genome.fa.s273.2.7.7.80.10.50.1000.7.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: Scaffold273
Parameters: 2 7 7 80 10 50 1000
Length:  1282806

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 977 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)
931257--931317	29	2.0	31	84	6	81	60	9	0	29	1.29
931700--931739	2	20.0	2	100	0	80	50	0	0	50	1.00
934499--934545	16	2.9	16	90	3	67	12	14	27	44	1.82
934620--934650	15	2.1	15	100	0	62	22	6	25	45	1.76
935717--935759	18	2.4	18	80	3	52	30	0	2	67	1.03
935781--935821	21	2.0	21	90	9	66	41	0	0	58	0.98
935818--935858	20	2.1	19	86	4	55	48	0	0	51	1.00
935977--936006	3	10.0	3	100	0	60	33	0	0	66	0.92
938214--938239	13	2.0	13	100	0	52	76	0	23	0	0.78
938216--938250	11	3.3	11	84	8	54	80	0	20	0	0.72
939202--939226	5	5.0	5	100	0	50	80	0	0	20	0.72
939101--939460	149	2.5	144	82	7	422	36	11	12	38	1.80
940942--940976	15	2.3	15	90	0	52	40	2	2	54	1.30
941792--941959	20	7.8	20	69	13	120	30	17	11	40	1.85
941792--941956	40	3.8	40	75	16	159	30	17	12	39	1.86
941785--942008	91	2.5	91	88	0	331	29	17	12	41	1.85
948212--948261	26	2.0	25	88	4	73	26	10	14	50	1.73
951119--951425	164	1.9	163	81	8	374	49	9	10	30	1.69
952552--952594	21	2.0	22	86	4	61	55	0	0	44	0.99
952551--952596	14	3.4	14	85	14	69	58	0	0	41	0.98
955990--956025	18	2.0	18	89	10	56	36	0	0	63	0.94
955999--956041	22	2.0	23	86	9	63	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
956101--956135	2	18.0	2	94	5	63	51	0	0	48	1.00
956159--956273	13	9.4	13	65	21	52	54	0	0	44	1.06
956288--956352	19	3.1	20	76	13	60	60	1	0	38	1.07
957232--957289	28	2.1	28	84	9	75	53	5	1	39	1.33
958480--959512	517	2.0	517	94	0	1796	30	18	20	30	1.97
965273--965297	12	2.1	12	100	0	50	24	32	0	44	1.54
970988--971224	51	4.9	50	80	13	280	42	11	16	29	1.84
971036--971112	20	3.9	19	83	8	100	41	14	12	31	1.83
970988--971163	91	1.9	91	90	4	284	42	13	15	29	1.84
971036--971163	20	5.9	20	71	23	91	42	14	14	29	1.84
972120--972149	13	2.3	13	94	0	51	43	16	3	36	1.65
978292--978316	13	1.9	13	100	0	50	32	8	16	44	1.76
980172--980211	21	1.9	21	94	0	71	42	0	30	27	1.56
980193--980246	28	2.0	27	82	10	65	44	3	27	24	1.70
980954--981108	61	2.5	62	85	4	224	38	14	15	30	1.88
983397--983446	20	2.5	20	83	0	64	44	10	14	32	1.78
985601--985998	198	2.0	198	100	0	796	36	19	18	25	1.94
989296--989353	13	4.0	13	76	23	62	34	15	15	34	1.89
989309--989372	19	3.7	19	76	23	86	31	15	15	37	1.89
989274--989373	32	3.1	32	95	4	175	32	16	16	36	1.90
989454--989478	13	1.9	13	100	0	50	44	16	8	32	1.76
990014--990081	24	3.0	22	83	10	93	33	27	1	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990009--990084	21	3.3	23	82	14	102	30	27	1	40	1.64
998152--998177	13	2.0	13	100	0	52	38	15	15	30	1.88
998131--998197	33	2.1	32	88	8	100	31	14	17	35	1.91
998211--998243	11	3.0	11	95	0	57	30	36	15	18	1.91
998289--998313	13	1.9	13	100	0	50	36	8	16	40	1.77
999162--999216	20	2.8	20	88	0	83	40	14	12	32	1.84
1005138--1005206	32	2.1	33	83	2	86	40	7	7	44	1.60
1005943--1005989	23	2.0	23	87	0	67	17	12	10	59	1.60
1009116--1009201	34	2.5	35	81	12	97	38	5	0	55	1.24
1010680--1010705	13	2.0	13	100	0	52	30	15	15	38	1.88
1010660--1010723	32	2.0	33	90	3	103	28	14	18	39	1.90
1010660--1010730	19	4.0	18	72	25	62	26	12	21	39	1.89
1013254--1013292	13	3.0	13	96	0	69	35	15	15	33	1.89
1017200--1017248	21	2.3	23	82	13	68	22	20	4	53	1.63
1019457--1019482	13	2.0	13	100	0	52	30	15	15	38	1.88
1019437--1019500	32	2.0	33	90	3	103	28	14	18	39	1.90
1019437--1019507	19	4.0	18	72	25	62	26	12	21	39	1.89
1024175--1024299	52	2.4	52	95	0	223	28	17	18	36	1.94
1024175--1024319	52	2.8	51	89	4	211	29	17	18	34	1.94
1024308--1024332	13	1.9	13	100	0	50	36	16	16	32	1.90
1024372--1024441	33	2.1	33	89	0	104	40	14	11	34	1.82
1024397--1024421	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028388--1028417	15	2.0	15	93	0	51	36	20	0	43	1.52
1033639--1033668	15	2.0	15	100	0	60	40	20	20	20	1.92
1035292--1035573	61	4.8	62	71	13	200	35	13	26	24	1.92
1035410--1035672	52	4.9	52	76	9	231	37	16	24	21	1.93
1035393--1035605	113	1.9	113	87	1	311	38	15	24	21	1.91
1035393--1035630	113	2.1	112	83	3	302	40	13	24	21	1.89
1035746--1036171	32	12.9	32	74	10	270	22	16	30	30	1.96
1035773--1036156	100	3.8	100	81	5	400	23	17	29	30	1.97
1035773--1036126	101	3.5	99	82	4	383	23	17	29	29	1.97
1037795--1037853	28	2.1	28	81	6	66	8	8	10	72	1.27
1051840--1051895	20	2.8	20	78	13	69	46	8	14	30	1.75
1051839--1051893	21	2.7	19	83	10	65	47	7	14	30	1.71
1057488--1057525	2	19.0	2	100	0	76	50	0	0	50	1.00
1058285--1058513	77	3.0	77	84	5	302	40	6	2	50	1.43
1060226--1060275	20	2.7	20	78	9	52	40	0	8	52	1.31
1060440--1060468	10	3.0	10	95	5	51	17	0	0	82	0.66
1060442--1060478	18	2.1	18	89	0	56	13	0	5	81	0.86
1060978--1061019	22	1.9	22	85	9	59	40	2	4	52	1.35
1061664--1061707	23	2.0	23	86	8	65	70	0	0	29	0.88
1062159--1062213	26	2.1	27	89	3	85	61	0	0	38	0.96
1064503--1064533	15	2.1	15	100	0	62	32	16	19	32	1.94
1065477--1065519	21	2.0	22	82	13	54	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1066904--1066943	2	20.0	2	89	0	62	50	5	0	45	1.23
1067599--1067648	3	16.7	3	82	0	64	42	0	26	32	1.56
1067599--1067651	15	3.5	15	94	0	97	43	0	24	32	1.55
1071102--1071146	6	7.5	6	89	0	54	48	11	0	40	1.39
1071102--1071146	12	3.8	12	87	0	63	48	11	0	40	1.39
1077717--1077752	16	2.2	16	90	9	56	27	0	0	72	0.85
1078005--1078045	2	20.5	2	89	0	64	51	2	0	46	1.14
1078546--1078584	11	3.6	11	82	6	53	35	0	0	64	0.94
1078716--1078745	15	1.9	16	93	6	53	33	0	3	63	1.11
1078807--1078856	23	2.2	23	85	7	66	22	8	8	62	1.49
1079652--1079704	26	2.0	26	85	7	72	49	3	0	47	1.19
1080098--1080143	22	2.0	23	83	4	58	60	0	4	34	1.16
1080381--1080446	16	3.8	18	72	21	52	37	0	0	62	0.96
1080393--1080449	21	2.6	23	78	13	66	36	0	0	63	0.95
1082275--1082350	34	2.2	34	90	0	116	43	30	6	19	1.76
1087703--1087750	20	2.4	20	89	10	80	50	0	0	50	1.00
1090009--1090055	21	2.3	19	85	14	58	38	0	2	59	1.09
1090060--1090099	21	1.9	21	85	10	55	67	0	0	32	0.91
1090125--1090208	21	3.7	22	72	16	64	63	1	0	35	1.03
1090191--1090264	31	2.4	32	82	13	84	55	1	0	43	1.08
1093578--1093646	37	1.9	35	83	13	88	44	0	2	52	1.16
1095761--1095813	2	26.5	2	96	0	97	52	0	47	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1096343--1096384	2	21.0	2	100	0	84	50	0	50	0	1.00
1101153--1101185	12	2.7	13	90	9	52	42	0	0	57	0.98
1109451--1109506	20	2.8	20	100	0	112	35	14	10	39	1.81
1109493--1109520	13	2.2	13	100	0	56	28	14	17	39	1.89
1113878--1113934	19	2.9	20	92	5	98	33	15	14	36	1.88
1113901--1113965	32	2.0	32	84	3	85	43	15	12	29	1.83
1119031--1119276	122	2.0	122	96	0	456	37	15	18	28	1.92
1119283--1119337	20	2.8	20	88	5	76	40	12	14	32	1.84
1120128--1120153	13	2.0	13	100	0	52	38	15	15	30	1.88
1120549--1120584	18	2.0	18	94	0	63	33	5	25	36	1.79

Tables:   1   2   3   4   5   6   7   8   9