genome.fa.s66.2.7.7.80.10.50.1000.6.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  6  of  26  ( 3105 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)
1060966--1061037	15	4.6	16	78	11	69	56	1	0	41	1.07
1061409--1061438	2	15.0	2	100	0	60	50	0	50	0	1.00
1061891--1061944	27	1.9	29	85	14	78	46	3	0	50	1.19
1062889--1062949	22	2.7	23	80	12	65	45	0	0	54	1.00
1064262--1064308	23	2.0	23	100	0	94	38	12	25	23	1.90
1065203--1065261	22	2.8	21	78	17	59	57	1	0	40	1.09
1070220--1070261	22	2.0	20	86	13	57	64	0	0	35	0.94
1070216--1070280	28	2.2	30	81	5	71	61	0	0	38	0.96
1070239--1070275	16	2.3	17	86	9	51	67	0	0	32	0.91
1070755--1070794	5	8.2	5	83	5	55	0	25	0	75	0.81
1070759--1070794	10	3.7	10	92	7	65	0	25	0	75	0.81
1072570--1072642	17	4.1	18	66	26	57	34	1	1	63	1.12
1072789--1072831	17	2.5	17	81	7	52	46	2	0	51	1.13
1072864--1072922	30	2.0	30	86	6	84	59	0	0	40	0.97
1073027--1073066	2	20.0	2	100	0	80	50	0	0	50	1.00
1075475--1075531	23	2.5	24	78	18	61	63	1	0	35	1.05
1075486--1075532	23	2.0	25	87	8	71	61	2	0	36	1.08
1075536--1075598	28	2.3	27	81	10	67	58	4	0	36	1.19
1075574--1075620	23	2.0	23	88	8	69	59	0	0	40	0.97
1075841--1075881	2	20.5	2	100	0	82	51	0	0	48	1.00
1080325--1080363	2	19.5	2	94	0	69	51	2	0	46	1.14
1080693--1080717	13	1.9	13	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081384--1081409	4	6.5	4	100	0	52	76	0	0	23	0.78
1085050--1085080	2	15.5	2	100	0	62	51	0	0	48	1.00
1086128--1086163	19	1.9	18	88	5	54	50	0	0	50	1.00
1086155--1086188	18	1.9	18	94	5	61	73	0	0	26	0.83
1086160--1086199	16	2.4	16	87	8	53	67	0	0	32	0.91
1086831--1086894	34	1.9	33	84	12	87	39	3	4	53	1.38
1090458--1090497	6	6.5	6	91	2	62	17	0	80	2	0.83
1090505--1090539	7	5.0	7	92	0	52	28	42	5	22	1.76
1090872--1090897	2	13.0	2	100	0	52	50	0	0	50	1.00
1091632--1091691	3	20.0	3	77	13	61	28	1	3	66	1.17
1091880--1091977	29	3.2	30	73	21	96	35	3	0	61	1.12
1091880--1091977	46	2.1	46	81	3	108	35	3	0	61	1.12
1091880--1091932	23	2.3	22	81	15	63	33	1	0	64	1.05
1091779--1091977	17	12.4	16	66	23	75	41	2	0	56	1.11
1092110--1092186	18	4.4	18	71	27	60	49	0	0	50	1.00
1092097--1092162	29	2.1	31	83	10	82	50	1	0	48	1.10
1092098--1092160	11	5.9	11	73	19	53	50	1	0	47	1.10
1092119--1092194	33	2.3	33	84	4	91	48	0	0	51	1.00
1092435--1092551	18	6.8	18	67	20	63	41	0	0	56	1.11
1092527--1092559	16	2.1	16	94	0	57	33	6	0	60	1.21
1092551--1092629	36	2.2	35	80	8	88	31	6	5	56	1.46
1093281--1093321	16	2.4	18	88	8	59	60	2	0	36	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093441--1093477	20	1.9	18	89	10	56	62	0	0	37	0.96
1094288--1094323	10	3.7	10	88	3	56	47	0	2	50	1.15
1095571--1095607	18	2.0	18	94	5	65	43	0	0	56	0.99
1097465--1097495	3	10.3	3	100	0	62	67	0	0	32	0.91
1102934--1102984	21	2.5	22	84	12	72	27	25	5	41	1.78
1102894--1103029	71	1.9	71	85	5	186	32	19	11	36	1.88
1107388--1107568	50	3.6	50	83	3	229	32	16	17	34	1.92
1107388--1107593	50	4.1	50	81	2	225	33	14	17	34	1.91
1109354--1109407	27	1.9	28	85	7	74	51	0	5	42	1.25
1109733--1109775	20	2.1	21	91	4	70	41	0	2	55	1.12
1109779--1109849	35	2.1	33	84	10	90	52	1	0	46	1.09
1110085--1110210	59	2.2	58	80	12	134	47	0	1	50	1.16
1110099--1110217	30	3.8	32	72	20	108	46	0	1	51	1.17
1110332--1110371	19	2.1	19	85	0	53	55	0	2	42	1.13
1110812--1110844	14	2.2	15	89	10	50	54	0	0	45	0.99
1116001--1116040	12	3.2	12	82	6	53	45	0	0	55	0.99
1116001--1116048	25	1.9	25	83	8	62	41	0	0	58	0.98
1116730--1116756	14	1.9	14	100	0	54	29	7	40	22	1.81
1119320--1119364	19	2.3	20	85	14	67	48	0	0	51	1.00
1119320--1119364	20	2.3	20	88	11	67	48	0	0	51	1.00
1129788--1129825	19	2.0	19	100	0	76	21	5	5	68	1.29
1131171--1131202	3	10.7	3	100	0	64	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131519--1131609	2	47.5	2	71	16	59	43	1	1	53	1.15
1131519--1131604	33	2.6	32	81	7	91	44	0	1	54	1.07
1131583--1131651	20	3.5	19	75	16	61	33	1	0	65	1.02
1131519--1131614	43	2.4	38	81	11	95	42	1	1	55	1.13
1132139--1132178	19	2.2	18	86	4	53	50	0	0	50	1.00
1132552--1132606	29	2.0	29	89	7	87	52	9	0	38	1.33
1132563--1132607	14	3.1	14	87	3	63	53	8	0	37	1.32
1132955--1132988	18	1.9	17	88	5	50	44	5	2	47	1.42
1132955--1133009	17	3.1	19	82	10	55	38	5	1	54	1.34
1133721--1133775	18	3.1	18	78	0	56	40	1	3	54	1.28
1134166--1134196	3	10.3	3	100	0	62	32	0	0	67	0.91
1134820--1134975	50	3.1	49	79	3	168	37	14	12	35	1.84
1135275--1135364	9	10.2	9	71	17	64	55	0	1	43	1.07
1135271--1135364	17	5.9	16	74	20	83	56	0	1	42	1.06
1135271--1135364	33	3.0	32	82	14	99	56	0	1	42	1.06
1147073--1147099	6	4.5	6	100	0	54	33	0	0	66	0.92
1147923--1147969	3	15.7	3	100	0	94	34	0	0	65	0.93
1150533--1150561	14	2.0	15	93	6	51	41	0	3	55	1.17
1150768--1150794	2	13.5	2	100	0	54	51	0	0	48	1.00
1152398--1152445	23	2.1	23	88	7	71	64	8	4	22	1.38
1153106--1153133	3	9.3	3	100	0	56	35	0	0	64	0.94
1154305--1154370	32	2.0	33	91	2	107	34	10	16	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154409--1154433	13	1.9	13	100	0	50	32	16	16	36	1.90
1154444--1154571	53	2.4	53	94	1	222	36	19	16	27	1.93
1156676--1156725	26	2.0	26	88	7	77	24	42	16	18	1.89
1158781--1158811	2	15.5	2	100	0	62	48	0	0	51	1.00
1159352--1159384	2	16.5	2	100	0	66	48	0	0	51	1.00
1162700--1162734	2	17.5	2	93	0	52	42	0	0	57	0.99
1165655--1165700	11	4.1	12	78	13	53	69	0	0	30	0.89
1165656--1165715	17	3.3	17	84	11	66	68	0	0	31	0.90
1166816--1166845	9	3.3	9	90	0	51	66	0	0	33	0.92
1170427--1170534	48	2.2	48	86	0	144	29	41	13	14	1.85
1172473--1172550	38	2.0	38	80	11	88	46	0	0	53	1.00
1172535--1172584	10	4.7	11	79	20	54	46	0	0	54	1.00
1172960--1173056	35	2.8	34	72	16	90	47	2	3	47	1.29
1176260--1176309	15	3.3	15	78	8	57	48	0	0	52	1.00
1177862--1177894	15	2.3	15	89	5	50	54	3	0	42	1.15
1177874--1177959	21	4.0	22	75	6	68	60	1	1	37	1.12
1177911--1177968	23	2.5	23	80	8	64	58	0	0	41	0.98
1184772--1184847	17	4.3	17	75	23	68	60	1	2	35	1.19
1185616--1185698	3	27.0	3	78	9	69	57	0	7	34	1.26
1185616--1185698	21	3.9	21	79	9	78	57	0	7	34	1.26
1186555--1186594	19	2.1	19	90	0	62	30	7	0	62	1.23
1187090--1187139	6	8.8	6	87	12	79	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187095--1187135	21	2.0	21	100	0	82	51	0	0	48	1.00
1187395--1187438	12	3.5	12	82	11	52	43	0	0	56	0.99
1187379--1187458	35	2.3	35	82	6	90	45	0	0	55	0.99
1191612--1191648	19	1.9	19	88	0	56	81	0	5	13	0.86
1192396--1192449	24	2.2	24	80	6	65	53	1	1	42	1.22
1192968--1193043	22	3.4	21	74	13	64	55	0	0	44	0.99
1193276--1193313	3	12.7	3	100	0	76	31	0	0	68	0.90
1195650--1195689	19	2.1	19	90	0	62	45	0	0	55	0.99
1195658--1195713	24	2.3	24	76	11	69	46	0	0	53	1.00
1195995--1196031	3	12.3	3	100	0	74	67	0	0	32	0.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26