genome.fa.s144.2.7.7.80.10.50.1000.19.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

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  19  of  21  ( 2468 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)
2876743--2876793	20	2.5	20	100	0	102	43	15	9	31	1.80
2882969--2883007	13	3.0	13	92	0	69	30	20	15	33	1.94
2883441--2883492	20	2.4	21	90	9	79	21	50	25	3	1.65
2885554--2885579	13	2.0	13	100	0	52	30	15	15	38	1.88
2885534--2885601	33	2.1	33	86	2	93	33	14	14	36	1.87
2887254--2887289	18	2.0	18	94	0	63	55	8	0	36	1.30
2891333--2892370	72	14.3	72	76	9	704	54	10	2	32	1.47
2891437--2892366	215	4.3	214	77	7	613	54	10	2	33	1.47
2891898--2891948	20	2.5	20	76	23	54	54	7	0	37	1.29
2891342--2892362	144	7.1	144	75	7	804	54	10	2	32	1.46
2892033--2892072	20	2.0	20	85	0	53	57	2	0	40	1.12
2892108--2892154	23	2.0	25	87	8	71	63	2	0	34	1.06
2892107--2892366	76	3.5	76	80	4	205	58	8	0	31	1.33
2892344--2892429	40	2.2	39	79	6	91	58	9	0	32	1.30
2894935--2894996	22	2.9	21	70	25	56	11	1	20	66	1.32
2895907--2895963	24	2.5	22	82	5	69	70	0	29	0	0.88
2895891--2895952	13	4.8	13	75	15	56	69	0	30	0	0.89
2895894--2895963	20	3.5	20	70	1	52	71	0	28	0	0.86
2900638--2900674	20	1.9	18	89	10	56	78	0	10	10	0.97
2901266--2901304	20	2.0	20	90	5	62	28	0	12	58	1.34
2901566--2901648	43	1.9	43	95	0	148	54	3	8	33	1.48
2901742--2901978	117	2.0	119	83	6	304	51	3	9	35	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2901918--2902040	43	2.7	46	80	14	139	52	0	7	39	1.29
2902372--2902441	36	1.9	37	91	2	115	44	2	5	47	1.41
2907206--2907274	33	2.1	33	86	5	95	34	15	14	34	1.89
2907302--2907353	19	2.7	19	80	11	61	34	13	15	36	1.87
2910388--2910455	35	2.0	35	88	2	102	30	11	26	30	1.92
2911571--2911599	3	9.7	3	100	0	58	34	0	34	31	1.58
2917242--2917376	51	2.7	51	85	1	182	27	15	13	43	1.84
2919757--2920066	79	3.9	79	81	4	340	28	23	10	36	1.89
2919758--2920083	157	2.1	158	81	5	392	29	23	11	35	1.89
2925315--2925387	20	3.7	19	81	7	67	39	17	13	28	1.88
2925938--2925982	20	2.2	20	84	8	54	46	20	4	28	1.69
2926448--2926476	12	2.4	12	100	0	58	41	0	58	0	0.98
2928316--2928416	52	1.9	52	97	0	193	25	19	16	37	1.93
2934209--2934261	20	2.7	20	91	2	81	37	18	13	30	1.89
2937361--2937399	13	3.0	13	84	0	51	5	20	0	74	1.01
2937836--2937909	19	3.7	19	85	8	87	27	17	18	36	1.94
2939153--2939316	28	6.0	26	72	14	120	40	2	12	43	1.56
2939616--2939651	2	18.0	2	88	0	54	52	2	0	44	1.15
2940911--2940962	25	2.1	25	88	0	77	61	5	11	21	1.50
2941260--2941296	18	2.1	17	90	5	56	48	0	2	48	1.15
2942031--2942078	16	3.0	16	76	8	53	43	29	10	16	1.81
2942031--2942093	32	2.0	32	87	0	90	44	25	11	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2943101--2943153	13	3.8	13	80	16	54	39	3	1	54	1.29
2943365--2943403	21	2.0	20	90	10	62	56	0	0	43	0.99
2945545--2945573	2	15.0	2	92	7	51	48	0	0	51	1.00
2949083--2949180	49	2.0	49	97	0	187	15	21	28	34	1.94
2950601--2950685	37	2.3	37	87	4	109	20	4	22	52	1.64
2954486--2954539	20	2.7	20	83	8	65	42	18	9	29	1.81
2960333--2960413	41	2.0	41	92	0	135	32	7	22	38	1.82
2962799--2962855	11	5.0	11	78	18	55	64	1	0	33	1.04
2962881--2962937	18	3.2	17	74	13	53	61	0	0	38	0.96
2963620--2963648	10	2.9	10	100	0	58	58	0	10	31	1.31
2968110--2968152	2	21.5	2	100	0	86	48	0	51	0	1.00
2971950--2972007	14	4.3	13	76	10	55	56	1	0	41	1.09
2972195--2972256	18	3.4	19	82	10	76	59	0	0	40	0.97
2972222--2972258	17	2.1	18	90	5	58	67	0	0	32	0.91
2972354--2972392	20	2.0	20	89	0	60	41	7	0	51	1.31
2972396--2972432	11	3.3	11	85	7	56	32	0	0	67	0.91
2972979--2973013	18	1.9	18	88	0	52	74	0	22	2	0.95
2973139--2973187	19	2.8	17	78	15	55	24	2	0	73	0.94
2978441--2978477	18	2.1	17	90	5	56	59	0	0	40	0.97
2985656--2985687	17	1.9	16	93	6	55	56	0	0	43	0.99
2985662--2985742	22	3.6	22	75	22	71	54	0	0	45	0.99
2985672--2985744	23	3.0	23	77	15	69	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2985683--2985754	23	3.1	23	71	18	60	55	0	0	44	0.99
2986869--2986918	20	2.4	21	80	6	57	30	2	0	68	1.01
2987111--2987162	24	2.0	25	85	10	70	59	3	0	36	1.16
2989533--2989587	29	2.0	29	82	7	69	12	12	16	58	1.64
2991405--2991471	17	4.2	16	69	21	52	58	1	0	40	1.07
2991579--2991620	20	2.1	20	86	0	57	50	2	11	35	1.52
2991861--2991901	19	2.1	20	78	17	50	36	0	2	60	1.10
2991867--2991911	19	2.5	17	80	16	54	37	0	2	60	1.09
2992656--2992696	16	2.6	16	85	11	57	46	2	0	51	1.14
2994124--2994170	21	2.2	20	79	17	51	57	0	0	42	0.98
2994140--2994192	23	2.3	22	78	18	54	60	1	0	37	1.08
2994208--2994253	14	3.4	13	88	8	65	0	13	0	86	0.56
2994209--2994264	11	4.7	11	80	12	58	1	14	0	83	0.72
2994210--2994264	24	2.2	26	87	6	78	1	14	0	83	0.73
2995041--2995108	31	2.1	34	89	10	106	52	0	2	44	1.16
2998542--2998749	104	2.0	104	91	0	335	50	16	14	18	1.78
3001369--3001457	29	3.1	27	76	22	76	55	0	3	41	1.17
3001400--3001444	19	2.4	18	88	7	63	62	0	2	35	1.08
3002172--3002204	16	2.1	17	88	11	52	24	0	9	66	1.20
3002887--3002955	13	4.9	13	71	22	50	37	1	0	60	1.06
3002882--3002934	23	2.4	23	84	9	76	37	1	0	60	1.08
3002886--3002954	29	2.4	27	81	11	84	37	1	0	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3005150--3005216	7	9.6	7	72	4	55	79	1	11	7	1.00
3006830--3007133	158	1.9	157	89	3	477	36	13	13	36	1.83
3019355--3019402	21	2.3	20	89	7	69	62	0	4	33	1.14
3019355--3019402	10	4.5	11	84	5	64	62	0	4	33	1.14
3019388--3019466	24	3.3	23	75	15	79	54	0	1	44	1.08
3019818--3019868	20	2.5	20	81	9	59	68	1	0	29	1.00
3019923--3019983	32	1.9	32	82	0	77	52	8	0	39	1.31
3020390--3020431	16	2.6	16	88	3	57	69	2	0	28	1.01
3020671--3020704	7	4.7	7	88	3	50	20	0	2	76	0.92
3020865--3020905	16	2.4	17	84	15	50	85	7	2	4	0.81
3022224--3022309	18	4.8	18	77	12	88	79	3	1	16	0.94
3030234--3030284	27	1.9	26	88	4	75	27	17	33	21	1.96
3032537--3032681	50	2.9	51	84	5	188	44	8	17	29	1.79
3035547--3035671	26	4.8	26	85	10	168	27	0	4	67	1.16
3035533--3035644	50	2.3	50	89	7	167	27	0	4	67	1.09
3035547--3035639	17	5.4	17	75	21	77	30	0	4	65	1.12
3035596--3035654	9	6.8	9	76	7	59	32	0	3	64	1.10
3035562--3035655	10	10.7	10	74	23	54	30	0	3	65	1.08
3036294--3036344	15	3.6	15	74	15	54	27	0	1	70	0.98
3036288--3036345	27	2.2	25	87	6	80	29	0	1	68	0.99
3036287--3036332	11	4.2	11	79	17	51	28	0	0	71	0.86
3036285--3036431	60	2.5	60	76	11	142	34	2	3	60	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3036288--3036357	27	2.7	27	80	4	63	30	0	2	67	1.05
3037330--3037412	37	2.2	36	81	12	96	34	18	18	28	1.94
3039647--3039681	2	17.5	2	100	0	70	51	0	0	48	1.00
3040853--3040894	17	2.3	19	88	8	61	14	0	2	83	0.75
3041121--3041170	16	3.2	16	83	8	50	50	20	2	28	1.59
3043502--3043816	156	2.0	156	88	3	474	27	20	12	39	1.89
3044378--3044424	16	3.0	15	84	9	67	80	0	17	2	0.80
3044627--3044694	32	2.1	34	83	5	86	42	0	4	52	1.21
3044717--3044779	28	2.1	32	80	16	82	30	4	4	60	1.38
3047409--3047435	3	9.0	3	100	0	54	33	0	0	66	0.92

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