genome.fa.s1465.2.7.7.80.10.50.1000.22.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  22  of  55  ( 6520 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)
4302898--4302928	14	2.1	15	94	5	55	67	6	12	12	1.40
4309422--4309455	13	2.6	13	90	0	50	58	8	5	26	1.51
4312751--4312778	2	14.0	2	100	0	56	50	0	0	50	1.00
4312920--4312950	2	15.5	2	100	0	62	51	0	0	48	1.00
4313503--4313548	23	2.0	23	86	0	65	30	6	13	50	1.66
4314023--4314103	17	4.8	17	67	19	53	51	0	4	43	1.23
4317273--4317329	21	3.1	18	73	24	55	66	0	3	29	1.08
4319868--4319898	12	2.6	12	94	0	53	19	45	22	12	1.84
4325076--4325189	40	2.8	40	84	2	122	43	4	5	46	1.46
4332889--4332927	17	2.5	15	87	8	51	51	2	23	23	1.61
4333400--4333471	17	4.2	16	75	12	54	48	6	6	37	1.57
4333495--4333536	17	2.5	17	92	0	75	54	7	7	30	1.54
4333753--4333843	45	2.0	45	93	0	155	34	14	25	26	1.94
4334808--4334832	13	1.9	13	100	0	50	24	4	0	72	1.02
4339365--4339842	238	2.0	238	96	0	875	30	4	23	41	1.73
4341182--4341217	2	18.0	2	100	0	72	50	0	0	50	1.00
4341551--4341590	18	2.2	18	90	0	62	32	10	7	50	1.64
4343063--4343117	24	2.3	24	93	0	92	30	23	0	45	1.53
4343063--4343108	12	3.8	12	100	0	92	32	23	0	43	1.54
4343152--4343211	19	3.2	19	82	0	66	30	18	8	43	1.79
4343181--4343265	38	2.2	38	82	0	107	31	15	5	47	1.69
4343170--4343263	19	4.9	19	81	5	91	29	15	6	47	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4344903--4344941	20	2.0	20	89	0	60	41	20	0	38	1.53
4346947--4347006	20	3.0	20	92	4	104	23	40	25	11	1.88
4346947--4347006	19	3.1	19	95	2	102	23	40	25	11	1.88
4348988--4349030	21	2.0	22	86	4	61	53	4	6	34	1.49
4352836--4352894	22	2.6	22	94	2	100	22	23	23	30	1.99
4352836--4352901	22	2.9	23	86	6	80	22	22	24	30	1.99
4353364--4353411	23	2.2	23	79	20	59	37	10	8	43	1.69
4355153--4355185	13	2.4	14	95	5	59	33	12	6	48	1.65
4355508--4355548	20	2.0	20	100	0	82	24	41	24	9	1.85
4360188--4360240	20	2.7	20	100	0	106	26	18	16	37	1.93
4361916--4361994	41	2.0	41	89	2	124	49	6	6	37	1.54
4362442--4362491	23	2.2	23	85	0	64	36	12	18	34	1.87
4362342--4362591	84	2.9	86	90	3	396	42	12	13	32	1.82
4362526--4362575	23	2.2	23	92	0	82	38	12	18	32	1.87
4362526--4362582	23	2.5	23	85	0	69	42	10	15	31	1.81
4362875--4363240	112	3.3	111	93	1	608	42	13	13	31	1.82
4362875--4363240	111	3.3	111	91	3	599	42	13	13	31	1.82
4363164--4363313	73	2.1	73	94	2	266	45	14	11	29	1.79
4363237--4363919	113	6.1	112	91	2	1048	43	12	12	32	1.79
4362875--4363645	409	1.9	409	96	0	1443	42	13	12	31	1.81
4364296--4364355	23	2.6	23	78	0	66	40	6	16	36	1.75
4364244--4364410	87	1.9	87	90	0	262	43	10	13	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4364645--4365110	112	4.1	113	91	1	740	42	12	11	32	1.79
4365722--4365760	17	2.3	17	90	0	60	38	0	0	61	0.96
4369693--4369730	20	1.9	20	94	0	67	44	7	0	47	1.32
4371635--4371669	17	2.1	17	100	0	70	40	0	42	17	1.49
4371749--4371950	38	5.4	36	76	16	166	44	4	6	44	1.49
4371721--4371950	75	3.1	72	79	11	200	43	4	6	44	1.50
4371902--4371985	26	3.1	28	70	21	72	47	3	4	44	1.41
4371937--4371966	15	1.9	16	93	6	53	40	0	6	53	1.27
4371824--4372077	127	2.0	127	99	0	499	44	4	6	44	1.49
4371909--4371986	25	3.0	25	72	7	75	44	2	5	47	1.38
4371951--4372140	38	5.1	36	79	9	175	43	3	6	46	1.46
4372953--4373009	22	2.6	22	91	0	96	17	31	47	3	1.65
4373424--4373473	24	2.1	24	82	10	59	18	2	6	74	1.12
4374535--4374567	17	1.9	17	93	0	57	6	12	9	72	1.26
4375180--4375216	18	2.0	19	89	5	58	13	8	8	70	1.34
4375180--4375224	19	2.4	18	88	3	63	15	8	8	66	1.43
4378614--4379397	84	9.5	83	76	5	712	29	25	21	23	1.99
4378693--4379474	165	4.7	165	92	1	1190	30	24	20	24	1.99
4378614--4379474	249	3.5	245	78	4	924	30	24	20	23	1.99
4380058--4380259	38	5.4	36	76	16	166	44	4	6	44	1.49
4380032--4380259	75	3.1	72	79	11	198	43	4	7	44	1.51
4380211--4380294	26	3.1	28	70	21	72	47	3	4	44	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4380246--4380275	15	1.9	16	93	6	53	40	0	6	53	1.27
4380133--4380386	127	2.0	127	99	0	499	44	4	6	44	1.49
4380218--4380295	25	3.0	25	72	7	75	44	2	5	47	1.38
4380260--4380449	38	5.1	36	79	9	175	43	3	6	46	1.46
4381261--4381317	22	2.6	22	88	0	87	19	31	45	3	1.67
4381729--4381778	24	2.1	24	82	10	59	18	2	6	74	1.12
4387294--4387340	10	4.8	10	81	5	51	61	2	6	29	1.32
4395240--4395286	23	2.0	23	84	8	60	53	10	14	21	1.71
4403859--4403919	3	21.0	3	77	12	65	67	1	3	27	1.16
4403864--4403926	29	2.2	30	88	8	103	66	3	4	25	1.26
4404072--4404456	46	9.0	44	72	13	218	25	19	31	23	1.98
4404159--4404318	82	1.9	82	84	7	212	26	19	30	23	1.98
4404104--4404459	128	2.8	129	87	3	520	25	19	31	23	1.98
4404537--4404654	63	1.9	62	84	11	161	42	11	17	27	1.85
4404722--4404964	67	3.7	64	83	8	256	45	13	11	30	1.78
4404804--4404929	37	3.6	37	68	23	103	44	12	12	30	1.80
4404841--4404974	29	4.4	28	71	21	92	44	15	10	29	1.80
4404751--4404964	67	3.3	66	86	5	274	45	13	11	29	1.79
4404908--4404976	29	2.4	29	90	2	104	43	17	7	31	1.76
4404963--4405068	55	2.0	53	87	7	151	40	16	13	30	1.86
4405064--4405185	28	4.5	25	81	9	100	48	13	9	27	1.75
4405064--4405185	54	2.2	55	78	8	133	48	13	9	27	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4405079--4405178	28	3.7	27	84	7	123	47	15	9	29	1.75
4405425--4405555	36	3.7	35	78	10	117	32	13	19	33	1.91
4406179--4406224	4	12.2	4	82	13	62	23	0	21	54	1.45
4406181--4406216	18	2.1	17	94	5	63	22	0	22	55	1.44
4413350--4413411	3	22.0	3	74	12	60	66	1	3	29	1.17
4413350--4413411	11	5.3	11	81	11	70	66	1	3	29	1.17
4413361--4413417	29	2.0	28	93	3	96	64	3	5	26	1.30
4416186--4416241	22	2.5	22	85	5	69	37	23	16	23	1.93
4416186--4416250	22	3.0	22	79	4	60	38	23	13	24	1.91
4416601--4416647	17	3.0	16	90	9	71	25	31	12	29	1.93
4416603--4416650	14	3.2	14	91	8	69	25	37	12	25	1.91
4418985--4419098	60	1.9	60	90	1	185	34	5	22	37	1.77
4424485--4424519	17	2.1	17	88	0	52	34	0	0	65	0.93
4424501--4424551	26	2.0	26	84	7	68	31	1	0	66	1.03
4424626--4424722	15	6.7	14	73	20	76	26	4	4	64	1.29
4424626--4424692	28	2.3	29	85	12	86	25	4	1	68	1.17
4424623--4424691	29	2.6	25	79	18	77	26	4	1	68	1.17
4424623--4424700	28	2.8	26	77	21	79	26	5	1	66	1.20
4435175--4435268	48	1.9	49	86	2	136	45	13	24	15	1.83
4436021--4436786	105	7.3	105	93	0	1309	33	25	17	23	1.96
4438798--4438894	15	6.7	14	73	20	76	26	4	4	64	1.29
4438798--4438864	28	2.3	29	85	12	86	25	4	1	68	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4438795--4438863	29	2.6	25	79	18	77	26	4	1	68	1.17
4438795--4438872	28	2.8	26	77	21	79	26	5	1	66	1.20
4438887--4438938	23	2.2	24	83	10	63	17	9	3	69	1.31
4441755--4441800	24	1.9	24	95	0	83	2	39	8	50	1.46
4446871--4446916	24	1.9	24	95	0	83	2	39	8	50	1.46
4452170--4452197	2	14.0	2	100	0	56	50	0	0	50	1.00
4454420--4454514	29	3.2	30	83	8	106	51	9	10	28	1.67
4455974--4456024	5	10.2	5	100	0	102	19	0	41	39	1.52
4457399--4457423	11	2.3	11	100	0	50	84	16	0	0	0.63
4459276--4459362	3	29.0	3	76	4	86	34	2	1	62	1.16

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