Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004416.1 Hibiscus syriacus cultivar Beakdansim tig00009682_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: 91908
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:44 original size:15 final size:15
Alignment explanation
Indices: 26--58 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
16 GAGGGTATAA
26 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
41 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
56 TAG
1 TAG
59 GAGTCTTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:953 original size:2 final size:2
Alignment explanation
Indices: 948--979 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
938 AAGGAAAAAA
948 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
980 CAAAGTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1036 original size:37 final size:36
Alignment explanation
Indices: 967--1041 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 36
957 TATATATATA
* *
967 TATATATATATATCAAAGTATTAATAAAATAAATAGC
1 TATATATATACACCAAAGTATTAATAAAATAAA-AGC
1004 TATATATATACACCAAA-TACTTAA-AAATATAAAAGC
1 TATATATATACACCAAAGTA-TTAATAAA-ATAAAAGC
1040 TA
1 TA
1042 CCCTTCCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 24 0.71
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (36 bp):
TATATATATACACCAAAGTATTAATAAAATAAAAGC
Found at i:1407 original size:3 final size:3
Alignment explanation
Indices: 1399--1497 Score: 52
Period size: 3 Copynumber: 34.3 Consensus size: 3
1389 ATATATATAT
* *
1399 ATA ATA ATA ATA ATA A-A AT- ATA GTA A-A AAA ATA ATGA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * *
1441 AT- TTA ATA TATA AT- ATA CAT- ATA ATA ATA ATA A-C ATG ATA ATA
1 ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
1484 AAA ATA ATGA ATA A
1 ATA ATA AT-A ATA A
1498 ATATCCATAT
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
2 14 0.19
3 50 0.68
4 10 0.14
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1472 original size:17 final size:17
Alignment explanation
Indices: 1444--1490 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
1434 GAAAATAATT
1444 TAATATATAATATACAT-A
1 TAATA-ATAATA-ACATGA
1462 TAATAATAATAACATGA
1 TAATAATAATAACATGA
*
1479 TAATAAAAATAA
1 TAATAATAATAA
1491 TGAATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 18 0.67
18 5 0.19
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (17 bp):
TAATAATAATAACATGA
Found at i:1887 original size:37 final size:37
Alignment explanation
Indices: 1846--1948 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 37
1836 TACTTATGGA
* * * *
1846 CCTATCTTTAGGAATTTAAATCTTAGTAGAACTTTAT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTTAT
* * *
1883 CCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTTAT
1 CCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTTAT
1920 CCTATTTTTAGGAGTTTGAATCCTAGTAG
1 CCTATTTTTAGGAGTTTGAATCCTAGTAG
1949 GACGAAAATG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (37 bp):
CCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTTAT
Found at i:2798 original size:105 final size:105
Alignment explanation
Indices: 2490--2935 Score: 625
Period size: 105 Copynumber: 4.3 Consensus size: 105
2480 GCATTGTTCC
* * ***
2490 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCAGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAATTG-TTGTTGACA
* * * * *
2554 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
2596 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
* * *
2656 CAGCGGTCCCTTCGTCGTGGAGTTCAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
2696 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTGTTATTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
2761 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2801 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTTTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
2866 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
2906 GAGTCCAATATCCTTCGTCATGAAGTTGAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAA
2936 CTTGCGTTGT
Statistics
Matches: 306, Mismatches: 28, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
100 80 0.26
101 1 0.00
102 7 0.02
104 5 0.02
105 178 0.58
106 35 0.11
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2833 original size:205 final size:210
Alignment explanation
Indices: 2490--2932 Score: 637
Period size: 205 Copynumber: 2.1 Consensus size: 210
2480 GCATTGTTCC
* * *
2490 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCAGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTCGTGAAGTTAAAATTGGCTCTGGAACCAGGAAATTGTTTATTGACAA
* *
2555 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACTGTGAA
66 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCACTGTGAA
*
2620 GTTGAAATTGACTCTGA-A-T-GAA-ATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGGAGTTC
131 GTTGAAATTGACTCTGAGATTGGAAGATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTC
2681 AACTTGCATTGTCTG
196 AACTTGCATTGTCTG
* *** *
2696 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCT-GAGATTGGGAAGTTG-TTATTGACA
1 GAGTCCAATATCCTTCGTCGTGAAGTTAAAATTGGCTCTGGA-ACCAGGAAATTGTTTATTGACA
* * * **
2759 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
65 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCACTGTGA
* *
2824 AGTTGAAATTGGCTCTGAGATTGGGAAGTTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
130 AGTTGAAATTGACTCTGAGATT-GGAAGATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGT
* *
2889 TGAACTTGCGTTGTCTG
194 TCAACTTGCATTGTCTG
*
2906 GAGTCCAATATCCTTCGTCATGAAGTT
1 GAGTCCAATATCCTTCGTCGTGAAGTT
2933 GAACTTGCGT
Statistics
Matches: 209, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
205 85 0.41
206 45 0.22
207 1 0.00
209 3 0.01
210 75 0.36
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (210 bp):
GAGTCCAATATCCTTCGTCGTGAAGTTAAAATTGGCTCTGGAACCAGGAAATTGTTTATTGACAA
CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCACTGTGAA
GTTGAAATTGACTCTGAGATTGGAAGATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTC
AACTTGCATTGTCTG
Found at i:2935 original size:43 final size:43
Alignment explanation
Indices: 2874--2978 Score: 176
Period size: 43 Copynumber: 2.4 Consensus size: 43
2864 AGCAGCGGTC
*
2874 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATAT
*
2917 CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGAAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATAT
2960 CCTTCG-CTGTGAAGTTGAA
1 CCTTCGTC-GTGAAGTTGAA
2979 ATTGGCTCTG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.02
43 57 0.98
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATAT
Found at i:2952 original size:21 final size:21
Alignment explanation
Indices: 2883--2952 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
2873 CCCTTCGTCG
2883 TGAAGTTGAACTTGCGTTGTC
1 TGAAGTTGAACTTGCGTTGTC
* ** *
2904 TGGAGTCCAA-TAT-CCTTCGTC
1 TGAAGTTGAACT-TGCGTT-GTC
2925 ATGAAGTTGAACTTGCGTTGTC
1 -TGAAGTTGAACTTGCGTTGTC
2947 TGAAGT
1 TGAAGT
2953 CCAATATCCT
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 11 0.31
23 4 0.11
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (21 bp):
TGAAGTTGAACTTGCGTTGTC
Found at i:3026 original size:105 final size:106
Alignment explanation
Indices: 2917--3158 Score: 405
Period size: 105 Copynumber: 2.3 Consensus size: 106
2907 AGTCCAATAT
2917 CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* *
2982 GGCTCTGAAATTGAGAAGTTG-TTGTTGACAAGAAGCGGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACAAGCCGTC
* * *
3022 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
3087 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACAAGCCGTC
* *
3128 CCTTCGTTATGAAGTTGAACTTGTGTTGTCT
1 CCTTCGTCATGAAGTTGAACTTGCGTTGTCT
3159 CGAGTGTCAC
Statistics
Matches: 127, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
105 83 0.65
106 44 0.35
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACAAGCCGTC
Found at i:3037 original size:148 final size:148
Alignment explanation
Indices: 2769--3083 Score: 558
Period size: 148 Copynumber: 2.1 Consensus size: 148
2759 AGCAGCGGTC
* *
2769 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * * *
2834 GGCTCTGAGATTGGGAAGTTTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GGCTCTGAAATTGAGAAGTTGTTGTTGACAAGAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
2899 TTGTCTGGAGTCCAATAT
131 TTGTCTGGAGTCCAATAT
*
2917 CCTTCGTCATGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
2982 GGCTCTGAAATTGAGAAGTTGTTGTTGACAAGAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
66 GGCTCTGAAATTGAGAAGTTGTTGTTGACAAGAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
3047 TTGTCTGGAGTCCAATAT
131 TTGTCTGGAGTCCAATAT
*
3065 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
3084 ATTGGCTCTG
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 158 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (148 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
GGCTCTGAAATTGAGAAGTTGTTGTTGACAAGAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
TTGTCTGGAGTCCAATAT
Found at i:3410 original size:36 final size:36
Alignment explanation
Indices: 3363--3438 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
3353 TGTTTGGAGA
* *
3363 GAAACTATCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
3399 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
3435 GAAA
1 GAAA
3439 TGTTTTCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:3613 original size:39 final size:39
Alignment explanation
Indices: 3559--3633 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
3549 TCAATGTTTA
* * *
3559 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAATTTTC
* * *
3598 TGTTTCGAGGGAAACTATCTCATGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAATT
3634 AATTTCAAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAATTTTC
Found at i:3672 original size:105 final size:104
Alignment explanation
Indices: 3338--3656 Score: 509
Period size: 105 Copynumber: 3.1 Consensus size: 104
3328 TTCGTTAAAT
* ** * *
3338 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTATCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
3400 AAACTATCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
*
3439 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGAG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
3504 AAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAG-AAAAAATTCATTTCAAGGGAAA
3544 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
3609 AAACTATCTCATGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
3648 TGTTTTCAA
1 TGTTTTCAA
3657 GAGAAACTGT
Statistics
Matches: 201, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
101 45 0.22
103 3 0.01
104 53 0.26
105 100 0.50
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:3823 original size:36 final size:36
Alignment explanation
Indices: 3783--3895 Score: 115
Period size: 36 Copynumber: 3.1 Consensus size: 36
3773 AACGGTCTCA
3783 AGTGAGACAAATCTTGTTTTAAGAAAAACAATCTTG
1 AGTGAGACAAATCTTGTTTTAAGAAAAACAATCTTG
* * * * **
3819 AGTGAAATAAATCTT-CTTTAGAGAAAAACAGTCTCA
1 AGTGAGACAAATCTTGTTTTA-AGAAAAACAATCTTG
*
3855 AGTGAGACAAAGT-ATGTTTTAAGAAAAACAAAT-TTG
1 AGTGAGACAAA-TCTTGTTTTAAGAAAAAC-AATCTTG
3891 AGTGA
1 AGTGA
3896 AATAATCATT
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
35 4 0.07
36 49 0.82
37 7 0.12
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (36 bp):
AGTGAGACAAATCTTGTTTTAAGAAAAACAATCTTG
Found at i:3855 original size:72 final size:74
Alignment explanation
Indices: 3730--3900 Score: 224
Period size: 72 Copynumber: 2.3 Consensus size: 74
3720 AATCTTCTTA
** * * *
3730 AAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGTGAGACAAA-
1 AAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTAGAGTAAAAACAGTCTCAAGTGAGACAAAG
*
3794 TCTTGTTTTAAG
64 T-ATGTTTTAAG
3806 AAAAACAATCTTGAGTGAAATAAAT-CTTCTTTAGAG-AAAAACAGTCTCAAGTGAGACAAAGTA
1 AAAAACAATCTTGAGTGAAATAAATCCTTCTTTAGAGTAAAAACAGTCTCAAGTGAGACAAAGTA
3869 TGTTTTAAG
66 TGTTTTAAG
3878 AAAAACAAAT-TTGAGTGAAATAA
1 AAAAAC-AATCTTGAGTGAAATAA
3901 TCATTTGCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
72 50 0.57
73 14 0.16
75 4 0.05
76 19 0.22
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (74 bp):
AAAAACAATCTTGAGTGAAATAAATCCTTCTTTAGAGTAAAAACAGTCTCAAGTGAGACAAAGTA
TGTTTTAAG
Found at i:5349 original size:183 final size:183
Alignment explanation
Indices: 5041--5577 Score: 968
Period size: 183 Copynumber: 2.9 Consensus size: 183
5031 ATCAGGTTTA
* **
5041 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAACAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATT
* **
5106 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
5170 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
5224 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATT
*
5289 GCCAAGTGTCCGAGCAGTGTCATAGTTTTAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
5354 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
5407 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATT
*
5472 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGACAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
5537 TCCTCTATAACCAATTGCCTAAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
5578 CGGATTTAAT
Statistics
Matches: 341, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 340 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:11283 original size:18 final size:17
Alignment explanation
Indices: 11262--11304 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
11252 ATATATACAT
11262 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
11280 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
11297 ATAA-AATA
1 ATAATAATA
11305 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:11305 original size:52 final size:54
Alignment explanation
Indices: 11190--11305 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 54
11180 AATATTAAAG
*
11190 AAATATATATATATATAATAATAATAAAATATAGTAAAAAAAATAAATGAAAATA
1 AAATATATATACATATAATAATAATAAAATATAGTAAAAAAAATAAATG-AAATA
* *
11245 ATCTAATATATATACATATAATAATAATAACATGA-A-TAATAAAAATAAATG-AATA
1 A---AATATATATACATATAATAATAATAAAAT-ATAGTAAAAAAAATAAATGAAATA
11300 AAATAT
1 AAATAT
11306 CCATATAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
52 5 0.09
55 6 0.11
57 14 0.26
58 28 0.52
59 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (54 bp):
AAATATATATACATATAATAATAATAAAATATAGTAAAAAAAATAAATGAAATA
Found at i:11702 original size:37 final size:38
Alignment explanation
Indices: 11661--11765 Score: 133
Period size: 37 Copynumber: 2.8 Consensus size: 38
11651 GTACTTGTGG
* * * *
11661 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAA-CTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATCTCT
* * *
11698 ATCCTATTTTTAGGAGTTTGAATCCTAGCA-AATTTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATCTCT
11735 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
11766 GACGAAAATG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 2 0.03
37 56 0.97
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (38 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAATCTCT
Found at i:13995 original size:2 final size:2
Alignment explanation
Indices: 13988--14020 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13978 TTCATCTTCC
13988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14021 CATTTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14747 original size:22 final size:20
Alignment explanation
Indices: 14710--14754 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
14700 TTTTATATTT
*
14710 ATATAATTTATTATCATATC
1 ATATAATTTATTATCATAAC
*
14730 ATATAGTTTATATCATCATAAC
1 ATATAATTTAT-T-ATCATAAC
14752 ATA
1 ATA
14755 GCATATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 10 0.48
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATAATTTATTATCATAAC
Found at i:19536 original size:19 final size:19
Alignment explanation
Indices: 19512--19559 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
19502 ATTTAAGGGG
*
19512 GTGCATCGATGCACTACTT
1 GTGCATCGATGCACTACAT
*
19531 GTGCATCGATGCACTTCAT
1 GTGCATCGATGCACTACAT
19550 GTGCATCGAT
1 GTGCATCGAT
19560 ACACCTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCACTACAT
Found at i:23237 original size:27 final size:27
Alignment explanation
Indices: 23206--23275 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
23196 GCTATAAAAT
23206 TTTGTCCCGAAGGACCTATGTATTGTA
1 TTTGTCCCGAAGGACCTATGTATTGTA
23233 TTTGTCCCGAAGGACCTATGTATTGTA
1 TTTGTCCCGAAGGACCTATGTATTGTA
*
23260 TTTGTCCCGAAAGACC
1 TTTGTCCCGAAGGACC
23276 ACTCCTTAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
TTTGTCCCGAAGGACCTATGTATTGTA
Found at i:31235 original size:24 final size:24
Alignment explanation
Indices: 31196--31292 Score: 85
Period size: 24 Copynumber: 4.2 Consensus size: 24
31186 TGTTAAAATG
* * *
31196 ATAAATGAACACAAATGAACGAAT
1 ATAAACGAACATAAACGAACGAAT
* *
31220 ATAAACGAATATAAATGAACG---
1 ATAAACGAACATAAACGAACGAAT
* *
31241 -TAAACGAACACAAACGAATGAAT
1 ATAAACGAACATAAACGAACGAAT
* *
31264 ATAAACAAACATAAACGAACGAAC
1 ATAAACGAACATAAACGAACGAAT
31288 ATAAA
1 ATAAA
31293 ATTATTTGAA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
20 16 0.28
24 42 0.72
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (24 bp):
ATAAACGAACATAAACGAACGAAT
Found at i:31251 original size:44 final size:44
Alignment explanation
Indices: 31197--31284 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
31187 GTTAAAATGA
* * * * *
31197 TAAATGAACACAAATGAACGAATATAAACGAATATAAATGAACG
1 TAAACGAACACAAACGAACGAATATAAACAAACATAAACGAACG
*
31241 TAAACGAACACAAACGAATGAATATAAACAAACATAAACGAACG
1 TAAACGAACACAAACGAACGAATATAAACAAACATAAACGAACG
31285 AACATAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (44 bp):
TAAACGAACACAAACGAACGAATATAAACAAACATAAACGAACG
Found at i:35583 original size:21 final size:21
Alignment explanation
Indices: 35559--35600 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
35549 AGTTTATTTT
*
35559 TAAATTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
35580 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
35601 AACTTGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.50
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCG
Found at i:35637 original size:33 final size:32
Alignment explanation
Indices: 35589--35665 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 32
35579 GTAAACTTTG
*
35589 TTTCAATTATCGAACTT-GTAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTAG-AAGTATTTAAGTA
*
35621 TTTGAATTTATCGAACTTAGAAGTATTTAAGTA
1 TTTCAA-TTATCGAACTTAGAAGTATTTAAGTA
35654 TTTCAATTATCG
1 TTTCAATTATCG
35666 TAAACTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.28
33 28 0.70
34 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45
Consensus pattern (32 bp):
TTTCAATTATCGAACTTAGAAGTATTTAAGTA
Found at i:35937 original size:21 final size:22
Alignment explanation
Indices: 35911--35952 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35901 GGTGAAAAAA
*
35911 CCGGATCGGTTTTT-ATCCGAT
1 CCGGATCGATTTTTCATCCGAT
35932 CCGGATCGATTTTTCATCCGA
1 CCGGATCGATTTTTCATCCGA
35953 CTTTATGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (22 bp):
CCGGATCGATTTTTCATCCGAT
Found at i:39599 original size:22 final size:22
Alignment explanation
Indices: 39572--39630 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
39562 ACACCGTTTG
39572 ATATAGACTCTCAACACAAGAA
1 ATATAGACTCTCAACACAAGAA
* *
39594 ATATAGACTGTCAACACAATAA
1 ATATAGACTCTCAACACAAGAA
39616 ATATAGACTCTCAAC
1 ATATAGACTCTCAAC
39631 CATACAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (22 bp):
ATATAGACTCTCAACACAAGAA
Found at i:47592 original size:134 final size:134
Alignment explanation
Indices: 47380--47732 Score: 589
Period size: 134 Copynumber: 2.6 Consensus size: 134
47370 GTCGTCTAAG
* * * * *
47380 GGTGACACGGCTCCTACGTGAAGAGGAGGTCTAGTCGGGGGATGACACGACTCATACGTGATGAA
1 GGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAA
* * *
47445 GAGTTCTGGCCATCTTTAGGAAGAGTGATAACTCGGTTCCTACGCGATGAGGACTTTTGGTTATC
66 GAGTTCTGGCCATCTTTAGGAAGAATGAAAACTCGGTTCCTACGCGATGAGGACTATTGGTTATC
47510 TATA
131 TATA
* *
47514 GGTGACACGACTCCTATGTGATGAAGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAA
1 GGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAA
*
47579 GAGTTCTGACCATCTTTAGGAAGAATGAAAACTCGGTTCCTACGCGATGAGGACTATTGGTTATC
66 GAGTTCTGGCCATCTTTAGGAAGAATGAAAACTCGGTTCCTACGCGATGAGGACTATTGGTTATC
*
47644 TATG
131 TATA
47648 GGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAA
1 GGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAA
*
47713 GAGTTATGGCCATCTTTAGG
66 GAGTTCTGGCCATCTTTAGG
47733 GATACTGGTT
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 203 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (134 bp):
GGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAA
GAGTTCTGGCCATCTTTAGGAAGAATGAAAACTCGGTTCCTACGCGATGAGGACTATTGGTTATC
TATA
Found at i:47780 original size:28 final size:28
Alignment explanation
Indices: 47740--47847 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
47730 AGGGATACTG
** *
47740 GTTTCAAGGGAAACCGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
47768 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
47796 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
* *
47824 CTTTCAAGAA-AAACAAACTCAAAG
1 GTTTCAA-AAGAAACAGACTCAAAG
47848 GTGATGTGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
28 72 0.97
29 2 0.03
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:48031 original size:32 final size:34
Alignment explanation
Indices: 47984--48150 Score: 133
Period size: 36 Copynumber: 4.7 Consensus size: 34
47974 CAAAGATCGA
*
47984 TGTTTCGAGAGAAACAAACTCAAAGATG-T-TTT
1 TGTTTCAAGAGAAACAAACTCAAAGATGTTATTT
* *
48016 TGTTTCAAGAAAAACATACTCAAAGATTTTGTTTATTT
1 TGTTTCAAGAGAAACAAACTCAAAGA---TG-TTATTT
* *
48054 TGTTTCAAGGGAAACAAACTCAAAGATGGTAAATTT
1 TGTTTCAAGAGAAACAAACTCAAAGAT-GT-TATTT
* * *
48090 TGTTTCGAAG-GAAACATACTCAAATATTTTTTCATTT
1 TGTTTC-AAGAGAAACAAACTCAAAGA--TGTT-ATTT
* *
48127 TGTTTCAAGTGAAACAGACTCAAA
1 TGTTTCAAGAGAAACAAACTCAAA
48151 AATTTCTCAA
Statistics
Matches: 110, Mismatches: 12, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
32 23 0.21
35 4 0.04
36 28 0.25
37 28 0.25
38 27 0.25
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (34 bp):
TGTTTCAAGAGAAACAAACTCAAAGATGTTATTT
Found at i:48119 original size:74 final size:69
Alignment explanation
Indices: 47984--48150 Score: 210
Period size: 73 Copynumber: 2.3 Consensus size: 69
47974 CAAAGATCGA
*
47984 TGTTTCGAGAGAAACAAACTCAAAGATGTTTTTGTTTCAAGAAAAACATACTCAAAGATTTTGTT
1 TGTTTCAAGAGAAACAAACTCAAAGATGTTTTTGTTTCAAGAAAAACATACTCAAAGATTTT-TT
*
48049 TATTT
65 CATTT
* * *
48054 TGTTTCAAGGGAAACAAACTCAAAGATGGTAAATTTTGTTTCGAAG-GAAACATACTCAAATATT
1 TGTTTCAAGAGAAACAAACTCAAAGAT-GT---TTTTGTTTC-AAGAAAAACATACTCAAAGATT
48118 TTTTCATTT
61 TTTTCATTT
* *
48127 TGTTTCAAGTGAAACAGACTCAAA
1 TGTTTCAAGAGAAACAAACTCAAA
48151 AATTTCTCAA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
70 25 0.29
71 2 0.02
73 28 0.33
74 27 0.32
75 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (69 bp):
TGTTTCAAGAGAAACAAACTCAAAGATGTTTTTGTTTCAAGAAAAACATACTCAAAGATTTTTTC
ATTT
Found at i:48141 original size:37 final size:36
Alignment explanation
Indices: 48013--48155 Score: 144
Period size: 37 Copynumber: 3.9 Consensus size: 36
48003 TCAAAGATGT
* *
48013 TTTTGTTTCAAGAAAAACATACTCAAAGATTTTGTTTA
1 TTTTGTTTCAAG-GAAACATACTCAAAGATTTT-TTAA
* ** *
48051 TTTTGTTTCAAGGGAAACAAACTCAAAGA-TGGTAAA
1 TTTTGTTTCAA-GGAAACATACTCAAAGATTTTTTAA
* *
48087 TTTTGTTTCGAAGGAAACATACTCAAATATTTTTTCA
1 TTTTGTTTC-AAGGAAACATACTCAAAGATTTTTTAA
* *
48124 TTTTGTTTCAAGTGAAACAGACTCAAAAATTT
1 TTTTGTTTCAAG-GAAACATACTCAAAGATTT
48156 CTCAAGAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
36 29 0.33
37 32 0.37
38 25 0.29
39 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (36 bp):
TTTTGTTTCAAGGAAACATACTCAAAGATTTTTTAA
Found at i:48518 original size:107 final size:107
Alignment explanation
Indices: 48371--48793 Score: 595
Period size: 107 Copynumber: 4.0 Consensus size: 107
48361 TGAGAAAACG
* * * *
48371 ATCTCAAGTGAGATCAA-CTTTGTTT-AATGTGAAACAAATTCGAAATTTGTATTCTCAAAGG-A
1 ATCTCAAGTGAGATTAATTTTTGTTTCAA-GTGAATCAAATTCGAAATTTGTA-TATCAAAGGAA
*
48433 AAAATGTCTCAACCGAGACGAAATTCGTTTTGAAAGAAATAACA
64 AAAATGTCTCAAACGAGACGAAATTCGTTTTGAAAGAAATAACA
* * *
48477 ATCTCAAGTGAGATTAATTTTTGTTTCAAATGAATCAAATTCGGAATTTGTATATCAAATGAAAA
1 ATCTCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
* * * *
48542 AATGTCTTAAATGAGACGAAATTTC-TTTTGCAATAAATAACA
66 AATGTCTCAAACGAGACGAAA-TTCGTTTTGAAAGAAATAACA
48584 ATCTCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
1 ATCTCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
** * *
48649 AATGTCTCAAACGAGACGAAATTTATTTTGAAATAAATAATA
66 AATGTCTCAAACGAGACGAAATTCGTTTTGAAAGAAATAACA
48691 ATCTCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
1 ATCTCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
* * * *
48756 AATGTCTCAAGCAAGACGAAGTTTGTTTT-AAGAGAAAT
66 AATGTCTCAAACGAGACGAAATTCGTTTTGAA-AGAAAT
48794 TGTCTTAAAT
Statistics
Matches: 286, Mismatches: 25, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
106 27 0.09
107 254 0.89
108 5 0.02
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (107 bp):
ATCTCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
AATGTCTCAAACGAGACGAAATTCGTTTTGAAAGAAATAACA
Found at i:50427 original size:13 final size:12
Alignment explanation
Indices: 50408--50486 Score: 63
Period size: 11 Copynumber: 6.2 Consensus size: 12
50398 CCTTGTCATC
50408 TTTTTTCTTTGT
1 TTTTTTCTTTGT
50420 TGTTTTTCTTTG-
1 T-TTTTTCTTTGT
*
50432 TTTTTTCTTCG-
1 TTTTTTCTTTGT
* *
50443 CTATTTCTTTGCT
1 TTTTTTCTTTG-T
50456 TTTTCTTCTTTGCT
1 TTTT-TTCTTTG-T
50470 TCTTTTCTCTTTGT
1 T-TTTT-TCTTTGT
50484 TTT
1 TTT
50487 GATTGGATCT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
11 17 0.31
12 2 0.04
13 14 0.25
14 13 0.24
15 9 0.16
ACGTcount: A:0.01, C:0.16, G:0.09, T:0.73
Consensus pattern (12 bp):
TTTTTTCTTTGT
Found at i:51778 original size:21 final size:22
Alignment explanation
Indices: 51727--51778 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
51717 GAGTTAATGC
*
51727 ATATGAAAATACATAAAAATAA
1 ATATGAAAATACATAAAAACAA
* *
51749 A-ATGTAAATACA-AAATACAA
1 ATATGAAAATACATAAAAACAA
*
51769 ATATGCAAAT
1 ATATGAAAAT
51779 GCAGATGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 7 0.28
21 17 0.68
22 1 0.04
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (22 bp):
ATATGAAAATACATAAAAACAA
Found at i:54673 original size:139 final size:140
Alignment explanation
Indices: 54518--54796 Score: 506
Period size: 139 Copynumber: 2.0 Consensus size: 140
54508 CACAAATTAA
54518 CAAGTGAAATTAATCAATTAACCAAAAACAATTAACAGTGCAAAAATGACTAAAGTATAAAAAGG
1 CAAGTGAAATTAATCAATTAACCAAAAACAATTAACAGTGCAAAAATGACTAAAGTATAAAAAGG
*
54583 ATG-AATTTAAAGTTTGAATTTAAAAACAAAGTTTCAATTGACGACTGAAATATAAAAAAGTAAG
66 ATGAAATTTAAAGTTTGAATTAAAAAACAAAGTTTCAATTGACGACTGAAATATAAAAAAGTAAG
54647 ATATCATGAT
131 ATATCATGAT
*
54657 CAAGTGAAATTAATCAATTAACCAAAAGCAATTAACAGTGCAAAAATGACTAAAGTATAAAAAGG
1 CAAGTGAAATTAATCAATTAACCAAAAACAATTAACAGTGCAAAAATGACTAAAGTATAAAAAGG
* * *
54722 ATGAAATTTAAAGTTTGAATTAAAAAACAAAGTTTCAATTGAGGACTGAAATATAAGAAAGTATG
66 ATGAAATTTAAAGTTTGAATTAAAAAACAAAGTTTCAATTGACGACTGAAATATAAAAAAGTAAG
54787 ATATCATGAT
131 ATATCATGAT
54797 ACTAACAAAA
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
139 67 0.50
140 67 0.50
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (140 bp):
CAAGTGAAATTAATCAATTAACCAAAAACAATTAACAGTGCAAAAATGACTAAAGTATAAAAAGG
ATGAAATTTAAAGTTTGAATTAAAAAACAAAGTTTCAATTGACGACTGAAATATAAAAAAGTAAG
ATATCATGAT
Found at i:56364 original size:3 final size:3
Alignment explanation
Indices: 56356--56405 Score: 57
Period size: 3 Copynumber: 15.7 Consensus size: 3
56346 AAGAAATGTA
56356 AAT AAT AAT AAAT AAT AAT AAT AAAT AAT AAT AAT AAAT AAAT AA- AAT
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT -AAT -AAT AAT AAT
56404 AA
1 AA
56406 ATAGAACAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.05
3 28 0.65
4 13 0.30
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:56369 original size:10 final size:10
Alignment explanation
Indices: 56354--56408 Score: 71
Period size: 10 Copynumber: 5.6 Consensus size: 10
56344 AAAAGAAATG
56354 TAAATAATAA
1 TAAATAATAA
56364 TAAATAATAA
1 TAAATAATAA
56374 T-AATAAATAA
1 TAAAT-AATAA
56384 T-AATAATAAA
1 TAAATAAT-AA
56394 TAAATAA-AA
1 TAAATAATAA
56403 TAAATA
1 TAAATA
56409 GAACAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
9 14 0.33
10 23 0.55
11 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAATAATAA
Found at i:56374 original size:13 final size:13
Alignment explanation
Indices: 56356--56408 Score: 90
Period size: 13 Copynumber: 4.1 Consensus size: 13
56346 AAGAAATGTA
56356 AATAATAATAAAT
1 AATAATAATAAAT
56369 AATAATAATAAAT
1 AATAATAATAAAT
56382 AATAATAATAAAT
1 AATAATAATAAAT
56395 AAATAA-AATAAAT
1 -AATAATAATAAAT
56408 A
1 A
56409 GAACAAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
12 1 0.03
13 33 0.85
14 5 0.13
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:56408 original size:17 final size:17
Alignment explanation
Indices: 56356--56401 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
56346 AAGAAATGTA
56356 AATAAT-AATAAATAAT
1 AATAATAAATAAATAAT
56372 AATAATAAAT-AATAAT
1 AATAATAAATAAATAAT
56388 AATAAATAAATAAA
1 AAT-AATAAATAAA
56402 ATAAATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 15 0.56
17 10 0.37
18 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATAAATAAATAAT
Found at i:57305 original size:18 final size:18
Alignment explanation
Indices: 57282--57333 Score: 72
Period size: 17 Copynumber: 3.0 Consensus size: 18
57272 TTTTTACAAA
57282 TTATTATTTATATATATT
1 TTATTATTTATATATATT
*
57300 TTATTATTTAT-TTTATT
1 TTATTATTTATATATATT
*
57317 TTATT-TATATATATATT
1 TTATTATTTATATATATT
57334 ACATAGTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 4 0.13
17 15 0.50
18 11 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTATTTATATATATT
Found at i:57509 original size:23 final size:22
Alignment explanation
Indices: 57470--57529 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
57460 TCTATTTTAT
*
57470 TCTTTTTTTTATTTTGTCTT-C
1 TCTTGTTTTTATTTTGTCTTGC
* *
57491 TCTGTGTTTTTATTCTTGTTTTGT
1 TCT-TGTTTTTATT-TTGTCTTGC
57515 TCTTGTTTTTATTTT
1 TCTTGTTTTTATTTT
57530 TATTATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 3 0.09
22 11 0.33
23 16 0.48
24 3 0.09
ACGTcount: A:0.05, C:0.10, G:0.10, T:0.75
Consensus pattern (22 bp):
TCTTGTTTTTATTTTGTCTTGC
Found at i:58121 original size:49 final size:51
Alignment explanation
Indices: 58068--58188 Score: 147
Period size: 49 Copynumber: 2.4 Consensus size: 51
58058 AAAATGTTAT
* * *
58068 CACTTAACACATACTTACACCGGCATAAATGAATAAAAT-AAAAA-TATAA
1 CACTTAACACATACTTACACAGACATAAATAAATAAAATAAAAAAGTATAA
* ** * *
58117 CACTTAACACATACTTACAAAGATGTAAGTAAATAAAATAAAAAAGTGTAA
1 CACTTAACACATACTTACACAGACATAAATAAATAAAATAAAAAAGTATAA
*
58168 CACTTAATACATACTTACACA
1 CACTTAACACATACTTACACA
58189 CATCTCTCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 32 0.53
50 5 0.08
51 23 0.38
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (51 bp):
CACTTAACACATACTTACACAGACATAAATAAATAAAATAAAAAAGTATAA
Found at i:58370 original size:24 final size:25
Alignment explanation
Indices: 58297--58370 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 25
58287 AAATTTGATT
58297 AAATATATATAAATTATAAATAATAGA
1 AAATATA-ATAAATTATAAAT-ATAGA
* * * **
58324 AACTTATATTAAGTTATTTATATA-A
1 AA-ATATAATAAATTATAAATATAGA
58349 AAATATAATAAATTATAAATAT
1 AAATATAATAAATTATAAATAT
58371 GATTATGAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
24 15 0.42
25 3 0.08
26 3 0.08
27 11 0.31
28 4 0.11
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (25 bp):
AAATATAATAAATTATAAATATAGA
Found at i:59844 original size:4 final size:4
Alignment explanation
Indices: 59837--59867 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
59827 AATAATAATA
*
59837 TATG TATG TATG TATG TATG TATG TAAG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
59868 ATGTTCGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:62883 original size:30 final size:30
Alignment explanation
Indices: 62832--62905 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
62822 CAAACGTTTT
*
62832 TTAATCATTCTT-TAGGTACTTGTTTTTGTA
1 TTAATCATT-TTGTAGGAACTTGTTTTTGTA
*
62862 TTAATCCTTTTGTAGGAACTTGTTTTTGTA
1 TTAATCATTTTGTAGGAACTTGTTTTTGTA
62892 TTAATCATTTTGTA
1 TTAATCATTTTGTA
62906 TTTCGACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 2 0.05
30 38 0.95
ACGTcount: A:0.22, C:0.09, G:0.14, T:0.55
Consensus pattern (30 bp):
TTAATCATTTTGTAGGAACTTGTTTTTGTA
Found at i:63178 original size:6 final size:6
Alignment explanation
Indices: 63159--63188 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
63149 ATTTGAAAAA
*
63159 TTTAGG TTTGGG TTTAGG TTTAGG TTTAGG
1 TTTAGG TTTAGG TTTAGG TTTAGG TTTAGG
63189 GGAAAAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (6 bp):
TTTAGG
Found at i:64113 original size:2 final size:2
Alignment explanation
Indices: 64106--64137 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64096 GAAAAAGAAT
64106 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64138 GAATTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65312 original size:24 final size:25
Alignment explanation
Indices: 65280--65356 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
65270 TTTTTATATT
65280 TTTATTATATTTTAAATTGATATAA
1 TTTATTATATTTTAAATTGATATAA
** * * *
65305 TTTA-TATATAATAATATT-TTTTGTA
1 TTTATTATATTTTAA-ATTGATAT-AA
*
65330 TTTATTATAATTTAAATTGATATAA
1 TTTATTATATTTTAAATTGATATAA
65355 TT
1 TT
65357 CATATATAAG
Statistics
Matches: 37, Mismatches: 11, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
24 10 0.27
25 18 0.49
26 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTATTATATTTTAAATTGATATAA
Found at i:71162 original size:30 final size:30
Alignment explanation
Indices: 71126--71228 Score: 170
Period size: 30 Copynumber: 3.4 Consensus size: 30
71116 CCCGAAGGAC
**
71126 CTATCCAGAGGTCATAAAGATCCTTAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
71156 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
71186 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
71216 CTGTCCATAGGTC
1 CTATCCAGAGGTC
71229 CCGAAGAACC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:71245 original size:60 final size:61
Alignment explanation
Indices: 71126--71251 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 61
71116 CCCGAAGGAC
* * * *
71126 CTATCCAGAGGTCATAAAGATCCTTAGTAACTATCCAGAGGTCATAAAGATCCTCGGT-AA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAA
* * * * *
71186 CTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCAGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAA
71247 CTATC
1 CTATC
71252 TATATATTCC
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
60 49 0.88
61 7 0.12
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (61 bp):
CTATCCAGAGGTCATAAAGATCCTCAGTAACTATCCAGAGGTCACAAAGAACCTAGGTAAA
Found at i:71851 original size:2 final size:2
Alignment explanation
Indices: 71839--71890 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
71829 TACACAACTC
71839 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71880 AT AT AT AT AT A
1 AT AT AT AT AT A
71891 CTGTAACATG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72422 original size:24 final size:20
Alignment explanation
Indices: 72369--72445 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 20
72359 TTTCCCTTTA
72369 AGTGCATCGATGCATTCAAC
1 AGTGCATCGATGCATTCAAC
*
72389 AGTGCATCGATGCATTCTTTAGC
1 AGTGCATCGATGCATTC---AAC
* *
72412 ATGTGCATCGATGCAGT-ACC
1 A-GTGCATCGATGCATTCAAC
*
72432 CGTGCATCGATGCA
1 AGTGCATCGATGCA
72446 CAAATATCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
19 13 0.27
20 19 0.39
23 3 0.06
24 14 0.29
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (20 bp):
AGTGCATCGATGCATTCAAC
Found at i:72550 original size:45 final size:45
Alignment explanation
Indices: 72434--72535 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
72424 GCAGTACCCG
* * * *
72434 TGCATCGATGCACAAATAT-CCTTCGATGTTTTCATTTTAAGGGGA
1 TGCATCGATGCACCAAT-TGCATTCGATGTTTCCATTTTAAGAGGA
*
72479 TGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAATAGG-
1 TGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAAGAGGA
72523 TGCATCGATGCAC
1 TGCATCGATGCAC
72536 TTCCTGTGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
44 14 0.27
45 37 0.73
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (45 bp):
TGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAAGAGGA
Found at i:75998 original size:30 final size:30
Alignment explanation
Indices: 75962--76034 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
75952 CCCGAAGGAC
75962 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
75992 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
76022 CTGTCCATAGGTC
1 CTATCCAGAGGTC
76035 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:76791 original size:2 final size:2
Alignment explanation
Indices: 76659--76772 Score: 207
Period size: 2 Copynumber: 58.5 Consensus size: 2
76649 TACACAACTC
76659 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76700 AT AT AT AT -T AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
76773 CTGTAATATG
Statistics
Matches: 109, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
1 3 0.03
2 106 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77379 original size:64 final size:63
Alignment explanation
Indices: 77292--77411 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 63
77282 TTATTCCGTG
* *
77292 CATCGATGCACAAATCACCTTCGATGTTT-TCATTTTAAGGGGATGCATCGATGCACTCCTTATA
1 CATCGATGCACAAATCACATTCGATGTTTCT-ATTTTAAGAGG-TGCATCGATGCACTCCTTATA
* ** *
77356 CATCGATGCACCAATTGCATTCGATGTTTCTATTTTAATAGGTGCATCGATGCACT
1 CATCGATGCACAAATCACATTCGATGTTTCTATTTTAAGAGGTGCATCGATGCACT
77412 TCCTGTGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
63 14 0.29
64 34 0.69
65 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (63 bp):
CATCGATGCACAAATCACATTCGATGTTTCTATTTTAAGAGGTGCATCGATGCACTCCTTATA
Found at i:80515 original size:14 final size:14
Alignment explanation
Indices: 80496--80543 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
80486 TTTGACATAA
80496 TAATAATTGATTTT
1 TAATAATTGATTTT
80510 TAATAATT-ATTTTT
1 TAATAATTGA-TTTT
80524 TACATAATAATGATTTT
1 TA-ATAAT--TGATTTT
80541 TAA
1 TAA
80544 ATTACTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.03
14 14 0.48
15 5 0.17
16 1 0.03
17 7 0.24
18 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (14 bp):
TAATAATTGATTTT
Found at i:80515 original size:17 final size:16
Alignment explanation
Indices: 80493--80543 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
80483 TATTTTGACA
80493 TAATAATAATTGATTTT
1 TAATAATAA-TGATTTT
*
80510 TAATAATTAT--TTTT
1 TAATAATAATGATTTT
80524 TACATAATAATGATTTT
1 TA-ATAATAATGATTTT
80541 TAA
1 TAA
80544 ATTACTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 2 0.07
17 14 0.48
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (16 bp):
TAATAATAATGATTTT
Found at i:81162 original size:27 final size:29
Alignment explanation
Indices: 81088--81163 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
81078 TTTATTTAAG
**
81088 TATCTAAAGTAT-TTTTTTATCAAAATAAA
1 TATCTAAA-TATATTTTTGGTCAAAATAAA
81117 TATCTAAACTTATATTTTTGGTCAAAATAAA
1 TATCTAAA--TATATTTTTGGTCAAAATAAA
*
81148 TATGTAAA-ATATTTTT
1 TATCTAAATATATTTTT
81164 TGATATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.20
29 8 0.20
30 3 0.07
31 22 0.54
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (29 bp):
TATCTAAATATATTTTTGGTCAAAATAAA
Found at i:81327 original size:30 final size:29
Alignment explanation
Indices: 81283--81356 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 29
81273 TTTAGGAACC
*
81283 AAAAATATTTTAAATATCTATTTTAACTA
1 AAAAATAATTTAAATATCTATTTTAACTA
* *
81312 AAAAATAAATTTAAATATTTATTTTAA-TT
1 AAAAAT-AATTTAAATATCTATTTTAACTA
*
81341 AAAAATATTTTAAATA
1 AAAAATAATTTAAATA
81357 CTTAAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 9 0.22
29 13 0.32
30 18 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
AAAAATAATTTAAATATCTATTTTAACTA
Found at i:81491 original size:20 final size:20
Alignment explanation
Indices: 81466--81507 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
81456 ATCTACGATT
81466 CCATTCTAAGGAATGAGGAC
1 CCATTCTAAGGAATGAGGAC
81486 CCATTCTAAGGAATGAGGAC
1 CCATTCTAAGGAATGAGGAC
81506 CC
1 CC
81508 TAAGACTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (20 bp):
CCATTCTAAGGAATGAGGAC
Found at i:86042 original size:3 final size:3
Alignment explanation
Indices: 86034--86093 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
86024 TTAATTTGTC
86034 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
86082 ATA ATA ATA ATA
1 ATA ATA ATA ATA
86094 GCCAAATAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.