genome.fa.s133.2.7.7.80.10.50.1000.9.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: Scaffold133
Parameters: 2 7 7 80 10 50 1000
Length:  2564099

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  9  of  17  ( 1989 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)
1039318--1039492	62	2.9	61	78	10	180	26	27	18	27	1.98
1039533--1040297	61	12.6	61	82	4	825	24	25	18	30	1.98
1040931--1040985	20	2.8	20	91	0	83	29	14	10	45	1.79
1043278--1043500	79	2.8	78	87	5	304	30	26	13	30	1.93
1043454--1043551	51	1.9	51	89	4	153	34	24	7	33	1.83
1043535--1043609	28	2.7	28	79	2	89	25	30	17	26	1.97
1056480--1056537	20	2.8	21	76	23	61	55	1	22	20	1.53
1059795--1059859	33	2.0	32	85	8	87	35	15	13	35	1.87
1061460--1061494	18	1.9	18	88	0	52	37	25	2	34	1.71
1063159--1063358	102	2.0	102	93	0	346	32	12	17	39	1.86
1064282--1064332	27	1.9	27	88	4	77	31	21	27	19	1.97
1067381--1067528	74	2.0	74	93	2	253	46	13	6	33	1.69
1069786--1069857	34	2.1	34	85	10	94	68	0	0	31	0.90
1069779--1069848	9	8.2	9	83	15	71	65	0	1	32	1.01
1069832--1069876	21	2.0	23	83	8	58	66	0	2	31	1.04
1070624--1070659	18	2.0	18	89	10	56	72	0	0	27	0.85
1071015--1071059	6	7.3	6	80	5	54	75	2	0	22	0.91
1071001--1071044	18	2.3	18	88	7	61	70	0	0	29	0.88
1071001--1071059	13	4.6	13	75	16	52	71	1	0	27	0.96
1070991--1071059	19	3.6	19	76	9	61	69	1	0	28	0.97
1071153--1071189	2	18.5	2	100	0	74	48	0	0	51	1.00
1072318--1072365	13	4.1	12	80	20	57	72	2	0	25	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076111--1076235	58	2.2	58	89	1	198	13	25	16	44	1.84
1076723--1076762	14	2.9	14	88	0	62	45	7	25	22	1.78
1076656--1076862	99	2.1	99	84	5	267	44	11	23	20	1.84
1077011--1077066	23	2.4	23	82	14	62	35	3	0	60	1.14
1077634--1078171	42	12.7	42	73	9	328	35	18	28	17	1.94
1077632--1078171	255	2.1	255	86	1	742	35	18	28	17	1.94
1077632--1078171	85	6.4	85	84	0	661	35	18	28	17	1.94
1084035--1084061	13	2.1	13	100	0	54	29	14	14	40	1.86
1084016--1084080	32	2.0	33	87	3	96	27	15	15	41	1.87
1084042--1084183	20	7.0	19	71	15	106	31	16	17	34	1.92
1089800--1089825	13	2.0	13	100	0	52	30	15	15	38	1.88
1089864--1089939	21	3.7	21	80	3	100	28	17	11	42	1.84
1089885--1089957	20	3.6	20	81	3	101	31	19	13	35	1.91
1089864--1089957	41	2.3	41	98	0	179	29	18	12	39	1.88
1092400--1092438	13	3.0	13	96	0	69	35	15	17	30	1.91
1092424--1092502	20	3.7	20	75	18	70	45	15	13	25	1.83
1094517--1094547	15	2.1	15	93	0	53	12	22	16	48	1.80
1098611--1098636	13	2.0	13	100	0	52	30	15	15	38	1.88
1098675--1098750	21	3.7	21	80	3	100	28	17	11	42	1.84
1098696--1098768	20	3.6	20	81	3	101	31	19	13	35	1.91
1098675--1098768	41	2.3	41	98	0	179	29	18	12	39	1.88
1110613--1110642	12	2.5	12	94	0	51	3	10	20	66	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111271--1111338	33	2.1	33	86	5	93	25	22	2	50	1.63
1111554--1111674	29	4.3	29	70	17	101	42	11	23	22	1.86
1111554--1111711	84	1.9	83	92	1	262	43	11	23	21	1.85
1111554--1111713	42	3.9	42	70	12	125	44	11	23	21	1.84
1111687--1111742	17	3.4	17	87	7	71	46	8	25	19	1.79
1111695--1111755	17	3.6	17	86	0	77	45	9	24	19	1.80
1111862--1111893	10	3.2	10	90	0	55	34	28	18	18	1.95
1111924--1111977	22	2.4	21	85	14	65	35	3	0	61	1.14
1111944--1111989	22	2.0	22	83	4	56	41	2	0	56	1.11
1117944--1117995	17	3.1	17	77	5	52	3	26	0	69	1.06
1119174--1119485	29	10.6	32	74	13	115	25	16	28	29	1.97
1119174--1119349	29	5.9	31	75	10	120	23	17	29	30	1.97
1119167--1124172	58	86.6	57	75	6	3092	24	16	30	29	1.96
1119258--1124166	115	42.5	114	76	8	2711	24	16	30	29	1.96
1119229--1121631	29	83.7	28	75	7	1441	24	16	29	29	1.97
1121593--1121672	41	2.0	40	82	2	97	22	16	32	28	1.95
1121633--1124166	29	87.7	29	77	5	2233	23	15	30	29	1.96
1121506--1121755	127	2.0	127	84	6	328	22	15	33	28	1.95
1121748--1122029	156	1.8	155	82	6	363	24	15	30	28	1.96
1121719--1122057	185	1.8	185	83	6	447	24	16	31	28	1.96
1124138--1124271	27	4.9	27	82	4	146	29	14	29	26	1.95
1128412--1128969	281	2.0	276	87	2	812	26	19	23	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132363--1132399	9	4.2	9	93	6	67	10	0	0	89	0.49
1132363--1132399	17	2.2	17	100	0	74	10	0	0	89	0.49
1138265--1138388	52	2.4	51	94	1	212	28	17	18	35	1.94
1138265--1138408	52	2.8	51	88	5	202	29	17	18	34	1.94
1138397--1138421	13	1.9	13	100	0	50	36	16	16	32	1.90
1138485--1138509	13	1.9	13	100	0	50	32	16	16	36	1.90
1139528--1139638	52	2.2	51	85	4	163	31	17	26	25	1.97
1140037--1140483	30	15.4	29	73	11	204	29	29	17	23	1.97
1140039--1140203	84	2.0	84	82	2	206	27	30	19	21	1.98
1140245--1140501	58	4.4	57	80	8	261	32	28	18	19	1.96
1140245--1140501	88	3.0	87	86	5	342	32	28	18	19	1.96
1140503--1140811	46	6.6	47	80	12	284	26	25	17	30	1.97
1140497--1140813	87	3.4	88	83	11	334	26	25	17	30	1.97
1140511--1140759	133	1.9	133	88	5	385	26	24	18	30	1.98
1140637--1140811	47	3.6	50	82	8	218	25	25	18	30	1.98
1140778--1141061	122	2.3	121	80	9	335	25	25	14	35	1.94
1158125--1158210	27	2.9	31	81	13	92	31	33	17	17	1.93
1158131--1158219	30	3.0	30	75	19	96	30	34	16	17	1.93
1158212--1158410	47	4.4	48	78	15	233	25	25	17	31	1.97
1158307--1158385	41	1.9	42	92	2	133	29	25	20	25	1.99
1159437--1159557	1	121.0	1	72	0	80	3	3	8	85	0.82
1169253--1169279	10	2.7	10	100	0	54	77	22	0	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173408--1173531	52	2.4	51	94	1	212	28	17	18	35	1.94
1173408--1173551	52	2.8	51	88	5	202	29	17	18	34	1.94
1173540--1173564	13	1.9	13	100	0	50	36	16	16	32	1.90
1173628--1173652	13	1.9	13	100	0	50	32	16	16	36	1.90
1178755--1178812	21	2.8	21	94	0	107	41	17	13	27	1.87
1178822--1179056	112	2.1	112	91	0	389	33	23	12	30	1.91
1180657--1180720	31	2.1	31	100	0	128	37	15	15	31	1.89
1185609--1185994	154	2.5	152	82	4	477	36	18	19	25	1.94
1186146--1186530	153	2.5	153	85	3	481	38	18	18	23	1.93
1185600--1186676	536	2.0	537	90	2	1716	38	16	17	27	1.91
1186943--1187368	165	2.6	159	83	6	527	40	13	11	33	1.82
1188147--1188183	10	3.9	9	86	13	56	8	16	0	75	1.02
1188601--1188917	155	2.0	154	78	11	324	49	8	10	31	1.67
1188639--1188917	155	1.8	155	80	7	343	50	7	10	31	1.66
1191125--1191311	96	1.9	96	80	6	218	33	19	10	36	1.85
1193079--1193104	13	2.0	13	100	0	52	7	23	15	53	1.67
1196326--1196398	37	2.0	36	87	10	105	46	2	10	39	1.53
1199984--1200095	51	2.2	50	84	4	143	26	22	15	35	1.94
1200001--1200097	51	1.9	51	89	0	149	27	21	13	37	1.91
1200112--1200283	79	2.2	80	82	3	211	27	26	15	30	1.96
1205034--1205095	30	2.1	30	90	0	97	40	24	22	12	1.89
1206471--1206927	61	7.4	61	88	3	591	24	27	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206471--1206931	123	3.8	123	87	3	619	24	27	19	28	1.99
1206938--1207211	42	6.6	41	79	5	273	23	22	12	41	1.87
1206938--1207205	83	3.2	84	79	8	244	22	22	11	42	1.86
1206938--1207211	41	6.6	41	78	5	255	23	22	12	41	1.87
1207826--1207855	13	2.3	13	94	0	51	30	20	13	36	1.90
1210189--1210306	51	2.3	51	88	5	168	26	22	15	36	1.93
1210293--1210366	28	2.6	29	81	12	91	20	29	22	27	1.98
1210323--1210489	79	2.1	80	86	3	230	27	24	14	32	1.95
1210242--1210444	107	1.9	106	82	6	257	24	25	17	33	1.96
1212221--1212277	19	2.9	19	81	2	69	35	15	12	36	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17