genome.fa.s109.2.7.7.80.10.50.1000.8.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: Scaffold109
Parameters: 2 7 7 80 10 50 1000
Length:  1855911

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

This is table  8  of  13  ( 1516 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)
1022768--1022819	15	3.3	15	82	10	68	44	0	0	55	0.99
1022769--1022817	17	3.1	17	85	8	68	40	0	0	59	0.98
1025971--1026063	34	2.6	37	80	10	97	48	0	0	51	1.00
1026606--1026648	17	2.5	17	81	7	52	62	2	4	30	1.28
1026790--1026858	33	2.2	31	87	10	95	55	0	0	44	0.99
1028000--1028070	35	2.0	36	84	13	94	49	0	0	50	1.00
1028378--1028462	32	2.8	30	80	8	91	48	0	0	51	1.00
1028436--1028478	22	2.0	22	86	9	61	58	2	0	39	1.11
1028996--1029106	40	2.8	38	79	14	109	50	1	0	46	1.18
1028971--1029089	40	2.8	42	76	10	116	47	1	2	48	1.25
1029544--1029585	22	1.9	22	85	0	57	33	0	4	61	1.17
1030235--1030277	22	2.0	22	86	13	63	37	0	0	62	0.95
1030563--1030603	21	2.0	20	90	4	64	58	0	0	41	0.98
1030563--1030602	12	3.6	12	77	19	50	57	0	0	42	0.98
1031369--1031431	32	2.0	33	87	12	96	38	1	0	60	1.07
1031607--1031660	26	2.0	28	85	7	76	48	0	1	50	1.11
1031810--1031869	22	2.8	21	82	5	66	33	0	15	51	1.43
1032923--1032968	12	3.9	12	76	23	53	50	0	0	50	1.00
1039096--1039196	41	2.5	41	79	6	100	60	0	0	38	1.04
1039144--1039216	27	2.6	28	82	10	87	53	0	1	45	1.09
1039159--1039221	15	4.1	15	73	21	51	53	0	1	44	1.10
1039218--1039294	26	2.9	26	72	18	68	49	0	2	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1039395--1039437	14	2.9	14	82	6	50	51	2	2	44	1.27
1039704--1039753	15	3.2	15	81	10	55	44	0	2	54	1.11
1039644--1039729	36	2.5	35	79	9	95	53	0	2	44	1.13
1039891--1039947	27	2.2	25	84	6	78	42	0	0	57	0.98
1040185--1040232	18	2.7	18	77	3	62	39	0	0	60	0.97
1043036--1043328	146	2.0	144	91	1	469	39	7	11	41	1.69
1043784--1043842	27	2.1	28	87	6	84	57	8	6	27	1.53
1043791--1043863	27	2.7	27	80	4	76	57	8	5	28	1.50
1043782--1043852	27	2.4	30	75	15	76	59	8	5	26	1.49
1044424--1045011	262	2.2	262	84	3	738	30	10	11	48	1.73
1044515--1045082	262	2.2	261	80	6	648	28	11	11	48	1.75
1044891--1045496	290	2.1	290	92	1	993	29	11	11	47	1.75
1044891--1045580	290	2.4	288	88	4	978	28	11	12	47	1.76
1045550--1045660	58	1.9	58	83	0	141	25	9	17	48	1.76
1044891--1045671	290	2.7	288	85	4	844	28	11	12	47	1.76
1046920--1046959	16	2.5	17	80	15	50	52	5	0	42	1.23
1046920--1046960	15	2.6	16	78	17	50	53	4	0	41	1.22
1049162--1049440	149	1.9	151	79	7	327	28	17	15	38	1.90
1053137--1053172	18	1.9	19	88	5	56	52	0	0	47	1.00
1054082--1054130	24	2.1	24	82	17	59	51	0	2	46	1.12
1055228--1055274	24	2.0	24	100	0	94	21	44	8	25	1.80
1058080--1058172	42	2.2	44	76	21	110	53	1	0	45	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058109--1058194	43	1.9	46	81	11	108	58	1	0	40	1.06
1058255--1058371	30	3.9	29	73	17	105	51	1	0	46	1.17
1058280--1058368	21	4.5	19	70	25	67	51	2	0	46	1.13
1058251--1058364	61	1.9	61	89	5	178	52	1	0	44	1.17
1058287--1058325	14	2.7	15	88	8	62	58	0	0	41	0.98
1058287--1058334	11	4.7	11	77	12	50	60	0	0	39	0.97
1058425--1058463	18	2.1	19	86	13	55	69	12	0	17	1.19
1058719--1058781	20	3.2	20	76	13	67	47	0	1	50	1.10
1059134--1059199	25	2.7	23	77	11	60	48	1	0	50	1.10
1059156--1059202	15	3.1	15	84	0	58	53	2	0	44	1.12
1059184--1059226	20	2.1	20	86	4	59	60	4	0	34	1.17
1059530--1059593	19	3.2	19	76	12	56	64	4	1	29	1.23
1059555--1059607	17	3.2	16	86	5	70	64	1	1	32	1.15
1059549--1059640	44	2.0	46	82	12	111	59	2	1	36	1.17
1060275--1060323	19	2.5	19	83	6	53	48	0	0	51	1.00
1060291--1060328	19	1.9	19	89	5	58	50	0	2	47	1.15
1060658--1060686	14	2.0	15	93	6	51	68	3	0	27	1.05
1061162--1061218	28	2.0	28	93	0	96	10	36	14	38	1.80
1068409--1068483	20	3.8	20	76	3	71	38	12	14	34	1.83
1068406--1068483	40	2.0	39	84	2	102	38	12	14	34	1.84
1068881--1068992	48	2.3	48	100	0	224	31	18	33	16	1.94
1069173--1069986	28	28.6	28	85	8	947	21	18	32	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069124--1069986	172	5.0	169	86	7	1097	22	18	31	27	1.97
1069096--1069984	227	3.9	229	86	7	1146	22	18	31	27	1.97
1069143--1069986	255	3.3	253	91	3	1293	21	18	32	27	1.97
1071215--1071275	1	61.0	1	76	0	59	0	1	9	88	0.58
1071216--1071275	16	3.6	15	81	18	66	0	1	10	88	0.59
1071205--1071275	11	6.5	11	85	6	81	1	2	9	85	0.75
1084287--1084340	21	2.5	21	93	3	90	61	7	11	20	1.53
1085253--1085327	20	3.8	20	80	3	80	40	12	13	34	1.81
1085250--1085327	40	2.0	39	87	2	111	39	12	12	34	1.82
1085803--1085889	43	2.0	43	95	0	156	35	18	5	40	1.75
1087326--1087355	9	3.3	9	90	0	51	46	0	10	43	1.37
1091417--1091559	71	2.0	71	100	0	286	23	11	30	34	1.90
1091981--1092020	21	1.9	21	84	0	53	55	0	0	45	0.99
1092978--1093031	2	27.0	2	96	0	99	51	0	0	48	1.00
1094538--1094601	30	2.2	30	88	2	94	46	0	12	40	1.42
1095223--1095261	20	2.0	19	85	5	51	17	48	5	28	1.68
1099798--1099846	20	2.5	20	79	0	53	12	44	4	38	1.61
1100639--1100704	31	2.0	34	91	8	111	56	3	9	31	1.46
1100928--1100992	6	10.8	6	71	12	53	58	0	0	41	0.98
1100935--1100986	17	2.9	18	83	10	63	55	0	0	44	0.99
1100935--1100986	19	2.9	19	86	10	67	55	0	0	44	0.99
1101007--1101101	12	8.9	11	70	20	51	35	1	4	58	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101356--1101386	2	15.5	2	100	0	62	48	0	0	51	1.00
1104744--1104807	25	2.5	26	75	10	69	59	3	6	31	1.38
1106459--1106489	16	1.9	16	93	0	53	41	0	0	58	0.98
1107013--1107040	2	14.0	2	100	0	56	0	50	0	50	1.00
1109655--1109694	20	2.0	20	100	0	80	30	0	25	45	1.54
1111890--1111920	2	16.0	2	93	6	55	48	0	0	51	1.00
1113349--1113431	6	13.7	6	70	26	52	78	2	4	14	1.02
1113370--1113418	17	2.9	16	82	11	53	79	2	4	14	0.97
1113884--1113936	16	3.3	16	87	10	81	62	1	0	35	1.06
1115343--1115401	2	30.0	2	89	3	93	47	1	0	50	1.11
1167552--1167577	13	2.0	13	100	0	52	38	15	15	30	1.88
1167564--1167625	21	3.0	21	100	0	124	29	19	9	41	1.83
1167638--1167711	30	2.4	31	88	4	105	31	16	14	37	1.89
1167637--1167692	13	4.0	13	78	17	58	30	16	16	37	1.90
1167845--1167878	17	2.0	17	94	0	59	44	11	20	23	1.84
1169250--1169295	22	2.0	23	88	12	69	47	6	15	30	1.70
1174121--1174190	28	2.5	28	79	6	79	34	28	14	22	1.93
1174109--1174267	56	2.8	55	74	7	158	33	25	16	23	1.96
1174142--1174306	28	5.9	28	73	12	115	33	23	16	25	1.96
1173984--1174300	112	2.8	110	76	12	297	33	22	17	26	1.96
1176852--1176885	16	2.1	17	88	5	52	32	14	8	44	1.76
1178660--1178699	20	2.0	20	95	0	71	52	5	7	35	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179901--1179998	21	4.7	21	89	5	146	36	12	17	33	1.87
1180034--1180162	19	7.8	17	71	28	102	35	14	15	34	1.88
1180055--1180143	13	5.9	13	72	27	70	37	15	15	31	1.90
1180036--1180162	32	4.0	32	97	0	236	36	14	15	33	1.89
1180205--1180230	13	2.0	13	100	0	52	30	15	15	38	1.88
1180185--1180251	33	2.0	33	88	0	98	25	14	16	43	1.86
1181941--1181991	24	2.1	24	92	0	84	31	9	7	50	1.64
1182914--1182983	27	2.6	27	84	4	79	25	32	21	20	1.97
1184684--1184728	21	2.1	21	83	0	54	40	13	11	35	1.80
1184775--1184830	20	2.7	21	86	5	78	39	14	17	28	1.89

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