Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015281.1 Kokia drynarioides strain JFW-HI SEQ_130326, 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: 648972
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 207 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:228 original size:15 final size:15
Alignment explanation
Indices: 194--228 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
184 ATAATATTTT
194 TAAAAATAAAAATTC
1 TAAAAATAAAAATTC
* *
209 AAAAAATAAAAATTG
1 TAAAAATAAAAATTC
224 TAAAA
1 TAAAA
229 TTATATTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAAAATAAAAATTC
Found at i:6867 original size:7 final size:7
Alignment explanation
Indices: 6855--6880 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6845 CACTCATGCA
6855 TTTTTAT
1 TTTTTAT
6862 TTTTTAT
1 TTTTTAT
6869 TTTTTAT
1 TTTTTAT
6876 TTTTT
1 TTTTT
6881 TTAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:11496 original size:25 final size:23
Alignment explanation
Indices: 11468--11513 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
11458 GTTGGATCCA
11468 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
11493 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
11514 CTCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:15629 original size:16 final size:17
Alignment explanation
Indices: 15608--15640 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15598 CACACCTAGA
15608 TTCCCCT-CTTCATTTT
1 TTCCCCTACTTCATTTT
*
15624 TTCCCCTATTTCATTTT
1 TTCCCCTACTTCATTTT
15641 GTCGCCATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.58
Consensus pattern (17 bp):
TTCCCCTACTTCATTTT
Found at i:17862 original size:17 final size:17
Alignment explanation
Indices: 17840--17874 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17830 TTATGGTTTA
17840 GAAACTTTATTAGTGAT
1 GAAACTTTATTAGTGAT
17857 GAAACTTTATTAGTGAT
1 GAAACTTTATTAGTGAT
17874 G
1 G
17875 TAGTATGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (17 bp):
GAAACTTTATTAGTGAT
Found at i:19312 original size:10 final size:10
Alignment explanation
Indices: 19297--19326 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
19287 TGTTTTATAT
19297 AAAAATTAAA
1 AAAAATTAAA
19307 AAAAATTAAA
1 AAAAATTAAA
19317 AAAAATTAAA
1 AAAAATTAAA
19327 GTTGTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:26094 original size:24 final size:25
Alignment explanation
Indices: 26067--26122 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
26057 ATTAATTTTG
* *
26067 ATATAATTGAAT-TAAAAATATAAA
1 ATATAATTGAATAAAAAAACATAAA
*
26091 ATATAATTGTATAAAAAAACATAAA
1 ATATAATTGAATAAAAAAACATAAA
26116 ATATAAT
1 ATATAAT
26123 CAACGAGGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (25 bp):
ATATAATTGAATAAAAAAACATAAA
Found at i:26431 original size:28 final size:27
Alignment explanation
Indices: 26376--26473 Score: 99
Period size: 29 Copynumber: 3.4 Consensus size: 27
26366 AATATTTTCT
* *
26376 AATATTAAAAAGTTCTTATAAAGTATTAA
1 AATATTAAAAA-TTC-TAGAAATTATTAA
26405 AATATTAAAAATTACTAGAAATTATTAA
1 AATATTAAAAATT-CTAGAAATTATTAA
*
26433 AATACTGTAAAAATT-TAGAAAATTATTGA
1 AATA-T-TAAAAATTCTAG-AAATTATTAA
26462 AATATTATAAAA
1 AATATTA-AAAA
26474 ATATTATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
27 2 0.03
28 25 0.41
29 26 0.43
30 8 0.13
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (27 bp):
AATATTAAAAATTCTAGAAATTATTAA
Found at i:26474 original size:29 final size:29
Alignment explanation
Indices: 26399--26484 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
26389 TCTTATAAAG
26399 TATTAAAATA-T-TAAAAATTACTAG-AAAT
1 TATTAAAATACTATAAAAATT--TAGAAAAT
*
26427 TATTAAAATACTGTAAAAATTTAGAAAAT
1 TATTAAAATACTATAAAAATTTAGAAAAT
* * *
26456 TATTGAAATATTATAAAAATATTATAAAA
1 TATTAAAATACTATAAAAAT-TTAGAAAA
26485 ATTAGAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.26
29 22 0.44
30 15 0.30
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
TATTAAAATACTATAAAAATTTAGAAAAT
Found at i:26475 original size:11 final size:11
Alignment explanation
Indices: 26461--26486 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26451 AAAATTATTG
26461 AAATATTATAA
1 AAATATTATAA
26472 AAATATTATAA
1 AAATATTATAA
26483 AAAT
1 AAAT
26487 TAGAAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATTATAA
Found at i:26488 original size:20 final size:19
Alignment explanation
Indices: 26423--26488 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
26413 AAATTACTAG
* *
26423 AAATTATTAAAATACTGTAA
1 AAATTATAAAAATA-TTTAA
*
26443 AAATT-TAGAAAATTATTGAA
1 AAATTATA-AAAA-TATTTAA
*
26463 ATATTATAAAAATATTATAA
1 AAATTATAAAAATATT-TAA
26483 AAATTA
1 AAATTA
26489 GAAACTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 5 0.14
20 27 0.75
21 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (19 bp):
AAATTATAAAAATATTTAA
Found at i:26499 original size:17 final size:17
Alignment explanation
Indices: 26476--26522 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
26466 TTATAAAAAT
26476 ATTATAAAAATTAGAAA
1 ATTATAAAAATTAGAAA
* *
26493 CTTAT-AAAATGGAGAAA
1 ATTATAAAAAT-TAGAAA
26510 ATTATAAAAATTA
1 ATTATAAAAATTA
26523 TTAAATAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 5 0.21
17 14 0.58
18 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (17 bp):
ATTATAAAAATTAGAAA
Found at i:28206 original size:17 final size:19
Alignment explanation
Indices: 28184--28224 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
28174 GAGTAGAGAT
*
28184 TAAATTTAAAA-TT-AATA
1 TAAATTGAAAACTTAAATA
28201 TAAATTGAAAACTTAAATA
1 TAAATTGAAAACTTAAATA
28220 TAAAT
1 TAAAT
28225 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAATTGAAAACTTAAATA
Found at i:38465 original size:2 final size:2
Alignment explanation
Indices: 38458--38482 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38448 GAAAAGAAGC
38458 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
38483 ATTAGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40303 original size:12 final size:12
Alignment explanation
Indices: 40286--40320 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
40276 TCCACCGCAT
40286 CCAGCGCCACAA
1 CCAGCGCCACAA
* *
40298 CCAGCGCCGCAT
1 CCAGCGCCACAA
40310 CCAGCGCCACA
1 CCAGCGCCACA
40321 GGTGGAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.51, G:0.20, T:0.03
Consensus pattern (12 bp):
CCAGCGCCACAA
Found at i:43682 original size:48 final size:48
Alignment explanation
Indices: 43624--43724 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
43614 TGGAGGTGGC
* * * * * *
43624 TTCACGATAGGAGGCGTTGGTGGTGGTAGAATCTATGGTGTTGGTCGG
1 TTCACAATAGGAAGCGATGGAGGTGGTAGAACCGATGGTGTTGGTCGG
* *
43672 TTCACAATAGGAAGTGATGGAGGTGGTAGAACCGATGGTGTTGGTGGG
1 TTCACAATAGGAAGCGATGGAGGTGGTAGAACCGATGGTGTTGGTCGG
43720 TTCAC
1 TTCAC
43725 CATTGGTGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.21, C:0.11, G:0.40, T:0.29
Consensus pattern (48 bp):
TTCACAATAGGAAGCGATGGAGGTGGTAGAACCGATGGTGTTGGTCGG
Found at i:44091 original size:4 final size:4
Alignment explanation
Indices: 44078--44110 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
44068 AATAGTTTAA
44078 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
44111 GTATTTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:44391 original size:6 final size:6
Alignment explanation
Indices: 44382--44408 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44372 GCCTCCCCCT
44382 CATCAC CATCAC CATCAC CATCAC CAT
1 CATCAC CATCAC CATCAC CATCAC CAT
44409 ACTCTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (6 bp):
CATCAC
Found at i:44419 original size:3 final size:3
Alignment explanation
Indices: 44411--44441 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
44401 ATCACCATAC
44411 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
44442 GATCATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:47052 original size:23 final size:22
Alignment explanation
Indices: 47010--47061 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
47000 TAATTTCAAT
*
47010 TCAAACCTAATTAATCCTATTAG
1 TCAAACATAATTAATCCTA-TAG
47033 TCAAACATAATTAA-CTCTATAG
1 TCAAACATAATTAATC-CTATAG
47055 TCTAAAC
1 TC-AAAC
47062 TCGATTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (22 bp):
TCAAACATAATTAATCCTATAG
Found at i:47385 original size:2 final size:2
Alignment explanation
Indices: 47378--47410 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47368 CTAGTCACTT
47378 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47411 TGTTACTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49708 original size:22 final size:22
Alignment explanation
Indices: 49680--49722 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49670 AAATATGTAC
49680 TATTATATATAT-TTTTTTGAAA
1 TATTATATAT-TCTTTTTTGAAA
*
49702 TATTATATCTTCTTTTTTGAA
1 TATTATATATTCTTTTTTGAA
49723 GTAATGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (22 bp):
TATTATATATTCTTTTTTGAAA
Found at i:53210 original size:12 final size:12
Alignment explanation
Indices: 53193--53217 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53183 TATTTGATTC
53193 AAAAATAAATTT
1 AAAAATAAATTT
53205 AAAAATAAATTT
1 AAAAATAAATTT
53217 A
1 A
53218 TTATTTATTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATAAATTT
Found at i:54225 original size:10 final size:9
Alignment explanation
Indices: 54204--54252 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
54194 TACATATTTC
54204 AATTTTTAT
1 AATTTTTAT
54213 AATTTTTAGT
1 AATTTTTA-T
*
54223 AATTTTTAA
1 AATTTTTAT
54232 AATGTTTTTAT
1 AA--TTTTTAT
*
54243 CATTTTTAT
1 AATTTTTAT
54252 A
1 A
54253 GATTAGCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 17 0.52
10 9 0.27
11 7 0.21
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:56289 original size:97 final size:98
Alignment explanation
Indices: 56121--56316 Score: 297
Period size: 97 Copynumber: 2.0 Consensus size: 98
56111 AACCTTGAAA
** * *
56121 AAGGGTATTCGATTATCCTGGTTTGAAGAAAAAAATCGCGCCTATTAAATTAAGGCACAAATTTT
1 AAGGGTATTCGATTATCCCAGTTTGAAG-AAAAAATCACGCCTAGTAAATTAAGGCACAAATTTT
56186 CAAAACCCGAAATAAAGGAATATTG-CTTCGATTT
65 CAAAACCCGAAATAAAGGAATATTGTC-TCGATTT
* *
56220 AAGGGTATTCGATTATCCCAGTTTGAAG-AAAAATCACGCCTAGTAAGTTAATGCACAAATTTTC
1 AAGGGTATTCGATTATCCCAGTTTGAAGAAAAAATCACGCCTAGTAAATTAAGGCACAAATTTTC
*
56284 AAAACCCGAAATAAAGGAATGTTGTCTCGATTT
66 AAAACCCGAAATAAAGGAATATTGTCTCGATTT
56317 TAAATATTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
97 62 0.70
98 1 0.01
99 26 0.29
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (98 bp):
AAGGGTATTCGATTATCCCAGTTTGAAGAAAAAATCACGCCTAGTAAATTAAGGCACAAATTTTC
AAAACCCGAAATAAAGGAATATTGTCTCGATTT
Found at i:56396 original size:19 final size:19
Alignment explanation
Indices: 56369--56409 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
56359 AAAATAGAGA
56369 TAAAAATGAGC-ATGCAAAT
1 TAAAAATGAGCTATGC-AAT
*
56388 TAAATATGAGCTATGCAAT
1 TAAAAATGAGCTATGCAAT
56407 TAA
1 TAA
56410 TGATAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.27
Consensus pattern (19 bp):
TAAAAATGAGCTATGCAAT
Found at i:56625 original size:28 final size:28
Alignment explanation
Indices: 56577--56685 Score: 87
Period size: 28 Copynumber: 3.8 Consensus size: 28
56567 AACTGGGTCA
* *
56577 AAAATG-AAGTTTCGGAGAGTTTGGGGTT
1 AAAATGTAA-TTTTGGAAAGTTTGGGGTT
*
56605 AAAATGTAATTTTGGAAAGTTTTAGGGGTA
1 AAAATGTAATTTTGGAAAG-TTT-GGGGTT
* * * *
56635 AAAATATCATTTTGGGAGAG-TTCGGGTT
1 AAAATGTAATTTT-GGAAAGTTTGGGGTT
*
56663 AAAAATGTAATTTTTGAAAGTTT
1 -AAAATGTAATTTTGGAAAGTTT
56686 AAGGGTAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
28 22 0.35
29 20 0.32
30 16 0.25
31 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.37
Consensus pattern (28 bp):
AAAATGTAATTTTGGAAAGTTTGGGGTT
Found at i:56705 original size:58 final size:57
Alignment explanation
Indices: 56594--57004 Score: 319
Period size: 58 Copynumber: 7.1 Consensus size: 57
56584 AGTTTCGGAG
* * * * * * *
56594 AGTTTGGGGTTAAAATGTAATTTTGGAAAGTTTTAGGGGTAAAAATATCATTTTGGGA
1 AGTTCGGGGTAAAAATGTAATTTTTGAAAG-TTTAAGGGTAAAAATGTGATTTTTGGA
* *
56652 GAGTTCGGGTTAAAAATGTAATTTTTGAAAGTTTAAGGGTAAAAATGCGATTTTTGGA
1 -AGTTCGGGGTAAAAATGTAATTTTTGAAAGTTTAAGGGTAAAAATGTGATTTTTGGA
* ** * * *** ** *
56710 AGTCCAAGATAAAAATGTAATTTTTGGAAG-TCCGGGGGCAAAATGTAATTTTTGAGA
1 AGTTCGGGGTAAAAATGTAATTTTTGAAAGTTTAAGGGTAAAAATGTGATTTTTG-GA
* * * * *
56767 AGTTCGAGGGTAAAAA-GTGATTTTTAAGAAGTTTGAGGGTAAAAAAGTTATTTTTGGA
1 AGTTCG-GGGTAAAAATGTAATTTTTGA-AAGTTTAAGGGTAAAAATGTGATTTTTGGA
* * * * * **
56825 AGTTTAGGGGCAAATATGTAATTTTTGAAAGGTTCAGGGGTAAAAACATGATTTTTGGA
1 AG-TTCGGGGTAAAAATGTAATTTTTGAAA-GTTTAAGGGTAAAAATGTGATTTTTGGA
** * *
56884 AGTTCGAGGG-AAAAATGTAATTTTTGAGAA-TTCGAGAGTAAAAATGTGATTTTTGGT
1 AGTTCG-GGGTAAAAATGTAATTTTTGA-AAGTTTAAGGGTAAAAATGTGATTTTTGGA
* * * *
56941 AGTTCGAGGGCAAAAATGTAATTTTTGAGAAGTTT-AGGGTCAAAATATGATTTCTGGA
1 AGTTCG-GGGTAAAAATGTAATTTTTGA-AAGTTTAAGGGTAAAAATGTGATTTTTGGA
56999 TAGTTC
1 -AGTTC
57005 AGGGACCTTT
Statistics
Matches: 280, Mismatches: 60, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
56 17 0.06
57 70 0.25
58 102 0.36
59 91 0.32
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (57 bp):
AGTTCGGGGTAAAAATGTAATTTTTGAAAGTTTAAGGGTAAAAATGTGATTTTTGGA
Found at i:56925 original size:116 final size:117
Alignment explanation
Indices: 56605--57009 Score: 382
Period size: 116 Copynumber: 3.5 Consensus size: 117
56595 GTTTGGGGTT
* * * * *
56605 AAAATGTAATTTTGGAAAGTTTTAGGGGTAAAAATATCATTTTGGGAGAGTTCG-GGTTAAAAAT
1 AAAATGTAATTTTTGAAAG-TTCAGGGGTAAAAATATGATTTTTGGAGAGTTCGAGG-GAAAAAT
* * ** * **
56669 GTAATTTTTGA-AAGTTTAAGGGTAAAAATGCGATTTTTGGAAGTCCA-AGATA
64 GTAATTTTTGAGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTTAGGGGCA
* * ** * *
56721 AAAATGTAATTTTTGGAAG-TCCGGGGGCAAAATGTAATTTTT-GAGAAGTTCGAGGGTAAAAA-
1 AAAATGTAATTTTTGAAAGTTCAGGGGTAAAAATATGATTTTTGGAG-AGTTCGAGGG-AAAAAT
* * * *
56783 GTGATTTTTAAGAAGTTTGAGGGTAAAAAAGTTATTTTTGGAAGTTTAGGGGCA
64 GTAATTTTTGAGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTTAGGGGCA
* *
56837 AATATGTAATTTTTGAAAGGTTCAGGGGTAAAAACATGATTTTTGGA-AGTTCGAGGGAAAAATG
1 AAAATGTAATTTTTGAAA-GTTCAGGGGTAAAAATATGATTTTTGGAGAGTTCGAGGGAAAAATG
* * * *
56901 TAATTTTTGAGAA-TTCGAGAGTAAAAATGTGATTTTTGGTAG-TTCGAGGGCA
65 TAATTTTTGAGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTTAG-GGGCA
* * * *
56953 AAAATGTAATTTTTGAGAAGTTTA-GGGTCAAAATATGATTTCTGGATAGTTC-AGGGA
1 AAAATGTAATTTTTGA-AAGTTCAGGGGTAAAAATATGATTTTTGGAGAGTTCGAGGGA
57010 CCTTTTAGCC
Statistics
Matches: 235, Mismatches: 42, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
113 3 0.01
114 31 0.13
115 64 0.27
116 93 0.40
117 25 0.11
118 17 0.07
119 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (117 bp):
AAAATGTAATTTTTGAAAGTTCAGGGGTAAAAATATGATTTTTGGAGAGTTCGAGGGAAAAATGT
AATTTTTGAGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTTAGGGGCA
Found at i:56986 original size:29 final size:29
Alignment explanation
Indices: 56594--56986 Score: 245
Period size: 29 Copynumber: 13.6 Consensus size: 29
56584 AGTTTCGGAG
* * *
56594 AGTTTGGGGTTAAAATGTAATTTTGGA-A
1 AGTTTAGGGTAAAAATGTAATTTTTGAGA
* * *
56622 AGTTTTAGGGGTAAAAATATCA-TTTTGGGA
1 AG-TTTA-GGGTAAAAATGTAATTTTTGAGA
*
56652 GAG-TTCGGGTTAAAAATGTAATTTTTGA-A
1 -AGTTTAGGG-TAAAAATGTAATTTTTGAGA
**
56681 AGTTTAAGGGTAAAAATGCGATTTTTG-GA
1 AGTTT-AGGGTAAAAATGTAATTTTTGAGA
** * *
56710 AGTCCAAGATAAAAATGTAATTTTTG-GA
1 AGTTTAGGGTAAAAATGTAATTTTTGAGA
*** **
56738 AGTCCGGGGGCAAAATGTAATTTTTGAGA
1 AGTTTAGGGTAAAAATGTAATTTTTGAGA
* * *
56767 AGTTCGAGGGTAAAAA-GTGATTTTTAAGA
1 AGTT-TAGGGTAAAAATGTAATTTTTGAGA
* *
56796 AGTTTGAGGGTAAAAAAGTTATTTTTG-GA
1 AGTTT-AGGGTAAAAATGTAATTTTTGAGA
* *
56825 AGTTTAGGGGCAAATATGTAATTTTTGA-A
1 AGTTTA-GGGTAAAAATGTAATTTTTGAGA
* ** *
56854 AGGTTCAGGGGTAAAAACATGATTTTTG-GA
1 A-GTTTA-GGGTAAAAATGTAATTTTTGAGA
*
56884 AGTTCGAGGG-AAAAATGTAATTTTTGAGA
1 AGTT-TAGGGTAAAAATGTAATTTTTGAGA
* * * *
56913 A-TTCGAGAGTAAAAATGTGATTTTTG-GT
1 AGTT-TAGGGTAAAAATGTAATTTTTGAGA
* *
56941 AGTTCGAGGGCAAAAATGTAATTTTTGAGA
1 AGTT-TAGGGTAAAAATGTAATTTTTGAGA
*
56971 AGTTTAGGGTCAAAAT
1 AGTTTAGGGTAAAAAT
56987 ATGATTTCTG
Statistics
Matches: 285, Mismatches: 58, Indels: 43
0.74 0.15 0.11
Matches are distributed among these distances:
28 70 0.25
29 150 0.53
30 63 0.22
31 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.34
Consensus pattern (29 bp):
AGTTTAGGGTAAAAATGTAATTTTTGAGA
Found at i:58715 original size:12 final size:12
Alignment explanation
Indices: 58698--58756 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
58688 ATTTGGACAT
*
58698 TTTAAATTCAAA
1 TTTAAACTCAAA
58710 TTTAAACTCAAA
1 TTTAAACTCAAA
* *
58722 -ATAAGCTCAAA
1 TTTAAACTCAAA
*
58733 TTTAAAAT-AAA
1 TTTAAACTCAAA
* *
58744 TTCAAACTTAAA
1 TTTAAACTCAAA
58756 T
1 T
58757 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 18 0.49
12 19 0.51
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.34
Consensus pattern (12 bp):
TTTAAACTCAAA
Found at i:58741 original size:17 final size:17
Alignment explanation
Indices: 58728--58773 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
58718 CAAAATAAGC
58728 TCAAATTTAAAATAAAT
1 TCAAATTTAAAATAAAT
* *
58745 TCAAACTT-AAATAATT
1 TCAAATTTAAAATAAAT
*
58761 TAAAATTTAAAAT
1 TCAAATTTAAAAT
58774 TAGGTTCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
TCAAATTTAAAATAAAT
Found at i:59349 original size:18 final size:18
Alignment explanation
Indices: 59309--59360 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
59299 TTTTCAATTG
*
59309 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAATTTATT
*
59327 CAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
59345 TAATTAA--AAATTTATT
1 TAATTAATTAAATTTATT
59361 ATCATCCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 7 0.23
18 14 0.47
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:61024 original size:6 final size:6
Alignment explanation
Indices: 61015--61042 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
61005 ATTAAAAGAA
61015 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
61043 TGTTGGTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:64487 original size:31 final size:31
Alignment explanation
Indices: 64452--64510 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
64442 ATGTGTATGA
64452 TTAAATCAAAATTAAAGTTTCAAGTATATAT
1 TTAAATCAAAATTAAAGTTTCAAGTATATAT
* *
64483 TTAAATCACAATTAAAGTTTCATGTATA
1 TTAAATCAAAATTAAAGTTTCAAGTATA
64511 ATTGCACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (31 bp):
TTAAATCAAAATTAAAGTTTCAAGTATATAT
Found at i:64568 original size:29 final size:27
Alignment explanation
Indices: 64496--64571 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 27
64486 AATCACAATT
*
64496 AAAGTTTCATGTATAATTGCACCAAATT
1 AAAG-TTCATGTATAATTGCACCAAATC
* * *
64524 AAAATTTATGTTTATAATTGCACATTAAATC
1 AAAGTTCATG--TATAATTGCAC--CAAATC
64555 AAAGTTCATGTATAATT
1 AAAGTTCATGTATAATT
64572 TTGAGATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
27 5 0.13
28 3 0.08
29 18 0.47
31 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (27 bp):
AAAGTTCATGTATAATTGCACCAAATC
Found at i:65064 original size:22 final size:23
Alignment explanation
Indices: 65021--65072 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
65011 GAAAATTTGA
65021 ATATATTTTTTAATTTGATAAAT
1 ATATATTTTTTAATTTGATAAAT
* *
65044 TTATA-TTTTTATATTT-TTAAAT
1 ATATATTTTTTA-ATTTGATAAAT
65066 ATATATT
1 ATATATT
65073 ATGTTAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATATATTTTTTAATTTGATAAAT
Found at i:67771 original size:19 final size:20
Alignment explanation
Indices: 67737--67784 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
67727 TTTATAAGTT
67737 TTATAATTATGGATAAATTA
1 TTATAATTATGGATAAATTA
*
67757 TTATAATTA-GTATAAATTA
1 TTATAATTATGGATAAATTA
*
67776 GTATAATTA
1 TTATAATTA
67785 AAAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
TTATAATTATGGATAAATTA
Found at i:67929 original size:10 final size:10
Alignment explanation
Indices: 67914--67967 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
67904 ATACATTTTA
67914 TTTTTATAAG
1 TTTTTATAAG
67924 TTTTTATAA-
1 TTTTTATAAG
*
67933 TATTTATAAG
1 TTTTTATAAG
* *
67943 TTTTTATGAT
1 TTTTTATAAG
*
67953 TTTTTATAAC
1 TTTTTATAAG
67963 TTTTT
1 TTTTT
67968 TTATAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
9 8 0.22
10 29 0.78
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (10 bp):
TTTTTATAAG
Found at i:67940 original size:19 final size:19
Alignment explanation
Indices: 67916--67980 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
67906 ACATTTTATT
67916 TTTATAAGTTTTTATAATA
1 TTTATAAGTTTTTATAATA
* *
67935 TTTATAAGTTTTTATGATTT
1 TTTATAAGTTTTTAT-AATA
*
67955 TTTATAACTTTTTTTATAA-A
1 TTTATAA--GTTTTTATAATA
67975 TTTATA
1 TTTATA
67981 TTAATTTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 15 0.39
20 15 0.39
21 1 0.03
22 7 0.18
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAAGTTTTTATAATA
Found at i:67978 original size:20 final size:20
Alignment explanation
Indices: 67924--67980 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
67914 TTTTTATAAG
*
67924 TTTTTATAATATTTATAAGTT
1 TTTTTATAA-ATTTATAACTT
* **
67945 TTTATGAT-TTTTTATAACTT
1 TTT-TTATAAATTTATAACTT
67965 TTTTTATAAATTTATA
1 TTTTTATAAATTTATA
67981 TTAATTTTGT
Statistics
Matches: 27, Mismatches: 7, Indels: 5
0.69 0.18 0.13
Matches are distributed among these distances:
19 3 0.11
20 18 0.67
21 3 0.11
22 3 0.11
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTATAAATTTATAACTT
Found at i:68574 original size:65 final size:65
Alignment explanation
Indices: 68405--68574 Score: 160
Period size: 65 Copynumber: 2.6 Consensus size: 65
68395 ACTTGGTCGG
* * * * * * * *
68405 GTCACCGTACTCGTCACCAACCTGATTGGGTTGCCACACTCGTCATCTTTGTGTTCACTGGTCGA
1 GTCACCATACTCGTCAACAACCTGATCGGATTGCCACACCCGTCATCATTGTGTTCACTGATCAA
** * * ** *** *
68470 GTCACCATACTTATCAACAATCTAATCAAATTTTGACACCCGTCATCATTGTGTTTACTGATCAA
1 GTCACCATACTCGTCAACAACCTGATCGGATTGCCACACCCGTCATCATTGTGTTCACTGATCAA
* *
68535 GTCACTATACTCGTCAATAACCTGATCGGATTGCCACACC
1 GTCACCATACTCGTCAACAACCTGATCGGATTGCCACACC
68575 TGTTATCTTT
Statistics
Matches: 76, Mismatches: 29, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
65 76 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (65 bp):
GTCACCATACTCGTCAACAACCTGATCGGATTGCCACACCCGTCATCATTGTGTTCACTGATCAA
Found at i:68819 original size:41 final size:41
Alignment explanation
Indices: 68758--68840 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
68748 CACGTTCTCT
68758 ACGTTCATATTCTAACGAGCAGTATGCATTGCTTATATAAA
1 ACGTTCATATTCTAACGAGCAGTATGCATTGCTTATATAAA
*
68799 ACGTTCATATTCTAATGAGCAGTATGCATTGCTTATATAAA
1 ACGTTCATATTCTAACGAGCAGTATGCATTGCTTATATAAA
68840 A
1 A
68841 TAATTATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (41 bp):
ACGTTCATATTCTAACGAGCAGTATGCATTGCTTATATAAA
Found at i:71150 original size:21 final size:20
Alignment explanation
Indices: 71126--71190 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 20
71116 GTAAAAACGT
71126 ATAAAAAATAACATTCAAACA
1 ATAAAAAATAACA-TCAAACA
71147 AT-AAAAATAACAATCAAAACA
1 ATAAAAAATAAC-ATC-AAACA
* *
71168 ACAGCAAAAATAACAGCAAACA
1 ATA--AAAAATAACATCAAACA
71190 A
1 A
71191 AATTAAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 11 0.30
21 9 0.24
22 6 0.16
23 2 0.05
24 9 0.24
ACGTcount: A:0.68, C:0.17, G:0.03, T:0.12
Consensus pattern (20 bp):
ATAAAAAATAACATCAAACA
Found at i:71192 original size:15 final size:16
Alignment explanation
Indices: 71172--71221 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 16
71162 AAAACAACAG
71172 CAAAAATAACAGCAAA
1 CAAAAATAACAGCAAA
*
71188 CAAAATTAAAAACAGC-AA
1 C-AAA--AATAACAGCAAA
71206 CAAAAATAACAGCAAA
1 CAAAAATAACAGCAAA
71222 AACAGCAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 8 0.29
16 3 0.11
17 6 0.21
18 3 0.11
19 8 0.29
ACGTcount: A:0.68, C:0.18, G:0.06, T:0.08
Consensus pattern (16 bp):
CAAAAATAACAGCAAA
Found at i:71246 original size:11 final size:12
Alignment explanation
Indices: 71143--71270 Score: 66
Period size: 12 Copynumber: 10.8 Consensus size: 12
71133 ATAACATTCA
*
71143 AACAATAAAAAT
1 AACAACAAAAAT
*
71155 AACAATC-AAAAC
1 AACAA-CAAAAAT
*
71167 AACAGCAAAAAT
1 AACAACAAAAAT
* *
71179 AACAGCAAACA-
1 AACAACAAAAAT
** *
71190 AA-ATTAAAAAC
1 AACAACAAAAAT
*
71201 AGCAACAAAAAT
1 AACAACAAAAAT
* *
71213 AACAGCAAAAAC
1 AACAACAAAAAT
* *
71225 AGCAATAAAAAT
1 AACAACAAAAAT
*
71237 AACAACAAAAAC
1 AACAACAAAAAT
**
71249 AAC-ATGAAAAT
1 AACAACAAAAAT
71260 AACAACTAAAA
1 AACAAC-AAAA
71271 CAATAAAAAA
Statistics
Matches: 83, Mismatches: 27, Indels: 11
0.69 0.22 0.09
Matches are distributed among these distances:
10 5 0.06
11 12 0.14
12 63 0.76
13 3 0.04
ACGTcount: A:0.69, C:0.17, G:0.05, T:0.09
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:71273 original size:23 final size:24
Alignment explanation
Indices: 71195--71362 Score: 98
Period size: 24 Copynumber: 7.5 Consensus size: 24
71185 AAACAAAATT
* * *
71195 AAAAACAGCAACAAAAATAACAGC
1 AAAAACAACAATAAAAATAACAAC
*
71219 AAAAACAGCAATAAAAATAACAAC
1 AAAAACAACAATAAAAATAACAAC
*
71243 AAAAACAAC-ATGAAAATAACAAC
1 AAAAACAACAATAAAAATAACAAC
*
71266 --TAA-AACAAT-AAAA-AA-AAC
1 AAAAACAACAATAAAAATAACAAC
**
71284 ACCAA-AACAATAAAAA-AAC-AC
1 AAAAACAACAATAAAAATAACAAC
*
71305 -AAAA-AACAAT-AAAA-AACAGC
1 AAAAACAACAATAAAAATAACAAC
*
71325 AACCAA-AACAATAAAAA-AACAAC
1 AA-AAACAACAATAAAAATAACAAC
*
71348 ACGAAAACAATAATA
1 A--AAAACAACAATA
71363 TAATTTTTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.03
19 9 0.08
20 24 0.20
21 13 0.11
22 8 0.07
23 23 0.19
24 32 0.27
25 7 0.06
ACGTcount: A:0.71, C:0.18, G:0.04, T:0.07
Consensus pattern (24 bp):
AAAAACAACAATAAAAATAACAAC
Found at i:71278 original size:20 final size:20
Alignment explanation
Indices: 71227--71360 Score: 128
Period size: 20 Copynumber: 6.3 Consensus size: 20
71217 GCAAAAACAG
71227 CAATAAAAATAACAACAAAAA
1 CAATAAAAA-AACAACAAAAA
* *
71248 CAACATGAAAATAACAACTAAAA
1 C-A-AT-AAAAAAACAACAAAAA
*
71271 CAATAAAAAAA-ACACCAAAA
1 CAATAAAAAAACA-ACAAAAA
71291 CAATAAAAAAAC-ACAAAAAA
1 CAATAAAAAAACAAC-AAAAA
*
71311 CAATAAAAAACAGCAACCAAAA
1 CAATAAAAAA-A-CAACAAAAA
71333 CAATAAAAAAACAACACGAAAA
1 CAATAAAAAAACAACA--AAAA
71355 CAATAA
1 CAATAA
71361 TATAATTTTT
Statistics
Matches: 95, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.03
20 41 0.43
21 5 0.05
22 27 0.28
23 15 0.16
24 4 0.04
ACGTcount: A:0.72, C:0.18, G:0.02, T:0.07
Consensus pattern (20 bp):
CAATAAAAAAACAACAAAAA
Found at i:71300 original size:22 final size:21
Alignment explanation
Indices: 71267--71360 Score: 111
Period size: 22 Copynumber: 4.5 Consensus size: 21
71257 AATAACAACT
71267 AAAACAAT-AAAAAAAACACC
1 AAAACAATAAAAAAAAACACC
* *
71287 AAAACAATAAAAAAACACA-A
1 AAAACAATAAAAAAAAACACC
* *
71307 AAAACAATAAAAAACAGCAACC
1 AAAACAATAAAAAAAAAC-ACC
*
71329 AAAACAATAAAAAAACAACACG
1 AAAACAATAAAAAAA-AACACC
71351 AAAACAATAA
1 AAAACAATAA
71361 TATAATTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 23 0.38
21 10 0.16
22 26 0.43
23 2 0.03
ACGTcount: A:0.74, C:0.18, G:0.02, T:0.05
Consensus pattern (21 bp):
AAAACAATAAAAAAAAACACC
Found at i:71301 original size:11 final size:11
Alignment explanation
Indices: 71287--71360 Score: 55
Period size: 11 Copynumber: 6.9 Consensus size: 11
71277 AAAAAACACC
71287 AAAACAATAAA
1 AAAACAATAAA
*
71298 AAAAC-A-CAA
1 AAAACAATAAA
71307 AAAACAAT-AA
1 AAAACAATAAA
** *
71317 AAAACAGCAACC
1 AAAACAATAA-A
71329 AAAACAATAAA
1 AAAACAATAAA
* **
71340 AAAACAACACG
1 AAAACAATAAA
71351 AAAACAATAA
1 AAAACAATAA
71361 TATAATTTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
9 7 0.15
10 10 0.21
11 22 0.47
12 8 0.17
ACGTcount: A:0.74, C:0.18, G:0.03, T:0.05
Consensus pattern (11 bp):
AAAACAATAAA
Found at i:71307 original size:62 final size:66
Alignment explanation
Indices: 71227--71360 Score: 170
Period size: 64 Copynumber: 2.1 Consensus size: 66
71217 GCAAAAACAG
* * *
71227 CAATAAAAATAACAAC-AAAAACAACATGAAAATAACAACTAAAACAAT-AAAAAA-AACACCAA
1 CAATAAAAATAACAACAAAAAACAACA-AAAAACAACAACCAAAACAATAAAAAAACAACACCAA
71289 AA
65 AA
* * *
71291 CAATAAAAA-AAC-ACAAAAAACAATAAAAAACAGCAACCAAAACAATAAAAAAACAACACGAAA
1 CAATAAAAATAACAACAAAAAACAACAAAAAACAACAACCAAAACAATAAAAAAACAACACCAAA
71354 A
66 A
71355 CAATAA
1 CAATAA
71361 TATAATTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
62 19 0.31
63 18 0.30
64 24 0.39
ACGTcount: A:0.72, C:0.18, G:0.02, T:0.07
Consensus pattern (66 bp):
CAATAAAAATAACAACAAAAAACAACAAAAAACAACAACCAAAACAATAAAAAAACAACACCAAA
A
Found at i:71339 original size:42 final size:42
Alignment explanation
Indices: 71267--71360 Score: 138
Period size: 42 Copynumber: 2.2 Consensus size: 42
71257 AATAACAACT
71267 AAAACAATAAAAAAAACACCAAAACAATAAAAAAAC-ACA-A
1 AAAACAATAAAAAAAACACCAAAACAATAAAAAAACAACACA
* *
71307 AAAACAATAAAAAACAGCAACCAAAACAATAAAAAAACAACACG
1 AAAACAATAAAAAA-AAC-ACCAAAACAATAAAAAAACAACACA
71351 AAAACAATAA
1 AAAACAATAA
71361 TATAATTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
40 14 0.29
41 2 0.04
42 19 0.40
43 3 0.06
44 10 0.21
ACGTcount: A:0.74, C:0.18, G:0.02, T:0.05
Consensus pattern (42 bp):
AAAACAATAAAAAAAACACCAAAACAATAAAAAAACAACACA
Found at i:72775 original size:10 final size:9
Alignment explanation
Indices: 72762--72822 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
72752 ATTTATATAC
72762 TTATATATTT
1 TTATA-ATTT
72772 TTATAAGTTT
1 TTATAA-TTT
*
72782 TTAAAATTT
1 TTATAATTT
*
72791 ATATAATCTT
1 TTATAAT-TT
72801 TTATAATTT
1 TTATAATTT
*
72810 TTAATAAATT
1 TT-ATAATTT
72820 TTA
1 TTA
72823 AGTGCTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 14 0.33
10 29 0.67
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (9 bp):
TTATAATTT
Found at i:73110 original size:16 final size:16
Alignment explanation
Indices: 73086--73116 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73076 TGTTTTTTAA
73086 TTTAATTTATTATTTG
1 TTTAATTTATTATTTG
*
73102 TTTATTTTATTATTT
1 TTTAATTTATTATTT
73117 TTCACATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTAATTTATTATTTG
Found at i:91796 original size:23 final size:22
Alignment explanation
Indices: 91748--91798 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
91738 ATTGTATCGA
**
91748 ATTTGTATCATTATATATTTTTT
1 ATTT-TATCATTATATATTTGAT
*
91771 ATTTTATCATTGATTTATTTGAT
1 ATTTTATCATT-ATATATTTGAT
91794 ATTTT
1 ATTTT
91799 CTCCACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (22 bp):
ATTTTATCATTATATATTTGAT
Found at i:94054 original size:27 final size:27
Alignment explanation
Indices: 94009--94100 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
93999 ACAAGAGGTA
*
94009 GTGCCTATCTGACAGGCGGCACCAAAG
1 GTGCCTATCTGACAGGCGGCACTAAAG
* * **
94036 GTGCCTATCTAACATGCGGCACTAGTG
1 GTGCCTATCTGACAGGCGGCACTAAAG
* * *
94063 GTGCCTACCTGCCAGGCGGCACTAAAA
1 GTGCCTATCTGACAGGCGGCACTAAAG
94090 GTGCCTATCTG
1 GTGCCTATCTG
94101 GCAAGCTACA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (27 bp):
GTGCCTATCTGACAGGCGGCACTAAAG
Found at i:94341 original size:20 final size:21
Alignment explanation
Indices: 94288--94343 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 21
94278 AAATATTTTT
94288 TATAAGAATTGTAGAAAATAATAA
1 TATAA-AATTG-A-AAAATAATAA
94312 TATAAAATTGAAAAATAA-AA
1 TATAAAATTGAAAAATAATAA
94332 T-TAAATATTGAA
1 TATAAA-ATTGAA
94344 TAAGACTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.13
20 9 0.29
21 7 0.23
22 1 0.03
23 5 0.16
24 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
TATAAAATTGAAAAATAATAA
Found at i:97535 original size:26 final size:26
Alignment explanation
Indices: 97486--97535 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
97476 TCTGTTTAAT
**
97486 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
97512 TTTGAATTTATTTAATGAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
97536 GCAAATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:100521 original size:17 final size:17
Alignment explanation
Indices: 100501--100534 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100491 TTTTACATGA
*
100501 TTAAATAATATTTAAAT
1 TTAAATAACATTTAAAT
100518 TTAAATAACATTTAAAT
1 TTAAATAACATTTAAAT
100535 GAATTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAACATTTAAAT
Found at i:102197 original size:24 final size:23
Alignment explanation
Indices: 102170--102216 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
102160 CCCGGCCCGA
*
102170 ATTTATAATAATATTTTTATTTTT
1 ATTTATAATAATAATTTT-TTTTT
* *
102194 ATTTTTAATACTAATTTTTTTTT
1 ATTTATAATAATAATTTTTTTTT
102217 CTTGTAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTATAATAATAATTTTTTTTT
Found at i:102260 original size:14 final size:14
Alignment explanation
Indices: 102241--102268 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
102231 GAATTGAAAT
102241 ATAAAAAAAATAAA
1 ATAAAAAAAATAAA
102255 ATAAAAAAAATAAA
1 ATAAAAAAAATAAA
102269 TTCTAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
ATAAAAAAAATAAA
Found at i:110756 original size:20 final size:19
Alignment explanation
Indices: 110733--110787 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
110723 AAAAAGACAA
110733 AAAATAATTTTAAAAAATTC
1 AAAATAATTTT-AAAAATTC
* *
110753 AAAATTATTTTTAAAATTC
1 AAAATAATTTTAAAAATTC
*
110772 AAAA-AA-TATAAAAATT
1 AAAATAATTTTAAAAATT
110788 TATATTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 8 0.27
18 1 0.03
19 11 0.37
20 10 0.33
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTC
Found at i:110777 original size:21 final size:22
Alignment explanation
Indices: 110730--110779 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
110720 AACAAAAAGA
110730 CAAAAAATAATTTTAAAAAATT
1 CAAAAAATAATTTTAAAAAATT
* *
110752 C--AAAATTATTTT-TAAAATT
1 CAAAAAATAATTTTAAAAAATT
110771 CAAAAAATA
1 CAAAAAATA
110780 TAAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 7 0.30
20 10 0.43
21 5 0.22
22 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (22 bp):
CAAAAAATAATTTTAAAAAATT
Found at i:118851 original size:14 final size:14
Alignment explanation
Indices: 118832--118858 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
118822 GTATACGACG
118832 AGAAGAAGAACAGA
1 AGAAGAAGAACAGA
118846 AGAAGAAGAACAG
1 AGAAGAAGAACAG
118859 GCTGCCTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.30, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAACAGA
Found at i:123039 original size:7 final size:7
Alignment explanation
Indices: 123006--123032 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
122996 TAATCAACCT
123006 TTTTTTC
1 TTTTTTC
123013 TTTTTTC
1 TTTTTTC
123020 TTTTTTC
1 TTTTTTC
123027 TTTTTT
1 TTTTTT
123033 TCATTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:132935 original size:30 final size:31
Alignment explanation
Indices: 132876--132960 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 31
132866 TCAAAAAAAA
* *
132876 TTATCAACTTTCAAG-GATCTCAAA-ATTTTT
1 TTATCAACTTTTAAGAGACCT-AAATATTTTT
*
132906 TTATCAACTTTTAAGAGACCTAAATTTTTTT
1 TTATCAACTTTTAAGAGACCTAAATATTTTT
* * * *
132937 TTTTCAATTTTTAATAAACCTAAA
1 TTATCAACTTTTAAGAGACCTAAA
132961 ACCTCATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
30 17 0.37
31 29 0.63
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (31 bp):
TTATCAACTTTTAAGAGACCTAAATATTTTT
Found at i:138607 original size:28 final size:28
Alignment explanation
Indices: 138565--138735 Score: 168
Period size: 28 Copynumber: 6.1 Consensus size: 28
138555 GTGTTTATCC
* * *
138565 TTTTCCAATAGAAGAAAGACAAATCAGA
1 TTTTTCAATAAAAGAATGACAAATCAGA
*
138593 TTTTTCAATAAAAGAATGATAAATCA-A
1 TTTTTCAATAAAAGAATGACAAATCAGA
** ** *
138620 AATTTCTAATAGGAGAATGAAAAATCAGA
1 TTTTTC-AATAAAAGAATGACAAATCAGA
**
138649 TTTTTCAATAGGA-AATGACAAATCAGA
1 TTTTTCAATAAAAGAATGACAAATCAGA
* *
138676 TTTTCCAATAGAAA-AATGACAAATCAAA
1 TTTTTCAATA-AAAGAATGACAAATCAGA
* *
138704 CTTTTCAATAAGAGAATGACAAATCAGA
1 TTTTTCAATAAAAGAATGACAAATCAGA
138732 TTTT
1 TTTT
138736 CCACTTGATT
Statistics
Matches: 118, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
27 29 0.25
28 84 0.71
29 5 0.04
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (28 bp):
TTTTTCAATAAAAGAATGACAAATCAGA
Found at i:138647 original size:56 final size:56
Alignment explanation
Indices: 138566--138738 Score: 213
Period size: 56 Copynumber: 3.1 Consensus size: 56
138556 TGTTTATCCT
* * *
138566 TTTCCAATAGAAGAAAGACAAATCAGATTTTTCAATAAAAGAATGATAAATCAAAA
1 TTTCCAATAGAAGAATGACAAATCAGATTTTTCAATAAGAGAATGACAAATCAAAA
* * * * * *
138622 TTTCTAATAGGAGAATGAAAAATCAGATTTTTCAATAGGA-AATGACAAATCAGAT
1 TTTCCAATAGAAGAATGACAAATCAGATTTTTCAATAAGAGAATGACAAATCAAAA
* * * * *
138677 TTTCCAATAGAAAAATGACAAATCAAACTTTTCAATAAGAGAATGACAAATCAGAT
1 TTTCCAATAGAAGAATGACAAATCAGATTTTTCAATAAGAGAATGACAAATCAAAA
138733 TTTCCA
1 TTTCCA
138739 CTTGATTTTC
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
55 45 0.45
56 55 0.55
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (56 bp):
TTTCCAATAGAAGAATGACAAATCAGATTTTTCAATAAGAGAATGACAAATCAAAA
Found at i:138674 original size:83 final size:82
Alignment explanation
Indices: 138578--138735 Score: 230
Period size: 83 Copynumber: 1.9 Consensus size: 82
138568 TCCAATAGAA
* * *
138578 GAAAGACAAATCAGATTTTTCAATA-AAAGAATGATAAATCAAAA-TTTCTAATAGGAGAATGAA
1 GAAAGACAAATCAGATTTTCCAATAGAAA-AATGACAAATCAAAATTTTC-AATAAGAGAATGAA
138641 AAATCAGATTTTTCAATAG
64 AAATCAGATTTTTCAATAG
* *
138660 GAAATGACAAATCAGATTTTCCAATAGAAAAATGACAAATCAAACTTTTCAATAAGAGAATGACA
1 GAAA-GACAAATCAGATTTTCCAATAGAAAAATGACAAATCAAAATTTTCAATAAGAGAATGAAA
138725 AATCAGATTTT
65 AATCAGATTTT
138736 CCACTTGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
82 4 0.06
83 57 0.84
84 7 0.10
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (82 bp):
GAAAGACAAATCAGATTTTCCAATAGAAAAATGACAAATCAAAATTTTCAATAAGAGAATGAAAA
ATCAGATTTTTCAATAG
Found at i:140280 original size:9 final size:9
Alignment explanation
Indices: 140261--140294 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
140251 ATAAAAGAAT
140261 AAAGAAAAGA
1 AAAG-AAAGA
140271 AAAGAAAGA
1 AAAGAAAGA
*
140280 AAAGAAATA
1 AAAGAAAGA
140289 AAAGAA
1 AAAGAA
140295 GGAAGAACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:140292 original size:14 final size:14
Alignment explanation
Indices: 140253--140294 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
140243 TATATGATAT
140253 AAAAG-AAT-AAAG
1 AAAAGAAATAAAAG
140265 AAAAGAAA-AGAAAG
1 AAAAGAAATA-AAAG
140279 AAAAGAAATAAAAG
1 AAAAGAAATAAAAG
140293 AA
1 AA
140295 GGAAGAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.19
13 2 0.08
14 18 0.69
15 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (14 bp):
AAAAGAAATAAAAG
Found at i:140759 original size:18 final size:17
Alignment explanation
Indices: 140729--140762 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
140719 TAAATGAGTT
*
140729 AATTAGGATTAAATTGA
1 AATTAGGAATAAATTGA
140746 AATTAAGGAATAAATTG
1 AATT-AGGAATAAATTG
140763 GATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
AATTAGGAATAAATTGA
Found at i:153486 original size:33 final size:33
Alignment explanation
Indices: 153449--153538 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
153439 CGGGACCCCG
* * * *
153449 ATTTCCAGGTATTCTAATTCTTGTTGGATCTCT
1 ATTTCCAGGTATTCTAATTCCTGTAGGAGCTCC
153482 ATTTCCAGGTATTCTAATTCCTGTAGGAGCTCC
1 ATTTCCAGGTATTCTAATTCCTGTAGGAGCTCC
153515 ATTTCCAGGTATTCTAATTCCTGT
1 ATTTCCAGGTATTCTAATTCCTGT
153539 GGCTGTAGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (33 bp):
ATTTCCAGGTATTCTAATTCCTGTAGGAGCTCC
Found at i:158582 original size:20 final size:20
Alignment explanation
Indices: 158557--158601 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
158547 TAAATCTACA
* *
158557 AAATTTATCGATTTAGGGCT
1 AAATTTATCGAATTAGAGCT
*
158577 AAATTTATTGAATTAGAGCT
1 AAATTTATCGAATTAGAGCT
158597 AAATT
1 AAATT
158602 GACATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (20 bp):
AAATTTATCGAATTAGAGCT
Found at i:159877 original size:12 final size:11
Alignment explanation
Indices: 159856--159882 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
159846 GGTTGTTCAA
159856 TTTTTCTTTTT
1 TTTTTCTTTTT
159867 TTTTTCTTTTT
1 TTTTTCTTTTT
159878 TTTTT
1 TTTTT
159883 GAAGTCTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:168017 original size:20 final size:20
Alignment explanation
Indices: 167992--168031 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
167982 CTAAGTACTG
167992 ACCACAGAAGAAAAAACAAT
1 ACCACAGAAGAAAAAACAAT
168012 ACCACAGAAGAAAAAACAAT
1 ACCACAGAAGAAAAAACAAT
168032 CTCCAGTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.20, G:0.10, T:0.05
Consensus pattern (20 bp):
ACCACAGAAGAAAAAACAAT
Found at i:170615 original size:19 final size:20
Alignment explanation
Indices: 170578--170624 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
170568 AAAAACAAAA
170578 TATTTTTACACATTCATAAT
1 TATTTTTACACATTCATAAT
170598 TATTTTTACATCA-T-ATAAT
1 TATTTTTACA-CATTCATAAT
*
170617 TATATTTA
1 TATTTTTA
170625 TAATATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 12 0.48
20 11 0.44
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTTTACACATTCATAAT
Found at i:170622 original size:21 final size:21
Alignment explanation
Indices: 170577--170623 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
170567 TAAAAACAAA
170577 ATATTTTTACACATTCATAAT
1 ATATTTTTACACATTCATAAT
170598 -TATTTTTACATCA-T-ATAATT
1 ATATTTTTACA-CATTCATAA-T
170618 ATATTT
1 ATATTT
170624 ATAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 4 0.17
20 12 0.52
21 7 0.30
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTTTTACACATTCATAAT
Found at i:174833 original size:15 final size:14
Alignment explanation
Indices: 174793--174840 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
174783 CGATGTCTCT
174793 AATATTTATAAAAA
1 AATATTTATAAAAA
**
174807 AA-ATTTCCAAAAGA
1 AATATTTATAAAA-A
174821 AATATTTATAAAAA
1 AATATTTATAAAAA
174835 AA-ATTT
1 AATATTT
174841 CTTTGTCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 8 0.29
15 8 0.29
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (14 bp):
AATATTTATAAAAA
Found at i:175410 original size:33 final size:32
Alignment explanation
Indices: 175344--175426 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 32
175334 ACAACTAAGT
* *
175344 TCCTAGACGTATTTT-TATTTGTTCAATTTAG
1 TCCTAGATGTATTTTCTATTTGTTAAATTTAG
175375 TCCTAGATGTATTTTCTGATTT-TTAAAATTTAG
1 TCCTAGATGTATTTTCT-ATTTGTT-AAATTTAG
* *
175408 TCCTTGGATGTGTTTTCTA
1 TCC-TAGATGTATTTTCTA
175427 ATTTACTCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
31 14 0.32
32 3 0.07
33 15 0.34
34 12 0.27
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (32 bp):
TCCTAGATGTATTTTCTATTTGTTAAATTTAG
Found at i:178657 original size:6 final size:6
Alignment explanation
Indices: 178646--178687 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
178636 GTTTCTACCA
178646 CCCATT CCCATT CCCATT CCCATT CCCATT CCCATT CCCATT
1 CCCATT CCCATT CCCATT CCCATT CCCATT CCCATT CCCATT
178688 ATTTACTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.50, G:0.00, T:0.33
Consensus pattern (6 bp):
CCCATT
Found at i:181329 original size:212 final size:213
Alignment explanation
Indices: 180961--181375 Score: 737
Period size: 212 Copynumber: 2.0 Consensus size: 213
180951 GGCTGGCCCA
*
180961 AAGGTGTTTGATATATTTTTCTTCTATTTGTAATCATTCAGAGGAAGCTTCTGTTTTGGAGTTAG
1 AAGGTGTCTGATATATTTTTCTTCTATTTGTAATCATTCAGAGGAAGCTTCTGTTTTGGAGTTAG
* *
181026 GCCATGATAATGGCATAGTATTTCATGGTCAATACATTTCATACACTCATGGTTGTTTGTTATGC
66 GCCATGATAATGGCATAGTATTTCATGGTCAATACATTTCATACACTCATGCTTATTTGTTATGC
181091 TTAGCATTGAGATGCCTAGGAAGATTCCTCTGTTCACCTTATTCCAATAAAAAAAAGTTTAGTAA
131 TTAGCATTGAGATGCCTAGGAAGATTCCTCTGTTCACCTTATTCCAATAAAAAAAAGTTTAGTAA
181156 TCGAAGTACAAATAAACC
196 TCGAAGTACAAATAAACC
*
181174 AAGGTGTCTGATATATGTATTT-TTCTATTTGTAATCATTCAGATGAAGCTTCTG-TTTGGAGTT
1 AAGGTGTCTGATATAT-T-TTTCTTCTATTTGTAATCATTCAGAGGAAGCTTCTGTTTTGGAGTT
181237 AGGCCATGATAATGGCATAGTA-TTCATGGTCAATACATTTCATACACTCATGCTTATTTGTTAT
64 AGGCCATGATAATGGCATAGTATTTCATGGTCAATACATTTCATACACTCATGCTTATTTGTTAT
*
181301 GCTTAGCATTGAGATGCCTAGGAAGATTCCTCTGTTCACCTTATTCTAATAAAAAAAAGTTTAGT
129 GCTTAGCATTGAGATGCCTAGGAAGATTCCTCTGTTCACCTTATTCCAATAAAAAAAAGTTTAGT
*
181366 AATCTAAGTA
194 AATCGAAGTA
181376 TCTAATTGGG
Statistics
Matches: 194, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
212 113 0.58
213 46 0.24
214 32 0.16
215 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (213 bp):
AAGGTGTCTGATATATTTTTCTTCTATTTGTAATCATTCAGAGGAAGCTTCTGTTTTGGAGTTAG
GCCATGATAATGGCATAGTATTTCATGGTCAATACATTTCATACACTCATGCTTATTTGTTATGC
TTAGCATTGAGATGCCTAGGAAGATTCCTCTGTTCACCTTATTCCAATAAAAAAAAGTTTAGTAA
TCGAAGTACAAATAAACC
Found at i:190205 original size:30 final size:28
Alignment explanation
Indices: 190147--190218 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
190137 TAGAGAAACT
* *
190147 AAATTCTAAAAAATATATATAAACTTAA
1 AAATTCTAAAAAATATAAAGAAACTTAA
*
190175 AAATTCTAAAGAATATATAAAGAAAGTT-A
1 AAATTCTAAA-AA-ATATAAAGAAACTTAA
*
190204 AAATT-TGAAAAATAT
1 AAATTCTAAAAAATAT
190219 TCTAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 2 0.05
28 13 0.34
29 8 0.21
30 11 0.29
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (28 bp):
AAATTCTAAAAAATATAAAGAAACTTAA
Found at i:190440 original size:15 final size:15
Alignment explanation
Indices: 190407--190461 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
190397 AATTTTTTTT
* *
190407 AATTTAACTCAA-AC
1 AATTTCACTCAATTC
190421 AATTTCACTCAATTC
1 AATTTCACTCAATTC
*
190436 AATTTGACTCGAATTTC
1 AATTTCACTC-AA-TTC
190453 -ATTTCACTC
1 AATTTCACTC
190462 GACATTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 11 0.32
15 10 0.29
16 10 0.29
17 3 0.09
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (15 bp):
AATTTCACTCAATTC
Found at i:190944 original size:31 final size:32
Alignment explanation
Indices: 190908--190969 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
190898 ATGATTGAAA
*
190908 TAATATATATTTTTATAA-TTTTATA-AAATAT
1 TAATATA-ATTTTTATAACTTATATATAAATAT
190939 TAATATAATTTTTATAACTTATATATAAATA
1 TAATATAATTTTTATAACTTATATATAAATA
190970 ATATTTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 10 0.36
31 13 0.46
32 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
TAATATAATTTTTATAACTTATATATAAATAT
Found at i:190971 original size:29 final size:29
Alignment explanation
Indices: 190905--190973 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
190895 TTTATGATTG
*
190905 AAATAATATATATTTTTATAATTTTATAA
1 AAATAATATATATTTTTATAATTATATAA
*
190934 AATATTAATATA-ATTTTTATAACTTATATAT
1 AA-A-TAATATATATTTTTATAA-TTATATAA
190965 AAATAATAT
1 AAATAATAT
190974 TTGAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.23
30 12 0.34
31 15 0.43
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
AAATAATATATATTTTTATAATTATATAA
Found at i:196537 original size:6 final size:6
Alignment explanation
Indices: 196526--196553 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
196516 TGATGTTTTT
196526 ATATAA ATATAA ATATAA ATATAA ATAT
1 ATATAA ATATAA ATATAA ATATAA ATAT
196554 TTGTTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:198287 original size:18 final size:18
Alignment explanation
Indices: 198258--198292 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
198248 TTTTAATAAA
198258 AATTTAAAAAATGAAAAAT
1 AATTTAAAAAAT-AAAAAT
198277 AATTT-AAAAATAAAAA
1 AATTTAAAAAATAAAAA
198293 GAATGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATTTAAAAAATAAAAAT
Found at i:204083 original size:6 final size:6
Alignment explanation
Indices: 204074--204138 Score: 64
Period size: 6 Copynumber: 11.2 Consensus size: 6
204064 TTAAATTTGT
* **
204074 TTTAAA TTTAAA TTT-AA TTTAAG TTTAAA TTTATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
204121 ATT--A TTATAAA TTTAAA T
1 TTTAAA TT-TAAA TTTAAA T
204139 AAATAAAAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
4 2 0.04
5 6 0.13
6 36 0.77
7 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:204084 original size:34 final size:35
Alignment explanation
Indices: 204046--204126 Score: 119
Period size: 34 Copynumber: 2.3 Consensus size: 35
204036 CCAAACCCAT
204046 TTTAAATTTATTTTAAGATTAAATTT-GTTTTAAA
1 TTTAAATTTATTTTAAGATTAAATTTAGTTTTAAA
* * *
204080 TTTAAATTTAATTTAAGTTTAAATTTATTTTTAAA
1 TTTAAATTTATTTTAAGATTAAATTTAGTTTTAAA
*
204115 TTTAAAATTATT
1 TTTAAATTTATT
204127 ATAAATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 24 0.59
35 17 0.41
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (35 bp):
TTTAAATTTATTTTAAGATTAAATTTAGTTTTAAA
Found at i:204092 original size:11 final size:11
Alignment explanation
Indices: 204064--204119 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
204054 TATTTTAAGA
**
204064 TTAAATTTGTT
1 TTAAATTTAAT
204075 TTAAATTTAAAT
1 TTAAATTT-AAT
204087 TT-AATTTAAGT
1 TTAAATTTAA-T
*
204098 TTAAATTTATTT
1 TTAAATTTA-AT
204110 TTAAATTTAA
1 TTAAATTTAA
204120 AATTATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 2 0.05
11 16 0.43
12 19 0.51
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:204133 original size:17 final size:16
Alignment explanation
Indices: 204046--204138 Score: 89
Period size: 17 Copynumber: 5.4 Consensus size: 16
204036 CCAAACCCAT
204046 TTTAAATTTATTTTAAGA
1 TTTAAATTTA-TTTAA-A
*
204064 -TTAAATTTGTTTTAAA
1 TTTAAATTT-ATTTAAA
*
204080 TTTAAATTTAATTTAAG
1 TTTAAATTT-ATTTAAA
204097 TTTAAATTTATTTTTAAA
1 TTTAAATTTA--TTTAAA
*
204115 TTTAAAATTATTATAAA
1 TTTAAATTTATT-TAAA
204132 TTTAAAT
1 TTTAAAT
204139 AAATAAAAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
16 4 0.06
17 45 0.71
18 14 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:210148 original size:49 final size:49
Alignment explanation
Indices: 210085--210638 Score: 413
Period size: 49 Copynumber: 11.3 Consensus size: 49
210075 CGAAATATGG
* * * *
210085 AGGGAAAAGGTTTAAGTCGCAACGGTGAGCCTTGTACCTCAGAGACATGA
1 AGGG-AAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGACATGA
* * * ** * * *
210135 AAGGAAAGATTTAAGCCGCAATGATGAATCC-AGTACCAC-GAAGATACGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCTCAG-AGACATGA
* * *
210184 AGGGAAAGGTTTAAGTCGCAACGGGGAACCTTGTACCTCAGA-AGCATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGA-CATGA
* * * *
210233 AGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCAC-GAAGATACGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCTCAG-AGACATGA
* * * *
210282 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGA-AGTATGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGA-CATGA
* * * * *
210331 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCAC-GA-AAATACAA
1 AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGACAT--GA
* * *
210380 AGGGAAAGATTTAAGTCGTAATGGCGAAACCTTGTACCTCAGA-AGCATGA
1 AGGGAAAGATTTAAGTCGCAACGGCG-AACCTAGTACCTCAGAGA-CATGA
* * * *
210430 AGGGAAAGATTTAAGTTGCAACGGCGAATCC-AGTACCACAAAGACACGA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCTCAGAGACATGA
210479 AGGGTAAA-ATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGACATGA
1 AGGG-AAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGACATGA
* * * * * *
210528 AGGAAAAGATTTAAGCCGCAATGACGAATCC-AGTA-CTGCAAAGACA-CA
1 AGGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCT-CAGAGACATGA
* * * *
210576 AGGGGAAAGGTTTAAGTTGCAATGACGAACCTTA-TACCTCAGA-AGCATGA
1 A-GGGAAAGATTTAAGTCGCAACGGCGAACC-TAGTACCTCAGAGA-CATGA
*
210626 AAGGAAA-ATTTAA
1 AGGGAAAGATTTAA
210639 ACCGTAACTG
Statistics
Matches: 401, Mismatches: 74, Indels: 60
0.75 0.14 0.11
Matches are distributed among these distances:
47 2 0.00
48 28 0.07
49 309 0.77
50 57 0.14
51 3 0.01
52 2 0.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (49 bp):
AGGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGACATGA
Found at i:210207 original size:98 final size:98
Alignment explanation
Indices: 210068--210662 Score: 709
Period size: 98 Copynumber: 6.1 Consensus size: 98
210058 TACAGGTCTT
* * * * *
210068 AGTACCGCGAA-ATATGGAGGGAAAAGGTTTAAGTCGCAACGGTGAGCCTTGTACCTCAG-AGAC
1 AGTACCACGAAGATACGAAGGG-AAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG-C
* **
210131 ATGAAAGGAAAGATTTAAGCCGCAATGATGAATCC
64 ATGAAAGGAAAGATTTAAGCCGCAACGGCGAATCC
*
210166 AGTACCACGAAGATACGAAGGGAAAGGTTTAAGTCGCAACGGGGAACCTTGTACCTCAGAAGCAT
1 AGTACCACGAAGATACGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCAT
*
210231 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCC
66 GAAAGGAAAGATTTAAGCCGCAACGGCGAATCC
* *
210264 AGTACCACGAAGATACGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAAGTAT
1 AGTACCACGAAGATACGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCAT
* *
210329 GAAGGGAAAGATTTAAGCCGCAACGGCGAATCT
66 GAAAGGAAAGATTTAAGCCGCAACGGCGAATCC
* * * * *
210362 AGTACCACGAAAATACAAAGGGAAAGATTTAAGTCGTAATGGCGAAACCTTGTACCTCAGAAGCA
1 AGTACCACGAAGATACGAAGGGAAAGGTTTAAGTCGCAACGGCG-AACCTTGTACCTCAGAAGCA
* **
210427 TGAAGGGAAAGATTTAAGTTGCAACGGCGAATCC
65 TGAAAGGAAAGATTTAAGCCGCAACGGCGAATCC
* * * *
210461 AGTACCACAAAGACACGAAGGGTAAA-ATTTAAGTCGCAACGGCGAACCTAGTACCTCAG-AGAC
1 AGTACCACGAAGATACGAAGGG-AAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG-C
* *
210524 ATG-AAGGAAAAGATTTAAGCCGCAATGACGAATCC
64 ATGAAAGG-AAAGATTTAAGCCGCAACGGCGAATCC
** * * * * * *
210559 AGTACTGCAAAGACAC-AAGGGGAAAGGTTTAAGTTGCAATGACGAACCTTATACCTCAGAAGCA
1 AGTACCACGAAGATACGAA-GGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCA
* * * **
210623 TGAAAGGAAA-ATTTAAACCGTAACTGCGAATTT
65 TGAAAGGAAAGATTTAAGCCGCAACGGCGAATCC
210656 AGTACCA
1 AGTACCA
210663 TGTGGATTGA
Statistics
Matches: 435, Mismatches: 52, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
97 31 0.07
98 302 0.69
99 99 0.23
100 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (98 bp):
AGTACCACGAAGATACGAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCAT
GAAAGGAAAGATTTAAGCCGCAACGGCGAATCC
Found at i:211044 original size:17 final size:17
Alignment explanation
Indices: 211021--211078 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
211011 CCAAACTCAT
211021 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
211039 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
* *
211055 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
211072 TTTAAAT
1 TTTAAAT
211079 AAATAAAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 1 0.03
17 33 0.97
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:211807 original size:11 final size:10
Alignment explanation
Indices: 211791--211839 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
211781 TCAAACACGC
211791 ATTAAATACAT
1 ATTAAATA-AT
211802 ATTAAAT-AT
1 ATTAAATAAT
211811 ATTAAATAAT
1 ATTAAATAAT
*
211821 -TTTAATAAT
1 ATTAAATAAT
*
211830 AAT-AATAAT
1 ATTAAATAAT
211839 A
1 A
211840 GTGTCATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 24 0.71
10 3 0.09
11 7 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTAAATAAT
Found at i:213060 original size:29 final size:28
Alignment explanation
Indices: 212996--213360 Score: 281
Period size: 29 Copynumber: 12.4 Consensus size: 28
212986 CAAAAATCAT
* *
212996 ATTTTAACCCTTAAACTTTTCCAAAATTCC
1 ATTTTTACCC-TAAA-TTTTCAAAAATTCC
*
213026 ATTTTTTACCTTAAATTTTCTAAAAATTCC
1 A-TTTTTACCCTAAATTTTC-AAAAATTCC
* **
213056 ATTTTAACCCTAAATTTTCCAAAAATTAG
1 ATTTTTACCCTAAATTTT-CAAAAATTCC
* * *
213085 ATTTTTACCACCAAACTTTCCAAAATTCC
1 ATTTTTACC-CTAAATTTTCAAAAATTCC
* * *
213114 ATTTTTTACCCTCGAA-CTTCACATAAATTAC
1 A-TTTTTACCCT-AAATTTTCA-A-AAATTCC
* *
213145 ATTTTTACCCTTAAACTTTCTAAAATTCC
1 ATTTTTACCC-TAAATTTTCAAAAATTCC
*
213174 ATTTTTAACCCTAAATTTTCCAAAAATTAC
1 ATTTTT-ACCCTAAATTTT-CAAAAATTCC
* *
213204 A-TTTTACCCTCAAACTTTCCAAAATTCC
1 ATTTTTACCCT-AAATTTTCAAAAATTCC
*
213232 ATTTTTGA-CCTCAAATTTTCCAAAAATTAC
1 ATTTTT-ACCCT-AAATTTT-CAAAAATTCC
* * * *
213262 ATTTTTACCCTAAAATTTCTAAAAGTAC
1 ATTTTTACCCTAAATTTTCAAAAATTCC
213290 ATTTTTATCCCTAAATTTTCCAAAAATTACC
1 ATTTTTA-CCCTAAATTTT-CAAAAATT-CC
*
213321 A-TATTACCCCTAAATGTTT-AAAAATTCC
1 ATTTTTA-CCCTAAAT-TTTCAAAAATTCC
213349 ATTTTTAACCCT
1 ATTTTT-ACCCT
213361 CAAACTCTCC
Statistics
Matches: 271, Mismatches: 41, Indels: 47
0.75 0.11 0.13
Matches are distributed among these distances:
28 32 0.12
29 121 0.45
30 95 0.35
31 23 0.08
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.40
Consensus pattern (28 bp):
ATTTTTACCCTAAATTTTCAAAAATTCC
Found at i:213110 original size:58 final size:58
Alignment explanation
Indices: 212977--213389 Score: 394
Period size: 58 Copynumber: 7.0 Consensus size: 58
212967 TAAAGGTCCT
* * * *
212977 TAAACTATCCAAAAAT-CATATTTTAACCCTTAAACTTTTCC-AAAATTCCATTTTTTACCT
1 TAAACTTTCCAAAATTCCAT-TTTTAACCC-TAAA-TTTTCCAAAAATTACA-TTTTTACCC
* * *
213037 TAAATTTTCTAAAAATTCCA-TTTTAACCCTAAATTTTCCAAAAATTAGATTTTTACCAC
1 TAAACTTTC-CAAAATTCCATTTTTAACCCTAAATTTTCCAAAAATTACATTTTTACC-C
* * * * *
213096 CAAACTTTCCAAAATTCCATTTTTTACCCTCGAA-CTTCACATAAATTACATTTTTACCC
1 TAAACTTTCCAAAATTCCATTTTTAACCCT-AAATTTTC-CAAAAATTACATTTTTACCC
*
213155 TTAAACTTTCTAAAATTCCATTTTTAACCCTAAATTTTCCAAAAATTACA-TTTTACCC
1 -TAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTTCCAAAAATTACATTTTTACCC
*
213213 TCAAACTTTCCAAAATTCCATTTTTGA-CCTCAAATTTTCCAAAAATTACATTTTTACCC
1 T-AAACTTTCCAAAATTCCATTTTTAACCCT-AAATTTTCCAAAAATTACATTTTTACCC
* * * * * *
213272 TAAAATTTCTAAAAGTACATTTTTATCCCTAAATTTTCCAAAAATTACCA-TATTACCCC
1 TAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTTCCAAAAATTA-CATTTTTA-CCC
** * * *
213331 TAAA-TGTTTAAAAATTCCATTTTTAACCCTCAAACTCTCCAAAATTTACCA-TTTTACCC
1 TAAACT-TTCCAAAATTCCATTTTTAACCCT-AAATTTTCCAAAAATTA-CATTTTTACCC
213390 CCGAATATCT
Statistics
Matches: 297, Mismatches: 39, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
57 4 0.01
58 114 0.38
59 86 0.29
60 86 0.29
61 5 0.02
62 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (58 bp):
TAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTTCCAAAAATTACATTTTTACCC
Found at i:218413 original size:21 final size:21
Alignment explanation
Indices: 218372--218413 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
218362 AAATTATTTA
* *
218372 GAAATTATAAAAAAGATATCC
1 GAAATGATAAAAAAGACATCC
218393 GAAATGATAAAAGAA-ACATCC
1 GAAATGATAAAA-AAGACATCC
218414 AGAATAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.19
Consensus pattern (21 bp):
GAAATGATAAAAAAGACATCC
Found at i:235533 original size:23 final size:24
Alignment explanation
Indices: 235503--235567 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
235493 TTAATGTTCA
*
235503 CGAACATGTTCATCTAAC-T-TAAT
1 CGAACATGTTCAT-GAACATATAAT
*
235526 CGAACATGTCCATGAACATATAAT
1 CGAACATGTTCATGAACATATAAT
235550 CGAACATGTTCATGAACA
1 CGAACATGTTCATGAACA
235568 ATGTTAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.08
23 13 0.35
24 21 0.57
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (24 bp):
CGAACATGTTCATGAACATATAAT
Found at i:237246 original size:11 final size:11
Alignment explanation
Indices: 237232--237279 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
237222 ATTAAAAAAT
*
237232 AACATCCAAAC
1 AACAACCAAAC
*
237243 AACAA-CAAAA
1 AACAACCAAAC
237253 AACAACCAAAAC
1 AACAACC-AAAC
*
237265 AACAACAAAAC
1 AACAACCAAAC
237276 AACA
1 AACA
237280 TTAAAAACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 9 0.29
11 13 0.42
12 9 0.29
ACGTcount: A:0.69, C:0.29, G:0.00, T:0.02
Consensus pattern (11 bp):
AACAACCAAAC
Found at i:237285 original size:11 final size:12
Alignment explanation
Indices: 237239--237396 Score: 93
Period size: 12 Copynumber: 13.8 Consensus size: 12
237229 AATAACATCC
237239 AAACAACAAC-A
1 AAACAACAACAA
*
237250 AAA-AACAACCA
1 AAACAACAACAA
237261 AAACAACAAC-A
1 AAACAACAACAA
**
237272 AAACAAC-A-TT
1 AAACAACAACAA
237282 AAA-AACAACAA
1 AAACAACAACAA
* *
237293 AAATAGCAACAA
1 AAACAACAACAA
*
237305 AAATAACATA-AA
1 AAACAACA-ACAA
*
237317 AAACAAC-ACGA
1 AAACAACAACAA
*
237328 AAACAACAACCA
1 AAACAACAACAA
** *
237340 AAACAGTAAGAA
1 AAACAACAACAA
237352 AAACAAC-ACAA
1 AAACAACAACAA
*
237363 AAACAAGAA-AA
1 AAACAACAACAA
* *
237374 AAAAAACAGCACCA
1 AAACAACA--ACAA
237388 AAACAACAA
1 AAACAACAA
237397 TATAATTTTT
Statistics
Matches: 114, Mismatches: 20, Indels: 25
0.72 0.13 0.16
Matches are distributed among these distances:
9 3 0.03
10 12 0.11
11 43 0.38
12 46 0.40
13 2 0.02
14 8 0.07
ACGTcount: A:0.71, C:0.22, G:0.04, T:0.04
Consensus pattern (12 bp):
AAACAACAACAA
Found at i:237335 original size:32 final size:31
Alignment explanation
Indices: 237249--237376 Score: 116
Period size: 32 Copynumber: 3.9 Consensus size: 31
237239 AAACAACAAC
*
237249 AAAAAACAAC-CAAAACAACAACAAAACAACAT
1 AAAAAACAACAC-AAA-AACAACAAAAAAACAT
*
237281 TAAAAACAACA-AAAATAGCAACAAAAATAACAT
1 AAAAAACAACACAAAA-A-CAACAAAAA-AACAT
* *
237314 AAAAAACAACACGAAAACAACAACCAAAACAGT
1 AAAAAACAACACAAAAACAACAA-AAAAACA-T
*
237347 AAGAAAAACAACACAAAAACAAGAAAAAAA
1 -A-AAAAACAACACAAAAACAACAAAAAAA
237377 AAACAGCACC
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
30 1 0.01
31 4 0.05
32 27 0.34
33 19 0.24
34 8 0.10
35 20 0.25
ACGTcount: A:0.72, C:0.20, G:0.04, T:0.05
Consensus pattern (31 bp):
AAAAAACAACACAAAAACAACAAAAAAACAT
Found at i:237376 original size:23 final size:23
Alignment explanation
Indices: 237327--237392 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
237317 AAACAACACG
* *
237327 AAAACAACAACCAAAACAGTAAGA
1 AAAACAAC-ACAAAAACAGTAAAA
*
237351 AAAACAACACAAAAACAAGAAAAAA
1 AAAACAACACAAAAAC-AG-TAAAA
* *
237376 AAAACAGCACCAAAACA
1 AAAACAACACAAAAACA
237393 ACAATATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 7 0.20
24 11 0.31
25 17 0.49
ACGTcount: A:0.71, C:0.21, G:0.06, T:0.02
Consensus pattern (23 bp):
AAAACAACACAAAAACAGTAAAA
Found at i:242178 original size:18 final size:20
Alignment explanation
Indices: 242145--242181 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
242135 ATGATTTTTT
242145 AATAATATTCAATTGAACCA
1 AATAATATTCAATTGAACCA
242165 AATAA-ATT-AATTGAACC
1 AATAATATTCAATTGAACC
242182 GAAACAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (20 bp):
AATAATATTCAATTGAACCA
Found at i:248133 original size:12 final size:12
Alignment explanation
Indices: 248116--248140 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
248106 TTTTAGGCAT
248116 GCCCCAGTTTTG
1 GCCCCAGTTTTG
248128 GCCCCAGTTTTG
1 GCCCCAGTTTTG
248140 G
1 G
248141 ATAATAAACT
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:0.08, C:0.32, G:0.28, T:0.32
Consensus pattern (12 bp):
GCCCCAGTTTTG
Found at i:250560 original size:20 final size:19
Alignment explanation
Indices: 250537--250574 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
250527 TTATACAAAT
250537 ATATTATATATGATTAATAA
1 ATATTATATATGA-TAATAA
250557 ATATTATATATGATAATA
1 ATATTATATATGATAATA
250575 TGATTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATATTATATATGATAATAA
Found at i:250580 original size:18 final size:18
Alignment explanation
Indices: 250534--250580 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
250524 ATTTTATACA
250534 AATATATTATATATGATT
1 AATATATTATATATGATT
250552 AATAAATATTATATATGA-T
1 AAT--ATATTATATATGATT
250571 AATATGATTA
1 AATAT-ATTA
250581 ATTTTCATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 7 0.27
19 4 0.15
20 13 0.50
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (18 bp):
AATATATTATATATGATT
Found at i:251893 original size:41 final size:41
Alignment explanation
Indices: 251848--251927 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
251838 GGAGGATATA
* * *
251848 TGATAAGTATCCTTCATATATTGGTCCTAAGTTCCTTGGCT
1 TGATAAGCATCCTTCATACATTGGTCCAAAGTTCCTTGGCT
*
251889 TGATAGGCATCCTTCATACATTGGTCCAAAGTTCCTTGG
1 TGATAAGCATCCTTCATACATTGGTCCAAAGTTCCTTGG
251928 TTGTACTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (41 bp):
TGATAAGCATCCTTCATACATTGGTCCAAAGTTCCTTGGCT
Found at i:270741 original size:24 final size:26
Alignment explanation
Indices: 270685--270743 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
270675 AAAGAATTTG
* *
270685 GAGTTAAGTGAAATGAAATTCGAATC
1 GAGTTAAATCAAATGAAATTCGAATC
*
270711 GAGTTAAATCAAATGAAATT-G-TTC
1 GAGTTAAATCAAATGAAATTCGAATC
270735 GAGTTAAAT
1 GAGTTAAAT
270744 TTATAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 11 0.37
25 1 0.03
26 18 0.60
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (26 bp):
GAGTTAAATCAAATGAAATTCGAATC
Found at i:270963 original size:21 final size:20
Alignment explanation
Indices: 270936--270993 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
270926 AAAAAAAATT
270936 AATTTTT-TAACTTTTTTTATA
1 AATTTTTATAA-TTTTTTTA-A
* *
270957 TATTTTTAGAATTTTTTTTAA
1 AATTTTTATAA-TTTTTTTAA
270978 AATTTTTATAATTTTT
1 AATTTTTATAATTTTT
270994 AAAAAATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 5 0.16
21 16 0.52
22 10 0.32
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
AATTTTTATAATTTTTTTAA
Found at i:274355 original size:95 final size:95
Alignment explanation
Indices: 274192--274387 Score: 365
Period size: 95 Copynumber: 2.1 Consensus size: 95
274182 ATATTGCACA
*
274192 CTGCAAACTGCAAACTGCAAAGCATAATCTTTGGTAAAATCCGAATTGAAGATCAATTCAAAGCT
1 CTGCAAACTGCAAACTGCAAAGCATAATCTTTGCTAAAATCCGAATTGAAGATCAATTCAAAGCT
274257 TAGCAATTATCCCGTTTTGGATAGGCTTTG
66 TAGCAATTATCCCGTTTTGGATAGGCTTTG
* *
274287 TTGCACACTGCAAACTGCAAAGCATAATCTTTGCTAAAATCCGAATTGAAGATCAATTCAAAGCT
1 CTGCAAACTGCAAACTGCAAAGCATAATCTTTGCTAAAATCCGAATTGAAGATCAATTCAAAGCT
274352 TAGCAATTATCCCGTTTTGGATAGGCTTTG
66 TAGCAATTATCCCGTTTTGGATAGGCTTTG
274382 CTGCAA
1 CTGCAA
274388 TGTCATTGTC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (95 bp):
CTGCAAACTGCAAACTGCAAAGCATAATCTTTGCTAAAATCCGAATTGAAGATCAATTCAAAGCT
TAGCAATTATCCCGTTTTGGATAGGCTTTG
Found at i:283251 original size:38 final size:38
Alignment explanation
Indices: 283208--283286 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
283198 TAAAATCATA
283208 TAATAATTTTATATTTCAAAAAAATAA-TATAATAATTT
1 TAATAATTTTATATTTC-AAAAAATAATTATAATAATTT
*
283246 TAATAATTTTATATTTCAAAAAATAATTTTAATAATTT
1 TAATAATTTTATATTTCAAAAAATAATTATAATAATTT
283284 TAA
1 TAA
283287 AATCATTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 9 0.23
38 30 0.77
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (38 bp):
TAATAATTTTATATTTCAAAAAATAATTATAATAATTT
Found at i:283270 original size:20 final size:20
Alignment explanation
Indices: 283209--283276 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
283199 AAAATCATAT
283209 AATAATTTTATATTTCAAAAA
1 AATAATTTTATATTTC-AAAA
* * *
283230 AATAATATAATAATTT----T
1 AATAATTTTAT-ATTTCAAAA
283247 AATAATTTTATATTTCAAAA
1 AATAATTTTATATTTCAAAA
283267 AATAATTTTA
1 AATAATTTTA
283277 ATAATTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
16 4 0.11
17 9 0.25
20 10 0.28
21 9 0.25
22 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATTTTATATTTCAAAA
Found at i:283288 original size:20 final size:20
Alignment explanation
Indices: 283228--283294 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
283218 ATATTTCAAA
*
283228 AAAATAA-TATAATAATTTT
1 AAAATAATTTTAATAATTTT
*
283247 --AATAATTTT-AT-ATTTCAA
1 AAAATAATTTTAATAATTT--T
283265 AAAATAATTTTAATAATTTT
1 AAAATAATTTTAATAATTTT
*
283285 AAAATCATTT
1 AAAATAATTT
283295 ATTGATGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
16 4 0.11
17 7 0.19
18 2 0.05
20 18 0.49
21 2 0.05
22 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAATAATTTTAATAATTTT
Found at i:284443 original size:18 final size:17
Alignment explanation
Indices: 284420--284454 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
284410 GAATAAATTT
284420 TTAATTAAATAATTTTAA
1 TTAATTAAA-AATTTTAA
284438 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
284455 ATCCTAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:289801 original size:14 final size:15
Alignment explanation
Indices: 289774--289803 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
289764 TAAAATTTTA
289774 TAAATTATAAAAAAT
1 TAAATTATAAAAAAT
289789 TAAATTA-AAAAAAT
1 TAAATTATAAAAAAT
289803 T
1 T
289804 CATTTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATTATAAAAAAT
Found at i:292906 original size:23 final size:24
Alignment explanation
Indices: 292880--292940 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
292870 TTATCTGCCT
292880 TTGTGACATGCTTTTTC-TCTAAC
1 TTGTGACATGCTTTTTCTTCTAAC
* **
292903 TTGTGACACGC-TTTTCTTCTGCC
1 TTGTGACATGCTTTTTCTTCTAAC
*
292926 TTGTGACATACTTTT
1 TTGTGACATGCTTTT
292941 GCTTTATGGC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 5 0.16
23 23 0.74
24 3 0.10
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.48
Consensus pattern (24 bp):
TTGTGACATGCTTTTTCTTCTAAC
Found at i:300155 original size:18 final size:17
Alignment explanation
Indices: 300132--300192 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
300122 TTCAACTCAT
300132 TTTAAATTTATTCTAAAA
1 TTTAAATTTATT-TAAAA
* *
300150 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTAAAA
*
300167 TTTAAATTTAAATTATAAA
1 TTTAAATTT-ATTTA-AAA
300186 TTTAAAT
1 TTTAAAT
300193 AAGTCCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 12 0.33
18 15 0.42
19 9 0.25
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTAAAA
Found at i:300172 original size:17 final size:18
Alignment explanation
Indices: 300132--300176 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
300122 TTCAACTCAT
300132 TTTAAATTTATTCTAAAA
1 TTTAAATTTATTCTAAAA
* *
300150 TTTAAATTTATT-TTAAG
1 TTTAAATTTATTCTAAAA
300167 TTTAAATTTA
1 TTTAAATTTA
300177 AATTATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTAAATTTATTCTAAAA
Done.