genome.fa.s324.2.7.7.80.10.50.1000.8.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: Scaffold324
Parameters: 2 7 7 80 10 50 1000
Length:  2336777

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

This is table  8  of  16  ( 1878 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)
1106281--1106398	62	1.9	62	84	6	159	46	6	12	33	1.68
1108170--1108390	34	6.5	33	81	9	257	40	26	8	24	1.83
1108172--1108390	68	3.2	67	84	3	287	40	26	8	25	1.83
1108170--1108390	102	2.2	101	88	1	343	40	26	8	24	1.83
1112796--1113015	34	6.5	33	79	9	237	41	26	7	24	1.82
1112798--1113015	68	3.2	67	83	3	276	41	26	7	24	1.82
1112796--1113015	102	2.2	101	85	1	314	41	26	7	24	1.82
1114293--1114362	24	2.8	24	80	10	70	45	21	10	22	1.81
1114302--1114371	27	2.7	27	80	8	74	47	18	11	22	1.81
1118770--1118839	27	2.7	26	84	8	81	47	20	11	21	1.81
1123317--1123352	2	18.0	2	100	0	72	50	0	0	50	1.00
1123671--1123722	27	1.9	27	84	0	68	42	3	9	44	1.55
1125148--1125190	17	2.5	16	85	11	50	27	0	2	69	1.00
1125770--1125809	19	2.1	19	90	0	62	50	0	0	50	1.00
1126066--1126098	13	2.5	13	95	0	57	60	0	3	36	1.12
1127736--1127802	35	1.9	34	85	8	91	34	2	5	56	1.39
1128223--1128300	38	2.1	38	82	4	95	38	6	21	33	1.79
1128487--1128517	13	2.4	13	94	0	53	80	0	0	19	0.71
1128629--1128666	16	2.3	17	86	4	51	71	0	7	21	1.11
1134591--1134618	2	14.0	2	100	0	56	50	0	0	50	1.00
1134937--1134988	27	1.9	27	84	0	68	42	3	9	44	1.55
1136412--1136454	17	2.5	16	85	11	50	27	0	2	69	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137034--1137074	19	2.2	19	90	0	64	48	0	0	51	1.00
1139769--1139799	13	2.4	13	94	0	53	80	0	0	19	0.71
1139911--1139948	16	2.3	17	86	4	51	71	0	7	21	1.11
1140722--1140750	1	29.0	1	100	0	58	100	0	0	0	0.00
1141136--1141176	11	3.5	11	81	12	55	78	0	19	2	0.87
1148854--1148911	30	1.9	31	89	3	91	24	27	15	32	1.95
1148879--1148972	46	2.0	46	95	0	170	24	28	10	36	1.89
1148931--1149776	27	31.0	27	93	1	1440	21	35	14	27	1.93
1148931--1149776	82	10.3	81	94	1	1440	21	35	14	27	1.93
1148931--1149776	109	7.8	108	93	1	1440	21	35	14	27	1.93
1149759--1150343	32	18.8	32	89	3	783	30	32	18	18	1.95
1150376--1150494	49	2.5	47	80	9	127	19	29	22	28	1.98
1151178--1151205	1	28.0	1	100	0	56	100	0	0	0	0.00
1151591--1151631	11	3.5	11	81	12	55	78	0	19	2	0.87
1157149--1157194	20	2.4	19	86	10	67	60	0	2	36	1.09
1159442--1159476	17	2.1	17	89	5	54	45	0	0	54	0.99
1160246--1160297	23	2.2	24	80	16	63	40	3	3	51	1.38
1161110--1161154	17	2.4	18	82	14	56	44	0	0	55	0.99
1162217--1162245	7	4.3	7	91	8	51	13	0	0	86	0.58
1162217--1162245	13	2.1	14	93	6	51	13	0	0	86	0.58
1162833--1162872	19	2.1	19	90	0	62	50	0	0	50	1.00
1165384--1165615	50	4.6	50	90	0	356	29	17	20	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166273--1166310	2	19.0	2	94	0	67	52	0	0	47	1.00
1168269--1168322	22	2.4	22	76	17	56	25	0	5	68	1.11
1169312--1169346	16	2.1	17	89	5	54	45	2	0	51	1.16
1170431--1170464	2	17.0	2	100	0	68	50	0	0	50	1.00
1171558--1171633	37	2.1	37	97	0	143	52	3	13	30	1.58
1171600--1171695	47	2.0	47	91	2	156	51	1	8	39	1.39
1171680--1171721	17	2.5	17	80	3	59	45	2	0	52	1.13
1172936--1173023	15	5.9	14	71	20	63	39	0	1	59	1.05
1173028--1173085	20	2.9	19	87	5	71	32	1	1	63	1.14
1175128--1175164	3	12.3	3	100	0	74	35	0	0	64	0.94
1176993--1177070	28	2.7	29	82	7	88	43	1	1	53	1.16
1177003--1177078	28	2.8	26	80	9	89	38	0	2	59	1.12
1178225--1178249	2	12.5	2	100	0	50	48	0	0	52	1.00
1182169--1182210	21	2.0	21	86	4	59	52	2	0	45	1.13
1184460--1184490	10	3.2	10	90	9	55	41	0	0	58	0.98
1185655--1185695	2	20.5	2	100	0	82	48	0	0	51	1.00
1186189--1186223	2	17.0	2	94	5	61	48	2	0	48	1.16
1186851--1186901	24	2.2	24	82	6	70	35	1	1	60	1.19
1187425--1187477	20	2.7	19	77	11	54	39	3	3	52	1.37
1188911--1188935	10	2.5	10	100	0	50	36	0	0	64	0.94
1189051--1189080	2	15.0	2	100	0	60	50	0	0	50	1.00
1189933--1189998	6	9.4	7	76	16	50	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189957--1189990	17	2.1	17	88	5	52	58	0	0	41	0.98
1191743--1191847	28	3.4	32	75	15	98	60	1	0	38	1.08
1195430--1195463	17	1.9	18	94	5	61	29	0	0	70	0.87
1196021--1196054	2	17.5	2	87	6	52	52	0	0	47	1.00
1201157--1201326	85	2.0	85	98	0	331	28	14	12	44	1.82
1203400--1203429	2	15.0	2	92	0	51	46	0	0	53	1.00
1205187--1205217	2	15.5	2	100	0	62	51	0	0	48	1.00
1213048--1213076	4	7.2	4	100	0	58	72	0	0	27	0.85
1213339--1213371	17	1.9	17	93	0	57	57	0	3	39	1.14
1213753--1213788	2	18.5	2	94	5	65	50	0	0	50	1.00
1213900--1213981	9	8.8	9	74	15	60	43	0	2	53	1.13
1213939--1214002	23	2.6	26	78	14	73	42	0	3	54	1.16
1214223--1214320	17	6.0	16	67	18	60	44	0	1	54	1.07
1214288--1214332	20	2.2	21	92	4	74	37	0	2	60	1.09
1215392--1215436	18	2.4	18	85	7	54	17	2	11	68	1.29
1215952--1216034	27	3.2	24	76	18	71	37	1	0	61	1.04
1215974--1216020	17	2.7	18	78	18	55	34	2	0	63	1.06
1215952--1216047	26	3.7	26	76	9	88	38	2	0	59	1.09
1217169--1217244	28	2.8	28	71	15	68	36	3	3	55	1.37
1217881--1217920	12	3.4	12	83	16	57	62	0	0	37	0.95
1218116--1218140	4	6.2	4	100	0	50	52	0	0	48	1.00
1218485--1218534	19	2.5	20	90	6	84	62	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218484--1218539	6	8.7	7	76	21	52	60	0	0	39	0.97
1219598--1219679	35	2.6	30	81	14	96	45	0	1	53	1.08
1219988--1220027	19	2.1	19	85	0	53	62	0	0	37	0.95
1220750--1220781	3	10.7	3	93	0	55	65	0	34	0	0.93
1221427--1221471	14	3.3	14	84	3	65	40	0	2	57	1.11
1232586--1232644	30	2.0	30	86	0	82	42	27	3	27	1.71
1237966--1238034	9	6.7	10	71	15	52	52	0	0	47	1.00
1237967--1238054	11	7.8	11	71	18	65	54	0	1	44	1.07
1241370--1241403	17	2.0	17	94	0	59	38	0	0	61	0.96
1241519--1241573	28	2.0	28	85	7	76	45	0	0	54	0.99
1241523--1241626	18	5.9	17	74	17	70	38	0	0	61	0.96
1241524--1241633	17	6.7	16	74	18	84	37	0	0	62	0.95
1241524--1241646	42	3.0	43	75	12	114	37	0	0	61	1.02
1241527--1241646	9	13.0	9	68	23	56	36	0	0	62	1.01
1241561--1241646	31	2.7	32	82	10	104	33	0	1	65	1.01
1241523--1241646	22	6.4	20	70	17	84	37	0	0	61	1.02
1241977--1242061	37	2.3	37	82	11	95	57	0	1	41	1.06
1242730--1242799	21	3.0	22	73	22	63	37	0	1	61	1.05
1242882--1242916	16	2.2	17	85	15	56	68	0	0	31	0.90
1243216--1243271	17	3.2	18	75	17	55	58	0	0	41	0.98
1246921--1246955	14	2.4	15	85	9	54	54	0	0	45	0.99
1246925--1246956	14	2.3	14	94	0	55	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248685--1248740	29	1.9	29	82	7	69	62	0	1	35	1.06
1248697--1248756	29	2.2	29	88	8	90	63	0	0	36	0.95
1249227--1249292	28	2.3	28	79	10	80	45	0	4	50	1.22
1249300--1249337	19	2.0	19	85	10	51	36	2	0	60	1.11
1252643--1252733	1	91.0	1	80	0	83	0	6	5	87	0.65
1252645--1252730	32	2.8	32	96	3	158	0	6	5	87	0.68
1261888--1261954	32	2.1	32	81	8	75	55	5	2	35	1.40
1266926--1266983	25	2.3	24	80	8	71	32	0	6	60	1.23
1267225--1267263	16	2.5	16	91	4	62	53	0	0	46	1.00
1267313--1267360	20	2.4	21	82	6	64	52	0	8	39	1.32

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