genome.fa.s27.2.7.7.80.10.50.1000.7.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: Scaffold27
Parameters: 2 7 7 80 10 50 1000
Length:  2789374

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

This is table  7  of  16  ( 1898 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)
1145631--1145678	21	2.3	20	80	16	53	29	33	2	35	1.69
1147253--1147321	33	2.1	33	81	10	79	33	18	15	31	1.93
1147351--1147402	19	2.7	20	84	3	70	38	17	13	30	1.88
1150809--1151165	79	4.5	78	78	3	322	34	15	22	27	1.94
1150801--1151174	157	2.4	158	83	4	452	35	15	22	27	1.94
1152085--1152133	13	3.9	13	78	10	50	4	8	38	48	1.52
1152918--1152969	27	1.9	27	84	7	70	13	5	5	75	1.18
1153651--1153744	43	2.2	43	80	3	109	32	17	24	25	1.96
1153695--1154104	52	7.9	51	74	8	337	33	16	25	24	1.96
1154057--1154182	43	2.9	43	90	0	198	30	19	25	25	1.98
1154102--1154169	21	3.2	21	66	25	52	29	17	26	26	1.98
1154196--1154313	32	3.7	31	77	7	121	17	18	32	31	1.95
1154935--1154989	28	2.0	27	86	10	76	27	20	14	38	1.91
1155907--1155949	19	2.2	19	84	12	52	0	2	13	83	0.74
1155912--1155960	11	4.7	10	80	7	53	4	0	14	81	0.83
1165922--1165968	21	2.3	21	76	23	55	42	4	19	34	1.70
1166043--1166178	68	2.0	68	100	0	272	30	14	25	29	1.95
1166157--1166195	13	3.0	13	88	0	60	35	12	17	33	1.88
1166181--1166259	20	3.7	20	78	15	77	44	15	15	25	1.85
1168274--1168304	15	2.1	15	93	0	53	12	22	16	48	1.80
1170108--1170152	21	2.1	21	84	8	56	22	20	4	53	1.63
1179582--1179702	52	2.3	52	94	0	215	28	17	18	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179582--1179722	52	2.7	51	87	4	203	30	17	18	34	1.94
1179711--1179735	13	1.9	13	100	0	50	36	16	16	32	1.90
1181307--1181669	79	4.6	78	78	13	359	33	15	24	26	1.95
1181307--1181676	156	2.3	158	86	3	512	34	14	24	26	1.94
1183423--1183460	19	2.0	20	89	5	60	15	0	2	81	0.80
1183423--1183520	8	11.8	8	73	10	63	18	2	3	76	1.01
1187339--1187830	61	8.1	61	84	1	637	25	25	18	31	1.97
1187339--1187830	182	2.7	183	86	2	666	25	25	18	31	1.97
1188457--1188593	50	2.7	51	86	3	179	27	20	13	39	1.89
1189670--1189696	5	5.4	5	100	0	54	0	18	0	81	0.69
1190948--1191226	80	3.5	79	84	4	350	26	24	14	35	1.93
1191235--1191684	81	5.6	80	82	3	424	29	21	12	36	1.90
1192783--1193267	159	3.0	161	82	6	567	35	10	12	41	1.79
1196919--1196999	38	2.1	39	82	8	96	33	9	11	45	1.73
1197754--1197779	13	2.0	13	100	0	52	30	15	15	38	1.88
1200328--1200404	20	3.6	20	77	16	73	42	15	15	25	1.86
1204253--1204297	21	2.1	21	84	8	56	22	20	4	53	1.63
1206511--1206536	13	2.0	13	100	0	52	30	15	15	38	1.88
1206940--1207068	37	3.4	39	81	14	146	24	6	20	48	1.72
1210618--1210660	22	2.0	22	90	0	68	44	0	4	51	1.22
1213131--1213158	12	2.3	12	100	0	56	60	0	0	39	0.97
1214695--1214766	14	5.5	13	73	20	62	43	2	0	54	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1214717--1214766	25	1.9	25	84	8	64	42	4	0	54	1.19
1214711--1214766	12	4.4	13	75	16	55	41	3	0	55	1.17
1215161--1215254	14	6.4	14	71	24	54	45	0	0	54	0.99
1215152--1215244	32	2.7	33	83	9	116	46	0	0	53	1.00
1215188--1215269	38	2.1	40	84	13	109	42	0	0	57	0.98
1215202--1215275	19	3.8	19	71	16	62	39	0	0	60	0.97
1215844--1215882	19	2.1	18	85	4	51	38	0	0	61	0.96
1215861--1215910	26	1.9	26	84	8	66	52	0	0	48	1.00
1215927--1216083	75	2.1	75	82	10	187	59	0	0	40	0.97
1216307--1216338	2	16.0	2	100	0	64	50	0	0	50	1.00
1223919--1223944	13	2.0	13	100	0	52	38	15	15	30	1.88
1223900--1223964	32	2.0	33	87	3	96	41	16	13	27	1.87
1226144--1226199	21	2.6	22	75	13	64	55	7	14	23	1.63
1230101--1230126	13	2.0	13	100	0	52	30	15	15	38	1.88
1230247--1230292	21	2.2	20	81	11	58	32	19	4	43	1.71
1232684--1232709	13	2.0	13	100	0	52	38	15	15	30	1.88
1232665--1232729	32	2.0	33	87	3	96	41	16	13	27	1.87
1234160--1234341	52	3.5	52	93	1	294	28	17	18	36	1.93
1234445--1234501	13	3.9	13	76	24	60	33	17	14	35	1.90
1234422--1234520	32	3.1	32	97	1	182	35	17	12	35	1.87
1234427--1234521	19	5.7	19	71	28	90	35	16	12	34	1.87
1235119--1235591	166	2.9	164	83	4	576	42	13	11	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236123--1236152	14	2.1	14	93	0	51	56	6	10	26	1.57
1239664--1239696	13	2.5	13	95	0	57	36	15	15	33	1.88
1240332--1240407	21	3.5	21	81	12	91	27	30	2	39	1.70
1240332--1240408	22	3.6	21	84	7	93	27	29	2	40	1.70
1242285--1242311	13	2.1	13	100	0	54	40	14	14	29	1.86
1242430--1242493	30	2.1	31	85	8	87	56	21	0	21	1.43
1245771--1245895	52	2.4	51	79	12	139	30	25	13	30	1.94
1260669--1261444	55	13.4	58	83	7	796	25	20	27	27	1.99
1261145--1261231	28	3.1	28	62	15	72	26	20	26	26	1.99
1260669--1261439	175	4.5	169	87	5	957	25	20	27	27	1.99
1262424--1262494	1	71.0	1	75	0	52	0	4	9	85	0.71
1262434--1262494	12	5.0	12	85	2	86	0	3	9	86	0.67
1263127--1263194	19	3.9	19	78	21	85	35	11	14	38	1.83
1263148--1263172	13	1.9	13	100	0	50	36	16	16	32	1.90
1263129--1263191	32	2.0	32	96	0	117	34	12	15	36	1.86
1263234--1263259	13	2.0	13	100	0	52	30	15	15	38	1.88
1263214--1263280	33	2.0	33	88	0	98	25	14	16	43	1.86
1263794--1263827	17	2.0	17	88	0	50	82	14	2	0	0.79
1265621--1265921	52	5.7	51	69	17	195	28	25	13	32	1.94
1265730--1265798	27	2.5	27	88	2	93	24	28	23	23	1.99
1265676--1266030	109	3.3	106	74	11	346	27	27	14	29	1.95
1265676--1266069	107	3.7	105	74	10	316	27	27	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265785--1265955	52	3.3	51	77	11	168	29	25	12	32	1.93
1265939--1266015	28	2.8	28	83	0	91	22	33	19	24	1.97
1265618--1266023	213	1.9	212	90	1	643	27	26	14	31	1.95
1281393--1281709	79	4.0	79	86	4	424	32	14	26	27	1.94
1281662--1281732	27	2.6	27	86	2	88	25	19	30	23	1.98
1284164--1284230	34	2.0	33	91	2	107	44	13	16	25	1.84
1284185--1284210	13	2.0	13	100	0	52	38	15	15	30	1.88
1284254--1284305	13	3.5	13	73	26	50	34	17	15	32	1.91
1284262--1284345	19	4.7	19	81	16	99	36	17	13	32	1.88
1284254--1284324	32	2.2	32	94	0	124	35	18	14	32	1.90
1286674--1286725	20	2.5	21	87	3	70	36	13	19	30	1.90
1290184--1290466	143	2.0	143	84	3	372	37	8	14	40	1.75
1291649--1291681	15	2.1	16	88	5	50	51	3	6	39	1.42
1292213--1292254	6	7.0	6	88	0	66	80	2	16	0	0.81
1296557--1296598	20	2.0	22	86	13	61	50	0	2	47	1.14
1296596--1296663	11	6.0	11	69	19	50	50	0	2	47	1.16
1296988--1297042	20	2.8	19	81	8	56	52	1	3	41	1.29
1297006--1297047	20	2.1	20	95	0	75	52	0	2	45	1.13
1297019--1297071	25	2.2	24	89	3	79	49	0	1	49	1.12
1297026--1297075	24	2.0	25	84	3	66	54	0	2	44	1.11
1297077--1297119	18	2.5	18	85	7	63	46	11	0	41	1.40
1297217--1297253	14	2.5	15	83	16	51	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297979--1298031	22	2.4	22	90	6	81	47	0	9	43	1.36
1297979--1298037	22	2.7	22	86	5	66	45	1	11	40	1.51
1300299--1300357	29	2.0	29	100	0	118	28	23	13	33	1.93
1302468--1302502	16	2.1	17	89	5	54	77	2	2	17	1.02
1305723--1305818	50	1.9	50	85	8	133	28	21	11	38	1.88
1305789--1306087	79	3.8	79	79	4	309	26	25	14	33	1.95
1305946--1306221	130	2.1	131	84	4	353	25	24	16	34	1.95
1317314--1317368	13	4.2	13	81	6	58	87	7	3	1	0.73
1317314--1317368	16	3.4	16	82	9	60	87	7	3	1	0.73
1318383--1318662	93	3.0	93	86	3	366	26	28	16	27	1.97

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