Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007974.1 Hibiscus syriacus cultivar Beakdansim tig00110411_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: 198168
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:9574 original size:82 final size:82
Alignment explanation
Indices: 9453--9627 Score: 264
Period size: 82 Copynumber: 2.1 Consensus size: 82
9443 ATTTAACATT
* *
9453 TTGCGGCGTTTATACAAAAAACGCCACTATTGATTACACTATTCTGGCGTTTGT-TAAAAAACGC
1 TTGCGGCGTTTATACAAAAAACGCCACTATTGATTACACTATTATGGCGTTTGTCT-AAAAACAC
9517 CACTATTGATTATCACTA
65 CACTATTGATTATCACTA
* * *
9535 TTGCGGCGTTT-TTCTAAAAACGCCATTATTGATTAACACTATTATGGCGTTTGTCTAAAAACAC
1 TTGCGGCGTTTATACAAAAAACGCCACTATTGATT-ACACTATTATGGCGTTTGTCTAAAAACAC
9599 CACTATTGATTATCACTA
65 CACTATTGATTATCACTA
*
9617 TTGCGGTGTTT
1 TTGCGGCGTTT
9628 GAGGAATAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
81 20 0.24
82 64 0.75
83 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (82 bp):
TTGCGGCGTTTATACAAAAAACGCCACTATTGATTACACTATTATGGCGTTTGTCTAAAAACACC
ACTATTGATTATCACTA
Found at i:9628 original size:41 final size:41
Alignment explanation
Indices: 9453--9628 Score: 223
Period size: 41 Copynumber: 4.3 Consensus size: 41
9443 ATTTAACATT
* *
9453 TTGCGGCGTTTATACAAAAAACGCCACTATTGATTA-CACTA
1 TTGCGGCGTTTGT-CTAAAAACGCCACTATTGATTATCACTA
9494 TT-CTGGCGTTTGT-TAAAAAACGCCACTATTGATTATCACTA
1 TTGC-GGCGTTTGTCT-AAAAACGCCACTATTGATTATCACTA
* * *
9535 TTGCGGCGTTTTTCTAAAAACGCCATTATTGATTAACACTA
1 TTGCGGCGTTTGTCTAAAAACGCCACTATTGATTATCACTA
** *
9576 TTATGGCGTTTGTCTAAAAACACCACTATTGATTATCACTA
1 TTGCGGCGTTTGTCTAAAAACGCCACTATTGATTATCACTA
*
9617 TTGCGGTGTTTG
1 TTGCGGCGTTTG
9629 AGGAATAAAC
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
40 21 0.18
41 93 0.80
42 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (41 bp):
TTGCGGCGTTTGTCTAAAAACGCCACTATTGATTATCACTA
Found at i:9703 original size:42 final size:42
Alignment explanation
Indices: 9657--9852 Score: 159
Period size: 42 Copynumber: 4.7 Consensus size: 42
9647 ATGTGTAATA
* *
9657 TATTGCGGCGTTTGTGGTATAAACGCCACGAATTTACCACTC
1 TATTGCGGCGTTTGTGGTATAAACGCCGCAAATTTACCACTC
* * *
9699 TATTGCGGCGTTT-TGGCT-CAATCGCCGCAAAATTTA-TACTC
1 TATTGCGGCGTTTGTGG-TATAAACGCCGC-AAATTTACCACTC
* *
9740 TATTGTGGCGTTTGTGGTATAAACGCCGCTAATTTACCAGC-C
1 TATTGCGGCGTTTGTGGTATAAACGCCGCAAATTTACCA-CTC
* * * * * * *
9782 TATTGCGGCATTTTTTGTAAAAACGCCGCTATATGT-CAACTC
1 TATTGCGGCGTTTGTGGTATAAACGCCGC-AAATTTACCACTC
* ** *
9824 TATTGCAGCGTTTGTACTAAAAACGCCGC
1 TATTGCGGCGTTTGTGGTATAAACGCCGC
9853 TAAAGTATCA
Statistics
Matches: 122, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
41 34 0.28
42 84 0.69
43 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (42 bp):
TATTGCGGCGTTTGTGGTATAAACGCCGCAAATTTACCACTC
Found at i:10971 original size:30 final size:29
Alignment explanation
Indices: 10918--10990 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 29
10908 TTTATGTTAA
*
10918 TTCGGTCATTTTTTAAGCCTAATAATATT
1 TTCGGTCATTTTTTAAGCATAATAATATT
10947 TTCGGTCATTTTTT-AGCGTATAATAATATT
1 TTCGGTCATTTTTTAAGC--ATAATAATATT
10977 TTCGGTCATTTTTT
1 TTCGGTCATTTTTT
10991 GAAACTCCGG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 3 0.07
29 14 0.34
30 24 0.59
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.52
Consensus pattern (29 bp):
TTCGGTCATTTTTTAAGCATAATAATATT
Found at i:12401 original size:17 final size:14
Alignment explanation
Indices: 12365--12393 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12355 TAATTCAATG
12365 AAGTATTATTTTCA
1 AAGTATTATTTTCA
12379 AAGTATTATTTTCA
1 AAGTATTATTTTCA
12393 A
1 A
12394 CATGGTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
AAGTATTATTTTCA
Found at i:13193 original size:177 final size:183
Alignment explanation
Indices: 12877--13259 Score: 618
Period size: 177 Copynumber: 2.1 Consensus size: 183
12867 AATTTTCTAA
* * *
12877 TTTATATAA-AAATTAAATATTTTTTAATTTAAAAAACAGTTTCTAATTAATTTAAATATATATA
1 TTTATATAATATATTTAATATTTTTTAATTTAAAAAACAGTTTATAATTAATTTAAATATATATA
* *
12941 ATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATACAAAATATTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
13006 TTAGATCTTAAATTATTAATTGAGTTTTAAATGATTTAGGCTGAGCCCATATG
131 TTAGATCTTAAATTATTAATTGAGTTTTAAATGATTTAGGCTGAGCCCATATG
13059 -TTATATAATATATTTAATATTTTTTAATTT-AAAAA-AGTTTATAATTAATTT-AA-ATATATA
1 TTTATATAATATATTTAATATTTTTTAATTTAAAAAACAGTTTATAATTAATTTAAATATATATA
*
13119 ATTATAAAATAAAAATTTTATACAAAA-ATTTAATTAATTCATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATACAAAATATTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* * *
13183 TTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATG
131 TTAGATCTTAAATTATTAATTGAGTTTTAAATGATTTAGGCTGAGCCCATATG
*
13236 TTATATATAATATATTTAAAATTT
1 TT-TATATAATATATTTAATATTT
13260 AAAATTTAAT
Statistics
Matches: 188, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
177 85 0.45
178 34 0.18
179 22 0.12
180 15 0.08
181 13 0.07
182 19 0.10
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (183 bp):
TTTATATAATATATTTAATATTTTTTAATTTAAAAAACAGTTTATAATTAATTTAAATATATATA
ATTATAAAATAAAAATTTTATACAAAATATTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
TTAGATCTTAAATTATTAATTGAGTTTTAAATGATTTAGGCTGAGCCCATATG
Found at i:16268 original size:31 final size:31
Alignment explanation
Indices: 16227--16285 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
16217 TTTTGCTCAA
16227 TTATCGTTTTATTAAGTTTCGGTCACTTACG
1 TTATCGTTTTATTAAGTTTCGGTCACTTACG
* * *
16258 TTATCTTTTTATTTAGTTTTGGTCACTT
1 TTATCGTTTTATTAAGTTTCGGTCACTT
16286 GGAAATGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.56
Consensus pattern (31 bp):
TTATCGTTTTATTAAGTTTCGGTCACTTACG
Found at i:17137 original size:31 final size:31
Alignment explanation
Indices: 17096--17169 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
17086 ATTAACCTTT
* *
17096 AGTGATCAAATCTTAATTAAAACGAAACGTA
1 AGTGACCAAATCTTAATTAAAACGAAACGAA
* *
17127 AGTGACCAAATCTTAATTAAAACTAAATGAA
1 AGTGACCAAATCTTAATTAAAACGAAACGAA
*
17158 AGTGGCCAAATC
1 AGTGACCAAATC
17170 GTTTGTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.24
Consensus pattern (31 bp):
AGTGACCAAATCTTAATTAAAACGAAACGAA
Found at i:18408 original size:27 final size:27
Alignment explanation
Indices: 18368--18423 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
18358 AGGATGAATC
18368 GTTAATGACCGATGAAATAAATTTATT
1 GTTAATGACCGATGAAATAAATTTATT
*
18395 GTTAATGACTGATGAAATAAATTTATT
1 GTTAATGACCGATGAAATAAATTTATT
18422 GT
1 GT
18424 CATGAACACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (27 bp):
GTTAATGACCGATGAAATAAATTTATT
Found at i:19647 original size:32 final size:32
Alignment explanation
Indices: 19592--19656 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
19582 TAAAGCGATA
* *
19592 ACATATTATGTATCAAATTACCTAAAATGATG
1 ACATAGTATGTATCAAATAACCTAAAATGATG
** *
19624 ACATAGTATGTATCATGTAACCTAAAGTGATG
1 ACATAGTATGTATCAAATAACCTAAAATGATG
19656 A
1 A
19657 TATGTTATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (32 bp):
ACATAGTATGTATCAAATAACCTAAAATGATG
Found at i:36487 original size:25 final size:27
Alignment explanation
Indices: 36439--36489 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
36429 AAAAATTAAT
* *
36439 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
36466 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
36490 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:37700 original size:84 final size:85
Alignment explanation
Indices: 37582--37737 Score: 215
Period size: 84 Copynumber: 1.8 Consensus size: 85
37572 AATTTTATTG
* * * *
37582 ACAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGATGTG-CCTTAAAGCTGAGCATAGTCG
1 ACAGATAACCCTTCTAGCCTTAAGCTATACTGTAAATGATGTGCCCTCAAAGCTGAGCATAATCG
37646 AACTCGAAGGTCTTTTGGTA
66 AACTCGAAGGTCTTTTGGTA
* ** * **
37666 ACAGATAACCCTTCTAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 ACAGATAACCCTTCTAGCCTTAAGCTATACTGTAAATGATGTGCCCTCAAAGCTGAGCATAATCG
37731 AACTCGA
66 AACTCGA
37738 GGGTTTGGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 38 0.62
85 23 0.38
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (85 bp):
ACAGATAACCCTTCTAGCCTTAAGCTATACTGTAAATGATGTGCCCTCAAAGCTGAGCATAATCG
AACTCGAAGGTCTTTTGGTA
Found at i:37819 original size:33 final size:34
Alignment explanation
Indices: 37745--37829 Score: 127
Period size: 36 Copynumber: 2.5 Consensus size: 34
37735 CGAGGGTTTG
*
37745 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGG--TTTTTTT
*
37781 ATGTTTCAAGAGAAACAATTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
37814 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
37830 TGTATTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 21 0.46
36 25 0.54
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:37929 original size:34 final size:35
Alignment explanation
Indices: 37856--37939 Score: 116
Period size: 36 Copynumber: 2.4 Consensus size: 35
37846 AGTTTCAAGG
** * *
37856 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAA-TACTTCCAAAA
37892 GAAACTGTCTCAAGAGAGACAAAA-ACTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAATACTTCCAAAA
37926 GAAACTGTCTCAAG
1 GAAACTGTCTCAAG
37940 GGTGATGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 20 0.45
36 24 0.55
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (35 bp):
GAAACTGTCTCAAGAGAGACAAAATACTTCCAAAA
Found at i:38006 original size:30 final size:30
Alignment explanation
Indices: 37970--38028 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
37960 GTAAAACATA
37970 TTCAAAGATTT-TGTTTCAA-AGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGA-GAAACTGTT
38000 TTCAAAGTTTATGTTTCAAGAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
38029 CTCAAGGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 3 0.11
30 23 0.85
31 1 0.04
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:38170 original size:37 final size:37
Alignment explanation
Indices: 38112--38516 Score: 138
Period size: 37 Copynumber: 11.9 Consensus size: 37
38102 TCAATGTTTA
* *
38112 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
38149 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
** * * * * * *
38185 CATCTCAAGGGAAA-TGTTTTAA-A-TG------TTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* * *
38213 ATGTTTCAAGAGAAACTATCTCAAAAGAGAAAAAACTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* * * * * * *
38251 AGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
38287 TGTTTCAAGGGAAACAGAT-TC-A-A-AG-----ATTT
1 TGTTTCAAGAGAAAC-TATCTCAAGAGAGACAAAATTT
38316 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
** * *
38352 CATTTCAAGAGAAA-TATTTTC-A-A-TG------TTT
1 TGTTTCAAGAGAAACTA-TCTCAAGAGAGACAAAATTT
*
38380 ATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* * * * * *
38418 AGTTCCAAAAGAAAATATCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
*
38454 TGTTTCAATG-GAAACAGAT-TC-A-A-AG-----ATTT
1 TGTTTCAA-GAGAAAC-TATCTCAAGAGAGACAAAATTT
38483 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA
38517 CTCATTTCAA
Statistics
Matches: 258, Mismatches: 62, Indels: 96
0.62 0.15 0.23
Matches are distributed among these distances:
28 11 0.04
29 60 0.23
30 10 0.04
31 4 0.02
32 6 0.02
33 6 0.02
34 2 0.01
35 10 0.04
36 57 0.22
37 88 0.34
38 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:38195 original size:102 final size:103
Alignment explanation
Indices: 37983--38365 Score: 438
Period size: 102 Copynumber: 3.8 Consensus size: 103
37973 AAAGATTTTG
* * *
37983 TTTCAAAGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
1 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* * * *
38047 TGTTTCAAGTGAAACTATCTCATGAGTGATAAAATTCA
66 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCA
* * *
38085 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
38149 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCA
66 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCA
* * * *
38187 TCTCAAGGGAAA-TGTTTT-AAATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGAAAAAACT
1 TTTCAAGGGAAACTGTTTTCAAA-GTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * * * * * * **
38250 TAGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAATTTG
65 TTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCA
* *
38289 TTTCAAGGGAAACAG-ATTCAAAGATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-T
1 TTTCAAGGGAAACTGTTTTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
**
38351 TCATTTCAAGAGAAA
65 TTGTTTCAAGAGAAA
38366 TATTTTCAAT
Statistics
Matches: 242, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
101 62 0.26
102 173 0.71
103 7 0.03
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (103 bp):
TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:38318 original size:167 final size:167
Alignment explanation
Indices: 38141--38665 Score: 872
Period size: 167 Copynumber: 3.1 Consensus size: 167
38131 TCAAGGGAGA
* * *
38141 CAAA-ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCATCTCAAGGGAAATGTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
* * *
38205 AAATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGAAAAAACTTAGTTCCAAAAGAAAATGTC
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
*
38270 TCAAGGGAGACGAAATTTGTTTCAAGGGAAACAGATT
131 TCAAGGGAGACGAAATTTGTTTCAATGGAAACAGATT
* *
38307 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAATATTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
*
38372 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATC
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
38437 TCAAGGGAGACGAAATTTGTTTCAATGGAAACAGATT
131 TCAAGGGAGACGAAATTTGTTTCAATGGAAACAGATT
*
38474 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTT
1 CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
* * *
38539 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATGTC
66 CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
* *
38604 TCAAGGGAGACGAAATTAGTTTCAATGAAAACAGATT
131 TCAAGGGAGACGAAATTTGTTTCAATGGAAACAGATT
* * *
38641 TAAATATTTTGTTTCAAGGGAAACT
1 CAAAGATTTTGTTTCAAGAGAAACT
38666 TGGAAACTGT
Statistics
Matches: 336, Mismatches: 22, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
166 4 0.01
167 332 0.99
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (167 bp):
CAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
CAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATGTC
TCAAGGGAGACGAAATTTGTTTCAATGGAAACAGATT
Found at i:38374 original size:65 final size:65
Alignment explanation
Indices: 38268--38414 Score: 197
Period size: 65 Copynumber: 2.3 Consensus size: 65
38258 AAAGAAAATG
* * ** *
38268 TCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAAGATTT-TGTTTCAAGAGAAACT
1 TCTCAAGAGAGACAAAATTCATTTCAAGAGAAACAGATTCAAAG-TTTATGTTTCAAGAGAAACT
38332 A
65 A
* ** *
38333 TCTCAAGAGAGACAAAATTCATTTCAAGAGAAATATTTTCAATGTTTATGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATTCATTTCAAGAGAAACAGATTCAAAGTTTATGTTTCAAGAGAAACTA
38398 TCTCAAGAGAGACAAAA
1 TCTCAAGAGAGACAAAA
38415 CTTAGTTCCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 3 0.04
65 69 0.96
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (65 bp):
TCTCAAGAGAGACAAAATTCATTTCAAGAGAAACAGATTCAAAGTTTATGTTTCAAGAGAAACTA
Found at i:38431 original size:102 final size:102
Alignment explanation
Indices: 38325--38518 Score: 275
Period size: 102 Copynumber: 1.9 Consensus size: 102
38315 TTGTTTCAAG
* * ** *
38325 AGAAACTATCTCAAGAGAGACAAAATTCATTTCAA-GAGAAATATTTTCAATG-TTTATGTTTCA
1 AGAAAATATCTCAAGAGAGACAAAATTCATTTCAATG-GAAACAGATTCAAAGATTT-TGTTTCA
38388 AGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAA
64 AGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAA
* * **
38427 AGAAAATATCTCAAGGGAGACGAAATTTGTTTCAATGGAAACAGATTCAAAGATTTTGTTTCAAG
1 AGAAAATATCTCAAGAGAGACAAAATTCATTTCAATGGAAACAGATTCAAAGATTTTGTTTCAAG
38492 AGAAACTATCTCAAGAGAGACAAAACT
66 AGAAACTATCTCAAGAGAGACAAAACT
38519 CATTTCAAGG
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 77 0.95
103 4 0.05
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (102 bp):
AGAAAATATCTCAAGAGAGACAAAATTCATTTCAATGGAAACAGATTCAAAGATTTTGTTTCAAG
AGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAA
Found at i:38532 original size:65 final size:65
Alignment explanation
Indices: 38427--38581 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 65
38417 TAGTTCCAAA
* * * ** *
38427 AGAAAATATCTCAAGGGAGACGAAATTTGTTTCAATGGAAACAG-ATTCAAAGATTT-TGTTTCA
1 AGAAACTATCTCAAGGGAGACAAAACTCATTTCAAGGGAAA-AGTATTCAAAG-TTTATGTTTCA
38490 AG
64 AG
* * * *
38492 AGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 AGAAACTATCTCAAGGGAGACAAAACTCATTTCAAGGGAAAAGTATTCAAAGTTTATGTTTCAAG
*
38557 AGAAACTGTCTCAAGGGAGACAAAA
1 AGAAACTATCTCAAGGGAGACAAAA
38582 TTTAGTTCCA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 4 0.05
65 72 0.95
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (65 bp):
AGAAACTATCTCAAGGGAGACAAAACTCATTTCAAGGGAAAAGTATTCAAAGTTTATGTTTCAAG
Found at i:38608 original size:269 final size:268
Alignment explanation
Indices: 37982--38628 Score: 679
Period size: 269 Copynumber: 2.4 Consensus size: 268
37972 CAAAGATTTT
37982 GTTTCAAAGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 GTTTCAAAGGAAA-TGTTTTC-AAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* * * * * *
38047 TGTTTCAAGTGAAACTATCTCATGAGTGATAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
64 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAATATTTTCAATGTTTA
* * * * * ** **
38112 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCTATCTCAAGAGAG
129 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGAGAG
* * *
38177 ACAAAATTCATCTCAAGGGAAATGTTTTAAATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAG
194 ACAAAATTCATCTCAAGGGAAAAGATTCAAATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAG
*
38242 AAAAAACTTA
259 AAAAAACTCA
* * * ** * ** *
38252 GTTCCAAAAGAAAATG-TCTCAAG-GGA-G----ACGA-AATTTGTTTCAAGGGAAACAGATTCA
1 GTTTC-AAAGGAAATGTTTTCAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGG----AGA--CA
38309 AAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAATATTTTCA
59 AA-A-TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAATATTTTCA
38374 ATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTC
122 ATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTC
* * ** * *
38439 AAGGGAGACGAAATTTGTTTCAATGGAAACAGATTCAAA-GATTT-TGTTTCAAGAGAAACTATC
187 AAGAGAGACAAAATTCATCTCAAGGGAAA-AGATTCAAATG-TTTATGTTTCAAGAGAAACTATC
* *
38502 TCAAGAGAGACAAAACTCA
250 TCAAAAGAGAAAAAACTCA
*
38521 -TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 GTTTCAAAGGAAATGTTTTCAA-GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * * * *
38585 AGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAATT-AGTTTCAA
65 -GTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCA-TTTCAA
38629 TGAAAACAGA
Statistics
Matches: 303, Mismatches: 52, Indels: 45
0.76 0.13 0.11
Matches are distributed among these distances:
261 12 0.04
262 3 0.01
265 3 0.01
266 1 0.00
267 13 0.04
268 16 0.05
269 209 0.69
270 20 0.07
271 8 0.03
272 3 0.01
275 3 0.01
276 12 0.04
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (268 bp):
GTTTCAAAGGAAATGTTTTCAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAATATTTTCAATGTTTATG
TTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGAGAGAC
AAAATTCATCTCAAGGGAAAAGATTCAAATGTTTATGTTTCAAGAGAAACTATCTCAAAAGAGAA
AAAACTCA
Found at i:39125 original size:106 final size:106
Alignment explanation
Indices: 38813--39135 Score: 421
Period size: 106 Copynumber: 3.0 Consensus size: 106
38803 TGTATTGTTC
* * * * * * **
38813 CGAGTCCAATTTCCTCCGTCGTGAAGTTAAAATTGGCTCTGGAACTAAGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * * * * * * * *
38878 GCTAGCCGCCCCTTTGCTGTAAAGTGGAGCTTGTGCTGTCT
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
38919 CAAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
38984 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
39025 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTCGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
39090 ACCAGTCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTTT
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
39131 CGAGT
1 CGAGT
39136 GGCACGATAT
Statistics
Matches: 188, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
106 188 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:39754 original size:32 final size:32
Alignment explanation
Indices: 39713--39825 Score: 138
Period size: 32 Copynumber: 3.5 Consensus size: 32
39703 TTTGCATCAG
* * *
39713 GATGTTGAAT-TCCCAAAGATGCCCCAATATTT
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTT
39745 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
* * * *
39777 AATGTTAAATCTAAAAAAATGTCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
39809 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
39826 GATGCCCTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
32 64 0.93
33 5 0.07
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTT
Found at i:40909 original size:13 final size:13
Alignment explanation
Indices: 40893--40941 Score: 66
Period size: 12 Copynumber: 3.9 Consensus size: 13
40883 TCCTTTGATT
40893 TTTTCTCTTTTTA
1 TTTTCTCTTTTTA
**
40906 TTTTCTC-TTTGC
1 TTTTCTCTTTTTA
40918 TTTT-TCTTTTTA
1 TTTTCTCTTTTTA
40930 TTTTCTCTTTTT
1 TTTTCTCTTTTT
40942 GTTCTTGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 2 0.07
12 14 0.47
13 14 0.47
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTCTCTTTTTA
Found at i:40930 original size:24 final size:25
Alignment explanation
Indices: 40893--40939 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
40883 TCCTTTGATT
40893 TTTTCTCTTTTTATTTTCTCTTTGC
1 TTTTCTCTTTTTATTTTCTCTTTGC
40918 TTTT-TCTTTTTATTTTCTCTTT
1 TTTTCTCTTTTTATTTTCTCTTT
40940 TTGTTCTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTCTCTTTTTATTTTCTCTTTGC
Found at i:40933 original size:11 final size:12
Alignment explanation
Indices: 40893--40940 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
40883 TCCTTTGATT
40893 TTTTCTCTTTTTA
1 TTTTCTC-TTTTA
40906 TTTTCTCTTTGCT-
1 TTTTCTCTTT--TA
40919 TTTTCT-TTTTA
1 TTTTCTCTTTTA
40930 TTTTCTCTTTT
1 TTTTCTCTTTT
40941 TGTTCTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
10 1 0.03
11 6 0.19
12 10 0.32
13 13 0.42
14 1 0.03
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTCTCTTTTA
Found at i:44334 original size:42 final size:42
Alignment explanation
Indices: 44253--44340 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
44243 ATTAAAAAAT
* * * *
44253 TAAATAAAATAAAGTAAAAATATAATATAATATATATATAAA
1 TAAATAAAATAAAATAAAAATAGAATATAAGATAAATATAAA
*
44295 TAAAT-AAATAAAAATAAAAATAGAATATTAAGA-AAATATATA
1 TAAATAAAAT-AAAATAAAAATAGAATA-TAAGATAAATATAAA
44337 TAAA
1 TAAA
44341 AACGTATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
41 4 0.10
42 31 0.79
43 4 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (42 bp):
TAAATAAAATAAAATAAAAATAGAATATAAGATAAATATAAA
Found at i:44437 original size:16 final size:16
Alignment explanation
Indices: 44418--44464 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
44408 ACATATATAT
* *
44418 ATATATATGATATAAG
1 ATATATATAATATAAA
44434 ATATATATAATA-AAA
1 ATATATATAATATAAA
44449 ATA-ATATAATATAAA
1 ATATATATAATATAAA
44464 A
1 A
44465 AAAGAGGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 8 0.29
15 9 0.32
16 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (16 bp):
ATATATATAATATAAA
Found at i:53892 original size:2 final size:2
Alignment explanation
Indices: 53879--53915 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
53869 TTTTAAGAAA
*
53879 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53916 AATAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:55621 original size:3 final size:3
Alignment explanation
Indices: 55613--55676 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
55603 AATTATTTTT
* * * * * **
55613 TAA TAA TAA TAA TAA TATA TAT TAT TAT TAT TAT TAA TTT TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
55659 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
55677 AACGAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (3 bp):
TAA
Found at i:56112 original size:76 final size:76
Alignment explanation
Indices: 55981--56184 Score: 291
Period size: 76 Copynumber: 2.7 Consensus size: 76
55971 GAGGTCTTAT
* ** * *
55981 CATCTTGCACTGTAGGTCTTACAGATGACCTGGAGGCTTTAAAAACATCAAAAAGCTCCCAAAGG
1 CATCCTGCACTGTAGGTCTTATGGATGACCCGGAGGATTTAAAAACATCAAAAAGCTCCCAAAGG
56046 CTTTTTGAAAA
66 CTTTTTGAAAA
* * * *
56057 CATCCTGCACTGTAGGTCTTATGGATGACCCGGGGGATTTAAGATCATCAAAAAGCTCCCGAAGG
1 CATCCTGCACTGTAGGTCTTATGGATGACCCGGAGGATTTAAAAACATCAAAAAGCTCCCAAAGG
56122 CTTTTTGAAAA
66 CTTTTTGAAAA
* *
56133 CATCCTGCACTGTAGGTCTTATGGATGACCCAGAGGCTTTAAGGAAACATCA
1 CATCCTGCACTGTAGGTCTTATGGATGACCCGGAGGATTTAA--AAACATCA
56185 TGCACTGTAG
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
76 106 0.95
78 6 0.05
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (76 bp):
CATCCTGCACTGTAGGTCTTATGGATGACCCGGAGGATTTAAAAACATCAAAAAGCTCCCAAAGG
CTTTTTGAAAA
Found at i:56241 original size:45 final size:45
Alignment explanation
Indices: 56129--56361 Score: 303
Period size: 45 Copynumber: 5.2 Consensus size: 45
56119 AGGCTTTTTG
* *
56129 AAAACATCCTGCACTGTAGGTCTTATGGATGACCCAGAGGCTTTA
1 AAAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTA
**
56174 AGGAAACATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTA
1 A--AAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTA
56221 AAAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTA
1 AAAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTA
* * *
56266 AAAATATCATGCACTGTAGGTCTTATGGATGGCCCTGAGG-TCTT-
1 AAAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCT-TTA
* * * **
56310 --ATCATCTTGCAATGTAGGTCTTACAGATGACCCGGAGGCTTTA
1 AAAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTA
56353 AAAACATCA
1 AAAACATCA
56362 AAAAGCTCCC
Statistics
Matches: 162, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.20
43 1 0.01
44 1 0.01
45 87 0.54
47 41 0.25
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
AAAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTA
Found at i:56347 original size:87 final size:88
Alignment explanation
Indices: 56130--56361 Score: 297
Period size: 87 Copynumber: 2.6 Consensus size: 88
56120 GGCTTTTTGA
* *
56130 AAACATCCTGCACTGTAGGTCTTATGGATGACCCAGAGGCTTTAAGGAAACATCATGCACTGTAG
1 AAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTAA--AAACATCATGCACTGTAG
56195 GTCTTACAGATGACCCGGAGGCTTT
64 GTCTTACAGATGACCCGGAGGCTTT
*
56220 AAAAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTAAAAATATCATGCACTGTAG
1 --AAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTAAAAACATCATGCACTGTAG
** * *
56285 GTCTTATGGATGGCCCTGAGG-TCTT
64 GTCTTACAGATGACCCGGAGGCT-TT
* * * **
56310 -ATCATCTTGCAATGTAGGTCTTACAGATGACCCGGAGGCTTTAAAAACATCA
1 AAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTAAAAACATCA
56362 AAAAGCTCCC
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
87 46 0.37
89 1 0.01
90 36 0.29
92 43 0.34
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (88 bp):
AAACATCATGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTAAAAACATCATGCACTGTAGGT
CTTACAGATGACCCGGAGGCTTT
Found at i:56458 original size:76 final size:76
Alignment explanation
Indices: 56312--56513 Score: 278
Period size: 76 Copynumber: 2.7 Consensus size: 76
56302 GAGGTCTTAT
* * *
56312 CATCTTGCAATGTAGGTCTTACAGATGACCCGGAGGCTTTAAAAACATCAAAAAGCTCCCAAAGA
1 CATCATGCACTGTAGGTCTTATAGATGACCCGGAGGCTTTAAAAACATCAAAAAGCTCCCAAAGA
56377 ATTTTTAAAAA
66 ATTTTTAAAAA
* * ** * * *
56388 CATCATGCACTGTAGGTCTTATAGATGACCCGGAGGATTTAAGATTATCAAAAAGCTCTCGAAGG
1 CATCATGCACTGTAGGTCTTATAGATGACCCGGAGGCTTTAAAAACATCAAAAAGCTCCCAAAGA
* *
56453 CTTTTTGAAAA
66 ATTTTTAAAAA
* *
56464 CATCCTGCACTGTAGGTCTTATGGATGACCCGGAGGCTTTAAAAACATCA
1 CATCATGCACTGTAGGTCTTATAGATGACCCGGAGGCTTTAAAAACATCA
56514 TGCACTGTAG
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 108 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (76 bp):
CATCATGCACTGTAGGTCTTATAGATGACCCGGAGGCTTTAAAAACATCAAAAAGCTCCCAAAGA
ATTTTTAAAAA
Found at i:57789 original size:55 final size:55
Alignment explanation
Indices: 57603--57853 Score: 216
Period size: 54 Copynumber: 4.6 Consensus size: 55
57593 ACATGTGACA
* * * *
57603 ATTCAT-CTTTTC-TCGTGGCTTCTGC-CTGGAT-TTTCGTAAAGCTTTTGATAACAC
1 ATTCATCCTTTTCAT-GTGGCTTCTGCTC-AGATGTTTCGTAAA-CATTTGACAACAT
* * *** *
57657 GTTCATCC-TTTCTTGTGGCTTCTGGAAAGATG-TTCGTAAAGCATTTGACAACAC
1 ATTCATCCTTTTCATGTGGCTTCTGCTCAGATGTTTCGTAAA-CATTTGACAACAT
* * * *
57711 CTTCAT-CTTTTCATGTGACTTCTGCCCAGATGTTT-GTAAAAATATTTGACAACAT
1 ATTCATCCTTTTCATGTGGCTTCTGCTCAGATGTTTCGT--AAACATTTGACAACAT
* * *
57766 ATTCATCCTTTTC-TGTGGTTTCTGCTAAAATGTTTCGTAAACATTTGACAACAT
1 ATTCATCCTTTTCATGTGGCTTCTGCTCAGATGTTTCGTAAACATTTGACAACAT
*
57820 ATTCATCC-TTTCATGTGGCTTATGCTCAGATGTT
1 ATTCATCCTTTTCATGTGGCTTCTGCTCAGATGTT
57854 CAATTATTGA
Statistics
Matches: 161, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
53 5 0.03
54 108 0.67
55 37 0.23
56 11 0.07
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (55 bp):
ATTCATCCTTTTCATGTGGCTTCTGCTCAGATGTTTCGTAAACATTTGACAACAT
Found at i:67379 original size:2 final size:2
Alignment explanation
Indices: 67366--67406 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
67356 TTTTAAGAAA
*
67366 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67406 A
1 A
67407 AATAAGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:67821 original size:21 final size:22
Alignment explanation
Indices: 67777--67821 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
67767 TTATACTAAT
67777 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
67799 AACATATAA-AATTAAA-ATATA
1 AACA-ATAATAATTAAATATATA
67820 AA
1 AA
67822 TAAACAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:69146 original size:3 final size:3
Alignment explanation
Indices: 69138--69219 Score: 112
Period size: 3 Copynumber: 27.0 Consensus size: 3
69128 AATTATTTTT
*
69138 TAA TAA TAA TAA TAA T-A TATA TAA TATA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA
**
69184 TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
69220 AACGAAATGA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.03
3 62 0.89
4 6 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:76833 original size:264 final size:266
Alignment explanation
Indices: 76361--76891 Score: 1048
Period size: 264 Copynumber: 2.0 Consensus size: 266
76351 AATTCATAGT
76361 TTTCCAAATGATTGTATATTGTATTGGGGTGATCGAAAAAATTAGGACTCTTATCATGTATGCGA
1 TTTCCAAATGATTGTATATTGTATTGGGGTGATCGAAAAAATTAGGACTCTTATCATGTATGCGA
76426 AAAATCTCGATGGATGATTAGGGAGGCAGAAAATTTTATTGAGGATGAAGCTCAAGCACGATCAA
66 AAAATCTCGATGGATGATTAGGGAGGCAGAAAATTTTATTGAGGATGAAGCTCAAGCACGATCAA
76491 GAAAGAAACCGGTCAAGATTCTGCGATATTTTCCTCTCATACGTAGGCTACAAAGATTGTGTATG
131 GAAAGAAACCGGTCAAGATTCTGCGATATTTTCCTCTCATACGTAGGCTACAAAGATTGTGTATG
76556 TCCTCCAAGACTGCTGAGTCTATGAGGTGGCATCATGATGGCAGAATCGATGATGAATTATTACG
196 TCCTCCAAGACTGCTGAGTCTATGAGGTGGCATCATGATGGCAGAATCGATGATGAATTATTACG
76621 GCATCC
261 GCATCC
76627 TTTCCAAATGATTGTATATTGTATTGGGGTGATCGAAAAAA-TAGGACTCTTATCATGTATGCGA
1 TTTCCAAATGATTGTATATTGTATTGGGGTGATCGAAAAAATTAGGACTCTTATCATGTATGCGA
76691 AAAATCTCGATGGATGATTAGGGAGGCAG-AAATTTTATTGAGGATGAAGCTCAAGCACGATCAA
66 AAAATCTCGATGGATGATTAGGGAGGCAGAAAATTTTATTGAGGATGAAGCTCAAGCACGATCAA
76755 GAAAGAAACCGGTCAAGATTCTGCGATATTTTCCTCTCATACGTAGGCTACAAAGATTGTGTATG
131 GAAAGAAACCGGTCAAGATTCTGCGATATTTTCCTCTCATACGTAGGCTACAAAGATTGTGTATG
76820 TCCTCCAAGACTGCTGAGTCTATGAGGTGGCATCATGATGGCAGAATCGATGATGAATTATTACG
196 TCCTCCAAGACTGCTGAGTCTATGAGGTGGCATCATGATGGCAGAATCGATGATGAATTATTACG
76885 GCATCC
261 GCATCC
76891 T
1 T
76892 GCAAACTCTT
Statistics
Matches: 265, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
264 172 0.65
265 52 0.20
266 41 0.15
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (266 bp):
TTTCCAAATGATTGTATATTGTATTGGGGTGATCGAAAAAATTAGGACTCTTATCATGTATGCGA
AAAATCTCGATGGATGATTAGGGAGGCAGAAAATTTTATTGAGGATGAAGCTCAAGCACGATCAA
GAAAGAAACCGGTCAAGATTCTGCGATATTTTCCTCTCATACGTAGGCTACAAAGATTGTGTATG
TCCTCCAAGACTGCTGAGTCTATGAGGTGGCATCATGATGGCAGAATCGATGATGAATTATTACG
GCATCC
Found at i:82437 original size:88 final size:86
Alignment explanation
Indices: 82300--82496 Score: 272
Period size: 88 Copynumber: 2.3 Consensus size: 86
82290 CATTTTTATA
* **
82300 AAAAACACTGCTATATACCA-ACCTTTAGCGGTTTGTATCCTAAAAACGCCACTATAT-ACTAGA
1 AAAAACACCGCTATATACCAGACCAATAGCGGTTTGTATCCTAAAAACGCCACTATATAAC-AGA
*
82363 CCTATCGCGACGTTTGTATCCT
65 CCTATAGCGACGTTTGTATCCT
*
82385 AAAAACACCGCTATATACCAGACCAATAGCGACGTTTGTATCCTACAAACGCCACTATATAACAG
1 AAAAACACCGCTATATACCAGACCAATAGCG--GTTTGTATCCTAAAAACGCCACTATATAACAG
*
82450 ACCTATAGCGGCGTTTGTATCCT
64 ACCTATAGCGACGTTTGTATCCT
* * *
82473 ACAAATACCGCTACATACCAGACC
1 AAAAACACCGCTATATACCAGACC
82497 TTTATCGGCA
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
85 19 0.19
86 8 0.08
88 70 0.71
89 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (86 bp):
AAAAACACCGCTATATACCAGACCAATAGCGGTTTGTATCCTAAAAACGCCACTATATAACAGAC
CTATAGCGACGTTTGTATCCT
Found at i:82495 original size:44 final size:44
Alignment explanation
Indices: 82300--82497 Score: 240
Period size: 44 Copynumber: 4.6 Consensus size: 44
82290 CATTTTTATA
* *
82300 AAAAACACTGCTATATACCA-ACCTTTAGCG--GTTTGTATCCT
1 AAAAACACCGCTATATACCAGACCTATAGCGACGTTTGTATCCT
* * * *
82341 AAAAACGCCACTATATACTAGACCTATCGCGACGTTTGTATCCT
1 AAAAACACCGCTATATACCAGACCTATAGCGACGTTTGTATCCT
*
82385 AAAAACACCGCTATATACCAGACCAATAGCGACGTTTGTATCCT
1 AAAAACACCGCTATATACCAGACCTATAGCGACGTTTGTATCCT
* * * * *
82429 ACAAACGCCACTATATAACAGACCTATAGCGGCGTTTGTATCCT
1 AAAAACACCGCTATATACCAGACCTATAGCGACGTTTGTATCCT
* * *
82473 ACAAATACCGCTACATACCAGACCT
1 AAAAACACCGCTATATACCAGACCT
82498 TTATCGGCAA
Statistics
Matches: 132, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
41 16 0.12
42 8 0.06
44 108 0.82
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (44 bp):
AAAAACACCGCTATATACCAGACCTATAGCGACGTTTGTATCCT
Found at i:84158 original size:101 final size:101
Alignment explanation
Indices: 83983--84185 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
83973 TCAATACCAA
83983 TATGACAACCACTACTTTAGCATGAAAATCTCTTATGATATGGATTGCACTGCAACATCGAAGAT
1 TATGACAACCACTACTTTAGCATGAAAATCTCTTATGATATGGATTGCACTGCAACATCGAAGAT
84048 GGTCGTCCTTAGATTCAAACTATGGATCTCCTATGC
66 GGTCGTCCTTAGATTCAAACTATGGATCTCCTATGC
84084 TATGACAACCACTACTTTAGCATGAAAATCTCTTATGATATGGATTGCACTGCAACATCGAAGAT
1 TATGACAACCACTACTTTAGCATGAAAATCTCTTATGATATGGATTGCACTGCAACATCGAAGAT
84149 GGTCGTCCTTAGATTCAAACTATGGATCTCCTATGC
66 GGTCGTCCTTAGATTCAAACTATGGATCTCCTATGC
84185 T
1 T
84186 TCAATCTTCG
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (101 bp):
TATGACAACCACTACTTTAGCATGAAAATCTCTTATGATATGGATTGCACTGCAACATCGAAGAT
GGTCGTCCTTAGATTCAAACTATGGATCTCCTATGC
Found at i:92410 original size:28 final size:25
Alignment explanation
Indices: 92379--92430 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
92369 ATTTCAAAAT
92379 TATAATTATTAGAAAAAAATAATTTATA
1 TATAATTA-TA-AAAAAAAT-ATTTATA
* *
92407 TATATTTATAAATAAAATATTTAT
1 TATAATTATAAAAAAAATATTTAT
92431 TTATTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 2 0.09
28 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TATAATTATAAAAAAAATATTTATA
Found at i:92437 original size:23 final size:26
Alignment explanation
Indices: 92387--92443 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
92377 ATTATAATTA
92387 TTAGAAA-AAAATAATTTATATATAT
1 TTAGAAATAAAATAATTTATATATAT
*
92412 TTATAAATAAAAT-ATTTAT-T-TAT
1 TTAGAAATAAAATAATTTATATATAT
92435 TTAGAAATA
1 TTAGAAATA
92444 TCAGAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 11 0.38
24 1 0.03
25 12 0.41
26 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
TTAGAAATAAAATAATTTATATATAT
Found at i:94048 original size:3 final size:3
Alignment explanation
Indices: 94042--94118 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
94032 TTATTTTTTT
*
94042 TAA TAA TAA TAA TAA TAA TAA T-A TATA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
94087 TTA TAA TAA TTA TAA TTA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94119 AAATGGGTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
2 4 0.06
3 57 0.90
4 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:94479 original size:124 final size:121
Alignment explanation
Indices: 94257--94549 Score: 364
Period size: 124 Copynumber: 2.4 Consensus size: 121
94247 GTTGAATAAA
* * *
94257 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---GGATGATGTTGAC
1 TTCTT-TCTTT-TTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGATGATGCTAAC
* * *
94319 ATATTTCCTTCTGTGATAGAGTTATTCAAAAGGTTGAATAAGCTCATCTCATTATGAAC
63 ATATTTCCTTCTGTGATAAAATTATTCAAAAGGTTGAACAAGCTCATCTCATTATGAAC
* *
94378 TTTTTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAAT
1 ---TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAAC
* *
94443 ATATCTT-CTTCTGTGATAAAATTATGT-AAAAGGTTGAACAAGCTCTTCTCATTGTGAAC
63 ATAT-TTCCTTCTGTGATAAAATTAT-TCAAAAGGTTGAACAAGCTCATCTCATTATGAAC
* *
94502 TTC-TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAA
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
94550 AGCTGATCCA
Statistics
Matches: 152, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
120 43 0.28
121 8 0.05
122 30 0.20
123 5 0.03
124 63 0.41
125 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (121 bp):
TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTAACATA
TTTCCTTCTGTGATAAAATTATTCAAAAGGTTGAACAAGCTCATCTCATTATGAAC
Found at i:94681 original size:112 final size:110
Alignment explanation
Indices: 94470--94842 Score: 432
Period size: 113 Copynumber: 3.4 Consensus size: 110
94460 AAAATTATGT
** *
94470 AAAAGGTTGAACAAGCTCTTCTCATTGTGAAC-TTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* * * * * * *
94534 GAACT-TTCTCTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 GAACTCTAC-CTGGAAATGCTGATCCATGAAATGATGAATTTAAGC
94579 AAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCTTCAGATGACGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTCTTCTTCTTCAGAT---GAGTTCTTCTCAT
* * * *
94643 TATGAACTCTACCTGGCAATGTTAATCCATGAAATGATGAATTTAAAC
63 TATGAACTCTACCTGGAAATGCTGATCCATGAAATGATGAATTTAAGC
*
94691 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAAC-T-TTCTT-CTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
94756 GATGAACTCGAACTGGTAATGCTGATCCATTG-AATGATAAATTCAAGC
63 TATGAACTCTACCTGGAAATGCTGATCCA-TGAAATGATGAATTTAAGC
* *
94804 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTT-TTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTCTTCT
94843 GGAAAAGCTG
Statistics
Matches: 228, Mismatches: 26, Indels: 20
0.83 0.09 0.07
Matches are distributed among these distances:
109 46 0.20
110 2 0.01
111 2 0.01
112 79 0.35
113 80 0.35
114 3 0.01
115 5 0.02
116 11 0.05
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (110 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTACCTGGAAATGCTGATCCATGAAATGATGAATTTAAGC
Found at i:94834 original size:73 final size:73
Alignment explanation
Indices: 94744--94907 Score: 184
Period size: 73 Copynumber: 2.2 Consensus size: 73
94734 TCTTCAGATG
* * * * **
94744 AGTTCTTCTTATGATGAACTCGAACTGGTAATGCTGATCCATTGAATGATAAATTCAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCAAAAA
94809 GTTGAACA
66 GTTGAACA
**** ** ** *
94817 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCAAAAA
94882 GTTGAACA
66 GTTGAACA
*
94890 AATTCTTCTCATTATGAA
1 AGTTCTTCTCATTATGAA
94908 TTTCTTCTTC
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCAAAAA
GTTGAACA
Found at i:94882 original size:186 final size:186
Alignment explanation
Indices: 94631--95028 Score: 528
Period size: 186 Copynumber: 2.1 Consensus size: 186
94621 TCAGATGACG
* ** * * * *
94631 AGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATGAAATGATGAATTTAAACAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAG
*
94696 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATGATGA
66 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATGATGA
* * **
94761 ACTCGAACTGGTAATGCTGATCCATTGAATGATAAATTCAAGCAAAAAGTTGAACA
131 ACTCGAACTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCAAAAAGTTGAACA
* * * *
94817 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAG
* *
94882 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
66 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATGATGA
**** ** ** *
94947 ACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACA
131 ACTCGAACTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCAAAAAGTTGAACA
*
95003 AATTCTTCTCATTATGAA-TTTCTTCT
1 AGTTCTTCTCATTATGAACTTT-TTCT
95029 TCCTTCTTCA
Statistics
Matches: 183, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
185 3 0.02
186 180 0.98
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (186 bp):
AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAG
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATGATGA
ACTCGAACTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCAAAAAGTTGAACA
Found at i:94949 original size:113 final size:113
Alignment explanation
Indices: 94817--95100 Score: 559
Period size: 113 Copynumber: 2.5 Consensus size: 113
94807 AAGTTGAACA
94817 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
94882 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
*
94930 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
94995 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
95043 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
95101 ATCTTTGCTA
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 169 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
Found at i:95062 original size:299 final size:298
Alignment explanation
Indices: 94519--95062 Score: 885
Period size: 299 Copynumber: 1.8 Consensus size: 298
94509 TCTTCAGATG
*
94519 AGTTCTTCTCATTATGAACTTTCTCTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTCTCTAGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
*
94584 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAA
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCACATGACGAGTTCTTCTCATTATGAA
* * * *
94649 CTCTACCTGGCAATGTTAATCCATGAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTC
131 CTCTACCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTC
*
94714 ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATGATGAACTCGAACTGGTAATGCT
196 ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATGATGAACTCGAACTGGTAATGCT
94779 GATCCATTGAATGATAAATTCAAGCAAAAAGTTGAACA
261 GATCCATTGAATGATAAATTCAAGCAAAAAGTTGAACA
* *
94817 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTCTCTAGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
* *
94882 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-CTTC-ACATGACGAGTTCTTCTCATTATG
* * * * *
94946 AACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTT
129 AACTCTAC-CTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTT
* *
95010 CTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
193 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATGATGAACT
95063 TTTTCTGGAA
Statistics
Matches: 225, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
298 99 0.44
299 125 0.56
300 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (298 bp):
AGTTCTTCTCATTATGAACTTTCTCTAGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTCACATGACGAGTTCTTCTCATTATGAA
CTCTACCTGGAAAAGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTC
ATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATGATGAACTCGAACTGGTAATGCT
GATCCATTGAATGATAAATTCAAGCAAAAAGTTGAACA
Found at i:95964 original size:115 final size:115
Alignment explanation
Indices: 95787--96129 Score: 528
Period size: 115 Copynumber: 3.0 Consensus size: 115
95777 GATCATGCAG
* * * * *
95787 TTCATCTTTTAATTCCAATGATTGG-TTTTGTGGTTCCTACCGAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGAGGTTCATACCAAACCAGATCAGATAACTCAAAG
95851 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* *
95901 TTCATCTTTCAAATCCAATAATTGGTTTTT-AGGGTTCATACCAAACCATATCAGATAACTCAAA
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGA-GGTTCATACCAAACCAGATCAGATAACTCAAA
* * * *
95965 GAACACTTCTAGAAAATGCTATTGGGTCTTCTTATTTCTACTATAATCACA
65 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* * *
96016 TTTATCTTTCAAATCCAATGACTGGTTTTTGAGATTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGAGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
96081 AACACTTCCAGAAGATGCTATTGGGTCTTTTTATTTCTACTATGAGCAC
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAC
96130 TTCCAGAAGA
Statistics
Matches: 205, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
114 22 0.11
115 182 0.89
116 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTTGAGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
Found at i:96146 original size:44 final size:44
Alignment explanation
Indices: 96083--96173 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
96073 ACTCAAAGAA
* *
96083 CACTTCCAGAAGATGCTATTGGGTCTTTTTATTTCTACTATGAG
1 CACTTCCAGAAGATGCTATTGGGTCTTCTTATTTATACTATGAG
96127 CACTTCCAGAAGATGCTATTGGGTCTTCTTATTTATACTATGAG
1 CACTTCCAGAAGATGCTATTGGGTCTTCTTATTTATACTATGAG
96171 CAC
1 CAC
96174 ATGGCACTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (44 bp):
CACTTCCAGAAGATGCTATTGGGTCTTCTTATTTATACTATGAG
Found at i:97456 original size:9 final size:9
Alignment explanation
Indices: 97442--97496 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
97432 ATCTTGACCC
97442 CTTTTTTTT
1 CTTTTTTTT
97451 CTTTTTTTT
1 CTTTTTTTT
97460 -TTTTTTTT
1 CTTTTTTTT
97468 -TTGTTCTTTT
1 CTT-TT-TTTT
* *
97478 CCTTTCTTT
1 CTTTTTTTT
97487 CTTTCTTTTT
1 CTTT-TTTTT
97497 TTGTTCTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 10 0.26
9 17 0.45
10 10 0.26
11 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.84
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:97457 original size:8 final size:8
Alignment explanation
Indices: 97444--97512 Score: 61
Period size: 8 Copynumber: 8.2 Consensus size: 8
97434 CTTGACCCCT
97444 TTTTTTTC
1 TTTTTTTC
97452 TTTTTTT-
1 TTTTTTTC
97459 TTTTTTT-
1 TTTTTTTC
*
97466 TTTTGTTC
1 TTTTTTTC
97474 TTTTCCTTTC
1 TTTT--TTTC
*
97484 TTTCTTTCTT
1 TTT-TTT-TC
97494 TTTTTGTTC
1 TTTTT-TTC
97503 TTTTTTTC
1 TTTTTTTC
97511 TT
1 TT
97513 CAAGCATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
7 13 0.25
8 16 0.31
9 10 0.20
10 11 0.22
11 1 0.02
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:104871 original size:15 final size:15
Alignment explanation
Indices: 104848--104879 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104838 TGAAATGAAT
104848 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
104863 AATGTATGTATGCAA
1 AATGAATGTATGCAA
104878 AA
1 AA
104880 AGGTATTGAT
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:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:108749 original size:24 final size:24
Alignment explanation
Indices: 108724--108781 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
108714 ATTATAATTA
108724 TTAGAAA-AAAATAATTTATATATAT
1 TTAGAAATAAAAT-ATTTA-ATATAT
* *
108749 TTATAAATAAAATATTTAATTTAT
1 TTAGAAATAAAATATTTAATATAT
108773 TTAGAAATA
1 TTAGAAATA
108782 TCAGAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.45
25 11 0.38
26 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (24 bp):
TTAGAAATAAAATATTTAATATAT
Found at i:110292 original size:3 final size:3
Alignment explanation
Indices: 110286--110372 Score: 95
Period size: 3 Copynumber: 29.0 Consensus size: 3
110276 TATTTTTTTT
*
110286 TAA TAA TAA TAA TAA TAA TAA TAA TATA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * * * *
110332 TTA TTA TTA TTA TAA TAA TAA TTA TTA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110373 AAATGGGTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.03
3 72 0.95
4 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:113346 original size:13 final size:13
Alignment explanation
Indices: 113328--113355 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
113318 CAGAAATGAG
113328 TAAATTTCTACGT
1 TAAATTTCTACGT
113341 TAAATTTCTACGT
1 TAAATTTCTACGT
113354 TA
1 TA
113356 CGGCAGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (13 bp):
TAAATTTCTACGT
Found at i:114004 original size:2 final size:2
Alignment explanation
Indices: 113997--114026 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
113987 ACAAAATGAG
*
113997 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114027 TCTCTTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:116437 original size:56 final size:56
Alignment explanation
Indices: 116365--116542 Score: 223
Period size: 56 Copynumber: 3.2 Consensus size: 56
116355 TCCTGAATTA
* * * *
116365 AATATATTTATTAGTTGTTGTCATTAATAAGTATAAAAATAGGGATTTTGAAATCG
1 AATATATCTATCAGTTGTTGTCATTAATAAGTATAAAAATAGGGATCTCGAAATCG
* *
116421 AATATATCTATCAGTTGTTGTCATTAATAAGCATAAAAATAGGGATCCCGAAATCG
1 AATATATCTATCAGTTGTTGTCATTAATAAGTATAAAAATAGGGATCTCGAAATCG
* * * * * * *
116477 AGTATATTTATCAGTTATTG-CTATTAAGAAATATAAAAATAAGGATCTCGGAATCG
1 AATATATCTATCAGTTGTTGTC-ATTAATAAGTATAAAAATAGGGATCTCGAAATCG
116533 AATATATCTA
1 AATATATCTA
116543 AAAAATAAGG
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
55 1 0.01
56 103 0.99
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.35
Consensus pattern (56 bp):
AATATATCTATCAGTTGTTGTCATTAATAAGTATAAAAATAGGGATCTCGAAATCG
Found at i:120617 original size:29 final size:29
Alignment explanation
Indices: 120538--120617 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
120528 ATTCTACAGT
* *
120538 GACCAAAGAGGTCGTCATGCAAGCCCAAC
1 GACCAAAGAGGTCGCCATGCACGCCCAAC
120567 GACCAAAGAGGTCGCCATGCACGCCCAAC
1 GACCAAAGAGGTCGCCATGCACGCCCAAC
*
120596 GACCAAGGAGGTCGCCATGCAC
1 GACCAAAGAGGTCGCCATGCAC
120618 TCGGGGCGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.31, C:0.34, G:0.26, T:0.09
Consensus pattern (29 bp):
GACCAAAGAGGTCGCCATGCACGCCCAAC
Found at i:120715 original size:20 final size:20
Alignment explanation
Indices: 120690--120739 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
120680 ACGCATGGGG
120690 GGAGATCGGTGCATGCATGA
1 GGAGATCGGTGCATGCATGA
*
120710 GGAGATC-GTGCATGCATGG
1 GGAGATCGGTGCATGCATGA
120729 GGAGATCGGTG
1 GGAGATCGGTG
120740 ACCAAAGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.22, C:0.14, G:0.44, T:0.20
Consensus pattern (20 bp):
GGAGATCGGTGCATGCATGA
Found at i:121299 original size:21 final size:21
Alignment explanation
Indices: 121275--121318 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
121265 AATATAGTTA
121275 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
121296 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
121317 AT
1 AT
121319 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:121385 original size:38 final size:41
Alignment explanation
Indices: 121305--121386 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 41
121295 TATTAGTTTG
* *
121305 TTAGTTTAAGTTATATATTATATTATATAAAAAATTAGTTAA
1 TTAGTTTAAGTTATATA-TATATTATAAAAAAAATTAATTAA
121347 TTAGTTTAAGTTAT-TA-A-A-TATAAAAAAATATTAATTAA
1 TTAGTTTAAGTTATATATATATTATAAAAAAA-ATTAATTAA
121385 TT
1 TT
121387 TGGTAGTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
37 9 0.24
38 11 0.30
39 1 0.03
41 2 0.05
42 14 0.38
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTATATATATATTATAAAAAAAATTAATTAA
Found at i:121837 original size:17 final size:17
Alignment explanation
Indices: 121809--121871 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
121799 AGATAATTTC
121809 TGTTTAAAAAATATATTG
1 TGTTT-AAAAATATATTG
*
121827 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAATA--TATTG
* *
121846 TTGTTTTAAAAAAATATTT
1 -TG-TTTAAAAATATATTG
121865 TGTTTAA
1 TGTTTAA
121872 TTTATATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 12 0.32
18 7 0.19
19 7 0.19
20 2 0.05
21 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
TGTTTAAAAATATATTG
Found at i:121875 original size:22 final size:23
Alignment explanation
Indices: 121832--121875 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
121822 TATTGTGTTT
**
121832 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
121855 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
121876 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:125152 original size:41 final size:41
Alignment explanation
Indices: 125086--125198 Score: 127
Period size: 48 Copynumber: 2.6 Consensus size: 41
125076 GTGCAGTCTA
* * * *
125086 ATTAGTAATGATAATTAATTTTTAATGATTTGATAGTAATG
1 ATTAGTAATAATAATTTATTATTAATGATTTGATAATAATG
125127 ATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAATAATG
1 ATTAGTAATAATAA--T-TTA-T--TA-TTAATGATTTGATAATAATG
125175 ATTAGTAATAATAATTTATTATTA
1 ATTAGTAATAATAATTTATTATTA
125199 TTATTTAATG
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
41 16 0.26
42 2 0.03
43 1 0.02
44 3 0.05
45 4 0.07
46 1 0.02
47 1 0.02
48 33 0.54
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (41 bp):
ATTAGTAATAATAATTTATTATTAATGATTTGATAATAATG
Found at i:125174 original size:48 final size:48
Alignment explanation
Indices: 125099--125232 Score: 218
Period size: 48 Copynumber: 2.8 Consensus size: 48
125089 AGTAATGATA
* *
125099 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATT
1 ATTAATATTTAATGATTTGATAATAATGATTAGTAATAATAATTTATT
125147 ATTAATATTTAATGATTTGATAATAATGATTAGTAATAATAATTTATT
1 ATTAATATTTAATGATTTGATAATAATGATTAGTAATAATAATTTATT
* *
125195 ATTATTATTTAATGATTTGATACTAATGATT--TAATAAT
1 ATTAATATTTAATGATTTGATAATAATGATTAGTAATAAT
125233 GATTAGTAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 7 0.09
48 75 0.91
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (48 bp):
ATTAATATTTAATGATTTGATAATAATGATTAGTAATAATAATTTATT
Found at i:125239 original size:59 final size:61
Alignment explanation
Indices: 125156--125294 Score: 210
Period size: 60 Copynumber: 2.3 Consensus size: 61
125146 TATTAATATT
* *
125156 TAATGATTTGATAATAATGATTAGTAATAAT-AATTTATTATTATTATTTAATGATTTGATAC
1 TAATGA-TT-ATAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAC
*
125218 TAATGATT-TAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTATAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAC
125278 TAATGATTAGTAATAAT
1 TAATGATTA-TAATAAT
125295 AATTTATTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
59 20 0.28
60 36 0.51
61 2 0.03
62 13 0.18
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (61 bp):
TAATGATTATAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAC
Found at i:125314 original size:48 final size:47
Alignment explanation
Indices: 125218--125345 Score: 183
Period size: 48 Copynumber: 2.7 Consensus size: 47
125208 GATTTGATAC
*
125218 TAATGATTT-A-ATAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATATAATGATTAGTAATAAT-AATTTATTATTAATATT
125264 TAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATATT
1 TAATGATTTGATA-TAATGATTAGTAATAATAATTTATTATTAATATT
*
125312 TAATGATTTGATATTAATGATT--TAATAATGATTT
1 TAATGATTTGATA-TAATGATTAGTAATAATAATTT
125346 GATAGTAATG
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
46 20 0.26
47 1 0.01
48 38 0.50
49 17 0.22
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (47 bp):
TAATGATTTGATATAATGATTAGTAATAATAATTTATTATTAATATT
Found at i:125328 original size:14 final size:14
Alignment explanation
Indices: 125311--125359 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
125301 TTATTAATAT
125311 TTAATGATTTGATA
1 TTAATGATTTGATA
125325 TTAATGATTT-A-A
1 TTAATGATTTGATA
125337 -TAATGATTTGATA
1 TTAATGATTTGATA
*
125350 GTAATGATTT
1 TTAATGATTT
125360 ACGACTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.28
12 2 0.06
13 2 0.06
14 19 0.59
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:125551 original size:60 final size:59
Alignment explanation
Indices: 125433--125795 Score: 554
Period size: 60 Copynumber: 6.3 Consensus size: 59
125423 AAAATTATAA
*
125433 TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAG
125492 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAG
*
125552 TAAT-A-TTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAG
*
125609 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAG
* *
125669 TAATGATTTAATAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAG
*
125729 TAATGA-TTAG---T-A--A-TAATAAT---TTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAG
125777 TAATGATTTAGTAATGATT
1 TAATGATTTAGTAATGATT
125796 TGATAGTAAT
Statistics
Matches: 284, Mismatches: 9, Indels: 26
0.89 0.03 0.08
Matches are distributed among these distances:
48 33 0.12
49 4 0.01
52 8 0.03
53 2 0.01
55 1 0.00
56 1 0.00
57 34 0.12
58 22 0.08
59 53 0.19
60 126 0.44
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (59 bp):
TAATGATTTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAG
Found at i:125579 original size:117 final size:119
Alignment explanation
Indices: 125433--125795 Score: 583
Period size: 117 Copynumber: 3.2 Consensus size: 119
125423 AAAATTATAA
125433 TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGA
1 TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGA
*
125498 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
66 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
125552 TAAT-A-TTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGA
1 TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGA
125615 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
66 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
* * *
125669 TAATGATTTAATAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 TAATGATTTAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAGTAATG
125734 A-TTAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATAT
65 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
125777 TAATGATTTAGTAATGATT
1 TAATGATTTAGTAATGATT
125796 TGATAGTAAT
Statistics
Matches: 236, Mismatches: 5, Indels: 17
0.91 0.02 0.07
Matches are distributed among these distances:
108 46 0.19
112 7 0.03
113 1 0.00
115 1 0.00
116 1 0.00
117 115 0.49
118 2 0.01
119 27 0.11
120 36 0.15
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (119 bp):
TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGA
TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
Found at i:125704 original size:274 final size:279
Alignment explanation
Indices: 125143--125795 Score: 775
Period size: 274 Copynumber: 2.3 Consensus size: 279
125133 AATAATAATT
* *
125143 TATTATTAATATTTAATGATTTGATAATAATGATTAGTAATAATAATTTATTATTATTATTTAAT
1 TATTATTAATA-TTAATGATTT-ATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAAT
*
125208 GATTTGATACTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
64 GATTTGATACTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
*
125273 GATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAAT
129 GATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAAT
* * * * * *
125338 AATGATTTGATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATT
194 AATGATTAGATAATAATGAATTACGACTTGAACAAT-AACAATGTTTGATTCAATGAACCATATA
*
125403 TTCGTTACATAACTAGCAAT-AAA
258 ATCGTTACATAACTA--AATAAAA
125426 -ATTA-T-A-A-TAATGA-TT-TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGA
1 TATTATTAATATTAATGATTTATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGA
*
125484 TTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
66 TTTGATACTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGA-TT--
125549 TAGTAATATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATG
128 T-G----A-TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATG
* ** * ** *
125614 ATTTAGTAATGATTAG-TAATAATGAAATTATTA-TT-AA-TAT-TTAATGATTTGATATTAATG
187 ATTTAATAATGATTAGATAATAATG-AATTACGACTTGAACAATAACAATG-TTTGAT-TCAATG
*** *
125674 ATTTA-ATAAT-GATTA-ATAA-T-AATGAAAT
249 AACCATATAATCG-TTACATAACTAAAT-AAAA
125702 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAAT
1 TATTATTAATA-TTAATGATTT-ATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAAT
*
125767 GATTTGATATTAATGATTTAGTAATGATT
64 GATTTGATACTAATGATTTAGTAATGATT
125796 TGATAGTAAT
Statistics
Matches: 322, Mismatches: 24, Indels: 46
0.82 0.06 0.12
Matches are distributed among these distances:
274 102 0.32
275 2 0.01
276 4 0.01
277 12 0.04
278 11 0.03
279 13 0.04
280 10 0.03
281 3 0.01
282 20 0.06
283 76 0.24
285 69 0.21
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.46
Consensus pattern (279 bp):
TATTATTAATATTAATGATTTATAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGA
TTTGATACTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAATAA
TGATTAGATAATAATGAATTACGACTTGAACAATAACAATGTTTGATTCAATGAACCATATAATC
GTTACATAACTAAATAAAA
Found at i:125779 original size:14 final size:14
Alignment explanation
Indices: 125763--125810 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
125753 TATTAATATT
*
125763 TAATGATTTGATAT
1 TAATGATTTGATAG
125777 TAATGA-TT--TAG
1 TAATGATTTGATAG
125788 TAATGATTTGATAG
1 TAATGATTTGATAG
125802 TAATGATTT
1 TAATGATTT
125811 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:125913 original size:13 final size:12
Alignment explanation
Indices: 125877--126022 Score: 51
Period size: 11 Copynumber: 12.1 Consensus size: 12
125867 TAGTAATGAA
125877 ATTATAATAATG
1 ATTATAATAATG
*
125889 ATT-TAGTAATG
1 ATTATAATAATG
125900 ATTAGTAATAATG
1 ATTA-TAATAATG
*
125913 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
125927 ATT-TAATGAT-
1 ATTATAATAATG
*
125937 -TTGATAGTAATG
1 ATT-ATAATAATG
125949 ATTAGTAATAATG
1 ATTA-TAATAATG
*
125962 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
125976 ATT-TAATGAT-
1 ATTATAATAATG
*
125986 -TTGATATTAATG
1 ATT-ATAATAATG
*
125998 ATT-TAGTAATG
1 ATTATAATAATG
126009 ATTAGTAATAATG
1 ATTA-TAATAATG
126022 A
1 A
126023 AATTATTATT
Statistics
Matches: 100, Mismatches: 17, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
9 4 0.04
10 10 0.10
11 30 0.30
12 10 0.10
13 26 0.26
15 20 0.20
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:125953 original size:49 final size:49
Alignment explanation
Indices: 125892--126115 Score: 297
Period size: 49 Copynumber: 4.3 Consensus size: 49
125882 AATAATGATT
125892 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
125941 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TG--ATT--TGA
*
125999 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
126050 TAGTAATAATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
126098 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
126116 GATTTGATAG
Statistics
Matches: 157, Mismatches: 6, Indels: 24
0.84 0.03 0.13
Matches are distributed among these distances:
48 33 0.21
49 66 0.42
50 1 0.01
51 3 0.02
52 1 0.01
53 2 0.01
54 2 0.01
55 2 0.01
56 3 0.02
57 1 0.01
58 3 0.02
59 1 0.01
60 39 0.25
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:125956 original size:451 final size:435
Alignment explanation
Indices: 125119--126119 Score: 1637
Period size: 451 Copynumber: 2.3 Consensus size: 435
125109 AATGATTTGA
125119 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTG-AT-A-A-TAATGATTAG
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGTATGATAGTAATGATTAG
* * *
125180 TAATAATAATTTATTATTATTATTTAATGATTTGATACTAATGATTTAATAATGATTAGTAATAA
66 TAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTAATAATAA
125245 TGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATA
131 TGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATA
125310 TTTAATGATTTGATATTAATGATTTAATAATGATTTGATAGTAATGATTTACGACTTGAACAATG
196 TTTAATGATTTGATATTAATGATTTAATAATGATTTGATAGTAATGATTTACGACTTGAACAATG
125375 AACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGCAATAAAATTATAATAATGAT
261 AACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGCAATAAAATTATAATAATGAT
*
125440 TTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
326 TTAGTAATGATTAGTAATAATAAATTATTATTAATATTT-A--A--TGAT--T--TGA-TTAGTA
125505 ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT-A-T
381 ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
125558 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGA-TT--T-GT-ATGA--TAGTAA
*
125623 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATT
59 TGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATT
125688 AATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTAT
123 AATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTAT
*
125753 TATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACGACTT
188 TATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTTGATAGTAATGATTTACGACTT
* *
125818 GAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATTATA
253 GAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGCAATAAAATTATA
125883 ATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA-TAGTAA
318 ATAATGATTTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATTAGTAA
*
125947 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
382 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* *
126001 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG--TT-T-TGATAGTAATAATTA
1 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGTATGATAGTAATGATTA
*
126062 GTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATT
65 GTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATT
126120 TGATAGTAAT
Statistics
Matches: 533, Mismatches: 13, Indels: 39
0.91 0.02 0.07
Matches are distributed among these distances:
432 48 0.09
433 19 0.04
435 3 0.01
437 1 0.00
439 44 0.08
440 2 0.00
441 56 0.11
442 2 0.00
443 25 0.05
444 21 0.04
445 3 0.01
446 1 0.00
447 4 0.01
449 2 0.00
450 17 0.03
451 268 0.50
452 17 0.03
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (435 bp):
TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGTATGATAGTAATGATTAG
TAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTAATAATAA
TGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATA
TTTAATGATTTGATATTAATGATTTAATAATGATTTGATAGTAATGATTTACGACTTGAACAATG
AACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGCAATAAAATTATAATAATGAT
TTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATTAGTAATGATTAGTA
ATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
Found at i:125960 original size:324 final size:329
Alignment explanation
Indices: 125557--126216 Score: 1154
Period size: 324 Copynumber: 2.0 Consensus size: 329
125547 GATAGTAATA
*
125557 TTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAA-GA-TTGATA-T-ATGA-TTAGTA
125622 ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGAT
61 ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGAT
*
125687 TAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATAATTTA
126 TAATAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATAATTAGTAATAATAATTTA
125752 TTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACGACT
191 TTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACGACT
*
125817 TGAA-CAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACATAACTAGTAATGAAATTA
256 T-AACCAATGAACAATGTTTGGTTCAATTAACCATATTTTCGATACATAACTAGTAATGAAATTA
125881 TAATAATGAT
320 TAATAATGAT
125891 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A-A-TGAT-T-TGA-TAGTAATGA
1 TTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAAGATTGATATATGATTAGTAATGA
* *
125950 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGT
65 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTAAT
*
126015 AATAATGAAATTATTATTAATATTTAATGTTTTGATAGTAATAATTAGTAATAATAATTTATTAT
130 AATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATAATTAGTAATAATAATTTATTAT
126080 TAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACGACTTAAC
195 TAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACGACTTAAC
126145 CAATGAACAATGTTTGGTTCAATTAACCATATTTTCGATACATAACTAGTAATGAAATTATAATA
260 CAATGAACAATGTTTGGTTCAATTAACCATATTTTCGATACATAACTAGTAATGAAATTATAATA
126210 ATGAT
325 ATGAT
126215 TT
1 TT
126217 GATACTAAAA
Statistics
Matches: 318, Mismatches: 6, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
323 2 0.01
324 268 0.84
326 3 0.01
328 1 0.00
330 4 0.01
332 1 0.00
334 22 0.07
335 17 0.05
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (329 bp):
TTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAAGATTGATATATGATTAGTAATGAT
TAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAATAATGATTAATA
ATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATAATTAGTAATAATAATTTATTATT
AATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACGACTTAACC
AATGAACAATGTTTGGTTCAATTAACCATATTTTCGATACATAACTAGTAATGAAATTATAATAA
TGAT
Found at i:126005 original size:60 final size:60
Alignment explanation
Indices: 125941--126119 Score: 256
Period size: 60 Copynumber: 3.2 Consensus size: 60
125931 AATGATTTGA
125941 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
126001 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TG-T-TT--TGA--
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
* *
126050 TAGTAATAATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
126109 TAGTAATGATT
1 TAGTAATGATT
126120 TGATAGTAAT
Statistics
Matches: 105, Mismatches: 3, Indels: 23
0.80 0.02 0.18
Matches are distributed among these distances:
48 17 0.16
49 20 0.19
51 4 0.04
53 4 0.04
54 2 0.02
55 4 0.04
57 4 0.04
59 11 0.10
60 39 0.37
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.47
Consensus pattern (60 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
Found at i:126090 original size:21 final size:22
Alignment explanation
Indices: 126066--126135 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
126056 TAATTAGTAA
126066 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
126087 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
126110 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
126134 TA
1 TA
126136 CGACTTAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:126091 original size:48 final size:49
Alignment explanation
Indices: 126001--126115 Score: 169
Period size: 48 Copynumber: 2.3 Consensus size: 49
125991 ATTAATGATT
* *
126001 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGTTTTGA
1 TAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
126050 TAGTAATAATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
126098 TATTAATGATTTAGTAAT
1 TAGTAAT-AATTAGTAAT
126116 GATTTGATAG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 32 0.53
49 28 0.47
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (49 bp):
TAGTAATAATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:126103 original size:14 final size:14
Alignment explanation
Indices: 126087--126134 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
126077 TATTAATATT
*
126087 TAATGATTTGATAT
1 TAATGATTTGATAG
126101 TAATGA-TT--TAG
1 TAATGATTTGATAG
126112 TAATGATTTGATAG
1 TAATGATTTGATAG
126126 TAATGATTT
1 TAATGATTT
126135 ACGACTTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:126116 original size:25 final size:25
Alignment explanation
Indices: 126087--126135 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
126077 TATTAATATT
*
126087 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
126112 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
126136 CGACTTAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:128486 original size:22 final size:22
Alignment explanation
Indices: 128461--128509 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
128451 ACAACTAATA
*
128461 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACGTT
128483 AACTATTCTTTAATATAACGTT
1 AACTATTCTTTAATATAACGTT
128505 AACTA
1 AACTA
128510 ATAAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
AACTATTCTTTAATATAACGTT
Found at i:128487 original size:30 final size:30
Alignment explanation
Indices: 128453--128578 Score: 94
Period size: 30 Copynumber: 4.4 Consensus size: 30
128443 TCCCTTAAAC
128453 AACTAATAAACTATTCTTTAATATAAC--T
1 AACTAATAAACTATTCTTTAATATAACTTT
*
128481 ---T--T-AACTATTCTTTAATATAACGTT
1 AACTAATAAACTATTCTTTAATATAACTTT
* * *
128505 AACTAATAAAATATTTTTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAACTTT
128535 AACTAATAAA-TGATT-TTTAATTATAA-TTT
1 AACTAATAAACT-ATTCTTTAA-TATAACTTT
*
128564 ATTACTAAAAAACTA
1 A--ACTAATAAACTA
128579 ATTAACTAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
22 19 0.24
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
29 10 0.13
30 36 0.46
31 9 0.11
32 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:129274 original size:11 final size:11
Alignment explanation
Indices: 129258--129293 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
129248 CTGAAGGACT
129258 GCAATAATGCA
1 GCAATAATGCA
*
129269 GCAATAAGTGCT
1 GCAATAA-TGCA
129281 GCAATAATGCA
1 GCAATAATGCA
129292 GC
1 GC
129294 TGAATTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (11 bp):
GCAATAATGCA
Found at i:131891 original size:9 final size:9
Alignment explanation
Indices: 131871--131904 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
131861 CTCACCTCCA
131871 CCCTCTTCTT
1 CCCTC-TCTT
131881 CCCTCTCTT
1 CCCTCTCTT
131890 CCCTCTCTT
1 CCCTCTCTT
*
131899 CTCTCT
1 CCCTCT
131905 ATCCTTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (9 bp):
CCCTCTCTT
Found at i:133802 original size:19 final size:19
Alignment explanation
Indices: 133778--133814 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
133768 AAAGATTTCT
133778 GATATGATCTTTTAGTGGA
1 GATATGATCTTTTAGTGGA
* *
133797 GATATGATGTTTTGGTGG
1 GATATGATCTTTTAGTGG
133815 TACTAAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.32, T:0.43
Consensus pattern (19 bp):
GATATGATCTTTTAGTGGA
Found at i:134374 original size:18 final size:18
Alignment explanation
Indices: 134351--134402 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
134341 GCGTAGAATT
*
134351 TGTCCCGTATGACCACTA
1 TGTCCCGAATGACCACTA
*
134369 TGTCCCGAATGATCACTA
1 TGTCCCGAATGACCACTA
*
134387 TATCCCGAATGACCAC
1 TGTCCCGAATGACCAC
134403 ATAGAATACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:135627 original size:20 final size:20
Alignment explanation
Indices: 135602--135649 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
135592 TTTTGTGTAT
135602 CGATACACTGGTTGATGTCC
1 CGATACACTGGTTGATGTCC
135622 CGATACACTGGTTGATGTCC
1 CGATACACTGGTTGATGTCC
135642 CGATACAC
1 CGATACAC
135650 CCTTGGCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (20 bp):
CGATACACTGGTTGATGTCC
Found at i:135784 original size:21 final size:21
Alignment explanation
Indices: 135760--135810 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
135750 CTGAGTGTAT
135760 CGATACACCTAGAGAGTATAC
1 CGATACACCTAGAGAGTATAC
* *
135781 CGATACGCCTAGAGAGTGTAC
1 CGATACACCTAGAGAGTATAC
135802 CGATACACC
1 CGATACACC
135811 ATGCTCCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (21 bp):
CGATACACCTAGAGAGTATAC
Found at i:141518 original size:21 final size:21
Alignment explanation
Indices: 141489--141546 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
141479 ATCCTCGCTA
*
141489 TGTATCGATACACTATGAATG
1 TGTACCGATACACTATGAATG
* *
141510 TTTACCGATACATTCTTTGAATG
1 TGTACCGATACA--CTATGAATG
*
141533 TGTATCGATACACT
1 TGTACCGATACACT
141547 CATCGGGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 12 0.40
23 18 0.60
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (21 bp):
TGTACCGATACACTATGAATG
Found at i:142047 original size:13 final size:14
Alignment explanation
Indices: 142018--142053 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
142008 GTATTATGAT
142018 TTTTCAAAAAAATG
1 TTTTCAAAAAAATG
*
142032 TTTTCAAAAATA-G
1 TTTTCAAAAAAATG
142045 TTTTCAAAA
1 TTTTCAAAA
142054 TTGCCCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (14 bp):
TTTTCAAAAAAATG
Found at i:147573 original size:46 final size:45
Alignment explanation
Indices: 147498--147584 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
147488 TGATACCATT
* * * *
147498 AAATGTAACACCCCAACCCGTATCTGACCCAAATATGAATCATAG
1 AAATATAACACCCCAACCAGTATCCGACCCAAATACGAATCATAG
*
147543 AAATATAACACCCCCAACCAGTATCCGACCCGAATACGAATC
1 AAATATAACA-CCCCAACCAGTATCCGACCCAAATACGAATC
147585 TGAGTTGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 9 0.25
46 27 0.75
ACGTcount: A:0.40, C:0.32, G:0.10, T:0.17
Consensus pattern (45 bp):
AAATATAACACCCCAACCAGTATCCGACCCAAATACGAATCATAG
Found at i:151175 original size:24 final size:24
Alignment explanation
Indices: 151143--151234 Score: 132
Period size: 24 Copynumber: 3.8 Consensus size: 24
151133 CATAATTCAG
* *
151143 GTCAAGTATCATATCAAAATCCAT
1 GTCAAGTATCAAATCAGAATCCAT
* *
151167 GTCAAGTATCAAATTAGAATCCAG
1 GTCAAGTATCAAATCAGAATCCAT
151191 GTCAAGTATCAAATCAGAATCCAT
1 GTCAAGTATCAAATCAGAATCCAT
151215 GTCAAGTATCATAA-CAGAAT
1 GTCAAGTATCA-AATCAGAAT
151235 TCAAATCGGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 59 0.97
25 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCAAATCAGAATCCAT
Found at i:151234 original size:48 final size:47
Alignment explanation
Indices: 151130--151234 Score: 147
Period size: 48 Copynumber: 2.2 Consensus size: 47
151120 TCAGAAATAA
* * *
151130 AAACATAATTCAGGTCAAGTATCATATCAAAATCCATGTCAAGTATC
1 AAACAGAATCCAGGTCAAGTATCAAATCAAAATCCATGTCAAGTATC
* *
151177 AAATTAGAATCCAGGTCAAGTATCAAATCAGAATCCATGTCAAGTATC
1 AAA-CAGAATCCAGGTCAAGTATCAAATCAAAATCCATGTCAAGTATC
151225 ATAACAGAAT
1 A-AACAGAAT
151235 TCAAATCGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
47 3 0.06
48 45 0.90
49 2 0.04
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (47 bp):
AAACAGAATCCAGGTCAAGTATCAAATCAAAATCCATGTCAAGTATC
Found at i:155585 original size:24 final size:24
Alignment explanation
Indices: 155558--155642 Score: 100
Period size: 24 Copynumber: 3.5 Consensus size: 24
155548 CATAATTCAG
*
155558 GTCAAGTATCATATCAAAATCCAT
1 GTCAAGTATCATATCAAAATCCAC
* * *
155582 GTCAAGTATCAGAT-AAGAATTCAG
1 GTCAAGTATCATATCAA-AATCCAC
* *
155606 GTCAAGTATCAAATCAGAATCCAC
1 GTCAAGTATCATATCAAAATCCAC
155630 GTCAAGTATCATA
1 GTCAAGTATCATA
155643 ACAGAATTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
23 2 0.04
24 48 0.94
25 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATCAAAATCCAC
Found at i:155649 original size:48 final size:48
Alignment explanation
Indices: 155546--155652 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
155536 CAAAAATTAA
* * *
155546 AACATAATTCAGGTCAAGTATCATATCAAAATCCATGTCAAGTATCAG
1 AACAGAATTCAGGTCAAGTATCAAATCAAAATCCACGTCAAGTATCAG
* *
155594 ATA-AGAATTCAGGTCAAGTATCAAATCAGAATCCACGTCAAGTATCAT
1 A-ACAGAATTCAGGTCAAGTATCAAATCAAAATCCACGTCAAGTATCAG
155642 AACAGAATTCA
1 AACAGAATTCA
155653 AATCGAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
47 1 0.02
48 50 0.96
49 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (48 bp):
AACAGAATTCAGGTCAAGTATCAAATCAAAATCCACGTCAAGTATCAG
Found at i:157863 original size:16 final size:17
Alignment explanation
Indices: 157842--157874 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
157832 ACTCAAAAAC
157842 ATAAAA-TATGACTTTT
1 ATAAAATTATGACTTTT
*
157858 ATAAAATTTTGACTTTT
1 ATAAAATTATGACTTTT
157875 CGATCAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
ATAAAATTATGACTTTT
Found at i:160257 original size:24 final size:24
Alignment explanation
Indices: 160230--160314 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
160220 CATAATTCAG
* *
160230 GTCAAATATCATATCAAAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
* *
160254 GTCAAGTATCAGATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAT
*
160278 GTCAAGTATCAAATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
160302 GTCAAGTATCATA
1 GTCAAGTATCATA
160315 ACATAATTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:163689 original size:23 final size:23
Alignment explanation
Indices: 163663--163722 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
163653 TCCCCCCTCC
*
163663 CACGGTAAAGTTCTCTCCAATAT
1 CACGGTAAAGCTCTCTCCAATAT
*
163686 CACGGTAAAGCTCTCTCCAATCT
1 CACGGTAAAGCTCTCTCCAATAT
*
163709 CACGGTAAAACTCT
1 CACGGTAAAGCTCT
163723 TTGCAAAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (23 bp):
CACGGTAAAGCTCTCTCCAATAT
Found at i:171942 original size:27 final size:27
Alignment explanation
Indices: 171903--171970 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
171893 GTGTAGGAAT
171903 TATAGA-A-ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
171928 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
171955 TATAGAGATATGATTT
1 TATAGAGATATGATTT
171971 TGTAAATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 6 0.15
26 1 0.02
27 34 0.83
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:174094 original size:17 final size:17
Alignment explanation
Indices: 174069--174111 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
174059 GAACATACTG
*
174069 ATAGCTTCAAGCACATA
1 ATAGTTTCAAGCACATA
174086 ATAGTTTCAAGCACATA
1 ATAGTTTCAAGCACATA
174103 ATAGTTTCA
1 ATAGTTTCA
174112 TGGACTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (17 bp):
ATAGTTTCAAGCACATA
Found at i:183054 original size:17 final size:17
Alignment explanation
Indices: 183032--183070 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
183022 TGCATACATA
*
183032 TACATCATCATATCATC
1 TACATCATCACATCATC
183049 TACATCATCACATCATC
1 TACATCATCACATCATC
183066 TACAT
1 TACAT
183071 TTATATACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (17 bp):
TACATCATCACATCATC
Found at i:183423 original size:18 final size:18
Alignment explanation
Indices: 183396--183430 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
183386 ACTAAATGTT
*
183396 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
183414 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
183431 GTAAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:183675 original size:32 final size:29
Alignment explanation
Indices: 183609--183676 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 29
183599 GCATGTAGCA
*
183609 CATATAACTCATATACTTTCTTATATGCT
1 CATATAACTCATATACTTTCTTATATGAT
*
183638 CATATAGCTCATATCACTTAATCTCT-TATGAT
1 CATATAACTCATAT-ACTT--TCT-TATATGAT
183670 CATATAA
1 CATATAA
183677 TCACTACACT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 13 0.41
30 4 0.12
32 14 0.44
33 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.41
Consensus pattern (29 bp):
CATATAACTCATATACTTTCTTATATGAT
Found at i:185640 original size:54 final size:54
Alignment explanation
Indices: 185582--185716 Score: 216
Period size: 54 Copynumber: 2.5 Consensus size: 54
185572 CAGTAGCTTG
* * * *
185582 GGATGGATAAGTCGTGCCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCC
1 GGATGAATAAGCCGTGCCCACGCCTTAACTGAAGACTTCTTATGCGTTAACTCC
* *
185636 GGATGAATAAGCCGTGCCCAAGCCTTAACTGAAGACTTCTTATGCGTTAACTCT
1 GGATGAATAAGCCGTGCCCACGCCTTAACTGAAGACTTCTTATGCGTTAACTCC
185690 GGATGAATAAGCCGTGCCCACGCCTTA
1 GGATGAATAAGCCGTGCCCACGCCTTA
185717 TGCGAACGTC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (54 bp):
GGATGAATAAGCCGTGCCCACGCCTTAACTGAAGACTTCTTATGCGTTAACTCC
Found at i:192295 original size:32 final size:32
Alignment explanation
Indices: 192248--192321 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
192238 AAGATAATAT
* * * * *
192248 CTTAGGGCTTGAGAGCCTACCCAGGGGAGTAC
1 CTTAGGGCCTAAGAGCCCACCCAAGGAAGTAC
*
192280 CTTAGGGCCTAAGAGCCCGCCCAAGGAAGTAC
1 CTTAGGGCCTAAGAGCCCACCCAAGGAAGTAC
192312 CTTAGGGCCT
1 CTTAGGGCCT
192322 GCCCAAGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (32 bp):
CTTAGGGCCTAAGAGCCCACCCAAGGAAGTAC
Found at i:193435 original size:26 final size:27
Alignment explanation
Indices: 193406--193457 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
193396 AGGTAGATTT
193406 ATTCATTCCAGAGCTTAAGG-GTATTC
1 ATTCATTCCAGAGCTTAAGGAGTATTC
* * *
193432 ATTCATTCTAGGGCTTGAGGAGTATT
1 ATTCATTCCAGAGCTTAAGGAGTATT
193458 TTTAGGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (27 bp):
ATTCATTCCAGAGCTTAAGGAGTATTC
Found at i:195348 original size:61 final size:60
Alignment explanation
Indices: 195266--195427 Score: 179
Period size: 60 Copynumber: 2.7 Consensus size: 60
195256 CATATGATTT
*
195266 GGGATGGAATTGGAATGTTCAAAAAGTTTAGGGACCAAGTTTAGAA-TA-AGGTCATAGTTTA
1 GGGATGGAATTGAAATGTTC-AAAAGTTTAGGGACCAA-TTTAGAATTATA-GTCATAGTTTA
* **
195327 GGGAT-GACATTGAAATGTTCAAAAGTTT-GAGAAGTAATTTAGAATTATAGTCATAGTTTA
1 GGGATGGA-ATTGAAATGTTCAAAAGTTTAG-GGACCAATTTAGAATTATAGTCATAGTTTA
* * * *
195387 TGGATGGAATTGAAATGTTTAAAGGTTTAGAGACCAATTTA
1 GGGATGGAATTGAAATGTTCAAAAGTTTAGGGACCAATTTA
195428 AAATGAGAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
59 8 0.10
60 56 0.67
61 20 0.24
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.33
Consensus pattern (60 bp):
GGGATGGAATTGAAATGTTCAAAAGTTTAGGGACCAATTTAGAATTATAGTCATAGTTTA
Found at i:196622 original size:2 final size:2
Alignment explanation
Indices: 196615--196652 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
196605 ATGAATTCAA
196615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
196653 GGGCAAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.