genome.fa.s8087.2.7.7.80.10.50.1000.16.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  16  of  37  ( 4336 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)
3737780--3737850	20	3.5	20	74	22	60	33	25	14	26	1.94
3737857--3737930	20	3.7	20	74	16	73	27	22	10	39	1.87
3737863--3737958	40	2.4	40	84	3	113	30	22	11	35	1.90
3737893--3737970	40	2.0	40	89	0	120	29	21	11	37	1.89
3738128--3738163	14	2.6	14	86	0	54	30	2	0	66	1.06
3738742--3738775	12	2.8	12	95	0	59	55	26	0	17	1.42
3738894--3738940	24	2.0	24	95	0	85	27	21	17	34	1.95
3741050--3741083	15	2.3	15	89	0	50	5	61	20	11	1.50
3742321--3742373	20	2.7	20	81	0	61	45	22	11	20	1.83
3742346--3742386	20	2.0	20	86	9	57	48	24	9	17	1.76
3742355--3742403	20	2.5	20	77	12	55	51	24	14	10	1.73
3743930--3743969	21	1.9	21	94	0	71	22	15	42	20	1.88
3743956--3744007	21	2.5	21	96	0	95	25	17	38	19	1.93
3744016--3744058	21	2.0	21	86	0	59	27	11	32	27	1.92
3744469--3744518	21	2.4	21	79	0	64	38	32	10	20	1.85
3744635--3744731	42	2.3	42	90	0	149	16	19	34	29	1.94
3746767--3746804	20	2.0	20	84	5	51	50	13	10	26	1.73
3746830--3746981	42	3.7	39	76	9	110	29	11	27	30	1.92
3746913--3746983	20	3.6	19	72	12	63	22	9	30	36	1.87
3747898--3747928	6	5.2	6	100	0	62	0	16	0	83	0.64
3757474--3757565	46	2.0	46	100	0	184	28	21	17	32	1.96
3765669--3765878	103	2.0	103	95	0	375	34	19	20	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3773659--3773699	17	2.4	17	100	0	82	34	24	24	17	1.96
3780334--3780392	31	1.9	31	92	0	100	42	5	8	44	1.57
3780416--3780759	22	15.6	22	95	0	607	50	11	0	38	1.39
3780746--3780785	12	3.6	12	77	16	50	52	0	2	45	1.14
3783149--3783175	14	1.9	14	100	0	54	66	0	7	25	1.17
3784217--3784249	16	2.1	16	88	5	50	63	12	3	21	1.41
3785732--3785776	18	2.3	20	88	11	67	55	2	0	42	1.12
3796720--3797093	183	2.0	183	95	0	667	33	25	16	24	1.96
3796980--3797196	72	3.0	72	88	1	310	31	26	16	25	1.97
3803323--3803373	23	2.2	23	82	0	57	45	7	15	31	1.75
3807644--3807702	30	1.9	32	89	6	95	47	3	0	49	1.18
3807653--3807700	22	2.2	22	84	0	60	50	4	0	45	1.21
3807643--3807722	30	2.5	32	78	14	92	47	3	0	48	1.19
3807661--3807762	53	1.9	53	82	11	129	48	1	0	49	1.19
3807811--3807879	19	3.6	18	71	21	52	49	1	1	47	1.19
3807774--3807859	27	3.1	27	71	18	70	47	1	2	48	1.22
3807874--3807918	23	2.0	23	86	0	63	53	2	2	42	1.25
3807958--3808027	32	2.2	32	80	10	81	52	4	0	42	1.20
3808232--3808271	20	2.0	20	85	0	53	35	17	7	40	1.78
3808246--3808301	29	1.9	29	85	0	76	42	16	7	33	1.75
3812307--3812347	20	2.1	20	90	4	66	31	21	14	31	1.94
3821319--3821369	19	2.8	19	82	5	70	25	13	35	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3821215--3821370	65	2.5	62	83	5	188	26	16	26	30	1.96
3827769--3827808	21	1.9	21	85	10	55	35	10	2	52	1.48
3829638--3829670	15	2.1	16	94	5	59	36	30	33	0	1.58
3842390--3842534	9	16.4	8	71	19	85	73	0	21	4	1.04
3842387--3842452	10	7.0	10	74	17	61	78	0	19	1	0.82
3842390--3842528	18	7.9	17	77	14	124	74	0	21	3	1.02
3842414--3842528	43	2.6	45	80	13	132	73	0	21	3	1.03
3842391--3842534	26	5.4	26	72	20	111	73	0	21	4	1.04
3843852--3844358	153	3.3	152	92	2	798	29	16	27	27	1.97
3843846--3844303	51	9.0	51	96	0	799	29	15	27	26	1.96
3844065--3844430	51	6.9	55	89	5	261	29	16	26	27	1.97
3844602--3844634	15	2.1	16	94	5	59	36	30	33	0	1.58
3847292--3847521	64	3.6	63	80	6	212	26	17	26	29	1.97
3847420--3847470	19	2.7	19	85	8	70	25	15	35	23	1.94
3847313--3847472	65	2.5	65	85	3	207	27	15	26	30	1.96
3847314--3847521	65	3.2	64	80	12	203	27	16	25	30	1.97
3849731--3849787	18	3.2	17	73	9	51	70	3	12	14	1.30
3849849--3849894	2	23.0	2	100	0	92	50	0	0	50	1.00
3850789--3850892	37	2.8	37	85	0	127	30	13	12	43	1.81
3853569--3853622	22	2.5	22	78	0	63	38	22	9	29	1.85
3854365--3854493	67	1.9	67	92	3	215	26	11	16	45	1.81
3866510--3866600	42	2.2	42	91	0	146	23	20	34	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3872417--3872562	59	2.4	60	82	5	170	50	7	4	37	1.52
3876792--3876859	30	2.3	30	87	5	93	33	14	33	17	1.91
3876935--3877022	38	2.2	40	92	4	144	51	0	0	48	1.00
3876939--3877011	32	2.2	33	83	13	89	50	0	0	49	1.00
3882796--3882854	24	2.5	24	88	0	82	16	38	18	25	1.92
3882916--3883253	57	5.9	57	85	0	424	24	37	10	27	1.88
3883012--3883172	33	5.4	32	65	24	102	22	39	8	29	1.84
3882961--3883253	114	2.6	114	94	0	514	24	36	9	28	1.87
3883216--3883280	24	2.7	24	97	0	121	21	40	12	26	1.88
3883159--3883319	81	2.0	81	88	2	243	26	36	11	25	1.90
3883243--3883294	24	2.2	24	82	0	59	30	36	13	19	1.90
3883264--3883377	33	3.5	33	92	0	201	28	38	10	21	1.87
3883240--3883467	57	3.8	57	84	10	303	28	37	10	23	1.89
3883264--3883605	66	5.4	66	75	13	281	28	35	11	23	1.91
3883363--3883473	24	4.2	24	68	18	78	27	39	9	23	1.86
3883492--3883596	33	3.2	33	86	0	138	26	32	15	25	1.95
3883251--3883676	219	1.9	219	88	0	645	27	36	12	24	1.91
3883484--3883605	33	3.7	33	84	0	136	26	33	14	25	1.94
3883549--3883745	57	3.5	57	95	0	340	24	36	14	24	1.93
3883549--3883781	114	2.0	114	87	1	333	23	37	14	24	1.92
3883883--3883918	18	2.0	18	89	10	56	22	47	5	25	1.73
3883927--3883967	18	2.3	18	86	0	55	12	56	2	29	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3883926--3884034	57	1.9	57	83	3	139	19	48	6	25	1.72
3885297--3885385	23	3.8	23	73	8	81	25	16	15	41	1.88
3885742--3885802	3	21.0	3	77	12	65	27	3	1	67	1.16
3885748--3885813	28	2.3	28	82	7	71	27	4	1	66	1.20
3888300--3888343	22	2.0	22	81	0	52	27	4	15	52	1.63
3890611--3890647	12	2.7	14	80	19	51	13	21	13	51	1.75
3893603--3893839	104	2.3	100	82	11	268	30	19	13	36	1.90
3893785--3893868	36	2.4	36	84	6	109	30	21	11	35	1.90
3894171--3894266	28	3.5	27	80	13	108	29	9	15	45	1.77
3894137--3894283	27	5.5	27	74	15	126	28	8	14	48	1.73
3894137--3894259	55	2.3	52	76	14	124	27	9	14	47	1.75
3894137--3894283	26	5.5	25	75	15	118	28	8	14	48	1.73
3894325--3894540	85	2.5	89	94	3	386	31	10	15	42	1.80
3894449--3894503	26	2.1	26	86	6	76	32	7	12	47	1.69
3894499--3894601	52	2.0	53	86	5	147	33	12	16	36	1.87
3894588--3894642	26	2.1	26	93	0	92	32	7	16	43	1.75
3894411--3894690	139	2.0	141	86	6	390	31	10	15	42	1.81
3894606--3894824	61	3.5	63	88	10	333	30	11	11	45	1.77
3894614--3894807	65	3.0	64	87	11	276	33	11	11	43	1.77
3894614--3894866	128	2.0	127	83	6	325	30	12	12	43	1.80
3895043--3895165	62	2.0	62	83	3	158	30	13	13	42	1.83
3895830--3896062	40	5.6	40	69	10	126	25	30	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3895817--3896112	46	6.9	45	71	15	162	26	29	20	23	1.99
3895864--3896139	127	2.2	128	88	5	416	26	28	20	25	1.99
3895864--3896179	127	2.5	125	84	6	314	26	29	19	25	1.99
3896350--3896408	3	20.0	3	73	16	52	28	3	1	66	1.18
3896350--3896408	14	4.2	14	76	6	57	28	3	1	66	1.18
3896354--3896407	17	3.1	17	76	12	65	27	3	1	66	1.19
3896618--3896642	9	2.8	9	100	0	50	68	12	12	8	1.40
3899710--3899734	3	8.3	3	100	0	50	68	0	0	32	0.90
3900057--3900093	2	19.0	2	88	5	58	48	0	0	51	1.00
3908160--3908197	17	2.2	17	100	0	76	26	28	21	23	1.99

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