genome.fa.s31.2.7.7.80.10.50.1000.8.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: Scaffold31
Parameters: 2 7 7 80 10 50 1000
Length:  2401195

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

This is table  8  of  16  ( 1858 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)
1089087--1089200	57	2.0	57	96	0	210	43	12	20	23	1.85
1089261--1089391	65	2.0	65	95	0	235	37	23	12	25	1.91
1089825--1089868	23	2.0	22	95	4	79	56	9	6	27	1.55
1091379--1091458	22	3.8	21	70	15	58	52	0	0	47	1.00
1093846--1093922	4	19.2	4	89	0	73	49	10	1	38	1.45
1093836--1093922	24	3.6	24	93	0	147	48	12	2	36	1.54
1093837--1093920	28	3.0	28	89	0	123	47	13	2	36	1.55
1093838--1093922	20	4.1	20	81	11	89	48	11	2	37	1.53
1094644--1094723	34	2.4	34	93	0	142	26	2	32	38	1.70
1094693--1094746	22	2.5	22	90	0	81	27	3	31	37	1.75
1101353--1101382	2	15.0	2	100	0	60	50	0	0	50	1.00
1102381--1102405	2	12.5	2	100	0	50	48	0	0	52	1.00
1102527--1102582	27	2.0	28	93	3	96	62	1	0	35	1.06
1102533--1102588	27	2.1	27	90	6	87	66	0	0	33	0.92
1105990--1106143	69	2.2	69	89	3	256	37	9	22	31	1.86
1112443--1112473	9	3.3	9	95	4	53	0	12	0	87	0.55
1112446--1112496	20	2.9	17	86	13	61	1	21	0	76	0.88
1113594--1113686	45	2.0	48	83	8	120	30	20	30	19	1.97
1113808--1115219	28	50.4	28	82	3	1137	25	16	30	27	1.97
1113808--1115252	57	25.7	57	84	5	1269	25	16	30	27	1.97
1113808--1115252	85	17.2	85	81	6	1148	25	16	30	27	1.97
1114809--1115223	27	15.1	27	86	4	512	28	14	32	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116269--1116299	1	31.0	1	100	0	62	0	0	0	100	0.00
1120975--1121102	52	2.5	52	93	3	215	30	17	17	34	1.93
1120975--1121122	52	2.9	50	85	12	185	31	16	18	33	1.93
1121111--1121135	13	1.9	13	100	0	50	36	16	16	32	1.90
1121199--1121223	13	1.9	13	100	0	50	32	16	16	36	1.90
1121281--1121322	21	2.0	21	90	0	66	35	14	14	35	1.86
1122173--1122794	49	12.7	49	84	4	821	30	17	26	25	1.97
1122173--1122794	98	6.4	98	90	5	929	30	17	26	25	1.97
1122173--1122794	195	3.2	196	91	4	974	30	17	26	25	1.97
1122610--1122799	43	4.1	44	82	12	238	29	17	27	25	1.97
1122794--1122998	33	6.2	33	88	6	301	19	17	35	27	1.94
1122795--1122998	65	3.1	66	88	6	306	18	17	35	27	1.94
1123000--1123407	34	12.1	34	84	8	444	34	12	33	19	1.89
1123236--1123294	27	2.1	28	81	3	66	30	13	33	22	1.92
1123263--1123400	35	3.9	34	85	6	177	35	11	32	20	1.88
1128405--1128436	10	3.2	10	95	0	55	0	12	0	87	0.54
1128405--1128459	20	2.8	20	86	2	67	1	20	0	78	0.85
1129911--1129935	13	1.9	13	100	0	50	36	16	16	32	1.90
1129980--1130031	13	3.5	13	73	26	50	36	17	13	32	1.89
1129988--1130050	19	3.7	18	74	24	64	38	17	11	33	1.85
1129980--1130065	32	2.7	32	92	0	145	39	17	10	32	1.84
1130101--1130177	21	3.7	21	96	0	145	36	16	10	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130736--1132284	52	31.8	52	74	12	1054	32	16	25	25	1.96
1131139--1132285	43	24.1	44	71	16	674	32	17	25	25	1.97
1130736--1132267	292	5.2	286	88	4	1857	32	17	25	25	1.96
1131086--1132267	95	12.3	95	88	4	1671	32	17	25	25	1.97
1132273--1132361	30	3.0	29	73	16	83	20	16	38	24	1.93
1132273--1132372	27	3.5	27	77	11	83	22	16	37	25	1.93
1132340--1132577	69	3.5	69	81	12	271	35	11	32	20	1.89
1132347--1132792	31	13.9	31	82	9	305	32	14	30	22	1.93
1134006--1134075	15	4.8	15	72	11	56	0	1	22	75	0.88
1134006--1134074	21	3.1	23	75	12	72	0	1	21	76	0.86
1134023--1134074	6	8.5	6	83	12	52	0	0	21	78	0.74
1134016--1134074	30	1.9	31	86	3	84	0	0	22	77	0.76
1144633--1144683	20	2.5	19	81	15	57	80	11	3	3	0.98
1145902--1146634	28	25.5	28	84	6	830	29	29	17	23	1.97
1145902--1146634	57	12.7	57	84	7	799	29	29	17	23	1.97
1145902--1146634	85	8.5	86	82	6	860	29	29	17	23	1.97
1150762--1150795	12	2.8	12	91	8	52	76	0	11	11	1.02
1151282--1151309	6	4.7	6	100	0	56	0	14	0	85	0.59
1157457--1157519	21	3.0	20	84	11	81	82	3	12	1	0.86
1158212--1158303	20	4.8	20	70	12	59	28	7	4	59	1.44
1158805--1158844	21	1.9	21	85	10	55	27	0	5	67	1.11
1161248--1161276	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161348--1161396	15	3.3	15	94	0	80	30	4	0	65	1.11
1161386--1161419	12	2.8	12	95	0	59	32	2	5	58	1.37
1163789--1163814	13	2.0	13	100	0	52	30	15	15	38	1.88
1163853--1163928	21	3.7	21	80	3	100	28	17	11	42	1.84
1163874--1163946	20	3.6	20	81	3	101	31	19	13	35	1.91
1163853--1163946	41	2.3	41	98	0	179	29	18	12	39	1.88
1166362--1166399	13	2.9	13	96	0	67	31	15	18	34	1.92
1166388--1166464	20	3.6	20	77	16	73	42	15	15	25	1.86
1168476--1168506	15	2.1	15	93	0	53	16	25	16	41	1.88
1170310--1170354	21	2.1	21	84	8	56	22	20	4	53	1.63
1172567--1172592	13	2.0	13	100	0	52	30	15	15	38	1.88
1172631--1172706	21	3.7	21	80	3	100	28	17	11	42	1.84
1172652--1172724	20	3.6	20	81	3	101	31	19	13	35	1.91
1172631--1172724	41	2.3	41	98	0	179	29	18	12	39	1.88
1174156--1174197	21	2.0	21	86	9	59	50	2	0	47	1.14
1174410--1174462	5	10.6	5	87	0	61	71	0	0	28	0.86
1174410--1174462	10	5.3	10	93	0	88	71	0	0	28	0.86
1174770--1174799	15	1.9	16	93	6	53	43	0	0	56	0.99
1176912--1176985	21	3.6	20	77	17	71	40	6	9	43	1.64
1176953--1176996	21	2.1	21	87	8	63	38	4	6	50	1.50
1177819--1177848	15	1.9	16	93	6	53	43	0	0	56	0.99
1178396--1178436	21	2.0	21	85	4	57	43	7	0	48	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179156--1179182	2	13.5	2	100	0	54	48	0	0	51	1.00
1180785--1180830	20	2.3	20	88	0	65	23	6	4	65	1.35
1180728--1180836	57	1.9	56	85	9	150	26	10	6	56	1.56
1182520--1182579	21	2.9	21	84	0	75	33	26	5	35	1.78
1183418--1183443	13	2.0	13	100	0	52	38	15	15	30	1.88
1185661--1185705	21	2.1	21	84	8	56	53	4	20	22	1.63
1187508--1187538	15	2.1	15	93	0	53	48	16	22	12	1.80
1189547--1189626	20	3.8	20	75	15	79	26	15	15	43	1.85
1189612--1189650	13	3.0	13	96	0	69	30	17	15	35	1.91
1189771--1189817	21	2.3	21	79	20	55	34	19	4	42	1.70
1189773--1189815	20	2.2	19	84	16	52	32	18	4	44	1.71
1192193--1192218	13	2.0	13	100	0	52	38	15	15	30	1.88
1195701--1195748	5	10.0	5	82	8	64	33	0	45	20	1.52
1195701--1195748	19	2.5	19	100	0	96	33	0	45	20	1.52
1195704--1195730	14	1.9	14	100	0	54	29	0	48	22	1.51
1195866--1195923	21	2.8	21	83	0	71	34	27	3	34	1.74
1199783--1199818	11	3.3	11	88	0	54	36	2	0	61	1.11
1203278--1203402	52	2.4	52	94	0	214	28	18	18	35	1.94
1203278--1203422	52	2.8	51	87	4	202	29	17	18	33	1.95
1203476--1203542	33	2.0	33	88	0	98	40	14	11	32	1.83
1203498--1203522	13	1.9	13	100	0	50	32	16	16	36	1.90
1204657--1204690	17	1.9	18	88	5	52	32	8	0	58	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205954--1206290	52	6.4	52	68	17	185	30	12	27	29	1.93
1206106--1206181	27	2.8	28	89	2	109	21	21	34	23	1.97
1205889--1206295	212	1.9	212	89	3	631	31	13	27	28	1.94
1206169--1206287	51	2.3	53	85	7	154	33	11	22	31	1.90
1208633--1208658	13	2.0	13	100	0	52	38	15	15	30	1.88
1208612--1208678	33	2.0	33	88	0	98	43	16	14	25	1.86
1209689--1209778	26	3.3	26	63	19	67	21	16	33	28	1.95
1209533--1210124	55	10.3	58	85	6	621	23	20	28	26	1.99
1211091--1211163	1	73.0	1	72	0	56	0	2	10	86	0.68
1211104--1211141	9	4.4	9	90	9	62	0	0	15	84	0.63

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