genome.fa.s29.2.7.7.80.10.50.1000.8.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   29   30   31   32   
          33   34   

This is table  8  of  34  ( 4030 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)
1135562--1135604	19	2.3	19	96	4	79	23	0	0	76	0.78
1135567--1135599	12	2.8	12	86	13	50	18	0	0	81	0.68
1136269--1136320	20	2.8	18	78	13	52	51	0	0	48	1.00
1136282--1136320	20	2.0	20	85	9	55	48	0	0	51	1.00
1136313--1136358	16	2.9	16	86	0	65	47	2	0	50	1.13
1136675--1136715	16	2.6	16	80	0	55	36	0	0	63	0.95
1137110--1137171	30	2.1	28	82	11	72	62	0	0	37	0.95
1147489--1147514	13	2.0	13	100	0	52	38	15	15	30	1.88
1150260--1150288	14	2.0	15	93	6	51	55	6	3	34	1.44
1150438--1150489	20	2.6	21	84	9	72	50	15	7	26	1.71
1154477--1154503	13	2.1	13	100	0	54	29	14	14	40	1.86
1154555--1154592	20	1.9	20	88	0	58	36	10	13	39	1.79
1154575--1154599	13	1.9	13	100	0	50	40	16	8	36	1.77
1155467--1155492	13	2.0	13	100	0	52	38	15	15	30	1.88
1157706--1157750	21	2.1	21	84	8	56	51	4	22	22	1.66
1159552--1159588	15	2.4	16	82	17	51	48	18	16	16	1.81
1161663--1161688	13	2.0	13	100	0	52	30	15	15	38	1.88
1163596--1163621	13	2.0	13	100	0	52	38	15	15	30	1.88
1167399--1167451	19	2.7	20	85	8	72	43	15	13	28	1.84
1168149--1168207	32	1.9	30	83	13	75	59	10	10	20	1.58
1168487--1168512	13	2.0	13	100	0	52	30	15	15	38	1.88
1168467--1168530	32	2.0	33	90	3	103	28	14	15	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168561--1168634	20	3.7	20	82	8	78	29	17	13	39	1.88
1169749--1169786	13	2.9	13	92	0	58	31	13	18	36	1.89
1171867--1171897	15	2.1	15	93	0	53	12	22	16	48	1.80
1173701--1173745	21	2.1	21	84	8	56	22	20	4	53	1.63
1175290--1175339	21	2.3	21	80	10	57	56	4	18	22	1.58
1177137--1177167	15	2.1	15	93	0	53	48	16	22	12	1.80
1187562--1187608	21	2.2	21	88	0	67	36	2	29	31	1.70
1187572--1187644	21	3.5	20	83	10	92	38	1	30	30	1.66
1188269--1188298	13	2.3	13	94	0	51	43	16	10	30	1.81
1190318--1190415	39	2.5	39	73	3	99	29	7	14	48	1.70
1190547--1190614	26	2.5	27	84	11	86	30	14	14	39	1.87
1192967--1193307	171	2.0	171	95	0	610	36	13	13	36	1.84
1195227--1195277	15	3.5	15	78	2	59	74	0	21	3	0.98
1195452--1195489	10	3.8	10	86	10	51	81	2	10	5	0.94
1195452--1195489	19	2.0	20	89	5	60	81	2	10	5	0.94
1197880--1197984	43	2.7	37	77	12	106	43	4	2	48	1.38
1198282--1198324	13	3.4	13	83	3	52	51	2	2	44	1.27
1198363--1198437	32	2.4	33	78	10	95	45	1	0	53	1.08
1198341--1198461	32	3.6	33	72	15	90	47	0	0	51	1.12
1198411--1198453	21	2.0	21	86	8	61	41	0	0	58	0.98
1198877--1198902	13	2.0	13	100	0	52	0	7	0	92	0.39
1203677--1203713	18	2.1	18	90	10	58	0	16	0	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207137--1207178	17	2.4	18	84	11	61	21	7	0	71	1.09
1207136--1207177	16	2.6	16	84	3	57	23	4	0	71	1.05
1207636--1207680	19	2.3	20	85	7	58	33	4	2	60	1.29
1207991--1208028	19	2.0	19	90	10	60	31	0	0	68	0.90
1208188--1208228	21	2.0	20	85	4	55	24	12	0	63	1.28
1209331--1209367	17	2.1	17	90	5	56	29	0	0	70	0.88
1209790--1209976	97	1.9	97	90	2	295	24	25	14	35	1.94
1211022--1211060	20	2.0	21	90	10	64	48	5	0	46	1.24
1211598--1211638	21	1.9	21	90	5	64	56	2	2	39	1.26
1214104--1214202	19	5.2	19	77	10	85	53	8	3	35	1.46
1214158--1214341	19	9.2	19	68	15	77	48	10	4	35	1.59
1214109--1214341	37	5.9	38	67	15	105	49	9	4	35	1.57
1214243--1214341	20	5.2	20	72	12	82	50	12	4	33	1.58
1214159--1214319	86	1.9	84	81	7	191	47	9	4	37	1.57
1214545--1214585	19	2.2	19	100	0	82	36	14	0	48	1.44
1214623--1214751	68	1.9	68	84	6	172	51	6	3	38	1.45
1214735--1214792	26	2.3	27	82	8	68	55	3	5	36	1.39
1214820--1214878	19	3.1	19	87	4	91	54	3	0	42	1.17
1215131--1215175	21	2.2	20	84	8	54	73	2	0	24	0.95
1215235--1215338	40	2.7	39	81	10	115	26	22	7	43	1.80
1215278--1215347	14	5.2	14	75	19	69	24	21	7	47	1.76
1216579--1216604	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217398--1217435	14	2.8	14	92	4	60	21	21	7	50	1.74
1218176--1218201	13	2.0	13	100	0	52	30	15	15	38	1.88
1220087--1220132	21	2.2	21	84	7	58	56	0	4	39	1.19
1221619--1222652	344	3.0	344	97	0	1946	39	12	19	27	1.88
1222805--1223026	79	2.8	78	80	6	241	32	15	26	25	1.95
1222908--1223105	106	1.9	107	83	7	260	31	15	26	27	1.95
1222982--1223057	28	2.8	28	88	6	102	25	18	32	23	1.97
1223041--1223177	55	2.6	54	86	4	197	33	10	23	32	1.88
1225512--1225537	13	2.0	13	100	0	52	38	15	15	30	1.88
1225524--1225565	21	2.0	21	100	0	84	28	19	9	42	1.82
1225590--1225652	19	3.7	18	76	24	73	36	19	12	31	1.89
1225582--1225652	32	2.2	32	92	5	117	36	19	12	30	1.89
1225608--1225634	13	2.1	13	100	0	54	40	14	14	29	1.86
1229977--1230809	55	14.4	57	86	7	941	25	20	28	25	1.99
1229977--1230805	232	3.6	232	87	6	1141	24	20	28	25	1.99
1231766--1231852	1	87.0	1	79	0	93	1	2	6	89	0.61
1231766--1231852	11	7.9	11	85	11	108	1	2	6	89	0.61
1244449--1244571	54	2.3	52	91	2	201	30	17	17	34	1.93
1244580--1244604	13	1.9	13	100	0	50	36	16	16	32	1.90
1244645--1244710	32	2.0	33	91	2	107	36	15	12	36	1.84
1245614--1245973	92	3.9	92	92	1	558	31	18	25	24	1.98
1245548--1245967	49	8.8	49	81	10	469	31	18	26	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245980--1246147	32	5.2	33	88	5	256	17	17	36	27	1.93
1245978--1246147	63	2.7	64	90	5	274	17	17	35	28	1.93
1246149--1246247	33	2.9	35	86	7	141	36	13	30	20	1.90
1246213--1246271	29	2.0	30	86	3	84	27	15	30	27	1.96
1247709--1247744	10	3.5	10	88	7	54	0	2	8	88	0.59
1247709--1247746	15	2.6	14	88	8	58	0	2	7	89	0.57
1266477--1266628	52	2.9	52	86	3	209	32	15	18	33	1.93
1266669--1266753	19	4.7	19	79	18	101	37	17	11	32	1.86
1266707--1266731	13	1.9	13	100	0	50	32	16	16	36	1.90
1266688--1266751	32	2.0	33	96	3	121	34	18	12	34	1.89
1268350--1269379	42	24.4	42	78	5	869	15	29	17	37	1.91
1268352--1269379	211	4.9	209	80	5	946	15	29	17	37	1.91
1269451--1269482	17	2.0	17	88	11	50	3	21	12	62	1.43
1269804--1269848	21	2.2	20	84	11	56	75	2	0	22	0.91
1269824--1269881	17	3.2	17	73	7	53	74	0	0	25	0.82
1269907--1270010	39	2.7	39	81	12	117	26	22	7	43	1.80
1269941--1270157	14	16.6	14	66	23	66	27	21	8	42	1.81
1269941--1270071	44	2.9	44	79	12	133	27	21	8	42	1.81
1270046--1270170	24	5.3	25	76	18	117	29	21	8	40	1.82
1270073--1270157	43	2.0	42	86	6	118	27	21	8	43	1.80
1270099--1270157	13	4.6	13	79	10	68	27	22	8	42	1.82
1270126--1270168	11	3.7	11	76	11	50	34	20	4	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269944--1270200	114	2.3	118	77	14	313	28	21	8	42	1.82
1270343--1270546	84	2.4	85	88	4	304	55	12	22	9	1.66
1271945--1271998	21	2.6	21	82	5	65	55	1	5	37	1.34
1278427--1278458	2	16.0	2	100	0	64	0	50	0	50	1.00
1278458--1278489	2	16.0	2	100	0	64	50	0	0	50	1.00
1279583--1279610	13	2.2	13	100	0	56	35	0	14	50	1.43
1279614--1279699	24	3.4	24	75	20	93	23	4	11	60	1.50
1279613--1279699	28	3.2	29	62	26	71	22	4	11	60	1.49
1279596--1279699	53	2.0	53	98	0	199	24	3	13	58	1.52
1284567--1284933	49	7.6	49	78	9	349	31	18	25	25	1.98

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   29   30   31   32   
          33   34