genome.fa.s2294.2.7.7.80.10.50.1000.9.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: scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  4312818

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

This is table  9  of  14  ( 1587 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)
2843079--2843221	27	5.3	27	76	9	98	35	26	8	29	1.86
2843116--2843221	27	3.9	27	78	7	115	36	27	9	26	1.87
2851710--2851744	7	5.0	7	92	0	52	17	51	14	17	1.77
2851731--2851770	21	2.0	21	90	5	64	25	32	17	25	1.97
2851762--2851862	49	2.1	49	83	3	123	29	28	15	25	1.96
2851799--2851851	14	3.8	14	78	9	54	24	30	15	30	1.95
2851819--2851858	14	2.9	14	84	0	53	27	27	12	32	1.93
2851825--2851870	21	2.2	21	84	0	56	30	28	15	26	1.96
2857593--2857638	14	3.2	14	81	3	56	56	8	2	32	1.42
2861487--2861528	3	14.0	3	100	0	84	33	0	0	66	0.92
2861710--2861751	21	2.0	22	81	13	52	50	4	4	40	1.45
2881264--2881414	35	4.3	35	83	2	178	39	31	13	15	1.86
2889891--2890121	81	2.9	81	85	6	317	44	16	20	18	1.87
2889892--2890120	27	8.5	26	84	9	250	44	17	20	18	1.87
2890464--2890590	28	4.5	28	91	2	193	23	25	21	29	1.99
2896833--2896874	20	2.0	21	86	4	59	4	38	2	54	1.34
2897553--2897702	27	5.6	27	86	0	210	42	20	21	16	1.89
2897553--2897794	27	8.8	26	77	10	76	42	21	18	16	1.89
2897758--2897811	27	2.0	26	82	13	65	38	18	14	27	1.90
2898122--2898205	28	3.0	28	92	0	141	22	23	22	30	1.99
2912357--2912390	17	2.1	17	88	5	52	58	11	14	14	1.63
2918392--2918422	13	2.4	13	100	0	62	83	0	0	16	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2918384--2918420	19	1.9	19	94	0	65	83	2	0	13	0.74
2918385--2918420	6	5.8	6	87	6	54	83	2	0	13	0.76
2918397--2918461	7	8.7	7	80	15	51	80	0	12	7	0.91
2919354--2919403	7	7.1	7	82	13	50	66	0	20	14	1.26
2919364--2919393	13	2.3	13	94	0	51	70	0	20	10	1.16
2920655--2921037	43	8.9	43	68	12	158	29	20	24	26	1.99
2920645--2920982	129	2.6	130	90	0	561	29	20	24	26	1.99
2920830--2921112	87	3.3	87	71	10	299	27	20	26	26	1.99
2920782--2921167	173	2.2	173	92	0	628	29	19	25	25	1.99
2920655--2921426	303	2.6	303	82	4	684	29	20	24	25	1.99
2920985--2921876	130	6.9	131	89	1	1334	29	20	24	25	1.99
2920985--2921876	261	3.4	260	89	2	1355	29	20	24	25	1.99
2923048--2923103	19	2.9	19	94	0	94	21	25	37	16	1.93
2934162--2934192	16	1.9	16	93	0	53	41	3	6	48	1.45
2935872--2936099	120	1.9	120	83	1	296	24	27	12	36	1.91
2935835--2936117	41	7.0	41	79	4	243	23	27	12	36	1.90
2943406--2943842	41	10.7	41	83	2	466	20	28	15	35	1.93
2943528--2943590	21	3.0	21	65	21	60	20	30	15	33	1.94
2943406--2943842	122	3.6	122	84	3	529	20	28	15	35	1.93
2943403--2943814	163	2.5	162	83	3	504	20	27	15	36	1.93
2943753--2943818	20	3.2	20	67	12	53	16	31	16	34	1.92
2959795--2959830	18	2.1	17	89	5	54	55	8	2	33	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2959935--2959974	21	1.9	21	89	0	62	35	2	12	50	1.54
2971496--2971553	30	2.0	29	86	10	82	34	0	12	53	1.38
2973114--2973261	13	11.2	13	72	8	84	41	4	18	35	1.71
2973142--2973210	27	2.6	26	81	4	75	42	2	23	31	1.69
2985349--2985420	27	2.7	27	84	4	83	44	20	18	16	1.87
2986468--2986915	114	3.9	114	85	2	580	22	21	28	26	1.99
2988014--2988339	147	2.2	146	77	7	327	25	15	22	36	1.94
2988498--2988539	20	2.1	20	86	0	57	19	4	30	45	1.71
2988603--2988657	21	2.6	21	85	0	74	12	0	43	43	1.42
2988608--2988647	14	2.9	14	88	0	62	15	0	40	45	1.46
2989292--2990377	9	122.1	9	68	18	444	45	18	2	33	1.63
2989311--2989447	60	2.3	61	79	7	154	48	18	1	31	1.58
2989716--2989756	17	2.5	17	88	4	66	51	14	0	34	1.43
2989977--2990233	52	4.9	54	72	17	193	46	20	0	31	1.56
2989958--2990270	140	2.2	144	93	6	535	45	20	1	32	1.59
2990196--2990233	19	2.1	18	90	5	58	52	18	0	28	1.45
2990333--2990368	16	2.2	16	90	5	54	50	19	2	27	1.62
2992983--2993050	21	3.2	21	85	0	82	36	20	39	2	1.68
2993103--2993173	21	3.4	21	80	7	81	33	18	43	4	1.69
2992943--2993170	120	1.9	120	91	1	377	39	18	32	9	1.83
2993503--2993709	85	2.5	84	86	7	285	25	19	21	33	1.97
2993440--2993709	42	6.4	42	81	8	289	25	19	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3003089--3003124	17	2.1	17	94	0	63	19	16	19	44	1.87
3005496--3005536	20	2.0	20	90	9	66	12	17	7	63	1.50
3007773--3008406	89	7.1	88	85	3	711	31	17	24	26	1.97
3008418--3008628	44	4.8	44	68	11	144	29	18	23	27	1.98
3007799--3008413	133	4.6	133	92	1	970	32	16	24	26	1.96
3008418--3008670	132	1.9	132	94	1	445	29	18	23	28	1.98
3008417--3008713	132	2.2	132	86	2	382	30	18	22	27	1.98
3010482--3010523	22	1.9	22	85	0	57	28	7	0	64	1.20
3011693--3011717	7	3.6	7	100	0	50	60	0	24	16	1.36
3014691--3014742	18	2.9	18	97	0	95	21	17	17	44	1.87
3016196--3016239	16	2.8	16	96	0	79	54	18	0	27	1.44
3019691--3019766	23	3.3	23	88	0	125	30	25	21	23	1.99
3020774--3020873	9	10.4	9	76	19	69	36	1	3	60	1.19
3020833--3020878	9	5.0	9	94	2	74	43	0	2	54	1.12
3021876--3021913	10	3.8	10	85	0	58	39	0	0	60	0.97
3030116--3030204	30	3.0	29	88	4	142	46	5	15	32	1.70
3036244--3036290	13	4.0	13	71	25	50	8	25	27	38	1.85
3036240--3036283	21	2.1	21	95	0	79	11	20	29	38	1.87
3036375--3036473	43	2.3	43	82	3	119	27	28	18	26	1.98
3040029--3040075	19	2.5	19	92	0	85	38	8	10	42	1.70
3041632--3041693	14	4.4	14	75	8	54	41	45	0	12	1.42
3041654--3041693	7	5.6	7	84	3	53	42	50	0	7	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3041630--3041693	28	2.2	29	81	10	78	40	45	0	14	1.44
3041749--3041787	14	2.7	14	84	4	51	35	53	0	10	1.35
3041749--3041782	7	4.9	7	88	0	50	32	55	0	11	1.36
3041654--3041867	96	2.2	95	89	4	315	42	34	0	22	1.58
3041764--3041917	82	1.9	82	87	2	229	44	27	0	26	1.59
3041909--3041966	21	2.8	21	75	15	57	36	37	0	25	1.57
3042381--3042493	41	2.8	41	77	9	140	27	27	23	21	1.99
3042548--3042672	40	3.1	40	81	6	130	19	20	24	36	1.95
3043000--3043033	17	1.9	18	94	5	61	50	0	8	41	1.34
3043068--3043098	3	10.3	3	100	0	62	67	0	0	32	0.91
3043150--3043182	17	1.9	17	88	11	50	66	12	0	21	1.23
3044994--3045022	1	29.0	1	100	0	58	0	0	0	100	0.00
3047256--3047280	2	12.5	2	100	0	50	52	0	0	48	1.00
3050297--3050327	11	2.8	11	90	0	53	32	0	0	67	0.91
3050449--3050511	30	2.1	30	87	0	90	53	17	4	23	1.62
3051077--3051104	4	7.0	4	100	0	56	75	0	0	25	0.81
3058912--3058987	38	2.0	38	100	0	152	26	13	15	44	1.83
3062036--3062080	11	4.3	11	78	18	51	82	0	0	17	0.68
3062040--3062084	19	2.4	19	85	10	65	82	0	0	17	0.68
3062819--3063062	41	5.7	41	70	11	148	27	22	21	29	1.99
3062771--3063167	45	9.1	45	71	8	248	25	22	20	31	1.98
3062906--3063062	86	1.8	85	84	1	215	25	23	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3062723--3063108	131	3.0	130	83	3	447	26	21	21	31	1.98
3063118--3064453	259	5.2	259	85	2	1754	27	26	17	29	1.97
3063689--3063839	51	3.0	50	75	1	131	28	28	17	25	1.97
3063820--3063860	21	2.0	21	85	0	55	21	34	7	36	1.82
3063163--3064453	520	2.5	520	92	0	2109	27	26	17	29	1.97
3064340--3064380	21	2.0	21	85	0	55	21	34	7	36	1.82
3074255--3074294	19	2.1	19	85	0	53	70	5	10	15	1.32
3079221--3079258	17	2.0	20	85	14	55	50	5	13	31	1.63
3093136--3093320	43	4.3	43	76	6	126	30	21	18	29	1.97
3093288--3093371	43	2.0	43	81	9	100	34	20	19	26	1.96

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