
1 -TTTATTATTATTATT
78794844 GTTTA-TATTATTATT
1 -TTTATTATTATTATT
78794859 TTTATTATTAT
1 TTTATTATTAT
78794870 ATTATGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
14 4 0.11
15 16 0.44
16 16 0.44
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:78796039 original size:46 final size:46
Alignment explanation
Indices: 78795989--78796077 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
78795979 ATGTGTAATG
*
78795989 ATTGAACTTGAAATGTG-A-TTGAAATAAAAGTGAAATTGAATTGTAT
1 ATTGAA-TTGAAA-GTGAATTTAAAATAAAAGTGAAATTGAATTGTAT
**
78796035 ATTGAATTGAAAGTGAATTTAAAATGGAAGTGAAATTGAATTG
1 ATTGAATTGAAAGTGAATTTAAAATAAAAGTGAAATTGAATTG
78796078 AGAATTGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 3 0.08
45 7 0.18
46 28 0.74
ACGTcount: A:0.44, C:0.01, G:0.21, T:0.34
Consensus pattern (46 bp):
ATTGAATTGAAAGTGAATTTAAAATAAAAGTGAAATTGAATTGTAT
Found at i:78796046 original size:23 final size:24
Alignment explanation
Indices: 78796016--78796077 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
78796006 ATTGAAATAA
* *
78796016 AAGTGAAATTGAATTGT-ATATTG
1 AAGTGAAATTGAATTGTAAAATGG
* *
78796039 AATTGAAAGTGAATT-TAAAATGG
1 AAGTGAAATTGAATTGTAAAATGG
78796062 AAGTGAAATTGAATTG
1 AAGTGAAATTGAATTG
78796078 AGAATTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.34
Consensus pattern (24 bp):
AAGTGAAATTGAATTGTAAAATGG
Found at i:78796085 original size:12 final size:11
Alignment explanation
Indices: 78795989--78796086 Score: 72
Period size: 11 Copynumber: 8.5 Consensus size: 11
78795979 ATGTGTAATG
78795989 ATTGAACTTGAA
1 ATTGAA-TTGAA
78796001 ATGTG-ATTGAA
1 AT-TGAATTGAA
** *
78796012 ATAAAAGTGAA
1 ATTGAATTGAA
*
78796023 ATTGAATTGTAT
1 ATTGAATTG-AA
78796035 ATTGAATTGAA
1 ATTGAATTGAA
* *
78796046 AGTGAATTTAAA
1 ATTGAA-TTGAA
* *
78796058 ATGGAAGTGAA
1 ATTGAATTGAA
78796069 ATTGAATTGAGA
1 ATTGAATTGA-A
78796081 ATTGAA
1 ATTGAA
78796087 AATCCTATTA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
11 35 0.54
12 28 0.43
13 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.21, T:0.33
Consensus pattern (11 bp):
ATTGAATTGAA
Found at i:78803334 original size:7 final size:7
Alignment explanation
Indices: 78803246--78803334 Score: 55
Period size: 7 Copynumber: 13.3 Consensus size: 7
78803236 TTGATATAAA
78803246 AATATAT
1 AATATAT
*
78803253 ATTATAT
1 AATATAT
*
78803260 ATTATATT
1 AATATA-T
*
78803268 AA-CT-T
1 AATATAT
*
78803273 AATATTT
1 AATATAT
78803280 AAGTAT-T
1 AA-TATAT
78803287 AATATAT
1 AATATAT
78803294 AATATAT
1 AATATAT
*
78803301 TATAT-T
1 AATATAT
*
78803307 ATTATAT
1 AATATAT
*
78803314 TATATAT
1 AATATAT
78803321 -A-ATAT
1 AATATAT
78803326 AATATAT
1 AATATAT
78803333 AA
1 AA
78803335 AACATAAGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 7 0.11
6 10 0.15
7 43 0.66
8 5 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
AATATAT
Found at i:78808493 original size:25 final size:27
Alignment explanation
Indices: 78808429--78808493 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
78808419 GGTAGAGGTC
*
78808429 AAAAAGAATGAAATAATAACATCAGAAT
1 AAAAA-AATAAAATAATAACATCAGAAT
* *
78808457 -GATAAATAAAAATAATAA-A-CAGAAT
1 AAAAAAAT-AAAATAATAACATCAGAAT
78808482 AAAAAAATAAAA
1 AAAAAAATAAAA
78808494 GAGTTATGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
25 10 0.33
26 9 0.30
27 11 0.37
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.17
Consensus pattern (27 bp):
AAAAAAATAAAATAATAACATCAGAAT
Found at i:78810682 original size:6 final size:6
Alignment explanation
Indices: 78810673--78810697 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
78810663 TATATATATA
78810673 TATTTC TATTTC TATTTC TATTTC T
1 TATTTC TATTTC TATTTC TATTTC T
78810698 TTCTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTC
Found at i:78817046 original size:35 final size:37
Alignment explanation
Indices: 78817007--78817086 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 37
78816997 ATAATTTACA
78817007 AATAAAATAT-ATACAAATC-ATATAGTAA-ATA-ATAT
1 AATAAAATATAATA-AAATCTATATA-TAATATATATAT
*
78817042 AATAATATATAATAAAATCTATATATAATATATATAT
1 AATAAAATATAATAAAATCTATATATAATATATATAT
78817079 ATATAAAA
1 A-ATAAAA
78817087 GATAGATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
35 17 0.45
36 11 0.29
37 5 0.13
38 5 0.13
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (37 bp):
AATAAAATATAATAAAATCTATATATAATATATATAT
Found at i:78817055 original size:15 final size:15
Alignment explanation
Indices: 78817035--78817084 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
78817025 CATATAGTAA
78817035 ATAATATAATAATAT
1 ATAATATAATAATAT
* *
78817050 ATAATAAAATCTATAT
1 ATAATATAAT-AATAT
78817066 ATAATAT-ATATATAT
1 ATAATATAATA-ATAT
78817081 ATAA
1 ATAA
78817085 AAGATAGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATATAATAATAT
Found at i:78817165 original size:20 final size:20
Alignment explanation
Indices: 78817139--78817199 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
78817129 AAAATGCATA
78817139 AATAAAATATAATGAAATAT
1 AATAAAATATAATGAAATAT
*
78817159 GATAAAA-ATATATGAAATAAT
1 AATAAAATATA-ATGAAAT-AT
78817180 AATAATAATATAA-GAAATAT
1 AATAA-AATATAATGAAATAT
78817200 TTTTATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 3 0.09
20 15 0.43
21 11 0.31
22 3 0.09
23 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AATAAAATATAATGAAATAT
Found at i:78817166 original size:21 final size:21
Alignment explanation
Indices: 78817142--78817199 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
78817132 ATGCATAAAT
*
78817142 AAAATATAATGAAATATGATA
1 AAAATATAATGAAATATAATA
78817163 AAAATAT-ATGAAATAATAATA
1 AAAATATAATGAAAT-ATAATA
*
78817184 ATAATATAA-GAAATAT
1 AAAATATAATGAAATAT
78817200 TTTTATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 9 0.27
21 23 0.70
22 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAATATAATGAAATATAATA
Found at i:78817233 original size:17 final size:15
Alignment explanation
Indices: 78817207--78817248 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 15
78817197 TATTTTTATA
78817207 TAAAAATATAGTAATG
1 TAAAAATATA-TAATG
78817223 TAAATAATATATAA--
1 TAAA-AATATATAATG
78817237 TAAAAATATATA
1 TAAAAATATATA
78817249 CCATATAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
16 7 0.28
17 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
TAAAAATATATAATG
Found at i:78819147 original size:86 final size:87
Alignment explanation
Indices: 78818881--78819325 Score: 247
Period size: 88 Copynumber: 5.1 Consensus size: 87
78818871 CCAAATCATT
* * * *
78818881 TTGGATCTACTTTAGTAAAATCATCTGAAGGTTAGATCTTGCTATGTATCTGCTC-TCCGTCGAA
1 TTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATC-TGCTATGTGTCTGCTCTTCCGTCGAA
* *
78818945 ATGGAAATGCCAGGTCTGTTATC
65 ATGGAGATGCCAGATCTGTTATC
** * * * * * * * * *
78818968 TTGGATCTGCTTTGGTGTGAAAACATCCGAAAGTCAAATCTGCTATGTCT-TCGATTTGTTCC-T
1 TTGGATCTGCTTCAGTAT--AATCATCTGAAGGTTAGATCTGCTATGTGTCT-G--CTCTTCCGT
* *** *
78819031 TGTAAACACAAGAATG-CAAATC----ATC
61 CG-AAA-TGGAG-ATGCCAGATCTGTTATC
78819056 TTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCT-TTCCGTCGAAA
1 TTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTTCCGTCGAAA
*
78819120 TGGAGATGTCAGATCTGTTATC
66 TGGAGATGCCAGATCTGTTATC
** ** * * ** * * * * *
78819142 TTGGATCTATTTTGGTGTGAGAACATCCAAAAGTCAGATCTGCTATGTCT-TCGATTTGTTCC-T
1 TTGGATCTGCTTCAGTAT-A-ATCATCTGAAGGTTAGATCTGCTATGTGTCT-G--CTCTTCCGT
* *** *
78819205 TGTAAACACAAGAATGCCAAATC----ATC
61 CG-AAA-TGGAG-ATGCCAGATCTGTTATC
*
78819231 TTGGATCTGCTTCAGTATAATCACCTGAAGGTTAGATCTGCTATGTGTCTGCTCTT-CGTCGAAA
1 TTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTTCCGTCGAAA
78819295 TGGAGATGCCAGATCTGTTATC
66 TGGAGATGCCAGATCTGTTATC
78819317 TTGGATCTG
1 TTGGATCTG
78819326 TTTTGGTGTG
Statistics
Matches: 256, Mismatches: 71, Indels: 63
0.66 0.18 0.16
Matches are distributed among these distances:
81 3 0.01
82 16 0.06
83 9 0.04
84 7 0.03
85 5 0.02
86 53 0.21
87 41 0.16
88 54 0.21
89 31 0.12
90 6 0.02
91 13 0.05
92 7 0.03
93 11 0.04
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (87 bp):
TTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTTCCGTCGAAA
TGGAGATGCCAGATCTGTTATC
Found at i:78819147 original size:174 final size:175
Alignment explanation
Indices: 78818821--78819554 Score: 1094
Period size: 175 Copynumber: 4.2 Consensus size: 175
78818811 TAAACACGTG
* * * ** * * *
78818821 AAAGTCAAATCTGCTGTGTCTTTGATTTACTCCTTCTGAACACAATG-ATGCCAAATCATTTTGG
1 AAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAA-GAATGCCAAATCATCTTGG
* * *
78818885 ATCTACTTTAGTAAAATCATCTGAAGGTTAGATCTTGCTATGTATCTGCTCTCCGTCGAAATGGA
65 ATCTACTTCAGTATAATCATCTGAAGGTTAGATC-TGCTATGTGTCTGCTCTCCGTCGAAATGGA
* * *
78818950 AATGCCAGGTCTGTTATCTTGGATCTGCTTTGGTGTGAAAACATCCG
129 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAAAACATCCA
*
78818997 AAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATG-CAAATCATCTTGGA
1 AAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
* *
78819061 TCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTTTCCGTCGAAATGGAGA
66 TCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAAATGGAGA
* ** *
78819126 TGTCAGATCTGTTATCTTGGATCTATTTTGGTGTGAGAACATCCA
131 TGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAAAACATCCA
78819171 AAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
1 AAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
* * *
78819236 TCTGCTTCAGTATAATCACCTGAAGGTTAGATCTGCTATGTGTCTGCTCTTCGTCGAAATGGAGA
66 TCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAAATGGAGA
* *
78819301 TGCCAGATCTGTTATCTTGGATCTGTTTTGGTGTGAGAACATCCA
131 TGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAAAACATCCA
* * * * *
78819346 AAAGTCAGATTTGCCATATCTTCGATTTTTTCCTTGTAAACACAAGAATGTCAAATCATCTTGGA
1 AAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
* * * *
78819411 TCTACTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTTTGCTCTCCGTTGAAATGGAGA
66 TCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAAATGGAGA
*
78819476 TGCCAGATCTATTATCTTGGATCTGCTTTGGTGTGAAAACATCCA
131 TGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAAAACATCCA
* *
78819521 AAAGTCAGACCTGCTATGTCTTCGATTTGCTCCT
1 AAAGTCAGATCTGCTATGTCTTCGATTTGTTCCT
78819555 CGTCGAAGAT
Statistics
Matches: 510, Mismatches: 46, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
174 117 0.23
175 351 0.69
176 42 0.08
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (175 bp):
AAAGTCAGATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGA
TCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAAATGGAGA
TGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAAAACATCCA
Found at i:78825089 original size:146 final size:146
Alignment explanation
Indices: 78824825--78825118 Score: 570
Period size: 146 Copynumber: 2.0 Consensus size: 146
78824815 CTATAATGTC
78824825 CTCCTCCGCATTGATGGTTATTAACCGTCCATCGGTCACTAGTTTCAATTTCTGGTGCAACGACG
1 CTCCTCCGCATTGATGGTTATTAACCGTCCATCGGTCACTAGTTTCAATTTCTGGTGCAACGACG
*
78824890 AGGGCACCGCTCCTGCTGAGTGTATCTATGGCCTGCCTAATAAGCAATTGTAGGAAGGCTTGATA
66 AGGGCACCGCTCCTGCTGAGTGTATCCATGGCCTGCCTAATAAGCAATTGTAGGAAGGCTTGATA
78824955 TTAATCACTAAGAAAT
131 TTAATCACTAAGAAAT
78824971 CTCCTCCGCATTGATGGTTATTAACCGTCCATCGGTCACTAGTTTCAATTTCTGGTGCAACGACG
1 CTCCTCCGCATTGATGGTTATTAACCGTCCATCGGTCACTAGTTTCAATTTCTGGTGCAACGACG
*
78825036 AGGGCACCGCTCCTGCTGAGTGTATCCATGGCCTGCCTAATAAGCCATTGTAGGAAGGCTTGATA
66 AGGGCACCGCTCCTGCTGAGTGTATCCATGGCCTGCCTAATAAGCAATTGTAGGAAGGCTTGATA
78825101 TTAATCACTAAGAAAT
131 TTAATCACTAAGAAAT
78825117 CT
1 CT
78825119 ACTTCGTATA
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 146 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (146 bp):
CTCCTCCGCATTGATGGTTATTAACCGTCCATCGGTCACTAGTTTCAATTTCTGGTGCAACGACG
AGGGCACCGCTCCTGCTGAGTGTATCCATGGCCTGCCTAATAAGCAATTGTAGGAAGGCTTGATA
TTAATCACTAAGAAAT
Found at i:78829787 original size:31 final size:32
Alignment explanation
Indices: 78829749--78829828 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 32
78829739 TTGGGTTAGG
* *
78829749 ACTAAAATT-TCAAATTTTGAAAAGTATAGAA
1 ACTAAAATTATCAAATTTTAAAAAGTACAGAA
* *
78829780 ACTAAAATTGA-CCAA-TTTAAAAAGTACAGGA
1 ACTAAAATT-ATCAAATTTTAAAAAGTACAGAA
78829811 ACTAAAATTAATCAAATT
1 ACTAAAATT-ATCAAATT
78829829 AAACTATAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
31 32 0.82
32 6 0.15
33 1 0.03
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.29
Consensus pattern (32 bp):
ACTAAAATTATCAAATTTTAAAAAGTACAGAA
Found at i:78836275 original size:38 final size:37
Alignment explanation
Indices: 78836217--78836292 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 37
78836207 ATACTTAAAA
* * *
78836217 AGAAAATTTAATGAGTCATACCTTCCCATAAATATTCT
1 AGAAAATTCAACGAGCCATACCTTCCC-TAAATATTCT
78836255 AGAAAATTCAACGAGCCATACCTTCCCTAAATATTCT
1 AGAAAATTCAACGAGCCATACCTTCCCTAAATATTCT
78836292 A
1 A
78836293 ACATATGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 11 0.31
38 24 0.69
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (37 bp):
AGAAAATTCAACGAGCCATACCTTCCCTAAATATTCT
Found at i:78837860 original size:16 final size:15
Alignment explanation
Indices: 78837839--78837879 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
78837829 TCCATATTGA
*
78837839 ATTTTTTATATTATTT
1 ATTTTTTATA-TAATT
*
78837855 ATTTTTAATATAATT
1 ATTTTTTATATAATT
78837870 ATTTTTTATA
1 ATTTTTTATA
78837880 ATTTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTATATAATT
Found at i:78838029 original size:25 final size:25
Alignment explanation
Indices: 78837999--78838054 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
78837989 TACTTAACAT
78837999 TTTAAAAATTTTCATTCAAACATAC
1 TTTAAAAATTTTCATTCAAACATAC
78838024 TTTAAAAATTTTCATTCAAACATAC
1 TTTAAAAATTTTCATTCAAACATAC
*
78838049 TCTAAA
1 TTTAAA
78838055 TTTTTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (25 bp):
TTTAAAAATTTTCATTCAAACATAC
Found at i:78838099 original size:23 final size:23
Alignment explanation
Indices: 78838056--78838099 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
78838046 TACTCTAAAT
**
78838056 TTTTTTTTATATTAGGTTATAGA
1 TTTTTTTTATATTAAATTATAGA
78838079 TTTTTTTTAT-TTAAATATATA
1 TTTTTTTTATATTAAAT-TATA
78838100 TATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (23 bp):
TTTTTTTTATATTAAATTATAGA
Found at i:78839554 original size:21 final size:21
Alignment explanation
Indices: 78839528--78839570 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
78839518 CATCTTGGTT
78839528 AATGTCATATGTTAGTCCTAC
1 AATGTCATATGTTAGTCCTAC
78839549 AATGTCATATGTTAGTCCTAC
1 AATGTCATATGTTAGTCCTAC
78839570 A
1 A
78839571 CTGTATACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (21 bp):
AATGTCATATGTTAGTCCTAC
Found at i:78842410 original size:20 final size:20
Alignment explanation
Indices: 78842385--78842425 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
78842375 TTGTTCTATC
78842385 AAATTATAATT-TATATTATT
1 AAATTATAATTAT-TATTATT
*
78842405 AAATTATGATTATTATTATT
1 AAATTATAATTATTATTATT
78842425 A
1 A
78842426 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AAATTATAATTATTATTATT
Found at i:78842724 original size:13 final size:14
Alignment explanation
Indices: 78842706--78842752 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
78842696 TTATTAAGTT
78842706 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
78842719 AATAAAAGAAATGA
1 AATAAAATAAAAGA
78842733 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
*
78842746 AACAAAA
1 AATAAAA
78842753 CAAAGTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.13
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:78846958 original size:42 final size:42
Alignment explanation
Indices: 78846909--78847065 Score: 253
Period size: 42 Copynumber: 3.7 Consensus size: 42
78846899 CTTCGTTTTC
** * * *
78846909 TCGATGCCATAGTTCAACTATGGTCTTATACATCTTCATATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-A
78846952 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
78846993 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
78847035 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
78847066 GAATTAAATA
Statistics
Matches: 108, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
41 2 0.02
42 105 0.97
43 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
Found at i:78847139 original size:47 final size:46
Alignment explanation
Indices: 78847036--78847161 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 46
78847026 ATTCATATAT
* * * ** *
78847036 CGATGCCATAGCCCAGCTATGGTCTTACACGAATTAAATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCAAATATCACAC
* * *
78847082 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCAAATATCACAC
*
78847129 CGATGCCATATCCTAGATATGGTCTTATACGAA
1 CGATGCCATATCCCAGATATGGTCTTATACGAA
78847162 AATCACTTGT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 28 0.42
47 39 0.58
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCAAATATCACAC
Found at i:78847219 original size:31 final size:31
Alignment explanation
Indices: 78847184--78847301 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
78847174 CTTGTCACTT
*
78847184 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
78847215 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
78847246 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
78847277 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
78847302 TGTCATTTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:78847381 original size:50 final size:51
Alignment explanation
Indices: 78847277--78847405 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
78847267 CACTGATCAG
* * *
78847277 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTATCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTATCATTGATCAGATAAGT
* *
78847328 GTAGCCGAAGCTATTACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTATCATTGATCAGATAAGT
78847378 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
78847406 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTATCATTGATCAGATAAGT
Found at i:78849916 original size:19 final size:20
Alignment explanation
Indices: 78849889--78849944 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
78849879 TGAATTATGG
*
78849889 AATATTGAATATTGTT-TGA
1 AATACTGAATATTGTTGTGA
*
78849908 AATACTGAAT-TAGATTGTGA
1 AATACTGAATATTG-TTGTGA
*
78849928 AGTTACTGAATATTGTT
1 A-ATACTGAATATTGTT
78849945 ATGTGTACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 2 0.07
19 11 0.38
20 4 0.14
21 10 0.34
22 2 0.07
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (20 bp):
AATACTGAATATTGTTGTGA
Found at i:78850286 original size:45 final size:45
Alignment explanation
Indices: 78850183--78850288 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
78850173 CGACTACTGT
* *
78850183 TACTGTTACAGTTACTGTTATCGATTCGACACTTTGTGTGTCGAA
1 TACTGATACTGTTACTGTTATCGATTCGACACTTTGTGTGTCGAA
* *
78850228 TACT-ATTATTGTTACTGTTA-CAGATTC-AGCACTTTGTGTGTTGAA
1 TACTGA-TACTGTTACTGTTATC-GATTCGA-CACTTTGTGTGTCGAA
78850273 TACTGATACTGTTACT
1 TACTGATACTGTTACT
78850289 TCTACTGTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
44 2 0.04
45 49 0.94
46 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGATACTGTTACTGTTATCGATTCGACACTTTGTGTGTCGAA
Found at i:78863401 original size:3 final size:3
Alignment explanation
Indices: 78863360--78863451 Score: 95
Period size: 3 Copynumber: 30.7 Consensus size: 3
78863350 TGAATAAAGC
*
78863360 AAT ATAT AA- AAT CAAT AA- AACT AAT AAA AAT AA- AAT AAT AAT AA-
1 AAT A-AT AAT AAT -AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
78863404 AGA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 A-AT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
78863450 AA
1 AA
78863452 AAGGAAAAGA
Statistics
Matches: 78, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
2 8 0.10
3 59 0.76
4 11 0.14
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:78864396 original size:18 final size:18
Alignment explanation
Indices: 78864375--78864592 Score: 71
Period size: 18 Copynumber: 11.7 Consensus size: 18
78864365 GAACAATTAT
*
78864375 TTATTCAATAACAGTCAG
1 TTATTCAATAACAATCAG
** * *
78864393 TTATTCGGTAACAATTAA
1 TTATTCAATAACAATCAG
* *
78864411 TTATTCAATAATAACCAG
1 TTATTCAATAACAATCAG
* *
78864429 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCA--AT--AAC-A---ATCAG
* * * *
78864455 TTATCCAGTAACAGTCAA
1 TTATTCAATAACAATCAG
*
78864473 TTATTCAGTAA-AATCAG
1 TTATTCAATAACAATCAG
* * *
78864490 GTATTCAGTAACAATTAAG
1 TTATTCAATAACAA-TCAG
* *
78864509 TTATTCAGTAACAGTCA-
1 TTATTCAATAACAATCAG
* *
78864526 TTCATTCAGTGACAATCAG
1 TT-ATTCAATAACAATCAG
* ** *
78864545 TTATTCAGTAATGATCAA
1 TTATTCAATAACAATCAG
* * *
78864563 TTATTCAGTAATATTCAG
1 TTATTCAATAACAATCAG
*
78864581 TTATTCAGTAAC
1 TTATTCAATAAC
78864593 GGTCTAATAT
Statistics
Matches: 149, Mismatches: 39, Indels: 24
0.70 0.18 0.11
Matches are distributed among these distances:
17 16 0.11
18 99 0.66
19 17 0.11
20 2 0.01
21 1 0.01
22 3 0.02
23 1 0.01
24 1 0.01
26 9 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAATAACAATCAG
Found at i:78864430 original size:36 final size:36
Alignment explanation
Indices: 78864366--78864434 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
78864356 TAACAATCAG
* **
78864366 AACAATTATTTATTCAATAACAGTCAGTTATTCGGT
1 AACAATTAATTATTCAATAACAACCAGTTATTCGGT
*
78864402 AACAATTAATTATTCAATAATAACCAGTTATTC
1 AACAATTAATTATTCAATAACAACCAGTTATTC
78864435 AGTATCGATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (36 bp):
AACAATTAATTATTCAATAACAACCAGTTATTCGGT
Found at i:78864590 original size:72 final size:71
Alignment explanation
Indices: 78864456--78864657 Score: 217
Period size: 72 Copynumber: 2.8 Consensus size: 71
78864446 ATTGATCGGT
* ** * *
78864456 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGGTATTCAGTAACAATTAAGTTATTCAGTAAC
1 TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAA-TATTCAGTTATTCAGTAAC
*
78864521 AGTC-AT
65 AGTCTAA
* * * *
78864527 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
*
78864592 CGGTCTAA
64 CAGTCTAA
* * * * *
78864600 TATCCAGTAACAGTCAATTATCCAGTAACAGTTAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
78864658 TTATACATTT
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
71 1 0.01
72 90 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:78864607 original size:18 final size:18
Alignment explanation
Indices: 78864455--78864645 Score: 120
Period size: 18 Copynumber: 10.6 Consensus size: 18
78864445 AATTGATCGG
78864455 TTATCCAGTAACAGTCAA
1 TTATCCAGTAACAGTCAA
* * *
78864473 TTATTCAGTAA-AATCAG
1 TTATCCAGTAACAGTCAA
* * * *
78864490 GTATTCAGTAACAATTAA
1 TTATCCAGTAACAGTCAA
*
78864508 GTTATTCAGTAACAGTC-A
1 -TTATCCAGTAACAGTCAA
* * * *
78864526 TTCATTCAGTGACAATCAG
1 TT-ATCCAGTAACAGTCAA
* *
78864545 TTATTCAGTAA-TGATCAA
1 TTATCCAGTAACAG-TCAA
* * * *
78864563 TTATTCAGTAATATTCAG
1 TTATCCAGTAACAGTCAA
* *
78864581 TTATTCAGTAACGGTCTAA
1 TTATCCAGTAACAGTC-AA
78864600 -TATCCAGTAACAGTCAA
1 TTATCCAGTAACAGTCAA
*
78864617 TTATCCAGTAACAGTTAA
1 TTATCCAGTAACAGTCAA
*
78864635 TTATTCAGTAA
1 TTATCCAGTAA
78864646 TAATCAGTTA
Statistics
Matches: 138, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
17 18 0.13
18 104 0.75
19 16 0.12
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATCCAGTAACAGTCAA
Found at i:78869971 original size:87 final size:87
Alignment explanation
Indices: 78869664--78870524 Score: 681
Period size: 87 Copynumber: 10.0 Consensus size: 87
78869654 TATTCCATTT
* * * *
78869664 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATTTATTCCCG
1 TTTTTTATTTTATTTCCAAAACGAATATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCTCG
* *
78869729 GCGTTCAGCAGATTTTATTCCA
66 CCGTTCAACAGATTTTATTCCA
* * * *
78869751 -TTTTGATTTTGTTCCCAAAACGAGTATTAAAATTAAATAAAATCTGTTTC-AGAATTTATTCTC
1 TTTTTTATTTTATTTCCAAAACGAATATTAAAATTAAATAAAATCTGTTTCGAG-ATTTATTCTC
* *
78869814 GCCATTCAACAGATTTTATTCTA
65 GCCGTTCAACAGATTTTATTCCA
* * * * * *
78869837 TTTTTCTAATTTT-TTTATCAAAACGAGTATTAAAATAAAATAAAATATCTTTCGAGACTTATTC
1 TTTTT-T-ATTTTATTT-CCAAAACGAATATTAAAATTAAATAAAATCTGTTTCGAGATTTATTC
* *
78869901 TCACCGTTCAACAAATTTTATTCCA
63 TCGCCGTTCAACAGATTTTATTCCA
* * * *
78869926 TTTTTTATTTTATTTTCAAAATGAATATTAAAATTAAATAAAATATGTTTC-AGGATTAATTCTC
1 TTTTTTATTTTATTTCCAAAACGAATATTAAAATTAAATAAAATCTGTTTCGA-GATTTATTCTC
* * * *
78869990 GCAGTTCAGCAGATCTTATTTCA
65 GCCGTTCAACAGATTTTATTCCA
* * * *
78870013 TTTTTTATTTTATTTCTAAGATGAATATTAAAATGAAATAAAATCTGTTTCTG-GATTTATTC-C
1 TTTTTTATTTTATTTCCAAAACGAATATTAAAATTAAATAAAATCTGTTTC-GAGATTTATTCTC
* *
78870076 TGTCGTTCAACAGATTTTATTCGA
65 -GCCGTTCAACAGATTTTATTCCA
* * * ** * *
78870100 TTTTTTTATTTTGTTACCAAAATGAATATTAAAACCAAATAAAATTTGTTTCGGGATTTATT-TC
1 -TTTTTTATTTTATTTCCAAAACGAATATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCTC
* * *
78870164 TGCCGTTTAAAAGATTTTATTACA
65 -GCCGTTCAACAGATTTTATTCCA
* * * * *
78870188 TTCTTTATTTTATTTCCAAAACGAGTATAAAAATTAAATAAAATATGTTTTGAGATTTATT-TCC
1 TTTTTTATTTTATTTCCAAAACGAATATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCT-C
* * *
78870252 GCTGTTCAACAGAATTTATTTCA
65 GCCGTTCAACAGATTTTATTCCA
* * * * *
78870275 TTCTTGATTTTGTTACC-AAACGAGAAATTAAAATTAAATAAAATCTGTTTCGAGATTTATT-TC
1 TTTTTTATTTTATTTCCAAAACGA-ATATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCTC
* * *
78870338 ATCCATTTAACAGATTTTATT-CA
65 -GCCGTTCAACAGATTTTATTCCA
* * ** * ** * *
78870361 ATTTTAATTTGGTTTCCAAATTA-G-A-ATT-AAATT--TTCTAATCTATTTCGAGATTTATTCC
1 TTTTTTATTTTATTTCCAAA--ACGAATATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCT
* * * *
78870420 CTCCGTTTAACAAATTTTATTCAA
64 CGCCGTTCAACAGATTTTATTCCA
* * ** * * *
78870444 TTTTGTT-TTTT-GTTCCCAAATTAAAATT-AAATTAAAT--AATCTGTTTCAAGATTTA-TCCC
1 TTTT-TTATTTTATTTCCAAAACGAATATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCTC
78870503 TGCCTGTT-AACAGATTTTATTC
65 -GCC-GTTCAACAGATTTTATTC
78870525 GATCTTGATT
Statistics
Matches: 634, Mismatches: 110, Indels: 64
0.78 0.14 0.08
Matches are distributed among these distances:
80 1 0.00
82 49 0.08
83 47 0.07
84 9 0.01
85 6 0.01
86 97 0.15
87 272 0.43
88 80 0.13
89 71 0.11
90 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (87 bp):
TTTTTTATTTTATTTCCAAAACGAATATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCTCG
CCGTTCAACAGATTTTATTCCA
Found at i:78870132 original size:262 final size:258
Alignment explanation
Indices: 78869664--78870365 Score: 774
Period size: 262 Copynumber: 2.7 Consensus size: 258
78869654 TATTCCATTT
* * * *
78869664 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATTTATTCCCG
1 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATATGTTTAG-GATTTATTCTC-
* *
78869729 GCGTTCAGCAGATTTTATTCCA-TTTTGATTTTGTTCCCAAA-ACGAGTATTAAAATTAAATAAA
64 GCGTTCAGCAGA-TTTATTTCATTTTTGATTTTGTT-CCAAAGA-GAATATTAAAATTAAATAAA
* * * *
78869792 ATCTGTTTCAGAATTTATTCTCGCCATTCAACAGATTTTATTCTATTTTTCTAATTTTTTTATCA
126 ATCTGTTTC-GGATTTATTCTCGCCATTCAACAGATTTTATTCGATTTTTCTAATTTTGTTACCA
* *
78869857 AAACGAGTATTAAAATAAAATAAAATATCTTTCGAGACTTA-TTCTCACCGTTCAACAA-ATTTT
190 AAACGAATATTAAAACAAAATAAAATATCTTTCGAGACTTATTTCT-ACCGTTCAA-AAGATTTT
*
78869920 ATTCCA
253 ATTACA
* * * *
78869926 TTTTTTATTTTATTTTCAAAATGAATATTAAAATTAAATAAAATATGTTTCAGGATTAATTCTCG
1 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATATGTTT-AGGATTTATTCTCG
* * * * *
78869991 CAGTTCAGCAGATCTTATTTCATTTTTTATTTTATTTCTAAGATGAATATTAAAATGAAATAAAA
65 C-GTTCAGCAGAT-TTATTTCATTTTTGATTTTGTTCCAAAGA-GAATATTAAAATTAAATAAAA
* * *
78870056 TCTGTTTCTGGATTTATTC-CTGTCGTTCAACAGATTTTATTCGATTTTT-TTATTTTGTTACCA
127 TCTGTTTC-GGATTTATTCTC-GCCATTCAACAGATTTTATTCGATTTTTCTAATTTTGTTACCA
* * * * * * * *
78870119 AAATGAATATTAAAACCAAATAAAATTTGTTTCGGGATTTATTTCTGCCGTTTAAAAGATTTTAT
190 AAACGAATATTAAAACAAAATAAAATATCTTTCGAGACTTATTTCTACCGTTCAAAAGATTTTAT
78870184 TACA
255 TACA
* * *
78870188 TTCTTTATTTTATTTCCAAAACGAGTATAAAAATTAAATAAAATATGTTTTGAGATTTATT-TCC
1 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATATGTTTAG-GATTTATTCT-C
* *
78870252 GCTGTTCAACAGAATTTATTTCATTCTTGATTTTGTTACCAAACGAGAA-ATTAAAATTAAATAA
64 GC-GTTCAGCAG-ATTTATTTCATTTTTGATTTTGTT-CCAAA-GAGAATATTAAAATTAAATAA
* * *
78870316 AATCTGTTTCGAGATTTATT-TCATCCATTTAACAGATTTTATTCAATTTT
125 AATCTGTTTCG-GATTTATTCTC-GCCATTCAACAGATTTTATTCGATTTT
78870366 AATTTGGTTT
Statistics
Matches: 369, Mismatches: 56, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
261 8 0.02
262 273 0.74
263 86 0.23
264 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (258 bp):
TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATATGTTTAGGATTTATTCTCGC
GTTCAGCAGATTTATTTCATTTTTGATTTTGTTCCAAAGAGAATATTAAAATTAAATAAAATCTG
TTTCGGATTTATTCTCGCCATTCAACAGATTTTATTCGATTTTTCTAATTTTGTTACCAAAACGA
ATATTAAAACAAAATAAAATATCTTTCGAGACTTATTTCTACCGTTCAAAAGATTTTATTACA
Found at i:78870197 original size:175 final size:173
Alignment explanation
Indices: 78869664--78870380 Score: 740
Period size: 175 Copynumber: 4.1 Consensus size: 173
78869654 TATTCCATTT
* * *
78869664 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATCTATTTTGAGATTTATTCCCG
1 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATATGTTTTGAGATTTATT-CCT
* * * *
78869729 GCGTTCAGCAGATTTTATTCCA-TTTTGATTTTGTTCCCAAAACGAGTATTAAAATTAAATAAAA
65 GCGTTCAACAGATTTTATTCCATTTTTGATTTTGTTACCAAAATGAATATTAAAATTAAATAAAA
*
78869793 TCTGTTTCAGAATTTA-TTCTCGCCATTCAACAGATTTTATTCTA
130 TCTGTTTCAGGATTTATTTCTCGCCATTCAACAGATTTTATTC-A
* * * * *
78869837 TTTTTCTAATTTT-TTTATCAAAACGAGTATTAAAATAAAATAAAATATCTTTCGAGACTTATTC
1 TTTTT-T-ATTTTATTT-CCAAAACGAGTATTAAAATTAAATAAAATATGTTTTGAGATTTATTC
** * * * **
78869901 TCACCGTTCAACAAATTTTATTCCATTTTTTATTTTATTTTCAAAATGAATATTAAAATTAAATA
63 -CTGCGTTCAACAGATTTTATTCCATTTTTGATTTTGTTACCAAAATGAATATTAAAATTAAATA
* * * *
78869966 AAATATGTTTCAGGA-TTAATTCTCG-CAGTTCAGCAGATCTTATTTCA
127 AAATCTGTTTCAGGATTTATTTCTCGCCA-TTCAACAGATTTTA-TTCA
* * * * * *
78870013 TTTTTTATTTTATTTCTAAGATGAATATTAAAATGAAATAAAATCTGTTTCTG-GATTTATTCCT
1 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATATGTTT-TGAGATTTATTCCT
* * **
78870077 GTCGTTCAACAGATTTTATTCGATTTTTTTATTTTGTTACCAAAATGAATATTAAAACCAAATAA
65 G-CGTTCAACAGATTTTATTCCA-TTTTTGATTTTGTTACCAAAATGAATATTAAAATTAAATAA
* * * * *
78870142 AATTTGTTTCGGGATTTATTTCT-GCCGTTTAAAAGATTTTATTACA
128 AATCTGTTTCAGGATTTATTTCTCGCCATTCAACAGATTTTATT-CA
* *
78870188 TTCTTTATTTTATTTCCAAAACGAGTATAAAAATTAAATAAAATATGTTTTGAGATTTATTTCC-
1 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATATGTTTTGAGATTTA-TTCCT
* * *
78870252 GCTGTTCAACAGAATTTATTTCATTCTTGATTTTGTTACCAAACGA-GAA-ATTAAAATTAAATA
65 GC-GTTCAACAGATTTTATTCCATTTTTGATTTTGTTACCAAA--ATGAATATTAAAATTAAATA
*
78870315 AAATCTGTTTC-GAGATTTATTTCAT--CCATTTAACAGATTTTATTCA
127 AAATCTGTTTCAG-GATTTATTTC-TCGCCATTCAACAGATTTTATTCA
* * **
78870361 ATTTTAATTTGGTTTCCAAA
1 TTTTTTATTTTATTTCCAAA
78870381 TTAGAATTAA
Statistics
Matches: 452, Mismatches: 70, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
173 24 0.05
174 136 0.30
175 206 0.46
176 83 0.18
177 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (173 bp):
TTTTTTATTTTATTTCCAAAACGAGTATTAAAATTAAATAAAATATGTTTTGAGATTTATTCCTG
CGTTCAACAGATTTTATTCCATTTTTGATTTTGTTACCAAAATGAATATTAAAATTAAATAAAAT
CTGTTTCAGGATTTATTTCTCGCCATTCAACAGATTTTATTCA
Found at i:78870429 original size:82 final size:82
Alignment explanation
Indices: 78870299--78870524 Score: 264
Period size: 83 Copynumber: 2.8 Consensus size: 82
78870289 ACCAAACGAG
* *
78870299 AAATTAAAATTAAA-T-AA-AATCTGTTTCGAGATTTATTTCATCCATTTAACAGATTTTATTCA
1 AAATTAAAATTAAATTAAATAATCTGTTTCGAGATTTATTCCCTCC-TTTAACAGATTTTATTCA
*
78870361 ATTTT-AATTTGGTTTCC
65 ATTTTGAATTTGGTTCCC
* *** * *
78870378 AAATTAGAATTAAATTTTCTAATCTATTTCGAGATTTATTCCCTCCGTTTAACAAATTTTATTCA
1 AAATTAAAATTAAATTAAATAATCTGTTTCGAGATTTATTCCCTCC-TTTAACAGATTTTATTCA
** *
78870443 ATTTTGTTTTTTGTTCCC
65 ATTTTGAATTTGGTTCCC
*
78870461 AAATTAAAATTAAATTAAATAATCTGTTTCAAGATTTA-TCCCTGCCTGTTAACAGATTTTATTC
1 AAATTAAAATTAAATTAAATAATCTGTTTCGAGATTTATTCCCT-CCT-TTAACAGATTTTATTC
78870525 GATCTTGATT
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
79 13 0.11
80 1 0.01
82 51 0.42
83 57 0.47
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.46
Consensus pattern (82 bp):
AAATTAAAATTAAATTAAATAATCTGTTTCGAGATTTATTCCCTCCTTTAACAGATTTTATTCAA
TTTTGAATTTGGTTCCC
Found at i:78880752 original size:87 final size:87
Alignment explanation
Indices: 78880643--78881517 Score: 700
Period size: 87 Copynumber: 10.2 Consensus size: 87
78880633 ATTTGAAATA
* * * * * **
78880643 TAAATAAAAT-TCGTTTCAGGATTTATTCCCACCCTCCAACGAATTTTATTCTATTTTGGATTTT
1 TAAATAAAATCT-GTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTATTTTTTATTTT
78880707 ATTTCCAAACGAGAAATTAAAGT
65 ATTTCCAAACGAGAAATTAAAGT
* ** **
78880730 TAAATAAAATCCT-TTTCGGGATTTATTCCTGCCGTTCAACAAATTTTATT-TCATTTTGAATTT
1 TAAATAAAAT-CTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCT-ATTTTTTATTT
78880793 TATTTCCAAAC-AGGAAATTAAAGT
64 TATTTCCAAACGA-GAAATTAAAGT
* * *
78880817 TAAATAGAATATGTTTCGGGATTTATTCCCGTCGTTCAACGGATTTTATTAC-ATTTTTTATTTT
1 TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATT-CTATTTTTTATTTT
78880881 ATTTCCAAAC-AGGAAATTAAAGT
65 ATTTCCAAACGA-GAAATTAAAGT
* * * * *
78880904 TAAATAGAATCTGTTTCAGGAGTTATTACCGTCGTTCAACGGATTTTATTACT-TTTTTTATTTT
1 TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATT-CTATTTTTTATTTT
* *
78880968 ATTTCTAAACGAAAAATTAAAGT
65 ATTTCCAAACGAGAAATTAAAGT
* ** * * *
78880991 TAAATAAAATCCGTTTCGGGATTTATTCCTACTGTTTAACGGATTTTATTATATTTTTTATTTTA
1 TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTATTTTTTATTTTA
* * *
78881056 TTTCAAAACGAGTAA-TAAAAT
66 TTTCCAAACGAGAAATTAAAGT
* *** *
78881077 TAAATAAAATCTGTTTCGGGATTTATTCCTGCCGTGT-AATATATTTTATTCCATTTTTTTATTT
1 TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGT-TCAACGGATTTTATTCTA-TTTTTTATTT
* * * *
78881141 TGTTTCCAAAACAAG-TATTAAAAT
64 TATTTCC-AAACGAGAAATTAAAGT
* * * * *
78881165 AAAATAAAATCTGTTTCGGGATTTATTTCCGCCGCTCAATGGATATTATTCTATTTTTTTATTTT
1 TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTA-TTTTTTATTTT
* * * *
78881230 ATTTCCGAAACAAG-TATAAAAAT
65 ATTTCC-AAACGAGAAATTAAAGT
* *
78881253 TAAATAAAATATGTTTCGGGATTTATT--C-TCG--C--C-G-TTTTATTCTA-TTTTTATTTTG
1 TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTATTTTTTATTTT-
* * * *
78881308 TTTTCAAAACGA-ATATTAAAAT
65 ATTTCCAAACGAGAAATTAAAGT
* * ** * ** **
78881330 TAAATAAAATCTATTTTGGGATTTATTTTCGCCGTTTAATAGATTTTATTCCGTTTTTTATTTTA
1 TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTATTTTTTATTTTA
* * * *
78881395 TTCCCAAAACGAG-TACTAAAAT
66 TTTCC-AAACGAGAAATTAAAGT
** * ** * * * *
78881417 TATGTTAAATCTGTTTCGGGATTTATTCCCGTTGTTCAACAGATTTTATT-TCATTCTTAATCTT
1 TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCT-ATTTTTTATTTT
* * * *
78881481 ATTGCGAAACTAGAAATTAAAAT
65 ATTTCCAAACGAGAAATTAAAGT
* *
78881504 TGAATAAAACCTGT
1 TAAATAAAATCTGT
78881518 AACAAATTTT
Statistics
Matches: 651, Mismatches: 106, Indels: 62
0.79 0.13 0.08
Matches are distributed among these distances:
77 47 0.07
78 4 0.01
79 10 0.02
80 3 0.00
83 1 0.00
85 3 0.00
86 70 0.11
87 399 0.61
88 113 0.17
89 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (87 bp):
TAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCTATTTTTTATTTTA
TTTCCAAACGAGAAATTAAAGT
Found at i:78881303 original size:77 final size:78
Alignment explanation
Indices: 78881210--78881366 Score: 210
Period size: 77 Copynumber: 2.0 Consensus size: 78
78881200 TCAATGGATA
* *
78881210 TTATTCTATTTTTTTATTTTATTTCCGAAAC-AAGTATAAAAATTAAATAAAATATGTTTCGGGA
1 TTATTCTA-TTTTTTATTTTATTTCCAAAACGAA-TATAAAAATTAAATAAAATATATTTCGGGA
78881274 TTTATTCTCGCCGTT
64 TTTATTCTCGCCGTT
* * * * *
78881289 TTATTCTA-TTTTTATTTTGTTTTCAAAACGAATATTAAAATTAAATAAAATCTATTTTGGGATT
1 TTATTCTATTTTTTATTTTATTTCCAAAACGAATATAAAAATTAAATAAAATATATTTCGGGATT
*
78881353 TATTTTCGCCGTT
66 TATTCTCGCCGTT
78881366 T
1 T
78881367 AATAGATTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 59 0.86
78 2 0.03
79 8 0.12
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (78 bp):
TTATTCTATTTTTTATTTTATTTCCAAAACGAATATAAAAATTAAATAAAATATATTTCGGGATT
TATTCTCGCCGTT
Found at i:78881664 original size:83 final size:82
Alignment explanation
Indices: 78881569--78882112 Score: 328
Period size: 83 Copynumber: 6.7 Consensus size: 82
78881559 CTAAATTTTG
* ** * * * *
78881569 TAATATGTTTCGAGATTTATTTTCGTCGTTTAATAGATTTTATTTGATTTTGTTTTTTGTTCCAA
1 TAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTG-ATTTTGTTCCTA
*
78881634 AATTAAAATTAAATTGAA
65 AATTAAAATTAAATTAAA
* *** ** * * * * *
78881652 TAATCTGTTTCGAAATTTATTCTAACCGGCTAACATATTTTACTCGATCTTGATTTTGTTTCTAA
1 TAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATTTTGTTCCTAA
** * *
78881717 ACGAACACTT-AATCAAA
66 ATTAA-AATTAAATTAAA
* * * * *
78881734 TAATTCTGTTTCGGGATTTATTCCCGCTGCTTAAC--A---TATTTTATTTTAATTTTGTTTCC-
1 TAA-TCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATTTTG-TTCCT
* * * ***
78881793 AAGTTAGAACTAAATTTTG
64 AAATTAAAATTAAATTAAA
* * * *
78881812 TAATCTGTTTCTAGATTTATTCCCGTCGTTTAACAGATTTTATTTGATTTTGTTTTTTGTTCCCA
1 TAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTG-ATTTTGTTCCTA
* *
78881877 AATTAAAATTAACTTGAA
65 AATTAAAATTAAATTAAA
* * * * * *
78881895 TAATCTGTTTC-AGGATTTATTCCAGCCGGTTAACAGATTTCATTCGATCTTGATTTTGTTTCTA
1 TAATCTGTTTCGA-GATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATTTTGTTCCTA
** * *
78881959 AACGAACACTT-AATCAAA
65 AATTAA-AATTAAATTAAA
* * * *
78881977 TAATTCTGTTTCGAGATTTATTCTCGCCGTTTAACAGATTTTATTTTA-ATT--TTTT-TTAC-A
1 TAA-TCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATTTTGTTCCTA
* *
78882037 AA-TAAGATTTAATTAAA
65 AATTAAAATTAAATTAAA
* * ** * *
78882054 TAATTCTGTTTCGGGATTTAATCTTGCCGTTCAACAGA-TTGATTTTGATTTTGATTTTG
1 TAA-TCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTA-TTTGATTTTGATTTTG
78882113 ATTTTGATTT
Statistics
Matches: 346, Mismatches: 94, Indels: 44
0.71 0.19 0.09
Matches are distributed among these distances:
76 5 0.01
77 74 0.21
78 27 0.08
79 7 0.02
80 8 0.02
81 1 0.00
82 58 0.17
83 165 0.48
84 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (82 bp):
TAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATTTTGTTCCTAA
ATTAAAATTAAATTAAA
Found at i:78881841 original size:243 final size:243
Alignment explanation
Indices: 78881533--78882039 Score: 782
Period size: 243 Copynumber: 2.1 Consensus size: 243
78881523 ATTTTATTCA
* * **
78881533 ATTTTTATTTGGTTTCCAAATTAGAACTAAATTTTGTAATATGTTTCGAGATTTATTTTCGTCGT
1 ATTTTAATTTTGTTTCCAAATTAGAACTAAATTTTGTAATATGTTTCGAGATTTATTCCCGTCGT
*
78881598 TTAATAGATTTTATTTGATTTTGTTTTTTGTTCCAAAATTAAAATTAAATTGAATAATCTGTTTC
66 TTAACAGATTTTATTTGATTTTGTTTTTTGTTCCAAAATTAAAATTAAATTGAATAATCTGTTTC
* * *
78881663 -GAAATTTATTCTAACCGGCTAACATATTTTACTCGATCTTGATTTTGTTTCTAAACGAACACTT
131 AG-AATTTATTCCAACCGGCTAACAGATTTCACTCGATCTTGATTTTGTTTCTAAACGAACACTT
* * *
78881727 AATCAAATAATTCTGTTTCGGGATTTATTCCCGCTGCTTAACATATTTT
195 AATCAAATAATTCTGTTTCGAGATTTATTCCCGCCGCTTAACAGATTTT
* * *
78881776 ATTTTAATTTTGTTTCCAAGTTAGAACTAAATTTTGTAATCTGTTTCTAGATTTATTCCCGTCGT
1 ATTTTAATTTTGTTTCCAAATTAGAACTAAATTTTGTAATATGTTTCGAGATTTATTCCCGTCGT
* *
78881841 TTAACAGATTTTATTTGATTTTGTTTTTTGTTCCCAAATTAAAATTAACTTGAATAATCTGTTTC
66 TTAACAGATTTTATTTGATTTTGTTTTTTGTTCCAAAATTAAAATTAAATTGAATAATCTGTTTC
* * * *
78881906 AGGATTTATTCCAGCCGGTTAACAGATTTCATTCGATCTTGATTTTGTTTCTAAACGAACACTTA
131 AGAATTTATTCCAACCGGCTAACAGATTTCACTCGATCTTGATTTTGTTTCTAAACGAACACTTA
* *
78881971 ATCAAATAATTCTGTTTCGAGATTTATTCTCGCCGTTTAACAGATTTT
196 ATCAAATAATTCTGTTTCGAGATTTATTCCCGCCGCTTAACAGATTTT
* *
78882019 ATTTTAATTTTTTTTACAAAT
1 ATTTTAATTTTGTTTCCAAAT
78882040 AAGATTTAAT
Statistics
Matches: 238, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
243 237 1.00
244 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.47
Consensus pattern (243 bp):
ATTTTAATTTTGTTTCCAAATTAGAACTAAATTTTGTAATATGTTTCGAGATTTATTCCCGTCGT
TTAACAGATTTTATTTGATTTTGTTTTTTGTTCCAAAATTAAAATTAAATTGAATAATCTGTTTC
AGAATTTATTCCAACCGGCTAACAGATTTCACTCGATCTTGATTTTGTTTCTAAACGAACACTTA
ATCAAATAATTCTGTTTCGAGATTTATTCCCGCCGCTTAACAGATTTT
Found at i:78882061 original size:77 final size:77
Alignment explanation
Indices: 78881723--78882093 Score: 239
Period size: 77 Copynumber: 4.7 Consensus size: 77
78881713 CTAAACGAAC
* * * * * *
78881723 ACTTAATCAAATAATTCTGTTTCGGGATTTATTCCCGCTGCTTAACATATTTTATTTTAATTTTG
1 ACTTAATTAAATAATTCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTTAATTTTT
* * *
78881788 TTTCCAAGTTAG
66 TTTACAAATAAG
* *** * * **
78881800 AACTAAATTTTGTAA-TCTGTTTCTAGATTTATTCCCGTCGTTTAACAGATTTTATTTGATTTTG
1 -ACTTAATTAAATAATTCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTA--T--TTTAA
*
78881864 TTTTTTGTTCCCAAATTAA-
61 TTTTTT-TT-ACAAA-TAAG
* * * * *
78881883 AATTAACTTGAATAA-TCTGTTTC-AGGATTTATTCCAGCCGGTTAACAGATTTCATTCGATCTT
1 ACTTAA-TTAAATAATTCTGTTTCGA-GATTTATTCCCGCCGTTTAACAGA-TT--TT--ATTTT
* ** *
78881946 GATTTTGTTTCTA-AACGAAC
59 AATTTT-TTT-TACAAATAAG
* *
78881966 ACTTAATCAAATAATTCTGTTTCGAGATTTATTCTCGCCGTTTAACAGATTTTATTTTAATTTTT
1 ACTTAATTAAATAATTCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTTAATTTTT
78882031 TTTACAAATAAG
66 TTTACAAATAAG
* * * ** *
78882043 ATTTAATTAAATAATTCTGTTTCGGGATTTAATCTTGCCGTTCAACAGATT
1 ACTTAATTAAATAATTCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATT
78882094 GATTTTGATT
Statistics
Matches: 226, Mismatches: 47, Indels: 41
0.72 0.15 0.13
Matches are distributed among these distances:
76 2 0.01
77 85 0.38
78 18 0.08
79 1 0.00
80 2 0.01
81 8 0.04
82 17 0.08
83 74 0.33
84 12 0.05
85 3 0.01
86 3 0.01
88 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.46
Consensus pattern (77 bp):
ACTTAATTAAATAATTCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTTAATTTTT
TTTACAAATAAG
Found at i:78882092 original size:243 final size:243
Alignment explanation
Indices: 78881533--78882111 Score: 696
Period size: 243 Copynumber: 2.4 Consensus size: 243
78881523 ATTTTATTCA
* * * * *** * * ** *
78881533 ATTTTTATTTGGTTTCCAAATTAGAACTAAATTTTGTAATATGTTTCGAGATTTATTTTCGTCGT
1 ATTTTAATTTTGTTTACAAATAAGAACTAAATTAAATAATCTGTTTCGAGATTTAATCCCGCCGT
* *
78881598 TTAATAGATTTTATTTGATTTTGTTTTTTGTTCCAAAATTAAAATTAAATTGAATAATCTGTTTC
66 TCAACAGATTTTATTTGATTTTGTTTTTTGTTCCAAAATTAAAATTAAATTGAATAATCTGTTTC
* * *
78881663 GAAATTTATTCTAACCGGCTAACATATTTTACTCGATCTTGATTTTGTTTCTAAACGAACACTTA
131 GAAATTTATTCCAACCGGCTAACAGATTTCACTCGATCTTGATTTTGTTTCTAAACGAACACTTA
* * *
78881728 ATCAAATAATTCTGTTTCGGGATTTATTCCCGCTGCTTAACATATTTT
196 ATCAAATAATTCTGTTTCGAGATTTATTCCCGCCGCTTAACAGATTTT
* * * *** * * *
78881776 ATTTTAATTTTGTTTCCAAGTTAGAACTAAATTTTGTAATCTGTTTCTAGATTTATTCCCGTCGT
1 ATTTTAATTTTGTTTACAAATAAGAACTAAATTAAATAATCTGTTTCGAGATTTAATCCCGCCGT
* * *
78881841 TTAACAGATTTTATTTGATTTTGTTTTTTGTTCCCAAATTAAAATTAACTTGAATAATCTGTTTC
66 TCAACAGATTTTATTTGATTTTGTTTTTTGTTCCAAAATTAAAATTAAATTGAATAATCTGTTTC
* * * *
78881906 -AGGATTTATTCCAGCCGGTTAACAGATTTCATTCGATCTTGATTTTGTTTCTAAACGAACACTT
131 GA-AATTTATTCCAACCGGCTAACAGATTTCACTCGATCTTGATTTTGTTTCTAAACGAACACTT
* *
78881970 AATCAAATAATTCTGTTTCGAGATTTATTCTCGCCGTTTAACAGATTTT
195 AATCAAATAATTCTGTTTCGAGATTTATTCCCGCCGCTTAACAGATTTT
* * * * **
78882019 ATTTTAATTTTTTTTACAAATAAG-ATTTAATTAAATAATTCTGTTTCGGGATTTAATCTTGCCG
1 ATTTTAATTTTGTTTACAAATAAGAACTAAATTAAATAA-TCTGTTTCGAGATTTAATCCCGCCG
* *
78882083 TTCAACAGA-TTGATTTTGATTTTGATTTT
65 TTCAACAGATTTTA-TTTGATTTTGTTTTT
78882112 GATTTTGATT
Statistics
Matches: 293, Mismatches: 40, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
242 13 0.04
243 280 0.96
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (243 bp):
ATTTTAATTTTGTTTACAAATAAGAACTAAATTAAATAATCTGTTTCGAGATTTAATCCCGCCGT
TCAACAGATTTTATTTGATTTTGTTTTTTGTTCCAAAATTAAAATTAAATTGAATAATCTGTTTC
GAAATTTATTCCAACCGGCTAACAGATTTCACTCGATCTTGATTTTGTTTCTAAACGAACACTTA
ATCAAATAATTCTGTTTCGAGATTTATTCCCGCCGCTTAACAGATTTT
Found at i:78882103 original size:6 final size:6
Alignment explanation
Indices: 78882092--78882148 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
78882082 GTTCAACAGA
78882092 TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT
78882140 TTGATT TTG
1 TTGATT TTG
78882149 CTCCAGAACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.67
Consensus pattern (6 bp):
TTGATT
Found at i:78882237 original size:12 final size:13
Alignment explanation
Indices: 78882220--78882249 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
78882210 TTTTCTATTT
78882220 ATTGTGGCATT-A
1 ATTGTGGCATTAA
78882232 ATTGTGGCATTAA
1 ATTGTGGCATTAA
78882245 ATTGT
1 ATTGT
78882250 AGCTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (13 bp):
ATTGTGGCATTAA
Found at i:78884317 original size:20 final size:19
Alignment explanation
Indices: 78884292--78884341 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
78884282 ACATATATCC
*
78884292 TAATTTTATTTGATTCTAAT
1 TAATTTGATTTGATT-TAAT
*
78884312 TAATTTGGTTTGATTTAAT
1 TAATTTGATTTGATTTAAT
* *
78884331 CAAATTGATTT
1 TAATTTGATTT
78884342 AATTGTCCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTGATTTGATTTAAT
Found at i:78884807 original size:28 final size:30
Alignment explanation
Indices: 78884744--78884810 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
78884734 CATCCAATAA
*
78884744 TTTAAATATAAATTATTCAATTTATTTTAT
1 TTTATATATAAATTATTCAATTTATTTTAT
* *
78884774 TATATATATAAA-TATT-ATTTTA-TTTATT
1 TTTATATATAAATTATTCAATTTATTTTA-T
78884802 TTTATATAT
1 TTTATATAT
78884811 TTTTGTTCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 4 0.12
28 14 0.44
29 4 0.12
30 10 0.31
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTATATATAAATTATTCAATTTATTTTAT
Found at i:78885135 original size:86 final size:86
Alignment explanation
Indices: 78884919--78885169 Score: 247
Period size: 86 Copynumber: 2.9 Consensus size: 86
78884909 ATTTTATTTG
* * * **
78884919 AAAATATAAATAAAATCCGTTTTGGGATTTATTCCCACCGTTTAACGAATTTTATTCTATTTTGG
1 AAAAT-TAAATAAAATCCGTTTCGGGATTTATTCCCGCTGTTTAACG-ATTTTATTCTATTTTTT
*
78884984 ATTTTATTTCCAAACGAGAAATT
64 ATTTTATTTCAAAACGAGAAATT
* ***
78885007 AAAGTTAAATAAAATCCGTTTCAAAAATTT-TTCCCGCT-TTTAACGTATTTTATTCTATTTTTT
1 AAAATTAAATAAAATCCGTTTC-GGGATTTATTCCCGCTGTTTAACG-ATTTTATTCTATTTTTT
* *
78885070 CTTTTATTTCAAAACGAG-TATT
64 ATTTTATTTCAAAACGAGAAATT
** * * * *
78885092 AAAATTAAATAAAATCTATTTCGGGATTTATTCCTGTTGTTTAACAGATTCTATTCCATTTTTTT
1 AAAATTAAATAAAATCCGTTTCGGGATTTATTCCCGCTGTTTAAC-GATTTTATT-C-TATTTTT
*
78885157 TATTTTGTTTCAA
63 TATTTTATTTCAA
78885170 GATTTATTTC
Statistics
Matches: 132, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
84 4 0.03
85 28 0.21
86 51 0.39
87 24 0.18
88 25 0.19
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (86 bp):
AAAATTAAATAAAATCCGTTTCGGGATTTATTCCCGCTGTTTAACGATTTTATTCTATTTTTTAT
TTTATTTCAAAACGAGAAATT
Found at i:78885613 original size:6 final size:6
Alignment explanation
Indices: 78885602--78885628 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
78885592 TTCAATAGAA
78885602 TTGATT TTGATT TTGATT TTGATT TTG
1 TTGATT TTGATT TTGATT TTGATT TTG
78885629 CTTCAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.67
Consensus pattern (6 bp):
TTGATT
Found at i:78897436 original size:30 final size:30
Alignment explanation
Indices: 78897395--78897451 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
78897385 TGGCCAGTTT
*
78897395 GTGTGGCTCACACGGGCATGTGCTCAGCCC
1 GTGTAGCTCACACGGGCATGTGCTCAGCCC
* *
78897425 GTGTAGCTCACATGGTCATGTGCTCAG
1 GTGTAGCTCACACGGGCATGTGCTCAG
78897452 TCCATGTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.28, G:0.32, T:0.25
Consensus pattern (30 bp):
GTGTAGCTCACACGGGCATGTGCTCAGCCC
Found at i:78904551 original size:15 final size:15
Alignment explanation
Indices: 78904512--78904591 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
78904502 GTATCTTGGG
*
78904512 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
78904527 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
78904542 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
78904557 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
78904572 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
78904586 TTTCTT
1 TTTCTT
78904592 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:78904581 original size:30 final size:30
Alignment explanation
Indices: 78904503--78904590 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
78904493 CATAGTATCG
* * *
78904503 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
78904533 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
78904563 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
78904591 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:78908394 original size:21 final size:21
Alignment explanation
Indices: 78908368--78908408 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78908358 AGACAAGCGA
* *
78908368 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
78908389 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
78908409 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:78914529 original size:24 final size:20
Alignment explanation
Indices: 78914487--78914526 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
78914477 GATCGACTTT
78914487 ATATAAATAATTATAGGGAG
1 ATATAAATAATTATAGGGAG
78914507 ATATAAATAATTATAGGGAG
1 ATATAAATAATTATAGGGAG
78914527 GGATAGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (20 bp):
ATATAAATAATTATAGGGAG
Found at i:78922106 original size:10 final size:10
Alignment explanation
Indices: 78922055--78922118 Score: 57
Period size: 10 Copynumber: 6.9 Consensus size: 10
78922045 TATAGTTGCG
78922055 TATATTT-TA
1 TATATTTATA
* *
78922064 T-TATGTATG
1 TATATTTATA
*
78922073 TATATGTATA
1 TATATTTATA
*
78922083 TGTATTTA-A
1 TATATTTATA
78922092 TATATTTATA
1 TATATTTATA
78922102 TATA--TATA
1 TATATTTATA
78922110 TATATTTAT
1 TATATTTAT
78922119 GTAGCATCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 12 0.27
9 11 0.25
10 21 0.48
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (10 bp):
TATATTTATA
Found at i:78922205 original size:24 final size:23
Alignment explanation
Indices: 78922169--78922235 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
78922159 TATGTAAATA
*
78922169 TTTTAATACTATATTATATAT-T
1 TTTTAATATTATATTATATATGT
* *
78922191 TTTTCATATATTATA-TACATGTGT
1 TTTT-A-ATATTATATTATATATGT
*
78922215 TTTTAATATTATATTTTATAT
1 TTTTAATATTATATTATATAT
78922236 ATTATTATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
22 12 0.34
23 11 0.31
24 12 0.34
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATATTATATATGT
Found at i:78935181 original size:14 final size:14
Alignment explanation
Indices: 78935162--78935188 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78935152 CCGAGGTATT
78935162 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
78935176 TTCAAATTCTGTT
1 TTCAAATTCTGTT
78935189 TTTAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:78935189 original size:88 final size:84
Alignment explanation
Indices: 78935009--78935190 Score: 206
Period size: 85 Copynumber: 2.1 Consensus size: 84
78934999 ATATTTTTAT
* * *
78935009 TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGAGGTATT
1 TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAACCTCAAGACACGCGAGGTATT
*
78935074 TTCAATTTCTGTTTCTCAA
66 TTCAAATTCTGTTTCTCAA
** ** *
78935093 TTCATGTTTTCTAAAA-TCAACTCATATTGCGAGAGGTGAGTTAAACCTCGGGTCACATGCCGAG
1 TTC-TGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTAAACCTCAAG--ACACG-CGAG
78935157 GTATTTTCAAATTCTGTTGT-TCAAA
61 GTATTTTCAAATTCTGTT-TCTC-AA
78935182 TTCTGTTTT
1 TTCTGTTTT
78935191 TAATTTCTAC
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
84 3 0.04
85 37 0.45
86 4 0.05
87 4 0.05
88 28 0.34
89 6 0.07
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (84 bp):
TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAACCTCAAGACACGCGAGGTATT
TTCAAATTCTGTTTCTCAA
Found at i:78935347 original size:187 final size:184
Alignment explanation
Indices: 78935002--78935535 Score: 430
Period size: 177 Copynumber: 2.9 Consensus size: 184
78934992 TATGTTGATA
* *
78935002 TTTTTATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTG
1 TTTTTATTTCTCTTTTCAAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACGTG
* *
78935067 AGGTATTTTCAATTTCTGTTTCTCAATTCATGTTTTCTAAAATCAACTCATATTGCGAGAGGTGA
66 AGGTAATTTCAATTTCTGTTTCTCAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
* *
78935132 GTTAAACCTCGGGTCACATGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTCTG
131 GTTAAACCTAGGATCACA-GCCGAGGTATTTTCAAATTCTGTTGTTCAAATTCTG
** * *
78935187 TTTTTAATTTCTACTTTTCCAAAA-TCAACTCATATTGCGA-AGGGTAAGTTGAGTCTCAGGACA
1 TTTTT-ATTTCT-CTTTT-CAAAATTCAACTCATATTGCGAGA-AATAAGTTGAGCCTCAAGACA
*
78935250 CGCTGAGGTAATTTCAA-TTCTTGTCTT-T-AATTTCTACT-TTTTCAAAAATTAACTCATATTG
62 CG-TGAGGTAATTTCAATTTC-TGT-TTCTCAA-TTC-A-TGTTTTCAAAAATCAACTCATATTG
* * * * * *
78935311 TGAGAGGTGAGTTGAGCCTTAGGAT-AC-GCTGAGGTATTTTCAATTTCTGTTTTTC-AA-----
121 CGAGAGGTGAGTTAAACC-TAGGATCACAGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTCTG
* * ** * *
78935368 --TTTA--TAT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAA-TTGAGCCTC-GGCTCGCA
1 TTTTTATTTCTCTTTTCAAAATTCAACTCATATTGCGAGAAAT-AAGTTGAGCCTCAAG---ACA
* * * * * *
78935426 TGCTGAGGTACTTTCAGTTTCTGTTTTTCAAATTCCTGTTTGTCAAAAATCAACCCATATTGCGA
62 CG-TGAGGTAATTTCAATTTCTGTTTCTC-AATTCATGTTT-TCAAAAATCAACTCATATTGCGA
* * * *
78935491 GAGGTGAGTTGAGCCTCAGGA-CAC-GCTGAGGTATTTTCAATTTCT
124 GAGGTGAGTTAAACCT-AGGATCACAGCCGAGGTATTTTCAAATTCT
78935536 ATTTTTTTTT
Statistics
Matches: 297, Mismatches: 27, Indels: 58
0.78 0.07 0.15
Matches are distributed among these distances:
173 7 0.02
174 31 0.10
175 6 0.02
176 26 0.09
177 68 0.23
178 3 0.01
179 3 0.01
185 5 0.02
186 9 0.03
187 68 0.23
188 25 0.08
189 41 0.14
190 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (184 bp):
TTTTTATTTCTCTTTTCAAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACACGTG
AGGTAATTTCAATTTCTGTTTCTCAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
GTTAAACCTAGGATCACAGCCGAGGTATTTTCAAATTCTGTTGTTCAAATTCTG
Found at i:78935366 original size:14 final size:14
Alignment explanation
Indices: 78935347--78935381 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
78935337 CGCTGAGGTA
* *
78935347 TTTTCAATTTCTGT
1 TTTTCAATTTATAT
78935361 TTTTCAATTTATAT
1 TTTTCAATTTATAT
78935375 TTTTCAA
1 TTTTCAA
78935382 AAATCAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:78935495 original size:177 final size:171
Alignment explanation
Indices: 78935176--78935600 Score: 498
Period size: 177 Copynumber: 2.4 Consensus size: 171
78935166 AATTCTGTTG
* * * *
78935176 TTCAAATTCTGTTTTTAATTTCTACTTTTCCAAAATCAACTCATATTGCGA-AGG-GTAAGTTGA
1 TTCAATTTCTGTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTG-AA-TTGA
* * * *
78935239 GTCTCAGGACACGCTGAGGTAATTTCAATTCTTGTCTTTAATTTCTACTTTTTCAAAAATTAACT
64 GCCTC-GGACACGCTGAGGTAATTTCAATTCTTGTCTTTAAATTC-ACTTTTTCAAAAATCAACC
* * *
78935304 CATATTGTGAGAGGTGAGTTGAGCCTTAGGATACGCTGAGGTATT
127 CATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
78935349 TTCAATTTCTGTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAG
1 TTCAATTTCTGTTTTT-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAG
* * * * *
78935414 CCTCGGCTCGCATGCTGAGGTACTTTCAGTT-TCTGTTTTTCAAATTC-CTGTTTGTCAAAAATC
65 CCTCGG---ACACGCTGAGGTAATTTCAATTCT-TGTCTTT-AAATTCACT-TTT-TCAAAAATC
78935477 AACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
123 AACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
* *
78935526 TTCAATTTCTATTTTTTTTTAATTTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTCAATTTC----TGTTTTTAA-TTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAAT
*
78935591 TGAGCATCGG
61 TGAGCCTCGG
78935601 GTCACATGTC
Statistics
Matches: 218, Mismatches: 19, Indels: 22
0.84 0.07 0.08
Matches are distributed among these distances:
173 17 0.08
174 40 0.18
175 8 0.04
176 28 0.13
177 67 0.31
180 2 0.01
181 56 0.26
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (171 bp):
TTCAATTTCTGTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGC
CTCGGACACGCTGAGGTAATTTCAATTCTTGTCTTTAAATTCACTTTTTCAAAAATCAACCCATA
TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
Found at i:78935496 original size:90 final size:87
Alignment explanation
Indices: 78935176--78935765 Score: 459
Period size: 87 Copynumber: 6.8 Consensus size: 87
78935166 AATTCTGTTG
* * * * *
78935176 TTCAAATTCTGTTTTT--AATTTCTACTTTTCCAAAATCAACTCATATTGCGA-AGGGTAAGTTG
1 TTCAATTTCTGTTTTTCAAATTTATATTTTTCAAAAATCAACTCATATTGCGAGA-GGTGAGTTG
* * *
78935238 AGTCTCAGGACACGCTGAGGTAAT
65 AGCCTC-GGTCACGCTGAGGTATT
* * * *
78935262 TTCAA-TTCTTGTCTTT--AATTTCTACTTTTTCAAAAATTAACTCATATTGTGAGAGGTGAGTT
1 TTCAATTTC-TGTTTTTCAAATTTATA-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
78935324 GAGCCTTAGGAT-ACGCTGAGGTATT
64 GAGCC-TCGG-TCACGCTGAGGTATT
*
78935349 TTCAATTTCTGTTTTTC-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGA
1 TTCAATTTCTGTTTTTCAAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
78935413 GCCTCGGCTCGCATGCTGAGGTACT
66 GCCTCGG-T--CACGCTGAGGTATT
* ** * * *
78935438 TTCAGTTTCTGTTTTTCAAATTCCTGTTTGTCAAAAATCAACCCATATTGCGAGAGGTGAGTTGA
1 TTCAATTTCTGTTTTTCAAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
78935503 GCCTCAGGACACGCTGAGGTATT
66 GCCTC-GGTCACGCTGAGGTATT
* * *
78935526 TTCAATTTCTATTTTTTTTTAATTTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTCAATTTC---TGTTTTTCAAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
*
78935591 TGAGCATCGGGTCACATG-TCGAGGTATTT
63 TGAGCCTC-GGTCAC--GCT-GAGGTA-TT
* * * *
78935620 TTAAAATT-TGCTTTT-AAGTTTA-A------AAAAA-CTAACTCATATTGCGAGAGGTGAGTTG
1 TTCAATTTCTGTTTTTCAAATTTATATTTTTCAAAAATC-AACTCATATTGCGAGAGGTGAGTTG
* *
78935675 AGCCTTGGCTCACGTGCTGAGCTATT
65 AGCCTCGG-TCAC--GCTGAGGTATT
* * * * * **
78935701 TTCAATTTCTGTTTTT--AATGTCTATTTTT-AAAGATTCAATTCATATTGCAAGAAATGAGTTG
1 TTCAATTTCTGTTTTTCAAATTTATATTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTG
78935763 AGC
65 AGC
78935766 TCAAGATCAC
Statistics
Matches: 412, Mismatches: 61, Indels: 60
0.77 0.11 0.11
Matches are distributed among these distances:
81 14 0.03
82 52 0.13
83 1 0.00
85 3 0.01
86 23 0.06
87 101 0.25
88 58 0.14
89 34 0.08
90 51 0.12
91 59 0.14
92 1 0.00
93 7 0.02
94 8 0.02
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (87 bp):
TTCAATTTCTGTTTTTCAAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCGGTCACGCTGAGGTATT
Found at i:78937691 original size:10 final size:10
Alignment explanation
Indices: 78937640--78937707 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
78937630 TATAGTAGCG
78937640 TATATTT-TA
1 TATATTTATA
* *
78937649 T-TATGTATG
1 TATATTTATA
*
78937658 TATATGTATA
1 TATATTTATA
*
78937668 TGTATTTA-A
1 TATATTTATA
78937677 TATATTTATA
1 TATATTTATA
78937687 TATATATATATA
1 TATAT-T-TATA
78937699 TATATTTAT
1 TATATTTAT
78937708 GTAGCATCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
8 4 0.08
9 11 0.23
10 22 0.46
11 2 0.04
12 9 0.19
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (10 bp):
TATATTTATA
Found at i:78937939 original size:19 final size:19
Alignment explanation
Indices: 78937915--78937962 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
78937905 TTTTAATACT
* *
78937915 ATATTATATATATATTTTC-
1 ATATTATATAAATA-TTCCA
*
78937934 ATATTATGTAAATATTCCA
1 ATATTATATAAATATTCCA
78937953 ATATTATATA
1 ATATTATATA
78937963 CTAAGTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATTATATAAATATTCCA
Found at i:78944471 original size:22 final size:22
Alignment explanation
Indices: 78944443--78944511 Score: 113
Period size: 22 Copynumber: 3.1 Consensus size: 22
78944433 TATATGATCG
*
78944443 AAATTAATT-AATATGTAAAAAA
1 AAATTAATTGAAT-TTTAAAAAA
78944465 AAATTAATTGAATTTTAAAAAA
1 AAATTAATTGAATTTTAAAAAA
78944487 AAATTAATTGAATTTTAAAAAA
1 AAATTAATTGAATTTTAAAAAA
78944509 AAA
1 AAA
78944512 AATCAACCCT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 42 0.93
23 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATTAATTGAATTTTAAAAAA
Found at i:78945065 original size:27 final size:28
Alignment explanation
Indices: 78945018--78945072 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
78945008 TAAATATCTC
* *
78945018 TTTTTTTTAATACATCGTTTTGATTTTA
1 TTTTTTTTAATAAATCGTTTTAATTTTA
*
78945046 TTTTTTTTTATAAATC-TTTTAATTTTA
1 TTTTTTTTAATAAATCGTTTTAATTTTA
78945073 AAATATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.24, C:0.05, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTTTTTTAATAAATCGTTTTAATTTTA
Found at i:78947627 original size:16 final size:17
Alignment explanation
Indices: 78947606--78947640 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
78947596 TAATGTCTAG
78947606 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
78947622 GAAAATTATCTTAATTGA
1 GAAAATTA-CTTAATTGA
78947640 G
1 G
78947641 GGGTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:78948823 original size:51 final size:51
Alignment explanation
Indices: 78948695--78948823 Score: 170
Period size: 50 Copynumber: 2.5 Consensus size: 51
78948685 GACTATGGTA
* * * *
78948695 ACAAGTCATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
78948746 A-AAGTGATAAGTAATAGTTTCGGCTACACTTATCTGATCAAGGGCAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
78948796 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
78948824 CTGATCAGTG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 43 0.65
51 23 0.35
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:78948837 original size:31 final size:31
Alignment explanation
Indices: 78948799--78948947 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
78948789 GCAAATGACA
78948799 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
78948830 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
78948861 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
78948892 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
78948923 AGTGAATAGTGGTAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
78948948 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:78949118 original size:49 final size:48
Alignment explanation
Indices: 78949047--78949141 Score: 163
Period size: 49 Copynumber: 2.0 Consensus size: 48
78949037 GAATCAGTGA
78949047 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
* *
78949095 GATATGTGATTACGTGTTAGACCATAGCTGGGCTATGACATTGATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATAT
78949142 ATGAAAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 11 0.25
49 33 0.75
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
Found at i:78950852 original size:13 final size:13
Alignment explanation
Indices: 78950831--78950860 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
78950821 TTTCAATGTA
*
78950831 ATTTGAATTTTTT
1 ATTTAAATTTTTT
78950844 ATTTAAATTTTTT
1 ATTTAAATTTTTT
78950857 ATTT
1 ATTT
78950861 TTTTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
ATTTAAATTTTTT
Found at i:78952484 original size:23 final size:23
Alignment explanation
Indices: 78952442--78952486 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
78952432 ATTGAAATAA
**
78952442 ATAAATAATAAAAGGGTTAAAAT
1 ATAAATAATAAAAGAATTAAAAT
*
78952465 ATAAATAATAAAATAATTAAAA
1 ATAAATAATAAAAGAATTAAAA
78952487 CATGCTTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (23 bp):
ATAAATAATAAAAGAATTAAAAT
Found at i:78953588 original size:23 final size:23
Alignment explanation
Indices: 78953562--78953611 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
78953552 GTTAGGGTTT
78953562 GTTTA-ATTTGGGCTGATAATTGA
1 GTTTAGATTTGGGCTGAT-ATTGA
* *
78953585 GTTTAGATTTGGGTTGATTTTGA
1 GTTTAGATTTGGGCTGATATTGA
78953608 GTTT
1 GTTT
78953612 GTATTGAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (23 bp):
GTTTAGATTTGGGCTGATATTGA
Found at i:78959013 original size:13 final size:14
Alignment explanation
Indices: 78958995--78959025 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
78958985 ATGTATGAAT
78958995 ATATACATATAT-A
1 ATATACATATATCA
78959008 ATATACATATATCA
1 ATATACATATATCA
78959022 ATAT
1 ATAT
78959026 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATACATATATCA
Found at i:78959602 original size:15 final size:16
Alignment explanation
Indices: 78959584--78959617 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
78959574 AAAAAGAAGA
78959584 GAGAAAAGGAGAG-GG
1 GAGAAAAGGAGAGAGG
78959599 GAG-AAAGGAGAGAGG
1 GAGAAAAGGAGAGAGG
78959614 GAGA
1 GAGA
78959618 GGGGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAAGGAGAGAGG
Found at i:78959603 original size:22 final size:22
Alignment explanation
Indices: 78959578--78959630 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
78959568 AAGAAAAAAA
78959578 AGAAGAGAGAAAAGGAGAGGGG
1 AGAAGAGAGAAAAGGAGAGGGG
* *
78959600 AGAA-AGGAGAGAGGGAGAGGGG
1 AGAAGA-GAGAAAAGGAGAGGGG
*
78959622 AGAGGAGAG
1 AGAAGAGAG
78959631 GGCTCCGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (22 bp):
AGAAGAGAGAAAAGGAGAGGGG
Found at i:78961276 original size:7 final size:7
Alignment explanation
Indices: 78961264--78961290 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
78961254 ATTGTCGGAA
78961264 AAATATG
1 AAATATG
78961271 AAATATG
1 AAATATG
78961278 AAATATG
1 AAATATG
78961285 AAATAT
1 AAATAT
78961291 AGTAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
AAATATG
Found at i:78961360 original size:21 final size:19
Alignment explanation
Indices: 78961331--78961370 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
78961321 GAAAGTAATT
*
78961331 TTAATTTTATTTAATTTATAA
1 TTAAATTTATTT--TTTATAA
78961352 TTAAATTTATTTTTTATAA
1 TTAAATTTATTTTTTATAA
78961371 CGTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAAATTTATTTTTTATAA
Found at i:78976667 original size:61 final size:58
Alignment explanation
Indices: 78976550--78976676 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 58
78976540 TTTAATTCAT
* * * *
78976550 ATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAAATATATTTA
*
78976608 ATAATAATTATATTAA-AATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTTA
1 ATAATAATTATATTAAGAATATGATTAAATTA--TA-TATTA-TTTTATTAAAATATATTTA
*
78976669 ACAATAAT
1 ATAATAAT
78976677 CATCTACCTA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 13 0.22
58 16 0.27
59 2 0.03
60 4 0.07
61 24 0.41
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (58 bp):
ATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAAATATATTTA
Found at i:78976803 original size:44 final size:46
Alignment explanation
Indices: 78976750--78976838 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 46
78976740 TACAACATCT
*
78976750 ATTCTATTCAACCAAACACA-AGAA-TACT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCC
* *
78976794 ATTCCATTCAACCAAACAATGGAATTACTGATTACTGCTCTATTC
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTC
78976839 AATTACAGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 20 0.51
45 4 0.10
46 14 0.36
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
Found at i:78982045 original size:12 final size:11
Alignment explanation
Indices: 78982009--78982047 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
78981999 AACTCCAAAC
78982009 ATAAATAATAAA
1 ATAAATAAT-AA
*
78982021 ATAAATATTAA
1 ATAAATAATAA
78982032 ATAAATCAATAA
1 ATAAAT-AATAA
78982044 ATAA
1 ATAA
78982048 TTGTGTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:78985723 original size:5 final size:5
Alignment explanation
Indices: 78985713--78985757 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
78985703 AAACTCTCAA
78985713 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
78985758 ATTATCCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:78987450 original size:16 final size:16
Alignment explanation
Indices: 78987429--78987481 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
78987419 ATAAAATTAT
78987429 ATTTTTTATCCTTTTA
1 ATTTTTTATCCTTTTA
* *
78987445 ATTTTTTATCCCTTCA
1 ATTTTTTATCCTTTTA
* * *
78987461 ATTTTTCATCATTCTA
1 ATTTTTTATCCTTTTA
78987477 ATTTT
1 ATTTT
78987482 CTTTTCAGTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTTATCCTTTTA
Found at i:78987889 original size:17 final size:17
Alignment explanation
Indices: 78987867--78987906 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
78987857 TTATATTTAA
*
78987867 TTTATATAGATTAAAAT
1 TTTATATAAATTAAAAT
78987884 TTTATATAAATTAAAAT
1 TTTATATAAATTAAAAT
78987901 TTTATA
1 TTTATA
78987907 ATTATTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTATATAAATTAAAAT
Found at i:78990029 original size:9 final size:9
Alignment explanation
Indices: 78990011--78990051 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
78990001 TAATTAATTT
78990011 TTTA-AAAA
1 TTTATAAAA
78990019 TTTATAAAA
1 TTTATAAAA
*
78990028 TTTAAAAAAA
1 TTT-ATAAAA
78990038 TTTATAAAA
1 TTTATAAAA
78990047 TTTAT
1 TTTAT
78990052 TTTATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 4 0.14
9 17 0.59
10 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTATAAAA
Found at i:78990038 original size:19 final size:19
Alignment explanation
Indices: 78990014--78990050 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
78990004 TTAATTTTTT
78990014 AAAAATTTATAAAATTTAA
1 AAAAATTTATAAAATTTAA
78990033 AAAAATTTATAAAATTTA
1 AAAAATTTATAAAATTTA
78990051 TTTTATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTTATAAAATTTAA
Found at i:78993530 original size:23 final size:21
Alignment explanation
Indices: 78993491--78993542 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
78993481 TATAAATTAA
*
78993491 TAAAATTTAAAAGTTTAGTAG
1 TAAAATTTAAAAATTTAGTAG
78993512 TAAAATTCATAAAAATTTAGTA-
1 TAAAATT--TAAAAATTTAGTAG
*
78993534 TCAAATTTA
1 TAAAATTTA
78993543 CTCATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.07
21 7 0.26
22 6 0.22
23 12 0.44
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (21 bp):
TAAAATTTAAAAATTTAGTAG
Found at i:78993912 original size:24 final size:24
Alignment explanation
Indices: 78993885--78993935 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
78993875 TTTTAAATAA
78993885 GTAATTGAAATTAATAAATTTTAC
1 GTAATTGAAATTAATAAATTTTAC
78993909 GTAATTGAAATTAATAAATTTTAC
1 GTAATTGAAATTAATAAATTTTAC
78993933 GTA
1 GTA
78993936 TAATATTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (24 bp):
GTAATTGAAATTAATAAATTTTAC
Found at i:78994641 original size:13 final size:13
Alignment explanation
Indices: 78994623--78994648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78994613 AATATTGCAT
78994623 GAAAATTTTTATC
1 GAAAATTTTTATC
78994636 GAAAATTTTTATC
1 GAAAATTTTTATC
78994649 AATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GAAAATTTTTATC
Found at i:78995128 original size:20 final size:22
Alignment explanation
Indices: 78995103--78995145 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
78995093 TGCAGCAAAT
*
78995103 TGAAAG-TTTTTGATAGA-AAA
1 TGAAAGATTATTGATAGATAAA
78995123 TGAAAGATTATTGATAGATAAA
1 TGAAAGATTATTGATAGATAAA
78995145 T
1 T
78995146 CACTTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (22 bp):
TGAAAGATTATTGATAGATAAA
Found at i:78995863 original size:33 final size:33
Alignment explanation
Indices: 78995826--78996040 Score: 148
Period size: 33 Copynumber: 6.6 Consensus size: 33
78995816 TACCCAAATG
**
78995826 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* *
78995859 GTAC-ACTTGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* * * * * * *
78995891 ATACCA-TATGAATAGGAAAGGTATACTATATGT
1 GTACAACT-TGAAAAGGAAATGTACACTTTGTGT
* ** * * *
78995924 GTAC-ACTTGAAAACGTTATGTGCATTTTGAGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* ** *
78995956 GTACAAATTGAAAAGGGTATGTACACTTCGTGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
* * * * * *
78995989 GTACCACTTGAAAAGGGAATGTGCACCTCGAGT
1 GTACAACTTGAAAAGGAAATGTACACTTTGTGT
*
78996022 GTACAACTAGAAAAGGAAA
1 GTACAACTTGAAAAGGAAA
78996041 AGTCCATTGG
Statistics
Matches: 142, Mismatches: 36, Indels: 8
0.76 0.19 0.04
Matches are distributed among these distances:
32 47 0.33
33 95 0.67
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (33 bp):
GTACAACTTGAAAAGGAAATGTACACTTTGTGT
Found at i:78997374 original size:50 final size:50
Alignment explanation
Indices: 78997319--78997477 Score: 230
Period size: 50 Copynumber: 3.2 Consensus size: 50
78997309 CTGATCACAT
*
78997319 TTATCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCA-
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
78997369 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
78997419 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
78997470 TTGTCACT
1 TTATCACT
78997478 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
49 16 0.16
50 61 0.61
51 23 0.23
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Done.