genome.fa.s7999.2.7.7.80.10.50.1000.16.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  16  of  50  ( 5918 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)
4251724--4251981	20	12.9	20	90	1	347	34	19	22	22	1.96
4251953--4251993	20	2.0	20	85	0	55	34	19	21	24	1.97
4252122--4252171	20	2.5	20	90	6	75	42	20	16	22	1.89
4252141--4252181	20	2.0	20	85	0	55	34	19	21	24	1.97
4251931--4252306	188	2.0	188	99	0	743	35	22	14	27	1.93
4253033--4253086	24	2.2	24	90	0	81	22	18	18	40	1.91
4255519--4255607	20	4.4	20	81	2	108	37	23	20	19	1.94
4255612--4255657	19	2.4	19	96	0	83	50	17	17	15	1.79
4255579--4255699	53	2.3	53	86	2	172	44	19	21	14	1.86
4255708--4255800	33	2.8	34	86	3	134	13	23	19	43	1.87
4255777--4255827	20	2.5	20	90	0	84	19	23	21	35	1.96
4255917--4255953	14	2.6	14	86	0	56	48	21	0	29	1.50
4257293--4257415	42	2.9	42	79	4	124	22	17	36	23	1.94
4257350--4257394	21	2.3	18	81	11	54	24	11	42	22	1.86
4257895--4257936	20	2.1	20	100	0	84	40	23	19	16	1.91
4258040--4258183	20	7.5	20	80	9	165	20	18	20	40	1.91
4258002--4258183	40	4.9	40	75	13	165	19	19	19	41	1.91
4258565--4258594	6	5.0	6	100	0	60	16	0	66	16	1.25
4260075--4260142	20	3.4	20	85	0	82	42	25	17	14	1.87
4260188--4260234	20	2.3	20	88	0	67	21	19	23	36	1.95
4260566--4260627	18	3.0	22	69	26	62	17	16	38	27	1.91
4260888--4260933	21	2.2	21	88	0	65	36	17	28	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4269762--4269816	28	2.0	28	92	0	92	47	16	7	29	1.73
4270766--4270843	38	2.1	39	85	9	108	30	2	1	65	1.14
4270702--4270849	45	3.2	42	71	16	116	30	2	2	64	1.18
4270820--4270926	28	3.8	28	72	11	76	18	4	1	74	1.08
4270782--4270903	53	2.3	52	82	9	140	21	2	2	73	1.06
4270775--4270971	57	3.4	57	77	15	153	20	5	2	72	1.14
4270884--4270980	20	4.8	20	72	14	65	16	9	1	73	1.14
4275101--4275189	32	2.8	32	86	1	126	29	12	17	40	1.86
4275785--4276118	106	3.2	105	85	1	418	36	23	17	22	1.94
4276475--4276561	37	2.4	37	82	1	95	25	20	13	40	1.89
4276364--4276542	87	2.1	87	92	0	295	32	19	12	35	1.89
4276718--4276817	36	2.7	37	90	3	166	31	20	14	35	1.92
4276835--4276951	36	3.2	36	84	7	155	27	18	12	41	1.87
4276731--4276917	102	1.8	102	84	8	256	29	19	12	39	1.88
4276937--4277029	39	2.6	36	83	12	120	43	22	7	26	1.80
4278226--4278295	30	2.4	30	81	9	83	30	1	1	67	1.08
4278176--4278297	40	3.0	38	75	17	106	31	1	1	65	1.12
4278151--4278292	38	3.8	35	71	19	108	30	1	2	65	1.13
4278280--4278443	5	32.6	5	70	21	69	18	4	2	73	1.12
4278288--4278443	9	17.2	9	70	16	74	18	5	2	73	1.13
4278243--4278443	13	14.9	13	67	18	92	20	4	1	73	1.11
4278292--4278330	17	2.3	17	90	0	60	17	2	5	74	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4278268--4278458	84	2.2	86	78	10	205	18	6	2	72	1.16
4278330--4278441	32	3.8	29	72	16	88	18	6	1	73	1.14
4278371--4278441	28	2.5	30	80	15	87	19	5	2	71	1.18
4279138--4279182	3	15.0	3	100	0	90	66	0	0	33	0.92
4281827--4281856	3	10.0	3	92	0	51	66	0	3	30	1.07
4282348--4282483	60	2.3	61	82	8	163	35	13	14	36	1.86
4303187--4303279	41	2.2	42	84	5	118	53	7	18	20	1.68
4305558--4305608	16	3.2	16	75	2	50	25	5	7	60	1.47
4307548--4307691	45	2.8	53	78	18	187	41	8	0	49	1.38
4307599--4307664	16	4.4	15	70	14	55	45	1	0	53	1.09
4309866--4309953	18	4.7	19	66	20	60	44	1	9	45	1.43
4310052--4310114	2	32.5	2	90	6	103	50	0	1	47	1.10
4310214--4310247	2	16.5	2	93	6	59	50	2	0	47	1.16
4310641--4310675	2	18.0	2	88	5	54	45	2	0	51	1.16
4312131--4312188	20	2.8	20	89	2	89	29	22	15	32	1.95
4312481--4312538	20	2.9	20	86	0	71	37	17	10	34	1.84
4311937--4312596	339	1.9	340	82	7	815	30	15	14	39	1.87
4319278--4319309	13	2.4	14	94	5	57	71	0	9	18	1.12
4327966--4328360	99	4.0	100	87	4	518	27	17	18	36	1.93
4327966--4328360	200	2.0	197	87	6	566	27	17	18	36	1.93
4328352--4328446	38	2.6	37	87	9	133	21	24	11	43	1.85
4328570--4328718	71	2.1	72	94	2	266	40	8	17	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4329470--4329543	22	3.4	22	84	3	105	39	9	14	36	1.79
4334194--4334241	9	4.8	10	80	17	55	0	10	4	85	0.73
4334187--4334240	21	2.6	21	88	2	74	0	11	3	85	0.73
4337413--4337461	20	2.6	19	83	6	55	59	4	14	22	1.52
4337517--4337557	6	6.0	7	83	16	59	56	12	17	14	1.68
4337741--4337795	26	2.1	27	80	16	71	61	3	3	30	1.30
4342359--4342458	36	2.8	36	89	0	146	42	17	14	27	1.87
4344376--4344463	29	3.0	29	73	8	70	36	19	4	39	1.72
4363055--4363157	36	2.9	36	91	1	163	41	15	16	26	1.88
4368169--4368243	24	3.6	20	80	15	80	32	18	25	24	1.97
4368762--4368805	20	2.2	20	100	0	88	38	13	13	34	1.84
4375662--4375837	47	3.7	48	87	3	248	20	26	27	25	1.99
4380029--4380142	23	4.9	24	86	3	108	32	25	18	23	1.97
4380058--4380142	23	3.7	23	93	1	143	32	24	18	23	1.97
4389144--4389186	22	1.9	23	90	4	70	20	32	11	34	1.89
4389261--4389309	20	2.4	21	79	3	55	32	26	8	32	1.86
4394611--4394947	83	4.0	84	78	7	317	26	18	20	34	1.96
4394639--4394987	83	4.2	84	78	6	264	25	18	21	34	1.96
4395010--4395562	84	6.7	83	78	7	457	26	17	22	32	1.97
4395010--4395547	165	3.3	163	79	5	566	26	18	22	32	1.97
4395346--4395792	229	1.9	230	85	0	617	26	18	23	32	1.97
4394635--4396108	561	2.6	555	87	3	2010	26	17	22	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4395573--4396110	84	6.5	84	81	4	601	25	18	22	33	1.97
4396436--4397915	165	9.1	163	72	11	909	33	22	17	26	1.96
4396415--4396975	84	6.8	84	80	6	529	34	23	17	24	1.96
4396757--4397205	230	2.0	229	82	4	555	33	23	17	25	1.96
4396980--4397532	84	6.7	82	77	5	452	34	21	17	26	1.96
4396983--4397476	169	3.0	166	77	6	487	34	21	17	26	1.96
4397599--4397913	84	3.8	85	83	2	327	32	21	20	26	1.97
4397561--4397915	84	4.2	82	82	2	289	31	21	19	27	1.97
4397561--4397939	168	2.3	168	80	3	397	31	21	18	27	1.97
4402400--4402487	31	2.8	32	86	3	117	32	11	21	34	1.89
4403673--4403751	28	2.8	28	96	0	140	15	21	17	45	1.85
4403729--4403840	37	3.1	37	92	2	190	25	22	14	38	1.91
4403727--4403835	36	3.0	36	93	1	182	24	22	14	38	1.92
4403900--4403960	29	2.1	28	87	3	86	47	13	8	31	1.71
4403962--4404147	83	2.2	84	87	1	277	30	24	20	24	1.99
4403962--4404217	83	3.1	83	82	3	237	33	22	20	23	1.97
4404704--4404815	37	3.0	37	93	0	188	40	13	14	32	1.84
4404718--4404829	37	3.0	35	79	16	118	41	15	13	29	1.85
4405261--4405318	14	3.9	16	74	17	63	34	1	0	63	1.04
4405382--4405432	17	2.8	18	77	19	61	35	11	1	50	1.50
4405510--4405549	16	2.5	17	84	15	50	12	17	0	70	1.18
4405682--4405739	30	1.9	30	82	6	73	13	20	3	62	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4406202--4406234	16	1.9	18	88	11	52	66	0	15	18	1.25
4406329--4406395	35	2.0	32	85	8	89	50	0	7	41	1.30
4406408--4406493	12	6.7	12	76	18	59	68	0	2	29	1.02
4406408--4406493	42	2.0	44	82	10	108	68	0	2	29	1.02
4406408--4406495	27	3.2	29	80	16	91	68	0	2	29	1.02
4406427--4406491	16	4.2	16	81	16	84	67	0	1	30	1.00
4406939--4407050	37	3.0	37	94	0	197	30	14	13	41	1.84
4411072--4411253	99	1.8	99	91	2	303	27	17	16	39	1.91
4416132--4416251	33	3.3	37	81	11	167	38	37	10	13	1.80
4421817--4421980	72	2.3	72	89	1	238	24	19	25	30	1.98

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