genome.fa.s260.2.7.7.80.10.50.1000.4.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  4  of  26  ( 3102 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)
770180--770227	22	2.1	23	85	11	64	20	2	25	52	1.58
775191--775304	24	4.8	24	88	4	149	26	14	18	40	1.89
775235--775317	24	3.5	23	86	3	85	25	10	21	42	1.85
778845--778959	24	4.8	24	85	6	144	27	13	17	40	1.88
778850--778976	24	5.3	24	85	3	121	28	11	18	40	1.86
779140--779198	2	29.5	2	100	0	118	49	0	0	50	1.00
782844--782953	24	4.6	24	84	4	132	24	16	20	38	1.93
782859--782897	12	3.2	12	79	13	53	28	12	23	35	1.91
797697--797745	19	2.6	19	87	3	64	89	6	4	0	0.57
797697--797745	8	5.9	8	82	15	55	89	6	4	0	0.57
797697--797727	1	31.0	1	93	0	53	96	3	0	0	0.21
797698--797737	11	3.6	11	89	0	53	90	5	5	0	0.57
797697--797753	18	3.3	19	86	11	70	85	8	5	0	0.72
797711--797753	19	2.2	20	84	12	63	81	11	6	0	0.87
812868--812961	24	4.0	24	79	8	93	48	14	11	24	1.77
815673--815850	90	2.0	90	87	2	259	36	11	6	44	1.68
822424--822601	90	2.0	90	88	2	268	36	11	7	44	1.68
825876--825943	24	2.8	24	86	0	91	54	16	13	16	1.71
825893--825947	12	4.6	12	75	8	58	47	18	16	18	1.83
828638--828687	22	2.3	23	82	10	68	50	26	2	22	1.60
829462--829491	15	2.0	15	100	0	60	33	0	0	66	0.92
829503--829552	25	2.1	25	85	7	68	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
829445--829540	15	6.5	15	76	14	58	45	0	2	52	1.12
830539--830609	24	3.0	23	73	17	65	50	1	2	45	1.25
830577--830630	11	4.8	11	78	10	56	51	0	0	48	1.00
833372--833422	27	1.9	27	88	4	77	27	13	25	33	1.94
833645--833702	24	2.5	24	86	8	75	15	8	3	72	1.23
833655--833703	13	3.9	13	75	20	50	20	6	4	69	1.27
839416--839448	12	2.8	12	95	0	57	24	30	15	30	1.95
843838--843865	14	2.0	14	100	0	56	21	28	28	21	1.99
849561--849596	15	2.4	15	95	0	63	16	38	0	44	1.48
853520--853608	25	3.5	24	75	16	63	71	4	1	22	1.10
853549--853609	16	4.1	16	69	16	58	77	3	1	18	0.99
853681--853737	30	1.9	30	85	0	78	59	5	14	21	1.54
863657--863704	14	3.4	14	77	8	53	43	29	0	27	1.55
863657--863704	21	2.3	21	77	0	60	43	29	0	27	1.55
867345--867409	29	2.2	30	86	5	87	30	13	7	47	1.71
871177--871271	25	3.8	24	76	8	68	70	6	2	21	1.20
871214--871272	12	4.8	12	71	22	50	74	6	3	15	1.16
875320--875386	29	2.3	29	94	0	116	31	10	11	46	1.75
876312--876432	48	2.5	48	80	7	138	19	21	14	44	1.86
886528--886585	25	2.4	24	85	8	73	74	0	5	20	1.01
886528--886586	10	4.5	13	74	23	52	74	0	5	20	1.00
887976--888156	2	98.0	2	70	22	130	50	2	1	44	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
887968--888103	9	17.1	8	67	20	56	55	3	0	40	1.23
888031--888161	15	8.9	14	75	12	75	51	0	1	45	1.15
887972--888153	57	3.2	55	78	16	169	51	2	1	43	1.25
889960--890083	41	3.0	41	90	2	187	35	7	2	54	1.41
896894--896932	2	19.5	2	94	0	69	0	46	0	53	1.00
897026--897074	2	24.5	2	100	0	98	0	48	0	51	1.00
896894--897161	142	1.9	142	99	0	527	18	27	10	43	1.82
899138--899218	39	2.1	39	97	0	153	35	6	18	39	1.76
900143--900195	21	2.5	21	84	0	70	20	26	18	33	1.96
900185--900291	20	5.3	21	80	6	114	38	19	17	24	1.93
900170--900270	41	2.5	40	77	9	105	35	20	17	25	1.95
903547--903601	19	2.8	19	83	2	65	38	21	21	18	1.94
903592--903678	14	5.6	14	71	21	66	43	19	25	11	1.84
903574--903697	33	3.8	33	93	4	209	43	19	25	12	1.85
903574--903697	65	1.9	64	95	1	221	43	19	25	12	1.85
903706--903769	14	4.3	14	72	14	56	7	21	23	46	1.77
903706--903784	32	2.4	33	91	2	124	10	21	22	45	1.81
903888--903923	13	2.6	14	95	4	65	41	22	0	36	1.54
905162--905255	20	4.7	20	84	2	107	21	20	20	38	1.94
905162--905255	41	2.3	41	83	1	118	21	20	20	38	1.94
905217--905269	20	2.6	20	87	3	61	26	18	24	30	1.98
905693--905782	2	45.0	2	81	8	103	47	0	4	47	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
905896--905951	21	2.8	20	81	10	69	51	1	1	44	1.22
905935--906049	13	8.2	13	77	14	104	47	5	3	43	1.42
905932--906048	28	4.0	29	77	16	118	46	5	4	44	1.45
906018--906203	99	1.9	100	91	1	311	43	2	9	44	1.49
906130--906233	15	6.9	15	78	13	72	46	1	5	46	1.38
906190--906234	19	2.4	19	92	0	72	46	2	2	48	1.26
906184--906236	19	2.6	19	82	8	61	47	1	5	45	1.37
906184--906244	19	2.9	19	80	11	59	47	3	4	44	1.41
906093--906234	2	70.5	2	66	14	69	42	1	8	47	1.42
906239--906322	26	3.3	25	68	18	66	57	3	3	35	1.34
906230--906352	17	6.8	18	66	26	64	53	8	3	34	1.47
906450--906513	16	3.7	16	71	18	56	42	7	9	40	1.66
906452--906525	37	2.1	36	84	5	96	41	8	9	40	1.67
906505--906584	20	3.7	21	81	8	90	45	3	7	43	1.50
906527--906584	2	28.0	2	76	13	55	46	3	5	44	1.42
906739--906871	36	3.9	36	77	14	154	43	4	6	45	1.50
906836--906869	15	2.2	16	89	5	52	44	2	5	47	1.42
907944--907982	15	2.6	15	88	8	53	61	10	0	28	1.28
910681--910709	14	2.0	15	93	6	51	55	0	0	44	0.99
911169--911203	17	2.1	17	89	10	54	68	5	0	25	1.11
912227--912256	3	9.7	3	92	7	51	66	0	0	33	0.92
915102--915126	10	2.5	10	100	0	50	92	0	8	0	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
915595--915697	1	103.0	1	70	0	62	84	0	15	0	0.62
915596--915701	7	14.4	7	84	13	142	83	0	16	0	0.64
918023--918126	52	2.0	52	88	0	154	38	19	23	19	1.93
917863--918238	172	2.2	171	91	2	610	35	16	22	25	1.95
918149--918238	42	2.2	40	80	13	94	31	15	23	30	1.95
918546--918654	54	2.0	54	90	0	173	34	11	27	26	1.90
919076--919128	22	2.4	22	90	0	79	9	15	9	66	1.45
923729--923778	3	17.3	3	84	15	70	66	0	0	34	0.92
924162--924203	22	2.0	21	86	13	59	64	23	2	9	1.35
924822--924851	9	3.4	9	95	4	53	83	0	0	16	0.65
924811--924864	21	2.5	21	85	11	65	77	3	1	16	1.00
924811--924905	12	7.7	12	77	13	52	70	4	1	24	1.11
924874--924929	26	2.2	26	81	18	64	57	3	0	39	1.16
924924--925050	28	4.3	28	80	14	139	44	6	2	47	1.41
924942--925056	35	3.5	34	79	17	145	43	6	2	47	1.41
924911--925055	63	2.3	64	87	7	215	44	6	2	46	1.40
925031--925056	2	13.0	2	100	0	52	50	0	0	50	1.00
949918--949946	13	2.2	13	100	0	58	6	6	0	86	0.72
950762--950967	102	2.0	102	91	0	331	27	18	23	30	1.98
955318--955349	14	2.3	14	94	0	55	21	28	9	40	1.84
955748--955779	4	8.0	4	100	0	64	50	25	0	25	1.50
955974--956056	41	2.0	42	88	4	125	69	10	4	14	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957302--957351	20	2.5	20	84	15	61	78	2	6	14	1.03
957317--957347	16	1.9	16	100	0	62	80	0	6	12	0.89
957360--957419	2	33.0	2	72	24	53	53	3	0	43	1.17
957339--957398	25	2.4	25	75	20	63	60	5	0	35	1.19
957357--957414	7	8.1	7	85	11	82	55	1	0	43	1.10
957402--957455	28	1.9	28	88	0	81	46	5	3	44	1.44
957390--957484	39	2.4	39	82	5	102	45	5	3	46	1.41
957419--957494	39	1.9	39	94	0	134	43	6	5	44	1.52
960088--960152	30	2.2	30	88	5	96	12	33	12	41	1.80
960516--960562	20	2.3	20	88	0	67	25	2	4	68	1.19

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