genome.fa.s7823.2.7.7.80.10.50.1000.16.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  16  of  33  ( 3920 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)
3021854--3022308	234	1.9	234	99	0	901	27	24	8	38	1.85
3023982--3024020	6	6.5	6	96	0	69	82	0	15	2	0.79
3024020--3024222	6	33.8	6	96	0	307	49	0	33	16	1.46
3025968--3026194	126	1.8	126	80	5	280	35	16	17	30	1.92
3031886--3031916	16	1.9	16	93	0	53	9	22	25	41	1.84
3033608--3033644	2	18.5	2	100	0	74	51	0	0	48	1.00
3034689--3034973	43	6.7	42	75	9	204	52	6	16	24	1.67
3034729--3034809	42	1.9	42	82	5	101	53	7	18	20	1.69
3036133--3036222	25	3.7	24	74	15	69	44	3	0	52	1.17
3036154--3036222	22	3.0	22	79	12	75	44	4	0	50	1.21
3036331--3036391	31	2.0	31	96	0	113	52	8	11	27	1.66
3038367--3038580	107	2.0	107	87	0	311	36	17	15	29	1.92
3043149--3043296	72	2.1	72	97	0	278	34	18	14	31	1.92
3043829--3043970	60	2.4	59	85	4	194	26	21	15	36	1.93
3044270--3044421	28	5.3	28	82	7	189	15	7	30	46	1.73
3044270--3044421	60	2.7	56	85	5	198	15	7	30	46	1.73
3053567--3053636	3	23.0	3	80	8	79	40	0	0	60	0.97
3053567--3053643	26	2.8	28	77	20	90	41	0	0	58	0.98
3053568--3053643	23	3.2	25	76	14	72	42	0	0	57	0.98
3061242--3061281	1	40.0	1	89	0	53	92	0	7	0	0.38
3061242--3061281	19	2.2	19	95	4	73	92	0	7	0	0.38
3064872--3064952	23	3.6	23	75	6	85	34	11	11	43	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3065607--3065915	46	6.7	46	93	1	532	23	22	19	34	1.96
3065607--3065915	91	3.4	91	94	0	537	23	22	19	34	1.96
3066049--3066101	3	17.0	3	84	7	70	37	0	0	62	0.96
3066054--3066108	12	4.3	12	81	9	56	41	0	0	58	0.98
3075819--3076240	207	2.0	212	94	5	757	24	21	13	40	1.89
3077189--3077221	17	1.9	17	88	11	50	66	0	9	24	1.20
3099330--3099356	2	13.5	2	100	0	54	0	48	0	51	1.00
3099282--3099431	75	2.0	75	98	0	291	25	24	17	32	1.97
3099405--3099580	8	22.2	8	85	2	158	0	60	0	38	1.01
3099405--3099582	22	8.4	22	81	9	201	0	61	0	38	1.01
3099406--3099582	28	6.0	28	81	11	194	0	61	0	37	1.00
3099769--3099808	21	2.0	21	85	9	57	40	0	0	60	0.97
3100985--3101036	21	2.4	22	84	9	63	61	0	1	36	1.07
3101224--3101282	26	2.2	28	82	11	70	61	0	0	38	0.96
3101251--3101290	20	1.9	22	90	10	66	60	0	0	40	0.97
3101276--3101350	23	3.4	21	68	15	53	50	2	0	46	1.15
3104691--3104771	40	2.0	40	95	2	146	33	23	17	25	1.96
3108564--3108614	25	2.0	27	84	7	70	15	7	7	68	1.37
3112302--3112427	62	2.0	62	100	0	252	30	11	31	26	1.91
3115746--3115791	8	5.5	8	82	7	56	82	2	15	0	0.76
3115828--3115879	6	8.0	6	76	23	52	80	0	17	1	0.80
3115829--3115873	8	6.4	7	87	12	58	82	0	15	2	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3115829--3115879	14	3.8	13	85	12	68	82	0	15	1	0.76
3115836--3115878	22	2.0	22	86	9	61	81	0	16	2	0.79
3116988--3117216	100	2.2	104	85	6	306	34	24	18	22	1.96
3117202--3117486	150	1.9	148	83	4	367	30	24	17	26	1.97
3124359--3124385	2	13.5	2	100	0	54	48	0	0	51	1.00
3125456--3125506	24	2.1	25	85	10	70	11	5	15	66	1.41
3125491--3125529	14	2.8	14	80	0	51	5	10	23	61	1.48
3125874--3125970	23	4.2	22	74	13	79	53	1	1	44	1.14
3126585--3126625	17	2.4	17	83	0	55	34	12	7	46	1.69
3129670--3129709	21	1.9	21	100	0	80	40	10	20	30	1.85
3129673--3129720	21	2.3	21	88	0	69	45	10	18	25	1.81
3130526--3130591	27	2.4	27	82	5	71	24	9	16	50	1.74
3131382--3131424	17	2.5	17	88	0	68	23	9	6	60	1.51
3135547--3135606	27	2.2	28	84	3	77	20	10	21	48	1.78
3139900--3139942	21	2.0	22	86	4	61	27	0	46	25	1.53
3140606--3140671	21	3.1	21	80	2	78	13	27	33	25	1.94
3151674--3151780	23	4.9	23	68	17	68	50	0	1	47	1.11
3151712--3151795	44	1.9	44	85	9	118	51	1	2	45	1.22
3151826--3151876	22	2.3	22	86	10	68	50	0	1	47	1.12
3151950--3151997	14	3.4	14	76	2	51	56	0	2	41	1.11
3152115--3152149	14	2.5	15	86	13	56	40	5	14	40	1.69
3153037--3153274	42	5.7	42	76	3	210	28	19	22	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153029--3153268	84	2.9	84	83	2	259	27	18	22	30	1.98
3153379--3153426	21	2.3	21	85	0	60	20	47	16	14	1.82
3158718--3158768	20	2.5	20	87	0	66	37	21	5	35	1.78
3161468--3161516	20	2.5	20	86	0	62	30	24	12	32	1.92
3162687--3162727	22	1.9	21	90	5	64	24	9	14	51	1.72
3164245--3164546	117	2.6	117	86	2	430	31	33	15	19	1.93
3170725--3171026	117	2.6	117	86	3	423	32	33	15	18	1.92
3172546--3172591	21	2.2	21	92	7	76	50	8	36	4	1.53
3180130--3180218	43	2.1	43	82	0	106	7	16	13	61	1.54
3185666--3185716	16	3.1	16	72	13	50	41	5	21	31	1.77
3185989--3186041	18	2.9	18	94	0	88	20	22	30	26	1.98
3186321--3186365	11	3.8	12	80	11	56	35	0	11	53	1.37
3186852--3187690	419	2.0	414	89	3	1290	37	19	16	26	1.92
3190313--3190388	32	2.4	30	78	8	80	39	25	17	18	1.91
3190415--3190457	16	2.7	16	96	0	77	18	32	13	34	1.90
3190653--3190679	13	2.1	13	100	0	54	55	0	0	44	0.99
3190720--3190763	23	1.9	23	100	0	88	45	0	4	50	1.22
3193876--3194087	102	2.1	102	93	0	370	50	20	7	21	1.72
3194072--3194104	17	1.9	17	100	0	66	60	18	6	15	1.54
3194439--3194540	6	17.3	6	79	4	109	8	0	42	49	1.34
3194444--3194559	6	19.5	6	74	15	62	10	0	40	48	1.43
3195257--3195309	13	4.0	12	77	20	52	45	1	0	52	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3195273--3195416	6	23.3	6	69	20	68	47	2	2	47	1.28
3195372--3195552	31	5.7	29	75	23	143	49	4	3	42	1.41
3195378--3195424	24	1.9	25	82	4	60	51	8	2	38	1.45
3195271--3195557	131	2.2	130	79	14	308	48	3	2	44	1.35
3195456--3195549	34	3.0	30	74	18	100	50	3	3	43	1.34
3195271--3195549	65	4.3	64	77	19	242	48	3	2	45	1.33
3195538--3195579	22	2.0	21	90	9	68	47	11	4	35	1.61
3195567--3195619	21	2.5	21	87	0	79	47	5	7	39	1.56
3195659--3195770	20	5.5	21	75	20	105	42	8	7	41	1.63
3195672--3195729	24	2.5	24	86	5	75	46	6	6	39	1.57
3195698--3195745	18	2.8	18	84	12	66	41	8	6	43	1.60
3195861--3195913	7	7.6	7	84	0	70	18	0	35	45	1.50
3195997--3196038	2	21.0	2	100	0	84	50	0	0	50	1.00
3196301--3196592	2	147.5	2	76	13	248	46	3	1	48	1.29
3196303--3196592	125	2.3	129	89	5	441	46	3	1	48	1.29
3196613--3196692	18	3.9	19	72	24	65	45	3	5	46	1.43
3196657--3196710	18	2.8	20	84	13	62	44	1	3	50	1.30
3196587--3196683	44	2.2	44	98	0	185	45	6	4	44	1.48
3206849--3206980	71	1.9	70	90	1	210	14	23	5	56	1.58
3206849--3206995	71	2.1	71	87	1	206	15	22	6	55	1.62
3214318--3215174	84	10.2	84	84	1	995	34	22	18	24	1.96
3214318--3215174	251	3.4	251	85	2	1078	34	22	18	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3217664--3218327	182	3.7	181	88	3	945	41	14	16	27	1.87
3220716--3220757	21	2.0	21	90	0	66	40	9	33	16	1.81
3220996--3221047	18	3.2	15	79	12	50	61	0	30	7	1.24
3221006--3221062	18	3.2	18	92	0	96	59	0	35	5	1.20
3222616--3222665	19	2.6	19	87	0	73	36	4	6	54	1.44
3222949--3223620	200	3.4	199	83	5	809	39	12	15	32	1.85
3227238--3227761	200	2.6	198	85	5	689	38	13	15	32	1.86
3227847--3227957	23	4.8	23	92	0	168	38	16	9	36	1.80
3228378--3228426	25	2.0	25	88	4	73	65	2	2	30	1.15
3228473--3228514	18	2.3	18	88	8	59	61	2	0	35	1.09

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