genome.fa.s8824.2.7.7.80.10.50.1000.14.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

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

This is table  14  of  19  ( 2203 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)
3076046--3076147	26	3.9	27	80	12	106	50	4	0	45	1.23
3076111--3076256	39	3.8	38	85	7	188	45	6	2	46	1.39
3076108--3076250	37	3.7	37	88	6	189	46	5	2	46	1.38
3076236--3076268	14	2.5	13	90	9	50	45	6	0	48	1.27
3080975--3081031	20	2.8	20	94	0	96	29	15	28	26	1.96
3081012--3081042	14	2.2	14	100	0	62	29	19	32	19	1.96
3080898--3081133	129	1.8	129	84	7	327	32	14	25	27	1.94
3081465--3081837	55	6.8	54	80	7	360	30	20	18	30	1.96
3081466--3081837	110	3.4	110	82	5	423	30	20	18	30	1.96
3088080--3088124	22	2.2	20	84	8	54	31	15	24	28	1.96
3087995--3088221	95	2.4	95	85	2	285	31	14	24	28	1.95
3088545--3088922	55	6.9	54	84	3	427	30	20	20	29	1.97
3088545--3088937	165	2.4	163	84	5	479	30	20	19	29	1.97
3093663--3093746	40	2.1	40	93	0	141	36	19	13	30	1.89
3098680--3098761	22	3.9	21	70	6	58	60	1	1	36	1.12
3098713--3099057	184	1.9	183	95	0	618	41	3	9	45	1.54
3099933--3100165	77	3.0	75	82	3	277	35	10	18	35	1.85
3100281--3100507	77	3.0	74	77	10	224	38	10	14	36	1.81
3100281--3100496	76	2.8	75	80	3	243	37	10	15	36	1.83
3099840--3100506	341	2.0	338	80	5	772	38	9	16	35	1.81
3100823--3100879	28	2.0	29	86	6	82	36	3	7	52	1.46
3100951--3101281	99	3.3	99	82	8	377	37	11	14	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3101517--3101753	73	3.3	74	76	8	218	36	12	6	45	1.67
3102118--3102281	77	2.1	76	82	5	188	35	17	10	36	1.84
3107743--3107794	13	4.0	13	79	0	59	28	19	15	36	1.92
3110016--3110117	35	2.9	35	84	5	127	33	3	35	27	1.75
3113647--3113681	17	1.9	17	88	11	52	2	14	2	80	0.95
3114081--3114191	35	3.2	35	87	2	143	34	2	34	28	1.72
3118159--3118242	35	2.4	35	85	0	114	38	3	30	27	1.74
3118159--3118263	35	3.0	35	81	4	104	37	3	32	26	1.75
3122325--3122370	8	5.8	8	89	0	74	69	0	30	0	0.89
3122325--3122368	16	2.8	16	100	0	88	70	0	29	0	0.88
3136845--3137020	29	6.3	29	78	10	136	47	17	2	32	1.60
3143326--3143375	21	2.4	21	89	0	82	48	16	18	18	1.82
3144182--3144364	29	6.6	29	74	11	114	49	14	1	35	1.51
3149074--3149141	2	34.0	2	100	0	136	50	0	0	50	1.00
3159607--3159653	16	2.7	18	83	9	53	78	0	19	2	0.85
3161136--3161193	24	2.4	24	97	0	107	43	10	29	17	1.82
3174550--3174586	17	2.2	17	95	0	65	29	13	5	51	1.63
3176269--3176328	19	3.4	19	73	17	74	38	8	18	35	1.81
3176262--3176334	34	2.1	34	97	0	137	32	8	17	41	1.79
3176763--3176904	71	2.0	71	100	0	284	19	22	23	33	1.97
3177606--3177638	2	16.5	2	100	0	66	48	0	0	51	1.00
3179118--3179203	32	2.7	32	92	0	136	31	18	3	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3179377--3179408	16	2.0	16	93	0	55	21	3	0	75	0.95
3191284--3191367	17	5.1	16	68	19	57	79	1	11	7	0.97
3191279--3191323	21	2.1	21	88	8	65	80	0	13	6	0.91
3191273--3191341	25	2.7	25	78	14	70	78	0	11	10	0.97
3191949--3192248	150	2.0	150	100	0	600	39	20	16	24	1.92
3193048--3193072	13	1.9	13	100	0	50	48	28	0	24	1.52
3193914--3194136	111	2.0	111	100	0	446	16	8	31	43	1.77
3194540--3194659	32	3.7	32	80	7	136	29	16	4	50	1.64
3194540--3194660	64	1.9	65	84	8	167	28	17	4	49	1.65
3199566--3199601	18	2.1	18	90	10	58	13	5	41	38	1.68
3210878--3211017	69	2.0	69	97	0	262	47	11	12	28	1.77
3217026--3217062	15	2.5	15	100	0	74	16	43	10	29	1.82
3222674--3222760	22	4.0	22	87	3	86	26	21	18	33	1.96
3223943--3223987	18	2.4	19	81	7	56	48	8	4	37	1.55
3224972--3225028	30	1.9	30	88	0	87	40	7	3	49	1.47
3235964--3236036	25	3.2	24	75	11	64	46	2	1	49	1.24
3239723--3239762	12	3.3	12	85	0	53	67	12	0	20	1.22
3251538--3251575	14	2.6	15	91	4	60	31	23	7	36	1.84
3252990--3253024	13	2.7	13	86	0	52	17	48	20	14	1.81
3256583--3256623	2	20.5	2	100	0	82	51	0	0	48	1.00
3256940--3256981	15	2.9	15	78	3	50	35	0	4	59	1.19
3256920--3256981	32	2.0	29	84	9	79	37	1	3	58	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3257665--3257735	37	1.9	37	91	5	117	30	18	5	45	1.72
3257680--3257734	18	2.9	19	71	15	60	32	20	5	41	1.75
3258061--3258238	62	3.0	62	89	8	271	35	19	8	36	1.82
3269884--3270356	55	8.9	52	91	1	524	29	27	15	28	1.96
3271636--3271770	16	7.8	17	70	21	70	7	18	0	73	1.11
3271662--3271701	19	2.1	19	90	0	62	7	20	0	72	1.08
3271662--3271707	19	2.5	18	80	13	58	6	19	0	73	1.04
3271636--3271772	18	7.9	17	69	20	79	7	18	0	73	1.10
3271643--3271759	8	13.9	8	72	24	73	7	17	0	73	1.11
3281427--3281532	47	2.2	47	81	11	133	42	19	12	25	1.86
3285416--3285476	16	3.8	16	84	0	77	50	24	16	8	1.72
3285416--3285476	32	1.9	32	86	0	86	50	24	16	8	1.72
3285700--3285750	12	4.3	12	87	5	77	23	23	25	27	2.00
3286892--3287020	33	3.5	38	77	14	137	15	10	34	39	1.82
3287559--3287622	17	3.7	17	91	2	92	26	29	10	32	1.90
3294126--3294172	20	2.3	21	81	7	60	63	2	4	29	1.25
3294556--3294651	28	3.4	28	69	11	79	72	3	10	13	1.22
3296448--3296497	13	3.8	13	97	0	91	14	24	0	62	1.32
3301446--3301487	17	2.5	17	77	11	50	59	0	11	28	1.33
3302037--3302084	12	3.9	12	78	13	53	68	4	6	20	1.28
3302038--3302071	17	2.0	17	88	0	50	73	2	2	20	1.09
3302039--3302089	25	2.1	24	85	7	68	72	3	7	15	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3302075--3302099	5	5.0	5	100	0	50	80	0	20	0	0.72
3302652--3302680	15	1.9	15	100	0	58	34	13	20	31	1.92
3306521--3306572	26	2.0	25	85	10	70	26	5	9	57	1.53
3311347--3311404	22	2.6	22	97	0	107	43	18	8	29	1.80
3311920--3312173	138	1.8	138	84	5	352	27	15	16	40	1.88
3314423--3314453	4	7.8	4	100	0	62	22	0	0	77	0.77
3314431--3315148	376	1.9	378	91	2	1176	36	11	12	40	1.78
3320134--3320159	3	8.7	3	100	0	52	65	0	34	0	0.93
3321108--3321211	36	2.9	36	78	5	120	34	6	17	41	1.76
3327712--3327758	19	2.5	19	100	0	94	57	0	4	38	1.18
3330720--3330763	22	2.0	23	86	4	63	61	4	0	34	1.16
3333013--3333048	18	2.0	18	89	10	56	2	30	0	66	1.06
3333331--3333376	3	15.3	3	82	8	58	63	2	0	34	1.07
3333582--3334741	54	21.5	54	88	3	1504	22	25	20	31	1.98
3335111--3335304	36	5.4	36	73	3	147	24	17	21	37	1.94
3336424--3336784	125	2.9	122	82	8	404	22	27	18	32	1.97
3338031--3338082	14	3.6	14	73	14	52	13	9	0	76	1.01
3338015--3338118	45	2.3	45	79	12	108	10	15	0	74	1.08
3344364--3344399	18	2.0	18	89	10	56	2	30	0	66	1.06
3344678--3344730	3	17.3	3	81	11	63	64	1	0	33	1.05
3357182--3357227	5	8.8	5	81	9	56	4	19	52	23	1.64
3364238--3364274	7	5.3	7	86	0	56	27	29	27	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3364276--3364334	5	11.0	5	75	13	55	8	22	50	18	1.73
3364267--3364312	22	2.1	22	91	0	74	10	21	45	21	1.82
3364258--3364334	27	2.8	27	90	4	109	12	22	45	19	1.84
3364333--3364410	19	4.1	19	77	14	88	28	28	26	16	1.97
3364337--3364430	9	9.8	9	74	11	62	29	25	26	18	1.98
3367392--3367453	21	3.0	21	87	0	88	32	20	3	43	1.68
3374929--3375343	205	2.0	209	98	1	802	31	4	17	46	1.69
3376554--3376704	18	8.7	18	79	8	125	32	7	15	44	1.75
3376573--3376665	35	2.7	35	86	0	141	31	7	15	46	1.73
3383333--3383358	2	13.0	2	100	0	52	50	0	0	50	1.00

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