genome.fa.s339.2.7.7.80.10.50.1000.7.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: Scaffold339
Parameters: 2 7 7 80 10 50 1000
Length:  1314099

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1034 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)
902890--902942	19	2.7	20	91	2	81	35	18	15	30	1.92
907328--907604	88	3.1	89	85	5	332	34	11	22	31	1.90
911876--911900	13	1.9	13	100	0	50	36	16	16	32	1.90
911853--911920	33	2.1	33	91	2	111	32	13	17	36	1.89
911952--912004	21	2.6	21	82	8	65	28	15	15	41	1.87
911992--912020	13	2.2	13	100	0	58	37	13	17	31	1.89
912006--912056	20	2.5	20	87	0	66	33	15	15	35	1.90
912572--912615	21	2.0	21	86	4	61	31	29	2	36	1.70
914272--914312	22	2.0	20	86	13	57	43	4	19	31	1.72
920754--920804	20	2.5	20	87	0	66	33	15	15	35	1.90
921134--921216	27	3.1	27	94	0	148	46	4	20	27	1.70
922480--922505	13	2.0	13	100	0	52	30	15	15	38	1.88
925041--925079	13	3.0	13	96	0	69	35	15	17	30	1.91
925065--925143	20	3.7	20	78	15	77	44	15	15	25	1.85
927158--927188	15	2.1	15	93	0	53	12	22	16	48	1.80
928992--929036	21	2.1	21	84	8	56	22	20	4	53	1.63
931253--931278	13	2.0	13	100	0	52	30	15	15	38	1.88
933046--933098	22	2.3	23	83	6	63	1	18	11	67	1.30
933408--933483	38	2.0	37	82	2	89	18	19	10	51	1.75
933360--933525	84	2.0	84	82	7	203	18	20	12	49	1.79
934108--934147	12	3.2	12	82	3	53	42	10	22	25	1.84
939693--940413	73	9.9	73	79	2	610	31	27	13	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
939693--940412	218	3.3	215	80	5	709	31	27	13	27	1.94
939805--940340	145	3.7	145	82	3	585	31	28	13	27	1.93
939692--940413	147	5.0	146	78	3	663	31	27	13	27	1.94
941870--941909	21	1.9	21	89	0	62	35	32	2	30	1.71
943776--943840	33	2.0	33	90	6	105	35	15	12	36	1.85
943868--943924	19	2.9	20	86	5	80	36	15	12	35	1.85
943910--943936	13	2.1	13	100	0	54	40	14	14	29	1.86
943939--944097	71	2.2	71	96	0	291	28	16	20	34	1.94
943939--944115	71	2.5	71	91	0	282	29	16	19	34	1.94
946542--946629	19	4.9	19	78	21	93	32	12	17	37	1.87
946574--946607	13	2.4	14	85	14	52	32	14	14	38	1.87
946581--946607	13	2.1	13	100	0	54	29	14	14	40	1.86
946561--946625	32	2.0	33	88	8	98	32	13	15	38	1.87
946563--946633	32	2.2	33	85	7	92	33	14	16	35	1.89
946701--946812	52	2.2	52	96	0	206	37	18	18	25	1.94
950703--951050	51	6.8	51	79	5	299	27	18	19	34	1.95
950705--951005	153	2.0	153	82	2	372	26	18	19	34	1.95
950923--951101	51	3.5	50	78	6	173	27	21	17	33	1.96
950814--951103	153	1.9	153	79	4	325	27	20	17	33	1.95
950725--951102	102	3.7	101	79	7	350	27	19	18	34	1.95
951850--951875	13	2.0	13	100	0	52	30	15	15	38	1.88
951935--952007	20	3.6	20	81	3	101	31	17	13	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
951914--951990	21	3.7	21	77	6	86	28	16	11	42	1.84
951914--952007	41	2.3	41	94	3	163	29	18	12	39	1.88
952558--952653	48	2.0	48	100	0	192	25	29	8	37	1.85
954494--954532	13	3.0	13	96	0	69	35	15	17	30	1.91
956611--956641	15	2.1	15	93	0	53	12	22	16	48	1.80
960704--960729	13	2.0	13	100	0	52	30	15	15	38	1.88
960789--960861	20	3.6	20	77	3	92	31	16	13	38	1.88
960768--960840	21	3.5	21	75	7	78	28	16	12	42	1.84
960768--960861	41	2.3	41	92	3	154	29	17	12	40	1.86
961152--961374	51	4.4	51	82	2	225	29	22	14	33	1.94
962538--962589	24	2.1	25	85	3	70	11	7	34	46	1.69
968919--968945	13	2.1	13	100	0	54	40	14	14	29	1.86
971704--972233	79	6.7	78	76	5	444	27	24	12	34	1.92
971722--972189	157	3.0	158	84	3	554	27	25	13	33	1.93
971704--972189	236	2.1	236	81	3	559	27	24	13	34	1.93
971723--972233	158	3.2	156	80	5	530	27	25	13	34	1.93
984494--984692	108	1.8	108	86	2	292	35	28	13	23	1.92
985565--986057	61	8.0	62	83	3	539	26	26	17	29	1.97
986040--986222	41	4.4	41	83	3	215	23	26	15	34	1.94
986944--987053	50	2.2	51	86	1	150	23	19	15	41	1.89
986954--987079	51	2.5	50	80	3	128	24	19	14	41	1.89
989417--989939	79	6.6	79	79	6	429	27	26	12	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
989436--989939	238	2.1	238	79	5	547	27	26	12	32	1.93
991660--991705	23	2.0	23	100	0	92	30	17	21	30	1.96
993823--993894	21	3.5	21	84	7	76	40	13	16	29	1.87
993840--993894	20	2.7	20	88	2	74	38	12	18	30	1.88
993917--993995	40	2.0	40	84	2	104	36	11	12	39	1.79
1001456--1001838	140	2.7	139	81	4	441	44	11	11	32	1.76
1013612--1013657	19	2.6	19	83	10	53	67	2	0	30	1.03
1013771--1013838	17	4.1	17	74	14	54	52	1	1	44	1.19
1013798--1013845	17	2.8	16	81	9	51	52	2	4	41	1.32
1021130--1021154	11	2.3	11	100	0	50	16	0	12	72	1.13
1027568--1027617	24	2.1	24	96	0	91	36	6	34	24	1.80
1029529--1029553	13	1.9	13	100	0	50	48	0	36	16	1.46
1034154--1034204	26	2.0	26	88	0	75	29	15	9	45	1.79
1038276--1038308	2	16.5	2	93	0	57	48	0	51	0	1.00
1042382--1042897	156	3.3	154	75	8	359	38	19	17	24	1.93
1045270--1045322	19	2.7	20	85	2	72	37	18	13	30	1.89
1045311--1045335	13	1.9	13	100	0	50	32	16	16	36	1.90
1045294--1045356	33	1.9	32	87	9	92	39	15	14	30	1.87
1047878--1047915	20	1.9	19	89	5	58	34	18	10	36	1.85
1051659--1051691	3	11.0	3	93	0	57	30	33	0	36	1.58
1053282--1053313	13	2.5	13	89	0	55	37	15	12	34	1.85
1053360--1053417	19	3.0	20	85	7	84	34	17	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056723--1056851	52	2.5	52	98	0	249	27	17	17	36	1.93
1056860--1056884	13	1.9	13	100	0	50	36	16	16	32	1.90
1056945--1056971	13	2.1	13	100	0	54	40	14	14	29	1.86
1056927--1056991	33	2.0	33	93	3	114	38	16	12	32	1.86
1059165--1059318	77	2.0	77	91	1	247	20	27	7	44	1.79
1069347--1069418	20	3.6	20	82	0	90	41	6	13	37	1.72
1069895--1069947	19	2.7	20	79	2	63	33	16	16	32	1.92
1069976--1070028	20	2.7	20	85	5	72	33	11	20	33	1.88
1070583--1070633	21	2.4	22	83	9	61	37	5	11	45	1.65
1070602--1070645	22	2.0	22	81	0	52	40	6	9	43	1.63
1070743--1070815	20	3.7	19	75	12	76	28	15	16	39	1.89
1073999--1074453	167	2.7	163	83	8	553	50	7	8	32	1.61
1075849--1075888	21	2.0	20	90	5	62	82	0	17	0	0.67
1075941--1076026	43	2.0	43	93	0	145	16	19	13	50	1.79
1076637--1076759	51	2.4	52	86	1	167	27	13	13	45	1.81
1077161--1077242	20	3.3	23	69	29	62	29	20	8	41	1.82
1077225--1077293	20	3.5	20	69	0	66	30	13	15	40	1.86
1077174--1077343	91	1.9	90	92	1	286	27	18	13	40	1.88
1082666--1082691	13	2.0	13	100	0	52	38	15	15	30	1.88
1088229--1088253	12	2.1	12	100	0	50	92	8	0	0	0.40
1089453--1089489	14	2.6	14	95	0	65	37	8	24	29	1.84
1089469--1089534	26	2.6	25	72	11	62	33	12	16	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089547--1090211	28	23.6	28	82	6	537	27	30	18	23	1.98
1089549--1090179	84	7.5	84	81	4	625	28	29	18	23	1.98
1089549--1090179	56	11.2	56	81	6	620	28	29	18	23	1.98
1090988--1091065	20	3.9	20	82	0	111	32	15	12	39	1.85
1095387--1095440	21	2.7	20	77	8	65	37	12	14	35	1.85
1095491--1095516	13	2.0	13	100	0	52	30	15	15	38	1.88
1100172--1100197	13	2.0	13	100	0	52	30	15	15	38	1.88
1100236--1100311	21	3.7	21	80	3	100	28	17	11	42	1.84
1100257--1100329	20	3.6	20	81	3	101	31	19	13	35	1.91
1100236--1100329	41	2.3	41	98	0	179	29	18	12	39	1.88

Tables:   1   2   3   4   5   6   7   8   9