genome.fa.s7957.2.7.7.80.10.50.1000.32.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  32  of  43  ( 5063 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)
6504500--6504602	54	1.9	54	97	0	197	32	0	13	54	1.40
6504474--6504603	54	2.3	59	85	9	182	30	0	15	53	1.42
6504452--6504687	85	2.8	84	91	6	367	31	0	14	53	1.41
6504617--6504761	22	6.0	22	72	19	110	32	0	15	52	1.43
6504586--6504770	54	3.5	53	87	9	299	32	0	14	53	1.41
6504786--6504844	31	1.9	31	89	0	91	42	8	6	42	1.61
6506477--6506512	2	18.0	2	100	0	72	50	0	0	50	1.00
6508072--6508101	10	3.0	10	95	0	51	50	6	3	40	1.45
6508478--6508557	23	3.6	22	70	13	65	26	22	23	27	2.00
6508476--6508576	44	2.3	43	81	5	114	26	20	23	28	1.99
6513939--6514071	35	3.8	34	85	4	176	43	13	9	33	1.77
6513941--6514074	52	2.6	51	80	8	144	44	12	9	32	1.75
6513939--6514075	17	7.9	17	83	7	159	44	13	9	32	1.75
6530052--6530076	3	8.3	3	100	0	50	68	0	32	0	0.90
6534715--6534766	22	2.3	23	86	3	70	78	1	19	0	0.84
6534724--6534757	17	2.0	17	88	11	52	79	0	20	0	0.73
6534724--6534765	16	2.5	17	81	11	52	78	0	21	0	0.75
6540423--6540452	2	15.0	2	100	0	60	50	0	0	50	1.00
6541485--6541542	28	2.1	28	100	0	116	29	8	17	44	1.78
6541491--6541551	28	2.3	27	88	5	79	29	6	18	45	1.74
6542005--6542079	3	25.0	3	89	5	116	36	0	0	64	0.94
6542193--6542234	16	2.6	16	100	0	84	7	57	19	16	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6543422--6543459	16	2.4	16	86	8	51	57	0	0	42	0.98
6545502--6545527	2	13.0	2	100	0	52	50	0	0	50	1.00
6545957--6545990	17	2.0	17	88	0	50	32	2	0	64	1.08
6546263--6546311	20	2.5	20	83	6	55	55	0	2	42	1.11
6552410--6552500	30	3.1	30	68	9	96	34	10	12	42	1.77
6555990--6556034	22	2.0	22	100	0	90	31	0	37	31	1.58
6556826--6556867	22	2.0	21	85	4	57	14	14	2	69	1.30
6561139--6561165	5	5.4	5	100	0	54	0	77	0	22	0.76
6570369--6570408	21	1.9	21	84	0	53	37	7	2	52	1.43
6571258--6571308	20	2.7	19	88	11	63	39	9	25	25	1.86
6571455--6571526	38	1.9	37	83	5	92	48	5	1	44	1.34
6573402--6573434	16	2.1	16	100	0	66	6	12	24	57	1.57
6575870--6575929	29	2.0	31	93	6	106	35	6	15	43	1.72
6576009--6576087	21	3.7	21	80	16	92	22	37	17	21	1.94
6576108--6576170	21	3.0	21	79	9	76	22	23	28	25	1.99
6577360--6577446	33	2.7	32	89	5	131	33	6	14	44	1.72
6577634--6577665	16	2.0	17	88	11	50	43	21	21	12	1.86
6579965--6580033	30	2.2	30	85	15	95	34	5	17	42	1.73
6579974--6580033	30	2.0	30	93	6	104	33	6	16	43	1.74
6580113--6580211	21	4.8	20	80	10	110	23	35	19	22	1.96
6580232--6580306	20	3.7	20	82	3	96	18	26	24	30	1.98
6580232--6580314	41	2.0	41	90	0	130	19	25	26	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6583387--6583420	2	17.0	2	100	0	68	50	0	0	50	1.00
6583656--6583690	18	1.9	18	100	0	70	34	0	0	65	0.93
6584016--6584047	10	3.2	10	100	0	64	0	18	37	43	1.51
6584213--6584242	14	2.1	14	100	0	60	43	0	13	43	1.43
6584226--6584265	20	1.9	20	85	10	53	45	2	15	37	1.59
6585225--6585258	7	5.0	7	89	3	52	2	38	0	58	1.13
6590516--6590549	16	2.1	16	94	0	59	32	26	8	32	1.87
6591528--6591589	19	3.4	18	78	10	63	61	1	0	37	1.06
6591565--6591589	6	4.2	6	100	0	50	52	0	0	48	1.00
6592214--6592296	30	2.5	35	75	24	115	37	7	19	36	1.79
6592228--6592336	29	3.8	29	93	4	186	38	5	21	34	1.76
6592228--6592336	57	1.9	58	92	5	186	38	5	21	34	1.76
6594231--6594266	2	18.0	2	100	0	72	50	0	0	50	1.00
6596366--6596492	46	2.8	46	92	4	206	59	7	6	25	1.49
6598958--6598992	17	2.1	17	100	0	70	22	22	5	48	1.72
6600273--6600383	36	3.1	36	98	0	213	12	8	47	31	1.70
6600514--6600577	18	3.4	18	67	12	56	18	1	50	29	1.57
6600549--6600610	27	2.3	27	91	0	97	12	4	51	30	1.61
6600495--6600583	39	2.3	39	94	0	151	20	2	51	25	1.59
6608193--6608222	2	15.0	2	100	0	60	50	0	0	50	1.00
6608902--6608943	16	2.6	16	84	0	57	16	11	21	50	1.77
6610876--6610934	23	2.6	23	94	0	100	20	16	32	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6610891--6610940	23	2.2	23	92	0	82	24	16	34	26	1.95
6612917--6613258	175	2.0	172	90	1	540	40	12	8	38	1.73
6615648--6615682	18	1.9	18	94	0	61	31	22	17	28	1.96
6616008--6616049	9	4.7	9	84	0	57	35	23	33	7	1.82
6616011--6616049	15	2.6	15	91	0	60	35	23	33	7	1.83
6616165--6616234	26	2.8	25	65	30	60	28	7	2	61	1.37
6619603--6619649	16	3.1	14	82	14	51	68	4	2	25	1.19
6619611--6619649	14	2.6	15	88	8	53	69	2	2	25	1.14
6623543--6623647	20	5.4	20	81	11	121	24	22	22	29	1.99
6623542--6623652	36	3.0	36	78	12	125	24	23	22	29	1.99
6624783--6624869	31	2.8	30	77	19	90	14	19	35	29	1.92
6634664--6634844	65	2.8	64	81	5	204	27	17	25	30	1.97
6634794--6634842	19	2.7	18	84	9	64	24	16	34	24	1.95
6635502--6635545	18	2.5	17	82	7	61	54	27	0	18	1.44
6635513--6635549	18	2.0	19	94	5	67	59	27	0	13	1.35
6641228--6641267	21	1.9	21	85	10	55	35	10	2	52	1.48
6643195--6643375	64	2.8	64	83	0	218	27	17	25	29	1.97
6643323--6643373	19	2.7	19	85	8	70	25	15	35	23	1.94
6643216--6643424	64	3.2	64	83	6	217	27	17	24	30	1.97
6649712--6649774	23	2.7	23	80	0	63	30	20	11	38	1.87
6652557--6652663	31	3.4	31	71	12	108	27	2	8	61	1.39
6652534--6652666	65	2.0	65	98	0	257	28	3	8	60	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6656671--6656785	58	2.0	58	89	5	180	46	16	12	25	1.82
6658115--6658149	18	1.9	18	100	0	70	80	0	0	20	0.72
6658582--6658637	29	2.0	28	82	3	67	1	16	26	55	1.51
6663022--6663082	20	3.0	20	78	0	77	42	22	14	19	1.88
6663117--6663181	20	3.4	19	79	8	69	32	24	12	30	1.92
6663155--6663201	18	2.5	19	82	6	60	31	21	12	34	1.91
6663337--6663374	16	2.5	15	84	12	51	28	5	0	65	1.14
6663969--6664002	12	2.8	12	90	0	50	55	29	0	14	1.40
6675746--6675814	20	3.5	20	82	6	77	18	15	23	42	1.89
6675848--6675991	66	2.2	64	95	2	252	50	18	2	29	1.58
6677374--6677467	21	4.5	20	81	7	89	26	18	32	22	1.97
6677350--6677472	42	2.9	42	81	2	149	26	19	34	20	1.96
6677781--6677920	63	2.2	65	79	12	157	31	34	12	22	1.91
6679602--6679676	20	4.1	20	70	20	56	50	21	17	10	1.76
6680052--6680099	22	2.2	22	100	0	96	18	12	45	22	1.83
6680052--6680111	22	2.7	22	92	0	75	18	15	43	23	1.87
6680279--6680486	20	10.3	20	78	9	145	22	12	23	41	1.87
6680297--6680352	21	2.7	21	100	0	112	30	8	21	39	1.84
6680380--6680511	40	3.3	39	72	12	124	20	15	21	42	1.89
6682173--6682207	15	2.3	15	100	0	70	11	22	14	51	1.74
6688893--6689225	111	3.0	112	88	2	517	46	13	14	25	1.81
6689229--6689728	182	2.8	182	89	0	750	43	11	15	29	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6690895--6690951	23	2.5	23	82	5	62	24	15	15	43	1.86
6692039--6692228	59	3.2	58	77	10	161	33	21	4	41	1.72
6692353--6692537	60	3.1	60	83	3	205	38	4	23	34	1.74
6699624--6699653	14	2.1	15	93	6	53	56	13	0	30	1.37
6702400--6702444	18	2.5	18	85	7	56	28	2	2	66	1.15
6713205--6713261	30	1.9	30	82	7	71	42	7	7	43	1.58
6717230--6717278	18	2.5	20	77	19	57	24	6	4	65	1.33
6717235--6717279	18	2.5	18	89	7	65	26	6	4	62	1.39
6717661--6717883	94	2.4	94	87	6	308	33	16	24	26	1.95
6717833--6717883	22	2.5	20	83	6	57	35	13	23	27	1.93

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