Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2319
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: 91249
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Found at i:39 original size:19 final size:18
Alignment explanation
Indices: 15--50 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5 ATCAGGAAAT
15 AAATAAGTGACATTGACTC
1 AAATAA-TGACATTGACTC
*
34 AAATAATTACATTGACT
1 AAATAATGACATTGACT
51 TAAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (18 bp):
AAATAATGACATTGACTC
Found at i:47 original size:18 final size:17
Alignment explanation
Indices: 24--59 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
14 TAAATAAGTG
24 ACATTGACTCAAATAATT
1 ACATTGACTCAAA-AATT
*
42 ACATTGACTTAAAAATT
1 ACATTGACTCAAAAATT
59 A
1 A
60 ATATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (17 bp):
ACATTGACTCAAAAATT
Found at i:243 original size:17 final size:18
Alignment explanation
Indices: 212--245 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
202 TGAATGTATC
*
212 AAAATTTTTATAAATATA
1 AAAATATTTATAAATATA
230 AAAATATTTA-AAATAT
1 AAAATATTTATAAATAT
246 GATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATTTATAAATATA
Found at i:263 original size:18 final size:19
Alignment explanation
Indices: 227--287 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
217 TTTTATAAAT
*
227 ATAAAAATATTTAAAATATG
1 ATAAAAATATAT-AAATATG
*
247 ATAAAAATA-ATAAATATA
1 ATAAAAATATATAAATATG
**
265 ATATTAATATATAAAT-TG
1 ATAAAAATATATAAATATG
283 ATAAA
1 ATAAA
288 TCTAACATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 17 0.52
19 7 0.21
20 9 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAAAATATATAAATATG
Found at i:449 original size:12 final size:12
Alignment explanation
Indices: 434--479 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
424 AATTTAAAAT
*
434 TTTATTTTATTA
1 TTTATTATATTA
446 TTTATTATATTA
1 TTTATTATATTA
**
458 -TTAAAATATTA
1 TTTATTATATTA
469 TTT-TTATATTA
1 TTTATTATATTA
480 ATATTTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 15 0.54
12 13 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTATTATATTA
Found at i:452 original size:28 final size:30
Alignment explanation
Indices: 398--472 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 30
388 TGATTTAAAA
398 ATTTTAAAA-TTT-TTTTACTATCAATTA-
1 ATTTTAAAATTTTATTTTACTATCAATTAT
* **
425 A-TTTAAAATTTTATTTTATTATTTATTAT
1 ATTTTAAAATTTTATTTTACTATCAATTAT
*
454 ATTATTAAAATATTATTTT
1 ATT-TTAAAATTTTATTTT
473 TATATTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.18
27 4 0.10
28 12 0.31
29 1 0.03
30 1 0.03
31 14 0.36
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTTAAAATTTTATTTTACTATCAATTAT
Found at i:489 original size:23 final size:23
Alignment explanation
Indices: 436--501 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
426 TTTAAAATTT
*
436 TATTT-TATTATTTATTATATTAT
1 TATTTATATTATTT-TTATATTAA
**
459 TA-AAATATTATTTTTATATTAA
1 TATTTATATTATTTTTATATTAA
481 TATTTATA-TATTTTTA-ATTAA
1 TATTTATATTATTTTTATATTAA
502 AATTAAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 5 0.14
22 18 0.50
23 13 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTATATTATTTTTATATTAA
Found at i:1690 original size:18 final size:18
Alignment explanation
Indices: 1669--1705 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1659 AATATGAATA
1669 TAAAATAAATGTA-TAAAT
1 TAAAATAAAT-TATTAAAT
1687 TAAAATAAATTATTAAAT
1 TAAAATAAATTATTAAAT
1705 T
1 T
1706 TTGAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAAATAAATTATTAAAT
Found at i:2210 original size:19 final size:19
Alignment explanation
Indices: 2188--2244 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
2178 ATAAAAATTG
2188 ATTTATAAATTAAAATAAA
1 ATTTATAAATTAAAATAAA
*
2207 ATTT-T-AATGAAAAGTAAAA
1 ATTTATAAATTAAAA-T-AAA
*
2226 ATTTA-AAAATAAAATAAA
1 ATTTATAAATTAAAATAAA
2244 A
1 A
2245 ATTGATTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
17 7 0.23
18 6 0.19
19 12 0.39
20 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
ATTTATAAATTAAAATAAA
Found at i:2233 original size:61 final size:62
Alignment explanation
Indices: 2136--2262 Score: 193
Period size: 61 Copynumber: 2.1 Consensus size: 62
2126 TATTATAAGT
* *
2136 TTAAAATGAAATTTCAATGAAAAGTAAGAACATAAAAATAAAATAAAAATTGATTTA-TAAA
1 TTAAAATAAAATTTCAATGAAAAGTAAAAACATAAAAATAAAATAAAAATTGATTTAGTAAA
* ** *
2197 TTAAAATAAAATTTTAATGAAAAGTAAAAATTTAAAAATAAAATAAAAATTGATTTAGTAAT
1 TTAAAATAAAATTTCAATGAAAAGTAAAAACATAAAAATAAAATAAAAATTGATTTAGTAAA
2259 TTAA
1 TTAA
2263 TTTTTAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 52 0.88
62 7 0.12
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (62 bp):
TTAAAATAAAATTTCAATGAAAAGTAAAAACATAAAAATAAAATAAAAATTGATTTAGTAAA
Found at i:2245 original size:19 final size:19
Alignment explanation
Indices: 2168--2247 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 19
2158 AGTAAGAACA
2168 TAAAAATAAAATAAAAATTGATT
1 TAAAAATAAAAT-AAAA---ATT
* *
2191 TATAAATTAAAATAAAATTT
1 TA-AAAATAAAATAAAAATT
** *
2211 TAATGA-AAAGTAAAAATT
1 TAAAAATAAAATAAAAATT
2229 TAAAAATAAAATAAAAATT
1 TAAAAATAAAATAAAAATT
2248 GATTTAGTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
18 14 0.31
19 12 0.27
20 4 0.09
23 6 0.13
24 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
TAAAAATAAAATAAAAATT
Found at i:2973 original size:18 final size:20
Alignment explanation
Indices: 2929--2982 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
2919 ATATAAAAAA
*
2929 TTATGTTATATTTAAATATAT
1 TTATATTATATTTAAA-ATAT
2950 TT-TATTAT-TTTAAAAT-T
1 TTATATTATATTTAAAATAT
2967 TTATATT-TATTTAAAA
1 TTATATTATATTTAAAA
2983 AATTATATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.13
18 13 0.43
19 6 0.20
20 5 0.17
21 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATATTATATTTAAAATAT
Found at i:2988 original size:18 final size:18
Alignment explanation
Indices: 2922--2990 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
2912 AAAGCAAATA
*
2922 TAAAAAATTATGTTATATT
1 TAAAAAATTATATT-TATT
* *
2941 TAAATATATTTTA-TTATTT
1 TAAA-AAATTATATTTA-TT
**
2960 TAAAATTTTATATTTATT
1 TAAAAAATTATATTTATT
2978 TAAAAAATTATAT
1 TAAAAAATTATAT
2991 CTTTATCTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 21 0.52
19 14 0.35
20 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
TAAAAAATTATATTTATT
Found at i:3362 original size:28 final size:26
Alignment explanation
Indices: 3305--3363 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
3295 TTTTTTAGTC
*
3305 AATAAATTTTATTATATAATAAATAT
1 AATAAATTTTATTATATAAAAAATAT
* *
3331 -ATAAATTTTATTTTAATAAAATAATTT
1 AATAAATTTTATTAT-ATAAAA-AATAT
3358 AATAAA
1 AATAAA
3364 CATATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 13 0.48
26 5 0.19
27 4 0.15
28 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATAAATTTTATTATATAAAAAATAT
Found at i:6398 original size:14 final size:14
Alignment explanation
Indices: 6381--6409 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6371 ACTATTATTA
6381 TAATATTTTTATAT
1 TAATATTTTTATAT
6395 TAATATTTTTATAT
1 TAATATTTTTATAT
6409 T
1 T
6410 TTTATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATATTTTTATAT
Found at i:6401 original size:22 final size:22
Alignment explanation
Indices: 6366--6420 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
6356 TATTTTACTA
* *
6366 TTTATACTATTATTATAATATT
1 TTTATATTAATATTATAATATT
* *
6388 TTTATATTAATATTTTTATATT
1 TTTATATTAATATTATAATATT
6410 TTTATAATTAA
1 TTTAT-ATTAA
6421 ATTTAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATATTAATATTATAATATT
Found at i:6424 original size:22 final size:22
Alignment explanation
Indices: 6383--6424 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
6373 TATTATTATA
6383 ATATTTTTATATTAATATTTTT
1 ATATTTTTATATTAATATTTTT
6405 ATATTTTTATAATTAA-ATTT
1 ATATTTTTAT-ATTAATATTT
6425 AAATAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTTTTATATTAATATTTTT
Found at i:7802 original size:15 final size:17
Alignment explanation
Indices: 7764--7796 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7754 ATGCAAAAAA
7764 TAAAATAAAATATAATT
1 TAAAATAAAATATAATT
7781 TAAAATAAAATA-AATT
1 TAAAATAAAATATAATT
7797 AGAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATAAAATATAATT
Found at i:8330 original size:146 final size:147
Alignment explanation
Indices: 8038--8325 Score: 408
Period size: 146 Copynumber: 2.0 Consensus size: 147
8028 CTAAAATCAA
* *
8038 TATGACATGAAAACTAATACGAAAGAGAATATATGAAAAATTAACATGAATACACAATATATATC
1 TATGACATGAAAACTAATACGAAAGAGAATATATGAAAAAATAACACGAATACACAATATATATC
* * *
8103 TAGTAAATATTTAAAAATTTTGTTTATTCGGGTTTTGAGACATTTGTGTATATAGATTCGTGTTA
66 TAGTAAATATTTAAAAATTTTGTTTATTCGAGTTTTGAGACATTTATGTATATAGATTC-TATTA
*
8168 TTTTTTTATGTCATATTG
130 TTTTTTTATATCATATTG
* * *
8186 TATGACATGAAAACTAATACGAAGGCGAATATAT-AAAAAATAACACGAATACACAATAT-TATT
1 TATGACATGAAAACTAATACGAAAGAGAATATATGAAAAAATAACACGAATACACAATATATATC
* * * *
8249 TAGTAAATATTTAAAAATTTTGTTTATTTGAGTTTTGAGATATTTATGTAT-TTGA--AT-TTAT
66 TAGTAAATATTTAAAAATTTTGTTTATTCGAGTTTTGAGACATTTATGTATATAGATTCTATTAT
8310 TTTTTTATATCATATT
131 TTTTTTATATCATATT
8326 ATATTTTAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
141 19 0.15
142 1 0.01
145 3 0.02
146 50 0.39
147 23 0.18
148 32 0.25
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (147 bp):
TATGACATGAAAACTAATACGAAAGAGAATATATGAAAAAATAACACGAATACACAATATATATC
TAGTAAATATTTAAAAATTTTGTTTATTCGAGTTTTGAGACATTTATGTATATAGATTCTATTAT
TTTTTTATATCATATTG
Found at i:8754 original size:20 final size:20
Alignment explanation
Indices: 8723--8797 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
8713 TTTTACCCAG
8723 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
8743 ATATATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
8763 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
8783 ATGTATCGATACATT
1 ATGTATCGATACATT
8798 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:8783 original size:40 final size:39
Alignment explanation
Indices: 8723--8800 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
8713 TTTTACCCAG
*
8723 ATGTATCGATACATTTTTCAATATATCAATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCAATACAT-TATGA
* * *
8763 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCAATACATTATG
8801 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCAATACATTATGA
Found at i:16177 original size:10 final size:9
Alignment explanation
Indices: 16152--16176 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16142 TAAAAAAAAG
16152 AAAAAAACC
1 AAAAAAACC
16161 AAAAAAACC
1 AAAAAAACC
16170 AAAAAAA
1 AAAAAAA
16177 AAAACCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACC
Found at i:17420 original size:82 final size:83
Alignment explanation
Indices: 17225--18581 Score: 844
Period size: 82 Copynumber: 15.8 Consensus size: 83
17215 GGCATTTTCT
** * *
17225 TTTAAAGTCCACAACTTTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
*
17289 CACAACTCCGTGGCATCCT
66 CACAACTCCGTGGCA-CCC
* * * *
17308 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTTCGTGGCATCGTTTT-AAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
*
17372 CACAACTCCGTGGTACCC
66 CACAACTCCGTGGCACCC
* *
17390 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTT-AAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
* *
17454 CACAACTTCGTGGCACTC
66 CACAACTCCGTGGCACCC
*
17472 TTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
* * *
17537 CACAACTCCATGGCATCG
66 CACAACTCCGTGGCACCC
* * * *
17555 TTTTAAGTCCACAACTTCATGGTACCC-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
* *
17619 CACAACTCCGTGGCATCG
66 CACAACTCCGTGGCACCC
* * * *
17637 TTTTAAGTCCACAAGTCCGTGGCACCC-TTTAAAGTCCACAACTCTGTGACACCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
17701 CACAACTCCGTGGCACCC
66 CACAACTCCGTGGCACCC
* * * * * * * * *
17719 TTTTAAGTTCACAACTTCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAG-T
* * *
17784 CACACAAGTCGGTGGCAACCTA
65 C-CACAACTCCGTGGC-ACC-C
* * * * * * *
17806 TTTCAAAGCCCAGACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTT-AAAGTCC--ACAACTCCGTGGC-ACCC-TTTTAAAG-TC-CACAACTCCGTGGC-ACCC-T
* * * *
17871 TTCAAAGTCCACAAATCAGTGGTACCC
57 TTTAAAGTCCACAACTCCGTGGCACCC
* * * * * * *
17898 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTT-AAAG-TC-CACAACTCCGTGGC-ACCC-TTTTAAAG-TC-CACAACTCCGTGGC-ACCC-T
* * * *
17963 TTCAAAGCCCACAAATCAGTGGCACCC
57 TTTAAAGTCCACAACTCCGTGGCACCC
* * * * * * * *
17990 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCGGTGGCAACCCATTTCAAA
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGC-ACCC-TTTTAAA
* * *
18055 GCCCACAAATCAGTGGCACCC
63 GTCCACAACTCCGTGGCACCC
* * * * * * * *
18076 TTTCAAA-CCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAATCAGTGGCACCCTTTCAAAGC
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
* ** *
18140 CCACAAGTTAGTGGCACTCT
65 CCACAACTCCGTGGCAC-CC
* * * * * ** * * *
18160 TTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTAGCATCCTTTCA
1 TTT-AAAGTCCACA--ACTCCGTGGC-ACCCTTTT-AAAGTCCACAACTCCGTGGCACCCTTTTA
** * * * * *
18225 AAACCCACGAGTCGGTGGCAATACT
61 AAGTCCACAACTCCGTGGC-A-CCC
* * * * * * * * * *
18250 TTTCAAAGCCCACAAGT-CATGGTATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
* * *
18313 CCACAAGTCAGTGGCACTCT
65 CCACAACTCCGTGGCAC-CC
* * * * * * * *
18333 TTTCAAAGCCCACACGAGTCGGTGGCCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
1 TTT-AAAGTCCACA--ACTCCGTGG-CACCCTTTT-AAAGTCCACAACTCCGTGGCACCCTTTTA
* * *
18398 AAGCCCACAAGT-CGATGGCAACACT
61 AAGTCCACAACTCCG-TGGC-AC-CC
* * * * * * * *
18423 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAG
1 TTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAAG
* *
18487 CTCACACAAGTCGGTGGCAACCC
64 -TC-CACAACTCCGTGGC-ACCC
* * * * * * * * * * *
18510 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACCATTTCAAAG
1 -TTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAG
*
18575 CCCACAA
64 TCCACAA
18582 GTCAGCGGCA
Statistics
Matches: 1116, Mismatches: 117, Indels: 79
0.85 0.09 0.06
Matches are distributed among these distances:
82 286 0.26
83 158 0.14
84 50 0.04
85 94 0.08
86 97 0.09
87 34 0.03
88 131 0.12
89 60 0.05
90 58 0.05
91 5 0.00
92 99 0.09
93 7 0.01
94 25 0.02
95 5 0.00
96 7 0.01
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.24
Consensus pattern (83 bp):
TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
CACAACTCCGTGGCACCC
Found at i:17553 original size:192 final size:192
Alignment explanation
Indices: 17223--17787 Score: 891
Period size: 192 Copynumber: 2.9 Consensus size: 192
17213 GTGGCATTTT
** *
17223 CTTTTAAAGTCCACAACTTTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-TCCTTTTAAAG
1 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGCACT-C-TTTAAAG
* * *
17287 TCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATT
64 TCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACT
17352 TCGTGGCATCGTTTTAAGTCCACAACTCCGTGGTACCCTTTAAAGTCCACAACTCCGTGGCACC
129 TCGTGGCATCGTTTTAAGTCCACAACTCCGTGGTACCCTTTAAAGTCCACAACTCCGTGGCACC
*
17416 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTTCGTGGCACTCTTTAAAGTC
1 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGCACTCTTTAAAGTC
*
17481 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCC
66 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTC
* * *
17546 ATGGCATCGTTTTAAGTCCACAACTTCATGGTACCCTTTAAAGTCCACAACTCCGTGGCACC
131 GTGGCATCGTTTTAAGTCCACAACTCCGTGGTACCCTTTAAAGTCCACAACTCCGTGGCACC
* *
17608 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAAGTCCGTGGCACCCTTTAAAGTC
1 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGCACTCTTTAAAGTC
* *
17673 CACAACTCTGTGACACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTTCACAACTTC
66 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTC
* * * * * *
17737 GTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACA
131 GTGGCAT-CGTTTTAAGTCCACAACTCCGTGGTACCC-TTTAAAGTCCACA
17788 CAAGTCGGTG
Statistics
Matches: 343, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
191 18 0.05
192 262 0.76
193 62 0.18
194 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (192 bp):
CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCACAACTCCGTGGCACTCTTTAAAGTC
CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTC
GTGGCATCGTTTTAAGTCCACAACTCCGTGGTACCCTTTAAAGTCCACAACTCCGTGGCACC
Found at i:18052 original size:58 final size:56
Alignment explanation
Indices: 17243--18656 Score: 1075
Period size: 55 Copynumber: 24.6 Consensus size: 56
17233 CCACAACTTT
* * * * * * * * * *
17243 GTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * * * *
17298 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAATTTC-
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA-GTCA
* * * * * * * * * *
17354 GTGGCATCGTTT-TAAGTCCACAACTCCGTGGTACCCTTT-AAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * * * * *
17408 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTT-TAAGTCCACAACTTC-
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA-GTCA
* * * * * * * *
17463 GTGGCACTCTTT-AAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * * * *
17518 GTGGCACCCTTTTAAAGTCCACAACTCCA-TGGCATCGTTT-TAAGTCCACAACTTCA
1 GTGGCACCCTTTCAAAGCCCACAAGT-CAGTGGCACCCTTTCAAAGCCCACAA-GTCA
* * * * * * * *
17574 -TGGTACCCTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * * * *
17628 GTGGCATCGTTT-TAAGTCCACAAGTCCGTGGCACCCTTT-AAAGTCCACAACTCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * * ** *
17682 GTGACACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTT-TAAGTTCACAACTTC-
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA-GTCA
* ** * *
17737 GTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTCG
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCA
* * * *
17795 GTGGCAACCTATTTCAAAGCCCAGACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCG
1 GTGGC-ACC-CTTTCAAAGCCC--ACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCA
* * * *
17859 GTGGCAACCCATTTCAAAGTCCACAAATCAGTGGTACCCTTTCAAAGCCCACACAAGTCG
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCA
* * *
17919 GTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAATCA
1 GTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTCA
*
17981 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCG
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
*
18037 GTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAA-CCCACAAGTCA
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
18094 GTGGCACCCTTTTAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
18150 GTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
1 GTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTCA
* * * * * * *
18211 GTAGCATCCTTTCAAAACCCACGAGTCGGTGGCAATACTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A-CCCTTTCAAAGCCCACAAGTCA
* *
18269 -TGGTATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* *
18323 GTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCCACCCTTTTCAAAGCCCACAAGTCA
1 GTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGG-CACCC-TTTCAAAGCCCACAAGTCA
* *
18384 GTGGCATCCTTTCAAAGCCCACAAGTC-GATGGCAACACTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCAG-TGGC-AC-CCTTTCAAAGCCCACAAGTCA
* * *
18442 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCTCACACAAGTCG
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC-C-CACAAGTCA
* *
18500 GTGGCAACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCA
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * * **
18558 GTGGCACCATTTCAAAGCCCACAAGTCAGCGGCACTCTTTTCAAAGCCCACACGAGTTG
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCA
* *
18617 GTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 GTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCACC
18657 ATTTTTTTTT
Statistics
Matches: 1170, Mismatches: 128, Indels: 115
0.83 0.09 0.08
Matches are distributed among these distances:
53 3 0.00
54 104 0.09
55 280 0.24
56 173 0.15
57 90 0.08
58 178 0.15
59 33 0.03
60 132 0.11
61 58 0.05
62 48 0.04
63 24 0.02
64 47 0.04
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (56 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:18086 original size:27 final size:28
Alignment explanation
Indices: 17243--18656 Score: 1075
Period size: 28 Copynumber: 49.3 Consensus size: 28
17233 CCACAACTTT
* * * * *
17243 GTGGCATCCTTT-TAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
17270 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
17298 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
17326 GTGGCACCCTTTTAAAGTCCACAATTTC-
1 GTGGCACCCTTTCAAAGCCCACAA-GTCA
* * * * * *
17354 GTGGCATCGTTT-TAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
17381 GTGGTACCCTTT-AAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
17408 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
17436 GTGGCATCGTTT-TAAGTCCACAACTTC-
1 GTGGCACCCTTTCAAAGCCCACAA-GTCA
* * * *
17463 GTGGCACTCTTT-AAAGTCCACAACTCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
17490 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
17518 GTGGCACCCTTTTAAAGTCCACAACTCCA
1 GTGGCACCCTTTCAAAGCCCACAAGT-CA
* * * * *
17547 -TGGCATCGTTT-TAAGTCCACAACTTCA
1 GTGGCACCCTTTCAAAGCCCACAA-GTCA
* * * *
17574 -TGGTACCCTTT-AAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
17600 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
17628 GTGGCATCGTTT-TAAGTCCACAAGTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
17655 GTGGCACCCTTT-AAAGTCCACAACTCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
17682 GTGACACCCTTTTAAAGTCCACAACTCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* ** *
17710 GTGGCACCCTTT-TAAGTTCACAACTTC-
1 GTGGCACCCTTTCAAAGCCCACAA-GTCA
* **
17737 GTGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
17765 GTGGCACCCTTTTAAAGCCCACACAAGTCG
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
* *
17795 GTGGCAACCTATTTCAAAGCCCAGACAAGTCG
1 GTGGC-ACC-CTTTCAAAGCCC--ACAAGTCA
* *
17827 GTGGCAACCCATTTGAAAGCCCACACAAGTCG
1 GTGGC-ACCC-TTTCAAAG-CC-CACAAGTCA
* *
17859 GTGGCAACCCATTTCAAAGTCCACAAATCA
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCA
* *
17889 GTGGTACCCTTTCAAAGCCCACACAAGTCG
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
* *
17919 GTGGCAACCCATTTGAAAGCCCACACAAGTCG
1 GTGGC-ACCC-TTTCAAAG-CC-CACAAGTCA
*
17951 GTGGCAACCCATTTCAAAGCCCACAAATCA
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCA
17981 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
18009 GTGGCACCCTTTCAAAGCCCACAAGTCG
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
18037 GTGGCAACCCATTTCAAAGCCCACAAATCA
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCA
18067 GTGGCACCCTTTCAAA-CCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
18094 GTGGCACCCTTTTAAAGCCCACAAATCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
18122 GTGGCACCCTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
18150 GTGGCACTCTTTTCAAAGCCCACACGAGTCG
1 GTGGCAC-CCTTTCAAAGCCCACA--AGTCA
*
18181 GTGGCAACCCTTTTCAAAGCCCACAAGTTA
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCA
* * * * *
18211 GTAGCATCCTTTCAAAACCCACGAGTCG
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
18239 GTGGCAATACTTTTCAAAGCCCACAAGTCA
1 GTGGC-A-CCCTTTCAAAGCCCACAAGTCA
* *
18269 -TGGTATCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
18296 GTGGCACCCTTTCAAAG-CCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
18323 GTGGCACTCTTTTCAAAGCCCACACGAGTCG
1 GTGGCAC-CCTTTCAAAGCCCACA--AGTCA
18354 GTGGCCACCCTTTTCAAAGCCCACAAGTCA
1 GTGG-CACCC-TTTCAAAGCCCACAAGTCA
*
18384 GTGGCATCCTTTCAAAGCCCACAAGTC-
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
18411 GATGGCAACACTTTTCAAAGCCCACAAGTCA
1 G-TGGC-AC-CCTTTCAAAGCCCACAAGTCA
18442 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
18470 GTGGCATCTTTTCAAAGCTCACACAAGTCG
1 GTGGCACCCTTTCAAAGC-C-CACAAGTCA
18500 GTGGCAACCCTTTTCAAAGCCCACAAGTCA
1 GTGGC-ACCC-TTTCAAAGCCCACAAGTCA
* *
18530 GTGGCATCCTTTCAAAGCCCATAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
18558 GTGGCACCATTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * **
18586 GCGGCACTCTTTTCAAAGCCCACACGAGTTG
1 GTGGCAC-CCTTTCAAAGCCCACA--AGTCA
* *
18617 GTGGCAACTCTTTTCAAAGCCCACACAAGTTA
1 GTGGC-AC-CCTTTCAAAG-CC-CACAAGTCA
18649 GTGGCACC
1 GTGGCACC
18657 ATTTTTTTTT
Statistics
Matches: 1196, Mismatches: 132, Indels: 115
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.01
27 267 0.22
28 485 0.41
29 75 0.06
30 152 0.13
31 43 0.04
32 159 0.13
33 4 0.00
34 5 0.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:18353 original size:173 final size:172
Alignment explanation
Indices: 17393--18656 Score: 1009
Period size: 174 Copynumber: 7.3 Consensus size: 172
17383 GGTACCCTTT
* * * * * * * * * * *
17393 AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTT-TAAGTCCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
* * * * * * * *
17457 AACTTC-GTGGCA-CTCTTT-AAAGTCCACA-ACTCTGTGGCACCCTTTTAAAGTCCACAACTCC
66 AA-GTCAGTGGCACCT-TTTCAAAGCCCACACAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
17518 GTGGCACCC-TTTTAAAGTCCACAACTCCA-TGGC-AT-CGTTTT-
129 GTGGCACCCATTTCAAAGCCCACAAGT-CAGTGGCAATAC-TTTTC
* * * * * * * *
17559 -AAGTCCACAACTTCA-TGGTACCCTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCA
1 AAAGCCCACAA-GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * * * * * *
17621 CAACTCCGTGGCATCGTTTT--AAGTCCACA-AGTCCGTGGCACCCTTT-AAAGTCCACAACTCT
65 CAAGTCAGTGGCA-CCTTTTCAAAGCCCACACAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * **
17682 GTGACACCC-TTTTAAAGTCCACAACTCCGTGGC-ACCCTTTT-
129 GTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAATACTTTTC
** * * ** *
17723 -AAGTTCACAACTTC-GTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCA
1 AAAGCCCACAA-GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-
* * *
17786 CACAAGTCGGTGGCAACCTATTTCAAAGCCCAGACAAGTCGGTGGCAACCCATTTGAAAGCCCAC
63 CACAAGTCAGTGGC-ACCT-TTTCAAAGCCCACAC-AGTCGGTGGC-ACCC-TTTCAAAG-CC-C
* * * *
17851 ACAAGTCGGTGGCAACCCATTTCAAAGTCCACAAATCAGTGG---TACCCTTTC
121 ACAAGTCAGTGGC-ACCCATTTCAAAGCCCACAAGTCAGTGGCAATA-CTTTTC
* * *
17902 AAAGCCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
1 AAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCA
* * *
17967 AAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACA-AGTCAGTGGCACCCTTTCAAAGCCCAC
58 AAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACACAGTCGGTGGCACCCTTTCAAAGCCCAC
* * * *
18031 AAGTCGGTGGCAACCCATTTCAAAGCCCACAAATCAGTGGC-A-CCCTTTC
123 AAGTCAGTGGC-ACCCATTTCAAAGCCCACAAGTCAGTGGCAATACTTTTC
* *
18080 AAA-CCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
*
18144 AAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGT
66 AAGTCAGTGGCAC-CTTTTCAAAGCCCACAC-AGTCGGTGGC-ACCC-TTTCAAAGCCCACAAGT
* * * * * *
18209 TAGTAGCATCC-TTTCAAAACCCACGAGTCGGTGGCAATACTTTTC
127 CAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAATACTTTTC
* *
18254 AAAGCCCACAAGTCA-TGGTATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
18317 AAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCCACCCTTTTCAAAGCCCACAAGT
66 AAGTCAGTGGCAC-CTTTTCAAAGCCCACAC-AGTCGGTGG-CACCC-TTTCAAAGCCCACAAGT
* *
18382 CAGTGGCATCC-TTTCAAAGCCCACAAGTC-GATGGCAACACTTTTC
127 CAGTGGCACCCATTTCAAAGCCCACAAGTCAG-TGGCAATACTTTTC
* *
18427 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCTCAC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC-C-C
* * * *
18492 ACAAGTCGGTGGCAACCCTTTTCAAAGCCCACA-AGTCAGTGGCATCCTTTCAAAGCCCATAAGT
64 ACAAGTCAGTGGC-A-CCTTTTCAAAGCCCACACAGTCGGTGGCACCCTTTCAAAGCCCACAAGT
* *
18556 CAGTGGCA-CCATTTCAAAGCCCACAAGTCAGCGGCACT-CTTTTC
127 CAGTGGCACCCATTTCAAAGCCCACAAGTCAGTGGCAATACTTTTC
** * *
18600 AAAGCCCACACGAGTTGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 AAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCACC
18657 ATTTTTTTTT
Statistics
Matches: 938, Mismatches: 98, Indels: 111
0.82 0.09 0.10
Matches are distributed among these distances:
163 1 0.00
164 97 0.10
165 89 0.09
166 6 0.01
167 15 0.02
168 4 0.00
169 24 0.03
170 26 0.03
171 12 0.01
172 41 0.04
173 156 0.17
174 163 0.17
175 41 0.04
176 14 0.01
177 33 0.04
178 78 0.08
179 38 0.04
180 10 0.01
181 6 0.01
182 19 0.02
183 3 0.00
184 19 0.02
185 5 0.01
186 25 0.03
187 6 0.01
188 7 0.01
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.22
Consensus pattern (172 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
AAGTCAGTGGCACCTTTTCAAAGCCCACACAGTCGGTGGCACCCTTTCAAAGCCCACAAGTCAGT
GGCACCCATTTCAAAGCCCACAAGTCAGTGGCAATACTTTTC
Found at i:19198 original size:20 final size:20
Alignment explanation
Indices: 19170--19244 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
19160 TTTTACCCAG
19170 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
19190 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
19210 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
19230 ATGTATCGATACATT
1 ATGTATCGATACATT
19245 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:19230 original size:40 final size:39
Alignment explanation
Indices: 19170--19247 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
19160 TTTTACCCAG
*
19170 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
19210 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
19248 TCTTTTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:22682 original size:22 final size:20
Alignment explanation
Indices: 22657--22703 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
22647 AGAGTTAAGT
*
22657 ATAAATGTTTTTCAAGCCACAA
1 ATAAATG-TTTTCAAG-CAAAA
22679 ATAAAATGTTTTCAAGCAAAA
1 AT-AAATGTTTTCAAGCAAAA
22700 ATAA
1 ATAA
22704 TCTAAAGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.09
21 6 0.26
22 10 0.43
23 5 0.22
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.30
Consensus pattern (20 bp):
ATAAATGTTTTCAAGCAAAA
Found at i:22703 original size:21 final size:23
Alignment explanation
Indices: 22659--22703 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
22649 AGTTAAGTAT
*
22659 AAATGTTTTTCAAGCCACAAATA
1 AAATGTTTTTCAAGCCAAAAATA
22682 AAATG-TTTTCAAG-CAAAAATA
1 AAATGTTTTTCAAGCCAAAAATA
22703 A
1 A
22704 TCTAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 8 0.38
23 5 0.24
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (23 bp):
AAATGTTTTTCAAGCCAAAAATA
Found at i:22939 original size:20 final size:20
Alignment explanation
Indices: 22914--22964 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
22904 TAATACATTA
*
22914 TATCGATACATGATGAATTG
1 TATCGATACATGATGAAATG
* *
22934 TATCGATACAAGGTGAAATG
1 TATCGATACATGATGAAATG
22954 TATCGATACAT
1 TATCGATACAT
22965 TAAGCCCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
TATCGATACATGATGAAATG
Found at i:25747 original size:23 final size:21
Alignment explanation
Indices: 25698--25748 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
25688 GATTTTCTGT
25698 TTTTATGTTATTTTTTATTAA
1 TTTTATGTTATTTTTTATTAA
25719 TATTTATG-TATTTTTATGATTAAA
1 T-TTTATGTTATTTTT-T-ATT-AA
25743 TTTTAT
1 TTTTAT
25749 TAAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 8 0.31
22 7 0.27
23 8 0.31
24 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTTATGTTATTTTTTATTAA
Found at i:25824 original size:27 final size:27
Alignment explanation
Indices: 25740--25830 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
25730 TTTTATGATT
* *
25740 AAATTTTATTAAAAATATTATTAAATAA
1 AAATTTTATTAAAAATATAATT-CATAA
* * * *
25768 TAATTTGAATAAAATAAATTTAAATTCATAA
1 AAATTT-TAT-TAA-AAATAT-AATTCATAA
25799 AAATTTTATTAAAAATATAATTCATAA
1 AAATTTTATTAAAAATATAATTCATAA
25826 AAATT
1 AAATT
25831 AAATTTATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
27 14 0.29
28 10 0.20
29 4 0.08
30 4 0.08
31 14 0.29
32 3 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (27 bp):
AAATTTTATTAAAAATATAATTCATAA
Found at i:25842 original size:16 final size:16
Alignment explanation
Indices: 25803--25844 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25793 TCATAAAAAT
25803 TTTATTAAAAATATAA
1 TTTATTAAAAATATAA
*
25819 TTCA-TAAAAAT-TAAA
1 TTTATTAAAAATAT-AA
25834 TTTATTAAAAA
1 TTTATTAAAAA
25845 AATTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.05
15 12 0.55
16 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTATTAAAAATATAA
Found at i:26108 original size:28 final size:28
Alignment explanation
Indices: 26077--26136 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
26067 ATTTTTTTAA
26077 TATAAAAATATTTAA-AATATTATATATT
1 TATAAAAA-ATTTAATAATATTATATATT
* * *
26105 TATATAAAATTTAATATTTTTATATATT
1 TATAAAAAATTTAATAATATTATATATT
26133 TATA
1 TATA
26137 TCATATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TATAAAAAATTTAATAATATTATATATT
Found at i:26123 original size:18 final size:20
Alignment explanation
Indices: 26089--26130 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26079 TAAAAATATT
26089 TAAAATATTATATATTTATA
1 TAAAATATTATATATTTATA
*
26109 TAAAAT-TTAATATTTTTATA
1 TAAAATATT-ATATATTTATA
26129 TA
1 TA
26131 TTTATATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAAATATTATATATTTATA
Found at i:26144 original size:11 final size:10
Alignment explanation
Indices: 26097--26163 Score: 68
Period size: 11 Copynumber: 6.7 Consensus size: 10
26087 TTTAAAATAT
26097 TATATATTTA
1 TATATATTTA
*
26107 TATAAAATTTA
1 TAT-ATATTTA
26118 -ATAT-TTT-
1 TATATATTTA
26125 TATATATTTA
1 TATATATTTA
26135 TATCATATTTA
1 TAT-ATATTTA
*
26146 TATTATATTTT
1 TA-TATATTTA
26157 TATATAT
1 TATATAT
26164 ATTTTTTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
8 7 0.15
9 4 0.08
10 13 0.27
11 23 0.48
12 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATATTTA
Found at i:26144 original size:28 final size:27
Alignment explanation
Indices: 26096--26149 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
26086 ATTTAAAATA
26096 TTATATATTTATATAAAATTTAATATTT
1 TTATATATTTATATAAAATTT-ATATTT
* *
26124 TTATATATTTATATCATATTTATATT
1 TTATATATTTATATAAAATTTATATT
26150 ATATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TTATATATTTATATAAAATTTATATTT
Found at i:26158 original size:13 final size:13
Alignment explanation
Indices: 26124--26174 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
26114 TTTAATATTT
*
26124 TTATATATTTATA
1 TTATATTTTTATA
*
26137 TCATA--TTTATA
1 TTATATTTTTATA
26148 TTATATTTTTATA
1 TTATATTTTTATA
26161 -TATATTTTTTATA
1 TTATA-TTTTTATA
26174 T
1 T
26175 CGAACTATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 10 0.31
12 4 0.12
13 18 0.56
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATTTTTATA
Found at i:26168 original size:11 final size:11
Alignment explanation
Indices: 26118--26174 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
26108 ATAAAATTTA
26118 ATATTTT-TAT
1 ATATTTTATAT
26128 ATA-TTTATAT
1 ATATTTTATAT
26138 CATA-TTTATATT
1 -ATATTTTATA-T
26150 ATATTTTTATAT
1 ATA-TTTTATAT
*
26162 ATATTTTTTAT
1 ATATTTTATAT
26173 AT
1 AT
26175 CGAACTATCT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 3 0.07
10 6 0.15
11 21 0.51
12 5 0.12
13 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
ATATTTTATAT
Found at i:27286 original size:17 final size:16
Alignment explanation
Indices: 27255--27288 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27245 AAAAACAAGC
*
27255 TTTTTTTTTTCTTTCT
1 TTTTTTTTTTATTTCT
27271 TTTTTTTTTTAATTTCT
1 TTTTTTTTTT-ATTTCT
27288 T
1 T
27289 AAGAAGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTATTTCT
Found at i:27429 original size:2 final size:2
Alignment explanation
Indices: 27422--27464 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
27412 AATCTTCTGA
*
27422 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27464 A
1 A
27465 AAATACATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:29432 original size:57 final size:57
Alignment explanation
Indices: 29344--29454 Score: 222
Period size: 57 Copynumber: 1.9 Consensus size: 57
29334 TTCATTCAAT
29344 ATGCTATTTCTAACTTTTTTTTTTGGTTCCTTTTTCCTGCGTGTAGATACCTGAATG
1 ATGCTATTTCTAACTTTTTTTTTTGGTTCCTTTTTCCTGCGTGTAGATACCTGAATG
29401 ATGCTATTTCTAACTTTTTTTTTTGGTTCCTTTTTCCTGCGTGTAGATACCTGA
1 ATGCTATTTCTAACTTTTTTTTTTGGTTCCTTTTTCCTGCGTGTAGATACCTGA
29455 CTGCCTTGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (57 bp):
ATGCTATTTCTAACTTTTTTTTTTGGTTCCTTTTTCCTGCGTGTAGATACCTGAATG
Found at i:32673 original size:2 final size:2
Alignment explanation
Indices: 32666--32716 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
32656 TGCATTGCAT
32666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32708 TA TA TA TA T
1 TA TA TA TA T
32717 TCTTTCATTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37756 original size:26 final size:23
Alignment explanation
Indices: 37707--37759 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 23
37697 ATATGATATT
37707 TATATTAAATATATTTTTAAATA
1 TATATTAAATATATTTTTAAATA
37730 TATATATAAATATAATTTTTTAAATA
1 TATAT-TAAATAT-A-TTTTTAAATA
37756 TATA
1 TATA
37760 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 5 0.19
24 7 0.26
25 1 0.04
26 14 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATTAAATATATTTTTAAATA
Found at i:38135 original size:16 final size:14
Alignment explanation
Indices: 38108--38141 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
38098 TGACATGCAG
38108 AAAAAAAAAAAAGA
1 AAAAAAAAAAAAGA
38122 AAAAGAAAAGAAAAGA
1 AAAA-AAAA-AAAAGA
38138 AAAA
1 AAAA
38142 CCCTTGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 4 0.22
16 10 0.56
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGA
Found at i:38825 original size:2 final size:2
Alignment explanation
Indices: 38816--38870 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
38806 TTTTTTTGTG
38816 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38857 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
38871 AAGCAAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:40881 original size:37 final size:36
Alignment explanation
Indices: 40819--40894 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
40809 TATAATATGA
*
40819 TATTTTTAATTATAATTAATTAAATATATTTAAT-ATT
1 TATTTTTAATTAAAATT-ATTAAA-ATATTTAATAATT
40856 TATTTTTAATTTAAAATT-TTAAAATATTTAATAATT
1 TATTTTTAA-TTAAAATTATTAAAATATTTAATAATT
40892 TAT
1 TAT
40895 ATTATATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
35 9 0.25
36 11 0.31
37 9 0.25
38 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (36 bp):
TATTTTTAATTAAAATTATTAAAATATTTAATAATT
Found at i:43705 original size:20 final size:20
Alignment explanation
Indices: 43651--43706 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
43641 TTTACCCAGA
43651 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGTTG-AT
43671 TGTATCGATACATTGCTTG-T
1 TGTATCGATACATTG-TTGAT
43691 TGTATCGATACATTGT
1 TGTATCGATACATTGT
43707 ATCGATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.03
20 30 0.88
22 3 0.09
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTGTTGAT
Found at i:43708 original size:13 final size:13
Alignment explanation
Indices: 43690--43717 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43680 ACATTGCTTG
43690 TTGTATCGATACA
1 TTGTATCGATACA
43703 TTGTATCGATACA
1 TTGTATCGATACA
43716 TT
1 TT
43718 CTGGATTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:46127 original size:51 final size:51
Alignment explanation
Indices: 46069--46236 Score: 232
Period size: 51 Copynumber: 3.3 Consensus size: 51
46059 TCATCTCAGG
* *
46069 GATACTCCAACCCC-AGTTTTATTTCCACAACATCAATTTTTCACAATCGGA
1 GATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTTTTCACAATCGGA
* * * *
46120 GATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCCATAATC-GA
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGA
* *
46170 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
1 -GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGA
46222 GATACTCCAACCCCG
1 GATACTCCAACCCCG
46237 GTATTTCATC
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
50 2 0.02
51 99 0.96
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGA
Found at i:46289 original size:29 final size:28
Alignment explanation
Indices: 46216--46294 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
46206 ATTTTTCACA
46216 ATCGGGGATACTCCAACCCCGGTATTTC
1 ATCGGGGATACTCCAACCCCGGTATTTC
*
46244 ATCGGGGATACTCCAACCCCGTTATTT-
1 ATCGGGGATACTCCAACCCCGGTATTTC
* *
46271 TTGAGGGGGATACTCCAACCCCGG
1 AT--CGGGGATACTCCAACCCCGG
46295 CTTTATTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 1 0.02
28 26 0.58
29 18 0.40
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGGTATTTC
Found at i:46393 original size:79 final size:80
Alignment explanation
Indices: 46244--46421 Score: 250
Period size: 79 Copynumber: 2.2 Consensus size: 80
46234 CCGGTATTTC
* * * * * *
46244 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
1 ATCGGGGATACTCCAACCCCCTTATTTTCGACGAGGATACTCCAACCCCAGCCTTATTCCTAAAA
*
46309 TATTGATTTCTCACA
66 CATTGATTTCTCACA
* * *
46324 ATCGGGGATACTCCAACCCCCTTATTTTCG-CGAGGATACTCCAACCCTAGCCTTATTTCTAAAG
1 ATCGGGGATACTCCAACCCCCTTATTTTCGACGAGGATACTCCAACCCCAGCCTTATTCCTAAAA
*
46388 CATTGATTTTTCACA
66 CATTGATTTCTCACA
46403 ATCGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
46422 TGGCTTTATT
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 59 0.68
80 28 0.32
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCCTTATTTTCGACGAGGATACTCCAACCCCAGCCTTATTCCTAAAA
CATTGATTTCTCACA
Found at i:46418 original size:51 final size:51
Alignment explanation
Indices: 46357--46473 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
46347 ATTTTCGCGA
* * *
46357 GGATACTCCAACCCTAGCCTTATTTCTAAAGCATTGATTTTTCACAATCGG
1 GGATACTCCAACCCTAGCCTTATTCCTAAAACATTGATTTCTCACAATCGG
* * *
46408 GGATACTCCAACCCTGGCTTTATTCCTAAAATATTGATTTCTCACAATCGG
1 GGATACTCCAACCCTAGCCTTATTCCTAAAACATTGATTTCTCACAATCGG
**
46459 AAATACTCCAACCCT
1 GGATACTCCAACCCT
46474 GTTATTTCCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCTAGCCTTATTCCTAAAACATTGATTTCTCACAATCGG
Found at i:46509 original size:130 final size:130
Alignment explanation
Indices: 46276--46527 Score: 400
Period size: 130 Copynumber: 1.9 Consensus size: 130
46266 TATTTTTGAG
**
46276 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGAAATACTCCAAC
* *
46341 CCCCTTATTTTCGCGAGGATACTCCAACCCTAGCCTTATTTCTAAAGCATTGATTTTTCACAATC
66 CCCCTTATTTCCGCGAGGATACTCCAACCCTAGCCTTATTTCTAAAGCATCGATTTTTCACAATC
*
46406 GGGGATACTCCAACCCTGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGAAATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGAAATACTCCAAC
** *
46471 CCTGTTATTTCCGCTG-GGATACTCCAATCCC-GGCCTTATTTCTAAAGCATCGATTTT
66 CCCCTTATTTCCGC-GAGGATACTCCAA-CCCTAGCCTTATTTCTAAAGCATCGATTTT
46528 CCACCTTATT
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
130 108 0.96
131 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGAAATACTCCAAC
CCCCTTATTTCCGCGAGGATACTCCAACCCTAGCCTTATTTCTAAAGCATCGATTTTTCACAATC
Found at i:46682 original size:154 final size:155
Alignment explanation
Indices: 46374--46680 Score: 501
Period size: 153 Copynumber: 2.0 Consensus size: 155
46364 CCAACCCTAG
* * * *
46374 CCTTATTTCTAAAGCATTGATTTTTCACAATCGGGGATACTCCAACCCTGGCTTTATTCCTAAAA
1 CCTTATTTCTAAAGCATCGA--TTTCACAATCGGAGACACTCCAACCCCGGCTTTATTCCTAAAA
* *
46439 TATTGATTTCTCACAATCGGAAATACTCCAACCCTGTTATTTCCGCTGGGATACTCCAATCCCGG
64 TATTGATTTCTCACAATCGGAAATACTCCAACCCTGTTATTTCCGCGGGGATACTCCAACCCCGG
46504 CCTTATTTCTAAAGCATCGATTTTCCA
129 CCTTATTTCTAAAGCATCGATTTTCCA
46531 CCTTATTTCTAAAGCATCGA-TTCACAATCGGAGACACTCCAACCCCGGCTTTATTCCTAAAATA
1 CCTTATTTCTAAAGCATCGATTTCACAATCGGAGACACTCCAACCCCGGCTTTATTCCTAAAATA
* * *
46595 TTGATTTCTTACAATCGG-GATACTCCAACCCTGTTATTTTCGCGGGGATACTCCAACCCCGGCC
66 TTGATTTCTCACAATCGGAAATACTCCAACCCTGTTATTTCCGCGGGGATACTCCAACCCCGGCC
46659 TTATTTCTAAAGCATCGATTTT
131 TTATTTCTAAAGCATCGATTTT
46681 TCACAATCGG
Statistics
Matches: 141, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
153 64 0.45
154 58 0.41
157 19 0.13
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.33
Consensus pattern (155 bp):
CCTTATTTCTAAAGCATCGATTTCACAATCGGAGACACTCCAACCCCGGCTTTATTCCTAAAATA
TTGATTTCTCACAATCGGAAATACTCCAACCCTGTTATTTCCGCGGGGATACTCCAACCCCGGCC
TTATTTCTAAAGCATCGATTTTCCA
Found at i:46701 original size:51 final size:51
Alignment explanation
Indices: 46637--46859 Score: 277
Period size: 51 Copynumber: 4.4 Consensus size: 51
46627 GTTATTTTCG
* *
46637 CGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAAT
1 CGGGGATACTCCAACCCCGGCCTTATTTCTAAATCATCGATTTCTCACAAT
* * * **
46688 CGGGGATACTCCAACCCCAGCTTTATTTCCAAAAT-ATTAATTTCTCACAAT
1 CGGGGATACTCCAACCCCGGCCTTATTT-CTAAATCATCGATTTCTCACAAT
* *
46739 CGGGGATACTTCAACCCCGGCCTTATTTCTAAATCATTGATTTCTCACAAT
1 CGGGGATACTCCAACCCCGGCCTTATTTCTAAATCATCGATTTCTCACAAT
* ** * ** *
46790 CAGGGATACTTTAATCCTTGCCTTATTTCTAAATCATCGATTTTTCACAAT
1 CGGGGATACTCCAACCCCGGCCTTATTTCTAAATCATCGATTTCTCACAAT
*
46841 CGAGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCG
46860 TTATTTTCGA
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
50 5 0.03
51 135 0.94
52 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (51 bp):
CGGGGATACTCCAACCCCGGCCTTATTTCTAAATCATCGATTTCTCACAAT
Found at i:46927 original size:79 final size:79
Alignment explanation
Indices: 46844--47011 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 79
46834 TCACAATCGA
* * * *
46844 GGATACTCCAACCCCGTTATTTTCGAGCG-GATACTCCAACCCCAATTTTATTTTCAAAATATCA
1 GGATACTCCAACCCCATTATTTCCGAG-GAGATACTCCAACCCCAATTTTATTTTCAAAACACCA
* * *
46908 ATTTTCTATAATTAG
65 ATTTCCCATAATCAG
** * * *
46923 GGATACTCCAACCGTATTATTTCCGAGGAGATACTCCAACCCTAATTTTATTTTCAGAACACCGA
1 GGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCCAATTTTATTTTCAAAACACCAA
46988 TTTCCCATAATCAG
66 TTTCCCATAATCAG
47002 GGATACTCCA
1 GGATACTCCA
47012 GCCCAGTTGT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
78 1 0.01
79 75 0.99
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACCCCATTATTTCCGAGGAGATACTCCAACCCCAATTTTATTTTCAAAACACCAA
TTTCCCATAATCAG
Found at i:55025 original size:21 final size:22
Alignment explanation
Indices: 55001--55068 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
54991 TGATAATATC
55001 AATA-AAAAATATTAACATTAT
1 AATATAAAAATATTAACATTAT
* * * *
55022 AATATATAAA-ATTAAGAATAC
1 AATATAAAAATATTAACATTAT
*
55043 AA-ATAAAAATAAATAACATTAT
1 AATATAAAAAT-ATTAACATTAT
55065 AATA
1 AATA
55069 AATTTAATCA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 6 0.18
21 14 0.41
22 13 0.38
23 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (22 bp):
AATATAAAAATATTAACATTAT
Found at i:55588 original size:2 final size:2
Alignment explanation
Indices: 55570--55619 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
55560 TGAAAGCATG
*
55570 AT AT A- AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55611 AT AT AT AT A
1 AT AT AT AT A
55620 CATAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:56572 original size:28 final size:28
Alignment explanation
Indices: 56541--56595 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
56531 TTAATTTAAG
56541 ATTTTATAAAATAAA-ATTATAATAAATT
1 ATTTTATAAAATAAATA-TATAATAAATT
56569 ATTTTATAAAATAAATATATAATAAAT
1 ATTTTATAAAATAAATATATAATAAAT
56596 CAATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
ATTTTATAAAATAAATATATAATAAATT
Found at i:58825 original size:456 final size:456
Alignment explanation
Indices: 57957--59060 Score: 1300
Period size: 456 Copynumber: 2.4 Consensus size: 456
57947 ATTCAAAATA
* * * * * * * *
57957 GATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCCTTGAGGTGGAAAGTTCTGATA
1 GATGCAAATTTTCGTCAAGACCTTGACTGGAAAGACCATCACACTGGAGGTAGAGAGTTCAGATA
* * *
58022 CCATTGATAATGTGAAGGCCAAGATCCAAGACAAGGAAGGAATCCCGCCAGACCAGCAAAGGCTG
66 CCATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCCGCCGGACCAGCAAAGGCTG
* * * * * *
58087 ATCTTTGCCGGTAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATTCAGAAGGAGTC
131 ATCTTTGCTGGTAAGCAACTTGAGGATGGCCGCACCCTCGCTGACTACAACATCCAGAAGGAGTC
* *
58152 CACACTCCACTTGGTCCTTCGATTGAGGGGTGGGATGCAAATTTTCGTGAAGACACTCACCGGAA
196 CACACTCCACTTGGTCCTCCGATTGAGGGGTGGGATGCAAATTTTCGTGAAGACACTAACCGGAA
* * * * * * * * * *
58217 AGACCATAACATTGGAGGTGGAGAGTTCTGATACTATTGACAATGTGAAGGCTAAGATTCAGGAC
261 AGACCATAACATTGGAAGTGGAAAGCTCTGACACAATTGACAACGTCAAGGCCAAAATTCAAGAC
* *
58282 AAGGAAGGCATTCCCCCGGACCAGCAGAGGTTGATCTTCGCTGGTAAGCAACTTGAAGATGGACG
326 AAGGAAGGCATTCCCCCAGACCAGCAGAGGCTGATCTTCGCTGGTAAGCAACTTGAAGATGGACG
* * * *
58347 CACCTTGGCTGATTACAACATCCAAAAGGAGTCCACACTCCACTTGGTGCTTCGCCTTCGTGGAG
391 CACCTTGGCAGATTACAACATCCAAAAGGAGTCAACACTCCACTTGGTGCTTCGCCTGCGCGGAG
58412 G
456 G
* *
58413 GATGCAAATTTTTGTCAAGACCTTGACTGGAAAGACCATTACACTGGAGGTAGAGAGTTCAGATA
1 GATGCAAATTTTCGTCAAGACCTTGACTGGAAAGACCATCACACTGGAGGTAGAGAGTTCAGATA
* * * * * *
58478 CCATTGACAATGTTAAGGCGAAGATCCAGGACAAGGAGGGTATTCCC-CCGGACCAGCAAAGGTT
66 CCATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGG-AATCCCGCCGGACCAGCAAAGGCT
* * *
58542 GATCTTCGCTGGTAAGCAACTTGAGGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGAGT
130 GATCTTTGCTGGTAAGCAACTTGAGGATGGCCGCACCCTCGCTGACTACAACATCCAGAAGGAGT
* * * * ** * * * * *
58607 CGACCCTCCATTTGGTGCTCCG-TCTTCGTGGTGGTATGCAGATTTTCGTTAAGACACTAACTGG
195 CCACACTCCACTTGGTCCTCCGAT-TGAGGGGTGGGATGCAAATTTTCGTGAAGACACTAACCGG
* * * *
58671 GAAGACCATTACCTTGGAAGTTGAAAGCTCTGACACAATTGACAACGTCAAGGCCAAAATTCAAG
259 AAAGACCATAACATTGGAAGTGGAAAGCTCTGACACAATTGACAACGTCAAGGCCAAAATTCAAG
* * * * * *
58736 ATAAGGAAGGTA-TCCCTCCAGACCAGCAGAGGCTGATTTTTGCTGGTAAGCAGCTTGAGGATGG
324 ACAAGGAAGGCATTCCC-CCAGACCAGCAGAGGCTGATCTTCGCTGGTAAGCAACTTGAAGAT-G
* * *
58800 GA-GGACCCTT-GCAGATTATAACATCCAAAAGGAGTCAACCCTCCACTTGGTGCTTCGCCTGCG
387 GACGCA-CCTTGGCAGATTACAACATCCAAAAGGAGTCAACACTCCACTTGGTGCTTCGCCTGCG
*
58863 CGGGGG
451 CGGAGG
* * * * * * * *
58869 GATGCAAATTTTCGTGAAGACCTTGACAGGAAAGACCATCACTCTGGAAGTTGAGAGCTCCGACA
1 GATGCAAATTTTCGTCAAGACCTTGACTGGAAAGACCATCACACTGGAGGTAGAGAGTTCAGATA
* * * * *
58934 CAATTGATAACGTCAAGGCCAAGATCCAGGATAAGGAAGGAATCCCTCCGGACCAACAAAGGCTG
66 CCATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCCGCCGGACCAGCAAAGGCTG
* * * ** * * *
58999 ATCTTTGCTGGGAAGCAACTCGAAGATGGGAGGACCCTCGCAGACTACAATATCCAGAAGGA
131 ATCTTTGCTGGTAAGCAACTTGAGGATGGCCGCACCCTCGCTGACTACAACATCCAGAAGGA
59061 ATCAACTTTA
Statistics
Matches: 542, Mismatches: 100, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
455 10 0.02
456 520 0.96
457 12 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (456 bp):
GATGCAAATTTTCGTCAAGACCTTGACTGGAAAGACCATCACACTGGAGGTAGAGAGTTCAGATA
CCATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCCGCCGGACCAGCAAAGGCTG
ATCTTTGCTGGTAAGCAACTTGAGGATGGCCGCACCCTCGCTGACTACAACATCCAGAAGGAGTC
CACACTCCACTTGGTCCTCCGATTGAGGGGTGGGATGCAAATTTTCGTGAAGACACTAACCGGAA
AGACCATAACATTGGAAGTGGAAAGCTCTGACACAATTGACAACGTCAAGGCCAAAATTCAAGAC
AAGGAAGGCATTCCCCCAGACCAGCAGAGGCTGATCTTCGCTGGTAAGCAACTTGAAGATGGACG
CACCTTGGCAGATTACAACATCCAAAAGGAGTCAACACTCCACTTGGTGCTTCGCCTGCGCGGAG
G
Found at i:59077 original size:228 final size:226
Alignment explanation
Indices: 57957--59087 Score: 1073
Period size: 228 Copynumber: 5.0 Consensus size: 226
57947 ATTCAAAATA
* * * *
57957 GATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCCTTGAGGTGGAAAGTTCTGATA
1 GATGCAAATTTTCGTCAAGA-CCTCACTGGAAAGACCATCACTCTGGAGGTGGAGAGTTCTGATA
* * * * *
58022 CCATTGATAATGTGAAGGCCAAGATCCAAGACAAGGAAGGAATCCCGCCAGACCAGCAAAGGCTG
65 CAATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCC-CCGGACCAGCAAAGGCTG
* * * ** * * * *
58087 ATCTTTGCCGGTAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATTCAGAAGGAGTC
129 ATCTTTGCTGGTAAGCAACTTGAGGATGGGAGCACCCTGGCTGACTACAACATCCAAAAGGAGTC
* * ** *
58152 CACACTCCACTTGGTCCTTCGATTGAG-GGGTGG
194 AACACTCCACTTGGTGCTTCGCCTGCGTGGG-GG
* * *
58185 GATGCAAATTTTCGTGAAGACACTCACCGGAAAGACCATAACAT-TGGAGGTGGAGAGTTCTGAT
1 GATGCAAATTTTCGTCAAGAC-CTCACTGGAAAGACCATCAC-TCTGGAGGTGGAGAGTTCTGAT
* * * * * * *
58249 ACTATTGACAATGTGAAGGCTAAGATTCAGGACAAGGAAGGCATTCCCCCGGACCAGCAGAGGTT
64 ACAATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGG-AATCCCCCGGACCAGCAAAGGCT
* * * *
58314 GATCTTCGCTGGTAAGCAACTTGAAGAT-GGACGCACCTTGGCTGATTACAACATCCAAAAGGAG
128 GATCTTTGCTGGTAAGCAACTTGAGGATGGGA-GCACCCTGGCTGACTACAACATCCAAAAGGAG
* * *
58378 TCCACACTCCACTTGGTGCTTCGCCTTCGTGGAGG
192 TCAACACTCCACTTGGTGCTTCGCCTGCGTGGGGG
* * * * * *
58413 GATGCAAATTTTTGTCAAGACCTTGACTGGAAAGACCATTACACTGGAGGTAGAGAGTTCAGATA
1 GATGCAAATTTTCGTCAAGACC-TCACTGGAAAGACCATCACTCTGGAGGTGGAGAGTTCTGATA
* * * * * *
58478 CCATTGACAATGTTAAGGCGAAGATCCAGGACAAGGAGGGTATTCCCCCGGACCAGCAAAGGTTG
65 CAATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGG-AATCCCCCGGACCAGCAAAGGCTG
* **
58543 ATCTTCGCTGGTAAGCAACTTGAGGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGAGTC
129 ATCTTTGCTGGTAAGCAACTTGAGGATGGGAGCACCCTGGCTGACTACAACATCCAAAAGGAGTC
* * * * * * *
58608 GACCCTCCATTTGGTGCTCCGTCTTCGTGGTGG
194 AACACTCCACTTGGTGCTTCGCCTGCGTGGGGG
* * * * * * * * * * *
58641 TATGCAGATTTTCGTTAAGACACTAACTGGGAAGACCATTAC-CTTGGAAGTTGAAAGCTCTGAC
1 GATGCAAATTTTCGTCAAGAC-CTCACTGGAAAGACCATCACTC-TGGAGGTGGAGAGTTCTGAT
* * * * * * * *
58705 ACAATTGACAACGTCAAGGCCAAAATTCAAGATAAGGAAGGTATCCCTCCAGACCAGCAGAGGCT
64 ACAATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCC-CCGGACCAGCAAAGGCT
* * * * * * *
58770 GATTTTTGCTGGTAAGCAGCTTGAGGATGGGAGGACCCTTGCAGATTATAACATCCAAAAGGAGT
128 GATCTTTGCTGGTAAGCAACTTGAGGATGGGAGCACCCTGGCTGACTACAACATCCAAAAGGAGT
* *
58835 CAACCCTCCACTTGGTGCTTCGCCTGCGCGGGGG
193 CAACACTCCACTTGGTGCTTCGCCTGCGTGGGGG
* * * * * * * *
58869 GATGCAAATTTTCGTGAAGACCTTGACAGGAAAGACCATCACTCTGGAAGTTGAGAGCTCCGACA
1 GATGCAAATTTTCGTCAAGACC-TCACTGGAAAGACCATCACTCTGGAGGTGGAGAGTTCTGATA
* * * *
58934 CAATTGATAACGTCAAGGCCAAGATCCAGGATAAGGAAGGAATCCCTCCGGACCAACAAAGGCTG
65 CAATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCC-CCGGACCAGCAAAGGCTG
* * * * * * * * *
58999 ATCTTTGCTGGGAAGCAACTCGAAGATGGGAGGACCCTCGCAGACTACAATATCCAGAAGGAATC
129 ATCTTTGCTGGTAAGCAACTTGAGGATGGGAGCACCCTGGCTGACTACAACATCCAAAAGGAGTC
** * *
59064 AACTTTACACTTGGTCCTTCGCCT
194 AACACTCCACTTGGTGCTTCGCCT
59088 CCGAGGTGGA
Statistics
Matches: 754, Mismatches: 136, Indels: 26
0.82 0.15 0.03
Matches are distributed among these distances:
227 9 0.01
228 735 0.97
229 10 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (226 bp):
GATGCAAATTTTCGTCAAGACCTCACTGGAAAGACCATCACTCTGGAGGTGGAGAGTTCTGATAC
AATTGACAATGTCAAGGCCAAGATCCAGGACAAGGAAGGAATCCCCCGGACCAGCAAAGGCTGAT
CTTTGCTGGTAAGCAACTTGAGGATGGGAGCACCCTGGCTGACTACAACATCCAAAAGGAGTCAA
CACTCCACTTGGTGCTTCGCCTGCGTGGGGG
Found at i:70953 original size:39 final size:39
Alignment explanation
Indices: 70893--71031 Score: 136
Period size: 39 Copynumber: 3.6 Consensus size: 39
70883 TGTATTGGTC
* * *
70893 ACATCTTTCAAATTTCAATAAAAAAATTATGCATTAGTT
1 ACATCTTTTAGATTTCAATAAAAAAATTATGCATTACTT
* * * * * *
70932 ATATCTGTTAGATTTTAATAAATAAATTATACATTACTA
1 ACATCTTTTAGATTTCAATAAAAAAATTATGCATTACTT
* *
70971 ACATCTTTTAGATTCCAAT-AAAGAATTCATGCATTACTT
1 ACATCTTTTAGATTTCAATAAAAAAATT-ATGCATTACTT
* * *
71010 ACATATTTTGGATTTTAATAAA
1 ACATCTTTTAGATTTCAATAAA
71032 TCTTAAACCT
Statistics
Matches: 77, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
38 6 0.08
39 69 0.90
40 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (39 bp):
ACATCTTTTAGATTTCAATAAAAAAATTATGCATTACTT
Found at i:71408 original size:21 final size:21
Alignment explanation
Indices: 71383--71432 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
71373 AAAATATTTT
71383 ATAAAAAAT-TTAATTATGAAA
1 ATAAAAAATATT-ATTATGAAA
* *
71404 ATAAAAAATATTATTATTATA
1 ATAAAAAATATTATTATGAAA
71425 ATAAAAAA
1 ATAAAAAA
71433 GTCTCTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAAAAAATATTATTATGAAA
Found at i:71542 original size:24 final size:26
Alignment explanation
Indices: 71491--71548 Score: 93
Period size: 24 Copynumber: 2.3 Consensus size: 26
71481 TGGGTGGCTA
*
71491 GTCAACAAAAGCCACCCTTTGTGTTT
1 GTCAACAAAAGCCACCCTATGTGTTT
71517 GTCAACAAAAGCCA-CC-ATGTGTTT
1 GTCAACAAAAGCCACCCTATGTGTTT
71541 GTCAACAA
1 GTCAACAA
71549 TGGTGGTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 15 0.48
25 2 0.06
26 14 0.45
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (26 bp):
GTCAACAAAAGCCACCCTATGTGTTT
Found at i:76090 original size:24 final size:26
Alignment explanation
Indices: 76039--76096 Score: 93
Period size: 24 Copynumber: 2.3 Consensus size: 26
76029 TGGGTGGCTA
*
76039 GTCAACAAAAGCCACCCTTTGTGTTT
1 GTCAACAAAAGCCACCCTATGTGTTT
76065 GTCAACAAAAGCCA-CC-ATGTGTTT
1 GTCAACAAAAGCCACCCTATGTGTTT
76089 GTCAACAA
1 GTCAACAA
76097 TGGTGGTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 15 0.48
25 2 0.06
26 14 0.45
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (26 bp):
GTCAACAAAAGCCACCCTATGTGTTT
Found at i:77012 original size:2 final size:2
Alignment explanation
Indices: 77005--77053 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
76995 TGATAGAGGA
77005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
77047 AC AT AT A
1 AT AT AT A
77054 CCCATATCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:77947 original size:22 final size:22
Alignment explanation
Indices: 77920--77969 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
77910 AATATTTAAA
77920 AAATAATTTTAT-ATTAATATTT
1 AAATAATTTTATAATTAA-ATTT
*
77942 ATATAATTTTATAATTAAATTT
1 AAATAATTTTATAATTAAATTT
77964 AAATAA
1 AAATAA
77970 AAATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATAATTTTATAATTAAATTT
Found at i:78053 original size:15 final size:15
Alignment explanation
Indices: 78007--78057 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
77997 TTCAAAACAT
*
78007 ATTATAAATTATCAA
1 ATTAAAAATTATCAA
* * *
78022 ATT-TAATTTATATAA
1 ATTAAAAATTAT-CAA
78037 ATTAAAAATTATCAA
1 ATTAAAAATTATCAA
78052 ATTAAA
1 ATTAAA
78058 TAAAATAGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 7 0.24
15 16 0.55
16 6 0.21
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAAAAATTATCAA
Found at i:79221 original size:91 final size:92
Alignment explanation
Indices: 79060--79228 Score: 252
Period size: 91 Copynumber: 1.8 Consensus size: 92
79050 CTGGAAACTG
*
79060 TTCTTATTCTTTGTGGGGTATGTTATATAAAGATATATCAAATCTGATGTCGGTATTGCTCTAAA
1 TTCTTATTCTTTGTGGGGTATGTTATATAAAGATATATCAAATCTGATGTCAGTATTGCTCTAAA
*
79125 GTTTTAGGTCTGAAAACTTGAAAAGTA
66 GTTTTAGATCTGAAAACTTGAAAAGTA
* * * * *
79152 TTCTTATTCTTTTTGGGGTTTGTTATAT-AAGATGTATCGAATCTGATGTCAGTATTGCTCT-AC
1 TTCTTATTCTTTGTGGGGTATGTTATATAAAGATATATCAAATCTGATGTCAGTATTGCTCTAAA
79215 GTTTTTAGATCTGA
66 G-TTTTAGATCTGA
79229 GCATGTGGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 2 0.03
91 41 0.59
92 26 0.38
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.44
Consensus pattern (92 bp):
TTCTTATTCTTTGTGGGGTATGTTATATAAAGATATATCAAATCTGATGTCAGTATTGCTCTAAA
GTTTTAGATCTGAAAACTTGAAAAGTA
Found at i:81219 original size:19 final size:21
Alignment explanation
Indices: 81180--81219 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
81170 TGACAATTTA
81180 ATTTACAATCAAAATATGTTAG
1 ATTTACAA-CAAAATATGTTAG
81202 ATTTACAA-AAAATA-GTTA
1 ATTTACAACAAAATATGTTA
81220 TATATATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
22 8 0.44
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
ATTTACAACAAAATATGTTAG
Found at i:83503 original size:25 final size:26
Alignment explanation
Indices: 83458--83512 Score: 60
Period size: 25 Copynumber: 2.1 Consensus size: 26
83448 AAATTTTAAC
83458 AATATGTTTTGATCAAAAAAT-ACTA
1 AATATGTTTTGATCAAAAAATAACTA
* *
83483 AATATTTTTTGA-CTAACAAATCAACTA
1 AATATGTTTTGATC-AAAAAAT-AACTA
83510 AAT
1 AAT
83513 CCGATATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 1 0.04
25 17 0.68
27 7 0.28
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.36
Consensus pattern (26 bp):
AATATGTTTTGATCAAAAAATAACTA
Found at i:85620 original size:2 final size:2
Alignment explanation
Indices: 85615--85657 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
85605 AATCTTCTCC
85615 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85657 T
1 T
85658 TAAATACTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:86383 original size:21 final size:22
Alignment explanation
Indices: 86359--86402 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
86349 AACTAATTAA
86359 AATATGATACA-AT-ATAAAAAC
1 AATATGA-ACATATCATAAAAAC
86380 AATATGAACATATCATAAAAAC
1 AATATGAACATATCATAAAAAC
86402 A
1 A
86403 CGAGCGTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 9 0.43
22 9 0.43
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (22 bp):
AATATGAACATATCATAAAAAC
Found at i:89111 original size:22 final size:22
Alignment explanation
Indices: 89071--89112 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
89061 GTTTTTCGAC
89071 TATTTTAATATTAATATTTATT
1 TATTTTAATATTAATATTTATT
*
89093 TATTTTTATAATTAA-ATTTA
1 TATTTTAAT-ATTAATATTTA
89113 AATAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTAATATTAATATTTATT
Done.