genome.fa.s202.2.7.7.80.10.50.1000.7.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: Scaffold202
Parameters: 2 7 7 80 10 50 1000
Length:  2706578

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

This is table  7  of  16  ( 1899 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)
1121926--1121963	13	2.9	13	96	0	67	34	15	18	31	1.92
1123984--1124024	15	2.7	15	84	3	55	17	19	17	46	1.85
1129366--1129441	21	3.7	20	75	13	66	38	11	17	32	1.86
1129366--1129419	20	2.6	21	85	2	65	35	9	18	37	1.83
1137726--1137771	23	2.0	23	95	0	83	41	8	19	30	1.82
1148003--1148035	15	2.1	16	88	5	50	9	3	45	42	1.51
1148026--1148092	32	2.1	32	94	0	116	22	0	40	37	1.54
1149283--1149373	41	2.2	42	78	3	105	27	14	21	36	1.92
1150499--1150531	17	1.9	17	100	0	66	60	6	0	33	1.21
1153129--1153263	67	2.0	66	88	5	200	30	20	16	32	1.95
1154337--1154375	20	2.0	19	85	5	51	5	15	7	71	1.26
1154755--1154804	21	2.4	21	82	0	55	18	8	24	50	1.73
1158598--1158624	2	13.5	2	100	0	54	48	0	0	51	1.00
1158644--1158678	8	4.2	8	89	7	52	88	0	2	8	0.61
1158650--1158678	9	3.3	9	95	4	51	89	0	0	10	0.48
1161931--1161987	30	1.9	30	100	0	114	29	10	26	33	1.90
1162295--1162355	22	2.7	22	80	10	61	36	3	1	59	1.24
1165659--1165696	19	2.0	19	94	0	67	13	10	13	63	1.53
1166384--1166429	2	23.0	2	90	0	74	52	2	0	45	1.13
1167139--1167197	19	3.2	19	72	15	52	47	3	0	49	1.18
1167402--1167471	24	2.7	26	77	14	74	42	1	0	55	1.08
1168135--1168321	73	2.5	73	82	5	216	34	2	8	54	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168487--1168732	73	3.4	70	80	7	235	30	3	11	55	1.51
1176887--1177270	42	9.1	42	77	8	320	16	29	20	33	1.94
1176957--1177270	126	2.5	125	84	4	382	16	28	21	33	1.95
1177800--1177826	3	9.0	3	100	0	54	66	0	0	33	0.92
1178903--1178935	14	2.4	14	94	0	57	33	15	30	21	1.94
1178943--1178992	22	2.3	22	89	0	73	42	16	36	6	1.72
1181954--1181978	13	1.9	13	100	0	50	36	16	16	32	1.90
1181934--1182000	33	2.0	33	88	0	98	32	11	14	40	1.83
1182041--1182065	13	1.9	13	100	0	50	32	16	16	36	1.90
1182074--1182202	52	2.5	52	93	0	222	33	19	17	29	1.95
1183041--1183081	21	2.0	21	90	0	64	26	19	14	39	1.90
1186324--1186350	10	2.7	10	100	0	54	0	0	22	77	0.76
1196108--1196228	52	2.3	52	97	0	224	28	18	18	34	1.94
1196108--1196248	52	2.7	51	90	4	212	30	17	18	33	1.94
1196237--1196261	13	1.9	13	100	0	50	36	16	16	32	1.90
1196327--1196351	13	1.9	13	100	0	50	32	16	16	36	1.90
1196305--1196371	33	2.0	33	85	0	89	41	13	10	34	1.79
1196564--1196590	10	2.7	10	100	0	54	44	7	18	29	1.77
1197078--1197183	1	106.0	1	75	0	86	86	10	1	0	0.69
1197080--1197183	27	3.9	27	83	9	135	86	10	1	0	0.70
1197078--1197183	37	2.9	37	84	5	137	86	10	1	0	0.69
1198686--1198739	27	2.0	27	88	0	81	33	29	16	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1198620--1198909	30	9.9	28	74	11	179	29	28	16	25	1.97
1199030--1199115	42	2.0	42	90	0	136	29	24	17	29	1.97
1199048--1199115	21	3.2	21	64	15	50	29	26	16	27	1.97
1199072--1199223	55	2.8	53	78	4	171	25	23	15	35	1.94
1199072--1199207	52	2.6	52	82	3	155	25	24	15	34	1.95
1200370--1200410	21	2.0	21	90	0	64	26	19	14	39	1.90
1223258--1223603	97	3.6	96	76	5	345	32	28	18	20	1.97
1232200--1232241	22	1.9	22	85	9	59	52	0	14	33	1.42
1234624--1234720	41	2.4	41	86	6	126	34	14	11	40	1.82
1234652--1234720	20	3.4	20	76	4	75	31	15	11	40	1.84
1234624--1234700	21	3.8	20	74	10	66	35	14	11	38	1.82
1235231--1235367	20	6.8	19	80	12	150	32	19	12	35	1.89
1235223--1235285	20	3.0	21	80	13	85	31	22	12	33	1.91
1235231--1235367	40	3.4	38	83	9	166	32	19	12	35	1.89
1249063--1249121	12	4.6	12	74	14	55	81	16	0	1	0.78
1249074--1249110	12	2.9	13	88	8	58	75	24	0	0	0.80
1250370--1250772	28	14.4	28	82	4	404	30	28	16	24	1.96
1251178--1251293	20	5.7	19	69	16	81	33	18	10	37	1.84
1257108--1257142	18	1.9	18	88	0	52	68	2	0	28	1.04
1257469--1257529	11	5.5	11	75	16	63	36	0	0	63	0.94
1257469--1257527	23	2.4	25	78	21	70	35	0	0	64	0.94
1263841--1263872	14	2.3	14	94	0	55	46	3	28	21	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268880--1268950	16	4.5	16	77	10	65	60	9	1	28	1.37
1274776--1274803	2	14.0	2	100	0	56	50	0	0	50	1.00
1281339--1281387	20	2.6	19	81	9	64	48	0	0	51	1.00
1281908--1281953	23	1.9	24	83	16	60	45	13	4	36	1.63
1282278--1282318	2	20.5	2	100	0	82	48	0	0	51	1.00
1283535--1283567	2	16.5	2	100	0	66	51	0	0	48	1.00
1283899--1283935	16	2.3	16	95	0	65	72	10	2	13	1.21
1285228--1285270	17	2.6	17	88	3	61	44	0	0	55	0.99
1285249--1285295	21	2.3	21	81	3	60	34	0	4	61	1.15
1285736--1285762	2	13.5	2	100	0	54	51	0	0	48	1.00
1291826--1291867	21	2.1	19	86	13	57	59	0	0	40	0.97
1297260--1297289	12	2.6	12	94	5	53	13	13	0	73	1.10
1301090--1301158	27	2.6	27	97	0	129	18	15	39	26	1.91
1301296--1301328	2	16.5	2	100	0	66	48	0	0	51	1.00
1302296--1302329	7	4.9	7	89	10	52	76	0	0	23	0.79
1302296--1302329	13	2.4	14	90	9	52	76	0	0	23	0.79
1302296--1302346	15	3.5	14	77	17	50	74	3	0	21	0.98
1302285--1302345	7	8.3	7	78	7	50	77	3	1	18	0.99
1302318--1302391	34	2.2	33	81	11	80	72	5	1	20	1.11
1302630--1302684	26	2.1	26	93	0	92	40	16	36	7	1.76
1302637--1302699	26	2.4	26	86	0	90	39	19	31	9	1.83
1305956--1305984	10	2.7	11	94	5	51	51	0	13	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307009--1307058	12	4.2	12	78	16	52	0	20	0	80	0.72
1307018--1307060	11	3.9	11	87	0	59	0	16	0	83	0.64
1307020--1307060	13	3.3	13	77	22	52	0	14	0	85	0.60
1308452--1309110	28	22.9	28	84	4	726	23	16	30	29	1.96
1310010--1310048	19	2.2	18	86	9	53	7	2	2	87	0.73
1318378--1319252	440	2.0	440	99	0	1732	28	21	18	30	1.97
1321524--1321548	13	1.9	13	100	0	50	32	16	16	36	1.90
1321557--1321685	52	2.5	52	94	0	231	37	18	16	27	1.92
1333647--1333671	2	12.5	2	100	0	50	52	0	0	48	1.00
1337161--1337185	13	1.9	13	100	0	50	32	16	16	36	1.90
1337194--1337322	52	2.5	52	93	0	222	37	17	16	28	1.92
1339670--1339723	22	2.5	22	96	3	101	61	9	11	18	1.55
1340634--1340708	20	3.8	20	80	3	80	40	12	13	34	1.81
1340631--1340708	40	2.0	39	87	2	111	39	12	12	34	1.82
1347392--1347425	3	11.3	3	100	0	68	67	0	0	32	0.91
1351687--1351757	33	2.1	35	84	10	94	39	0	16	43	1.48
1352203--1352247	12	3.7	12	82	11	56	51	0	0	48	1.00
1352714--1352774	5	11.8	5	76	13	61	60	0	1	37	1.07
1352714--1352774	16	3.9	15	77	12	61	60	0	1	37	1.07
1352728--1352796	36	1.9	35	82	8	86	57	1	0	40	1.07
1353350--1353400	19	2.6	19	78	3	57	60	0	0	39	0.97
1353430--1353507	28	2.8	30	79	13	85	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353434--1353485	13	3.8	13	76	14	50	50	0	0	50	1.00
1353477--1353514	16	2.4	16	86	0	58	57	0	0	42	0.98
1354808--1354848	9	4.1	10	82	17	50	51	0	0	48	1.00
1358117--1358238	57	2.1	57	93	0	208	40	15	9	34	1.81
1359921--1359960	19	2.1	19	85	4	53	10	10	2	77	1.08
1361694--1361724	2	15.5	2	100	0	62	51	0	0	48	1.00
1364507--1364537	16	1.9	16	93	0	53	25	22	12	38	1.90
1368166--1368195	2	15.0	2	100	0	60	50	0	50	0	1.00
1368622--1368731	53	2.0	55	92	3	188	28	4	30	36	1.77
1368636--1368754	55	2.2	52	83	8	141	30	5	31	32	1.79

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