genome.fa.s9462.2.7.7.80.10.50.1000.53.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  53  of  91  ( 10815 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)
11926827--11926874	24	2.1	24	88	7	73	72	0	0	27	0.84
11926825--11926874	13	4.2	12	82	12	50	74	0	0	26	0.83
11928170--11928430	107	2.4	107	78	6	296	21	18	23	36	1.95
11928744--11928936	67	2.8	67	82	3	233	36	11	22	28	1.90
11928891--11929005	33	3.5	33	89	5	162	32	11	19	37	1.87
11929051--11929407	36	10.4	36	71	18	169	38	11	19	30	1.87
11929172--11929244	30	2.4	29	74	14	69	35	12	16	35	1.86
11929321--11929407	37	2.4	36	86	1	111	40	12	20	26	1.88
11929192--11929496	102	3.0	102	92	2	479	37	12	19	30	1.89
11930689--11931042	183	1.9	183	95	0	636	30	21	20	27	1.98
11934487--11934642	72	2.2	73	95	1	278	21	22	30	25	1.98
11934949--11935000	4	13.2	4	77	18	56	73	0	5	21	1.04
11935006--11935035	2	15.0	2	100	0	60	50	0	0	50	1.00
11935301--11935380	2	42.5	2	79	12	80	55	1	1	42	1.16
11937643--11937686	6	7.2	6	79	5	52	77	4	18	0	0.94
11937640--11937686	25	1.9	24	86	4	67	76	6	17	0	0.98
11938233--11938282	24	2.1	24	81	7	57	32	16	20	32	1.94
11944280--11944330	24	2.1	24	85	7	68	33	13	23	29	1.93
11946545--11946588	6	7.2	6	79	5	52	77	4	18	0	0.94
11946542--11946588	25	1.9	24	86	4	67	76	6	17	0	0.98
11947321--11947367	24	2.0	24	83	8	60	29	17	23	29	1.97
11956093--11956155	33	1.9	33	100	0	126	28	28	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11959631--11959663	17	1.9	17	93	0	57	30	30	0	39	1.57
11974750--11974797	23	2.1	23	84	0	60	25	0	33	41	1.55
11975012--11975211	101	2.0	101	100	0	400	36	14	22	28	1.92
11976722--11976755	16	2.1	16	100	0	68	55	0	20	23	1.43
11976800--11976826	14	1.9	14	100	0	54	51	3	29	14	1.60
11981770--11981805	16	2.2	16	100	0	72	25	16	8	50	1.73
11982015--11982055	22	1.9	21	90	5	64	36	36	0	26	1.57
11982362--11982413	18	2.9	17	83	13	52	75	5	11	7	1.19
11982371--11982413	18	2.4	18	85	14	63	74	4	11	9	1.20
11987668--11987711	21	2.0	21	87	12	63	15	22	0	61	1.34
11987286--11989004	576	3.0	576	92	0	2807	28	23	10	37	1.88
11998970--11999031	25	2.5	23	77	12	61	82	0	11	6	0.84
11998971--11999046	21	3.5	21	75	15	57	77	0	14	7	0.98
12000252--12000285	18	1.9	18	88	5	52	32	11	20	35	1.89
12006134--12006297	65	2.5	64	84	1	220	28	15	26	29	1.96
12006138--12006344	65	3.2	62	78	12	195	28	16	24	30	1.97
12006514--12006553	20	2.0	21	85	14	57	45	7	5	42	1.54
12009321--12009371	21	2.4	22	78	15	63	54	7	9	27	1.60
12012560--12012602	6	7.0	6	87	12	61	79	0	20	0	0.74
12012560--12012602	17	2.4	17	88	11	59	79	0	20	0	0.74
12012560--12012602	13	3.5	12	87	12	61	79	0	20	0	0.74
12018744--12018794	20	2.6	20	90	3	77	35	15	5	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12022788--12022838	19	2.6	20	84	9	61	39	11	5	43	1.66
12022802--12022841	20	2.0	20	90	9	64	50	7	5	37	1.53
12026471--12026517	13	3.2	16	80	17	57	17	19	0	63	1.30
12026492--12026520	13	2.3	13	94	5	51	13	17	0	68	1.20
12029760--12029820	23	2.6	23	76	2	59	57	0	16	26	1.39
12047695--12047730	12	3.1	11	88	11	54	8	11	0	80	0.90
12047695--12047738	13	3.6	12	88	11	63	6	13	0	79	0.92
12050911--12050961	21	2.4	22	78	15	63	27	9	7	54	1.60
12053683--12053740	30	2.0	30	86	3	82	70	3	13	12	1.28
12056275--12056329	24	2.3	24	93	0	92	61	14	16	7	1.54
12060390--12060444	24	2.3	24	93	0	92	25	23	16	34	1.95
12065282--12065314	13	2.5	13	100	0	66	42	6	9	42	1.61
12067079--12067104	9	2.9	9	100	0	52	53	0	0	46	1.00
12073438--12073487	21	2.4	21	79	0	64	28	22	24	26	1.99
12077557--12077814	66	3.9	66	88	2	383	33	26	13	27	1.93
12077533--12077825	133	2.2	133	87	4	405	34	25	13	27	1.93
12079390--12079438	20	2.5	20	96	0	89	32	16	6	44	1.72
12082268--12082315	23	2.1	23	92	0	78	39	33	0	27	1.57
12082659--12082700	18	2.3	19	79	4	50	83	2	11	2	0.84
12085365--12085399	15	2.3	15	95	0	61	31	17	17	34	1.93
12090156--12090250	43	2.2	43	96	0	172	35	36	11	15	1.84
12090370--12090484	24	4.8	24	89	4	160	40	20	14	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12093008--12093047	8	5.5	8	80	19	52	20	25	40	15	1.90
12093021--12093049	13	2.2	13	100	0	58	13	24	48	13	1.79
12095247--12095341	43	2.2	43	96	0	172	36	35	10	16	1.84
12095443--12095494	24	2.2	24	82	0	59	44	19	9	26	1.81
12095457--12095571	24	4.8	24	77	8	117	38	23	13	24	1.91
12098099--12098135	20	1.9	19	89	10	58	27	24	29	18	1.98
12098128--12098183	13	4.3	13	88	0	85	17	19	44	17	1.87
12099079--12099139	32	1.9	31	86	3	86	36	9	11	42	1.74
12100918--12100955	18	2.1	18	85	9	51	55	2	0	42	1.14
12100962--12100995	11	3.1	11	91	0	50	64	0	5	29	1.17
12102127--12102162	15	2.5	15	90	4	56	22	25	38	13	1.91
12102464--12102552	3	30.0	3	78	10	85	64	1	2	32	1.13
12102481--12102554	17	4.1	17	80	13	85	68	1	2	27	1.10
12107080--12107112	17	2.0	17	88	5	50	30	27	0	42	1.56
12108464--12108527	30	2.1	31	80	13	80	46	6	0	46	1.27
12108485--12108561	29	2.6	28	82	10	75	48	11	2	37	1.54
12117562--12117595	11	3.1	11	82	0	50	70	5	8	14	1.31
12122186--12122219	11	3.1	11	82	0	50	70	5	8	14	1.31
12123955--12124157	44	4.6	44	91	0	334	24	23	11	41	1.87
12124666--12124716	21	2.4	21	83	0	75	31	17	17	33	1.94
12124746--12124784	20	2.0	19	85	5	51	25	23	15	35	1.94
12130300--12130708	44	9.3	44	87	2	552	22	21	13	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12130300--12130708	132	3.1	132	89	1	613	22	21	13	43	1.87
12134394--12134572	88	2.0	88	97	0	340	35	11	18	34	1.87
12142364--12142415	5	10.0	5	76	15	52	15	0	7	76	0.99
12142364--12142415	11	5.0	10	81	11	52	15	0	7	76	0.99
12142364--12142408	14	3.0	15	83	9	56	15	0	8	75	1.03
12149891--12149944	27	2.0	27	100	0	108	37	3	25	33	1.74
12150183--12150226	12	3.6	12	84	3	52	84	11	4	0	0.77
12154937--12155031	26	3.7	24	80	9	91	23	3	5	68	1.24
12154958--12155040	5	16.0	5	80	7	94	21	1	4	72	1.10
12157626--12157665	21	1.9	21	85	10	55	20	10	5	65	1.42
12159723--12159747	11	2.3	11	100	0	50	52	8	0	40	1.31
12165237--12165279	18	2.4	17	81	11	50	23	4	2	69	1.18
12165735--12165769	12	2.8	12	91	4	52	37	40	11	11	1.77
12179577--12179699	36	3.3	36	68	14	86	27	16	12	43	1.83
12179578--12179755	77	2.3	77	87	2	243	28	16	12	42	1.85
12179758--12181045	39	33.0	39	88	0	1779	29	18	16	35	1.93
12179881--12179981	20	5.2	20	59	17	50	25	17	17	38	1.92
12181125--12181587	44	10.6	44	69	9	239	30	22	20	26	1.98
12181112--12181631	130	4.0	131	88	3	733	30	21	20	27	1.98
12186857--12186891	18	1.9	18	100	0	70	68	5	20	5	1.31
12191556--12191620	25	2.6	24	75	4	58	75	1	7	15	1.10
12191634--12191660	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12191904--12191953	21	2.4	20	78	18	57	64	0	4	32	1.12
12191905--12191956	19	2.6	19	80	17	52	65	0	3	30	1.10
12191917--12192019	22	4.7	21	72	18	77	62	1	5	30	1.30
12191966--12192014	23	2.1	24	81	11	57	57	0	8	34	1.29
12192473--12192577	37	2.8	36	82	5	129	31	15	14	39	1.87
12193308--12194891	106	15.0	106	88	3	2230	23	17	24	34	1.96
12194295--12194891	216	2.8	212	93	2	1034	22	17	25	34	1.96
12195695--12195771	22	3.5	22	94	0	127	20	14	28	36	1.92
12196167--12196513	172	2.0	172	93	3	590	25	17	20	35	1.95
12196548--12196614	16	4.1	16	78	17	52	0	13	8	77	0.98

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   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91