genome.fa.s107.2.7.7.80.10.50.1000.8.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: Scaffold107
Parameters: 2 7 7 80 10 50 1000
Length:  2327068

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

This is table  8  of  15  ( 1755 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)
1095071--1095357	159	1.8	159	84	4	400	31	19	10	39	1.85
1095211--1095467	132	2.0	131	86	2	363	30	20	9	39	1.84
1095288--1095415	51	2.4	53	83	3	152	32	21	9	37	1.85
1095343--1095593	77	3.2	78	82	6	294	30	24	9	35	1.88
1096513--1096551	20	2.0	20	100	0	78	35	10	25	28	1.89
1096586--1096722	48	2.8	46	80	10	130	31	11	15	41	1.83
1104918--1104987	29	2.7	24	76	22	70	24	5	11	58	1.54
1106484--1106531	20	2.4	20	78	0	60	77	0	20	2	0.88
1113308--1113338	10	3.0	10	90	9	53	87	12	0	0	0.55
1113308--1113339	11	3.0	11	95	4	57	84	15	0	0	0.63
1114379--1114842	27	17.0	27	91	1	748	23	34	14	28	1.93
1114379--1114842	109	4.3	108	91	1	748	23	34	14	28	1.93
1114825--1115202	32	11.8	32	93	0	623	31	34	18	16	1.93
1121004--1121041	3	12.7	3	100	0	76	31	0	0	68	0.90
1121828--1121858	3	10.3	3	100	0	62	32	0	0	67	0.91
1121857--1121911	3	18.3	3	84	0	65	5	3	27	63	1.33
1121851--1121890	21	1.9	21	100	0	80	10	0	22	67	1.20
1121848--1121911	24	2.7	24	90	0	92	9	3	23	64	1.38
1123268--1123357	17	5.5	17	64	21	57	27	0	12	60	1.33
1123344--1123393	16	3.1	16	88	0	55	32	10	18	40	1.83
1123354--1123397	16	2.8	16	92	0	70	29	15	18	36	1.92
1124014--1124062	22	2.1	22	81	11	53	34	2	6	57	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124349--1124386	20	1.9	19	94	5	67	34	2	0	63	1.09
1127594--1127619	3	8.7	3	100	0	52	69	0	0	30	0.89
1127994--1128051	20	3.0	20	75	12	66	48	0	0	51	1.00
1128246--1128285	16	2.5	17	84	12	57	35	0	0	65	0.93
1129782--1129819	19	2.0	19	100	0	76	36	10	10	42	1.74
1134436--1134461	13	2.0	13	100	0	52	30	23	15	30	1.95
1134516--1134595	32	2.6	32	92	4	128	35	8	27	28	1.87
1134562--1134617	21	2.6	22	88	5	87	35	8	25	30	1.86
1134605--1134635	10	3.1	10	90	0	53	41	6	29	22	1.78
1134712--1134782	20	3.5	20	77	11	74	29	12	15	42	1.84
1135811--1135857	19	2.4	19	89	10	69	36	0	8	55	1.31
1136624--1136676	29	1.9	29	88	11	85	47	0	0	52	1.00
1137696--1137790	25	3.6	26	70	23	74	41	2	2	54	1.24
1138407--1138483	36	2.1	38	83	11	99	46	0	0	53	1.00
1138531--1138589	23	2.6	22	74	12	57	61	0	0	38	0.96
1140894--1140924	6	5.2	6	100	0	62	64	0	35	0	0.94
1145423--1145467	5	9.0	5	90	0	63	53	0	4	42	1.21
1147866--1147936	33	2.2	33	94	0	124	25	7	9	57	1.56
1149654--1149723	29	2.4	29	84	11	92	44	2	15	37	1.62
1149822--1150272	153	3.0	152	81	4	471	26	15	17	40	1.90
1152514--1152572	19	3.1	19	87	2	82	37	15	15	32	1.88
1152518--1152572	20	2.8	19	88	2	74	36	14	16	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152620--1152644	13	1.9	13	100	0	50	36	16	16	32	1.90
1153914--1154135	97	2.3	97	85	3	277	31	12	26	29	1.93
1154046--1154201	69	2.2	69	84	5	190	37	8	21	33	1.83
1153949--1154299	166	2.1	167	88	1	517	34	10	23	31	1.89
1154116--1154331	97	2.2	97	80	8	237	34	11	22	32	1.89
1156553--1156581	15	1.9	15	100	0	58	24	0	0	75	0.80
1157296--1157363	21	3.2	21	67	19	59	27	16	29	26	1.97
1157217--1157341	61	2.0	61	87	3	180	36	11	27	24	1.89
1157294--1157384	43	2.1	43	91	0	146	29	17	27	25	1.97
1157296--1157930	49	12.8	49	78	6	557	32	15	25	25	1.96
1157296--1157917	148	4.2	149	80	6	663	32	15	25	25	1.96
1157951--1158127	94	1.9	94	85	4	250	18	15	34	32	1.92
1157944--1158131	32	5.9	32	81	6	204	18	16	34	30	1.93
1158250--1158354	32	3.3	32	91	0	138	20	18	31	30	1.96
1174679--1174840	70	2.3	70	84	3	211	35	11	20	32	1.88
1174744--1175100	165	2.2	165	88	2	538	34	10	22	32	1.89
1177368--1177392	7	3.6	7	100	0	50	12	0	0	88	0.53
1177348--1177398	19	2.6	20	78	12	52	21	0	1	76	0.88
1179266--1179290	13	1.9	13	100	0	50	32	16	16	36	1.90
1179340--1179392	19	2.7	20	82	2	63	39	16	11	32	1.85
1179381--1179405	13	1.9	13	100	0	50	40	16	8	36	1.77
1179364--1179425	32	1.9	33	86	3	90	43	14	11	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186387--1186431	3	15.0	3	90	0	72	31	31	0	37	1.58
1190870--1190895	13	2.0	13	100	0	52	38	15	15	30	1.88
1190852--1190916	32	2.0	32	87	6	94	40	18	13	27	1.89
1197052--1197089	13	2.9	13	100	0	76	31	15	15	36	1.90
1197211--1197257	22	2.3	20	78	10	51	34	17	2	46	1.59
1197532--1197574	20	2.1	20	86	4	59	16	41	30	11	1.83
1199662--1199687	13	2.0	13	100	0	52	38	15	15	30	1.88
1199644--1199739	34	2.9	34	93	3	160	40	17	13	28	1.88
1199697--1199721	13	1.9	13	100	0	50	36	16	16	32	1.90
1200696--1200969	130	2.1	130	82	1	334	28	24	12	33	1.92
1200823--1201047	79	2.9	80	78	7	264	27	26	14	31	1.95
1205651--1206164	43	11.1	43	79	13	524	30	18	26	25	1.98
1205652--1205719	21	3.2	21	64	32	54	30	17	26	25	1.97
1205546--1206159	49	12.9	49	82	9	679	31	17	25	25	1.97
1205601--1206161	92	6.0	92	84	7	670	30	18	26	25	1.98
1206197--1206257	28	2.2	27	85	2	77	31	13	32	22	1.92
1206225--1206421	34	5.8	34	89	0	297	31	13	34	20	1.91
1206183--1206421	102	2.4	95	86	6	300	30	12	34	21	1.91
1206180--1206422	68	3.7	66	84	7	307	30	12	34	22	1.91
1206395--1206553	32	5.1	31	84	6	178	31	16	28	23	1.96
1207828--1207888	1	61.0	1	76	0	59	0	4	6	88	0.63
1207828--1207872	10	4.6	10	88	5	65	0	2	6	91	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207828--1207888	18	3.4	17	86	10	86	0	4	6	88	0.63
1207829--1207888	27	2.2	27	88	5	86	0	5	6	88	0.63
1207587--1208156	299	1.9	301	90	4	927	23	14	19	41	1.89
1209780--1210258	61	8.0	61	80	8	495	26	27	18	27	1.98
1209780--1210213	181	2.4	179	82	8	539	26	28	18	26	1.98
1209780--1210213	121	3.6	120	79	10	480	26	28	18	26	1.98
1210265--1210583	41	7.5	41	74	11	252	21	25	13	40	1.89
1210254--1210562	85	3.6	85	76	11	299	19	24	12	43	1.85
1210265--1210562	83	3.5	85	77	12	297	20	24	12	42	1.87
1211145--1211249	20	4.8	20	68	21	75	25	14	15	44	1.84
1211233--1211262	13	2.3	13	94	0	51	33	16	10	40	1.82
1213681--1213793	51	2.2	51	80	3	120	35	29	5	30	1.80
1213732--1213954	79	2.8	79	76	5	211	28	26	12	33	1.92
1213595--1213868	130	2.1	130	81	5	322	30	25	11	32	1.91
1215042--1215066	13	1.9	13	100	0	50	32	16	16	36	1.90
1220576--1220627	20	2.5	21	84	3	70	28	21	11	38	1.88
1224695--1224726	14	2.4	13	94	5	55	46	0	0	53	1.00
1225378--1225423	21	2.2	20	88	3	65	58	2	0	39	1.10
1227320--1227372	2	26.5	2	96	0	97	49	0	1	49	1.12
1232008--1232032	3	8.3	3	100	0	50	32	0	0	68	0.90
1232236--1232280	16	2.8	16	83	6	56	42	2	0	55	1.12
1232219--1232342	38	3.4	36	75	20	100	43	0	0	55	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1232244--1232354	36	2.8	39	71	27	90	44	1	0	54	1.10
1232447--1232482	2	18.0	2	100	0	72	50	0	0	50	1.00
1233093--1233163	34	2.2	31	82	14	81	47	0	4	47	1.21
1233260--1233349	25	3.8	25	72	20	77	48	0	0	51	1.00
1233270--1233321	21	2.5	21	82	11	63	44	0	0	55	0.99
1235997--1236033	2	18.5	2	100	0	74	51	0	0	48	1.00
1236875--1236901	4	6.8	4	100	0	54	77	0	0	22	0.76
1241110--1241138	2	14.5	2	100	0	58	51	48	0	0	1.00
1241136--1241165	8	3.8	8	90	0	51	50	10	0	40	1.36
1246670--1246728	17	3.4	17	76	6	64	49	1	0	49	1.11

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