genome.fa.s400.2.7.7.80.10.50.1000.7.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: Scaffold400
Parameters: 2 7 7 80 10 50 1000
Length:  2847997

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

This is table  7  of  17  ( 1977 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)
948621--948990	27	13.4	27	84	7	399	30	13	32	24	1.93
948600--949005	55	7.4	55	85	4	482	28	13	32	25	1.94
948624--948979	82	4.3	82	92	1	543	29	12	32	25	1.93
951231--951256	13	2.0	13	100	0	52	30	15	15	38	1.88
951211--951274	32	2.0	33	87	3	94	28	12	18	40	1.87
953642--953682	21	1.9	22	85	5	57	51	2	17	29	1.58
953803--953828	13	2.0	13	100	0	52	38	15	15	30	1.88
955907--955937	15	2.1	15	93	0	53	12	22	16	48	1.80
960007--960032	13	2.0	13	100	0	52	30	15	15	38	1.88
959987--960050	32	2.0	33	90	3	103	28	14	18	39	1.90
959987--960057	19	4.0	18	72	25	62	26	12	21	39	1.89
967204--967300	20	4.7	20	78	7	104	35	15	18	30	1.92
967204--967300	43	2.3	40	82	5	104	35	15	18	30	1.92
967907--967966	20	3.0	20	87	2	86	43	10	13	33	1.77
967880--967940	31	1.9	32	86	3	88	31	11	14	42	1.81
973028--973078	20	2.5	20	87	3	66	33	15	9	41	1.80
975939--976000	13	5.2	13	78	21	73	32	16	14	37	1.89
975986--976134	52	2.9	50	87	6	199	33	16	17	32	1.92
983195--983232	15	2.6	15	95	4	69	89	10	0	0	0.49
984049--984094	8	5.6	8	92	5	65	43	23	6	26	1.78
984293--984338	23	2.0	23	86	0	65	30	30	19	19	1.97
984291--984500	59	3.4	59	88	6	251	22	32	14	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
984354--984397	23	1.9	23	90	0	70	31	29	20	18	1.96
984375--984726	67	5.4	62	77	14	286	21	34	13	31	1.91
984375--984746	31	11.4	34	78	13	343	21	34	12	31	1.91
984737--984898	66	2.5	65	85	7	229	28	35	17	18	1.94
984737--984898	32	4.9	33	85	6	240	28	35	17	18	1.94
984965--985032	21	3.2	21	61	19	50	23	26	17	32	1.97
984909--985401	43	10.8	43	80	12	538	24	25	18	31	1.97
984905--985453	92	5.9	92	91	0	873	25	26	17	31	1.97
985352--985560	52	4.0	52	83	3	247	25	26	14	33	1.95
985355--985560	107	2.0	104	82	2	250	25	25	15	33	1.95
986359--986383	13	1.9	13	100	0	50	36	16	16	32	1.90
986339--986405	33	2.0	33	88	0	98	32	11	14	40	1.83
986448--986472	13	1.9	13	100	0	50	32	16	16	36	1.90
990128--990277	73	2.1	73	92	2	248	38	24	12	24	1.90
991183--991263	18	4.7	18	75	10	71	39	12	13	34	1.82
992967--993022	27	2.1	27	93	0	94	35	7	25	32	1.83
1001641--1001715	20	3.8	20	75	10	73	41	8	14	36	1.76
1002093--1002300	45	4.5	46	80	7	199	33	17	26	21	1.96
1002094--1002268	47	3.7	47	81	6	185	34	16	28	21	1.95
1002088--1002300	92	2.3	92	81	4	259	33	17	27	21	1.96
1002392--1003946	28	53.2	27	79	12	621	23	18	29	29	1.97
1002618--1002713	48	2.0	48	87	0	138	23	16	33	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002590--1002733	76	1.9	76	88	0	216	23	17	31	27	1.97
1002570--1002763	104	1.9	104	87	0	289	23	16	32	27	1.96
1002781--1003707	32	30.3	32	83	6	837	22	18	28	30	1.98
1002666--1004016	32	45.6	28	79	10	586	23	17	29	28	1.97
1003682--1003982	55	5.5	55	89	2	392	27	14	31	25	1.95
1003635--1003982	28	12.5	28	87	6	375	26	14	32	27	1.95
1005342--1005386	23	1.9	24	86	4	65	4	11	11	73	1.23
1013637--1013674	20	1.9	19	89	5	58	63	0	0	36	0.95
1015076--1015152	32	2.3	32	80	13	84	46	0	1	51	1.09
1015089--1015156	33	2.2	32	84	12	88	50	0	1	48	1.10
1015076--1015156	33	2.4	33	78	19	87	45	0	1	53	1.08
1015089--1015156	30	2.2	31	84	12	86	50	0	1	48	1.10
1015195--1015244	21	2.3	22	82	3	66	46	0	2	52	1.12
1015459--1015521	11	5.8	12	76	12	57	65	0	0	34	0.93
1015453--1015536	22	3.7	22	74	13	73	60	1	0	38	1.04
1015459--1015521	27	2.3	27	83	5	83	65	0	0	34	0.93
1015462--1015515	6	9.7	6	75	15	53	66	0	0	33	0.92
1015462--1015521	16	3.6	17	82	6	70	66	0	0	33	0.92
1015844--1015887	10	4.7	9	84	15	54	45	2	0	52	1.13
1015846--1015887	20	2.2	18	91	8	66	47	2	0	50	1.14
1022914--1022985	19	4.2	17	75	13	67	65	0	4	30	1.12
1022967--1023035	32	2.2	31	80	10	79	55	1	0	43	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023048--1023087	16	2.4	17	87	4	55	67	0	0	32	0.91
1022958--1023140	102	1.8	100	80	10	219	54	3	0	41	1.21
1024190--1024245	22	2.6	22	82	2	60	42	1	0	55	1.10
1026043--1026081	2	19.5	2	100	0	78	0	0	48	51	1.00
1027027--1027102	33	2.4	31	78	8	89	35	1	0	63	1.03
1027052--1027128	22	3.5	23	81	18	85	33	1	0	64	1.01
1027043--1027130	33	2.6	33	78	16	92	32	1	0	65	1.00
1027196--1027234	5	8.2	5	83	11	55	79	0	17	2	0.84
1027202--1027235	9	3.7	9	88	7	50	82	0	17	0	0.67
1027310--1027392	43	2.0	40	84	11	105	26	3	2	67	1.19
1028275--1028317	16	2.8	16	85	3	52	44	0	0	55	0.99
1028488--1028540	2	27.0	2	85	11	74	49	1	1	47	1.23
1032267--1032291	13	1.9	13	100	0	50	36	16	16	32	1.90
1032247--1032313	33	2.0	33	88	0	98	32	11	14	40	1.83
1032331--1032389	21	2.8	21	100	0	118	38	16	10	33	1.83
1032376--1032400	13	1.9	13	100	0	50	32	16	16	36	1.90
1032409--1032537	52	2.5	52	93	0	213	35	15	17	31	1.91
1038272--1038609	97	3.5	96	83	4	371	27	22	10	39	1.86
1042412--1042515	38	2.7	38	79	2	111	37	24	15	23	1.93
1042487--1042610	62	2.0	62	85	3	169	31	25	17	25	1.97
1042486--1042609	31	4.0	30	83	6	140	32	25	16	25	1.96
1044379--1044417	3	13.3	3	94	5	71	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046423--1046488	20	3.7	20	73	26	83	30	12	21	36	1.90
1046443--1046501	13	4.0	13	73	26	55	33	13	18	33	1.90
1046421--1046521	33	3.1	33	97	1	186	31	12	20	34	1.91
1046562--1046614	21	2.6	21	79	8	56	28	16	16	37	1.91
1048886--1048927	22	2.0	21	86	13	61	40	0	21	38	1.53
1049058--1049093	13	2.8	13	91	0	54	36	13	16	33	1.89
1055263--1055288	13	2.0	13	100	0	52	38	15	15	30	1.88
1055241--1055308	33	2.1	33	94	2	120	32	13	20	33	1.91
1055349--1055401	20	2.6	21	82	8	65	30	16	15	37	1.90
1055389--1055413	13	1.9	13	100	0	50	36	16	16	32	1.90
1059948--1060116	38	4.5	38	81	3	180	39	18	15	26	1.91
1060101--1060193	31	3.0	30	82	3	105	34	25	15	24	1.94
1062005--1062036	3	10.7	3	100	0	64	31	0	0	68	0.90
1071005--1071129	52	2.4	52	94	0	214	27	18	18	36	1.94
1071005--1071149	52	2.8	51	88	4	202	28	17	18	34	1.94
1071138--1071162	13	1.9	13	100	0	50	36	16	16	32	1.90
1071227--1071251	13	1.9	13	100	0	50	32	16	16	36	1.90
1072205--1072332	28	4.5	28	77	4	107	25	32	12	28	1.92
1072205--1072332	56	2.2	57	79	6	134	25	32	12	28	1.92
1072335--1072558	33	6.9	33	75	6	181	29	25	16	28	1.96
1072345--1072558	98	2.2	97	81	5	252	30	26	15	27	1.96
1072567--1072688	59	2.1	59	88	0	181	28	28	13	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075944--1076179	94	2.5	94	82	5	280	26	23	11	39	1.88
1079662--1079773	49	2.2	49	86	9	147	41	11	16	30	1.83
1080533--1080647	52	2.3	49	83	4	131	40	14	17	26	1.88
1080544--1080860	106	3.0	105	75	6	280	39	12	20	27	1.88
1080633--1080787	52	2.9	54	77	6	163	39	10	20	29	1.87
1080615--1080808	55	3.6	54	75	5	169	37	11	21	29	1.89
1080582--1080860	107	2.6	107	79	6	262	40	12	19	27	1.88
1081012--1081444	28	15.3	27	74	10	334	26	16	27	30	1.97
1081040--1081428	86	4.5	85	84	7	389	26	16	26	30	1.97
1081445--1081496	26	2.0	26	92	0	86	21	21	13	44	1.86

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