genome.fa.s80.2.7.7.80.10.50.1000.6.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: Scaffold80
Parameters: 2 7 7 80 10 50 1000
Length:  1499392

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 882 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)
821094--821166	20	3.7	19	87	7	85	28	15	17	38	1.90
821295--821332	20	2.0	20	89	5	60	34	15	10	39	1.82
822090--822121	4	7.8	4	96	3	55	71	0	3	25	1.00
822257--822719	165	2.8	166	81	4	510	49	8	10	31	1.67
822283--822832	165	3.3	164	79	7	397	48	8	11	30	1.70
824819--824861	23	2.0	21	82	13	52	72	0	0	27	0.85
833800--833894	20	4.7	20	87	6	138	37	10	14	36	1.81
833800--833894	41	2.3	40	89	1	145	37	10	14	36	1.81
834305--834359	19	2.8	20	78	10	69	40	14	12	32	1.84
1032868--1032917	19	2.6	19	80	3	55	42	18	10	30	1.82
1040700--1040742	21	2.1	21	86	4	61	81	2	16	0	0.79
1046350--1046383	17	2.0	17	88	0	50	5	26	17	50	1.69
1053089--1053292	79	2.6	79	83	1	230	28	16	29	24	1.97
1053247--1053318	28	2.6	28	88	0	99	23	19	34	22	1.96
1053168--1053403	108	2.2	110	84	3	302	28	16	28	25	1.97
1053279--1053456	80	2.2	80	88	2	275	29	14	28	28	1.95
1053387--1053517	51	2.5	51	82	9	165	32	11	25	30	1.91
1055877--1055902	13	2.0	13	100	0	52	38	15	15	30	1.88
1056419--1056612	52	3.8	52	82	6	234	22	25	19	32	1.97
1056292--1056613	91	3.4	97	85	8	394	23	25	20	31	1.98
1056291--1056613	43	6.7	49	77	10	213	23	25	20	31	1.98
1057381--1057434	21	2.7	21	85	5	76	37	11	16	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1057485--1057512	13	2.2	13	100	0	56	28	14	17	39	1.89
1057465--1057531	33	2.0	33	88	5	100	29	16	13	40	1.87
1059277--1059302	13	2.0	13	100	0	52	30	15	15	38	1.88
1059257--1059320	32	2.0	33	90	3	103	28	14	15	42	1.86
1061357--1061400	20	2.2	20	87	4	61	9	25	43	22	1.82
1061831--1061855	13	1.9	13	100	0	50	32	16	16	36	1.90
1063927--1063972	15	3.1	15	96	0	83	13	21	15	50	1.78
1068030--1068081	19	2.7	20	87	6	79	28	13	15	42	1.85
1074485--1074546	1	62.0	1	77	0	61	88	9	1	0	0.58
1074485--1074546	17	3.7	16	85	14	81	88	9	1	0	0.58
1074485--1074548	22	3.0	21	88	6	101	87	9	3	0	0.64
1074481--1074546	24	2.8	24	86	13	86	87	10	1	0	0.60
1075832--1075944	30	3.7	30	83	5	138	24	29	19	26	1.98
1075944--1076265	33	9.8	34	75	14	216	21	30	13	33	1.92
1075872--1076265	61	6.2	64	74	14	232	21	30	14	32	1.94
1076302--1077032	49	14.8	49	77	9	644	22	24	19	33	1.97
1076485--1077037	52	10.8	52	80	5	610	22	25	18	33	1.97
1076302--1077037	101	7.4	101	90	2	943	22	25	19	33	1.97
1077729--1077803	21	3.7	21	83	3	100	41	13	13	32	1.83
1077729--1077834	21	5.7	19	78	15	80	38	13	15	33	1.86
1077791--1077815	13	1.9	13	100	0	50	36	16	16	32	1.90
1077772--1077842	32	2.2	32	97	0	133	33	12	18	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077886--1077913	13	2.2	13	100	0	56	28	14	17	39	1.89
1082188--1082226	20	1.9	20	89	5	60	79	12	2	5	1.00
1082197--1082309	14	8.4	13	75	15	97	81	16	0	0	0.79
1082197--1082306	30	3.8	28	76	21	95	80	17	0	0	0.81
1082197--1082309	29	3.7	29	78	19	113	81	16	0	0	0.79
1082201--1082309	46	2.3	48	83	12	145	80	17	0	0	0.81
1083649--1083714	28	2.4	28	85	10	91	28	28	16	25	1.97
1083884--1084174	32	9.0	32	79	9	315	30	30	17	21	1.96
1083884--1084136	129	2.0	129	90	1	400	30	30	16	21	1.96
1083884--1084174	129	2.2	128	86	3	388	30	30	17	21	1.96
1083884--1084171	97	3.0	96	81	8	325	30	30	17	22	1.96
1084188--1084417	52	4.9	43	71	17	172	25	26	17	30	1.97
1084188--1084417	95	2.4	95	85	0	307	25	26	17	30	1.97
1084319--1084724	52	7.9	50	73	7	264	24	25	16	33	1.95
1084373--1084720	104	3.4	104	79	5	345	24	25	16	33	1.96
1085482--1085536	20	2.8	20	85	0	83	27	20	7	45	1.77
1089211--1089433	69	3.2	69	90	0	356	38	7	21	32	1.81
1089384--1089853	97	4.8	97	82	4	536	34	11	23	30	1.91
1091309--1091334	13	2.0	13	100	0	52	38	15	15	30	1.88
1093551--1093595	21	2.1	21	84	8	56	53	4	20	22	1.63
1095398--1095428	15	2.1	15	93	0	53	48	16	22	12	1.80
1097439--1097516	20	3.7	20	74	15	75	26	15	15	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099960--1100033	20	3.7	20	78	3	94	35	12	20	32	1.89
1099978--1100053	21	3.7	21	80	3	100	40	10	18	30	1.84
1099960--1100053	41	2.3	41	98	0	179	38	11	19	30	1.87
1100092--1100117	13	2.0	13	100	0	52	38	15	15	30	1.88
1100960--1101010	24	2.1	25	85	10	70	1	17	17	62	1.42
1102284--1102372	36	2.6	33	81	11	101	29	12	24	33	1.92
1103686--1103711	12	2.2	12	100	0	52	30	0	7	61	1.24
1105423--1105812	76	5.1	77	75	10	291	25	18	12	43	1.85
1105672--1105888	75	2.9	76	84	4	260	26	17	9	45	1.80
1106351--1106587	67	3.5	67	82	2	278	19	21	13	44	1.85
1107456--1107508	27	2.0	27	96	0	97	28	15	35	20	1.93
1110009--1110059	20	2.5	20	87	3	66	31	17	11	39	1.86
1110758--1110875	31	3.8	31	76	4	112	16	24	28	29	1.97
1111059--1111206	42	3.5	41	76	6	145	44	12	21	21	1.84
1120075--1120128	20	2.6	21	82	5	65	31	16	11	40	1.84
1120634--1120974	87	3.9	87	90	0	502	27	23	19	29	1.98
1121018--1121125	51	2.1	51	86	3	146	25	23	20	31	1.98
1121157--1121216	31	1.9	31	93	0	102	10	23	36	30	1.87
1121197--1121240	23	1.9	23	95	0	79	13	18	38	29	1.89
1121787--1121811	13	1.9	13	100	0	50	36	16	16	32	1.90
1121800--1121849	19	2.6	19	96	0	91	32	12	18	38	1.87
1126431--1126489	24	2.5	24	78	13	68	1	10	11	76	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131376--1131447	20	3.5	21	86	7	78	33	16	12	37	1.86
1131393--1131447	20	2.7	20	94	2	92	32	18	10	38	1.85
1138426--1138452	13	2.1	13	100	0	54	29	14	14	40	1.86
1144694--1144720	13	2.1	13	100	0	54	29	14	14	40	1.86
1146193--1146256	33	1.9	33	87	0	92	32	28	12	26	1.93
1147229--1147285	19	2.9	19	84	2	69	33	14	15	36	1.88
1150792--1150825	3	11.3	3	93	0	59	29	32	0	38	1.58
1153017--1153134	20	5.8	20	77	13	125	31	17	11	39	1.85
1156391--1156454	34	1.9	34	90	3	103	39	17	17	26	1.91
1157006--1157156	45	3.3	45	73	12	130	25	19	12	43	1.86
1157577--1157628	20	2.5	21	84	3	70	40	11	13	34	1.81
1160249--1160528	154	1.8	155	85	2	393	40	21	16	22	1.91
1160628--1160804	88	2.0	88	94	0	309	41	10	16	32	1.82
1160862--1160892	9	3.3	9	91	8	53	29	0	0	70	0.87
1160861--1160892	10	3.3	10	91	8	57	28	0	0	71	0.86
1160736--1161022	153	1.9	152	87	3	425	44	9	10	35	1.71
1162416--1162561	20	6.8	20	67	16	85	28	15	14	41	1.86
1162405--1162540	71	1.9	71	95	0	245	27	15	14	41	1.86
1164050--1164280	55	4.2	55	81	8	229	29	10	21	38	1.87
1164050--1164281	110	2.1	110	81	5	265	28	10	21	38	1.87
1164896--1165088	79	2.4	79	89	0	287	30	12	16	40	1.86
1166469--1166542	20	3.7	19	87	7	103	28	16	13	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178023--1180155	121	17.7	121	80	4	1980	24	23	11	39	1.88
1178372--1178547	30	5.8	30	71	12	101	23	25	11	39	1.89
1178392--1178829	30	14.5	30	66	8	136	23	25	11	39	1.88
1182842--1183223	79	4.8	78	83	6	439	28	24	11	36	1.90
1182852--1183222	158	2.3	158	86	4	514	28	24	11	35	1.90
1183169--1183366	49	3.9	50	82	3	218	28	25	10	35	1.88
1184389--1184619	60	3.9	60	81	5	229	25	22	11	41	1.87
1184454--1184532	30	2.6	30	79	0	95	30	25	6	37	1.81
1184910--1185005	36	2.9	31	80	14	97	31	25	11	32	1.91
1185568--1185592	13	1.9	13	100	0	50	36	16	16	32	1.90

Tables:   1   2   3   4   5   6   7   8