genome.fa.s8488.2.7.7.80.10.50.1000.28.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  28  of  54  ( 6450 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)
6885668--6885784	28	4.3	27	76	18	93	48	0	1	48	1.17
6885704--6885784	28	3.1	27	84	8	105	48	0	1	50	1.08
6888523--6888558	18	2.0	18	100	0	72	33	27	16	22	1.95
6889089--6889136	3	15.7	3	82	4	60	37	0	0	62	0.95
6892202--6892240	11	3.5	11	82	6	51	41	7	5	46	1.55
6892503--6892555	23	2.2	24	90	3	90	49	7	0	43	1.31
6892800--6892848	16	3.1	16	77	11	55	46	16	12	24	1.81
6893737--6893768	15	2.1	15	94	0	55	37	0	0	62	0.95
6893887--6893952	24	2.8	24	78	13	59	34	4	3	57	1.34
6901939--6901982	3	14.7	3	90	0	70	31	38	0	29	1.58
6901943--6901982	15	2.7	15	100	0	80	32	40	0	27	1.57
6904039--6904068	10	3.0	10	95	0	51	46	0	0	53	1.00
6905582--6905615	15	2.3	15	89	0	50	47	5	0	47	1.26
6905658--6905683	2	13.0	2	100	0	52	50	0	0	50	1.00
6906025--6906190	20	8.2	20	82	11	196	42	24	15	18	1.88
6906025--6906209	40	4.6	39	80	11	178	41	24	14	19	1.89
6906157--6906266	19	5.6	19	90	3	157	37	20	10	31	1.86
6906025--6906242	60	3.7	59	77	13	207	40	23	13	22	1.89
6907072--6907105	12	2.8	12	90	0	50	55	29	0	14	1.40
6909759--6909807	20	2.5	20	100	0	98	40	24	18	16	1.90
6909963--6910108	66	2.2	66	91	4	235	50	15	1	32	1.53
6911352--6911429	21	3.7	21	87	0	102	24	19	35	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6911328--6911421	42	2.2	42	85	7	120	23	21	34	21	1.97
6911569--6911602	4	8.5	4	86	0	50	70	2	0	26	1.01
6913645--6913684	20	2.0	20	85	0	53	15	12	22	50	1.77
6914018--6914068	22	2.3	22	86	0	75	25	15	39	19	1.91
6914218--6914504	20	14.3	20	76	11	241	21	14	22	41	1.89
6914566--6914610	19	2.3	20	80	7	56	20	15	31	33	1.93
6919581--6919685	41	2.4	45	82	7	119	44	10	13	31	1.77
6919667--6919739	29	2.5	28	91	6	119	45	13	19	21	1.85
6930606--6930631	13	2.0	13	100	0	52	61	15	0	23	1.33
6941108--6941147	21	1.9	21	89	0	62	10	25	40	25	1.86
6944953--6945309	180	2.0	175	97	2	669	33	22	10	33	1.88
6948832--6948894	3	20.7	3	93	3	108	30	1	0	68	0.99
6949894--6949992	2	51.0	2	88	6	150	48	2	1	48	1.19
6950316--6950346	16	1.9	16	93	0	53	19	9	3	67	1.33
6951294--6951326	16	2.1	16	100	0	66	18	24	18	39	1.92
6951923--6951990	16	4.2	16	75	7	66	23	20	16	39	1.91
6966588--6966642	23	2.4	23	87	0	74	32	29	21	16	1.95
6985326--6985386	23	2.7	23	100	0	122	44	14	26	14	1.84
6986999--6987057	3	19.7	3	80	13	68	37	0	0	62	0.95
6988672--6988869	30	6.7	30	72	8	140	17	12	9	60	1.58
6988671--6988820	60	2.5	60	82	2	185	18	13	8	59	1.59
6988662--6988869	90	2.4	87	77	6	197	19	12	9	59	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6994343--6994607	66	4.0	66	80	5	259	30	14	14	40	1.86
6994707--6995055	134	2.6	133	89	3	504	26	31	17	24	1.97
6994942--6995140	92	2.2	92	88	2	294	27	31	16	25	1.97
6995341--6995404	18	3.7	17	72	15	60	40	0	0	59	0.97
6995361--6995405	16	3.0	16	71	18	51	33	0	0	66	0.92
6995346--6995405	29	2.0	30	87	3	86	36	0	0	63	0.95
6996968--6997190	30	7.5	30	71	12	138	20	12	8	57	1.61
6997792--6998028	124	1.9	124	85	1	332	37	13	20	27	1.91
6998644--6998670	6	4.5	6	100	0	54	14	0	0	85	0.61
6999669--6999713	22	2.0	23	86	4	65	33	13	22	31	1.92
7001389--7001423	19	1.9	18	88	11	54	34	20	22	22	1.97
7002727--7002850	42	3.0	42	84	7	153	33	22	21	21	1.97
7003005--7003085	42	2.0	41	82	7	101	33	22	20	23	1.97
7011795--7011827	3	11.0	3	100	0	66	66	0	0	33	0.92
7012212--7012281	27	2.6	27	72	14	65	51	21	0	27	1.48
7013361--7013390	13	2.3	13	100	0	60	56	6	0	36	1.26
7013445--7013495	2	25.5	2	100	0	102	50	0	0	49	1.00
7018163--7018205	21	2.0	21	100	0	86	27	11	27	32	1.92
7020383--7020429	23	2.0	23	83	0	58	57	14	14	12	1.66
7020813--7020872	26	2.3	26	85	0	75	31	15	30	23	1.95
7021644--7022304	2	331.0	2	63	22	146	46	3	5	44	1.44
7021648--7021827	11	15.7	11	71	15	91	44	5	2	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7021738--7021835	41	2.5	40	88	5	153	42	5	2	50	1.36
7021732--7021910	37	4.8	35	75	17	96	44	6	3	45	1.47
7021893--7021953	27	2.3	25	78	13	68	44	0	3	52	1.17
7022327--7022380	19	2.9	18	75	5	63	42	7	9	40	1.65
7022406--7022443	18	2.2	17	90	4	58	47	0	2	50	1.15
7022557--7022638	2	40.5	2	80	7	94	47	1	6	45	1.35
7023598--7023637	21	2.0	20	85	9	55	20	22	32	25	1.98
7023761--7023790	11	2.7	11	89	0	51	46	0	3	50	1.18
7025566--7025966	196	2.0	202	97	2	760	34	11	24	29	1.91
7026516--7026588	23	3.3	23	86	7	89	21	24	32	20	1.97
7026516--7026587	21	3.3	22	86	9	94	22	25	31	20	1.98
7026537--7026599	23	2.7	23	85	0	72	23	26	28	20	1.99
7031805--7031858	22	2.5	22	96	3	101	14	24	42	18	1.88
7035984--7036041	24	2.4	24	100	0	116	31	13	22	32	1.93
7036099--7036191	40	2.4	38	79	12	100	51	4	4	39	1.41
7036146--7036281	15	9.3	15	67	22	60	60	2	2	33	1.27
7036207--7036296	22	4.1	22	86	0	108	60	3	3	33	1.30
7036165--7036294	66	2.0	66	82	8	158	58	3	3	33	1.34
7036144--7036283	22	6.3	21	73	12	95	60	2	2	34	1.26
7036369--7036956	2	298.0	2	67	20	242	40	5	2	52	1.36
7037360--7037405	24	1.9	24	82	8	58	32	13	2	52	1.52
7037579--7037632	20	2.7	20	80	11	74	29	29	12	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7037811--7037853	22	2.0	22	85	0	59	25	37	11	25	1.90
7038071--7038099	13	2.2	13	100	0	58	0	6	13	79	0.93
7040299--7040394	21	4.6	21	72	14	81	28	33	14	23	1.94
7041769--7041906	60	2.2	64	83	7	169	32	2	15	50	1.56
7041965--7042074	20	5.8	20	73	12	106	40	23	18	17	1.90
7042083--7042121	20	2.0	20	94	0	69	17	20	23	38	1.93
7042334--7042419	39	2.2	39	95	0	154	18	15	18	47	1.82
7042729--7042765	18	2.1	18	89	0	56	51	10	5	32	1.60
7043152--7043201	25	2.0	25	96	0	91	44	22	8	26	1.80
7043262--7043303	20	2.1	20	95	0	75	42	16	23	16	1.88
7043312--7043372	20	3.1	20	85	2	88	34	22	21	21	1.97
7043691--7043726	18	2.0	18	94	0	63	16	2	25	55	1.55
7045996--7046042	24	2.0	24	95	0	85	34	17	21	27	1.95
7046000--7046051	24	2.2	24	85	0	68	36	19	19	25	1.95
7046163--7046196	12	2.8	12	90	0	50	14	0	29	55	1.40
7047106--7047234	22	5.9	22	72	11	97	55	2	6	36	1.38
7047106--7047239	36	3.7	36	79	11	148	53	2	6	37	1.40
7047106--7047239	73	1.9	73	83	9	177	53	2	6	37	1.40
7047223--7047305	30	2.8	30	81	13	84	45	2	2	49	1.28
7047267--7047320	20	2.6	21	76	5	56	44	1	0	53	1.11
7047451--7047493	16	2.7	16	85	0	59	32	16	27	23	1.96
7048964--7049016	15	3.6	15	70	14	56	43	1	0	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7052024--7052071	10	4.7	10	78	12	53	77	2	4	16	1.03
7052021--7052075	11	5.1	11	74	12	51	74	1	3	20	1.06
7052194--7052223	14	2.1	14	93	0	51	63	0	0	36	0.95
7052605--7052656	26	1.9	26	84	7	68	51	0	1	46	1.12
7052617--7052666	26	1.9	26	84	8	66	48	0	2	50	1.12
7053243--7053295	21	2.5	21	84	3	70	24	0	1	73	0.93
7053246--7053293	10	4.7	10	84	5	69	22	0	2	75	0.91
7053259--7053295	11	3.5	11	85	7	58	21	0	0	78	0.75
7053344--7053373	8	3.8	8	100	0	60	33	0	0	66	0.92
7054540--7054569	15	2.0	15	93	0	51	46	3	0	50	1.18

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