genome.fa.s42.2.7.7.80.10.50.1000.8.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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

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   

This is table  8  of  24  ( 2843 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)
1089211--1089264	17	3.2	17	94	0	99	48	11	1	38	1.50
1089790--1090254	155	3.0	151	81	4	491	40	18	16	24	1.91
1090410--1090733	168	1.9	165	81	7	379	39	9	12	38	1.76
1090945--1091288	168	2.1	167	83	3	424	39	17	10	32	1.84
1092107--1092463	167	2.1	166	81	2	412	49	8	9	32	1.66
1096351--1096667	129	2.4	130	78	3	343	33	12	25	28	1.93
1096481--1096627	79	1.9	79	88	0	222	31	14	27	27	1.95
1096563--1096662	51	2.0	51	89	0	155	34	10	24	32	1.88
1099259--1099289	13	2.4	13	94	0	53	38	12	16	32	1.86
1099240--1099309	33	2.1	33	94	0	122	40	11	18	30	1.86
1099353--1099409	20	2.8	20	89	0	87	43	15	15	24	1.86
1100139--1100274	45	3.1	45	75	16	140	39	11	29	19	1.86
1100052--1100300	87	3.1	78	78	14	222	38	12	26	22	1.90
1100119--1100300	87	2.2	83	83	12	225	36	14	26	23	1.93
1100284--1101603	55	22.2	60	83	7	1309	27	19	27	26	1.99
1107779--1108076	79	3.8	77	77	12	304	32	14	25	27	1.95
1108010--1108127	51	2.3	51	88	4	175	31	11	26	30	1.92
1108110--1108374	108	2.5	108	91	0	413	33	16	24	25	1.96
1108220--1108289	28	2.5	28	78	0	77	30	18	27	24	1.98
1108254--1108426	80	2.2	78	80	4	193	32	15	26	26	1.96
1116040--1116065	13	2.0	13	100	0	52	38	15	15	30	1.88
1122243--1122281	13	3.0	13	96	0	69	30	17	15	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122721--1122775	20	2.8	20	97	0	101	16	43	30	9	1.79
1124860--1124885	13	2.0	13	100	0	52	38	15	15	30	1.88
1124842--1124905	32	2.0	33	90	3	103	39	18	14	28	1.90
1136592--1136641	19	2.6	19	96	0	91	32	12	18	38	1.87
1142037--1142076	20	2.0	20	100	0	80	5	20	15	60	1.53
1143885--1143920	13	2.8	13	91	4	56	38	19	11	30	1.86
1144034--1144076	20	2.0	22	91	8	72	16	13	23	46	1.83
1145920--1146149	33	7.2	32	80	8	229	22	30	13	33	1.93
1145920--1146149	96	2.4	94	81	9	254	22	30	13	33	1.93
1145920--1146149	63	3.6	63	84	1	280	22	30	13	33	1.93
1146207--1146476	102	2.6	102	81	6	314	22	27	10	38	1.87
1146213--1146555	34	10.3	34	71	13	178	22	27	11	39	1.88
1146457--1146516	27	2.2	27	90	0	93	20	31	13	35	1.91
1146185--1146489	68	4.5	68	76	15	231	22	28	10	38	1.87
1146352--1147396	32	32.9	33	73	11	417	21	27	11	39	1.88
1146356--1146694	126	2.7	125	82	4	387	23	30	10	35	1.88
1146742--1146793	27	1.9	27	92	0	86	25	28	13	32	1.93
1146740--1146799	27	2.2	27	81	0	84	21	25	11	41	1.87
1146553--1147231	157	4.3	156	80	6	578	20	26	11	40	1.87
1146676--1147349	125	5.4	124	76	8	532	20	26	11	41	1.87
1146248--1147409	33	36.3	32	72	13	583	20	27	11	40	1.87
1147411--1147524	31	3.6	31	76	4	111	32	26	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147419--1147925	64	8.1	65	72	14	325	31	29	17	21	1.96
1147436--1147948	33	16.4	32	76	9	436	30	30	17	21	1.96
1147557--1147602	22	2.1	22	92	4	76	36	43	4	15	1.66
1147462--1147698	118	2.0	116	90	3	368	30	32	16	20	1.94
1148073--1148457	61	6.8	60	71	15	185	25	26	12	35	1.92
1148106--1148308	52	3.9	52	77	3	176	25	24	14	35	1.93
1148108--1148303	104	1.9	104	84	4	261	26	23	13	36	1.92
1153666--1153790	52	2.4	52	93	0	205	27	18	19	35	1.95
1153666--1153810	52	2.8	52	84	4	177	28	17	20	33	1.95
1153799--1153823	13	1.9	13	100	0	50	36	16	16	32	1.90
1157351--1157629	51	5.4	51	73	14	239	31	14	26	26	1.95
1157454--1157527	27	2.7	27	82	4	76	27	20	29	22	1.98
1157327--1157658	157	2.1	159	89	2	508	31	14	26	27	1.95
1157562--1157792	80	2.9	80	80	5	297	32	13	25	28	1.94
1157774--1157980	51	4.2	50	75	12	162	34	12	26	27	1.92
1157755--1157930	97	1.8	94	81	6	219	33	13	27	26	1.93
1160158--1160231	20	3.7	19	87	7	103	41	13	16	28	1.86
1160270--1160319	13	4.0	13	79	10	59	36	14	16	34	1.88
1161095--1161372	61	4.7	61	84	8	333	29	19	26	24	1.98
1161115--1161363	61	4.2	60	86	8	334	26	20	26	25	1.99
1161115--1162018	115	7.6	118	70	15	406	26	19	26	26	1.99
1161373--1161521	61	2.6	60	76	10	150	27	18	27	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161232--1161677	154	2.9	154	86	3	590	26	18	28	26	1.98
1161540--1162020	55	8.4	56	79	11	351	25	20	25	27	1.99
1161547--1162023	114	4.2	111	82	6	467	26	19	25	27	1.99
1162995--1163071	1	77.0	1	72	0	55	3	2	7	85	0.80
1163002--1163068	6	11.5	6	81	9	68	4	1	8	85	0.80
1162995--1163071	29	2.7	28	81	15	86	3	2	7	85	0.80
1162995--1163069	12	5.8	12	80	9	69	4	2	8	85	0.81
1175542--1175820	51	5.4	51	72	12	253	31	14	27	26	1.95
1175643--1175719	28	2.8	28	89	0	118	24	20	32	22	1.98
1175518--1175884	158	2.3	155	93	4	612	31	14	27	26	1.95
1175791--1175874	25	3.1	26	82	16	107	29	17	30	21	1.96
1175791--1175875	29	3.0	29	86	11	115	29	17	30	22	1.97
1175752--1175947	105	1.8	106	83	5	261	30	13	28	27	1.94
1175826--1176157	79	4.2	79	77	10	243	31	12	26	29	1.93
1175891--1176103	76	2.7	77	80	7	236	33	11	24	30	1.90
1176093--1176261	51	3.3	51	85	4	182	31	12	27	28	1.93
1178489--1178562	20	3.7	19	87	7	103	41	13	16	28	1.86
1180472--1180543	16	4.5	16	85	0	90	56	23	11	8	1.61
1180488--1180675	94	2.0	94	85	4	254	51	28	11	9	1.69
1181692--1181768	24	3.3	24	80	8	97	41	5	6	46	1.52
1181795--1181832	20	1.9	19	89	5	58	52	0	2	44	1.14
1182026--1182066	16	2.6	16	88	0	64	39	29	19	12	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182026--1182113	32	2.8	32	75	6	81	43	28	17	11	1.83
1183685--1183710	13	2.0	13	100	0	52	38	15	15	30	1.88
1183667--1183730	32	2.0	33	90	3	103	42	15	14	28	1.86
1187056--1187087	15	2.1	15	94	0	55	46	15	21	15	1.83
1189102--1189179	20	3.7	20	73	18	68	28	12	15	43	1.83
1189168--1189205	13	2.9	13	96	0	67	34	18	15	31	1.92
1191764--1191822	13	4.0	13	73	26	55	42	15	13	28	1.85
1191778--1191842	20	3.6	20	73	26	81	44	15	12	27	1.82
1191746--1191842	33	3.0	33	93	1	160	44	14	13	27	1.83
1193537--1193590	26	2.0	27	92	3	92	35	7	18	38	1.79
1194621--1194827	106	2.0	102	86	5	290	46	13	11	29	1.77
1195316--1195461	13	11.6	13	64	17	58	48	2	2	45	1.31
1195735--1195786	26	2.0	26	84	0	68	42	0	5	51	1.25
1195903--1195941	17	2.4	17	86	4	53	43	0	5	51	1.24
1196369--1196475	21	5.0	21	65	20	60	44	2	2	49	1.31
1201539--1201663	52	2.4	52	95	0	223	28	17	18	36	1.94
1201539--1201683	52	2.8	51	89	4	211	29	17	18	34	1.94
1201672--1201696	13	1.9	13	100	0	50	36	16	16	32	1.90
1201737--1201806	33	2.1	33	89	0	104	40	14	11	34	1.82
1201762--1201786	13	1.9	13	100	0	50	32	16	16	36	1.90
1203418--1203442	13	1.9	13	100	0	50	16	8	52	24	1.70
1207940--1208010	27	2.6	27	84	6	81	46	21	7	25	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209161--1209273	8	14.4	8	66	25	55	40	0	1	56	1.16
1209157--1209262	46	2.3	45	73	15	101	42	0	1	54	1.17
1209223--1209265	22	2.0	22	95	0	77	41	0	2	55	1.12
1209778--1209868	26	3.7	26	72	20	86	58	4	0	37	1.18
1209794--1209877	22	3.6	23	76	10	71	57	4	0	38	1.20
1210093--1210119	2	13.5	2	100	0	54	51	0	0	48	1.00
1210281--1210348	17	4.0	17	73	11	50	45	0	1	52	1.09
1211813--1211874	8	7.9	8	74	15	58	29	0	0	70	0.87
1211820--1211874	15	3.6	16	85	9	78	30	0	0	69	0.89
1213181--1213233	21	2.6	19	78	21	54	77	1	18	1	0.96

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