genome.fa.s761.2.7.7.80.10.50.1000.13.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  13  of  23  ( 2686 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)
3317822--3317935	19	6.2	19	83	11	157	47	16	21	14	1.82
3317939--3318098	19	8.8	19	71	15	106	15	18	16	48	1.81
3317923--3318098	72	2.4	72	88	0	199	17	19	17	45	1.86
3318004--3318131	53	2.4	53	89	2	195	14	21	18	44	1.86
3317947--3318131	72	2.6	72	87	6	207	15	20	17	46	1.84
3318103--3318157	20	2.8	20	91	0	83	23	23	21	30	1.99
3324324--3324400	31	2.5	31	78	2	82	27	29	27	15	1.96
3324277--3324400	63	2.0	63	82	6	153	27	28	26	17	1.98
3325276--3325341	17	3.9	17	78	15	75	13	22	45	18	1.84
3325284--3325343	14	4.1	14	86	6	75	13	21	46	18	1.83
3325303--3325350	14	3.4	14	88	0	69	12	25	45	16	1.82
3325344--3325408	9	6.7	10	76	13	64	27	29	24	18	1.98
3325338--3325408	19	3.7	19	82	1	79	26	28	26	18	1.98
3327849--3328107	20	12.9	19	69	16	116	21	18	22	37	1.94
3327856--3328084	60	3.8	60	79	5	221	20	17	22	38	1.93
3327857--3328145	80	3.6	80	79	7	257	20	17	22	39	1.93
3327855--3328084	40	5.7	40	86	4	268	20	18	22	38	1.93
3328096--3328145	20	2.5	20	90	6	75	14	18	24	44	1.86
3334815--3334902	25	3.8	24	85	7	83	28	3	2	65	1.20
3334824--3334911	3	30.0	3	78	13	94	30	1	1	67	1.06
3334824--3334902	16	4.9	17	77	14	78	30	1	1	67	1.07
3335986--3336015	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3345243--3345324	42	2.0	42	90	4	130	25	17	21	35	1.95
3345963--3346017	19	2.8	19	89	8	67	27	1	0	70	0.97
3345966--3346025	3	21.0	3	86	6	81	30	1	0	68	0.99
3346260--3346302	17	2.5	17	96	0	77	20	27	20	30	1.98
3346963--3346997	2	17.5	2	100	0	70	51	0	0	48	1.00
3352366--3352858	245	2.0	248	98	1	965	34	15	23	26	1.95
3356132--3356165	17	2.0	17	88	0	50	38	8	2	50	1.49
3361212--3361241	15	2.0	15	93	0	51	13	0	30	56	1.37
3365047--3365244	43	4.8	42	76	10	194	55	22	3	19	1.57
3365104--3365176	36	2.0	36	86	0	101	57	24	4	13	1.54
3365230--3365275	24	1.9	24	90	0	74	52	21	6	19	1.69
3366062--3366190	43	3.0	43	83	0	168	35	20	27	16	1.94
3368167--3368220	23	2.3	24	90	3	83	40	1	9	48	1.46
3371658--3371708	6	8.3	6	78	4	57	5	1	49	43	1.38
3371654--3371715	18	3.4	19	77	6	65	8	1	46	43	1.42
3372487--3372564	6	13.2	6	71	20	58	50	0	1	48	1.09
3372457--3372522	24	2.9	23	72	27	61	48	1	0	50	1.10
3372483--3372528	22	2.1	21	88	11	67	50	0	0	50	1.00
3372492--3372574	26	3.1	25	79	17	87	46	0	3	49	1.19
3372656--3372729	36	2.1	36	89	0	112	45	8	2	43	1.47
3372781--3372820	21	1.9	21	89	0	62	45	5	7	42	1.54
3372958--3372990	3	11.3	3	93	6	59	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3382894--3383046	63	2.4	63	82	3	184	27	22	18	32	1.97
3383306--3384585	137	9.4	137	82	2	1444	30	23	18	27	1.97
3383306--3386552	274	11.7	274	73	10	2021	30	23	18	27	1.98
3384469--3384649	83	2.2	83	86	2	247	31	26	16	25	1.96
3384332--3384770	220	2.0	219	87	3	641	31	23	17	27	1.97
3384188--3385295	357	3.1	355	83	3	1336	30	23	18	26	1.98
3384693--3385149	220	2.1	220	83	0	583	30	22	19	27	1.98
3384546--3384932	137	2.8	137	82	3	492	32	22	18	26	1.97
3384903--3386552	137	12.0	137	83	2	1904	30	23	18	27	1.98
3384062--3385563	494	3.0	493	77	7	1649	31	23	18	27	1.98
3388499--3388577	13	5.5	13	73	14	50	43	7	7	41	1.61
3388581--3388625	22	2.0	22	86	0	63	42	0	6	51	1.28
3388651--3388700	21	2.4	21	100	0	100	40	10	8	42	1.68
3388760--3388805	16	2.9	16	100	0	92	39	6	4	50	1.48
3388940--3389036	13	7.3	13	88	2	140	38	0	11	50	1.38
3388940--3389036	26	3.7	26	94	2	167	38	0	11	50	1.38
3389092--3389143	16	3.1	16	70	20	52	36	11	9	42	1.74
3389379--3389414	15	2.4	15	95	0	63	41	2	5	50	1.40
3389327--3389470	62	2.3	62	89	4	202	43	5	3	47	1.43
3389379--3389575	13	15.3	13	68	19	103	43	4	5	47	1.44
3389348--3389421	15	4.8	15	73	11	51	45	4	2	47	1.35
3389506--3389564	18	3.3	18	81	11	77	45	1	5	47	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3389443--3389589	28	5.0	28	72	18	97	44	4	4	47	1.41
3389559--3389613	21	2.7	19	79	20	58	45	3	1	49	1.30
3389704--3389872	2	87.0	2	66	18	63	44	5	1	47	1.36
3389732--3389866	61	2.3	59	73	11	132	45	5	0	48	1.32
3391054--3391142	11	7.9	11	70	5	61	31	21	15	31	1.95
3391054--3391142	23	4.0	22	84	5	124	31	21	15	31	1.95
3393154--3393258	7	15.4	7	80	4	99	20	1	36	41	1.63
3393407--3393455	25	1.9	26	87	4	73	44	4	6	44	1.47
3393755--3393816	11	5.9	11	73	17	60	40	0	1	58	1.08
3393781--3393828	14	3.6	14	71	23	50	41	0	4	54	1.20
3395549--3395616	31	2.2	31	94	0	118	52	10	8	27	1.65
3395727--3395758	3	10.7	3	100	0	64	65	0	0	34	0.93
3396189--3396224	13	2.8	13	95	0	63	63	0	8	27	1.23
3397963--3398002	15	2.7	15	80	3	55	15	17	12	55	1.70
3399965--3400396	194	2.2	194	89	0	630	33	12	12	41	1.80
3400353--3400429	32	2.4	32	95	0	136	42	9	15	32	1.78
3400891--3400915	2	12.5	2	100	0	50	52	0	0	48	1.00
3401128--3401197	19	3.9	17	70	27	56	75	0	5	18	0.99
3401135--3401195	12	5.2	12	68	7	54	77	0	6	16	0.98
3401135--3401195	23	2.7	23	100	0	122	77	0	6	16	0.98
3402433--3402499	30	2.3	29	87	5	91	11	17	13	56	1.66
3406668--3406734	23	2.9	23	90	0	107	26	25	17	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3406647--3406734	46	2.0	45	82	8	108	28	23	18	29	1.98
3410970--3411054	23	3.7	23	90	4	118	21	17	27	34	1.96
3410969--3411067	46	2.2	45	80	12	112	21	16	27	35	1.94
3414198--3414316	21	5.6	20	81	11	123	28	16	26	27	1.97
3414198--3414321	44	2.8	43	82	10	137	28	16	25	29	1.97
3422226--3422250	13	1.9	13	100	0	50	28	16	16	40	1.89
3422976--3423021	23	2.0	23	100	0	92	4	34	17	43	1.69
3425914--3426394	240	2.0	241	99	0	955	30	14	25	29	1.95
3430508--3430549	20	2.1	20	95	0	75	21	23	28	26	1.99
3438179--3438264	23	3.9	23	78	6	97	55	2	2	39	1.25
3439512--3439654	69	2.1	69	98	1	279	16	32	30	20	1.95
3440099--3440145	22	2.1	22	92	0	76	38	4	14	42	1.66
3451846--3452165	160	2.0	160	100	0	640	28	17	25	28	1.97
3453044--3453104	21	3.1	19	73	26	56	59	3	6	31	1.39
3453396--3453433	6	6.3	6	87	0	58	18	28	15	36	1.92
3453693--3453760	33	2.1	33	88	0	100	22	17	45	14	1.85
3455496--3455533	20	1.9	20	88	0	58	71	2	0	26	1.00
3456456--3456498	21	2.0	21	81	0	50	30	30	25	13	1.94
3456456--3456627	67	2.6	67	87	5	224	27	27	26	18	1.98
3456591--3456628	20	1.9	20	88	0	58	23	34	31	10	1.89
3456930--3457000	29	2.5	29	90	2	108	38	9	12	39	1.77
3457015--3457074	30	2.0	31	90	3	95	36	6	23	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3457287--3457353	22	3.0	22	100	0	134	19	26	26	26	1.99
3463003--3463159	66	2.4	66	84	8	187	28	24	28	18	1.98
3463025--3463175	67	2.3	67	84	9	184	27	27	27	17	1.98
3463179--3463208	15	1.9	16	93	6	53	70	3	26	0	1.03
3463469--3463543	27	2.6	28	87	8	107	38	10	13	37	1.79
3463551--3463610	30	2.0	31	90	3	95	36	6	23	33	1.81
3463826--3463891	22	3.0	22	97	2	125	19	27	27	25	1.99
3470521--3470594	20	3.7	20	75	8	69	32	28	18	20	1.96
3470633--3470778	20	7.2	20	75	4	123	36	22	19	20	1.95
3470633--3470778	40	3.6	41	85	1	188	36	22	19	20	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23