genome.fa.s53.2.7.7.80.10.50.1000.7.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  4419549

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   27   28   

This is table  7  of  28  ( 3325 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)
1073551--1073576	13	2.0	13	100	0	52	38	15	15	30	1.88
1076108--1076133	13	2.0	13	100	0	52	30	15	15	38	1.88
1076088--1076149	33	1.9	32	90	3	97	25	12	17	43	1.85
1078445--1078491	21	2.3	20	78	10	51	42	4	19	34	1.70
1078612--1078650	13	3.0	13	96	0	69	35	17	15	30	1.91
1081729--1081787	32	1.9	30	83	13	75	59	10	10	20	1.58
1082058--1082083	13	2.0	13	100	0	52	30	15	15	38	1.88
1082037--1082101	32	2.0	34	87	6	98	27	12	13	46	1.79
1082132--1082205	20	3.7	20	78	8	69	29	16	13	40	1.86
1084167--1084209	20	2.1	20	86	4	59	9	25	44	20	1.81
1084642--1084666	13	1.9	13	100	0	50	32	16	20	32	1.94
1086746--1086776	15	2.1	15	93	0	53	12	22	16	48	1.80
1088577--1088621	21	2.1	21	84	8	56	22	20	4	53	1.63
1090912--1090985	20	3.7	20	82	8	78	29	17	13	39	1.88
1092834--1092859	13	2.0	13	100	0	52	38	15	15	30	1.88
1095078--1095122	22	2.1	21	84	8	56	55	4	17	22	1.60
1096926--1096956	15	2.1	15	93	0	53	48	16	22	12	1.80
1098952--1099031	20	3.8	20	75	15	79	26	15	15	43	1.85
1099017--1099055	13	3.0	13	96	0	69	30	17	15	35	1.91
1099176--1099222	21	2.3	21	79	20	55	34	19	4	42	1.70
1099178--1099220	20	2.2	19	84	16	52	32	18	4	44	1.71
1104523--1104548	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105543--1105607	26	2.5	26	82	9	87	40	13	10	35	1.80
1105563--1105606	13	3.4	13	81	6	54	40	15	13	29	1.86
1110547--1111557	59	17.2	59	84	6	1165	25	29	20	24	1.99
1110547--1111557	178	5.7	178	85	6	1212	25	29	20	24	1.99
1112956--1113966	59	17.2	59	84	6	1129	25	29	20	24	1.99
1112956--1113966	178	5.7	178	84	6	1167	25	29	20	24	1.99
1115365--1115941	59	9.7	60	87	4	726	25	29	19	24	1.99
1116045--1116104	21	2.6	23	89	10	88	35	10	20	35	1.86
1116140--1116207	19	3.9	19	78	21	85	33	10	16	39	1.82
1116142--1116202	32	1.9	32	96	0	113	32	9	18	39	1.83
1116247--1116272	13	2.0	13	100	0	52	30	15	15	38	1.88
1116227--1116293	33	2.0	33	88	0	98	25	14	16	43	1.86
1118752--1118824	27	2.7	26	85	10	85	24	34	20	20	1.97
1118812--1119031	52	4.2	53	80	6	243	30	26	10	33	1.89
1119019--1119090	28	2.6	28	84	4	83	20	36	19	23	1.95
1118639--1119141	264	1.9	263	88	4	753	28	27	13	31	1.94
1119760--1119800	13	3.2	13	82	0	55	80	0	4	14	0.87
1119802--1119858	21	2.7	21	97	0	105	33	10	19	36	1.86
1119914--1120013	19	5.9	18	74	25	103	36	12	15	37	1.84
1119935--1119991	13	3.9	13	76	24	60	36	14	15	33	1.88
1119916--1120010	32	3.0	32	98	0	181	35	12	15	35	1.86
1120053--1120078	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120033--1120099	33	2.0	33	88	0	98	25	14	16	43	1.86
1122550--1122649	28	3.6	28	91	4	150	23	33	21	23	1.98
1122633--1122803	51	3.3	51	78	4	189	29	26	11	32	1.91
1122786--1122867	28	2.9	28	82	7	96	24	31	17	26	1.97
1123200--1124488	652	2.0	647	93	2	2022	28	22	20	28	1.98
1124768--1124835	27	2.5	27	97	0	127	22	30	19	27	1.97
1134627--1134861	41	5.7	39	74	13	177	19	24	14	42	1.88
1135082--1135147	31	2.1	31	85	0	87	27	28	27	16	1.97
1134895--1135394	180	2.8	179	87	1	678	30	25	23	20	1.99
1135508--1135580	35	2.1	36	97	2	139	43	24	16	15	1.86
1137966--1138019	19	2.8	20	85	2	74	35	16	9	38	1.81
1138045--1138111	33	2.0	33	85	5	91	40	14	14	29	1.87
1159909--1160108	99	2.0	99	98	0	382	38	16	21	24	1.93
1161452--1161637	41	4.5	41	80	9	207	18	25	11	44	1.83
1161407--1161640	125	1.9	124	82	6	274	20	24	10	44	1.83
1161711--1162191	181	2.7	179	84	1	577	30	24	23	21	1.99
1162332--1162786	226	2.0	226	97	0	865	38	16	16	27	1.90
1163100--1163157	20	2.8	21	73	5	55	43	17	15	24	1.87
1163226--1163276	20	2.5	20	83	0	57	33	15	5	45	1.71
1168543--1168573	13	2.4	13	94	0	53	35	12	16	35	1.87
1169213--1169306	33	2.7	33	88	11	136	35	23	4	37	1.75
1171442--1171483	13	3.2	13	93	0	75	38	16	16	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171620--1171693	31	2.4	31	84	13	91	56	18	1	22	1.49
1177606--1177672	33	2.0	33	85	5	91	35	16	13	34	1.88
1177701--1177755	20	2.8	20	91	2	85	36	18	12	32	1.88
1179278--1179344	20	3.3	20	74	12	73	38	13	13	34	1.84
1180102--1180731	49	12.9	49	75	9	475	33	16	25	24	1.96
1180106--1180622	192	2.6	194	81	8	537	32	16	25	25	1.96
1180106--1180731	98	6.4	98	77	8	541	32	16	25	25	1.96
1180740--1180889	32	4.7	31	76	6	131	19	19	30	30	1.96
1180740--1180887	63	2.3	64	86	3	192	19	19	31	29	1.97
1181081--1181142	28	2.2	28	88	0	88	25	17	27	29	1.98
1182450--1182487	16	2.4	16	86	8	51	5	0	5	89	0.59
1202686--1202739	20	2.8	20	85	2	65	38	14	12	33	1.85
1202852--1202890	20	2.0	20	94	0	69	43	12	10	33	1.77
1202825--1202892	33	2.1	32	86	2	91	36	14	14	33	1.87
1209189--1209229	22	2.0	20	86	13	57	31	21	4	41	1.74
1211604--1211629	13	2.0	13	100	0	52	30	15	15	38	1.88
1225200--1225328	52	2.5	52	97	0	240	28	17	18	35	1.93
1225200--1225348	52	2.9	51	91	4	228	30	16	18	34	1.94
1225337--1225361	13	1.9	13	100	0	50	36	16	16	32	1.90
1225404--1225488	19	4.7	19	79	18	101	37	17	11	32	1.86
1225442--1225466	13	1.9	13	100	0	50	32	16	16	36	1.90
1225423--1225486	32	2.0	33	96	3	121	34	18	12	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226277--1226403	67	1.9	68	86	1	184	40	12	23	23	1.89
1226353--1226866	43	10.7	52	75	14	271	33	16	23	26	1.96
1226464--1226877	43	9.0	43	78	12	432	31	17	24	26	1.97
1226416--1226877	92	5.0	92	91	1	726	32	17	24	26	1.97
1226416--1226877	185	2.5	184	91	2	726	32	17	24	26	1.97
1226865--1227171	33	9.5	32	90	6	462	19	17	34	28	1.94
1226865--1227171	65	4.8	64	91	5	462	19	17	34	28	1.94
1227188--1228012	34	25.5	33	75	13	618	32	12	34	20	1.90
1227502--1228066	28	18.0	28	70	19	193	31	13	34	20	1.91
1227211--1227947	63	11.4	62	79	9	684	31	13	34	20	1.91
1227211--1227943	387	1.9	387	93	1	1256	31	13	34	20	1.91
1227760--1228066	94	3.3	90	82	8	325	31	14	33	21	1.92
1227188--1228013	387	2.1	384	87	5	1234	32	12	34	20	1.90
1227945--1228013	35	2.0	35	85	0	93	34	11	36	17	1.86
1227917--1228066	62	2.4	63	82	5	182	30	14	34	22	1.93
1228014--1228159	31	4.7	31	88	4	197	28	17	28	25	1.98
1228264--1228301	16	2.3	17	86	4	51	26	5	23	44	1.74
1229404--1229451	12	3.9	12	81	10	53	0	4	14	81	0.84
1229402--1229451	18	2.7	19	81	6	66	0	4	16	80	0.87
1229397--1229451	23	2.2	26	84	15	71	0	5	14	80	0.89
1236322--1236450	52	2.5	52	97	0	240	28	17	18	35	1.93
1236322--1236470	52	2.9	51	91	4	228	30	16	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236459--1236517	13	4.9	13	73	26	67	35	13	16	33	1.88
1236459--1236538	34	2.4	34	100	0	160	35	12	17	35	1.88
1236560--1236656	19	5.7	19	72	27	101	35	18	12	34	1.88
1236579--1236635	13	3.9	13	76	24	60	33	17	14	35	1.90
1236558--1236655	32	3.0	32	98	1	187	34	18	12	34	1.88
1245793--1245863	1	71.0	1	74	0	61	87	5	1	5	0.72
1245793--1245878	21	4.1	20	78	11	82	84	9	1	4	0.80
1247314--1247574	29	9.0	29	82	4	303	27	29	16	26	1.97
1247308--1247565	86	3.0	85	88	2	354	28	29	17	24	1.97
1247550--1247640	33	2.7	34	76	8	96	20	28	12	38	1.89

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   27   28