genome.fa.s8747.2.7.7.80.10.50.1000.41.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  41  of  51  ( 6054 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)
10282320--10282376	23	2.7	21	83	8	62	52	3	0	43	1.18
10291834--10291858	13	1.9	13	100	0	50	16	12	32	40	1.84
10298646--10298673	2	14.0	2	100	0	56	50	0	0	50	1.00
10301057--10301087	11	2.8	11	95	0	53	35	19	0	45	1.51
10301165--10301213	23	2.1	23	100	0	98	18	51	18	12	1.76
10302001--10302133	39	3.4	39	82	0	176	18	29	21	30	1.97
10302360--10302397	15	2.5	15	95	0	67	31	23	31	13	1.93
10311798--10311828	16	2.0	15	93	6	53	41	0	0	58	0.98
10314037--10314070	11	3.2	11	83	8	52	14	11	17	55	1.68
10315005--10315093	31	2.9	31	78	6	101	31	20	5	42	1.75
10317730--10317766	19	1.9	19	88	0	56	62	13	13	10	1.55
10326767--10327022	114	2.2	114	82	4	311	27	23	15	34	1.94
10328277--10328321	19	2.2	21	80	11	58	44	8	2	44	1.47
10328325--10328355	14	2.2	14	94	0	53	35	9	6	48	1.62
10328287--10328402	61	1.9	61	87	3	171	43	10	3	43	1.55
10328356--10328545	25	8.0	24	77	15	155	41	9	3	45	1.54
10328339--10328549	47	4.5	45	80	12	221	40	9	3	45	1.54
10328339--10328549	22	9.1	22	75	17	169	40	9	3	45	1.54
10328407--10328546	43	3.2	44	76	17	137	39	9	4	47	1.55
10328355--10328546	23	8.0	24	74	16	134	40	9	3	46	1.54
10330646--10330676	9	3.3	9	95	4	53	0	12	0	87	0.55
10330646--10330676	16	1.9	16	93	0	53	0	12	0	87	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10332563--10332612	18	2.7	18	81	6	55	40	2	8	50	1.43
10338347--10338468	20	6.1	20	87	0	154	25	18	18	37	1.93
10338562--10338746	41	4.5	41	78	6	203	35	18	19	26	1.95
10338603--10338807	83	2.5	83	92	1	331	35	18	18	27	1.95
10338644--10338788	42	3.5	42	72	12	145	35	18	20	26	1.95
10338815--10338978	90	1.8	89	85	2	231	39	15	23	21	1.92
10343714--10343753	20	2.0	21	85	5	55	42	17	20	20	1.89
10350457--10350545	44	2.1	42	84	16	112	38	0	6	55	1.27
10353235--10353267	17	2.0	17	88	5	50	21	0	30	48	1.50
10353802--10353848	23	2.0	23	84	8	60	55	12	2	29	1.49
10354750--10355004	131	2.0	127	93	6	433	29	17	15	37	1.91
10355956--10356008	24	2.2	24	86	0	70	22	16	39	20	1.92
10365082--10365195	57	2.0	57	100	0	228	33	17	22	26	1.96
10368553--10368688	65	2.1	65	86	5	186	37	10	20	31	1.86
10369343--10370251	249	3.7	249	91	2	1380	29	17	17	35	1.93
10370120--10370186	20	3.2	20	69	8	62	23	20	19	35	1.95
10370122--10370203	42	2.0	42	90	0	128	24	19	20	35	1.96
10370413--10370455	16	2.9	15	80	10	52	34	0	4	60	1.17
10370555--10370593	16	2.5	15	87	4	51	28	46	20	5	1.72
10371650--10371705	15	3.7	15	74	13	53	33	3	3	58	1.32
10373521--10373558	19	2.0	20	89	5	60	5	21	2	71	1.19
10373509--10373559	20	2.6	19	79	11	59	3	19	1	74	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10383846--10383876	3	10.3	3	100	0	62	64	0	0	35	0.94
10384909--10384962	18	3.0	18	81	10	58	24	1	1	72	1.05
10384922--10384976	22	2.5	22	85	11	69	23	5	0	70	1.07
10390732--10390914	91	2.0	92	98	1	359	33	24	16	25	1.95
10394299--10394354	23	2.4	24	91	8	89	23	17	23	35	1.95
10398738--10398837	50	2.0	50	100	0	200	34	8	12	46	1.70
10402838--10402899	27	2.2	28	88	2	90	19	8	22	50	1.74
10403868--10403916	26	2.0	25	85	14	68	42	4	0	53	1.20
10405228--10405272	19	2.4	19	88	0	72	22	24	24	28	1.99
10406632--10406735	19	5.5	19	68	11	54	25	0	15	57	1.44
10406618--10406774	75	2.1	75	81	7	176	28	1	12	57	1.44
10407367--10407418	18	2.9	17	85	5	68	21	5	0	73	1.04
10407433--10407494	16	3.9	15	75	6	52	27	1	0	70	0.96
10407463--10407501	17	2.2	17	86	4	51	20	5	0	74	1.01
10410435--10410514	5	15.2	5	70	10	52	23	5	5	66	1.32
10410436--10410514	32	2.5	32	95	0	140	24	5	5	65	1.33
10421288--10421330	18	2.4	18	92	0	68	20	6	0	72	1.08
10422525--10422565	21	2.0	20	86	9	57	39	4	29	26	1.77
10435350--10435388	20	2.0	20	89	0	60	30	15	25	28	1.96
10440358--10440386	12	2.4	12	100	0	58	79	0	6	13	0.93
10442483--10442604	34	3.5	35	71	9	95	31	18	11	38	1.86
10442374--10443080	73	9.6	73	81	5	685	32	18	10	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10442434--10443080	295	2.2	294	84	5	812	32	18	9	39	1.84
10442434--10443080	147	4.4	146	82	5	673	32	18	9	39	1.84
10443061--10443207	36	4.2	36	76	10	137	29	15	8	46	1.76
10443159--10443207	17	2.8	18	72	27	52	28	16	8	46	1.75
10445454--10445534	39	2.0	40	95	2	146	25	12	11	50	1.73
10449641--10449672	15	2.1	15	100	0	64	68	0	12	18	1.20
10455403--10455445	5	8.4	5	82	5	50	2	69	0	27	1.00
10456029--10456104	36	2.1	36	87	7	109	48	1	2	47	1.24
10456249--10456299	20	2.5	20	100	0	102	19	23	11	45	1.83
10457723--10457764	18	2.3	19	83	4	59	47	0	0	52	1.00
10457811--10457859	21	2.4	19	78	15	53	36	0	4	59	1.17
10460440--10460490	26	1.9	27	84	4	68	41	25	9	23	1.85
10468831--10468870	21	1.9	21	85	10	55	35	10	2	52	1.48
10472013--10472050	14	2.5	15	91	8	60	52	7	5	34	1.53
10480839--10480875	6	6.2	6	100	0	74	18	16	64	0	1.29
10480893--10480919	6	4.5	6	100	0	54	18	18	62	0	1.32
10480932--10480968	12	3.0	12	92	4	56	18	54	16	10	1.71
10480988--10481045	2	29.5	2	96	3	109	50	0	0	50	1.00
10481097--10481162	23	2.8	24	86	4	89	27	48	13	10	1.75
10481097--10481162	12	5.6	12	87	3	89	27	48	13	10	1.75
10482813--10483527	358	2.0	358	97	0	1349	35	16	23	25	1.95
10490308--10490371	22	2.9	22	82	11	69	28	1	1	68	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10490312--10490364	23	2.3	24	80	9	65	30	0	1	67	1.01
10490538--10490594	16	3.6	16	75	15	55	29	1	3	64	1.20
10490607--10490669	12	4.8	13	71	23	51	26	3	0	69	1.03
10490584--10490646	22	2.9	22	76	9	65	30	4	0	65	1.13
10491630--10491674	20	2.2	20	88	7	65	28	31	40	0	1.57
10495054--10495124	16	4.7	15	78	13	74	78	5	14	1	0.99
10495067--10495138	19	3.6	19	79	7	63	80	5	11	2	0.98
10495075--10495134	16	3.9	14	83	16	59	80	6	11	1	0.98
10495738--10495792	22	2.5	22	96	0	101	38	25	12	23	1.90
10496206--10496241	18	2.0	18	88	0	54	19	8	27	44	1.79
10496758--10498028	106	12.0	106	90	0	1909	34	24	17	22	1.96
10498780--10498881	37	2.8	37	90	0	150	39	14	15	30	1.88
10499292--10499334	12	3.1	14	80	19	54	30	0	0	69	0.88
10499374--10499398	2	12.5	2	100	0	50	48	0	0	52	1.00
10499520--10499641	26	4.7	25	70	19	81	27	3	1	67	1.16
10499483--10499643	24	6.2	25	67	20	73	27	3	2	65	1.22
10499599--10499656	28	2.1	27	83	3	71	25	3	0	70	1.03
10499748--10499777	15	2.0	15	93	0	51	20	3	0	76	0.92
10503982--10504052	31	2.4	31	83	4	92	35	18	18	28	1.94
10509512--10509582	31	2.4	31	83	4	92	35	18	18	28	1.94
10509710--10509753	16	2.7	17	82	10	56	40	15	9	34	1.79
10509711--10509759	16	3.1	16	77	11	55	40	16	8	34	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10515189--10515232	16	2.7	17	82	10	56	38	18	6	36	1.77
10517406--10517493	43	2.1	43	86	2	124	21	5	30	42	1.76
10517673--10517748	33	2.4	31	88	6	107	28	0	14	56	1.39
10517697--10517753	16	3.5	16	73	21	64	26	0	14	59	1.35
10520574--10520639	24	2.8	24	86	4	89	24	15	19	40	1.90
10522390--10522436	22	2.2	22	88	3	69	34	19	10	36	1.86
10526115--10526185	38	1.9	37	88	5	108	19	14	7	59	1.58
10527227--10527268	21	2.0	22	86	9	61	23	14	28	33	1.94
10528326--10528371	24	2.0	23	86	4	65	26	19	23	30	1.98
10529039--10529081	22	2.0	21	86	4	59	18	23	32	25	1.97

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