genome.fa.s350.2.7.7.80.10.50.1000.7.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: Scaffold350
Parameters: 2 7 7 80 10 50 1000
Length:  1036165

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 841 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)
895917--897814	49	39.0	49	79	8	1816	31	17	26	24	1.97
895917--897814	101	19.5	101	87	4	2260	31	17	26	24	1.97
896730--897817	43	23.1	43	73	15	709	32	18	25	24	1.97
897841--897927	27	3.2	27	88	1	120	31	13	35	19	1.91
898000--898178	31	5.9	30	81	11	177	27	16	31	24	1.96
898005--898178	61	2.8	62	83	10	182	27	17	31	24	1.97
899389--899437	12	4.2	12	80	12	57	2	0	14	83	0.73
899403--899438	6	6.0	6	90	0	54	0	0	16	83	0.65
906366--906393	13	2.2	13	100	0	56	39	17	14	28	1.89
906445--906527	19	4.7	19	72	17	88	36	20	9	33	1.85
906466--906526	32	1.9	32	96	0	113	36	22	8	32	1.84
908796--908870	28	2.7	28	81	6	80	26	18	30	24	1.98
908856--908970	50	2.3	51	86	8	164	35	12	22	29	1.91
908887--909311	130	3.3	128	85	3	530	34	12	24	28	1.92
909116--909229	51	2.2	51	92	0	183	33	10	26	29	1.90
909164--909331	79	2.1	79	87	4	241	30	13	28	27	1.94
919754--919818	1	65.0	1	78	0	58	87	10	1	0	0.61
919754--919818	19	3.4	19	83	10	78	87	10	1	0	0.61
919754--919804	10	5.2	10	90	4	86	90	9	0	0	0.46
919754--919817	11	5.6	11	84	15	78	87	10	1	0	0.61
919754--919818	29	2.2	29	89	5	71	87	10	1	0	0.61
923305--923453	52	2.9	52	89	2	219	31	17	16	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
923439--923466	13	2.2	13	100	0	56	39	17	14	28	1.89
923507--923573	33	2.0	33	88	0	98	40	14	11	32	1.83
923529--923553	13	1.9	13	100	0	50	32	16	16	36	1.90
924385--925207	61	13.4	61	86	1	993	25	25	19	28	1.99
924388--925207	245	3.3	244	86	2	1083	25	25	19	28	1.99
927402--927513	51	2.2	50	88	4	163	33	25	8	32	1.87
933211--933254	23	1.9	24	86	9	65	36	25	9	29	1.86
940416--940512	43	2.3	43	98	0	185	31	14	16	37	1.89
941754--941881	30	4.2	30	77	6	105	24	30	13	32	1.93
941768--941915	61	2.5	59	79	8	142	26	31	14	28	1.95
941768--941896	30	4.3	30	78	2	125	27	31	13	27	1.94
941883--942149	30	8.8	29	68	13	101	23	28	13	34	1.93
941919--942460	63	8.8	60	72	11	323	22	27	12	36	1.91
942158--942267	56	1.9	56	83	7	141	22	27	13	36	1.92
942236--942385	32	4.8	32	80	8	132	25	28	9	37	1.87
942211--942448	92	2.5	91	78	7	237	24	28	10	36	1.88
942001--942455	29	14.9	29	74	9	277	23	27	12	36	1.91
942397--942477	33	2.5	33	85	0	108	24	30	9	34	1.88
942461--942636	32	5.5	32	82	6	198	28	32	15	23	1.95
942461--942636	65	2.8	63	82	7	205	28	32	15	23	1.95
942639--942831	52	3.7	53	82	8	211	23	24	15	36	1.93
942839--942956	59	2.0	59	98	0	227	38	18	7	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942960--943084	52	2.5	50	83	7	155	23	26	15	35	1.94
943150--943398	53	4.7	52	75	8	198	25	23	14	36	1.93
953671--953710	21	2.0	20	90	9	64	30	10	15	45	1.78
955614--955672	28	2.1	27	82	14	68	79	1	10	8	1.00
955926--955956	16	1.9	16	93	0	53	74	0	22	3	0.96
956235--956473	112	2.1	114	83	3	304	37	13	11	37	1.81
956204--956533	114	2.9	111	77	6	313	35	13	13	38	1.83
957321--958003	92	7.7	92	82	7	789	29	27	14	28	1.95
957409--957923	83	5.9	84	81	7	498	30	27	13	28	1.94
957321--958003	264	2.6	265	92	1	1111	29	27	14	28	1.95
957321--957923	174	3.4	176	84	6	683	30	27	13	28	1.95
957760--958003	91	2.7	92	88	1	339	29	27	13	30	1.94
958510--960290	46	38.8	45	69	13	540	20	20	13	45	1.84
958510--958847	186	1.8	184	81	5	421	19	20	15	44	1.87
958510--958916	186	2.2	184	78	6	419	20	21	14	44	1.86
959530--959786	136	1.9	137	82	4	331	21	22	12	44	1.85
959223--959995	228	3.4	227	80	5	707	20	19	13	46	1.83
960445--960586	42	3.3	43	67	17	98	21	20	11	46	1.82
960455--960629	85	2.0	86	83	5	221	20	21	13	45	1.85
963960--964257	150	2.0	150	84	4	388	24	20	19	34	1.96
969594--969619	13	2.0	13	100	0	52	38	15	15	30	1.88
969575--969639	33	2.0	33	84	6	87	43	16	12	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971578--971631	21	2.6	21	100	0	108	40	7	18	33	1.78
975817--975855	13	3.0	13	96	0	69	30	17	15	35	1.91
978425--978450	13	2.0	13	100	0	52	38	15	15	30	1.88
978406--978470	33	2.0	33	87	6	96	41	16	13	27	1.87
982589--982647	20	2.8	20	79	5	64	37	11	13	37	1.82
985248--985291	21	2.1	21	100	0	88	18	13	15	52	1.75
990109--990172	20	3.1	21	74	14	55	70	3	12	14	1.29
991751--991783	17	1.9	17	93	0	57	81	6	0	12	0.85
992537--992569	17	1.9	17	88	11	50	75	0	24	0	0.80
996528--997023	28	17.9	28	80	4	418	25	28	14	32	1.95
996585--998204	28	57.2	28	81	9	837	29	28	16	25	1.97
997018--998208	84	13.9	84	84	3	1355	30	28	17	23	1.97
996585--998203	56	28.6	56	82	5	1361	29	28	16	25	1.97
998284--998397	49	2.4	47	77	8	108	22	28	16	32	1.96
999964--1000200	101	2.4	101	81	2	264	32	18	23	24	1.97
1000167--1000413	39	5.9	39	73	15	188	26	19	25	27	1.99
1000206--1001077	48	18.9	47	76	12	668	30	17	24	26	1.97
1000121--1000742	87	6.9	88	85	5	721	29	19	25	25	1.98
1000206--1001080	142	6.3	134	77	13	649	30	17	24	26	1.97
1000431--1001077	233	2.8	233	92	0	1051	31	17	24	26	1.97
1001099--1001631	33	16.6	33	78	9	523	36	13	31	18	1.90
1001126--1001631	127	4.0	127	85	4	682	36	13	31	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1001485--1001537	27	2.0	27	88	0	79	30	13	33	22	1.92
1001426--1001604	94	1.9	93	87	1	259	35	11	32	20	1.89
1001127--1001631	254	2.0	252	88	1	751	36	13	31	19	1.90
1005495--1005608	19	6.6	19	77	22	144	35	19	12	33	1.89
1005514--1005608	32	3.0	32	100	0	190	34	18	12	33	1.89
1005533--1005589	13	3.9	13	76	24	60	33	17	14	35	1.90
1005482--1005589	51	2.2	48	88	9	159	34	18	13	33	1.90
1006295--1006888	49	12.0	49	80	9	432	32	17	26	24	1.97
1006367--1006940	98	5.9	96	82	6	576	31	17	26	24	1.97
1006367--1006935	147	3.9	148	78	7	546	31	17	26	24	1.97
1006959--1007144	29	6.4	29	79	7	175	22	16	28	32	1.95
1006991--1007146	57	2.7	57	86	7	208	23	15	28	32	1.95
1007011--1007146	29	4.7	29	83	6	186	24	15	28	31	1.95
1008573--1008624	7	7.9	7	79	12	65	0	0	13	86	0.57
1008582--1008621	12	3.2	12	89	3	62	0	0	10	90	0.47
1008573--1008622	25	1.9	27	92	8	86	0	0	12	88	0.53
1008573--1008624	20	2.7	20	90	3	79	0	0	13	86	0.57
1022541--1022619	33	2.4	33	93	0	131	41	15	13	29	1.85
1022562--1022619	13	4.9	13	72	23	65	39	13	15	31	1.86
1022643--1022713	32	2.2	32	89	0	115	38	19	9	32	1.85
1022670--1022694	13	1.9	13	100	0	50	32	16	16	36	1.90
1022650--1022735	19	4.7	19	68	19	58	34	17	11	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1022772--1022810	21	1.9	20	89	5	60	35	15	15	33	1.89
1023567--1023616	18	2.8	18	80	14	68	2	0	14	84	0.72
1023567--1023616	12	4.1	12	82	12	57	2	0	14	84	0.72
1028388--1028461	27	2.7	27	91	0	121	20	18	37	22	1.94
1030707--1030766	19	3.1	19	75	13	59	30	13	13	43	1.82
1031966--1032739	32	24.1	32	81	7	732	30	33	16	19	1.94
1032796--1033478	104	6.6	103	74	8	446	26	23	13	36	1.92
1032803--1033358	52	10.7	51	73	7	273	26	23	14	36	1.92
1033188--1033463	52	5.5	51	76	10	181	27	24	14	33	1.94
1033362--1033502	52	2.7	52	85	4	187	27	23	14	34	1.94

Tables:   1   2   3   4   5   6   7   8