genome.fa.s47.2.7.7.80.10.50.1000.8.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: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

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

This is table  8  of  15  ( 1735 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)
1000426--1000476	21	2.4	22	77	9	61	60	11	11	15	1.58
1000812--1000865	28	1.9	28	85	7	74	46	3	0	50	1.19
1000801--1000875	28	2.6	28	75	10	73	46	2	0	50	1.15
1000866--1000911	18	2.7	18	83	6	60	47	2	2	47	1.26
1001682--1001741	18	3.2	20	68	18	56	58	0	1	40	1.08
1001695--1001781	11	8.2	11	68	16	58	57	0	1	41	1.06
1001712--1001777	17	3.9	17	71	26	52	54	0	1	43	1.09
1002054--1002095	21	2.0	22	86	9	61	50	0	0	50	1.00
1002248--1002310	25	2.6	24	75	5	65	44	1	0	53	1.10
1002518--1002591	31	2.2	35	81	13	95	40	1	0	58	1.07
1003310--1003343	16	2.2	16	89	5	52	11	2	0	85	0.71
1003829--1003864	18	2.0	18	88	0	54	25	2	2	69	1.15
1003882--1003939	22	2.7	21	72	17	55	55	0	0	44	0.99
1004671--1004712	3	14.0	3	100	0	84	66	0	0	33	0.92
1005432--1005508	32	2.5	32	79	14	90	53	2	1	42	1.23
1006191--1006237	18	2.5	19	79	6	60	38	2	0	59	1.09
1006566--1006658	34	2.7	35	81	8	104	45	0	1	53	1.07
1006566--1006677	34	3.3	34	79	13	99	44	0	0	53	1.12
1007117--1007161	14	3.2	14	87	0	63	40	2	8	48	1.47
1008745--1008779	2	17.5	2	100	0	70	48	0	0	51	1.00
1012914--1012958	18	2.4	19	85	3	56	44	2	0	53	1.13
1012970--1013022	23	2.3	23	81	9	56	54	0	1	43	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013558--1013638	36	2.2	36	84	0	99	46	11	2	39	1.53
1013578--1013646	36	1.9	36	90	0	111	40	13	2	43	1.58
1017099--1017205	32	3.3	33	77	11	89	32	3	6	57	1.42
1017359--1017393	16	2.2	16	89	0	52	31	2	5	60	1.35
1018270--1018296	2	13.5	2	100	0	54	48	0	0	51	1.00
1022378--1022412	2	17.5	2	100	0	70	48	0	0	51	1.00
1022885--1022944	30	2.1	28	84	6	75	40	3	3	53	1.34
1034592--1034629	2	19.0	2	100	0	76	50	0	0	50	1.00
1035115--1035148	14	2.4	14	90	0	50	61	0	2	35	1.11
1037934--1037965	3	10.7	3	100	0	64	31	0	0	68	0.90
1039519--1039556	2	19.0	2	100	0	76	50	0	0	50	1.00
1043301--1043377	36	2.2	36	81	11	88	59	0	2	37	1.11
1043312--1043390	39	2.0	41	85	12	110	62	0	2	35	1.09
1043468--1043502	15	2.3	15	90	9	54	37	0	2	60	1.12
1043738--1043785	14	3.4	14	80	5	51	62	6	0	31	1.20
1047313--1047352	17	2.4	17	86	0	53	85	5	7	2	0.83
1048363--1048412	2	25.0	2	100	0	100	50	0	50	0	1.00
1051169--1051214	16	2.8	17	74	12	51	50	10	0	39	1.38
1058764--1058789	12	2.2	12	100	0	52	42	19	23	15	1.89
1058956--1058999	23	1.9	23	86	9	63	15	4	4	75	1.14
1059553--1059745	85	2.3	85	82	1	217	36	19	25	18	1.94
1059638--1060467	42	19.0	43	68	13	245	35	18	28	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1059638--1059950	126	2.4	128	85	2	405	33	17	30	18	1.94
1059953--1060452	43	11.7	43	72	6	298	37	18	26	17	1.93
1060036--1060452	128	3.2	129	76	6	335	36	18	27	17	1.93
1060176--1060452	85	3.2	85	83	5	310	36	18	27	17	1.93
1060391--1060526	73	1.9	72	84	1	182	36	19	29	15	1.92
1060628--1061430	44	18.0	44	79	3	755	43	14	21	21	1.88
1060628--1061430	178	4.5	177	82	4	869	43	14	21	21	1.88
1060628--1061430	313	2.6	311	86	1	1106	43	14	21	21	1.88
1080872--1080912	12	3.4	12	87	9	57	0	9	4	85	0.73
1080907--1080953	9	5.8	8	80	19	53	12	2	10	74	1.16
1080894--1080944	24	2.2	23	86	6	68	9	3	5	80	1.01
1080873--1080954	16	5.3	15	77	20	62	8	6	7	78	1.10
1085671--1085704	15	2.1	17	89	10	54	32	0	5	61	1.20
1086661--1086708	18	2.6	18	73	3	51	50	0	0	50	1.00
1087182--1087223	19	2.2	19	86	0	57	35	2	0	61	1.09
1089263--1089302	2	20.0	2	100	0	80	50	0	0	50	1.00
1090273--1090341	20	3.3	21	78	7	61	37	1	2	57	1.22
1090675--1090716	21	2.0	22	85	4	59	52	2	0	45	1.13
1091896--1091946	2	25.5	2	100	0	102	50	0	0	49	1.00
1092106--1092148	22	1.9	23	90	4	70	48	11	16	23	1.78
1092404--1092444	2	20.5	2	89	0	55	51	7	0	41	1.30
1093845--1093891	2	24.5	2	82	8	62	46	2	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094571--1094624	24	2.2	25	81	12	60	48	0	1	50	1.11
1095234--1095271	12	3.2	12	85	3	51	42	0	0	57	0.98
1095276--1095338	32	1.9	33	83	3	83	42	0	1	55	1.09
1095343--1095376	17	2.0	17	88	11	52	29	0	0	70	0.87
1095858--1095903	13	3.7	13	80	11	60	65	0	0	34	0.93
1098006--1098045	2	20.0	2	94	0	71	52	0	0	47	1.00
1098994--1099018	2	12.5	2	100	0	50	52	0	48	0	1.00
1099162--1099207	20	2.4	18	79	10	56	52	0	6	41	1.27
1099262--1099336	27	2.6	30	77	16	86	56	0	0	44	0.99
1099324--1099380	19	2.8	22	77	22	70	50	0	0	49	1.00
1099365--1099417	22	2.5	20	78	6	61	49	0	1	49	1.12
1099406--1099456	20	2.5	20	83	3	57	39	1	5	52	1.37
1099429--1099497	19	3.6	19	78	7	68	36	1	2	59	1.21
1099459--1099505	19	2.3	20	82	10	60	31	2	0	65	1.04
1100329--1100387	25	2.4	24	78	10	66	45	1	0	52	1.10
1100320--1100376	25	2.3	24	82	8	69	43	1	0	54	1.10
1100786--1100825	19	2.1	19	85	0	53	32	0	0	67	0.91
1100886--1100990	30	3.3	32	73	16	85	52	1	0	45	1.11
1101166--1101209	23	2.0	22	81	4	52	70	4	11	13	1.31
1101201--1101230	15	2.0	15	93	0	51	83	0	16	0	0.65
1101324--1101363	20	2.0	20	85	9	55	32	0	0	67	0.91
1101441--1101504	6	10.3	6	78	21	62	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101419--1101509	36	2.4	38	78	14	98	37	2	1	59	1.17
1101451--1101501	14	3.8	14	77	15	54	35	0	0	64	0.94
1101441--1101503	32	2.0	31	87	9	92	34	0	0	65	0.93
1102262--1102298	2	18.5	2	100	0	74	51	0	0	48	1.00
1102645--1102702	13	4.6	12	77	10	62	39	1	1	56	1.19
1102668--1102734	23	2.8	23	80	11	55	50	0	0	49	1.00
1103155--1103182	2	14.0	2	100	0	56	0	0	50	50	1.00
1104244--1104283	2	20.0	2	89	0	62	50	5	0	45	1.23
1104246--1104280	12	2.9	12	100	0	70	51	5	0	42	1.25
1107662--1107688	13	2.1	13	100	0	54	22	25	22	29	1.99
1109598--1109637	19	2.1	19	100	0	80	27	25	0	47	1.52
1110530--1110577	2	24.0	2	100	0	96	50	0	0	50	1.00
1110577--1110625	2	24.5	2	91	0	80	51	0	48	0	1.00
1110698--1110725	14	2.0	14	100	0	56	42	7	0	50	1.30
1112443--1112527	41	2.0	42	95	4	154	30	7	22	40	1.80
1114035--1114084	16	3.1	17	77	13	52	74	0	0	26	0.83
1114037--1114127	39	2.4	39	80	15	102	74	3	0	21	0.96
1114063--1114170	9	12.6	9	71	15	61	75	2	1	19	1.01
1114111--1114170	8	7.5	8	81	7	77	83	0	3	13	0.77
1114099--1114186	32	2.8	33	75	17	96	77	3	2	17	1.01
1114155--1114217	23	2.7	23	76	11	65	69	6	3	20	1.24
1114895--1115012	62	1.9	63	91	1	193	33	37	17	11	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123489--1123513	13	1.9	13	100	0	50	32	16	16	36	1.90
1123522--1123650	52	2.5	52	90	0	204	35	16	18	29	1.93
1131934--1132168	41	5.6	43	76	8	191	16	26	20	37	1.93
1131931--1132467	42	12.8	42	71	9	274	17	27	19	36	1.94
1131931--1132205	83	3.3	83	80	5	216	17	26	19	36	1.94
1132030--1132300	125	2.2	125	81	2	321	19	27	18	34	1.95
1132033--1132385	83	4.2	82	76	10	259	18	26	19	35	1.95
1132144--1132467	85	3.9	84	81	2	328	17	26	19	36	1.94
1132156--1132467	169	1.9	168	84	2	428	17	26	19	35	1.94
1132961--1133049	46	1.9	47	82	11	112	73	4	0	22	1.02

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