genome.fa.s8959.2.7.7.80.10.50.1000.15.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: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4521124

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

This is table  15  of  21  ( 2431 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)
2832575--2832637	35	1.9	33	87	12	94	12	25	28	33	1.92
2838273--2838611	168	2.0	169	98	0	662	37	9	17	35	1.82
2861118--2861187	29	2.4	29	100	0	140	32	17	15	34	1.91
2861652--2861738	41	2.1	41	86	0	120	29	9	18	42	1.81
2863420--2863562	41	3.5	41	73	12	141	28	17	23	30	1.97
2863422--2863634	81	2.6	82	84	5	261	29	17	22	30	1.97
2863420--2863582	41	4.0	38	71	10	110	28	16	23	31	1.96
2868975--2869051	38	2.0	38	94	0	136	36	2	18	42	1.64
2869157--2869204	23	2.0	23	88	4	69	39	4	4	52	1.40
2869552--2869726	54	3.2	54	87	3	253	30	18	18	33	1.95
2869552--2869747	54	3.6	54	85	6	245	32	18	16	33	1.93
2869552--2869747	108	1.8	108	85	0	275	32	18	16	33	1.93
2870143--2870643	54	9.3	54	85	4	670	33	16	16	33	1.91
2869157--2870317	591	2.0	592	97	0	2198	35	17	11	35	1.86
2870993--2871039	19	2.3	22	85	10	64	31	19	14	34	1.92
2874059--2874096	15	2.4	15	91	8	58	65	0	13	21	1.26
2882923--2883018	24	4.0	23	77	12	88	37	17	17	27	1.93
2887737--2887788	16	3.1	16	84	15	54	61	7	3	26	1.41
2887749--2887788	16	2.6	15	85	14	55	65	5	2	27	1.27
2888472--2888523	19	2.7	19	90	0	86	19	34	17	28	1.94
2894182--2894260	24	3.5	24	69	20	71	21	24	24	30	1.99
2895804--2895847	21	2.1	21	82	0	52	9	43	15	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2897067--2897115	19	2.6	19	84	9	57	24	28	20	26	1.99
2897875--2897958	12	7.1	11	74	15	78	40	20	15	23	1.90
2897867--2897970	48	2.2	48	89	0	163	39	20	17	23	1.92
2897869--2897958	24	3.8	24	95	0	162	41	18	15	24	1.90
2903780--2903827	24	2.0	24	100	0	96	41	8	16	33	1.78
2903836--2903887	21	2.5	20	77	14	61	36	13	25	25	1.92
2916104--2916142	21	1.9	20	84	5	51	28	12	23	35	1.91
2918877--2918935	26	2.3	27	94	5	104	27	28	8	35	1.86
2922091--2922143	18	2.7	20	82	11	65	20	26	16	35	1.94
2929519--2929564	19	2.4	19	85	0	56	13	21	15	50	1.78
2943459--2943507	2	24.5	2	100	0	98	48	0	0	51	1.00
2944418--2944475	2	29.0	2	100	0	116	50	0	0	50	1.00
2946494--2946560	30	2.2	30	86	0	98	28	28	7	35	1.84
2947448--2947476	15	2.0	15	93	6	51	20	6	10	62	1.50
2947432--2947504	38	1.9	38	91	0	119	24	10	10	53	1.68
2948170--2948214	23	2.0	23	90	0	72	24	26	26	22	2.00
2948194--2948490	149	2.0	149	95	1	533	35	20	16	27	1.94
2949395--2949429	18	1.9	18	88	11	54	22	17	5	54	1.64
2950012--2950056	21	2.1	21	87	0	63	15	24	28	31	1.96
2953317--2953361	23	2.0	23	90	0	72	24	26	26	22	2.00
2953329--2953643	149	2.1	149	94	2	553	33	21	18	26	1.96
2955160--2955204	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2957549--2957646	30	3.3	30	85	5	117	26	23	8	41	1.82
2957973--2958029	21	2.7	21	86	5	80	26	36	8	28	1.86
2967604--2967684	3	27.0	3	100	0	162	33	0	0	66	0.92
2969625--2969676	24	2.2	24	96	0	95	26	30	9	32	1.89
2973242--2973330	21	4.2	21	67	16	58	40	12	14	32	1.83
2995710--2995767	18	3.2	18	90	0	89	15	48	22	13	1.80
2995780--2995849	29	2.4	29	87	0	104	27	5	22	44	1.75
2995780--2995866	29	3.0	28	83	6	102	28	5	19	45	1.73
2995845--2995893	23	2.0	24	88	11	73	44	2	4	48	1.33
2995780--2995932	29	5.5	28	75	11	98	33	3	16	46	1.63
2995871--2995964	29	3.4	28	79	4	84	34	2	12	51	1.52
2996145--2996169	6	4.2	6	100	0	50	16	20	16	48	1.82
2998179--2998244	2	33.0	2	100	0	132	50	0	0	50	1.00
3012698--3012941	122	2.0	122	89	1	373	38	19	19	22	1.93
3013080--3013113	3	11.7	3	87	6	52	38	0	0	61	0.96
3015664--3015693	15	2.0	15	93	0	51	86	0	10	3	0.67
3015838--3015907	35	2.0	35	94	0	122	34	7	21	37	1.81
3020210--3020259	20	2.4	21	90	3	75	22	34	14	30	1.93
3020622--3020709	20	4.4	19	78	16	79	35	23	15	25	1.95
3023435--3023466	17	1.9	16	93	6	55	65	0	3	31	1.08
3034919--3035233	156	2.0	158	98	1	616	26	20	17	34	1.95
3040186--3040242	30	1.9	30	92	0	96	33	12	22	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3040366--3040536	83	2.1	82	81	5	193	35	12	17	33	1.88
3040384--3040536	41	3.7	42	84	2	177	37	13	17	32	1.88
3040384--3040536	83	1.9	83	84	4	211	37	13	17	32	1.88
3041951--3042313	42	8.8	41	84	1	377	27	19	18	34	1.95
3042557--3042788	41	5.7	41	69	10	152	31	16	19	32	1.94
3042536--3042860	82	3.9	82	84	6	381	32	16	19	32	1.94
3046627--3046654	14	2.0	14	100	0	56	50	0	14	35	1.43
3052224--3052297	21	3.5	21	84	0	103	41	17	37	2	1.64
3052712--3053042	43	7.7	43	84	5	330	33	25	17	23	1.96
3052712--3053042	86	3.9	86	84	3	371	33	25	17	23	1.96
3054195--3054226	2	16.0	2	100	0	64	50	0	0	50	1.00
3058876--3058900	12	2.1	12	100	0	50	60	24	0	16	1.36
3065123--3065172	24	2.1	24	96	0	91	56	8	8	28	1.57
3072729--3072771	20	2.1	21	83	8	54	34	11	23	30	1.90
3074795--3074836	17	2.4	18	92	4	68	71	0	7	21	1.09
3075455--3075670	76	2.8	76	92	2	355	58	12	1	27	1.44
3088368--3088420	22	2.5	22	96	3	99	18	24	39	16	1.91
3096927--3097151	117	1.9	118	84	5	305	53	4	13	28	1.60
3097107--3097178	27	2.5	28	84	6	83	51	8	11	29	1.66
3098329--3098410	25	3.1	25	73	13	83	37	2	6	53	1.39
3100655--3100711	28	2.0	28	86	6	80	35	3	12	49	1.58
3101265--3101485	123	1.8	122	89	3	345	39	8	9	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3101620--3103415	923	1.9	920	90	1	2812	35	15	15	33	1.89
3106126--3106177	24	2.2	24	86	6	70	15	40	7	36	1.76
3107262--3107613	173	2.0	177	96	3	658	29	14	19	37	1.90
3108122--3108146	13	1.9	13	100	0	50	32	8	16	44	1.76
3110527--3110946	208	2.0	208	94	0	741	36	16	16	29	1.92
3112874--3112906	16	2.0	17	94	5	59	36	6	21	36	1.78
3121661--3121749	3	28.7	3	79	4	88	40	0	1	58	1.05
3123117--3123156	17	2.4	17	86	0	53	57	0	0	42	0.98
3123135--3123174	12	3.1	13	82	10	55	40	0	0	60	0.97
3123331--3123357	11	2.5	11	100	0	54	33	0	0	66	0.92
3134306--3134400	16	5.9	16	83	14	117	87	0	12	0	0.55
3134310--3134400	23	4.0	23	88	8	123	87	0	12	0	0.53
3134305--3134400	39	2.4	41	86	8	144	86	0	13	0	0.57
3134309--3134400	1	92.0	1	75	0	85	88	0	11	0	0.53
3134309--3134400	40	2.3	39	87	10	125	88	0	11	0	0.53
3134388--3134426	20	2.0	20	94	0	69	66	2	30	0	1.05
3135313--3135393	41	2.0	40	97	2	153	27	19	8	44	1.80
3135601--3135862	83	3.2	83	91	1	422	28	14	20	35	1.92
3136694--3137560	113	7.8	112	82	9	964	36	14	19	29	1.92
3136734--3137562	224	3.7	226	87	8	1082	36	14	19	29	1.91
3137507--3137595	36	2.5	36	96	0	160	50	8	19	21	1.74
3137843--3137924	3	26.7	3	82	7	76	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3137836--3137918	14	6.2	12	74	23	53	39	0	0	60	0.97
3139276--3139314	16	2.4	17	86	4	53	56	0	0	43	0.99
3139293--3139338	13	3.5	13	82	11	58	41	2	0	56	1.11
3149571--3149671	48	2.1	48	90	0	157	21	6	19	51	1.70
3149687--3149802	53	2.2	53	90	0	178	25	19	19	35	1.96
3156640--3156739	48	2.1	48	86	0	137	25	12	18	45	1.83
3165422--3165458	20	1.9	19	89	10	58	45	10	24	18	1.81
3167101--3167421	160	2.0	161	99	0	635	38	11	15	33	1.84
3167948--3168041	19	4.8	19	70	10	64	30	0	14	54	1.41
3168702--3168742	16	2.6	16	84	7	57	17	0	0	82	0.66

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