genome.fa.s193.2.7.7.80.10.50.1000.17.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: Scaffold193
Parameters: 2 7 7 80 10 50 1000
Length:  3104049

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

This is table  17  of  18  ( 2130 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)
2853221--2853245	6	4.2	6	100	0	50	32	0	0	68	0.90
2854330--2854420	27	3.5	24	76	14	83	45	21	7	25	1.78
2854347--2854420	27	2.7	27	87	0	103	45	22	6	24	1.76
2856287--2856332	21	2.1	22	84	4	58	19	30	19	30	1.97
2856987--2857032	22	2.1	22	100	0	92	17	30	13	39	1.87
2858779--2858814	13	2.7	13	86	4	54	30	5	44	19	1.73
2858888--2858956	27	2.6	25	84	8	84	47	14	7	30	1.71
2860468--2860528	28	2.1	28	90	3	95	49	1	3	45	1.28
2860475--2860535	28	2.2	28	85	5	79	49	1	3	45	1.28
2861773--2861797	2	12.5	2	100	0	50	48	0	0	52	1.00
2866557--2866617	24	2.4	26	86	8	81	27	11	18	42	1.84
2866873--2866907	17	2.1	17	100	0	70	31	5	28	34	1.81
2868419--2868462	22	2.0	23	90	4	72	29	6	4	59	1.44
2868564--2868596	2	16.5	2	93	0	57	48	3	0	48	1.17
2870128--2870210	41	2.0	41	100	0	166	43	21	14	20	1.87
2872185--2872210	13	2.0	13	100	0	52	30	15	30	23	1.95
2872270--2872316	24	2.0	24	82	0	58	76	6	2	14	1.08
2873659--2873717	8	6.8	8	75	17	55	77	1	1	18	0.93
2873659--2873732	18	4.0	18	72	18	55	74	1	1	22	0.97
2873658--2873714	29	2.0	28	86	3	78	75	1	1	21	0.98
2873701--2873742	22	2.0	21	85	4	57	66	2	0	30	1.04
2873679--2873738	8	7.4	8	73	16	52	70	1	1	26	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2873852--2873877	13	2.0	13	100	0	52	38	15	15	30	1.88
2873972--2874018	19	2.6	18	90	6	76	19	21	10	48	1.78
2874793--2874853	23	2.7	23	82	7	79	57	11	27	3	1.49
2877475--2877550	27	2.8	27	90	6	109	25	32	19	22	1.97
2877425--2877777	104	3.3	106	72	11	333	28	28	13	29	1.94
2877537--2877703	52	3.2	50	76	12	167	30	26	10	32	1.89
2877366--2877703	104	3.2	103	72	11	317	30	26	11	31	1.92
2877364--2877770	212	1.9	212	88	3	622	28	27	12	31	1.93
2877691--2877762	28	2.6	28	86	0	90	23	33	19	23	1.97
2877716--2877920	79	2.6	79	79	1	214	24	28	16	29	1.97
2890058--2890101	18	2.5	18	88	3	63	86	11	2	0	0.66
2890059--2890106	13	3.5	13	91	5	69	85	10	4	0	0.73
2890057--2890107	18	2.8	18	77	19	61	84	11	3	0	0.75
2891116--2891670	55	10.0	55	88	4	706	27	29	20	22	1.99
2891114--2891670	171	3.3	169	86	5	740	27	29	20	22	1.99
2894015--2894145	51	2.5	53	79	8	151	32	24	9	33	1.88
2894129--2894204	27	2.8	27	85	2	98	23	30	21	25	1.99
2894187--2894360	52	3.3	53	78	9	187	28	25	13	32	1.93
2894020--2894358	104	3.2	102	70	16	287	29	25	12	32	1.92
2894340--2894416	28	2.8	28	82	7	86	24	33	18	23	1.96
2894018--2894431	212	2.0	212	87	2	609	28	26	13	31	1.93
2899940--2899999	22	2.7	23	75	15	61	73	5	13	8	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2899972--2900022	13	4.2	12	73	11	50	76	1	11	9	1.10
2900681--2900705	13	1.9	13	100	0	50	36	16	16	32	1.90
2900783--2900983	52	3.9	52	88	1	296	32	18	16	31	1.94
2905121--2905147	10	2.7	10	100	0	54	0	0	22	77	0.76
2913567--2913679	27	4.0	27	80	6	100	30	30	16	21	1.95
2913660--2913806	34	4.3	35	81	10	160	21	34	12	31	1.91
2913660--2913786	33	3.8	33	81	10	141	19	33	14	33	1.92
2913660--2913806	68	2.1	69	85	5	190	21	34	12	31	1.91
2913790--2914025	33	7.2	33	88	7	338	27	35	17	18	1.94
2913788--2914025	67	3.6	67	89	5	369	28	35	17	18	1.94
2914025--2914640	49	12.7	49	86	5	819	25	26	17	29	1.98
2914550--2914687	52	2.6	51	81	12	145	24	24	16	34	1.96
2914653--2914779	67	1.9	68	85	1	175	23	25	13	37	1.91
2915518--2915542	13	1.9	13	100	0	50	36	16	16	32	1.90
2915585--2915734	52	2.9	52	93	0	255	34	18	16	31	1.93
2920032--2920258	93	2.5	88	77	10	215	23	31	11	33	1.91
2920068--2920384	29	10.4	30	74	11	182	23	29	12	33	1.92
2920068--2920384	62	5.2	60	73	11	225	23	29	12	33	1.92
2919840--2920412	30	18.8	30	73	13	241	24	29	13	32	1.93
2920520--2920590	29	2.4	29	81	4	81	30	25	15	28	1.96
2920534--2920594	29	2.1	29	90	6	97	32	29	16	21	1.95
2920381--2920773	31	12.7	31	71	8	193	31	27	17	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2920585--2920761	94	1.9	93	83	8	234	32	29	19	18	1.95
2920381--2920769	63	6.3	63	71	10	220	31	28	17	22	1.97
2921001--2921128	52	2.5	52	82	5	143	24	26	17	32	1.97
2921317--2921474	84	1.9	84	82	0	199	15	25	15	42	1.87
2922018--2922115	22	4.5	22	66	18	62	71	5	0	23	1.06
2922042--2922121	18	4.4	17	72	12	52	73	5	0	21	1.01
2922020--2922118	40	2.4	41	81	6	121	72	5	0	22	1.03
2922042--2922088	17	2.7	18	77	9	53	74	8	0	17	1.05
2922090--2922118	14	2.1	14	93	6	51	72	0	0	27	0.85
2922020--2922121	41	2.5	39	81	7	114	73	4	0	21	1.02
2922825--2922874	16	3.4	16	73	21	63	42	16	26	16	1.88
2922814--2922889	28	2.7	28	95	0	134	43	15	25	15	1.86
2929289--2929349	30	2.0	30	93	0	104	50	9	9	29	1.67
2929283--2929355	30	2.7	26	72	15	74	50	8	10	30	1.66
2934513--2934570	17	3.2	17	79	13	71	56	0	0	43	0.99
2935498--2935564	23	3.0	23	73	20	70	43	0	1	55	1.09
2935511--2935561	19	2.7	20	80	20	56	43	0	1	54	1.11
2935528--2935570	19	2.4	18	81	11	52	44	0	0	55	0.99
2935540--2935601	28	2.2	28	82	0	79	45	4	0	50	1.23
2936119--2936144	12	2.2	12	100	0	52	69	0	0	30	0.89
2936117--2936168	25	2.1	25	81	0	59	65	0	0	34	0.93
2936118--2936157	20	2.0	20	85	9	55	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2939934--2939993	20	3.1	20	76	4	61	60	0	1	38	1.07
2939997--2940029	16	2.0	17	94	5	59	45	0	0	54	0.99
2939986--2940011	11	2.4	11	100	0	52	50	0	0	50	1.00
2939957--2940030	28	2.5	31	82	12	93	52	0	1	45	1.09
2940511--2940541	2	15.5	2	100	0	62	51	0	0	48	1.00
2942372--2942432	30	2.0	30	100	0	122	26	6	37	29	1.81
2946100--2946140	20	2.0	20	100	0	82	19	19	4	56	1.60
2949683--2949745	32	1.9	33	83	3	83	41	15	14	28	1.87
2950342--2950386	21	2.2	21	84	7	58	28	33	0	37	1.58
2952312--2952350	20	1.9	21	94	5	71	33	17	12	35	1.88
2958132--2958185	17	3.3	16	77	10	56	79	0	16	3	0.87
2958115--2958170	24	2.3	24	81	6	60	75	0	16	8	1.05
2958152--2958186	16	2.1	17	89	5	54	82	0	17	0	0.66
2958564--2958596	2	16.5	2	93	0	57	45	0	3	51	1.16
2960109--2960133	12	2.1	12	100	0	50	24	16	8	52	1.70
2965994--2966657	27	24.2	27	87	5	895	23	33	13	29	1.93
2965994--2966657	55	12.1	54	87	5	895	23	33	13	29	1.93
2966044--2966105	32	1.9	32	93	0	106	24	37	14	24	1.93
2966636--2967274	32	20.0	32	96	0	1091	31	35	17	14	1.91
2968513--2968583	24	3.0	24	81	6	74	76	0	18	5	0.98
2968532--2968593	20	3.2	19	80	11	72	77	0	17	4	0.94
2968531--2968586	16	3.2	17	77	18	62	80	0	17	1	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2970477--2970501	12	2.1	12	100	0	50	24	16	8	52	1.70
2972283--2972307	13	1.9	13	100	0	50	32	16	16	36	1.90
2974921--2975029	20	5.1	23	61	22	58	58	0	0	39	1.10
2974898--2975072	83	2.1	83	91	3	282	56	1	2	39	1.22
2974898--2975092	83	2.4	83	87	6	279	55	3	2	38	1.29
2976363--2976419	20	2.9	20	92	2	89	36	14	1	47	1.54
2985332--2985377	13	3.8	13	75	16	53	34	0	0	65	0.93
2985683--2985764	32	2.5	34	78	13	91	40	0	0	59	0.97
2992752--2992815	18	3.8	18	74	19	75	57	0	0	42	0.98
2992782--2992940	78	2.1	77	85	9	220	50	1	3	43	1.30

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