Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008548.1 Hibiscus syriacus cultivar Beakdansim tig00111440_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1170587
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:4373 original size:25 final size:25
Alignment explanation
Indices: 4339--4394 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
4329 ATTATGAAAA
4339 TGTTGTTGCATATATTGAAAATTAG
1 TGTTGTTGCATATATTGAAAATTAG
4364 TGTTGTTGCATATATTGAAAATTAG
1 TGTTGTTGCATATATTGAAAATTAG
*
4389 GGTTGT
1 TGTTGT
4395 AGTATGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.45
Consensus pattern (25 bp):
TGTTGTTGCATATATTGAAAATTAG
Found at i:4844 original size:20 final size:20
Alignment explanation
Indices: 4797--4837 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4787 AAATGAAATG
4797 ATTTAACCATTTGATTAAAA
1 ATTTAACCATTTGATTAAAA
* *
4817 ATTATAACCTTTTGATGAAAA
1 ATT-TAACCATTTGATTAAAA
4838 TGTTAACATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTTAACCATTTGATTAAAA
Found at i:9160 original size:22 final size:21
Alignment explanation
Indices: 9096--9172 Score: 90
Period size: 22 Copynumber: 3.8 Consensus size: 21
9086 ACTGAATATT
9096 TGTCCCGAAGGACCACTGAT-
1 TGTCCCGAAGGACCACTGATA
* * *
9116 TGTTCTGAAGAACCAC---TA
1 TGTCCCGAAGGACCACTGATA
9134 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTG-ATA
9156 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
9173 CCTTAAGAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.02
18 13 0.28
20 13 0.28
22 19 0.41
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (21 bp):
TGTCCCGAAGGACCACTGATA
Found at i:16835 original size:19 final size:19
Alignment explanation
Indices: 16809--16879 Score: 133
Period size: 19 Copynumber: 3.7 Consensus size: 19
16799 TTTAAGTAGG
16809 TGCATCGATGCACTCCTCA
1 TGCATCGATGCACTCCTCA
*
16828 TTCATCGATGCACTCCTCA
1 TGCATCGATGCACTCCTCA
16847 TGCATCGATGCACTCCTCA
1 TGCATCGATGCACTCCTCA
16866 TGCATCGATGCACT
1 TGCATCGATGCACT
16880 AATTGCATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.28
Consensus pattern (19 bp):
TGCATCGATGCACTCCTCA
Found at i:19334 original size:23 final size:22
Alignment explanation
Indices: 19284--19334 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
19274 GAAAGGTTAA
*
19284 CATGAAAAGACTTGACTTTTTG
1 CATGAAAAGACTTAACTTTTTG
** *
19306 GGTGAAAAGACTTAACTATTTTT
1 CATGAAAAGACTTAACT-TTTTG
19329 CATGAA
1 CATGAA
19335 TAGAGATGTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (22 bp):
CATGAAAAGACTTAACTTTTTG
Found at i:19772 original size:22 final size:22
Alignment explanation
Indices: 19726--19772 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
19716 CAGTAATATA
*
19726 AATATCTATGTATATGTGTACG
1 AATATCTATGTATATGTGCACG
*
19748 AATATGTATGTTATATGTGCA-G
1 AATATCTATG-TATATGTGCACG
19770 AAT
1 AAT
19773 CAATTATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (22 bp):
AATATCTATGTATATGTGCACG
Found at i:25843 original size:65 final size:63
Alignment explanation
Indices: 25748--25889 Score: 164
Period size: 65 Copynumber: 2.2 Consensus size: 63
25738 CACATTGAAT
* * * *
25748 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATG-CATTTGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAAGAAAAAACATCGAAGGTAATTT-GTGCATCGATGCAT-AGGTA
* *
25811 GTGCATCGATGCATCCCTTTAAA-ATTAAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGT
1 GTGCATCGATGCA-CCCTTTAAAGA--AAAAACATCGAAGGTAATTTGTGCATCGATGCATAGGT
25875 A
63 A
25876 GTGCATCGATGCAC
1 GTGCATCGATGCAC
25890 ATGTTAAAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
63 14 0.21
64 11 0.16
65 39 0.57
66 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAAAAACATCGAAGGTAATTTGTGCATCGATGCATAGGTA
Found at i:25922 original size:20 final size:22
Alignment explanation
Indices: 25877--25934 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
25867 GCATGGGTAG
25877 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
25901 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
25921 TGCATCGATGCACT
1 TGCATCGATGCACT
25935 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:26382 original size:37 final size:37
Alignment explanation
Indices: 26337--26409 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
26327 TGCACACATG
* * **
26337 ATAATATGATATAAGTTAAATTATGTA-ATATGATAC
1 ATAATATGAGATAAGTGAAAAAATGTATATATGATAC
26373 ATAACTATGAGATAAGTGAAAAAATGTATATATGATA
1 ATAA-TATGAGATAAGTGAAAAAATGTATATATGATA
26410 GAGATTATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 4 0.13
37 19 0.61
38 8 0.26
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.34
Consensus pattern (37 bp):
ATAATATGAGATAAGTGAAAAAATGTATATATGATAC
Found at i:28229 original size:2 final size:2
Alignment explanation
Indices: 28222--28253 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
28212 AAGATATAAA
28222 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
28254 TTGACTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39687 original size:85 final size:86
Alignment explanation
Indices: 39585--39760 Score: 345
Period size: 85 Copynumber: 2.1 Consensus size: 86
39575 ATTTAGTTTC
39585 ATATTGGGCCAAACCATTAATCATAAGAGCTTTTTTCTTTTCAAATTCTGTGTGTACTAAGTACA
1 ATATTGGGCCAAACCATTAATCATAAGAGCTTTTTTCTTTTCAAATTCTGTGTGTACTAAGTACA
39650 CGAATGTAAGTTGTAGATTTA
66 CGAATGTAAGTTGTAGATTTA
39671 ATATT-GGCCAAACCATTAATCATAAGAGCTTTTTTCTTTTCAAATTCTGTGTGTACTAAGTACA
1 ATATTGGGCCAAACCATTAATCATAAGAGCTTTTTTCTTTTCAAATTCTGTGTGTACTAAGTACA
39735 CGAATGTAAGTTGTAGATTTA
66 CGAATGTAAGTTGTAGATTTA
39756 ATATT
1 ATATT
39761 TATATTTTAA
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 85 0.94
86 5 0.06
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (86 bp):
ATATTGGGCCAAACCATTAATCATAAGAGCTTTTTTCTTTTCAAATTCTGTGTGTACTAAGTACA
CGAATGTAAGTTGTAGATTTA
Found at i:43319 original size:41 final size:39
Alignment explanation
Indices: 43226--43320 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
43216 ATATATATAT
* * * **
43226 TTAAATTAAATATATAAATATTATATATATATTTTTAAC
1 TTAATTTAAATTTATTAATATTATATATATATTAATAAC
43265 TTAATTTAAATTTATTAATATTATATATATATATAATAA-
1 TTAATTTAAATTTATTAATATTATATATATAT-TAATAAC
*
43304 TTATTTTTAATATTTAT
1 TTA-ATTTAA-ATTTAT
43321 CGGGCTGGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 32 0.68
40 9 0.19
41 6 0.13
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (39 bp):
TTAATTTAAATTTATTAATATTATATATATATTAATAAC
Found at i:43433 original size:31 final size:30
Alignment explanation
Indices: 43369--43438 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
43359 ACCAAACCCG
* *
43369 TCCCCGTCCCCGTTTAGCATAAACGATTTT
1 TCCCCATCCCCGTTTAGCACAAACGATTTT
* *
43399 TCCCCATCCTCGTTTAGCACAAACGGTTTT
1 TCCCCATCCCCGTTTAGCACAAACGATTTT
*
43429 TTCCCATCCC
1 TCCCCATCCC
43439 AATTTAATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.37, G:0.11, T:0.33
Consensus pattern (30 bp):
TCCCCATCCCCGTTTAGCACAAACGATTTT
Found at i:45352 original size:14 final size:14
Alignment explanation
Indices: 45333--45425 Score: 63
Period size: 14 Copynumber: 6.9 Consensus size: 14
45323 ACCTGGACTG
45333 AATAAAATAAAATA
1 AATAAAATAAAATA
*
45347 AATAAAATATAAT-
1 AATAAAATAAAATA
*
45360 -ATAAAAT-ATATA
1 AATAAAATAAAATA
*
45372 ATATATAAT-AAAT-
1 A-ATAAAATAAAATA
45385 AAT-AAATAAAAATA
1 AATAAAAT-AAAATA
* *
45399 ACATAAAATAATATT
1 A-ATAAAATAAAATA
*
45414 AATATAATAAAA
1 AATAAAATAAAA
45426 ACTATATAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
11 5 0.08
12 9 0.15
13 5 0.08
14 31 0.51
15 7 0.11
16 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:45386 original size:7 final size:7
Alignment explanation
Indices: 45343--45399 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
45333 AATAAAATAA
45343 AATAAAT
1 AATAAAT
45350 AA-AATAT
1 AATAA-AT
45357 AATATAA-
1 AATA-AAT
*
45364 AATATAT
1 AATAAAT
*
45371 AATATAT
1 AATAAAT
45378 AATAAAT
1 AATAAAT
45385 AATAAAT
1 AATAAAT
45392 AA-AAAT
1 AATAAAT
45398 AA
1 AA
45400 CATAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
6 9 0.20
7 32 0.73
8 2 0.05
9 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAAAT
Found at i:45419 original size:41 final size:42
Alignment explanation
Indices: 45343--45424 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
45333 AATAAAATAA
*
45343 AATAAATAAAATATAATATAAAATATATAATATATAATAAAT
1 AATAAATAAAATATAACATAAAATATATAATATATAATAAAT
*
45385 AATAAATAAAA-ATAACATAAAATA-ATATTAATATAATAAA
1 AATAAATAAAATATAACATAAAATATATAAT-ATATAATAAA
45425 AACTATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.11
41 22 0.59
42 11 0.30
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (42 bp):
AATAAATAAAATATAACATAAAATATATAATATATAATAAAT
Found at i:45437 original size:5 final size:5
Alignment explanation
Indices: 45333--45422 Score: 57
Period size: 5 Copynumber: 18.8 Consensus size: 5
45323 ACCTGGACTG
* * * *
45333 AATAA AATAA AATA- AATAA AATAT AATAT AAAAT -ATAT AATAT -ATAAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT-AT
* * *
45381 AA-AT AATA- AATA- AAAAT AACAT AAAAT AATATT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATA-T AATAT AATA
45423 AAAACTATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
4 20 0.28
5 45 0.63
6 6 0.08
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (5 bp):
AATAT
Found at i:45533 original size:33 final size:34
Alignment explanation
Indices: 45484--45568 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 34
45474 CGTGCATTCA
45484 AAAAATATTTTAAAAAC-CATATTATATGTTTTC
1 AAAAATATTTTAAAAACACATATTATATGTTTTC
* * *
45517 AAAACTATTTTTAAAACTATATATTATATGTTTTC
1 AAAAATATTTTAAAAAC-ACATATTATATGTTTTC
*
45552 AAAATTATTTTCAAAAA
1 AAAAATATTTT-AAAAA
45569 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
33 15 0.34
35 25 0.57
36 4 0.09
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (34 bp):
AAAAATATTTTAAAAACACATATTATATGTTTTC
Found at i:56321 original size:170 final size:170
Alignment explanation
Indices: 56039--56475 Score: 687
Period size: 170 Copynumber: 2.6 Consensus size: 170
56029 AAACTATTTC
*
56039 CACGAATTTGTAAATCCTTCGGGTCATTTGTCAGTCTTTCGAGCCAGATGATAAGTCCTTAGGGC
1 CACGAATTTGTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCCAGATGATAAGTCCTTAGGGC
* * *
56104 CATCCGTCAAACCTTTTGGTAGGATGTTTACATATGATTTTCGCATGAAAATGAGATAGTGATTT
66 TATCCGTCAAACCTTTGGGTAGGATGTTTACATATGATTTTCGCATGAAAATGAGATAGCGATTT
*
56169 TCAAATTTTCTCATTTAATGTTCTAGAAAATCAAATTTAT
131 TCAAAATTTCTCATTTAATGTTCTAGAAAATCAAATTTAT
* *
56209 CACGAATTTATAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCCAGATTATAAGTCCTTAGGGC
1 CACGAATTTGTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCCAGATGATAAGTCCTTAGGGC
* * *
56274 TATTCGTCAAACCTTTGGGTAGGAAGTTTACATATGATTTTCGCATGAAAATGTGATAGCGATTT
66 TATCCGTCAAACCTTTGGGTAGGATGTTTACATATGATTTTCGCATGAAAATGAGATAGCGATTT
56339 TCAAAATTTCTCATTTAATGTTCTAGAAAATCAAATTTAT
131 TCAAAATTTCTCATTTAATGTTCTAGAAAATCAAATTTAT
* * * * **
56379 CACGAATTTGTAAATCTTTCAGGTCATCTGTCAGTCTTTCTAGCAAGATGATAAGTTATTAGGG-
1 CACGAATTTGTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCCAGATGATAAGTCCTTAGGGC
* **
56443 TCATCCGTCAGACCTTTGGCCAGGATGTTTACA
66 T-ATCCGTCAAACCTTTGGGTAGGATGTTTACA
56476 CTCTTTAATT
Statistics
Matches: 243, Mismatches: 23, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
169 1 0.00
170 242 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (170 bp):
CACGAATTTGTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCCAGATGATAAGTCCTTAGGGC
TATCCGTCAAACCTTTGGGTAGGATGTTTACATATGATTTTCGCATGAAAATGAGATAGCGATTT
TCAAAATTTCTCATTTAATGTTCTAGAAAATCAAATTTAT
Found at i:56655 original size:12 final size:12
Alignment explanation
Indices: 56638--56702 Score: 60
Period size: 12 Copynumber: 5.1 Consensus size: 12
56628 TTTGTCCGGT
56638 TATATTATTATA
1 TATATTATTATA
56650 TATATTATTAATTA
1 TATATTATT-A-TA
*
56664 TATATGTTTTTATA
1 TATA--TTATTATA
*
56678 TACATTATTAT-
1 TATATTATTATA
56689 TATATATATTATA
1 TATAT-TATTATA
56702 T
1 T
56703 TAATAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
11 4 0.09
12 21 0.49
13 2 0.05
14 11 0.26
15 1 0.02
16 4 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (12 bp):
TATATTATTATA
Found at i:56735 original size:45 final size:47
Alignment explanation
Indices: 56639--56740 Score: 106
Period size: 48 Copynumber: 2.2 Consensus size: 47
56629 TTGTCCGGTT
* * *
56639 ATATTAT-TATATATATTATTAATTATATATGTTTTTATATACATTA
1 ATATTATATATATATATTAATAATAATATATGTTTTTATATACAATA
*
56685 TTATTATATATATTATATTAATAATAATAT-TAG-TTTTAT-TA-AATA
1 ATATTATATATA-TATATTAATAATAATATAT-GTTTTTATATACAATA
*
56730 ATATTACATAT
1 ATATTATATAT
56741 GACCTGGAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
45 12 0.26
46 8 0.17
47 11 0.23
48 16 0.34
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (47 bp):
ATATTATATATATATATTAATAATAATATATGTTTTTATATACAATA
Found at i:61284 original size:2 final size:2
Alignment explanation
Indices: 61277--61312 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
61267 ATGTAATGTA
61277 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
61313 GATGTAATAT
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):
AT
Found at i:61426 original size:21 final size:22
Alignment explanation
Indices: 61400--61448 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
61390 ATAATATAAA
* *
61400 ATATAA-ATGTAACATATATACT
1 ATATAATATGCAA-ATAAATACT
61422 -TATAATATGCAAATAAATACT
1 ATATAATATGCAAATAAATACT
61443 ATATAA
1 ATATAA
61449 CATAGAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAATATGCAAATAAATACT
Found at i:62333 original size:85 final size:85
Alignment explanation
Indices: 62216--63048 Score: 869
Period size: 85 Copynumber: 9.8 Consensus size: 85
62206 ATGTGTCATC
* * * * * ** * * *
62216 GAGCTGAATGGAATCAAACTTGATA-GTTTTTGTTGACATATATCTTTTCTCGACTTAAGTTATG
1 GAGCTGAATGTAATCAAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
62280 CTGTAAATTTGACATGCCCTT
65 CTGTAAATTTGATATGCCCTT
* * * * *
62301 GAGCTGAATGAAATCAAACTCGAAGGTATTTGTTGACAAATAACCCTTCTCACCTTGAGTTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
62366 TGTAAATTTGATATGTCCTT
66 TGTAAATTTGATATGCCCTT
* * * * *
62386 GAGTTGAATGTTATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTCTCACCTTGAGCTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
62451 TGTAAATTTGATATGCCCTT
66 TGTAAATTTGATATGCCCTT
* * * * * * *
62471 GAGGTGAATGTAATCAAACTCGGAGGTCTTTTTTTATAGATAACCTTTCTCGCCTTGAGCTATGT
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
62536 TATAAATTTGATATGCCCTT
66 TGTAAATTTGATATGCCCTT
* * *
62556 GAGCTGAATATAATCAAACTCGAAGGTCTTT-TCTGACAGATAGCCC-T-TCGCCTTGAGCTATA
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGT-TGACAGATAACCCTTCTCGCCTTGAGCTATG
62618 CTGTAAATTTGATATGCCCTT
65 CTGTAAATTTGATATGCCCTT
* * * * * *
62639 GAACTGAATGCAATCTAACTAGAAGGTCTTTGTTGACAGATAACCCTTCTGGCCTTGAGATATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
* * *
62704 TATAAATTTG--GTG-TCTT
66 TGTAAATTTGATATGCCCTT
* *
62721 GAGCTGAAT-TAAATCAAACTCGAAGGTTTTTGTTGATAGATAACCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGT-AATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* ** * **
62785 TTAAAAATTTGGTATGTACTT
65 CTGTAAATTTGATATGCCCTT
* * *
62806 GAGCTGAATGTAATCGAACTTGAAGGT-TTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* ** * *
62870 TTAAAAATTTGGTATGTCCTT
65 CTGTAAATTTGATATGCCCTT
* *
62891 GAGCTGAATGTAATCGAACTCGAAGGT-TTTGGTTGACAGATAACCCTTCTCGCCATGAGCTATG
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* * *
62955 CCGTAAATTTGACATGTCCTT
65 CTGTAAATTTGATATGCCCTT
* * * ** * * * *
62976 GAGCTGAGTGTAAT-AGAACTCGAAGGTTTTTTGCTGGTAGATAGCCATTTTCGCCTTGAACTAT
1 GAGCTGAATGTAATCA-AACTCGAAGG-TCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
*
63040 GCTGCAAAT
64 GCTGTAAAT
63049 AGTTCCTTTA
Statistics
Matches: 643, Mismatches: 91, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
82 67 0.10
83 73 0.11
84 10 0.02
85 457 0.71
86 33 0.05
87 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCCTT
Found at i:64423 original size:98 final size:98
Alignment explanation
Indices: 64218--64412 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
64208 GGATAACTCA
* * *
64218 ATATTATAATAACCTTTATTAGGTTAGTTGAACCTTATCCATAGAGCCGGGGCGTTTAACCAATT
1 ATATTATAATAACCTTTATCAGGTTAGTTGAACCTTATCCATAAAGCCGAGGCGTTTAACCAATT
*
64283 GGTCAGAGGGACAACTCAAGCTTTATTGTATAG
66 GCTCAGAGGGACAACTCAAGCTTTATTGTATAG
* *
64316 ATATTATAATCACCTTTATCAGGTTAGTTGAATCTTATCCATAAAGCCGAGGCGTTTAACCAATT
1 ATATTATAATAACCTTTATCAGGTTAGTTGAACCTTATCCATAAAGCCGAGGCGTTTAACCAATT
64381 GCTCTAGAGGGACAACTCAAGCTTTATTGTAT
66 GCTC-AGAGGGACAACTCAAGCTTTATTGTAT
64413 CTATATATAA
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 63 0.70
99 27 0.30
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (98 bp):
ATATTATAATAACCTTTATCAGGTTAGTTGAACCTTATCCATAAAGCCGAGGCGTTTAACCAATT
GCTCAGAGGGACAACTCAAGCTTTATTGTATAG
Found at i:65403 original size:29 final size:29
Alignment explanation
Indices: 65366--65423 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
65356 AGTTACGTCT
* *
65366 GTCCTACTGATTCTTAAACCCATGAGCCA
1 GTCCCACTGATTCTTAAACCCACGAGCCA
65395 GTCCCACTGATTCTTAAACCCACGAGCCA
1 GTCCCACTGATTCTTAAACCCACGAGCCA
65424 ATCTCGGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (29 bp):
GTCCCACTGATTCTTAAACCCACGAGCCA
Found at i:69027 original size:27 final size:28
Alignment explanation
Indices: 68980--69042 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
68970 AATGTTAAAC
* * *
68980 AAAAAGAAAAATTTTAGAAGATTAAATT
1 AAAAATAAAAATTTTAGAAGATAAAAAT
*
69008 AAAAATAAAAATTTT-TAAGATAAAAAT
1 AAAAATAAAAATTTTAGAAGATAAAAAT
69035 AAAAATAA
1 AAAAATAA
69043 TAATGTGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (28 bp):
AAAAATAAAAATTTTAGAAGATAAAAAT
Found at i:73222 original size:12 final size:12
Alignment explanation
Indices: 73205--73231 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
73195 AAATAATACA
73205 TAAAAAAATTCT
1 TAAAAAAATTCT
73217 TAAAAAAATTCT
1 TAAAAAAATTCT
73229 TAA
1 TAA
73232 TTTCAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAAAAATTCT
Found at i:73243 original size:8 final size:8
Alignment explanation
Indices: 73230--73263 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
73220 AAAAATTCTT
73230 AATTTCAA
1 AATTTCAA
73238 AATTTCAA
1 AATTTCAA
73246 AATTTCAA
1 AATTTCAA
73254 AATTTCAA
1 AATTTCAA
73262 AA
1 AA
73264 AACACCCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTTCAA
Found at i:76265 original size:138 final size:138
Alignment explanation
Indices: 76077--78345 Score: 3668
Period size: 138 Copynumber: 16.4 Consensus size: 138
76067 CACCCATTGC
* *
76077 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCACCAAACTCTTGCAACCAGAAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* * * *
76142 TTCAAGATATACCAACTGGTTGAGGGAAAATAGTTCAACCAAATTTTCACAACCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
76207 GGCTTTGA
131 GGCTTTGA
* *
76215 AGTTTGATGGCTCCTGATAGATTAAGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
*
76280 TTCAAGAGATACCAACTGGTTGA-GGAAAGATAGTTCAACCAAACTTT-CACACCCATTGCACCA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAG-TAGTTCAACCAAA-TTTGCACACCCATTGCAGCA
*
76343 AATGCTTTGA
129 AAGGCTTTGA
**
76353 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCATCAGACTCTTGCAACCAGAAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
*
76418 TTCAAGAGATTCCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
76483 GGCTTTGA
131 GGCTTTGA
** *
76491 AGCTTGATGGCTCCTGATAGATTAGAAATCTTCCCCAAACTCTTGCAACCAGAAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* **
76556 TTCAAGAGATACCAATTGGTTGAGGGAGGGTAGTTCAACCAAACTTT-CACACCCATTGCAGCAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAA-TTTGCACACCCATTGCAGCAA
76620 AGGCTTTGA
130 AGGCTTTGA
* * *
76629 AGCTTGATGACTCCCGATAGATTAGGGATCTTCACCAGACTCTTGCAACCAGAAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* *
76694 TTCAAGAGATACCAACTGGTCGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAACAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
76759 GGCTTTGA
131 GGCTTTGA
* *
76767 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAAACTCTTGCAACCCGAAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* * * *
76832 TTCAAGAGATACCAACTGATCGAGGGAAGGTAGTTCAACCAAACTTT-CACACCCATTGCAGTAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAA-TTTGCACACCCATTGCAGCAA
76896 AGGCTTTGA
130 AGGCTTTGA
* * *
76905 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCTCAGACTCTTGCAACCAGAAAAGTCAAGGCA
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* * *
76970 CTCGAGAGATACCAACTGGTTGAGGGAAGGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
77035 GGCTTTGA
131 GGCTTTGA
* * * *
77043 AGCTTGGTGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTACAACCAGCAAGGTCAACGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* *
77108 TTTAAGAGATACCAACTGGTTGAAGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
*
77173 GGCTTTGT
131 GGCTTTGA
* *
77181 AGCTTGATAGCTCCTGATAGATTAGGAATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* * *
77246 TTCAAGAGATACCAACTGGTCGAGGGAAGGTAATTCAACCAAACTTT-CACACCCATTGCAGCAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAA-TTTGCACACCCATTGCAGCAA
77310 AGGCTTTGA
130 AGGCTTTGA
77319 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* * *
77384 TTCGAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAATCAAATTTGCACACTCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
77449 GGCTTTGA
131 GGCTTTGA
* * *
77457 AGCTTAATGGCTCCTGATAGATTAGGGATCTTCCTCAGACTCTTGCAACCAGAAAGGTCAAGTCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* *
77522 TTCAAGAGATACCAACTGGTCGAGGGAAAGTAGTTCAACCAAATTTGCGCACCCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
77587 GGCTTTGA
131 GGCTTTGA
* * *
77595 AGGTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGCAAGGTCAATGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
*
77660 TTCAAGAGCTACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
77725 GGCTTTGA
131 GGCTTTGA
* * *
77733 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAAACTCTTGCAACCCGAAAGGTCAAGGAT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* *
77798 TTCAAGAGATACAAACTGGTTGAGGGAAGGTAGTTCAACCAAACTTT-CACACCCATTGCAGCAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAA-TTTGCACACCCATTGCAGCAA
77862 AGGCTTTGA
130 AGGCTTTGA
* * *
77871 AGCTTGATGGCTCCTGATAAATTAGGGATCTTCACCAGACTCTTGCAACCAGAAAGGTCAAGGCA
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* * * *
77936 TTCAATAGATACAAATTGGTCGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
78001 GGCTTTGA
131 GGCTTTGA
* * * * *
78009 AGGTTGATGGCTCTTGATAGATTAGGGATCTTCACCAGACTCTTGTAACCAGAAAGGTCAAGGCA
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
* *
78074 TTCGAGAGATACCAACTGGTCGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
78139 GGCTTTGA
131 GGCTTTGA
* *
78147 AGCTTGGTGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGCAAGGTCAAGGCT
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
** *
78212 TTCAAGAGATACCAACTGGTCAAGGGAAAGTAGTTCAACCAAATTTGCGCACCCATTGCAGCAAA
66 TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
78277 GGCTTTGA
131 GGCTTTGA
* *
78285 AGGTTGATGGCTCCTGATAGATTAGGGATCTTCCTCAGACTCTTGCAACCAGAAAGGTCAA
1 AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAA
78346 TTGACTTTAA
Statistics
Matches: 1973, Mismatches: 146, Indels: 24
0.92 0.07 0.01
Matches are distributed among these distances:
137 20 0.01
138 1932 0.98
139 21 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (138 bp):
AGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAGACTCTTGCAACCAGAAAGGTCAAGGCT
TTCAAGAGATACCAACTGGTTGAGGGAAAGTAGTTCAACCAAATTTGCACACCCATTGCAGCAAA
GGCTTTGA
Found at i:76830 original size:69 final size:69
Alignment explanation
Indices: 76757--76968 Score: 157
Period size: 69 Copynumber: 3.1 Consensus size: 69
76747 CATTGCAACA
76757 AAGGCTTTGAAGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAAACTCTTGCAACCCGAAA
1 AAGGCTTTGAAGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAAACTCTTGCAACCCGAAA
76822 GGTC
66 GGTC
* * ** ** * ** * * *
76826 AAGGCTTTCAAG--AGATACCAACTGATCGAGGGAAGG-TAGTTCAACCAAACT-TT-CACACCC
1 AAGGCTTTGAAGCTTGATGGCTCCTGATAGA-TTAGGGAT-CTTC-CCCAAACTCTTGCA-ACCC
** *
76886 -ATTGCAGTA
62 GAAAG--GTC
* * *
76895 AAGGCTTTGAAGCTTGATGGCTCCTGATAGATTAGGGATCTTCCTCAGACTCTTGCAACCAGAAA
1 AAGGCTTTGAAGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAAACTCTTGCAACCCGAAA
*
76960 AGTC
66 GGTC
76964 AAGGC
1 AAGGC
76969 ACTCGAGAGA
Statistics
Matches: 97, Mismatches: 34, Indels: 24
0.63 0.22 0.15
Matches are distributed among these distances:
67 16 0.16
68 12 0.12
69 43 0.44
70 11 0.11
71 15 0.15
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (69 bp):
AAGGCTTTGAAGCTTGATGGCTCCTGATAGATTAGGGATCTTCCCCAAACTCTTGCAACCCGAAA
GGTC
Found at i:80785 original size:3 final size:3
Alignment explanation
Indices: 80777--80809 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
80767 ATCAAATGAC
80777 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
80810 CCATGAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:82460 original size:20 final size:20
Alignment explanation
Indices: 82435--82477 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
82425 CTGACCTGAC
*
82435 CCATTGACCGTTGATTTTGA
1 CCATTGACCGTTGACTTTGA
*
82455 CCATTGACTGTTGACTTTGA
1 CCATTGACCGTTGACTTTGA
82475 CCA
1 CCA
82478 CCGACTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (20 bp):
CCATTGACCGTTGACTTTGA
Found at i:82483 original size:20 final size:20
Alignment explanation
Indices: 82444--82483 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
82434 CCCATTGACC
* **
82444 GTTGATTTTGACCATTGACT
1 GTTGACTTTGACCACCGACT
82464 GTTGACTTTGACCACCGACT
1 GTTGACTTTGACCACCGACT
82484 ATGACCCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (20 bp):
GTTGACTTTGACCACCGACT
Found at i:83002 original size:2 final size:2
Alignment explanation
Indices: 82995--83036 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
82985 GTGAATTGAT
82995 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
83037 CGTGACATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86986 original size:29 final size:29
Alignment explanation
Indices: 86954--87034 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
86944 ATATCTGAAT
86954 GGGATTTATTCCCCGTCCTGATTCTGCAG
1 GGGATTTATTCCCCGTCCTGATTCTGCAG
* * *
86983 GGGATTTATTCCTCGTCCTGATTCTTCAT
1 GGGATTTATTCCCCGTCCTGATTCTGCAG
* **
87012 GGGATCTATTCAGCGTCCTGATT
1 GGGATTTATTCCCCGTCCTGATT
87035 TTGTATAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (29 bp):
GGGATTTATTCCCCGTCCTGATTCTGCAG
Found at i:90113 original size:138 final size:138
Alignment explanation
Indices: 89710--90141 Score: 548
Period size: 138 Copynumber: 3.1 Consensus size: 138
89700 CTTAAATTCC
* * ** * * * *
89710 TGCAACAATAAAGGTCAAGGATTTCAAGAGATACCAATTGGTTGAGGGAAGGTATTTCAACCAAA
1 TGCAACCAGAAAGGTCAAGCTTTTCAAGAGATGCCAAATGGTTGAGGCAAGGTAGTTCAACCAAA
* * *
89775 TTTTCACACCCATTGCAGCAAAGGCTTTGAAGGTTGATGGCTCCTGATAGATTAGGGATC-TCCA
66 TTTCCACACCCATTGCAGCAAAAGCTTTGAAGGTTGATGGCTCCTGATAGATCAGGGATCTTCC-
89839 CTAGACTCT
130 CTAGACTCT
** * * *
89848 TGCAGTCAGAAAGGACAAGCTTTTCAAGAGAAGCCAAATGGTTGAGGCAAGGTAGTTCAATCAAA
1 TGCAACCAGAAAGGTCAAGCTTTTCAAGAGATGCCAAATGGTTGAGGCAAGGTAGTTCAACCAAA
* *
89913 TTTGCACACCCATTGCAGC-AAAGACTTTGAAGGTTGATGGCTCTTGATAGA-CTAGGGATCTTC
66 TTTCCACACCCATTGCAGCAAAAG-CTTTGAAGGTTGATGGCTCCTGATAGATC-AGGGATCTTC
*
89976 CTTAGACTCT
129 CCTAGACTCT
* * *
89986 TGCAACCAGAAAGGTCAAGTTTTTCAAGAGATGCCAAATGGTTAAGGCAAGGCAGCTT-AACCAA
1 TGCAACCAGAAAGGTCAAGCTTTTCAAGAGATGCCAAATGGTTGAGGCAAGGTAG-TTCAACCAA
*
90050 ATTTCCACACCCATTGCAGCAAAAGCTTTGAAGGTTGATGGGTCCTGATAGATCAGGGATCTTCC
65 ATTTCCACACCCATTGCAGCAAAAGCTTTGAAGGTTGATGGCTCCTGATAGATCAGGGATCTTCC
** *
90115 CTAGTTTAT
130 CTAGACTCT
**
90124 TGCAATTAGAAAGGTCAA
1 TGCAACCAGAAAGGTCAA
90142 TTGACCTTAA
Statistics
Matches: 253, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
137 3 0.01
138 240 0.95
139 10 0.04
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (138 bp):
TGCAACCAGAAAGGTCAAGCTTTTCAAGAGATGCCAAATGGTTGAGGCAAGGTAGTTCAACCAAA
TTTCCACACCCATTGCAGCAAAAGCTTTGAAGGTTGATGGCTCCTGATAGATCAGGGATCTTCCC
TAGACTCT
Found at i:91852 original size:84 final size:84
Alignment explanation
Indices: 91701--91881 Score: 310
Period size: 84 Copynumber: 2.1 Consensus size: 84
91691 TGCCATATCC
* *
91701 TTGTGTTTTGTAGCTTGCATTGTCTTATAACGAGGCTGTCTTGATTGGAAGGTTGACCTCGTCAA
1 TTGTG-TTTCTAGCTTGCATTGTCTTACAACGAGGCTGTCTTGATTGGAAGGTTGACCTCGTCAA
91766 ATGGTAGAGCATTGTTCAAT
65 ATGGTAGAGCATTGTTCAAT
*
91786 CTT-TGTTTCTAGCTTGCATTGTCTTACAACGAGGCTGTCTTGATTGGAAGGTTGACCTCTTCAA
1 -TTGTGTTTCTAGCTTGCATTGTCTTACAACGAGGCTGTCTTGATTGGAAGGTTGACCTCGTCAA
91850 ATGGTAGAGCATTGTTCAAT
65 ATGGTAGAGCATTGTTCAAT
91870 TTGTGTTTCTAG
1 TTGTGTTTCTAG
91882 GATCTCTTCG
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
83 2 0.02
84 85 0.93
85 2 0.02
86 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.40
Consensus pattern (84 bp):
TTGTGTTTCTAGCTTGCATTGTCTTACAACGAGGCTGTCTTGATTGGAAGGTTGACCTCGTCAAA
TGGTAGAGCATTGTTCAAT
Found at i:97162 original size:15 final size:15
Alignment explanation
Indices: 97138--97187 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
97128 CCAAGTCAGC
* *
97138 TTTCCACTGCTTCAC
1 TTTCTACTGCTTCAA
*
97153 TTTCTGCTGCTTCAA
1 TTTCTACTGCTTCAA
*
97168 TTTCCACTGCTTCAA
1 TTTCTACTGCTTCAA
97183 TTTCT
1 TTTCT
97188 CTTCATCACG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.14, C:0.32, G:0.08, T:0.46
Consensus pattern (15 bp):
TTTCTACTGCTTCAA
Found at i:97661 original size:30 final size:30
Alignment explanation
Indices: 97554--97721 Score: 157
Period size: 30 Copynumber: 5.7 Consensus size: 30
97544 AGAAAACTTG
* *
97554 ATACTTCCATTGACGAGAA---GAGGAAGA
1 ATACTTCAATTGACGAGAAGGGGAGAAAGA
* * * *
97581 ATCCTTCAACTGAAGAGAAGAGGATG-AAGA
1 ATACTTCAATTGACGAGAAGGGGA-GAAAGA
* *
97611 ATCCTTCAATTGACAAGAAGGGGATGAAA-A
1 ATACTTCAATTGACGAGAAGGGGA-GAAAGA
* *
97641 ATACTTCAACTGACGAGAAGGGGAGAAAGG
1 ATACTTCAATTGACGAGAAGGGGAGAAAGA
*
97671 ATACTTCAATTGACGACAAAGGGGAGAAAGA
1 ATACTTCAATTGACGA-GAAGGGGAGAAAGA
* *
97702 ATACTTGAGTTGACGAGAAG
1 ATACTTCAATTGACGAGAAG
97722 AACGAGGAGG
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
27 15 0.13
29 4 0.03
30 68 0.59
31 29 0.25
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.18
Consensus pattern (30 bp):
ATACTTCAATTGACGAGAAGGGGAGAAAGA
Found at i:100545 original size:22 final size:22
Alignment explanation
Indices: 100518--100589 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
100508 CAGAATGAAG
100518 GAAAATTAAATTCAAAAGGAAA
1 GAAAATTAAATTCAAAAGGAAA
* * * *
100540 TG-AAATGAAGTACAAAATGAAA
1 -GAAAATTAAATTCAAAAGGAAA
*
100562 GAAAATTAGATTCAAAA-GAAA
1 GAAAATTAAATTCAAAAGGAAA
100583 GTAAAAT
1 G-AAAAT
100590 GAAGTAGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
21 6 0.15
22 32 0.82
23 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.15, T:0.19
Consensus pattern (22 bp):
GAAAATTAAATTCAAAAGGAAA
Found at i:100575 original size:44 final size:44
Alignment explanation
Indices: 100511--100595 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
100501 TCCCACACAG
* *
100511 AATGAAGGAAAATTAAATTCAAAAGGAAA-TGAAATGAAGTACAA
1 AATGAAAGAAAATTAAATTCAAAA-GAAAGTAAAATGAAGTACAA
*
100555 AATGAAAGAAAATTAGATTCAAAAGAAAGTAAAATGAAGTA
1 AATGAAAGAAAATTAAATTCAAAAGAAAGTAAAATGAAGTA
100596 GGAAGAAACG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 4 0.11
44 33 0.89
ACGTcount: A:0.60, C:0.04, G:0.18, T:0.19
Consensus pattern (44 bp):
AATGAAAGAAAATTAAATTCAAAAGAAAGTAAAATGAAGTACAA
Found at i:103249 original size:19 final size:19
Alignment explanation
Indices: 103225--103295 Score: 142
Period size: 19 Copynumber: 3.7 Consensus size: 19
103215 AATGCAATTT
103225 GTGCATCGATGCATAAGTA
1 GTGCATCGATGCATAAGTA
103244 GTGCATCGATGCATAAGTA
1 GTGCATCGATGCATAAGTA
103263 GTGCATCGATGCATAAGTA
1 GTGCATCGATGCATAAGTA
103282 GTGCATCGATGCAT
1 GTGCATCGATGCAT
103296 CCCATTAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (19 bp):
GTGCATCGATGCATAAGTA
Found at i:103334 original size:64 final size:65
Alignment explanation
Indices: 103261--103423 Score: 217
Period size: 64 Copynumber: 2.5 Consensus size: 65
103251 GATGCATAAG
* *
103261 TAGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGA-AACATCAAATGCA-A
1 TAGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAA-GACAACATCAAATACATA
103324 T
65 T
* * * *
103325 TAGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATT
1 TAGTGCATCGATGCATAA-GTAGTGCATCGATGCATCCCAGTAATAAGACAACATCAAATACATA
103389 T
65 T
*
103390 TA-TGCATCGATGCATCAGTAGTGCATCGATGCAT
1 TAGTGCATCGATGCATAAGTAGTGCATCGATGCAT
103424 ACCTTCATTA
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 3 0.03
64 79 0.91
65 5 0.06
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (65 bp):
TAGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAAGACAACATCAAATACATAT
Found at i:104268 original size:18 final size:18
Alignment explanation
Indices: 104245--104280 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
104235 AGGAATGATA
104245 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
104263 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
104281 ATATGTATTC
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:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:104282 original size:62 final size:62
Alignment explanation
Indices: 104216--104403 Score: 155
Period size: 62 Copynumber: 3.1 Consensus size: 62
104206 TGATCCCTAG
104216 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
* * * * * *
104278 CATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGT-CTGGT-GAGACACATACT-TGATCC--
1 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCCT--TCG-G-GACAT--TGTGGTCCTT
**
104333 CTAG-
58 CGGGA
104337 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
104399 CATAT
1 CATAT
104404 ATGTATTCTT
Statistics
Matches: 91, Mismatches: 16, Indels: 38
0.63 0.11 0.26
Matches are distributed among these distances:
57 6 0.07
58 7 0.08
59 18 0.20
60 12 0.13
61 12 0.13
62 23 0.25
63 7 0.08
64 6 0.07
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.35
Consensus pattern (62 bp):
CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
Found at i:104336 original size:121 final size:121
Alignment explanation
Indices: 104122--104504 Score: 732
Period size: 121 Copynumber: 3.2 Consensus size: 121
104112 GTCAAGGGTC
*
104122 TATGTGGTCCTTCGGGATATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
104187 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
104243 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
104308 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
104364 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
104429 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTA-ATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
**
104484 TATGTGGTCCTTATGGACATT
1 TATGTGGTCCTTCGGGACATT
104505 ATTATATGGC
Statistics
Matches: 259, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
120 37 0.14
121 222 0.86
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (121 bp):
TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:104389 original size:18 final size:18
Alignment explanation
Indices: 104366--104401 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
104356 AGGAATGATA
104366 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
104384 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
104402 ATATGTATTC
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:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:104578 original size:23 final size:23
Alignment explanation
Indices: 104502--104579 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
104492 CCTTATGGAC
* *
104502 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTTCGGTGCA
* * * *
104526 ATTCTACGCGACACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
104549 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
104572 ATTATATG
1 ATTATATG
104580 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTTCGGTGCA
Found at i:111562 original size:32 final size:29
Alignment explanation
Indices: 111513--111583 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 29
111503 GAATAAAATA
* *
111513 AAATAAATATAATATAATATAAAATATATAAT
1 AAATAAAAATAACATAATAT--AATAT-TAAT
111545 AAATAAAAATAACATAATATAATATTAAT
1 AAATAAAAATAACATAATATAATATTAAT
111574 ATAATAAAAA
1 A-AATAAAAA
111584 CCATATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 5 0.14
30 13 0.36
32 18 0.50
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (29 bp):
AAATAAAAATAACATAATATAATATTAAT
Found at i:111592 original size:30 final size:29
Alignment explanation
Indices: 111513--111600 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
111503 GAATAAAATA
* *
111513 AAATAAATATAATATAATATAAAATATATAAT
1 AAATAAAAACAATATAATAT--AATAT-TAAT
* *
111545 AAATAAAAATAACATAATATAATATTAAT
1 AAATAAAAACAATATAATATAATATTAAT
* *
111574 ATAATAAAAACCATATAATATTATATT
1 A-AATAAAAACAATATAATATAATATT
111601 TTCAAAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.10
30 26 0.53
32 18 0.37
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (29 bp):
AAATAAAAACAATATAATATAATATTAAT
Found at i:111594 original size:5 final size:5
Alignment explanation
Indices: 111504--111579 Score: 70
Period size: 5 Copynumber: 15.8 Consensus size: 5
111494 ACCTGGACCG
* * *
111504 AATAA AATAA AATA- AATAT AATAT AATAT AAAAT -ATAT AATA- AATA-
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* *
111550 AAAAT AACAT AATAT AATATT AATAT AATA
1 AATAT AATAT AATAT AATA-T AATAT AATA
111580 AAAACCATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
4 14 0.23
5 43 0.69
6 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (5 bp):
AATAT
Found at i:111614 original size:25 final size:25
Alignment explanation
Indices: 111507--111614 Score: 77
Period size: 25 Copynumber: 4.4 Consensus size: 25
111497 TGGACCGAAT
*
111507 AAAATAAAATAA-ATATAATATAATA
1 AAAATAATATAATAT-TAATATAATA
111532 TAAAAT-ATATAATA--AATA-AA-A
1 -AAAATAATATAATATTAATATAATA
111553 ATAACATAATATAATATTAATATAATA
1 A-AA-ATAATATAATATTAATATAATA
** **
111580 AAAACCATATAATATT-ATATTTTCA
1 AAAATAATATAATATTAATATAAT-A
111605 AAAATAATAT
1 AAAATAATAT
111615 GCTTTCAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
20 1 0.02
21 3 0.05
22 4 0.06
23 12 0.18
24 5 0.08
25 29 0.44
26 10 0.15
27 2 0.03
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAATAATATAATATTAATATAATA
Found at i:111620 original size:17 final size:17
Alignment explanation
Indices: 111600--111632 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
111590 AATATTATAT
111600 TTTCAAAAATAATATGC
1 TTTCAAAAATAATATGC
*
111617 TTTCAAAAATTATATG
1 TTTCAAAAATAATATG
111633 TGTTTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTCAAAAATAATATGC
Found at i:111641 original size:19 final size:17
Alignment explanation
Indices: 111599--111644 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
111589 TAATATTATA
111599 TTTTCAAAAATAATATG
1 TTTTCAAAAATAATATG
* *
111616 CTTTCAAAAATTATATGTG
1 TTTTCAAAAA-TA-ATATG
111635 TTTTCAAAAA
1 TTTTCAAAAA
111645 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 2 0.08
19 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (17 bp):
TTTTCAAAAATAATATG
Found at i:111676 original size:33 final size:34
Alignment explanation
Indices: 111634--111722 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 34
111624 AATTATATGT
111634 GTTTTCAAAAAATATTTAAAAA-T-CATATTATAC
1 GTTTTC-AAAAATATTTAAAAACTACATATTATAC
* * * *
111667 GTTTTCAAAACTGTTTTAAAAACTATATATTATAT
1 GTTTTCAAAAAT-ATTTAAAAACTACATATTATAC
*
111702 GTTTTCAAAATTATTTAAAAA
1 GTTTTCAAAAATATTTAAAAA
111723 ATATTTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
32 5 0.11
33 14 0.30
34 9 0.19
35 19 0.40
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (34 bp):
GTTTTCAAAAATATTTAAAAACTACATATTATAC
Found at i:111783 original size:14 final size:15
Alignment explanation
Indices: 111764--111796 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
111754 ACTATATATT
111764 ATATGTTTTCAAAA-
1 ATATGTTTTCAAAAC
111778 ATATGTTTTCAAAAC
1 ATATGTTTTCAAAAC
111793 ATAT
1 ATAT
111797 ACTATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATGTTTTCAAAAC
Found at i:111797 original size:36 final size:38
Alignment explanation
Indices: 111744--111814 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 38
111734 AAAACTATAA
* *
111744 GTTTTCAAAAACTATATATTATATGTTTTCAAAAATAT
1 GTTTTCAAAAACTATATACTATATATTTTCAAAAATAT
111782 GTTTTC-AAAAC-ATATACTATATATTTTCAAAAA
1 GTTTTCAAAAACTATATACTATATATTTTCAAAAA
111815 ATACGTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 20 0.65
37 5 0.16
38 6 0.19
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (38 bp):
GTTTTCAAAAACTATATACTATATATTTTCAAAAATAT
Found at i:112442 original size:21 final size:21
Alignment explanation
Indices: 112417--112456 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
112407 CATGAAATGC
* *
112417 ATTTTAATTTATTTTTTAAGT
1 ATTTTAACTTATTCTTTAAGT
112438 ATTTTAACTTATTCTTTAA
1 ATTTTAACTTATTCTTTAA
112457 TATAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTAACTTATTCTTTAAGT
Found at i:115040 original size:81 final size:82
Alignment explanation
Indices: 114944--115658 Score: 905
Period size: 81 Copynumber: 8.7 Consensus size: 82
114934 TCACTCTGGT
* * *
114944 AGTTCTTGAGCAAAATCTGAACTGCCCTTTTTCATAAATTTGGTTTCTAATAATTGTTTTATC-T
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTTATAATTGTTTTATCAT
* *
115008 TTTAGAGTTCATATTGC
66 TTCAGAGTTCATTTTGC
*
115025 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTTTGTAATTG-TTTACTC
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGG-TTTTTTATAATTGTTTTA-TC
*
115089 ATTTCAGAGGTCATTTTGC
64 ATTTCAGAGTTCATTTTGC
* * * * * *
115108 AGTTCTTGAGCCAAATCTGAACCACCCTATTTCATAAATTTGGTTTTTCAT--GTGTTTTAACAT
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTTATAATTGTTTTATCAT
115171 TTCAGAGTTCATTTTGC
66 TTCAGAGTTCATTTTGC
* * ** * * *
115188 GGTTATCAAGCAAAATCTGAACTACCCTATTTCATAAATTTGGTTTATTTTCTTACTACTTTTTT
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGG----TTTT-TTA-TA--ATTGT
115253 TTTATCATTTCAGAGTT-AGTTTTGC
58 TTTATCATTTCAGAGTTCA-TTTTGC
* * * *
115278 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGATTTTTTAAATATTTTTTTACCA
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTTATA-ATTGTTTTATCA
115343 TTTCAGAGTTCATTTTGC
65 TTTCAGAGTTCATTTTGC
* * *
115361 AGTTCTTGAGCAAACTCTGAAC--CAC-TTTTCATAAATTTGGTTTTTTATAATTGTTTTGTCAT
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTTATAATTGTTTTATCAT
115423 TTCAGAGTTCATTTTGC
66 TTCAGAGTTCATTTTGC
* *
115440 AGTTCTTGAGCAAAAACTGAACTACCCTTTTTCATAAATTTGGTTTTTTATAATTGTTTTGTCAT
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTTATAATTGTTTTATCAT
115505 TTCAGAGTTCATTTTGC
66 TTCAGAGTTCATTTTGC
*
115522 AGTTCTTGAGCAAAACCTGAACTACCCTTTTTCATAAATTT-GTGTTTTTAT-ATTAG-TTTATC
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGT-TTTTTATAATT-GTTTTATC
115584 ATTTCAGAGTTCATTTTGC
64 ATTTCAGAGTTCATTTTGC
* * ** *
115603 AGTTCTTGAACGATTTCTGAACTACCCTTTTTCATAAATTTGGGTTTTT-TAATTGT
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTTATAATTGT
115659 ATAATAGGAA
Statistics
Matches: 558, Mismatches: 52, Indels: 48
0.85 0.08 0.07
Matches are distributed among these distances:
79 47 0.08
80 82 0.15
81 127 0.23
82 121 0.22
83 103 0.18
84 6 0.01
85 5 0.01
86 5 0.01
89 1 0.00
90 61 0.11
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (82 bp):
AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTTATAATTGTTTTATCAT
TTCAGAGTTCATTTTGC
Found at i:115225 original size:163 final size:163
Alignment explanation
Indices: 114944--115651 Score: 876
Period size: 163 Copynumber: 4.3 Consensus size: 163
114934 TCACTCTGGT
* *
114944 AGTTCTTGAGCAAAATCTGAACTGCCCTTTTTCATAAATTTGGTTTCTAATAATTGTTTTATC-T
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTAAT-ATTGTTTTATCAT
* *
115008 TTTAGAGTTCATATTGCAGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTT
65 TTCAGAGTTCATTTTGCAGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTT
*
115073 TTGTAATTGTTTACTCATTTCAGAGGTCATTTTGC
130 TTATAATTGTTTA-TCATTTCAGAGGTCATTTTGC
* * * * * *
115108 AGTTCTTGAGCCAAATCTGAACCACCCTATTTCATAAATTTGGTTTTTCAT-GTGTTTTAACATT
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTAATATTGTTTTATCATT
* * ** *
115172 TCAGAGTTCATTTTGCGGTTATCAAGCAAAATCTGAACTACCCTATTTCATAAATTTGGTTTATT
66 TCAGAGTTCATTTTGCAGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGG--T-TT
* * *
115237 TTCTTACTACTTTTTTTTTATCATTTCAGA-GTTAGTTTTGC
128 TT-TTA-TA---ATTGTTTATCATTTCAGAGGTCA-TTTTGC
* * *
115278 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGATTTTTTAAATATTTTTTTACCA
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTG-GTTTTT-AATATTGTTTTATCA
* *
115343 TTTCAGAGTTCATTTTGCAGTTCTTGAGCAAACTCTGAAC--CAC-TTTTCATAAATTTGG-TTT
64 TTTCAGAGTTCATTTTGCAGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTT
* *
115404 TTTATAATTGTTTTGTCATTTCAGAGTTCATTTTGC
129 TTTATAATTG-TTTATCATTTCAGAGGTCATTTTGC
* * *
115440 AGTTCTTGAGCAAAAACTGAACTACCCTTTTTCATAAATTTGGTTTTTTATAATTGTTTTGTCAT
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTAAT-ATTGTTTTATCAT
* *
115505 TTCAGAGTTCATTTTGCAGTTCTTGAGCAAAACCTGAACTACCCTTTTTCATAAATTT-GTGTTT
65 TTCAGAGTTCATTTTGCAGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTT
*
115569 TTAT-ATTAGTTTATCATTTCAGAGTTCATTTTGC
130 TTATAATT-GTTTATCATTTCAGAGGTCATTTTGC
* * **
115603 AGTTCTTGAACGATTTCTGAACTACCCTTTTTCATAAATTTGGGTTTTT
1 AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTT-GGTTTTT
115652 TAATTGTATA
Statistics
Matches: 467, Mismatches: 55, Indels: 44
0.83 0.10 0.08
Matches are distributed among these distances:
160 2 0.00
161 54 0.12
162 68 0.15
163 122 0.26
164 75 0.16
165 4 0.01
166 8 0.02
167 2 0.00
168 2 0.00
169 3 0.01
170 69 0.15
171 13 0.03
172 2 0.00
173 43 0.09
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (163 bp):
AGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTAATATTGTTTTATCATT
TCAGAGTTCATTTTGCAGTTCTTGAGCAAAATCTGAACTACCCTTTTTCATAAATTTGGTTTTTT
TATAATTGTTTATCATTTCAGAGGTCATTTTGC
Found at i:123741 original size:15 final size:15
Alignment explanation
Indices: 123721--123755 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
123711 AAGAGAACGA
123721 AGGAATTGGGGAAAG
1 AGGAATTGGGGAAAG
123736 AGGAATTGGGGAAAG
1 AGGAATTGGGGAAAG
123751 AGGAA
1 AGGAA
123756 GCCTAGGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.46, T:0.11
Consensus pattern (15 bp):
AGGAATTGGGGAAAG
Found at i:127778 original size:76 final size:78
Alignment explanation
Indices: 127642--127845 Score: 292
Period size: 76 Copynumber: 2.7 Consensus size: 78
127632 CCGTTGTACA
* * * *
127642 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACT-GAAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATTCTCGGA
*
127705 G-CAAAACTGTTT
66 GCCAAAACTATTT
*
127717 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAA-TCTCGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATTCTCGGA
127781 GCCAAAACTATTT
66 GCCAAAACTATTT
* * *
127794 A-GGGGGAATCGATTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTG
127846 TAATTTTTGG
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
75 19 0.16
76 83 0.71
77 15 0.13
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.24
Consensus pattern (78 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATTCTCGGA
GCCAAAACTATTT
Found at i:134215 original size:53 final size:53
Alignment explanation
Indices: 134132--134386 Score: 359
Period size: 53 Copynumber: 4.7 Consensus size: 53
134122 AAACTATAAA
* * * * *
134132 TCTCATTTTATATTAGTCATTAAACCTTTGAATATT-TCAATTTCATCTCCAAC
1 TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCT-AATTTCATCCCCAAC
134185 TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAC
1 TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAC
134238 TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAC
1 TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAC
134291 TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCTACACTATGAC
1 TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCAT-CC--C-C-A--AC
* * *
134351 TCTCATCCTAAATTGGTCCATAAACTTTTGAATATT
1 TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATT
134387 ATACTTTTAT
Statistics
Matches: 186, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
53 145 0.78
54 3 0.02
56 1 0.01
57 1 0.01
58 1 0.01
60 35 0.19
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (53 bp):
TCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAC
Found at i:134382 original size:60 final size:60
Alignment explanation
Indices: 134289--134401 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
134279 TTCATCCCCA
* * *
134289 ACTCTCATTCTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCTACACTATG
1 ACTCTCATCCTAAATTAGTCCATAAACTTTTGAATATTATAATTTCATCCCTACACTATG
* * *
134349 ACTCTCATCCTAAATTGGTCCATAAACTTTTGAATATTATACTTTTATCCCTA
1 ACTCTCATCCTAAATTAGTCCATAAACTTTTGAATATTATAATTTCATCCCTA
134402 AATTCATGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (60 bp):
ACTCTCATCCTAAATTAGTCCATAAACTTTTGAATATTATAATTTCATCCCTACACTATG
Found at i:134623 original size:59 final size:60
Alignment explanation
Indices: 134560--134698 Score: 167
Period size: 60 Copynumber: 2.3 Consensus size: 60
134550 GGAATGTTAA
* * * * *
134560 AAAAGTTTAGGGACCAATTTAGAATGAAT-GTCAT-TGTTGGGGATGAAATTGAAATATTC
1 AAAAGTTTAGGGACTAATTTAAAAT-AATAGTCATATATTAGGGATGAAATTGAAAGATTC
* *
134619 AAAAGTTT-GAGGACTAATTTAAAATAATAGTCATATATTATGGATGAAATTGAAAGATTT
1 AAAAGTTTAG-GGACTAATTTAAAATAATAGTCATATATTAGGGATGAAATTGAAAGATTC
*
134679 AAAAGTTTAGAGACTAATTT
1 AAAAGTTTAGGGACTAATTT
134699 TAATTGAGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 4 0.06
59 26 0.38
60 37 0.54
61 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (60 bp):
AAAAGTTTAGGGACTAATTTAAAATAATAGTCATATATTAGGGATGAAATTGAAAGATTC
Found at i:135276 original size:16 final size:17
Alignment explanation
Indices: 135228--135277 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
135218 AAAAAAATTA
135228 AATTTAAAAGTTAGAGT
1 AATTTAAAAGTTAGAGT
*
135245 GA-TT-AAA-TTAGGAGT
1 AATTTAAAAGTTA-GAGT
135260 AATTTAAAAGTTA-AGT
1 AATTTAAAAGTTAGAGT
135276 AA
1 AA
135278 CTAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.11
15 8 0.30
16 9 0.33
17 4 0.15
18 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (17 bp):
AATTTAAAAGTTAGAGT
Found at i:141885 original size:12 final size:12
Alignment explanation
Indices: 141868--141906 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
141858 TTTGTAATGG
141868 AATTCATTTACA
1 AATTCATTTACA
141880 AATTCATTTACA
1 AATTCATTTACA
141892 AATTCATTTACA
1 AATTCATTTACA
141904 AAT
1 AAT
141907 GCGACATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (12 bp):
AATTCATTTACA
Found at i:144646 original size:5 final size:5
Alignment explanation
Indices: 144633--144663 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
144623 TCATATCTCG
*
144633 TTCTA TTCTT TTCTT TTCTT TTCTT TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT T
144664 GTGGGAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (5 bp):
TTCTT
Found at i:145751 original size:2 final size:2
Alignment explanation
Indices: 145746--145788 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
145736 ACATTATAAC
145746 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
145785 TA TA
1 TA TA
145789 ATGTACGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:147379 original size:134 final size:134
Alignment explanation
Indices: 147167--148154 Score: 1527
Period size: 134 Copynumber: 7.4 Consensus size: 134
147157 GCTGTCACTC
* * * * *
147167 AGGGAATATCAGATC-GG-GGATGTTGATTCATTCCACTATTC-TTCAGGGAAGATTGAATC-TG
1 AGGGAATATCAGATCTGGATGA-GTTGATCCATTCCGCT-GTCACTCAGGGAAGATTGAATCATG
* ** * * *
147228 AGAAGACTTGTTTTGCTGTCACTCAGGGAATATCAAATTTTGAAAGATAGTGATCTGTTCCGCTT
64 -GTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCGCTT
147293 CTTCTGA
128 CTTCTGA
*
147300 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGTGGT
1 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCATGGT
* * * *
147365 AGACTTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATTTGTTCCACATCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCGCTTCTT
147430 CTGA
131 CTGA
* *
147434 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCACTGTCACTCAGGGAAAATTGAATCATGGT
1 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCATGGT
* * *
147499 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATTTGTTCCACATCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCGCTTCTT
147564 CTGA
131 CTGA
* * *
147568 AGGGAATATCAGATCTGGATGAGTTGATACATTCCGCTATCACTCAGTGAAGATTGAATCATGGT
1 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCATGGT
* *
147633 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCACATCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCGCTTCTT
*
147698 CTAA
131 CTGA
* *
147702 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTATCACTCAGTGAAGATTGAATCATGGT
1 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCATGGT
*
147767 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGATTGATCTGTTCCGCTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCGCTTCTT
147832 CTGA
131 CTGA
* * * *
147836 AGGGAATATCGGATCTGGATGAGCTGATCCATTCCGCTATTACTCAGGGAAGATTGAATCATGGT
1 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCATGGT
*
147901 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGTGATCTGTTCCGCTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCGCTTCTT
147966 CTGA
131 CTGA
* *
147970 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTTAGGGAAGATTGAATCGTGGT
1 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCATGGT
* * **
148035 AGACTTGTTCCGCTGTTACTCAGGGAATATCAAATCTTGAAAGAG-ATGAATATGTTTTGCTTCT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATG-ATCTGTTCCGCTTCT
148099 TCTGA
130 TCTGA
*
148104 AGGGAATATCAGATCTGGATGAGTTGATCTATTCCGCTGTCACTCAGGGAA
1 AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAA
148155 TATCAAATCT
Statistics
Matches: 803, Mismatches: 47, Indels: 9
0.93 0.05 0.01
Matches are distributed among these distances:
133 19 0.02
134 780 0.97
135 4 0.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (134 bp):
AGGGAATATCAGATCTGGATGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCATGGT
AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCGCTTCTT
CTGA
Found at i:147882 original size:93 final size:92
Alignment explanation
Indices: 147774--148229 Score: 306
Period size: 93 Copynumber: 5.0 Consensus size: 92
147764 GGTAGACTTG
*
147774 TTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGATTGATCTGTTCCGCTTCTTCTGAAGG
1 TTCCGCTGTTACTCAGGGAATATCAAATCTTGAAAGAGATTGATCTGTTCCGCTTCTTCT-AAGG
*
147839 GAATATCGGATCTGGATGAGCTGATCCA
65 GAATATCAGATCTGGATGAGCTGATCCA
* * ** * * * *
147867 TTCCGCTATTACTCAGGGAAGATTGAATC----ATG-G-TAGA-CTTGTTCCGCTGTC-ACTCAG
1 TTCCGCTGTTACTCAGGGAATATCAAATCTTGAAAGAGATTGATC-TGTTCCGCT-TCTTCTAAG
* * * * **
147924 GGAATATCAAATCTTGAAAGAGAGTGATCTG
64 GGAATATCAGATC-TGGATGAG-CTGATCCA
* * * * * ** * *
147955 TTCCGCT-TCTTCTGAAGGGAATATCAGATC-TGGATGAG-TTGATCCATTCCGCTGTC-ACTTA
1 TTCCGCTGT-TACT-CAGGGAATATCAAATCTTGAAAGAGATTGATCTGTTCCGCT-TCTTCTAA
* * *
148016 GGGAAGAT-TGAATCGTGG-T-AGACT--T--G
63 GGGAATATCAG-ATC-TGGATGAG-CTGATCCA
* **
148042 TTCCGCTGTTACTCAGGGAATATCAAATCTTGAAAGAGA-TGAATATGTTTTGCTTCTTCTGAAG
1 TTCCGCTGTTACTCAGGGAATATCAAATCTTGAAAGAGATTG-ATCTGTTCCGCTTCTTCT-AAG
* *
148106 GGAATATCAGATCTGGATGAGTTGATCTA
64 GGAATATCAGATCTGGATGAGCTGATCCA
* *
148135 TTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGA-TGAATCTGTCCCGCTTCTTCTAAAG
1 TTCCGCTGTTACTCAGGGAATATCAAATCTTGAAAGAGATTG-ATCTGTTCCGCTTCTTCT-AAG
*
148199 GGAATATCAGATCTGGATGAGTTGATCCA
64 GGAATATCAGATCTGGATGAGCTGATCCA
148228 TT
1 TT
148230 GAATTAGGAC
Statistics
Matches: 282, Mismatches: 56, Indels: 50
0.73 0.14 0.13
Matches are distributed among these distances:
86 28 0.10
87 42 0.15
88 31 0.11
89 27 0.10
90 3 0.01
91 5 0.02
92 3 0.01
93 142 0.50
94 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (92 bp):
TTCCGCTGTTACTCAGGGAATATCAAATCTTGAAAGAGATTGATCTGTTCCGCTTCTTCTAAGGG
AATATCAGATCTGGATGAGCTGATCCA
Found at i:150784 original size:9 final size:8
Alignment explanation
Indices: 150737--150782 Score: 92
Period size: 8 Copynumber: 5.8 Consensus size: 8
150727 TTCTCTTTTT
150737 TTTTTTCA
1 TTTTTTCA
150745 TTTTTTCA
1 TTTTTTCA
150753 TTTTTTCA
1 TTTTTTCA
150761 TTTTTTCA
1 TTTTTTCA
150769 TTTTTTCA
1 TTTTTTCA
150777 TTTTTT
1 TTTTTT
150783 TCTTTCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:150792 original size:9 final size:8
Alignment explanation
Indices: 150718--150806 Score: 72
Period size: 8 Copynumber: 10.4 Consensus size: 8
150708 GTTTGATCGG
150718 TTTTCTTTC
1 TTTT-TTTC
150727 TTCTCTTTT-
1 TT-T-TTTTC
150736 TTTTTTTC
1 TTTTTTTC
*
150744 ATTTTTTC
1 TTTTTTTC
*
150752 ATTTTTTC
1 TTTTTTTC
*
150760 ATTTTTTC
1 TTTTTTTC
*
150768 ATTTTTTC
1 TTTTTTTC
150776 ATTTTTTTC
1 -TTTTTTTC
150785 TTTCTTTTC
1 TTT-TTTTC
150794 TATCTTTTTC
1 T-T-TTTTTC
150804 TTT
1 TTT
150807 CATTTTTTGC
Statistics
Matches: 71, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
7 4 0.06
8 36 0.51
9 18 0.25
10 11 0.15
11 2 0.03
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:150934 original size:15 final size:15
Alignment explanation
Indices: 150916--150997 Score: 67
Period size: 15 Copynumber: 5.3 Consensus size: 15
150906 CTTTCTTCTC
150916 TTTTTTTTTTTCATT
1 TTTTTTTTTTTCATT
**
150931 TTTTCATTTTTCATT
1 TTTTTTTTTTTCATT
*
150946 TTTTCATTTTTTCATTT
1 TTTT-TTTTTTTCA-TT
*
150963 TTTTCTTTCTTTTC-TA
1 TTTT-TTT-TTTTCATT
* *
150979 TCTTTTTCTTTCATT
1 TTTTTTTTTTTCATT
150994 TTTT
1 TTTT
150998 GCTATATCTC
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
14 4 0.08
15 24 0.45
16 11 0.21
17 9 0.17
18 5 0.09
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTTTCATT
Found at i:150951 original size:23 final size:23
Alignment explanation
Indices: 150921--150964 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
150911 TTCTCTTTTT
150921 TTTTTTCATTTTTTCATTTTTCA
1 TTTTTTCATTTTTTCATTTTTCA
150944 TTTTTTCATTTTTTCATTTTT
1 TTTTTTCATTTTTTCATTTTT
150965 TTCTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTCATTTTTTCATTTTTCA
Found at i:150967 original size:9 final size:8
Alignment explanation
Indices: 150921--150965 Score: 83
Period size: 8 Copynumber: 5.8 Consensus size: 8
150911 TTCTCTTTTT
150921 TTTTTTCA
1 TTTTTTCA
150929 TTTTTTCA
1 TTTTTTCA
150937 -TTTTTCA
1 TTTTTTCA
150944 TTTTTTCA
1 TTTTTTCA
150952 TTTTTTCA
1 TTTTTTCA
150960 TTTTTT
1 TTTTTT
150966 TCTTTCTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.19
8 29 0.81
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:150975 original size:9 final size:9
Alignment explanation
Indices: 150902--150995 Score: 54
Period size: 8 Copynumber: 10.4 Consensus size: 9
150892 GTTTGATCGG
150902 TTTTCTTTC
1 TTTTCTTTC
*
150911 TTCTCTTT-
1 TTTTCTTTC
*
150919 TTTTTTTTC
1 TTTTCTTTC
*
150928 ATTT-TTTC
1 TTTTCTTTC
*
150936 ATTTTTCATT-
1 --TTTTCTTTC
*
150946 TTTTCATT-
1 TTTTCTTTC
150954 TTTTCATTT-
1 TTTTC-TTTC
150963 TTTTCTTTC
1 TTTTCTTTC
*
150972 TTTTCTATC
1 TTTTCTTTC
150981 TTTTTCTTTC
1 -TTTTCTTTC
150991 ATTTT
1 -TTTT
150996 TTGCTATATC
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
8 26 0.38
9 25 0.37
10 15 0.22
11 2 0.03
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:151005 original size:183 final size:184
Alignment explanation
Indices: 150696--151063 Score: 729
Period size: 183 Copynumber: 2.0 Consensus size: 184
150686 TTTAAACCGC
150696 TCGTCTTAAGGTGTTTGATCGGTTTTCTTTCTTCTCTTTTTTTTTTTCATTTTTTCATTTTTTCA
1 TCGTCTTAAGGTGTTTGATCGGTTTTCTTTCTTCTCTTTTTTTTTTTCATTTTTTCATTTTTTCA
150761 TTTTTTCATTTTTTCATTTTTTTCTTTCTTTTCTATCTTTTTCTTTCATTTTTTGCTATATCTCT
66 TTTTTTCATTTTTTCATTTTTTTCTTTCTTTTCTATCTTTTTCTTTCATTTTTTGCTATATCTCT
150826 TTCTTCTTTCTCTTTGTATTGTCAACTTGATTTGATCTTCGAATGCTTCGTGTT
131 TTCTTCTTTCTCTTTGTATTGTCAACTTGATTTGATCTTCGAATGCTTCGTGTT
150880 TCGTCTTAAGGTGTTTGATCGGTTTTCTTTCTTCTCTTTTTTTTTTTCATTTTTTCA-TTTTTCA
1 TCGTCTTAAGGTGTTTGATCGGTTTTCTTTCTTCTCTTTTTTTTTTTCATTTTTTCATTTTTTCA
150944 TTTTTTCATTTTTTCATTTTTTTCTTTCTTTTCTATCTTTTTCTTTCATTTTTTGCTATATCTCT
66 TTTTTTCATTTTTTCATTTTTTTCTTTCTTTTCTATCTTTTTCTTTCATTTTTTGCTATATCTCT
151009 TTCTTCTTTCTCTTTGTATTGTCAACTTGATTTGATCTTCGAATGCTTCGTGTT
131 TTCTTCTTTCTCTTTGTATTGTCAACTTGATTTGATCTTCGAATGCTTCGTGTT
151063 T
1 T
151064 GGTCCATCTC
Statistics
Matches: 184, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
183 127 0.69
184 57 0.31
ACGTcount: A:0.10, C:0.17, G:0.09, T:0.64
Consensus pattern (184 bp):
TCGTCTTAAGGTGTTTGATCGGTTTTCTTTCTTCTCTTTTTTTTTTTCATTTTTTCATTTTTTCA
TTTTTTCATTTTTTCATTTTTTTCTTTCTTTTCTATCTTTTTCTTTCATTTTTTGCTATATCTCT
TTCTTCTTTCTCTTTGTATTGTCAACTTGATTTGATCTTCGAATGCTTCGTGTT
Found at i:157405 original size:145 final size:145
Alignment explanation
Indices: 157256--157586 Score: 389
Period size: 145 Copynumber: 2.3 Consensus size: 145
157246 TGACATTACA
* * * * *
157256 CAACTTTTCACCGTT-TGAAGTATTGATCGGAGATCCCGATCGCCGAAAAAAAGCTAAAAA-CAG
1 CAACTTTTGACCGTTCAGAA-TGTTGATCGGAGATCCCGATCGCAGAAAAAAAGCCAAAAACCA-
* ** * *
157319 TTCAACTTATTTTCTCTGATCTGCCGTCGTCCACTGTCCGATCGTCCTAAATTTTCAGTATGTTG
64 TTCAACTTATTTTCTCCGATCCACCGTCGTCCACCGTCCAATCGTCCTAAATTTTCAGTATGTTG
* *
157384 TTTGT-ACTGGTCTCGCG
129 TTCGTGA-TGGTCTCACG
* ** * *
157401 CAACTTTTGACCGTTCAGAATGTTGATTGGAGATCCCGATCGCAGGCAAGAGGCCAAAAACCATT
1 CAACTTTTGACCGTTCAGAATGTTGATCGGAGATCCCGATCGCAGAAAAAAAGCCAAAAACCATT
** * *
157466 CGGCTTATTTTCTCCGATCCACCGTCGTCCACCGTCTAATCGTCCTGAATTTTCAGTATGTTGTT
66 CAACTTATTTTCTCCGATCCACCGTCGTCCACCGTCCAATCGTCCTAAATTTTCAGTATGTTGTT
*
157531 CGTGATGGTCTTACG
131 CGTGATGGTCTCACG
* * *
157546 CAACTTTTGACCGTTCGGAATGGTGATCGGAGATTCCGATC
1 CAACTTTTGACCGTTCAGAATGTTGATCGGAGATCCCGATC
157587 AATGGAGAGA
Statistics
Matches: 157, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
145 151 0.96
146 6 0.04
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (145 bp):
CAACTTTTGACCGTTCAGAATGTTGATCGGAGATCCCGATCGCAGAAAAAAAGCCAAAAACCATT
CAACTTATTTTCTCCGATCCACCGTCGTCCACCGTCCAATCGTCCTAAATTTTCAGTATGTTGTT
CGTGATGGTCTCACG
Found at i:157776 original size:13 final size:13
Alignment explanation
Indices: 157758--157793 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
157748 TATAATATTG
157758 GTAGTGGAATCAT
1 GTAGTGGAATCAT
157771 GTAGTGGAATCAT
1 GTAGTGGAATCAT
157784 GTAGTGGAAT
1 GTAGTGGAAT
157794 GATGGGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.33, T:0.31
Consensus pattern (13 bp):
GTAGTGGAATCAT
Found at i:159735 original size:23 final size:25
Alignment explanation
Indices: 159680--159735 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
159670 AATTTTTTTC
159680 CCGAAG-GATCGCGTAGAAATTTGCA
1 CCGAAGTG-TCGCGTAGAAATTTGCA
*
159705 TCGAAGTGTCGCGTAG-AA-TTGCA
1 CCGAAGTGTCGCGTAGAAATTTGCA
*
159728 CCGTAGTG
1 CCGAAGTG
159736 CCATATAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.41
24 2 0.07
25 13 0.48
26 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (25 bp):
CCGAAGTGTCGCGTAGAAATTTGCA
Found at i:160816 original size:22 final size:20
Alignment explanation
Indices: 160764--160839 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
160754 CTGATGCATG
*
160764 GGGTATCGATACTTGTATGAA
1 GGGTATCGATAC-TATATGAA
***
160785 TAATATCGATACTATATGAAA
1 GGGTATCGATACTATATG-AA
* *
160806 GAGGTATCGATACCTATGTGGA
1 G-GGTATCGATA-CTATATGAA
160828 GGGTATCGATAC
1 GGGTATCGATAC
160840 CCAGGAAACT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
20 6 0.14
21 21 0.49
22 10 0.23
23 6 0.14
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (20 bp):
GGGTATCGATACTATATGAA
Found at i:161937 original size:28 final size:28
Alignment explanation
Indices: 161897--161977 Score: 144
Period size: 28 Copynumber: 2.9 Consensus size: 28
161887 AGAGTCGAGG
* *
161897 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTATGTGGTCATTCGGGACATATGT
161925 GTTCTATGTGGTCATTCGGGACATATGT
1 GTTCTATGTGGTCATTCGGGACATATGT
161953 GTTCTATGTGGTCATTCGGGACATA
1 GTTCTATGTGGTCATTCGGGACATA
161978 GTGGTCCTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.37
Consensus pattern (28 bp):
GTTCTATGTGGTCATTCGGGACATATGT
Found at i:168994 original size:6 final size:6
Alignment explanation
Indices: 168983--169064 Score: 74
Period size: 6 Copynumber: 13.0 Consensus size: 6
168973 CTTGACAATC
** * * *
168983 TTTTCT TTTTCT TCCTCT TTCTCT TTCTCT TTTCCT TTTTCT TTTTCTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T
*
169032 CTATTTCT TTTTCT TTTTCA TTTTCAT TTTTCT
1 -T-TTTCT TTTTCT TTTTCT TTTTC-T TTTTCT
169065 CTACATCATC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
6 51 0.80
7 7 0.11
8 2 0.03
9 4 0.06
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTCT
Found at i:169043 original size:21 final size:20
Alignment explanation
Indices: 168994--169064 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
168984 TTTCTTTTTC
* *
168994 TTCCTCTTTCTCTTTCTCTT
1 TTCCTTTTTCTTTTTCTCTT
169014 TTCCTTTTTCTTTTTCTTCTAT
1 TTCCTTTTTCTTTTTC-TCT-T
*
169036 TT-CTTTTTCTTTTTC-ATT
1 TTCCTTTTTCTTTTTCTCTT
*
169054 TTCATTTTTCT
1 TTCCTTTTTCT
169065 CTACATCATC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.07
19 8 0.18
20 14 0.32
21 16 0.36
22 3 0.07
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCCTTTTTCTTTTTCTCTT
Found at i:171862 original size:18 final size:18
Alignment explanation
Indices: 171839--171997 Score: 210
Period size: 18 Copynumber: 8.8 Consensus size: 18
171829 CAGGTAGTCC
*
171839 GTCCTCGGCTCCTCAGCA
1 GTCCTTGGCTCCTCAGCA
* **
171857 GTCCTCGGCTCCTTGGCA
1 GTCCTTGGCTCCTCAGCA
* *
171875 GTCCTCGGCTCCTCGGCA
1 GTCCTTGGCTCCTCAGCA
*
171893 GTCCTTGGCGCCTCAGCA
1 GTCCTTGGCTCCTCAGCA
*
171911 GTCCTTGGCTCCTCGGCA
1 GTCCTTGGCTCCTCAGCA
* *
171929 GCCCTTGGCTCCTCAGCT
1 GTCCTTGGCTCCTCAGCA
*
171947 GTCCTTGGCTCCTCGGCA
1 GTCCTTGGCTCCTCAGCA
*
171965 GCCCTTGGCTCCTCAGCA
1 GTCCTTGGCTCCTCAGCA
171983 GTCCTTGGCTCCTCA
1 GTCCTTGGCTCCTCA
171998 ACGACCCTCT
Statistics
Matches: 124, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 124 1.00
ACGTcount: A:0.08, C:0.42, G:0.25, T:0.26
Consensus pattern (18 bp):
GTCCTTGGCTCCTCAGCA
Found at i:171869 original size:8 final size:8
Alignment explanation
Indices: 171840--171891 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
171830 AGGTAGTCCG
171840 TCCTCGGC
1 TCCTCGGC
*
171848 TCCTCAGC
1 TCCTCGGC
171856 AGTCCTCGGC
1 --TCCTCGGC
*
171866 TCCTTGGC
1 TCCTCGGC
171874 AGTCCTCGGC
1 --TCCTCGGC
171884 TCCTCGGC
1 TCCTCGGC
171892 AGTCCTTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 22 0.61
10 14 0.39
ACGTcount: A:0.06, C:0.44, G:0.25, T:0.25
Consensus pattern (8 bp):
TCCTCGGC
Found at i:174931 original size:28 final size:28
Alignment explanation
Indices: 174900--174953 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
174890 GCTGAAAACA
174900 TTAGACA-ACTACTTTGAGCAAAAAAAAT
1 TTAGACACA-TACTTTGAGCAAAAAAAAT
* *
174928 TTAGACACATATTTTGAGTAAAAAAA
1 TTAGACACATACTTTGAGCAAAAAAA
174954 TTATTTAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (28 bp):
TTAGACACATACTTTGAGCAAAAAAAAT
Found at i:175672 original size:23 final size:23
Alignment explanation
Indices: 175646--175728 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
175636 ACGGTAAAAT
175646 AAGCAATAAAGATATTTGAAAGC
1 AAGCAATAAAGATATTTGAAAGC
* ** *
175669 AAGCAAAGTGAACAAATATACGGAAAAGT
1 AAGC-AA-T-AA-AGATAT-TTG-AAAGC
*
175698 AAGTAATAAAGATATTTGAAAGC
1 AAGCAATAAAGATATTTGAAAGC
175721 AAGCAATA
1 AAGCAATA
175729 TTCACAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
23 15 0.34
24 3 0.07
25 6 0.14
26 4 0.09
27 6 0.14
28 3 0.07
29 7 0.16
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.19
Consensus pattern (23 bp):
AAGCAATAAAGATATTTGAAAGC
Found at i:175736 original size:52 final size:52
Alignment explanation
Indices: 175623--175726 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
175613 ATTTGTGAAG
*
175623 AGTGAATAAATATACGGTAAAATAAGCAATAAAGATATTTGAAAGCAAGCAA
1 AGTGAACAAATATACGGTAAAATAAGCAATAAAGATATTTGAAAGCAAGCAA
*
175675 AGTGAACAAATATACGG-AAAAGTAAGTAATAAAGATATTTGAAAGCAAGCAA
1 AGTGAACAAATATACGGTAAAA-TAAGCAATAAAGATATTTGAAAGCAAGCAA
175727 TATTCACAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 4 0.08
52 45 0.92
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.20
Consensus pattern (52 bp):
AGTGAACAAATATACGGTAAAATAAGCAATAAAGATATTTGAAAGCAAGCAA
Found at i:176684 original size:18 final size:18
Alignment explanation
Indices: 176661--176704 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
176651 AAATCATTTA
176661 ATTTTCCCACTTTA-CTGT
1 ATTTTCCCACTTTATC-GT
176679 ATTTTCCCACTTTATCGT
1 ATTTTCCCACTTTATCGT
176697 ATTTTCCC
1 ATTTTCCC
176705 TCAATCTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.16, C:0.30, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTTTCCCACTTTATCGT
Found at i:177501 original size:31 final size:31
Alignment explanation
Indices: 177463--177527 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
177453 TGATTTTGAA
*
177463 AAAATGGACCAAAATCGATAGTTTATGTACT
1 AAAATGGACCAAAATCGATAGTTTAAGTACT
* *
177494 AAAATGGACCAAAATTGATAGTTTAAGTATT
1 AAAATGGACCAAAATCGATAGTTTAAGTACT
177525 AAA
1 AAA
177528 CACGTAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.29
Consensus pattern (31 bp):
AAAATGGACCAAAATCGATAGTTTAAGTACT
Found at i:179482 original size:20 final size:21
Alignment explanation
Indices: 179444--179488 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
179434 AAATCATTCC
179444 TTAATTTTAAGATAATATATT
1 TTAATTTTAAGATAATATATT
179465 TTAATATTTAA-A-AATATATT
1 TTAAT-TTTAAGATAATATATT
179485 TTAA
1 TTAA
179489 AAGAGTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.52
21 6 0.26
22 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAATTTTAAGATAATATATT
Found at i:179561 original size:16 final size:16
Alignment explanation
Indices: 179531--179561 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
179521 AAAATTTTAC
179531 TCAAGAAATTATTTTT
1 TCAAGAAATTATTTTT
179547 TCAA-AAATTATTTTT
1 TCAAGAAATTATTTTT
179562 ATAAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TCAAGAAATTATTTTT
Found at i:184699 original size:16 final size:15
Alignment explanation
Indices: 184674--184704 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
184664 TGAGGTTAAA
184674 ATATATATTTAATAT
1 ATATATATTTAATAT
184689 ATATAATATTTAATAT
1 ATAT-ATATTTAATAT
184705 TTTCGGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATATTTAATAT
Found at i:186465 original size:26 final size:26
Alignment explanation
Indices: 186430--186489 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
186420 ATCACATATG
186430 GGGCGACGGTCGTATTTTGGAGTGTT
1 GGGCGACGGTCGTATTTTGGAGTGTT
186456 GGGCGACGGTCGTATTTTGGAGTGTT
1 GGGCGACGGTCGTATTTTGGAGTGTT
*
186482 GGACGACG
1 GGGCGACG
186490 TGGGAGAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.13, C:0.13, G:0.43, T:0.30
Consensus pattern (26 bp):
GGGCGACGGTCGTATTTTGGAGTGTT
Found at i:187692 original size:67 final size:67
Alignment explanation
Indices: 187584--187718 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
187574 GATATTTATT
187584 TGTGGAATGTGAAATGAAAATGATTCTATGTGTAAAATCTGGTGTTTGTTTGAAGTTCTGGGTAT
1 TGTGGAATGTGAAATGAAAATGATTCTATGTGTAAAATCTGGTGTTTGTTTGAAGTTCTGGGTAT
187649 GG
66 GG
187651 TGTGGAATGTGAAATGAAAATGATTCTATGTGTAAAATCTGGTGTTTGTTTGAAGTTCTGGGTAT
1 TGTGGAATGTGAAATGAAAATGATTCTATGTGTAAAATCTGGTGTTTGTTTGAAGTTCTGGGTAT
187716 GG
66 GG
187718 T
1 T
187719 TCCTTGAACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.27, C:0.04, G:0.30, T:0.39
Consensus pattern (67 bp):
TGTGGAATGTGAAATGAAAATGATTCTATGTGTAAAATCTGGTGTTTGTTTGAAGTTCTGGGTAT
GG
Found at i:187879 original size:12 final size:12
Alignment explanation
Indices: 187862--187886 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
187852 ATAATAACTC
187862 TTTTTCAAGAGT
1 TTTTTCAAGAGT
187874 TTTTTCAAGAGT
1 TTTTTCAAGAGT
187886 T
1 T
187887 ATCACACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTTTCAAGAGT
Found at i:189030 original size:12 final size:13
Alignment explanation
Indices: 189001--189027 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
188991 ACACAACTAA
189001 TTAAAAATGCAAC
1 TTAAAAATGCAAC
189014 TTAAAAATGCAAC
1 TTAAAAATGCAAC
189027 T
1 T
189028 AAACACACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (13 bp):
TTAAAAATGCAAC
Found at i:191818 original size:15 final size:15
Alignment explanation
Indices: 191798--191828 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
191788 CATTTCTTTT
191798 TAGCATGACATTATG
1 TAGCATGACATTATG
191813 TAGCATGACATTATG
1 TAGCATGACATTATG
191828 T
1 T
191829 TTATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (15 bp):
TAGCATGACATTATG
Found at i:193339 original size:12 final size:12
Alignment explanation
Indices: 193322--193351 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
193312 TAGGGCCATT
193322 AGTTTTACATCA
1 AGTTTTACATCA
*
193334 AGTTTTACATTA
1 AGTTTTACATCA
193346 AGTTTT
1 AGTTTT
193352 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:198211 original size:28 final size:27
Alignment explanation
Indices: 198180--198246 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
198170 AAAAAAAGAA
198180 AAAGAAAAAAAGAGAAGCA-AAATTGTGC
1 AAAGAAAAAAAGA-AAG-AGAAATTGTGC
* *
198208 AAAGGAAATAAAGAAAGAGAGATTGTGC
1 AAA-GAAAAAAAGAAAGAGAAATTGTGC
*
198236 AATGAAAAAAA
1 AAAGAAAAAAA
198247 AAGTTATATG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 8 0.24
28 16 0.48
29 9 0.27
ACGTcount: A:0.61, C:0.04, G:0.22, T:0.12
Consensus pattern (27 bp):
AAAGAAAAAAAGAAAGAGAAATTGTGC
Found at i:199301 original size:12 final size:12
Alignment explanation
Indices: 199284--199313 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
199274 TAGAGCCATT
199284 AGTTTTACATCA
1 AGTTTTACATCA
*
199296 AGTTTTACATTA
1 AGTTTTACATCA
199308 AGTTTT
1 AGTTTT
199314 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:211909 original size:20 final size:18
Alignment explanation
Indices: 211884--211926 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
211874 TGAAGTTCTA
*
211884 TTTTCTTTCATCTTTTTTAC
1 TTTTCTTTCAT-TATTTT-C
211904 TTTTCTTTCATTATTTTC
1 TTTTCTTTCATTATTTTC
211922 TTTTC
1 TTTTC
211927 ACAATGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 5 0.23
20 11 0.50
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCTTTCATTATTTTC
Found at i:218867 original size:29 final size:29
Alignment explanation
Indices: 218825--218883 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
218815 ATTTTCACCT
218825 AACTAAATTGATGTAAGCAATGCCATCAA
1 AACTAAATTGATGTAAGCAATGCCATCAA
* *
218854 AACTAAATTGATGTAAGTAATGGCATCAA
1 AACTAAATTGATGTAAGCAATGCCATCAA
218883 A
1 A
218884 TTAATTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGCCATCAA
Found at i:223542 original size:29 final size:29
Alignment explanation
Indices: 223470--223528 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
223460 ATTTTCACCT
*
223470 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAACAATGACATCAA
223499 AACTAAATTGATGTAAACAATGACATCAA
1 AACTAAATTGATGTAAACAATGACATCAA
223528 A
1 A
223529 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAACAATGACATCAA
Found at i:224807 original size:15 final size:15
Alignment explanation
Indices: 224787--224816 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
224777 TTATGATAGT
224787 TTTGGAACTCACAAA
1 TTTGGAACTCACAAA
224802 TTTGGAACTCACAAA
1 TTTGGAACTCACAAA
224817 CCCGCTCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
TTTGGAACTCACAAA
Found at i:228411 original size:23 final size:24
Alignment explanation
Indices: 228367--228413 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
228357 TTTTTGTTTT
* *
228367 TTGAGTTTCTGGTTAAATTTAAGG
1 TTGAGTTTCTGATTAAACTTAAGG
*
228391 TTGAGTTT-TGATTAAGCTTAAGG
1 TTGAGTTTCTGATTAAACTTAAGG
228414 AGAGCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.45
Consensus pattern (24 bp):
TTGAGTTTCTGATTAAACTTAAGG
Found at i:229281 original size:25 final size:25
Alignment explanation
Indices: 229247--229296 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
229237 GATCAGGGGT
*
229247 ACTGAAGCATAAACATATAGTGATA
1 ACTGAAGCATAAACACATAGTGATA
*
229272 ACTGAAGCATAAACACGTAGTGATA
1 ACTGAAGCATAAACACATAGTGATA
229297 TAGTGCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (25 bp):
ACTGAAGCATAAACACATAGTGATA
Found at i:229981 original size:18 final size:18
Alignment explanation
Indices: 229958--229993 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
229948 AAGGTTCTAC
*
229958 GTGGTCCTACGGGACATA
1 GTGGTCCAACGGGACATA
229976 GTGGTCCAACGGGACATA
1 GTGGTCCAACGGGACATA
229994 TGTGTTCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.19
Consensus pattern (18 bp):
GTGGTCCAACGGGACATA
Found at i:230017 original size:26 final size:27
Alignment explanation
Indices: 229974--230047 Score: 114
Period size: 26 Copynumber: 2.7 Consensus size: 27
229964 CTACGGGACA
*
229974 TAGTGGTCCAACGGGACATATGTGTTC
1 TAGTGGTCCTACGGGACATATGTGTTC
230001 TAGTGGT-CTACGGGACATATGTGTTC
1 TAGTGGTCCTACGGGACATATGTGTTC
*
230027 TACGTGGTCCTATGGGACATA
1 TA-GTGGTCCTACGGGACATA
230048 ATGGTCCTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 20 0.47
27 12 0.28
28 11 0.26
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (27 bp):
TAGTGGTCCTACGGGACATATGTGTTC
Found at i:233216 original size:15 final size:15
Alignment explanation
Indices: 233196--233227 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
233186 AAAATCTTTC
*
233196 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
233211 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
233226 TT
1 TT
233228 CGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:242173 original size:24 final size:22
Alignment explanation
Indices: 242144--242193 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
242134 AAGTTCTCTC
*
242144 TTTTATTTTATTTTCAAGTTTTCA
1 TTTTATTTTATCTT-AAGTTTT-A
242168 TTTTATTTTATCTTAAGTTTTA
1 TTTTATTTTATCTTAAGTTTTA
242190 TTTT
1 TTTT
242194 TAAACATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
23 7 0.28
24 13 0.52
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTATTTTATCTTAAGTTTTA
Found at i:242793 original size:21 final size:21
Alignment explanation
Indices: 242752--242793 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
242742 TACCTTATTC
* *
242752 ATTTTCAACTTTACATTCTTT
1 ATTTTCAACTTTAAATACTTT
242773 ATTTTC-ACTTTAAATCACTTT
1 ATTTTCAACTTTAAAT-ACTTT
242794 TTATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTCAACTTTAAATACTTT
Found at i:248805 original size:25 final size:25
Alignment explanation
Indices: 248777--248825 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
248767 TAGTTTTATA
* *
248777 AAGTTCTCTCTTTTCTTTTATTTTC
1 AAGTTCTCACTTTTATTTTATTTTC
* *
248802 AAGTTTTCAGTTTTATTTTATTTT
1 AAGTTCTCACTTTTATTTTATTTT
248826 TAAACATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.65
Consensus pattern (25 bp):
AAGTTCTCACTTTTATTTTATTTTC
Found at i:250048 original size:2 final size:2
Alignment explanation
Indices: 250041--250075 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
250031 TTTTCGACTT
250041 TA 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 TA T
250076 TCACATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:253189 original size:18 final size:18
Alignment explanation
Indices: 253166--253200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
253156 TTCCATCCGG
*
253166 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
253184 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
253201 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:254377 original size:19 final size:19
Alignment explanation
Indices: 254355--254437 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
254345 CTAGGCGGCT
*
254355 CGGCTTGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
254374 CGGCTCGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
254393 CGGCTCGGCT--G---AAA
1 CGGCTCGGCTCAGCTCAAA
*
254407 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
254426 CGGCTCGGCTCA
1 CGGCTCGGCTCA
254438 AACGGCTACT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
14 13 0.23
16 1 0.02
17 1 0.02
19 42 0.74
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.17
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:254384 original size:14 final size:14
Alignment explanation
Indices: 254379--254444 Score: 69
Period size: 14 Copynumber: 4.4 Consensus size: 14
254369 TCAAACGGCT
*
254379 CGGCTCAGCTCAAA
1 CGGCTCGGCTCAAA
*
254393 CGGCTCGGCTGAAA
1 CGGCTCGGCTCAAA
254407 CGGCTCGGCTCAGCTCAA
1 CGGCTCGGCTCA----AA
254425 GCGGCTCGGCTCAAA
1 -CGGCTCGGCTCAAA
254440 CGGCT
1 CGGCT
254445 ACTCAGGCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 28 0.64
15 2 0.05
18 2 0.05
19 12 0.27
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (14 bp):
CGGCTCGGCTCAAA
Done.