genome.fa.s274.2.7.7.80.10.50.1000.8.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: Scaffold274
Parameters: 2 7 7 80 10 50 1000
Length:  1642345

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  8  of  10  ( 1139 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)
1085564--1085612	19	2.5	19	86	3	62	6	16	0	77	0.96
1085564--1085612	9	5.0	10	80	9	57	6	16	0	77	0.96
1086984--1087030	2	22.5	2	83	16	60	46	2	4	46	1.34
1087212--1087265	19	2.8	18	75	10	54	29	1	7	61	1.34
1087238--1087276	11	3.5	11	85	0	51	28	0	5	66	1.12
1087248--1087285	17	2.2	17	90	9	60	28	2	0	68	1.03
1089301--1089348	20	2.5	19	83	6	53	25	0	6	68	1.12
1089933--1089970	20	1.9	20	89	10	60	31	2	10	55	1.48
1090930--1090996	10	6.3	10	74	19	64	22	25	10	41	1.85
1090934--1090999	24	3.0	21	89	8	89	22	22	12	42	1.87
1090938--1091000	20	3.0	20	88	9	81	22	22	11	44	1.84
1095947--1096060	38	3.0	37	86	6	158	38	2	1	57	1.23
1096020--1096158	54	2.7	51	77	11	144	39	2	0	58	1.10
1096021--1096214	29	7.2	28	73	17	169	41	2	0	55	1.17
1096180--1096306	38	3.1	40	83	6	132	38	3	0	57	1.20
1096301--1096341	14	2.7	15	82	17	50	39	4	2	53	1.35
1096622--1096689	32	2.1	32	81	10	77	42	5	1	50	1.35
1096974--1097021	19	2.3	21	82	10	55	54	0	2	43	1.12
1097197--1097235	6	6.7	6	85	5	53	66	0	0	33	0.92
1097195--1097238	21	2.0	23	86	13	65	63	0	0	36	0.95
1099702--1099731	15	2.0	15	100	0	60	53	26	13	6	1.64
1101593--1101642	20	2.4	21	93	3	84	38	6	20	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105288--1105338	20	2.5	20	93	0	84	31	19	7	41	1.80
1107675--1108286	79	7.8	79	79	7	572	27	24	14	33	1.94
1107675--1108286	158	3.9	157	82	6	643	27	24	14	33	1.94
1107685--1108295	314	1.9	313	82	4	748	27	24	13	34	1.93
1117997--1118384	191	2.0	191	92	0	641	35	17	20	26	1.95
1120835--1120859	13	1.9	13	100	0	50	80	12	0	8	0.92
1120850--1120886	7	5.4	7	87	12	51	89	0	10	0	0.49
1120850--1120886	14	2.5	15	86	4	58	89	0	10	0	0.49
1120853--1120883	16	1.9	16	93	0	53	87	0	12	0	0.55
1121865--1122121	61	4.2	60	89	3	372	28	27	19	25	1.98
1121865--1122121	120	2.1	122	89	2	385	28	27	19	25	1.98
1122098--1122205	45	2.4	43	83	10	137	24	24	12	39	1.89
1122135--1122250	43	2.7	43	79	12	123	21	21	11	45	1.82
1122225--1122321	34	2.7	35	87	7	126	20	21	16	41	1.90
1122263--1122334	34	2.2	32	88	9	103	18	26	16	38	1.91
1124592--1125170	79	7.4	79	81	6	608	27	24	14	34	1.94
1132281--1132336	20	2.7	20	88	5	76	42	12	16	28	1.84
1142763--1142814	20	2.6	20	96	0	95	44	11	11	32	1.77
1144444--1145041	110	5.5	110	82	5	543	31	18	17	32	1.94
1144437--1145041	219	2.8	217	79	5	608	31	18	17	33	1.94
1145734--1145781	14	3.4	14	88	5	69	2	29	0	68	1.01
1145719--1145790	29	2.6	29	82	6	78	1	30	0	68	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145742--1145780	18	2.2	18	90	0	69	0	30	0	69	0.89
1145745--1145791	11	4.4	11	82	12	53	0	34	0	65	0.93
1146686--1146921	28	8.7	28	75	8	175	19	18	30	31	1.96
1146971--1147121	26	5.7	25	80	7	158	22	19	23	33	1.97
1146970--1147109	54	2.6	51	81	6	163	22	20	23	32	1.98
1160161--1160657	110	4.5	109	82	4	473	30	19	17	32	1.95
1161344--1161384	4	11.2	4	85	15	54	0	24	0	75	0.80
1161340--1161386	14	3.4	14	85	8	69	0	27	0	72	0.85
1161344--1161384	18	2.3	18	95	0	73	0	24	0	75	0.80
1162159--1162336	31	5.8	29	79	12	137	24	23	27	25	2.00
1162159--1162299	31	4.5	31	80	9	144	24	21	28	25	1.99
1162160--1162330	63	2.8	62	79	12	181	23	22	28	24	1.99
1162303--1162660	28	12.7	28	83	5	375	24	18	28	29	1.98
1162163--1162654	28	17.0	29	81	6	276	23	19	28	27	1.99
1162343--1162662	141	2.3	140	88	3	475	24	17	29	29	1.97
1166715--1166781	33	2.0	33	85	0	89	43	14	14	26	1.85
1166736--1166761	13	2.0	13	100	0	52	38	15	15	30	1.88
1166804--1166866	32	2.0	32	93	0	108	36	15	11	36	1.84
1166801--1166868	19	3.9	19	74	21	76	38	14	10	36	1.81
1166904--1167001	21	4.7	21	89	2	144	36	16	12	34	1.86
1171738--1171807	27	2.6	27	95	0	122	20	21	34	24	1.97
1174048--1174098	20	2.5	20	87	0	66	39	15	11	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175011--1175497	28	17.0	28	82	8	482	22	17	29	29	1.97
1176724--1176801	1	78.0	1	75	0	57	1	2	10	85	0.74
1176724--1176803	18	4.4	18	75	19	78	1	2	11	85	0.77
1190503--1190540	20	1.9	20	88	0	58	39	13	15	31	1.86
1191333--1191359	2	13.5	2	100	0	54	48	0	0	51	1.00
1191603--1191640	2	19.0	2	100	0	76	50	0	0	50	1.00
1191765--1191809	14	3.2	14	90	0	72	42	0	0	57	0.98
1191811--1191880	14	4.9	14	73	15	54	62	2	2	31	1.24
1193311--1193367	19	3.1	18	75	24	57	59	0	0	40	0.97
1193694--1193727	16	2.3	15	90	10	52	67	2	5	23	1.26
1194215--1194259	23	1.9	24	82	13	58	35	2	2	60	1.22
1194811--1194889	38	2.0	40	87	4	117	51	5	15	27	1.64
1196592--1196631	20	2.0	20	85	9	55	50	0	0	50	1.00
1200235--1200275	2	20.5	2	100	0	82	51	0	0	48	1.00
1201766--1202168	198	2.0	203	85	6	543	35	11	8	44	1.71
1202456--1202486	15	2.0	16	93	6	55	70	0	6	22	1.09
1202489--1202530	18	2.3	18	84	8	50	71	7	2	19	1.20
1204394--1204453	21	3.0	19	81	16	68	31	15	15	38	1.88
1205960--1205985	13	2.0	13	100	0	52	30	15	15	38	1.88
1205940--1206004	33	2.0	33	87	6	96	27	13	16	41	1.87
1214179--1214204	13	2.0	13	100	0	52	30	15	15	38	1.88
1214159--1214223	33	2.0	33	87	6	96	27	13	16	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217982--1225560	476	16.0	476	82	4	8372	36	14	17	31	1.90
1219846--1225553	158	36.1	157	65	14	1062	36	14	18	31	1.90
1219834--1225560	474	12.1	474	82	3	6584	35	14	18	31	1.90
1227170--1227288	42	2.8	42	87	0	166	43	1	44	10	1.47
1229340--1229415	12	6.9	11	75	15	52	39	2	48	9	1.49
1229339--1229424	24	3.8	24	72	17	85	41	2	45	10	1.51
1229330--1229448	42	2.8	42	92	0	193	42	2	46	8	1.47
1231365--1231404	15	2.7	15	80	0	53	82	2	12	2	0.87
1232151--1232226	12	6.9	11	75	15	52	39	2	48	9	1.49
1232150--1232235	24	3.8	24	72	17	85	41	2	45	10	1.51
1232141--1232259	42	2.8	42	90	0	184	43	2	45	8	1.47
1246348--1247046	159	4.4	157	68	12	424	35	13	17	32	1.90
1245522--1248423	475	6.2	476	82	5	3255	36	13	18	31	1.89
1247130--1248123	159	6.3	157	69	13	451	35	13	18	31	1.90
1248422--1250232	477	3.8	472	85	4	2345	36	13	19	31	1.90
1251858--1251937	33	2.4	32	79	6	97	47	0	37	15	1.45
1251868--1251961	42	2.2	42	86	0	134	44	1	40	13	1.51
1256899--1257525	159	4.0	158	71	7	439	35	13	19	31	1.90
1257866--1257918	26	2.0	26	100	0	106	49	18	7	24	1.74
1258041--1258804	159	4.8	157	69	10	380	36	14	17	30	1.91
1257892--1258964	476	2.3	476	87	2	1532	36	14	17	30	1.90
1258177--1258817	159	4.0	158	67	10	399	35	15	18	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1260983--1261017	3	11.7	3	100	0	70	34	0	34	31	1.58
1264108--1264204	33	3.0	32	86	3	131	29	14	13	42	1.84
1264236--1264286	20	2.6	20	90	3	77	37	17	13	31	1.89
1264814--1264876	28	2.2	28	91	0	99	22	26	9	41	1.84
1264892--1264933	22	1.9	22	90	0	66	21	33	4	40	1.74
1270069--1270117	18	2.7	19	78	12	50	8	48	2	40	1.44
1270075--1270193	42	2.8	42	87	0	166	9	46	1	42	1.46
1274557--1274645	29	3.1	29	100	0	178	33	13	21	31	1.92
1277486--1277528	20	2.1	21	87	12	63	27	13	6	51	1.67
1278454--1285529	473	15.0	476	85	2	8574	30	18	13	36	1.90

Tables:   1   2   3   4   5   6   7   8   9   10