Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold121
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: 1076282
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 28062 characters in sequence are not A, C, G, or T
File 1 of 8
Found at i:91 original size:12 final size:12
Alignment explanation
Indices: 74--113 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
64 TATATTTATA
74 AAAATAAAATAC
1 AAAATAAAATAC
86 AAAAT-AAA-A-
1 AAAATAAAATAC
*
95 AAACTAAAATAC
1 AAAATAAAATAC
107 AAAATAA
1 AAAATAA
114 GAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 4 0.17
10 4 0.17
11 4 0.17
12 11 0.48
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAC
Found at i:102 original size:21 final size:20
Alignment explanation
Indices: 73--122 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
63 GTATATTTAT
73 AAAAATAAAATACAAAATAA
1 AAAAATAAAATACAAAATAA
93 AAAAACTAAAATACAAAAT-A
1 AAAAA-TAAAATACAAAATAA
*
113 AGAAATAAAA
1 AAAAATAAAA
123 AGAAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 5 0.18
20 10 0.36
21 13 0.46
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAAATAAAATACAAAATAA
Found at i:470 original size:6 final size:6
Alignment explanation
Indices: 459--506 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
449 TGAAAAATAC
459 AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
506 A
1 A
507 CCTATATCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:480 original size:18 final size:17
Alignment explanation
Indices: 451--506 Score: 94
Period size: 17 Copynumber: 3.2 Consensus size: 17
441 TCATTTCCTG
*
451 AAAAATACAATAAAAAT
1 AAAAATAAAATAAAAAT
468 AAAAATAAAAATAAAAAT
1 AAAAAT-AAAATAAAAAT
486 AAAAATAAAATAAAAAT
1 AAAAATAAAATAAAAAT
503 AAAA
1 AAAA
507 CCTATATCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
17 21 0.57
18 16 0.43
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:504 original size:11 final size:11
Alignment explanation
Indices: 451--506 Score: 85
Period size: 12 Copynumber: 4.9 Consensus size: 11
441 TCATTTCCTG
*
451 AAAAATACAAT
1 AAAAATAAAAT
462 AAAAATAAAAAT
1 AAAAAT-AAAAT
474 AAAAATAAAAAT
1 AAAAAT-AAAAT
486 AAAAATAAAAT
1 AAAAATAAAAT
497 AAAAATAAAA
1 AAAAATAAAA
507 CCTATATCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
11 21 0.49
12 22 0.51
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:1162 original size:23 final size:22
Alignment explanation
Indices: 1136--1182 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
1126 AGAGTAAATA
* * *
1136 AAATTTTAATTTTTATATTTATT
1 AAATTATAATTATT-TATTTTTT
1159 AAATTATAATTATTTATTTTTT
1 AAATTATAATTATTTATTTTTT
1181 AA
1 AA
1183 TATAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AAATTATAATTATTTATTTTTT
Found at i:1385 original size:18 final size:19
Alignment explanation
Indices: 1364--1415 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
1354 TCAAAAATAT
1364 ATTTTATTATTAATA-TCA
1 ATTTTATTATTAATACTCA
*
1382 ATTTTATTAATATAATACTTA
1 ATTTTATT-AT-TAATACTCA
1403 ATTTTATTATTAA
1 ATTTTATTATTAA
1416 CGTTATTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 7 0.23
21 10 0.33
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATTATTAATACTCA
Found at i:3258 original size:13 final size:13
Alignment explanation
Indices: 3240--3265 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3230 ATCCCAAGTT
3240 TAAAAAATAAAAA
1 TAAAAAATAAAAA
3253 TAAAAAATAAAAA
1 TAAAAAATAAAAA
3266 AGGCCAGGCT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:17013 original size:33 final size:33
Alignment explanation
Indices: 16975--17069 Score: 181
Period size: 33 Copynumber: 2.9 Consensus size: 33
16965 AACCCCAAGT
16975 TAACATATATTTACAGAATAAAGAACTATAAGC
1 TAACATATATTTACAGAATAAAGAACTATAAGC
*
17008 TAACATATATCTACAGAATAAAGAACTATAAGC
1 TAACATATATTTACAGAATAAAGAACTATAAGC
17041 TAACATATATTTACAGAATAAAGAACTAT
1 TAACATATATTTACAGAATAAAGAACTAT
17070 GTATGTATTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (33 bp):
TAACATATATTTACAGAATAAAGAACTATAAGC
Found at i:18516 original size:20 final size:19
Alignment explanation
Indices: 18468--18516 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
18458 CTAGTAAATC
* * *
18468 ATATATTTATTTTATTTTT
1 ATATATTTATTATATTATA
18487 ATATATTTTATTATATTATA
1 ATATA-TTTATTATATTATA
18507 ATCATATTTA
1 AT-ATATTTA
18517 AAATATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 17 0.68
21 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATATTTATTATATTATA
Found at i:18575 original size:32 final size:32
Alignment explanation
Indices: 18537--18599 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
18527 TAAATATATA
18537 TAAATTTTAATAAATTAATA-ATTTATATTATC
1 TAAATTTTAA-AAATTAATATATTTATATTATC
* *
18569 TAAATTTTAAATATTTATATATTTATATTAT
1 TAAATTTTAAAAATTAATATATTTATATTAT
18600 ATTATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (32 bp):
TAAATTTTAAAAATTAATATATTTATATTATC
Found at i:18966 original size:33 final size:34
Alignment explanation
Indices: 18923--18990 Score: 113
Period size: 33 Copynumber: 2.0 Consensus size: 34
18913 ATTATTTTAC
18923 TTTAACTTTAATGA-TATTAAAAATAAATATTATT
1 TTTAACTTTAAT-ATTATTAAAAATAAATATTATT
18957 TTTAA-TTTAATATTATTAAAAATAAATATTATT
1 TTTAACTTTAATATTATTAAAAATAAATATTATT
18990 T
1 T
18991 ATGATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 1 0.03
33 27 0.82
34 5 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (34 bp):
TTTAACTTTAATATTATTAAAAATAAATATTATT
Found at i:18986 original size:16 final size:16
Alignment explanation
Indices: 18937--18989 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
18927 ACTTTAATGA
18937 TATTAAAAATAAATAT
1 TATTAAAAATAAATAT
** * *
18953 TATTTTTAATTTAATAT
1 TA-TTAAAAATAAATAT
18970 TATTAAAAATAAATAT
1 TATTAAAAATAAATAT
18986 TATT
1 TATT
18990 TATGATTTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAAAAATAAATAT
Found at i:19021 original size:13 final size:13
Alignment explanation
Indices: 18998--19041 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
18988 TTTATGATTT
18998 TTTTGAAAATATAA
1 TTTT-AAAATATAA
19012 TTTTAAAATATAA
1 TTTTAAAATATAA
*
19025 TTAGTAAAA-ATAA
1 TT-TTAAAATATAA
19038 TTTT
1 TTTT
19042 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 9 0.33
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
TTTTAAAATATAA
Found at i:19066 original size:29 final size:29
Alignment explanation
Indices: 19029--19084 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
19019 ATATAATTAG
*
19029 TAAAAATAATTTTT-TATTTTTAAAAATTT
1 TAAAAATAATTTTTATA-TATTAAAAATTT
19058 TAAAAATAATTTTTATATATTAAAAAT
1 TAAAAATAATTTTTATATATTAAAAAT
19085 AATTATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TAAAAATAATTTTTATATATTAAAAATTT
Found at i:19254 original size:2 final size:2
Alignment explanation
Indices: 19241--19289 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
19231 AACTATGTTT
*
19241 TA TA TG 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
19283 TA TA TA T
1 TA TA TA T
19290 CATAAAGAAT
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:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19907 original size:17 final size:18
Alignment explanation
Indices: 19885--19933 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
19875 TGTATTTTAA
*
19885 AAAATATAAAATAAGAT-
1 AAAATATAAAATAACATG
*
19902 AAAATATATCAATAACATG
1 AAAATATA-AAATAACATG
*
19921 AAAATATGAAATA
1 AAAATATAAAATA
19934 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.31
18 11 0.42
19 7 0.27
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAATATAAAATAACATG
Found at i:20376 original size:33 final size:33
Alignment explanation
Indices: 20331--20430 Score: 137
Period size: 33 Copynumber: 3.0 Consensus size: 33
20321 GTAAAGTGCA
*
20331 TGACTTTTTAAGTGCCTTATTTTCATATCTTCCG
1 TGAC-TTTTAAGTGCATTATTTTCATATCTTCCG
* *
20365 TGACTTTTAAGTGCATTATTTCCATATCTTCCA
1 TGACTTTTAAGTGCATTATTTTCATATCTTCCG
* * *
20398 TGACTTTTACGTGCATTATTCTCATTTCTTCCG
1 TGACTTTTAAGTGCATTATTTTCATATCTTCCG
20431 GTGCTTTCTG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 54 0.93
34 4 0.07
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (33 bp):
TGACTTTTAAGTGCATTATTTTCATATCTTCCG
Found at i:22478 original size:3 final size:3
Alignment explanation
Indices: 22468--22505 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
22458 AAGAAGAGCA
22468 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22506 AAAATTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23716 original size:2 final size:2
Alignment explanation
Indices: 23709--23748 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23699 TTTTTAGCAA
23709 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
23749 CAAGCAAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24192 original size:6 final size:6
Alignment explanation
Indices: 24181--24266 Score: 118
Period size: 6 Copynumber: 14.3 Consensus size: 6
24171 CACATTTTGG
* * * *
24181 ATATAT ATATAT ACATAT ATATAC ATATAC ATATAT ATATAT ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
24229 ATATAC ATATAT ATACAT ATATAT ATATAT ATATAT AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT AT
24267 GAATCGTATA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:24202 original size:16 final size:16
Alignment explanation
Indices: 24181--24266 Score: 136
Period size: 16 Copynumber: 5.2 Consensus size: 16
24171 CACATTTTGG
24181 ATATATATATATACAT
1 ATATATATATATACAT
*
24197 ATATATACATATACAT
1 ATATATATATATACAT
24213 ATATATATATATACAT
1 ATATATATATATACAT
24229 ATATACATATATATACAT
1 ATAT--ATATATATACAT
*
24247 ATATATATATATATAT
1 ATATATATATATACAT
24263 ATAT
1 ATAT
24267 GAATCGTATA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
16 49 0.75
18 16 0.25
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATATATATACAT
Found at i:24264 original size:10 final size:10
Alignment explanation
Indices: 24181--24266 Score: 118
Period size: 10 Copynumber: 8.6 Consensus size: 10
24171 CACATTTTGG
24181 ATATATATAT
1 ATATATATAT
*
24191 ATACATATAT
1 ATATATATAT
* *
24201 ATACATATAC
1 ATATATATAT
24211 ATATATATAT
1 ATATATATAT
*
24221 ATATACATAT
1 ATATATATAT
*
24231 ATACATATAT
1 ATATATATAT
*
24241 ATACATATAT
1 ATATATATAT
24251 ATATATATAT
1 ATATATATAT
24261 ATATAT
1 ATATAT
24267 GAATCGTATA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 68 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATAT
Found at i:25936 original size:12 final size:12
Alignment explanation
Indices: 25903--25938 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
25893 CTACGACATG
*
25903 ATATGTATACAT
1 ATATGTATATAT
25915 ATATGTATATAT
1 ATATGTATATAT
*
25927 ATATATATATAT
1 ATATGTATATAT
25939 TGCTATTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:27323 original size:21 final size:19
Alignment explanation
Indices: 27292--27331 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
27282 TATTTAGAGA
*
27292 AAAAATAAATTAATAAAAT
1 AAAAATAAATTAAAAAAAT
27311 AAAAATAAGAATTAAAAAAAT
1 AAAAAT-A-AATTAAAAAAAT
27332 GAATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAAATAAATTAAAAAAAT
Found at i:29597 original size:593 final size:593
Alignment explanation
Indices: 28126--29865 Score: 2234
Period size: 593 Copynumber: 2.9 Consensus size: 593
28116 AATCATAGCG
* * * * *
28126 TTTTTTGTTCCTCTACTTTACCGAACTCTTGTTGATGAATTAGTCAAAGATAAAGATGATGAATT
1 TTTTTTGTTCCTCTCCTTTACCAAACTCTTGTTGATGAATTATTCAAAGACAAGGATGATGAATT
* * * ** * *
28191 ATTATATTATAATTTATAATAATATTGATAAGTTTTTCAGTGATACGTCACTTATTG--ATA-TA
66 ATTGTACTATAACTTGCAATAATATTGATAAGTTTTTCAGTG-TACGTCGCTTATTGCTATAGTT
*** *
28253 TTTTTTAAAAAAATAAAAAAATTATAAATATTAAAATTTAAATTTTAATAATAATTGAATTGAAA
130 TTTTTTTTGAAAATAAAAAAATTATAAATATTAAAATTTAAATTTTAATAATAATTGAATTAAAA
* * * * * *
28318 GTGATATTTATATAAGTATATCTATTTAACTGTATGCATACAACAAAAAAATATAAGCTTTACAA
195 GAGATATTTATATAAGTATGTCTATTTAAATGTATGCATACAACAAAAAAGTACAAGCTTTGCAA
* * * *
28383 ATCGACCTTTTAATAAGGATATTTATCTTTACAAA-TCATCTTTTTAATAAAGAACAAATGATAA
260 ATCGACCTTTTAATAAAGATATTTATCCTTGCAAATTAAT-TTTTTAATAAAGAACAAATGATAA
* * ** * * *
28447 GTAACCTTTGCATTATTTAGAGAGTATCAAAAAAAATTTAAATCATCATGTTAAATTTTAATTTT
324 GTAATCTTTGCATCATTTAGAGAGTATCAAAGGAAATTTAAATCACCATGTTAGATTCTAATTTT
* *
28512 ATTTTTCTATTCAAG-TTGGACTGAAGAGAGACAAGATATGGGTGATCAAA-GGGGTCGTGGTCA
389 ATTTTTCTATTCAAGTTTGGACTCAAGAGAGACAAGATATGGGTGATCAAAGGGGGTCGTGGTCG
* * *
28575 TTTAATAAACATCAATTGATAACAAGAACGTTAGAAGAAAATTTACTAACCCTTGGAGTATGACT
454 TTTAATAAACACCAACTGATAACAAGAACGTCAGAAGAAAATTTAC-AACCCTTGGAGTATGACT
28640 TCTATAC-AC--AATTTTGTTTGAACTTTCAAAATTTACAACCCTTGAAAATCTGTCTTAAGAAA
518 TCTATACAACTTAATTTTGTTTGAACTTTCAAAATTTACAACCCTTGAAAA-CTGTC---AGAAA
28702 AATCCAACTTAAATCACAAAGTTT
579 AAT----CTT--AT---AAAGTTT
* **
28726 TTTTTTGTTCCTCTCCTTTA-CAGAACTCTAGTTGACAAATTATTCAAAGACAAGGATGATGAAT
1 TTTTTTGTTCCTCTCCTTTACCA-AACTCTTGTTGATGAATTATTCAAAGACAAGGATGATGAAT
* *
28790 TATTGTACTATAACTTGCAATAATATTAATAAGTTTTTCAGTGGTACGTCGCTTATTGCTACAG-
65 TATTGTACTATAACTTGCAATAATATTGATAAGTTTTTCAGT-GTACGTCGCTTATTGCTATAGT
* * *
28854 TTTTTCTTTG-------AAAAATTATAAATATTAAAATTTAAATTTCAAAAATAATTGAATTAAA
129 TTTTTTTTTGAAAATAAAAAAATTATAAATATTAAAATTTAAATTTTAATAATAATTGAATTAAA
*
28912 AGAGATATTTATTTAAGTATGTCTATTTAAATGTATGCATACAACAAAAAAGTACAAGCTTTGCA
194 AGAGATATTTATATAAGTATGTCTATTTAAATGTATGCATACAACAAAAAAGTACAAGCTTTGCA
*
28977 AATCGACCTTTTAATAAAGATATTTATCCTTGCAAATTGATTTTTTAATAAAGAACAAATGATAA
259 AATCGACCTTTTAATAAAGATATTTATCCTTGCAAATTAATTTTTTAATAAAGAACAAATGATAA
* * * *
29042 ATAATCTTTGCATCATTTAGAGAGTATCAGAGGAAATTTAAATCACCATGCTAGATTCTAATTTA
324 GTAATCTTTGCATCATTTAGAGAGTATCAAAGGAAATTTAAATCACCATGTTAGATTCTAATTTT
* *
29107 ATTTTTCTATTCAAGTTTGGACTCAAGAGAGACAAGATATTGGTGATCAAAAGGGGGTCATGGTC
389 ATTTTTCTATTCAAGTTTGGACTCAAGAGAGACAAGATATGGGTGATC-AAAGGGGGTCGTGGTC
* * * * *
29172 GTTTAATAAATACCAACTGATTACAAGGACGCCAGATGAAAATTTACAACCCTTGGAGTATGACT
453 GTTTAATAAACACCAACTGATAACAAGAACGTCAGAAGAAAATTTACAACCCTTGGAGTATGACT
* *
29237 TCTATACATACTTAATTTTGTTTGAACTTTCAAAATTTACAACCCTTGAAAA-T-TC-GCAAAGT
518 TCTATACA-ACTTAATTTTGTTTGAACTTTCAAAATTTACAACCCTTGAAAACTGTCAGAAAAAT
***
29299 -TT-T-TTTTTT
582 CTTATAAAGTTT
29308 TTTTGGTTGTTCCTCTCCTTTACCAAACTCTTGTTGATGAATTATTCAAAGACAAGGATGATGAA
1 TTTT--TTGTTCCTCTCCTTTACCAAACTCTTGTTGATGAATTATTCAAAGACAAGGATGATGAA
*
29373 TTATTGTACTATAACTTGCAATAATATTGACAAGTTTTTCAGTAGTACGTCGCTTATTGCTATAG
64 TTATTGTACTATAACTTGCAATAATATTGATAAGTTTTTCAGT-GTACGTCGCTTATTGCTATAG
* *
29438 TTTTTTTTTTGAAAATAAAAAAAATCATAAATATTAAAATTCAAATTTTAATAATAATTGAATTA
128 TTTTTTTTTTGAAAAT-AAAAAAATTATAAATATTAAAATTTAAATTTTAATAATAATTGAATTA
* * * * *
29503 AAAGAAATATTTATCTAATTATGTCTATTTAATTGTATGCATACAACAAAAAAGTACAAACTTTG
192 AAAGAGATATTTATATAAGTATGTCTATTTAAATGTATGCATACAACAAAAAAGTACAAGCTTTG
* * **
29568 CGAATCGACCTTTTAATAAAGATATTTATCCTTGCAAATCAACCTTTTAATAAAGAACAAATGAT
257 CAAATCGACCTTTTAATAAAGATATTTATCCTTGCAAATTAATTTTTTAATAAAGAACAAATGAT
* * * *
29633 AAGTAATTTTTTCATCATTTAGTA-AGTATCAAAGGGAATTTATATCACCATGTTAGATTCTAAT
322 AAGTAATCTTTGCATCATTTAG-AGAGTATCAAAGGAAATTTAAATCACCATGTTAGATTCTAAT
* * *
29697 TTTATTTTTCTATTTAAGTTTGGACTCAAGAAAGACAAGATATGGGTGATCAAAGGGGGTTGTGG
386 TTTATTTTTCTATTCAAGTTTGGACTCAAGAGAGACAAGATATGGGTGATCAAAGGGGGTCGTGG
* * * * * * *
29762 TCGTTTAATTAACACCAACTGATCACGAGAACATCAGACGGAAATTTACAATCCTTGGAGTATGA
451 TCGTTTAATAAACACCAACTGATAACAAGAACGTCAGAAGAAAATTTACAACCCTTGGAGTATGA
* **
29827 CTTCTACACACACTTAATTTTGTTCAAACTTTCAAAATT
516 CTTCTATACA-ACTTAATTTTGTTTGAACTTTCAAAATT
29866 GATTCTCCCT
Statistics
Matches: 1002, Mismatches: 112, Indels: 60
0.85 0.10 0.05
Matches are distributed among these distances:
582 7 0.01
584 114 0.11
585 11 0.01
586 1 0.00
589 2 0.00
592 102 0.10
593 264 0.26
594 6 0.01
595 229 0.23
596 33 0.03
597 28 0.03
598 51 0.05
599 4 0.00
600 103 0.10
601 40 0.04
602 7 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (593 bp):
TTTTTTGTTCCTCTCCTTTACCAAACTCTTGTTGATGAATTATTCAAAGACAAGGATGATGAATT
ATTGTACTATAACTTGCAATAATATTGATAAGTTTTTCAGTGTACGTCGCTTATTGCTATAGTTT
TTTTTTTGAAAATAAAAAAATTATAAATATTAAAATTTAAATTTTAATAATAATTGAATTAAAAG
AGATATTTATATAAGTATGTCTATTTAAATGTATGCATACAACAAAAAAGTACAAGCTTTGCAAA
TCGACCTTTTAATAAAGATATTTATCCTTGCAAATTAATTTTTTAATAAAGAACAAATGATAAGT
AATCTTTGCATCATTTAGAGAGTATCAAAGGAAATTTAAATCACCATGTTAGATTCTAATTTTAT
TTTTCTATTCAAGTTTGGACTCAAGAGAGACAAGATATGGGTGATCAAAGGGGGTCGTGGTCGTT
TAATAAACACCAACTGATAACAAGAACGTCAGAAGAAAATTTACAACCCTTGGAGTATGACTTCT
ATACAACTTAATTTTGTTTGAACTTTCAAAATTTACAACCCTTGAAAACTGTCAGAAAAATCTTA
TAAAGTTT
Found at i:33523 original size:17 final size:17
Alignment explanation
Indices: 33501--33548 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
33491 ACGTTCAATT
33501 TAGATA-ATAATATTTAC
1 TAGATATATAA-ATTTAC
*
33518 TAGATATATGAATTTAC
1 TAGATATATAAATTTAC
* *
33535 TAAATATTTAAATT
1 TAGATATATAAATT
33549 GATTTAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (17 bp):
TAGATATATAAATTTAC
Found at i:37041 original size:52 final size:52
Alignment explanation
Indices: 36963--37111 Score: 187
Period size: 52 Copynumber: 2.9 Consensus size: 52
36953 CGAAATATGA
* *
36963 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATATATCTGGGC
1 AAATTTGCCAGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
* *
37015 AAATTTGCCCAG-ATGTATCGATACATT-ATAAAATGTATCGATACATCTGGGC
1 AAATTTG-CCAGCATGTATCGATACATTGA-ATAGTGTATCGATACATCTGGGC
* **
37067 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCAGCATGTATCGATACATTGAAT-AGTGTATCGATACA
37112 ATGAATCGAT
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
51 5 0.06
52 75 0.90
53 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (52 bp):
AAATTTGCCAGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
Found at i:37202 original size:33 final size:33
Alignment explanation
Indices: 37165--37231 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
37155 AGTAGCTTGA
37165 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
37198 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
37231 A
1 A
37232 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:37205 original size:13 final size:13
Alignment explanation
Indices: 37187--37211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37177 CAAAAAAATA
37187 TGTATCGATACAT
1 TGTATCGATACAT
37200 TGTATCGATACA
1 TGTATCGATACA
37212 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42391 original size:22 final size:22
Alignment explanation
Indices: 42360--42402 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42350 AAAGATTATA
42360 GAAATAAAA-TAAACAAAAAAAT
1 GAAATAAAATTAAA-AAAAAAAT
*
42382 GAAATGAAATTAAAAAAAAAA
1 GAAATAAAATTAAAAAAAAAA
42403 GGATGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (22 bp):
GAAATAAAATTAAAAAAAAAAT
Found at i:42608 original size:18 final size:18
Alignment explanation
Indices: 42582--42635 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
42572 CGTTGAAATT
42582 TAAATTTATTATAAATAA
1 TAAATTTATTATAAATAA
* *
42600 TATATTTATTAAAAATAA
1 TAAATTTATTATAAATAA
42618 TAAATTTAATATATAAAT
1 TAAATTT-AT-TATAAAT
42636 TTAAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 22 0.73
19 2 0.07
20 6 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATTTATTATAAATAA
Found at i:43009 original size:47 final size:47
Alignment explanation
Indices: 42955--43080 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
42945 AAATTTGTCG
*
42955 AAGATAGTAA-AGAGGCTATAGTTTTAAATTATGATTTCAATTTGATA
1 AAGATAGTAACA-AGGATATAGTTTTAAATTATGATTTCAATTTGATA
* *
43002 AGGATAGTAATAA-GATCATAGTTTTAAATTATGATTTCAATTTGATA
1 AAGATAGTAACAAGGAT-ATAGTTTTAAATTATGATTTCAATTTGATA
* *
43049 AAGATAATAACAA-GATTATAATTTTAAATTAT
1 AAGATAGTAACAAGGA-TATAGTTTTAAATTAT
43081 AATCATAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
46 2 0.03
47 66 0.94
48 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (47 bp):
AAGATAGTAACAAGGATATAGTTTTAAATTATGATTTCAATTTGATA
Found at i:43381 original size:34 final size:34
Alignment explanation
Indices: 43331--43508 Score: 207
Period size: 34 Copynumber: 5.3 Consensus size: 34
43321 AAAGGCAAAT
* * * *
43331 ATTAAAT-GGTGATTTGGTGGTTTGCCATTATTG
1 ATTAAATGGGAGATTTGGTGGCTTACCATTGTTG
* *
43364 ACTAAATGGGAGATTTGGTAGCTTACCATTGTTG
1 ATTAAATGGGAGATTTGGTGGCTTACCATTGTTG
* * * *
43398 ATTAAATGAGAAATTTGGTAGCTTACCATTATTG
1 ATTAAATGGGAGATTTGGTGGCTTACCATTGTTG
*
43432 ATTAAATGGGTGATTTGGTGGCTTACCATTGTTG
1 ATTAAATGGGAGATTTGGTGGCTTACCATTGTTG
* * *
43466 ACTAAATGGTAGATTTGGTAGG-TTGCCATTGTTG
1 ATTAAATGGGAGATTTGGT-GGCTTACCATTGTTG
43500 ATTAAATGG
1 ATTAAATGG
43509 TGGTTTTTAC
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
33 6 0.05
34 115 0.93
35 2 0.02
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (34 bp):
ATTAAATGGGAGATTTGGTGGCTTACCATTGTTG
Found at i:45812 original size:24 final size:24
Alignment explanation
Indices: 45784--45832 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
45774 AGCTCCATCT
45784 ACAGCAATTGGACTGAAGACTCCA
1 ACAGCAATTGGACTGAAGACTCCA
45808 ACAGCAATTGGACTGAAGACTCCA
1 ACAGCAATTGGACTGAAGACTCCA
45832 A
1 A
45833 TGGAAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.16
Consensus pattern (24 bp):
ACAGCAATTGGACTGAAGACTCCA
Found at i:48015 original size:34 final size:34
Alignment explanation
Indices: 47958--48176 Score: 271
Period size: 34 Copynumber: 6.5 Consensus size: 34
47948 AAGTGGGAGA
*
47958 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * *
47991 ATTATTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
48025 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
48059 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
48093 ATTATTGATTAAATAGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
48127 ATTGTTGACTAAAT-TGTAGATTTGGTAGGTTACC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
48161 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
48177 TGGTTTTTAA
Statistics
Matches: 158, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
33 15 0.09
34 143 0.91
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:48098 original size:102 final size:101
Alignment explanation
Indices: 47958--48176 Score: 348
Period size: 102 Copynumber: 2.2 Consensus size: 101
47948 AAGTGGGAGA
** * * * *
47958 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATAGGTGATTTGGTGGCTTA
48023 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
48059 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATAGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATAGGTGATTTGGTGGCTT
* * *
48124 ACCATTGTTGACTAAATTGTAGATTTGGTAGGTTACC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
48161 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
48177 TGGTTTTTAA
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
101 16 0.15
102 92 0.85
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATAGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:48587 original size:47 final size:47
Alignment explanation
Indices: 48518--48623 Score: 133
Period size: 47 Copynumber: 2.3 Consensus size: 47
48508 ATAGATCGTG
* * ** *
48518 GTTTTAAATTACGATTTAAATTTG-TCGAAGATAGTAAGGAGGCCATA
1 GTTTTAAATTATGATTTAAATTTGAT-AAAGATAGTAACAAGACCATA
* *
48565 GTTTTAAATTATGATTTCAATTTGATAAAGATAGTAACAAGACCATG
1 GTTTTAAATTATGATTTAAATTTGATAAAGATAGTAACAAGACCATA
48612 GTTTTAAATTAT
1 GTTTTAAATTAT
48624 AATCATAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 50 0.98
48 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (47 bp):
GTTTTAAATTATGATTTAAATTTGATAAAGATAGTAACAAGACCATA
Found at i:48920 original size:2 final size:2
Alignment explanation
Indices: 48913--48948 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
48903 AAAGTTAAAT
48913 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
48949 AATTTCACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50007 original size:2 final size:2
Alignment explanation
Indices: 50000--50032 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
49990 TTCAACTTAT
50000 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50033 GTGCACGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57522 original size:30 final size:30
Alignment explanation
Indices: 57479--57605 Score: 111
Period size: 30 Copynumber: 4.3 Consensus size: 30
57469 TTAAACACAC
57479 ATATT-TATATTTTAATAATATATAATATA
1 ATATTATATATTTTAATAATATATAATATA
* * *
57508 ATATTATTTATTTTAACAATA-ATTAATAAA
1 ATATTATATATTTTAATAATATA-TAATATA
* *
57538 ATATTAATATAATTT-ATAAT-TTTAATGATA
1 ATATT-ATATATTTTAATAATATATAAT-ATA
* * *
57568 A-ATTATAATATTTTAATAAAATATTATTTA
1 ATATTAT-ATATTTTAATAATATATAATATA
57598 ATATTATA
1 ATATTATA
57606 ATAATATTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
28 2 0.03
29 19 0.25
30 39 0.51
31 16 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
ATATTATATATTTTAATAATATATAATATA
Found at i:57582 original size:21 final size:18
Alignment explanation
Indices: 57541--57601 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
57531 TAATAAAATA
*
57541 TTAATATAATTTATAATT
1 TTAATATAAATTATAATT
57559 TTAATGATAAATTATAATATT
1 TTAAT-ATAAATTAT-A-ATT
*
57580 TTAATA-AAA-TATTA-T
1 TTAATATAAATTATAATT
57595 TTAATAT
1 TTAATAT
57602 TATAATAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 7 0.19
16 1 0.03
18 8 0.22
19 11 0.30
20 2 0.05
21 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTAATATAAATTATAATT
Found at i:57584 original size:39 final size:40
Alignment explanation
Indices: 57490--57594 Score: 108
Period size: 39 Copynumber: 2.6 Consensus size: 40
57480 TATTTATATT
* *
57490 TTAATAATA-TATAATATAATATTATTTATTTTAACAATAA
1 TTAATAATATTTTAATATAATATTA-TAATTTTAACAATAA
* * **
57530 TTAATAAAATATTAATATAAT-TTATAATTTTAATGATAAA
1 TTAATAATATTTTAATATAATATTATAATTTTAACAAT-AA
*
57570 TT-ATAATATTTTAATAAAATATTAT
1 TTAATAATATTTTAATATAATATTAT
57595 TTAATATTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
39 25 0.47
40 19 0.36
41 9 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (40 bp):
TTAATAATATTTTAATATAATATTATAATTTTAACAATAA
Found at i:57607 original size:23 final size:23
Alignment explanation
Indices: 57573--57654 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
57563 TGATAAATTA
*
57573 TAATATTTTAATAAAATATTATT
1 TAATATTATAATAAAATATTATT
* *
57596 TAATATTATAATAATATTTTATT
1 TAATATTATAATAAAATATTATT
* * *
57619 TAAAAATTATAAAAATAATATTTTT
1 T-AATATTATAATAA-AATATTATT
57644 TAATAATTATA
1 TAAT-ATTATA
57655 TTAATTGAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
23 21 0.45
24 13 0.28
25 13 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATATTATAATAAAATATTATT
Found at i:57642 original size:27 final size:25
Alignment explanation
Indices: 57605--57654 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
57595 TTAATATTAT
57605 AATAATATTTTATTTAAAAATTATAAA
1 AATAATA-TTT-TTTAAAAATTATAAA
*
57632 AATAATATTTTTTAATAATTATA
1 AATAATATTTTTTAAAAATTATA
57655 TTAATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 3 0.14
27 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATAATATTTTTTAAAAATTATAAA
Found at i:57782 original size:15 final size:14
Alignment explanation
Indices: 57752--57803 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
57742 TTTAATATTT
*
57752 AATATTATCATTAA
1 AATATTATTATTAA
57766 AATATTATTATTTAA
1 AATATTATTA-TTAA
*
57781 AATATTAATATTAA
1 AATATTATTATTAA
57795 AA-ATTATTA
1 AATATTATTA
57804 ATTTAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 6 0.18
14 15 0.44
15 13 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:57784 original size:29 final size:30
Alignment explanation
Indices: 57751--57814 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
57741 TTTTAATATT
57751 TAATATT-ATCATTAAAATATTATT-ATTTAA
1 TAATATTAAT-ATTAAAA-ATTATTAATTTAA
57781 -AATATTAATATTAAAAATTATTAATTTAA
1 TAATATTAATATTAAAAATTATTAATTTAA
57810 TAATA
1 TAATA
57815 AATAACTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
28 6 0.19
29 19 0.61
30 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
TAATATTAATATTAAAAATTATTAATTTAA
Found at i:57809 original size:15 final size:15
Alignment explanation
Indices: 57762--57809 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
57752 AATATTATCA
57762 TTAAAATATTATT-AT
1 TTAAAA-ATTATTAAT
57777 TT-AAAA-TATTAAT
1 TTAAAAATTATTAAT
57790 ATTAAAAATTATTAAT
1 -TTAAAAATTATTAAT
57806 TTAA
1 TTAA
57810 TAATAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.14
13 3 0.10
14 5 0.17
15 10 0.34
16 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAAATTATTAAT
Found at i:57835 original size:22 final size:22
Alignment explanation
Indices: 57810--57854 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
57800 ATTAATTTAA
**
57810 TAATAAATAACTTTTAATATTT
1 TAATAAATAACGATTAATATTT
*
57832 TAATAATTAACGATTAATATTT
1 TAATAAATAACGATTAATATTT
57854 T
1 T
57855 TATCAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATAAATAACGATTAATATTT
Found at i:57871 original size:40 final size:37
Alignment explanation
Indices: 57824--57941 Score: 103
Period size: 41 Copynumber: 3.0 Consensus size: 37
57814 AAATAACTTT
* * *
57824 TAATATTTTAATAAT-TAACGATTAATATTTTTATCAATAT
1 TAATATTTTAA-AATATAA--AATAATATTTTAAT-AATAA
*
57864 TATTATTTTAAAATATAAAATAATATTTTAATAATAA
1 TAATATTTTAAAATATAAAATAATATTTTAATAATAA
* *
57901 TAATATTTTAAATATTTTTATAATTAATATTTTAATAATAA
1 TAATATTTTAAA-A--TATA-AAATAATATTTTAATAATAA
57942 ATGAATTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
37 15 0.23
38 13 0.20
39 3 0.05
40 16 0.24
41 19 0.29
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (37 bp):
TAATATTTTAAAATATAAAATAATATTTTAATAATAA
Found at i:57914 original size:18 final size:19
Alignment explanation
Indices: 57867--57915 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 19
57857 TCAATATTAT
57867 TATTTTAAAATATAAAATAA
1 TATTTT-AAATATAAAATAA
*
57887 TATTTT-AATA-ATAATAA
1 TATTTTAAATATAAAATAA
57904 TATTTTAAATAT
1 TATTTTAAATAT
57916 TTTTATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 12 0.46
18 8 0.31
20 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTTAAATATAAAATAA
Found at i:57929 original size:15 final size:15
Alignment explanation
Indices: 57884--57939 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 15
57874 AAATATAAAA
57884 TAATATTTTAATAAT
1 TAATATTTTAATAAT
57899 AATAATATTTT-A-AA-
1 --TAATATTTTAATAAT
57913 T-AT-TTTT-ATAAT
1 TAATATTTTAATAAT
57925 TAATATTTTAATAAT
1 TAATATTTTAATAAT
57940 AAATGAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 2 0.06
13 2 0.06
14 4 0.12
15 7 0.21
16 1 0.03
17 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATATTTTAATAAT
Found at i:57940 original size:26 final size:27
Alignment explanation
Indices: 57882--57940 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
57872 TAAAATATAA
57882 AATAATATTTTAATAATAATAATATTTT
1 AATAATATTTTAATAAT-ATAATATTTT
*
57910 -A-AATATTTTTATAAT-TAATATTTT
1 AATAATATTTTAATAATATAATATTTT
57934 AATAATA
1 AATAATA
57941 AATGAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 9 0.32
25 1 0.04
26 17 0.61
27 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATAATATTTTAATAATATAATATTTT
Found at i:58260 original size:16 final size:16
Alignment explanation
Indices: 58230--58279 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
58220 TTGATTACTG
58230 TAAATTTATAAATAATT
1 TAAATTTA-AAATAATT
58247 TAAATTTAAAATAATT
1 TAAATTTAAAATAATT
*
58263 TAAATTTAAAATGATT
1 TAAATTTAAAATAATT
58279 T
1 T
58280 CAACTCGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 24 0.75
17 8 0.25
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TAAATTTAAAATAATT
Found at i:59192 original size:20 final size:20
Alignment explanation
Indices: 59169--59220 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
59159 AATTAATTAT
59169 TATAATAGTAAATTAA-AAAA
1 TATAATAGTAAA-TAATAAAA
*
59189 TATAATAATAAA-AATAAAA
1 TATAATAGTAAATAATAAAA
59208 T-TAATAGTGAAAT
1 TATAATAGT-AAAT
59221 GTATTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 8 0.30
19 8 0.30
20 11 0.41
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
TATAATAGTAAATAATAAAA
Found at i:59354 original size:39 final size:37
Alignment explanation
Indices: 59293--59419 Score: 109
Period size: 36 Copynumber: 3.4 Consensus size: 37
59283 AGACATTAAA
* *
59293 TTAAAA-TATATATATATAAAATAAATAATTACAATATG
1 TTAAAATTATATTTATATTAAAT-AATAATTA-AATATG
* *
59331 TTAAAATTATATTTATGTTAAATAATAA--AATATATA
1 TTAAAATTATATTTATATTAAATAATAATTAA-ATATG
* ** *
59367 TTAAATTTATATTTGCATTAAGTAATAATTAAA-ATGG
1 TTAAAATTATATTTATATTAAATAATAATTAAATAT-G
*
59404 TTGAAATTATATTTAT
1 TTAAAATTATATTTAT
59420 GTCAAAAATA
Statistics
Matches: 70, Mismatches: 14, Indels: 11
0.74 0.15 0.12
Matches are distributed among these distances:
35 1 0.01
36 30 0.43
37 13 0.19
38 13 0.19
39 13 0.19
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (37 bp):
TTAAAATTATATTTATATTAAATAATAATTAAATATG
Found at i:59439 original size:8 final size:8
Alignment explanation
Indices: 59426--59473 Score: 73
Period size: 8 Copynumber: 6.2 Consensus size: 8
59416 TTATGTCAAA
59426 AATAAATT
1 AATAAATT
*
59434 AATAAAAT
1 AATAAATT
59442 AA-AAA-T
1 AATAAATT
59448 AATAAATT
1 AATAAATT
59456 AATAAATT
1 AATAAATT
59464 AATAAATT
1 AATAAATT
59472 AA
1 AA
59474 ACAAAAGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 3 0.08
7 6 0.16
8 28 0.76
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AATAAATT
Found at i:59451 original size:22 final size:23
Alignment explanation
Indices: 59426--59470 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
59416 TTATGTCAAA
59426 AATAAATTAATAAAATAA-AAAT
1 AATAAATTAATAAAATAATAAAT
*
59448 AATAAATTAATAAATTAATAAAT
1 AATAAATTAATAAAATAATAAAT
59471 TAAACAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAATTAATAAAATAATAAAT
Found at i:59603 original size:31 final size:31
Alignment explanation
Indices: 59546--59604 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
59536 ATTGTATTAA
* *
59546 TTATATAAGAAAATATATGTTTATTAATTTG
1 TTATATAAGAAAAAATATGTTAATTAATTTG
*
59577 TTATAT-AGAAATAAATTTGTTAATTAAT
1 TTATATAAGAAA-AAATATGTTAATTAAT
59605 ATTAAATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (31 bp):
TTATATAAGAAAAAATATGTTAATTAATTTG
Found at i:60085 original size:21 final size:22
Alignment explanation
Indices: 60047--60089 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
60037 TTTTTTATTA
60047 AATTTATATTTGATATATTAAT
1 AATTTATATTTGATATATTAAT
60069 AATTTATATTT-ATATATTAAT
1 AATTTATATTTGATATATTAAT
60090 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTTATATTTGATATATTAAT
Found at i:60885 original size:16 final size:14
Alignment explanation
Indices: 60857--60886 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
60847 TAATTAATAT
60857 AATTATTTTAAAAA
1 AATTATTTTAAAAA
60871 AATTATATTTAAAAA
1 AATTAT-TTTAAAAA
60886 A
1 A
60887 TTAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTATTTTAAAAA
Found at i:65510 original size:31 final size:31
Alignment explanation
Indices: 65475--65533 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
65465 ATTTTATAAG
*
65475 TTTAATTTATATTAAA-TATAATTCAAATCGA
1 TTTAATATA-ATTAAATTATAATTCAAATCGA
*
65506 TTTAATATAATTAAATTATAATTTAAAT
1 TTTAATATAATTAAATTATAATTCAAAT
65534 AAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (31 bp):
TTTAATATAATTAAATTATAATTCAAATCGA
Found at i:65564 original size:39 final size:39
Alignment explanation
Indices: 65514--65590 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
65504 GATTTAATAT
65514 AATTAAATTAT-AAT-TTAAATAAAAAATTATTTTTATTTA
1 AATTAAATTATAAATATT-AAT-AAAAATTATTTTTATTTA
* *
65553 AATTTAATTATAAATATTAATATAAATTATTTTTATTT
1 AATTAAATTATAAATATTAATAAAAATTATTTTTATTT
65591 TTTAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 26 0.76
40 6 0.18
41 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (39 bp):
AATTAAATTATAAATATTAATAAAAATTATTTTTATTTA
Found at i:65617 original size:39 final size:37
Alignment explanation
Indices: 65516--65617 Score: 88
Period size: 39 Copynumber: 2.7 Consensus size: 37
65506 TTTAATATAA
65516 TTAAATTATAATT-TAAAT-A-AA-AAATTATTTTTAT
1 TTAAATT-TAATTATAAATAATAATAAATTATTTTTAT
*
65550 TTAAATTTAATTATAAATATTAATATAAATTATTTTTATTT
1 TTAAATTTAATTATAAATAAT-A-ATAAATTATTTTTA--T
* *
65591 TTTAATATT-ATTTTAAATAATAATAAA
1 TTAAAT-TTAATTATAAATAATAATAAA
65618 AAAAACCTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
33 5 0.09
34 12 0.22
37 1 0.02
38 1 0.02
39 17 0.31
40 1 0.02
41 16 0.29
42 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (37 bp):
TTAAATTTAATTATAAATAATAATAAATTATTTTTAT
Found at i:66399 original size:3 final size:3
Alignment explanation
Indices: 66388--66425 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
66378 TAACAACAAC
* *
66388 AAT ACT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
66426 GTGGTAGGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:70467 original size:20 final size:20
Alignment explanation
Indices: 70406--70468 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 20
70396 AATTGGTAAA
* *
70406 ATAAAATTAT-AATTATTCTT
1 ATAAAAATATAAATT-TTATT
70426 AT-AAAATATATAA--TTA-T
1 ATAAAAATATA-AATTTTATT
70443 ATAAAAATATAAATTTTATT
1 ATAAAAATATAAATTTTATT
70463 ATAAAA
1 ATAAAA
70469 GATCGTATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
17 5 0.14
18 10 0.29
19 9 0.26
20 9 0.26
21 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAAAAATATAAATTTTATT
Found at i:71032 original size:2 final size:2
Alignment explanation
Indices: 71025--71053 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
71015 ACGAGAATAC
71025 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71054 ATAAATCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73138 original size:11 final size:11
Alignment explanation
Indices: 73114--73155 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
73104 AATTAATATA
73114 AATA-AAAAAT
1 AATATAAAAAT
*
73124 -ATATAAATAT
1 AATATAAAAAT
73134 AATATAAAAAT
1 AATATAAAAAT
*
73145 AAAATAAAAAT
1 AATATAAAAAT
73156 TTTATCTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 3 0.11
10 5 0.19
11 19 0.70
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:73714 original size:6 final size:7
Alignment explanation
Indices: 73698--73726 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
73688 TCCATCAAAG
73698 TTTTTAT
1 TTTTTAT
73705 TTTTTAT
1 TTTTTAT
73712 TTTTTAT
1 TTTTTAT
73719 TTTTTAT
1 TTTTTAT
73726 T
1 T
73727 CTATTAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:79397 original size:15 final size:15
Alignment explanation
Indices: 79377--79405 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79367 AACAATTCTA
79377 TTTTAATATTTTATG
1 TTTTAATATTTTATG
79392 TTTTAATATTTTAT
1 TTTTAATATTTTAT
79406 TAAAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTAATATTTTATG
Found at i:79985 original size:2 final size:2
Alignment explanation
Indices: 79978--80002 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
79968 ATAGAAAAAT
79978 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
80003 GCACACACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81387 original size:83 final size:82
Alignment explanation
Indices: 81299--81460 Score: 254
Period size: 82 Copynumber: 2.0 Consensus size: 82
81289 TTTACTCATA
* * *
81299 TAATCGGTATGATCAATTCTAATA-TAAAAAAATCAGATTAAAAACAAAAAATTATTATTTTAAA
1 TAATCGGTATAATCAATTCTAATATTAAAAAAACCAGATT-AAAA-AAAAAATTATTATTTAAAA
*
81363 AAAATGAAAAATAAAATTG
64 AAAATGAAAAACAAAATTG
*
81382 TAATCGGTATAATCAATTCTAATATTAAAAAAACCAGATTAGAAAAAAAATTATTATTTAAAAAA
1 TAATCGGTATAATCAATTCTAATATTAAAAAAACCAGATTAAAAAAAAAATTATTATTTAAAAAA
81447 AATGAAAAACAAAA
66 AATGAAAAACAAAA
81461 ATGTTCTTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
82 33 0.45
83 26 0.36
84 14 0.19
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (82 bp):
TAATCGGTATAATCAATTCTAATATTAAAAAAACCAGATTAAAAAAAAAATTATTATTTAAAAAA
AATGAAAAACAAAATTG
Found at i:81462 original size:83 final size:83
Alignment explanation
Indices: 81299--81462 Score: 251
Period size: 83 Copynumber: 2.0 Consensus size: 83
81289 TTTACTCATA
* * *
81299 TAATCGGTATGATCAATTCTAATATAAAAAAATCAGATTAAAAACAAAAAATTATTATTTTAAAA
1 TAATCGGTATAATCAATTCTAATATAAAAAAACCAGATTAAAAACAAAAAATTATTATTTAAAAA
*
81364 AAATGAAAAATAAAATTG
66 AAATGAAAAAAAAAATTG
*
81382 TAATCGGTATAATCAATTCTAATATTAAAAAAACCAGATT-AGAA-AAAAAATTATTATTTAAAA
1 TAATCGGTATAATCAATTCTAATA-TAAAAAAACCAGATTAAAAACAAAAAATTATTATTTAAAA
81445 AAAATGAAAAACAAAAAT
65 AAAATGAAAAA-AAAAAT
81463 GTTCTTAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
82 29 0.39
83 31 0.42
84 14 0.19
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (83 bp):
TAATCGGTATAATCAATTCTAATATAAAAAAACCAGATTAAAAACAAAAAATTATTATTTAAAAA
AAATGAAAAAAAAAATTG
Found at i:82101 original size:23 final size:23
Alignment explanation
Indices: 82066--82111 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
82056 ATGTTAAAAG
*
82066 TTTATCTAAATATAAATTATTTT
1 TTTATCTAAATATAAATAATTTT
* *
82089 TTTATTTATATATAAATAATTTT
1 TTTATCTAAATATAAATAATTTT
82112 CTATTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTATCTAAATATAAATAATTTT
Found at i:82119 original size:23 final size:23
Alignment explanation
Indices: 82072--82128 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
82062 AAAGTTTATC
* *
82072 TAAATATAAATTATTTTTTTATT
1 TAAATATAAATAATTTTTATATT
*
82095 TATATATAAATAATTTTCTAT-TT
1 TAAATATAAATAATTTT-TATATT
82118 TAAATA-AAATA
1 TAAATATAAATA
82129 GACTTATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 5 0.17
23 22 0.76
24 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TAAATATAAATAATTTTTATATT
Found at i:83264 original size:2 final size:2
Alignment explanation
Indices: 83259--83285 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
83249 GAGAGCAGCA
83259 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
83286 CAAGTCAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84026 original size:64 final size:62
Alignment explanation
Indices: 83901--84030 Score: 154
Period size: 64 Copynumber: 2.1 Consensus size: 62
83891 GATAATATTT
* * * *
83901 AAATAATAAATCCCTTAATTTAAGAAAGTTAATCCCTTAAATTAAAGAATCTCATAATTTAA
1 AAATAATAAATCACTTAACTTAAGAAAGCTAATCCCTTAAATCAAAGAATCTCATAATTTAA
* * * *
83963 AAATAATAAATCATTTAACTTAAGGAAAGCTAATATCTTTAAATC-AAGAAATCTCATATTTTAA
1 AAATAATAAATCACTTAACTTAA-GAAAGCTAAT-CCCTTAAATCAAAG-AATCTCATAATTTAA
84027 AAAT
1 AAAT
84031 TCTGAAAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
62 20 0.35
63 12 0.21
64 25 0.44
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (62 bp):
AAATAATAAATCACTTAACTTAAGAAAGCTAATCCCTTAAATCAAAGAATCTCATAATTTAA
Found at i:88204 original size:267 final size:266
Alignment explanation
Indices: 87708--88241 Score: 861
Period size: 267 Copynumber: 2.0 Consensus size: 266
87698 TTTTACAATA
* * * *
87708 AGAGTACCAAAGATTATCCCTCTATCCTGGGTTGGTATTGCTTCTACCTTTATCACCATTACTGA
1 AGAGCACCAAAAATTATCCCTCTATCCTGGGTTGGTATTACTTCTACCTTTATCACCATTACTAA
* * * * * *
87773 TCCATCTTGAGACTAATTTTCTAGCATAACTCCTTGATGGTTTTCTTCGGCCCTAATTAAGAATA
66 TCCATCCTGAGACCAATTTTCCAGCATAACTCCTTGACGGCTTTCTTCGACCCTAATTAAGAATA
* *
87838 TAGTCTCATTAAGGGATGACACTTCTTCCTTGCCAAGAATCTGCACCCTAACTTGATCAAATTCC
131 TAGTCTCATTAAGGGATAACACTTATTCCTTGCCAAGAATCTGCACCCTAACTTGATCAAATTCC
* * * *
87903 GCTTTAAGTCTTGCTAGAAAGTCATAAACCCTATCCTTTTCAATGTAGTTCTTTAAGATTGCAGC
196 ACATTAAGTCTTGCCAGAAAGTCATAAACCCTATCCTTTTCAATGTAGTTCTTTAAGATTGCAAC
87968 ATCTTC
261 ATCTTC
* *
87974 AGAGCACCAAAAATTATCCCTGCTATCCTGGGTTGGTATTACTTCTACTTTTATCGCCATTACTA
1 AGAGCACCAAAAATTATCCCT-CTATCCTGGGTTGGTATTACTTCTACCTTTATCACCATTACTA
* * *
88039 ATCCATCCTGAGACCGATTTTCCAGCATAACTTCTTGACGGCTTTCTTCGACCCTAATTAAGGAT
65 ATCCATCCTGAGACCAATTTTCCAGCATAACTCCTTGACGGCTTTCTTCGACCCTAATTAAGAAT
*
88104 ATAGTCTCATTAAGGGATAACACTTATTCCTTGCCAAGAATCTGCACCCTTACTTGATCAAATTC
130 ATAGTCTCATTAAGGGATAACACTTATTCCTTGCCAAGAATCTGCACCCTAACTTGATCAAATTC
88169 CACATTAAGTCTTGCCAGAAAGTCATAAACCCTATCCTTTTCAATGTAGTTCTTTAAGATTGCAA
195 CACATTAAGTCTTGCCAGAAAGTCATAAACCCTATCCTTTTCAATGTAGTTCTTTAAGATTGCAA
88234 CATCTTC
260 CATCTTC
88241 A
1 A
88242 AAACAGCTTG
Statistics
Matches: 245, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
266 19 0.08
267 226 0.92
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (266 bp):
AGAGCACCAAAAATTATCCCTCTATCCTGGGTTGGTATTACTTCTACCTTTATCACCATTACTAA
TCCATCCTGAGACCAATTTTCCAGCATAACTCCTTGACGGCTTTCTTCGACCCTAATTAAGAATA
TAGTCTCATTAAGGGATAACACTTATTCCTTGCCAAGAATCTGCACCCTAACTTGATCAAATTCC
ACATTAAGTCTTGCCAGAAAGTCATAAACCCTATCCTTTTCAATGTAGTTCTTTAAGATTGCAAC
ATCTTC
Found at i:89083 original size:64 final size:64
Alignment explanation
Indices: 89009--89135 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
88999 AAGGAATATG
* * * *
89009 ACAAATCTCTTAATTTAAGGAAAGCTAATTTCCTTAAATCAATGAATCTCATAATTTAGAAATA
1 ACAAATCTCTTAATTTAAAGAAAGCTAATATCCTTAAATCAAGGAATCTCATAATTTAAAAATA
* * *
89073 ACAAATCTCTTAATTTAAAGAAAGTTAATATCCTTAAATCAAGGAATCTTATACTTTAAAAAT
1 ACAAATCTCTTAATTTAAAGAAAGCTAATATCCTTAAATCAAGGAATCTCATAATTTAAAAAT
89136 TTTAAAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (64 bp):
ACAAATCTCTTAATTTAAAGAAAGCTAATATCCTTAAATCAAGGAATCTCATAATTTAAAAATA
Found at i:90770 original size:2 final size:2
Alignment explanation
Indices: 90759--90791 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
90749 TAGTATTTCA
*
90759 AT AT -T AT AT AT AA 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
90792 GTATCAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91798 original size:14 final size:14
Alignment explanation
Indices: 91779--91808 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91769 AAAATAATTA
91779 ATTTATATATATAT
1 ATTTATATATATAT
*
91793 ATTTATTTATATAT
1 ATTTATATATATAT
91807 AT
1 AT
91809 AGGATCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTATATATATAT
Found at i:92430 original size:20 final size:19
Alignment explanation
Indices: 92392--92430 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
92382 ATTAAAAAAT
*
92392 AAAATTTGATTAAATTTAA
1 AAAATTTGATTAAAATTAA
*
92411 AAAATTTGTGTTAAAATTAA
1 AAAATTTG-ATTAAAATTAA
92431 TGTTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
AAAATTTGATTAAAATTAA
Found at i:92478 original size:28 final size:29
Alignment explanation
Indices: 92442--92497 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
92432 GTTTTAATTT
*
92442 TTAATTTTTAATAAAAA-TAAAA-ATTAAA
1 TTAAATTTT-ATAAAAATTAAAATATTAAA
*
92470 TTAAATTTTTTAAAAATTAAAATATTAA
1 TTAAATTTTATAAAAATTAAAATATTAA
92498 TTATTGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 13 0.54
29 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAAATTTTATAAAAATTAAAATATTAAA
Found at i:92519 original size:33 final size:30
Alignment explanation
Indices: 92446--92536 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
92436 TAATTTTTAA
*
92446 TTTTTAATAAAAATAAAAATTAAATTAAAT
1 TTTTTAATAAAATTAAAAATTAAATTAAAT
* *
92476 TTTTT-A-AAAATTAAAATATTAATTATTGATT
1 TTTTTAATAAAATTAAAA-ATTAA--ATTAAAT
*
92507 TTTTTAATAAAATAAAAAATTTAAATTAAA
1 TTTTTAATAAAATTAAAAA-TTAAATTAAA
92537 AAGTAAGGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
28 9 0.18
29 6 0.12
30 5 0.10
31 14 0.29
32 2 0.04
33 13 0.27
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (30 bp):
TTTTTAATAAAATTAAAAATTAAATTAAAT
Found at i:92832 original size:74 final size:73
Alignment explanation
Indices: 92557--92940 Score: 325
Period size: 72 Copynumber: 5.3 Consensus size: 73
92547 TATGGGTATT
* * * * * *
92557 ATTTATCTTTATTTATAGAAGTTT-AAT-TATTGTATTTTGATTTAATTATACAAGTTTAAATTT
1 ATTTATTTTTATTTATAAAAGTTTAAATGTATT-T-TTTGGATATGATTATACGAGTTTAAATTT
* *
92620 TTAGGATATT
64 TTAAGATATA
* * * * *
92630 ATTTATCTTTATTTGTAAAAGTTTAAAT-T-TGTTTTTGGATATAATTATATGAGTTGAAATTTT
1 ATTTATTTTTATTTATAAAAGTTTAAATGTAT-TTTTTGGATATGATTATACGAGTTTAAATTTT
* *
92693 TAGGCTATA
65 TAAGATATA
* * *
92702 ATTTATTTTTA-TTATAGAAGTTTAAATGTATTTTTTGGATGTGCTTATACGAGTTTAAATTTTT
1 ATTTATTTTTATTTATAAAAGTTTAAATGTATTTTTTGGATATGATTATACGAGTTTAAA-TTTT
92766 TATAG-TATA
65 TA-AGATATA
* * * * * *
92775 ATTTATTTTTATTTGTAAAAGTTTAAATGTGTTTTTTGGGTATGATTGTGCGAGTTTATATTTTT
1 ATTTATTTTTATTTATAAAAGTTTAAATGTATTTTTTGGATATGATTATACGAGTTTA-AATTTT
92840 TATA-ATATA
65 TA-AGATATA
* * * * * * * **
92849 AATCATTTTTATTTATAAAAATTTAAATTTATTTTTTGGGT-TGGTTACATAAGTTTAAATTTTT
1 ATTTATTTTTATTTATAAAAGTTTAAATGTATTTTTTGGATATGATTATACGAGTTTAAATTTTT
* *
92913 AAGGTATT
66 AAGATATA
*
92921 ATTTATCTTTATTTATAAAA
1 ATTTATTTTTATTTATAAAA
92941 ATTTTAAAAA
Statistics
Matches: 256, Mismatches: 45, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
71 15 0.06
72 93 0.36
73 56 0.22
74 91 0.36
75 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.54
Consensus pattern (73 bp):
ATTTATTTTTATTTATAAAAGTTTAAATGTATTTTTTGGATATGATTATACGAGTTTAAATTTTT
AAGATATA
Found at i:93161 original size:23 final size:22
Alignment explanation
Indices: 93135--93177 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
93125 AATTATTACT
*
93135 AATTATAAATTTTATAAATAATA
1 AATTATAAACTTT-TAAATAATA
*
93158 AATTATTAACTTTTAAATAA
1 AATTATAAACTTTTAAATAA
93178 GATACTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTATAAACTTTTAAATAATA
Found at i:94325 original size:23 final size:23
Alignment explanation
Indices: 94272--94318 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
94262 TAAAAATAAG
* *
94272 TAAAAAATTAATAATATTAAACA
1 TAAAAAATTAATAATATCAAAAA
94295 TAAAAAATTAATAATATCAAAAA
1 TAAAAAATTAATAATATCAAAAA
94318 T
1 T
94319 CTCAAATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAAAATTAATAATATCAAAAA
Found at i:94741 original size:10 final size:10
Alignment explanation
Indices: 94728--94770 Score: 68
Period size: 10 Copynumber: 4.1 Consensus size: 10
94718 CATTTTTTCC
94728 TTTTTTCTTT
1 TTTTTTCTTT
94738 TTTTTTCTTCT
1 TTTTTTCTT-T
94749 CTTTTTTCTTT
1 -TTTTTTCTTT
94760 TTTTTTCTTT
1 TTTTTTCTTT
94770 T
1 T
94771 CATTTTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 20 0.65
11 2 0.06
12 9 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:94755 original size:22 final size:22
Alignment explanation
Indices: 94720--94778 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
94710 GGACTACCCA
94720 TTTT-TTC-CTTTTTTCTTTTT
1 TTTTCTTCTCTTTTTTCTTTTT
94740 TTTTCTTCTCTTTTTTCTTTTT
1 TTTTCTTCTCTTTTTTCTTTTT
*
94762 TTTTCTTTTCATTTTTT
1 TTTTCTTCTC-TTTTTT
94779 GGTTTAAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 4 0.11
21 3 0.09
22 22 0.63
23 6 0.17
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTCTTCTCTTTTTTCTTTTT
Found at i:95070 original size:23 final size:23
Alignment explanation
Indices: 95044--95087 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
95034 ACTTTTAATC
*
95044 AAATTA-ATCTTAGAAATAAAAAT
1 AAATTATACCTTA-AAATAAAAAT
95067 AAATTATACCTTAAAATAAAA
1 AAATTATACCTTAAAATAAAA
95088 CAAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATTATACCTTAAAATAAAAAT
Found at i:95092 original size:22 final size:23
Alignment explanation
Indices: 95043--95093 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
95033 TACTTTTAAT
*
95043 CAAATTAATCTTAGAAATAAAAA
1 CAAATTAACCTTAGAAATAAAAA
*
95066 TAAATTATACCTTA-AAAT-AAAA
1 CAAATTA-ACCTTAGAAATAAAAA
95088 CAAATT
1 CAAATT
95094 TAAACTACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 9 0.38
23 10 0.42
24 5 0.21
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (23 bp):
CAAATTAACCTTAGAAATAAAAA
Found at i:95449 original size:14 final size:15
Alignment explanation
Indices: 95416--95449 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
95406 CAACTCTTAC
95416 TTTTAAATTTTTTTA
1 TTTTAAATTTTTTTA
*
95431 ATTTAAA-TTTTTTA
1 TTTTAAATTTTTTTA
95445 TTTTA
1 TTTTA
95450 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTAAATTTTTTTA
Found at i:96357 original size:22 final size:22
Alignment explanation
Indices: 96332--96373 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
96322 AAAAATTTAC
96332 TTTTAAAACATT-TTTTTAGAAA
1 TTTTAAAA-ATTATTTTTAGAAA
*
96354 TTTTGAAAATTATTTTTAGA
1 TTTTAAAAATTATTTTTAGA
96374 TATGATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
TTTTAAAAATTATTTTTAGAAA
Found at i:97326 original size:28 final size:27
Alignment explanation
Indices: 97271--97339 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 27
97261 TTCTTATAGT
97271 ATTTTAATTAGAATTTTACATGATT-AA
1 ATTTTAATT-GAATTTTACATGATTAAA
*
97298 ATTTCTAATTGAATTTTGTCAT-ATATAAA
1 ATTT-TAATTGAATTTT-ACATGAT-TAAA
97327 ATTTTAATT-AATT
1 ATTTTAATTGAATT
97340 CCTTGAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
27 17 0.46
28 14 0.38
29 6 0.16
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (27 bp):
ATTTTAATTGAATTTTACATGATTAAA
Found at i:102464 original size:2 final size:2
Alignment explanation
Indices: 102457--102483 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
102447 CTTTGAAGAC
102457 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
102484 GAAACTCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118523 original size:14 final size:14
Alignment explanation
Indices: 118501--118530 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
118491 GAACATAAAA
118501 TATAATGATTGAAT
1 TATAATGATTGAAT
*
118515 TATATTGATTGAAT
1 TATAATGATTGAAT
118529 TA
1 TA
118531 CATAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TATAATGATTGAAT
Found at i:125176 original size:18 final size:18
Alignment explanation
Indices: 125153--125188 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
125143 TTTGAGAAAA
125153 CTCGTATATTTTGATAAT
1 CTCGTATATTTTGATAAT
125171 CTCGTATATTTTGATAAT
1 CTCGTATATTTTGATAAT
125189 AAATTGCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
CTCGTATATTTTGATAAT
Found at i:129049 original size:5 final size:5
Alignment explanation
Indices: 129034--129067 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
129024 TCAACCAATA
*
129034 ATATT ACATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATAT
129068 GTTATACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:131304 original size:14 final size:14
Alignment explanation
Indices: 131285--131312 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
131275 TGACACAAAA
131285 AATGATGTTTTTGT
1 AATGATGTTTTTGT
131299 AATGATGTTTTTGT
1 AATGATGTTTTTGT
131313 TTTGAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (14 bp):
AATGATGTTTTTGT
Found at i:132405 original size:17 final size:18
Alignment explanation
Indices: 132380--132413 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
132370 GCTGTTTAAA
132380 ATGACTTTA-AAATTTTT
1 ATGACTTTATAAATTTTT
*
132397 ATGATTTTATAAATTTT
1 ATGACTTTATAAATTTT
132414 CATGTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
ATGACTTTATAAATTTTT
Found at i:142415 original size:52 final size:52
Alignment explanation
Indices: 142359--142466 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
142349 ATTAAATTAC
* * *
142359 TCTTAAAGTCTTCTATATATATAAAAATTATTGATGTTCAAATTAGTTGTCA
1 TCTTAAAGTCTTCTATAGATATAAAAATTATTGATGTTAAAATTAGTTATCA
* * * *
142411 TCTTAGAGTCTTTTATAGATATAAGAATTGTTGATGTTAAAATTAGTTATCA
1 TCTTAAAGTCTTCTATAGATATAAAAATTATTGATGTTAAAATTAGTTATCA
142463 TCTT
1 TCTT
142467 TTAATGAGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (52 bp):
TCTTAAAGTCTTCTATAGATATAAAAATTATTGATGTTAAAATTAGTTATCA
Found at i:143974 original size:158 final size:158
Alignment explanation
Indices: 143727--144018 Score: 444
Period size: 158 Copynumber: 1.8 Consensus size: 158
143717 ATTGGTGTTC
** * *
143727 TAGAAATAAAATCGGGGTTGAAGTATCCCCTTGGAAATAACAGGGTTAGAGTATCCCTGATTGTG
1 TAGAAATAAAATCGGGGTTGAAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTATG
* * *
143792 AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGAAGTATCCTCTCGAAAATAACGGGGTTGGAG
66 AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGAAGCATCCCCTCGAAAATAACGCGGTTGGAG
143857 TATCTCTGATTGTGAGAAATCAATATTT
131 TATCTCTGATTGTGAGAAATCAATATTT
*
143885 TAGAAATAAAATCGGGGTTGGAA-TATCCCCTCAGAAATAACGGGGTT-GAAGTATCCCCGATTA
1 TAGAAATAAAATCGGGGTT-GAAGTATCCCCTCAGAAATAACAGGGTTAG-AGTATCCCCGATTA
* * * *
143948 TGAGAAATCAATATTTTAGGAATAAAGTCGGGGTTGGAGCATCCCCTCGGAAATAACGCTGTTGG
64 TGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGAAGCATCCCCTCGAAAATAACGCGGTTGG
144013 AGTATC
129 AGTATC
144019 CCCGATGATT
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
157 1 0.01
158 116 0.97
159 3 0.03
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (158 bp):
TAGAAATAAAATCGGGGTTGAAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTATG
AGAAATCAATATTTTAGGAATAAAGCCGGGGTTGAAGCATCCCCTCGAAAATAACGCGGTTGGAG
TATCTCTGATTGTGAGAAATCAATATTT
Found at i:144021 original size:79 final size:79
Alignment explanation
Indices: 143731--144024 Score: 401
Period size: 79 Copynumber: 3.7 Consensus size: 79
143721 GTGTTCTAGA
* * * *
143731 AATAAAATCGGGGTTGAAGTATCCCCTTGGAAATAACAGGGTTAGAGTATCCCTGATTGTGAGAA
1 AATAAAATCGGGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAA
143796 ATCAATATTTTAGG
66 ATCAATATTTTAGG
** * * * *
143810 AATAAAGCCGGGGTTGAAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCTCTGATTGTGAGAA
1 AATAAAATCGGGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAA
*
143875 ATCAATATTTTAGA
66 ATCAATATTTTAGG
* * *
143889 AATAAAATCGGGGTTGGAA-TATCCCCTCAGAAATAACGGGGTTGAAGTATCCCCGATTATGAGA
1 AATAAAATCGGGGTT-GAAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGA
143953 AATCAATATTTTAGG
65 AATCAATATTTTAGG
* * * **
143968 AATAAAGTCGGGGTTGGAGCATCCCCTCGGAAATAACGCTGTTGGAGTATCCCCGAT
1 AATAAAATCGGGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
144025 GATTAATGGG
Statistics
Matches: 187, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 2 0.01
79 182 0.97
80 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
AATAAAATCGGGGTTGAAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAA
ATCAATATTTTAGG
Found at i:144215 original size:51 final size:51
Alignment explanation
Indices: 144035--144217 Score: 260
Period size: 51 Copynumber: 3.6 Consensus size: 51
144025 GATTAATGGG
*
144035 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAATCGGA
* * * *
144087 GTTGGAGTATCCCCGACTAT-AGAAAATTGGTGTTTTGAAAATAAAACCGGT
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGAAAATAAAATCGGA
* * * *
144138 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTCGAAAATGAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
144189 GTTGGAGTATCCCCGATTGTGAAAAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
144218 AGAAACTTAA
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
51 86 0.75
52 28 0.25
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:146831 original size:804 final size:804
Alignment explanation
Indices: 144619--147844 Score: 5830
Period size: 804 Copynumber: 4.0 Consensus size: 804
144609 TACCTTTACG
* *
144619 AAATAAGAATTTCATGACCATTTTGGGAAAAATGTTGAAAAAAATCAAAAAAAATCTTCTAGTAG
1 AAATGAGAATTTCATGACCATTTTGGGAAAAATGTTGAAAAAAATC-AAAAAAATCTTCTGGTAG
* *
144684 GCCTAAAAGGCCCAGGCAGAATGCATTTACTGATTCCAGGGTTTTTGAACAACTTAGACTCAAAA
65 GCCTGAAAGGCCCAGGCAGAATGCATTTACTGATTCTAGGGTTTTTGAACAACTTAGACTCAAAA
144749 AATCATAACACTCTAGTCTAGATGAATCTAGGGG-CAAACAAGACATCGTTGAAAAGATAATTCA
130 AATCATAACACTCTAGTCTAGATGAATCT-GGGGACAAACAAGACATCGTTGAAAAGATAATTCA
* * *
144813 AAGCTGTTTGAGGGAAAAATATCAAAAAAATTCAGAAAAATCATTTCGAATTTTTTACATAATTT
194 AAGCTCTTTGAGGGAAAAATATCAAAAAAAATCAAAAAAATCATTTCGAATTTTTTACATAATTT
*
144878 CCAATCTCATACTACAGTGCTGCCAGACCAAACTAAGGAAGTGTTTAACGTTTTTGGTTTCTCCA
259 CCAATCTCATACTACAGTGCTGCCAGACCAAACTAAGGAAGTGTTTAACATTTTTGGTTTCTCCA
*
144943 CTAGATCGAACTCATGCTACGGGCATTCGAACGTCCGTAATCGAGAGGGGGAGGTAACATGGGCA
324 CTAGATCGAACTCATGCTACGGACATTCGAACGTCCGTAATCGAGAGGGGGAGGTAACATGGGCA
* *
145008 TCACATGTTCATTCCACAATCCCGGAGTAGTTTGGGATGATAGAACAACCCGTTGACCATGTCAC
389 TCACATGTTCATTCCACAATTCCGGAGTAGTTTGGGATGATGGAACAACCCGTTGACCATGTCAC
145073 CACCAAGGATTTTGGACTCTAGGCCAAGGCTAACCTACATCTATTGGACAAAATGGGACTTTTTG
454 CACCAAGGATTTTGGACTCTAGGCCAAGGCTAACCTACATCTATTGGACAAAATGGGACTTTTTG
* *
145138 TTGAAAAAACATCATTTTGGAGATTATCTCACCAAGAATCCAGGTCTGAAATTTTGCTATTTCTC
519 TTGAAAAAACATCATTTTGGAGATTATCTCACCAAGAATCCAGATCTGAAATTTTGCTATTTCCC
*
145203 CAAGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTAGT
584 CAAGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTAGC
145268 ATGAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTCGGCACACAAATGAGCATCTTGGCACAA
649 ATGAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTCGGCACACAAATGAGCATCTTGGCACAA
*
145333 ACAACATTCAGCAAACACAACATATGTCAT-AAGGGACAGAAATGCATGAACCAAGATTACATTT
714 ACAACATTCAGCAAACACAACATATGTCATGAA-GGACAGAAATGCATGAACCAAGATGACATTT
145397 TTATGGGAGGAAAAGAAAAAGAAAAGT
778 TTATGGGAGGAAAAGAAAAAGAAAAGT
145424 AAATGAGAATTTCATGACCATTTTGGGAAAAATGTTG-AAAAAATCAAAAAAATCTTCTGGTAGG
1 AAATGAGAATTTCATGACCATTTTGGGAAAAATGTTGAAAAAAATCAAAAAAATCTTCTGGTAGG
* *
145488 CCTGAAAGGCCCAGGCAGAATGCATTTACTGATTCTAGGATTTTTGAACAACTCAGACTCAAAAA
66 CCTGAAAGGCCCAGGCAGAATGCATTTACTGATTCTAGGGTTTTTGAACAACTTAGACTCAAAAA
145553 ATCATAACACTCTAGTCTAGATGAATCTGGGGACAAACAAGACATCGTTGAAAAGATAATTCAAA
131 ATCATAACACTCTAGTCTAGATGAATCTGGGGACAAACAAGACATCGTTGAAAAGATAATTCAAA
145618 GCTCTTTGAGGGAAAAATATCAAAAAAAAAATCAAAAAAATCATTTCGAATTTTTTACATAATTT
196 GCTCTTTGAGGGAAAAATATC--AAAAAAAATCAAAAAAATCATTTCGAATTTTTTACATAATTT
* * * * *
145683 TCAATCTCATACTGCAGTGCTGCCGGACCAAACTGAGGAAGTGTTTAACATTTTTGGTTTCTTCA
259 CCAATCTCATACTACAGTGCTGCCAGACCAAACTAAGGAAGTGTTTAACATTTTTGGTTTCTCCA
*
145748 CTAGATTGAACTCATGCTACGGACATTCGAACGTCCGTAATCGAGAGGGGGAGGTAACATGGGCA
324 CTAGATCGAACTCATGCTACGGACATTCGAACGTCCGTAATCGAGAGGGGGAGGTAACATGGGCA
* *
145813 TCACATGTTCATTCCACAATTCCGGAGTAGTTTGGGATAATGGAACAACCCGTTGACTATGTCAC
389 TCACATGTTCATTCCACAATTCCGGAGTAGTTTGGGATGATGGAACAACCCGTTGACCATGTCAC
* * *
145878 CACTAAGGAGTTTGGACTCTAGGCCAATGCTAACCTACATCTATTGGACAAAATGGGACTTTTTG
454 CACCAAGGATTTTGGACTCTAGGCCAAGGCTAACCTACATCTATTGGACAAAATGGGACTTTTTG
* *
145943 TTGAAAAAACATCATTTTGGAGATTATCTCACCAAGAATCCAGGTCTGAAATTTTGCTATTTCTC
519 TTGAAAAAACATCATTTTGGAGATTATCTCACCAAGAATCCAGATCTGAAATTTTGCTATTTCCC
*
146008 CAAGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTAGT
584 CAAGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTAGC
146073 ATGAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTCGGCACACAAATGAGCATCTTGGCACAA
649 ATGAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTCGGCACACAAATGAGCATCTTGGCACAA
*
146138 ACAACATTCAGCAAACACAACATATGTCATGAAGGACAGAAATGCATGAACCAAGATTACATTTT
714 ACAACATTCAGCAAACACAACATATGTCATGAAGGACAGAAATGCATGAACCAAGATGACATTTT
146203 TATGGGAGGAAAAGAAAAAGAAAAGT
779 TATGGGAGGAAAAGAAAAAGAAAAGT
146229 AAATGAGAATTTCATGACCATTTTGGGAAAAATGTTGAAAAAAATCAAAAAAATCTTCTGGTAGG
1 AAATGAGAATTTCATGACCATTTTGGGAAAAATGTTGAAAAAAATCAAAAAAATCTTCTGGTAGG
146294 CCTGAAAGGCCCAGGCAGAATGCATTTACTGATTCTAGGGTTTTTGAACAACTTAGACTCAAAAA
66 CCTGAAAGGCCCAGGCAGAATGCATTTACTGATTCTAGGGTTTTTGAACAACTTAGACTCAAAAA
146359 ATCATAACACTCTAGTCTAGATGAATCTGGGGACAAACAAGACATCGTTGAAAAGATAATTCAAA
131 ATCATAACACTCTAGTCTAGATGAATCTGGGGACAAACAAGACATCGTTGAAAAGATAATTCAAA
*
146424 GCTCTTTGAGGGAAAAATATCAAAAAAAATAAAAAAAATCATTTCGAATTTTTTACATAATTTCC
196 GCTCTTTGAGGGAAAAATATCAAAAAAAATCAAAAAAATCATTTCGAATTTTTTACATAATTTCC
* * *
146489 AATCTCATACTGCAGTGCTGCCGGACCAAACTAAGGAAGTGTTTAACATTTTTGGTTTCTTCACT
261 AATCTCATACTACAGTGCTGCCAGACCAAACTAAGGAAGTGTTTAACATTTTTGGTTTCTCCACT
146554 AGATCGAACTCATGCTACGGACATTCGAACGTCCGTAATCGAGAGGGGGAGGTAACATGGGCATC
326 AGATCGAACTCATGCTACGGACATTCGAACGTCCGTAATCGAGAGGGGGAGGTAACATGGGCATC
*
146619 ACATGTTCATTCCACAATTCCGGAGTAGTTTGGGATGATGGAACAACCCGTTGACTATGTCACCA
391 ACATGTTCATTCCACAATTCCGGAGTAGTTTGGGATGATGGAACAACCCGTTGACCATGTCACCA
* *
146684 CTAAGGATTTTGGACTCTAGGCCTAGGCTAACCTACATCTATTGGACAAAATGGGACTTTTTGTT
456 CCAAGGATTTTGGACTCTAGGCCAAGGCTAACCTACATCTATTGGACAAAATGGGACTTTTTGTT
* *
146749 GAGAAAACATCATTTTGGAGATTATCTCACCAAGAATCCAGATCTTAAATTTTGCTATTTCCCCA
521 GAAAAAACATCATTTTGGAGATTATCTCACCAAGAATCCAGATCTGAAATTTTGCTATTTCCCCA
146814 AGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTAGCAT
586 AGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTAGCAT
*
146879 GAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTTGGCACACAAATGAGCATCTTGGCACAAAC
651 GAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTCGGCACACAAATGAGCATCTTGGCACAAAC
*
146944 AACATTCAGCAAGCACAACATATGTCATGAAGGACAGAAATGCATGAACCAAGATGACATTTTTA
716 AACATTCAGCAAACACAACATATGTCATGAAGGACAGAAATGCATGAACCAAGATGACATTTTTA
*
147009 TGGGAGGAAAAGAAAAAGGAAAGT
781 TGGGAGGAAAAGAAAAAGAAAAGT
147033 AAATGAGAATTTCATGACCATTTTGGGAAAAATGTTGAAAAAAATCAAAAAAATCTTCTGGTAGG
1 AAATGAGAATTTCATGACCATTTTGGGAAAAATGTTGAAAAAAATCAAAAAAATCTTCTGGTAGG
147098 CCTGAAAGGCCCAGGCAGAATGCATTTACTGATTCTAGGGTTTTTGAACAACTTAGACTCAAAAA
66 CCTGAAAGGCCCAGGCAGAATGCATTTACTGATTCTAGGGTTTTTGAACAACTTAGACTCAAAAA
*
147163 ATCATAACACTCTAGTCTAGATGAATCTGGGGACAAACAAGACATCGCTGAAAAGATAATTCAAA
131 ATCATAACACTCTAGTCTAGATGAATCTGGGGACAAACAAGACATCGTTGAAAAGATAATTCAAA
* *
147228 GCTCTTTGAGGGAAAAATATCAAAAAAATTCAGAAAAATCATTTCGAATTTTTTACATAATTTCC
196 GCTCTTTGAGGGAAAAATATCAAAAAAAATCAAAAAAATCATTTCGAATTTTTTACATAATTTCC
* *
147293 AATCTCATACTACAGTGCTGCTAGACCAAACTAAGGAAGTGTTTAACGTTTTTGGTTTCTCCACT
261 AATCTCATACTACAGTGCTGCCAGACCAAACTAAGGAAGTGTTTAACATTTTTGGTTTCTCCACT
* *
147358 AGATCGAACTCATGCTACGGACATTCAAACGTCCGTAATCGAGAGAGGGAGGTAACATGGGCATC
326 AGATCGAACTCATGCTACGGACATTCGAACGTCCGTAATCGAGAGGGGGAGGTAACATGGGCATC
* *
147423 ACGTGCTCATTCCACAA-TCCTGGAGTAGTTTGGGATGATGGAACAACCCGTTGACCATGTCACC
391 ACATGTTCATTCCACAATTCC-GGAGTAGTTTGGGATGATGGAACAACCCGTTGACCATGTCACC
*
147487 ACCAAGGATTTTGGACTCTAGGCCAAGGCTAACCTACATCTATTGGACAAAAGGGGACTTTTTGT
455 ACCAAGGATTTTGGACTCTAGGCCAAGGCTAACCTACATCTATTGGACAAAATGGGACTTTTTGT
*
147552 TCAAAAAAAATCATCATTTTGGAGATTATCTCACCAAGAATCCAGATCTGAAATTTTGCTATTTC
520 T--GAAAAAA-CATCATTTTGGAGATTATCTCACCAAGAATCCAGATCTGAAATTTTGCTATTTC
147617 CCCAAGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTA
582 CCCAAGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTA
*
147682 GCATGAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTTGGCACACAAATGAGCATCTTGGCAC
647 GCATGAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTCGGCACACAAATGAGCATCTTGGCAC
*
147747 AAACAACATTCAGCAAACACAACATATGTCATGAAAGACAGAAATGCATGAACCAAGATGACATT
712 AAACAACATTCAGCAAACACAACATATGTCATGAAGGACAGAAATGCATGAACCAAGATGACATT
147812 TTTATGGGAGGAAAAGAAAAAGAAAAGT
777 TTTATGGGAGGAAAAGAAAAAGAAAAGT
147840 AAATG
1 AAATG
147845 CATGGTGATG
Statistics
Matches: 2346, Mismatches: 66, Indels: 16
0.97 0.03 0.01
Matches are distributed among these distances:
802 4 0.00
803 162 0.07
804 1078 0.46
805 641 0.27
806 183 0.08
807 278 0.12
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (804 bp):
AAATGAGAATTTCATGACCATTTTGGGAAAAATGTTGAAAAAAATCAAAAAAATCTTCTGGTAGG
CCTGAAAGGCCCAGGCAGAATGCATTTACTGATTCTAGGGTTTTTGAACAACTTAGACTCAAAAA
ATCATAACACTCTAGTCTAGATGAATCTGGGGACAAACAAGACATCGTTGAAAAGATAATTCAAA
GCTCTTTGAGGGAAAAATATCAAAAAAAATCAAAAAAATCATTTCGAATTTTTTACATAATTTCC
AATCTCATACTACAGTGCTGCCAGACCAAACTAAGGAAGTGTTTAACATTTTTGGTTTCTCCACT
AGATCGAACTCATGCTACGGACATTCGAACGTCCGTAATCGAGAGGGGGAGGTAACATGGGCATC
ACATGTTCATTCCACAATTCCGGAGTAGTTTGGGATGATGGAACAACCCGTTGACCATGTCACCA
CCAAGGATTTTGGACTCTAGGCCAAGGCTAACCTACATCTATTGGACAAAATGGGACTTTTTGTT
GAAAAAACATCATTTTGGAGATTATCTCACCAAGAATCCAGATCTGAAATTTTGCTATTTCCCCA
AGGTTGGAAAACCAACTCATGAAAGCCATAAGTTCATGTTATTCTCCATGTATGGGAGGTAGCAT
GAGCTTGGCTTGGGGATGTCCTTGAAATCTTGTTTCGGCACACAAATGAGCATCTTGGCACAAAC
AACATTCAGCAAACACAACATATGTCATGAAGGACAGAAATGCATGAACCAAGATGACATTTTTA
TGGGAGGAAAAGAAAAAGAAAAGT
Found at i:149113 original size:19 final size:19
Alignment explanation
Indices: 149052--149113 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
149042 TAGCGATACA
149052 TTGTATCGATACAACACTTA-
1 TTGTATCGATACAA-A-TTAT
* *
149072 -TGTATCGATACATTTACTAT
1 TTGTATCGATACA--AATTAT
149092 TTGTATCGATACAAATTAT
1 TTGTATCGATACAAATTAT
149111 TTG
1 TTG
149114 AAATTCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
19 21 0.62
20 1 0.03
21 12 0.35
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACAAATTAT
Found at i:155179 original size:20 final size:21
Alignment explanation
Indices: 155154--155202 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
155144 TTAACATTAA
* *
155154 ATTTTATTATAAC-ATGTGGT
1 ATTTTATAATAACAATGTGAT
*
155174 ATTTTAAAATAACAATGTGAT
1 ATTTTATAATAACAATGTGAT
155195 ACTTTTAT
1 A-TTTTAT
155203 CTCATGTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.48
21 7 0.30
22 5 0.22
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (21 bp):
ATTTTATAATAACAATGTGAT
Found at i:155800 original size:16 final size:16
Alignment explanation
Indices: 155714--155806 Score: 50
Period size: 16 Copynumber: 5.7 Consensus size: 16
155704 TGCATTATTT
* *
155714 ATTTGTATTTTTTTTA
1 ATTTTTATTATTTTTA
* *
155730 GTTTTTA-GATTTTT-
1 ATTTTTATTATTTTTA
* *
155744 ATTTTTCTGATTTTTTA
1 ATTTTTATTA-TTTTTA
155761 ATTGTTCTTAATTATATTTT-
1 A-T-TT-TT-ATTAT-TTTTA
155781 ATTTTTATTATTTTTA
1 ATTTTTATTATTTTTA
155797 ATTTTT-TTAT
1 ATTTTTATTAT
155807 AGCTGAACCG
Statistics
Matches: 60, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.08
15 15 0.25
16 21 0.35
17 3 0.05
18 3 0.05
19 3 0.05
20 4 0.07
21 6 0.10
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.72
Consensus pattern (16 bp):
ATTTTTATTATTTTTA
Found at i:155894 original size:3 final size:3
Alignment explanation
Indices: 155886--155944 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
155876 TATATTAAAA
*
155886 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
155933 TAT T-T T-T TAT TA
1 TAT TAT TAT TAT TA
155945 GATTTTTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 6 0.12
3 46 0.88
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:156261 original size:33 final size:37
Alignment explanation
Indices: 156165--156261 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 37
156155 AAAAATAATT
156165 ATTAAAGATATTTAATTAAATTAT-TTATATATAATAAATA
1 ATTAAA-ATA-TTAA-TAAATTATATTATATAT-ATAAATA
*
156205 ATTAAAA-ATTATTAAAATTATATT-TATAT-TAAA-A
1 ATTAAAATATTAAT-AAATTATATTATATATATAAATA
156239 A-TAAAATATTAATAAATTATATT
1 ATTAAAATATTAATAAATTATATT
156262 GTTGTTATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
33 15 0.29
34 7 0.13
35 4 0.08
36 1 0.02
37 15 0.29
38 3 0.06
39 1 0.02
40 6 0.12
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (37 bp):
ATTAAAATATTAATAAATTATATTATATATATAAATA
Found at i:156301 original size:11 final size:12
Alignment explanation
Indices: 156273--156355 Score: 53
Period size: 11 Copynumber: 6.6 Consensus size: 12
156263 TTGTTATAAT
*
156273 AATTATAATTAT
1 AATTATAATTAA
*
156285 ATTTAT-ATTAA
1 AATTATAATTAA
156296 AATTATTCAATAATAA
1 AATTA-T-AAT--TAA
*
156312 AAATAT-ATTAA
1 AATTATAATTAA
*
156323 AATTATATTTATTA
1 AATTATAATTA--A
*
156337 AATAATAATTAA
1 AATTATAATTAA
156349 AATTATA
1 AATTATA
156356 TTATTAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
11 16 0.30
12 16 0.30
13 2 0.04
14 12 0.22
15 1 0.02
16 7 0.13
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTATAATTAA
Found at i:156335 original size:33 final size:33
Alignment explanation
Indices: 156201--156344 Score: 105
Period size: 33 Copynumber: 4.2 Consensus size: 33
156191 ATATATAATA
156201 AATAATTAAAAAT-TATTAAAATTATATTTATATT
1 AATAA-TAAAAATATATTAAAATTATATTTAT-TT
* * *
156235 AAAAAT-AAAATAT-TAATAAATTATATTGTTGTTAT
1 AATAATAAAAATATATTA-AAATTATA-T-TTATT-T
* * * * * * *
156270 AATAATTATAATTATATTTATATTAAAATTATTC
1 AATAA-TAAAAATATATTAAAATTATATTTATTT
*
156304 AATAATAAAAATATATTAAAATTATATTTATTA
1 AATAATAAAAATATATTAAAATTATATTTATTT
156337 AATAATAA
1 AATAATAA
156345 TTAAAATTAT
Statistics
Matches: 82, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
32 7 0.09
33 39 0.48
34 11 0.13
35 12 0.15
36 1 0.01
37 11 0.13
38 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
AATAATAAAAATATATTAAAATTATATTTATTT
Found at i:156347 original size:26 final size:25
Alignment explanation
Indices: 156288--156367 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 25
156278 TAATTATATT
* *
156288 TATATTAAAATTATTCAATAATAAAAA
1 TATATTAAAATTA-T-ATTATTAAAAA
156315 TATATTAAAATTATATTTATTAAATAA
1 TATATTAAAATTATA-TTATTAAA-AA
156342 TA-ATTAAAATTATATTATTAATAAA
1 TATATTAAAATTATATTATTAA-AAA
156367 T
1 T
156368 TAAAAATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
25 11 0.23
26 20 0.42
27 17 0.35
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATTAAAATTATATTATTAAAAA
Found at i:156376 original size:29 final size:26
Alignment explanation
Indices: 156318--156379 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
156308 ATAAAAATAT
* *
156318 ATTAAAATTATATTTATTAAATAATA
1 ATTAAAATTATATTTAATAAATAAAA
156344 ATTAAAATTATATTATTAATAAATTAAAA
1 ATTAAAATTATA-T-TTAATAAA-TAAAA
156373 ATTAAAA
1 ATTAAAA
156380 ATTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 12 0.39
27 1 0.03
28 7 0.23
29 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAAAATTATATTTAATAAATAAAA
Found at i:156388 original size:8 final size:7
Alignment explanation
Indices: 156358--156387 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
156348 AAATTATATT
156358 ATTAATAA
1 ATTAA-AA
156366 ATTAAAA
1 ATTAAAA
156373 ATTAAAA
1 ATTAAAA
156380 ATTAAAA
1 ATTAAAA
156387 A
1 A
156388 AAAAGTGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATTAAAA
Found at i:156914 original size:29 final size:28
Alignment explanation
Indices: 156881--156960 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
156871 ATTATTTTTA
*
156881 ATTAATTATATAATAAAAAATACATATTT
1 ATTAATTATATAATAAAAAATA-AAATTT
*
156910 ATTAATTGAT-T-ATATAATAATAAAATTT
1 ATTAATT-ATATAATA-AAAAATAAAATTT
* *
156938 ATTTATTATATTAATTAAAAATA
1 ATTAATTATA-TAATAAAAAATA
156961 TTTTATATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.05
28 14 0.34
29 21 0.51
30 4 0.10
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
ATTAATTATATAATAAAAAATAAAATTT
Found at i:156922 original size:33 final size:33
Alignment explanation
Indices: 156873--156935 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
156863 ATAGTTATAT
156873 TATTTTTAATTAATTATATAATAA-AAAATACA
1 TATTTTTAATTAATTATATAATAATAAAATACA
*
156905 TATTTATTAATTGATTATATAATAATAAAAT
1 TATTT-TTAATTAATTATATAATAATAAAAT
156936 TTATTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 5 0.18
33 18 0.64
34 5 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (33 bp):
TATTTTTAATTAATTATATAATAATAAAATACA
Found at i:156968 original size:20 final size:20
Alignment explanation
Indices: 156943--156983 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
156933 AATTTATTTA
156943 TTATATTAATTAAAAA-TATT
1 TTATATT-ATTAAAAATTATT
*
156963 TTATATTTTTAAAAATTATT
1 TTATATTATTAAAAATTATT
156983 T
1 T
156984 AATTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATTATTAAAAATTATT
Found at i:157013 original size:26 final size:26
Alignment explanation
Indices: 156928--157014 Score: 67
Period size: 26 Copynumber: 3.4 Consensus size: 26
156918 ATTATATAAT
156928 AATAAAATTTATTTATTATATTAAT-TA
1 AATAAAATTTATTTATT-T-TTAATATA
* *
156955 AA-AATATTT-TATATTTTTAA-A-A
1 AATAAAATTTATTTATTTTTAATATA
**
156977 ATTATTTAATTTATTTATTTTTAATATA
1 A--ATAAAATTTATTTATTTTTAATATA
157005 AATAAAATTT
1 AATAAAATTT
157015 TAATATATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
22 2 0.04
23 4 0.09
24 2 0.04
25 9 0.20
26 23 0.51
27 3 0.07
28 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
AATAAAATTTATTTATTTTTAATATA
Found at i:157080 original size:34 final size:37
Alignment explanation
Indices: 156977--157081 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 37
156967 ATTTTTAAAA
* *
156977 ATTATTTAAT-T-TATTT-ATT-TTTAATATAAATAA
1 ATTATTTAATATATATTTAATTATTTAGTATAAATAT
* *
157010 AAT-TTTAATATATATTTTATTATTTAGTATAAATAT
1 ATTATTTAATATATATTTAATTATTTAGTATAAATAT
* *
157046 ATTATTTAATA-AT-TTTAATT-TTTATTATATATAT
1 ATTATTTAATATATATTTAATTATTTAGTATAAATAT
157080 AT
1 AT
157082 ATAAATTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
32 6 0.10
33 3 0.05
34 19 0.32
35 9 0.15
36 16 0.27
37 7 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
ATTATTTAATATATATTTAATTATTTAGTATAAATAT
Done.