genome.fa.s8242.2.7.7.80.10.50.1000.48.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  48  of  73  ( 8740 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11466637--11466735	37	2.7	37	87	4	137	43	11	17	28	1.83
11469261--11469294	10	3.4	10	92	8	52	0	17	0	82	0.67
11470705--11470779	29	2.6	29	93	2	123	41	9	24	25	1.84
11473958--11474033	30	2.6	30	80	13	97	13	15	9	61	1.55
11483403--11483490	30	3.0	29	81	8	106	38	5	2	53	1.37
11483625--11483746	30	3.8	30	70	24	95	58	0	4	37	1.17
11483624--11483759	69	2.0	65	83	10	168	56	0	3	39	1.17
11483681--11483937	30	8.6	29	75	10	175	50	0	9	38	1.40
11483696--11483927	60	3.9	60	75	8	224	51	0	9	37	1.41
11483927--11483974	18	2.7	18	75	15	55	45	0	10	43	1.38
11486338--11486409	29	2.5	29	100	0	144	15	19	8	56	1.63
11487002--11487043	3	14.3	3	90	5	68	66	0	0	33	0.92
11487246--11487744	137	3.6	137	84	3	619	26	17	28	27	1.97
11487246--11487744	275	1.8	274	85	3	707	26	17	28	27	1.97
11488089--11488187	37	2.7	37	87	4	137	43	11	17	28	1.83
11490713--11490747	11	3.3	11	92	4	54	0	11	0	88	0.51
11490713--11490747	10	3.4	10	88	7	52	0	11	0	88	0.51
11492157--11492231	29	2.6	29	93	2	123	41	8	24	26	1.82
11495408--11495483	30	2.6	30	80	13	97	13	15	9	61	1.55
11502524--11502750	116	1.9	118	90	2	359	25	15	21	37	1.93
11503435--11503479	18	2.4	19	81	7	56	31	4	0	64	1.13
11503919--11503997	31	2.5	31	81	0	95	50	11	10	27	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11505819--11505885	30	2.3	29	82	5	82	40	2	1	55	1.24
11506049--11506256	29	6.7	30	70	18	124	54	0	6	37	1.33
11506046--11506157	59	1.9	59	85	7	156	55	0	8	36	1.30
11505994--11506222	126	1.8	125	81	9	286	53	1	7	37	1.39
11506063--11506255	97	2.0	97	85	6	266	54	1	6	37	1.34
11506029--11506259	127	1.8	128	82	9	301	53	1	6	38	1.35
11506244--11506299	23	2.4	24	81	6	69	55	0	10	33	1.35
11506024--11506335	30	10.3	29	71	16	147	55	1	7	35	1.37
11507823--11507861	21	1.9	20	84	5	51	33	0	28	38	1.57
11508048--11508126	24	3.7	22	75	19	71	31	18	26	22	1.97
11512101--11512177	24	3.6	22	74	14	65	31	20	24	23	1.98
11519376--11519417	21	2.0	21	90	0	66	28	26	21	23	1.99
11519491--11519551	30	2.0	31	96	3	115	42	18	6	32	1.76
11520917--11521007	31	3.0	31	93	3	159	34	6	16	42	1.74
11521081--11521122	21	2.0	21	95	0	75	23	21	28	26	1.99
11522886--11522933	18	2.6	19	83	6	55	45	22	29	2	1.64
11522901--11522936	18	1.9	19	94	5	65	44	25	30	0	1.54
11523604--11523635	16	2.0	16	100	0	64	31	12	6	50	1.65
11526538--11526572	2	17.5	2	100	0	70	51	0	0	48	1.00
11531469--11531513	23	2.0	22	91	4	72	60	13	0	26	1.34
11532394--11532431	19	2.0	20	89	5	60	7	5	5	81	0.98
11532554--11532579	4	6.5	4	100	0	52	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11541210--11541234	9	2.8	9	100	0	50	24	8	36	32	1.84
11542368--11542437	37	1.9	36	85	8	97	48	4	0	47	1.21
11542772--11543181	226	1.8	225	84	3	565	41	14	14	30	1.85
11547007--11547057	18	2.8	18	93	0	84	43	19	0	37	1.51
11550464--11550503	19	2.1	19	85	0	53	30	20	25	25	1.99
11550482--11550605	64	1.9	64	85	3	169	29	16	22	31	1.96
11557180--11557219	21	1.9	21	89	0	62	30	7	7	55	1.56
11557361--11557401	15	2.7	15	96	0	73	19	41	9	29	1.83
11559153--11559191	19	2.1	19	85	0	51	30	20	25	23	1.98
11560817--11561337	201	2.6	196	79	7	495	31	16	12	39	1.85
11561299--11561419	20	6.0	20	74	12	95	26	16	14	42	1.87
11561990--11562020	15	2.1	15	93	0	53	64	0	0	35	0.94
11572231--11572266	17	2.1	17	89	0	54	27	36	2	33	1.72
11572798--11572871	26	2.8	26	95	0	130	31	21	17	29	1.96
11579329--11579362	12	2.8	12	83	16	52	23	0	0	76	0.79
11581189--11581872	342	2.0	342	100	0	1368	33	21	14	30	1.93
11582237--11582294	21	2.8	19	75	14	53	39	20	13	25	1.90
11587473--11587542	37	1.9	36	85	8	97	58	0	4	37	1.18
11587480--11587543	25	2.6	24	72	16	60	59	0	4	35	1.18
11587480--11587559	24	3.4	23	73	17	67	61	0	5	33	1.18
11587556--11587604	23	2.1	23	81	7	55	59	10	4	26	1.48
11588394--11588446	3	17.7	3	84	7	72	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11588389--11588421	15	2.1	16	94	5	59	51	0	3	45	1.16
11588394--11588455	21	2.9	21	87	4	79	64	1	0	33	1.03
11588394--11588453	18	3.2	18	80	13	66	63	1	0	35	1.05
11589356--11590068	124	5.8	124	96	0	1300	24	19	15	40	1.90
11590436--11590512	22	3.5	22	87	0	109	40	14	11	33	1.82
11595262--11595356	17	5.5	17	70	15	61	3	18	0	77	0.89
11595262--11595349	25	3.5	25	78	9	81	3	19	0	77	0.91
11595262--11595350	8	10.7	9	77	14	77	3	19	0	77	0.91
11595262--11595352	24	3.7	23	80	13	101	3	18	0	78	0.89
11597730--11597763	15	2.3	15	90	5	52	58	8	17	14	1.61
11597730--11597769	14	2.9	14	85	10	55	60	7	17	15	1.57
11601021--11601076	2	28.5	2	92	3	96	53	0	0	46	1.00
11601135--11601159	10	2.5	10	100	0	50	68	0	0	32	0.90
11602420--11602475	3	18.7	3	85	7	78	64	0	0	35	0.94
11602420--11602482	21	3.0	21	84	9	83	63	1	0	34	1.04
11603253--11603277	5	5.0	5	100	0	50	20	0	0	80	0.72
11609803--11609827	2	12.5	2	100	0	50	52	0	0	48	1.00
11610407--11610521	12	9.7	12	66	14	51	42	1	9	46	1.47
11610380--11610498	35	3.3	35	89	5	168	44	0	6	47	1.35
11610472--11610521	25	2.0	25	88	0	73	40	2	14	44	1.56
11610589--11610635	20	2.4	18	83	13	58	17	2	0	80	0.80
11610589--11610641	9	5.4	9	84	13	61	16	1	1	79	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11611488--11611525	18	2.1	18	90	5	58	5	0	26	68	1.11
11612050--11612107	28	2.1	28	84	12	75	24	3	1	70	1.12
11614931--11614961	15	2.1	15	93	0	53	3	25	19	51	1.62
11614955--11615004	3	16.7	3	82	0	55	4	32	0	64	1.12
11614955--11615004	12	4.2	12	84	0	64	4	32	0	64	1.12
11616909--11616959	20	2.5	20	100	0	102	21	25	15	37	1.93
11617472--11617553	25	3.1	25	77	13	101	36	2	6	54	1.38
11617474--11617555	29	3.0	28	72	22	75	37	2	6	53	1.39
11618384--11618507	5	25.6	5	73	21	70	78	4	2	14	1.02
11618415--11618532	4	29.0	4	73	19	75	75	3	2	18	1.06
11618384--11618532	31	4.8	30	74	15	108	76	4	2	16	1.05
11618406--11618532	10	12.0	10	70	22	50	75	3	2	18	1.06
11619855--11620259	40	10.6	38	77	13	304	43	6	3	45	1.47
11620007--11620121	26	4.3	27	74	15	105	44	6	2	46	1.42
11620046--11620082	2	18.5	2	100	0	74	48	0	0	51	1.00
11620007--11620060	25	2.1	24	93	6	72	42	7	3	46	1.49
11620076--11620127	26	2.0	26	84	0	68	46	7	3	42	1.51
11620066--11620265	38	5.5	35	81	12	201	44	8	3	44	1.50
11620066--11620231	34	4.6	34	86	7	163	45	7	3	43	1.49
11620295--11620341	12	3.9	12	86	8	60	72	0	0	27	0.85
11621109--11621572	85	5.4	85	84	2	581	26	19	18	34	1.95
11621109--11621570	255	1.8	256	86	2	669	26	19	19	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11622739--11622938	95	2.1	94	86	5	269	34	17	12	35	1.88
11623394--11623465	35	2.1	34	92	7	119	61	6	15	16	1.55
11626605--11626801	4	49.0	4	70	18	63	70	6	3	20	1.23
11626605--11626801	15	13.0	15	64	21	63	70	6	3	20	1.23
11626702--11626744	5	8.6	5	80	19	54	79	2	2	16	0.95
11626703--11626771	26	2.7	27	82	8	90	73	4	4	17	1.15
11626809--11626858	25	2.0	25	84	7	66	78	2	2	18	0.95
11627980--11628025	17	2.8	17	87	6	60	84	2	2	10	0.79
11627961--11628027	26	2.6	25	73	4	62	82	2	2	11	0.90
11627966--11628027	22	2.9	21	78	4	61	82	1	3	12	0.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73