genome.fa.s2.2.7.7.80.10.50.1000.6.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   

This is table  6  of  38  ( 4457 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)
897305--897718	85	4.8	84	79	7	431	29	29	16	23	1.96
898647--898697	20	2.5	20	87	0	66	31	11	17	39	1.86
898718--898792	20	3.8	20	98	0	141	30	13	10	45	1.77
898636--898768	71	1.9	71	91	0	221	27	13	13	45	1.81
898647--898842	91	2.2	91	87	1	277	30	15	12	42	1.83
906646--906671	13	2.0	13	100	0	52	30	15	15	38	1.88
906626--906690	33	2.0	33	87	6	96	27	13	16	41	1.87
909207--909243	13	2.8	13	95	0	65	37	16	16	29	1.90
913156--913200	22	2.1	21	84	8	56	24	15	4	55	1.59
915421--915446	13	2.0	13	100	0	52	30	15	15	38	1.88
915401--915465	33	2.0	33	84	6	87	29	12	16	41	1.85
916891--916944	22	2.3	24	75	9	58	31	18	7	42	1.78
923520--923726	91	2.3	91	91	0	342	42	12	15	30	1.83
923550--923715	20	7.8	20	71	14	107	41	12	13	32	1.82
924520--924672	28	5.5	28	86	6	220	22	16	30	30	1.96
924488--924678	84	2.2	86	86	5	253	23	16	30	29	1.96
925873--925926	16	3.4	17	72	12	60	5	0	11	83	0.80
925873--925925	21	2.6	19	80	16	61	5	0	11	83	0.81
930243--930267	13	1.9	13	100	0	50	36	16	16	32	1.90
930223--930289	33	2.0	33	88	0	98	32	11	14	40	1.83
930330--930355	13	2.0	13	100	0	52	30	15	15	38	1.88
930363--930479	52	2.2	52	93	0	198	35	17	16	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
943189--943309	52	2.3	52	97	0	224	28	18	18	34	1.94
943189--943329	52	2.7	51	90	4	212	30	17	18	33	1.94
943318--943342	13	1.9	13	100	0	50	36	16	16	32	1.90
943166--943508	181	1.9	179	98	1	668	32	16	17	32	1.93
943370--943560	52	3.7	51	90	5	271	30	18	18	31	1.95
943549--943607	13	4.9	13	71	26	58	33	18	13	33	1.90
943529--943628	33	3.0	32	81	8	110	33	18	15	34	1.91
943616--943736	52	2.3	52	97	0	224	34	18	18	28	1.94
951850--951886	11	3.3	11	92	7	65	91	8	0	0	0.41
951850--951886	12	3.2	12	96	3	67	91	8	0	0	0.41
951839--951886	16	3.0	16	87	6	62	89	8	2	0	0.56
951839--951886	1	48.0	1	78	0	51	89	8	2	0	0.56
951841--951886	23	1.9	23	91	8	74	89	8	2	0	0.57
952862--952978	32	3.7	33	79	7	109	22	32	16	29	1.95
952889--953759	71	12.5	69	83	9	942	20	34	12	33	1.90
952950--953794	282	3.0	284	88	6	1208	20	34	12	32	1.90
952887--953772	387	2.3	386	92	3	1525	20	34	12	32	1.90
952953--953772	105	7.8	102	80	12	644	20	35	12	32	1.89
953761--953826	33	2.0	34	96	3	125	27	37	18	16	1.92
953826--954393	49	11.7	49	84	6	728	24	25	17	31	1.97
953826--954562	98	7.3	101	87	7	904	24	25	17	33	1.96
954171--954349	43	4.0	44	83	9	236	25	25	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954123--954393	92	2.9	92	95	1	470	25	24	18	31	1.97
954307--954689	55	6.7	55	73	14	280	24	23	14	37	1.93
954307--954700	170	2.3	171	95	2	700	24	24	14	36	1.93
955489--955555	33	2.0	33	88	0	98	34	11	13	40	1.81
955509--955533	13	1.9	13	100	0	50	36	16	16	32	1.90
955598--955622	13	1.9	13	100	0	50	32	16	16	36	1.90
955631--955751	52	2.3	52	97	0	224	34	18	18	28	1.94
964709--964834	20	5.8	20	68	18	72	40	14	13	31	1.84
964659--964842	71	2.6	72	91	1	309	39	13	16	30	1.87
968568--969681	84	13.1	84	75	7	757	13	27	19	39	1.89
968568--969681	126	8.7	126	80	5	1015	13	27	19	39	1.89
968568--969156	42	14.0	42	82	2	637	12	28	18	40	1.88
969186--969681	42	11.8	42	82	2	523	13	28	19	38	1.89
969072--969255	99	1.9	100	94	1	325	14	27	21	37	1.91
970192--970244	10	5.8	9	78	10	54	73	0	3	22	0.99
970289--970355	31	2.2	30	83	2	89	40	16	23	19	1.91
970897--970987	31	2.9	31	88	0	128	19	40	17	21	1.91
970984--971037	26	2.2	24	80	12	56	37	33	22	7	1.82
973532--973599	33	2.1	33	97	0	127	51	2	13	32	1.56
976700--976759	14	4.4	14	79	12	63	33	0	1	65	1.03
976874--976919	7	6.4	7	80	14	58	86	2	10	0	0.64
976874--976919	22	2.1	21	92	4	74	86	2	10	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977074--977208	72	1.9	72	84	6	184	42	31	15	10	1.80
977294--977367	38	2.1	37	82	10	91	44	28	17	9	1.80
984168--984206	20	2.0	20	84	0	51	58	7	2	30	1.39
987418--987548	52	2.5	52	92	0	208	30	15	19	35	1.92
987418--987568	52	2.9	51	87	3	196	31	15	19	33	1.93
987557--987615	13	4.9	13	73	26	67	35	13	16	33	1.88
987557--987636	34	2.4	34	100	0	160	35	12	17	35	1.88
987656--987722	33	2.0	33	88	0	98	40	14	11	32	1.83
987678--987702	13	1.9	13	100	0	50	32	16	16	36	1.90
988655--988935	43	6.1	43	79	12	310	29	18	26	25	1.98
988615--988930	49	6.7	49	83	8	397	30	18	25	25	1.98
988935--989041	33	3.3	33	89	1	162	18	19	34	27	1.95
989027--989286	27	8.0	33	78	10	197	33	13	33	19	1.91
989157--989286	36	3.7	36	91	4	205	33	12	33	20	1.90
989261--989361	50	2.0	51	84	1	132	23	17	31	26	1.97
989340--989577	31	7.7	31	75	6	178	28	16	28	26	1.97
989311--989578	62	4.4	60	77	10	233	28	16	28	26	1.97
989311--989516	93	2.3	90	89	6	317	28	16	28	25	1.97
992051--992170	20	5.6	20	70	19	71	28	15	14	41	1.86
995906--995971	13	5.0	13	75	23	66	31	16	16	34	1.92
995907--995988	40	2.0	42	90	4	132	34	15	15	34	1.90
1001423--1001875	79	5.7	79	83	0	514	29	24	12	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007244--1007496	121	2.1	121	97	0	479	37	17	23	21	1.94
1013592--1013679	17	5.2	17	89	10	144	82	17	0	0	0.66
1013592--1013679	34	2.6	34	100	0	176	82	17	0	0	0.66
1014554--1014614	30	2.0	30	96	0	113	32	21	9	36	1.86
1014647--1015149	59	8.4	60	88	2	667	26	28	19	25	1.98
1015208--1015338	35	3.6	35	74	14	113	20	27	15	36	1.93
1015167--1015338	75	2.3	75	83	5	213	20	27	13	37	1.91
1017406--1017470	29	2.2	29	86	0	85	24	41	20	13	1.88
1023389--1023465	21	3.7	21	89	3	111	33	12	18	35	1.89
1023501--1023568	19	3.9	19	78	21	85	35	11	14	38	1.83
1023522--1023546	13	1.9	13	100	0	50	36	16	16	32	1.90
1023503--1023565	32	2.0	32	96	0	117	34	12	15	36	1.86
1023644--1023719	27	2.8	28	85	2	100	25	34	19	21	1.96
1023702--1024187	52	9.3	51	72	11	268	29	24	12	33	1.92
1023906--1023980	27	2.7	28	85	2	89	26	34	17	21	1.95
1023611--1024276	262	2.5	262	89	3	996	29	26	12	32	1.92
1024170--1024248	28	2.8	28	86	0	95	22	34	18	24	1.97
1029862--1029887	13	2.0	13	100	0	52	30	15	15	38	1.88
1029947--1030019	20	3.6	20	81	3	101	31	17	13	36	1.89
1029926--1030002	21	3.7	21	77	6	86	28	16	11	42	1.84
1029926--1030019	41	2.3	41	94	3	163	29	18	12	39	1.88
1032457--1032495	13	3.0	13	96	0	69	35	15	17	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034569--1034598	15	2.0	15	93	0	51	13	23	13	50	1.77
1038659--1038684	13	2.0	13	100	0	52	30	15	15	38	1.88
1038744--1038816	20	3.6	20	81	3	101	31	17	13	36	1.89
1038723--1038799	21	3.7	21	77	6	86	28	16	11	42	1.84
1038723--1038816	41	2.3	41	94	3	163	29	18	12	39	1.88
1040152--1042049	949	2.0	949	99	0	3724	32	17	26	23	1.96
1048861--1048899	13	3.1	12	82	10	51	87	10	2	0	0.65
1048861--1048898	16	2.5	15	91	4	58	89	7	2	0	0.57
1049835--1049948	31	3.7	31	95	0	210	28	31	17	22	1.97
1049835--1049979	62	2.3	62	88	4	186	26	31	16	25	1.97

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38