genome.fa.s19.2.7.7.80.10.50.1000.7.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: Scaffold19
Parameters: 2 7 7 80 10 50 1000
Length:  2266706

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

This is table  7  of  15  ( 1733 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)
928077--928110	15	2.3	15	94	0	59	11	2	26	58	1.47
928537--928576	19	2.0	20	85	4	55	25	2	2	70	1.13
928571--928626	15	4.0	15	67	23	50	69	0	0	30	0.89
928574--928634	27	2.2	28	80	16	74	65	1	0	32	1.02
928689--928731	21	2.0	22	86	4	61	37	0	4	58	1.19
929603--929663	22	2.8	22	76	14	63	31	1	1	65	1.12
932093--932120	2	14.0	2	100	0	56	50	0	0	50	1.00
932606--932676	22	3.4	19	71	21	61	53	0	0	46	1.00
932869--932893	3	8.3	3	100	0	50	68	0	0	32	0.90
937120--937149	15	2.0	15	93	0	51	26	10	0	63	1.26
938832--938869	16	2.4	16	90	0	58	52	13	5	28	1.61
942618--942673	15	3.9	15	86	11	66	46	0	1	51	1.11
942630--942735	15	7.3	15	72	18	66	44	2	2	50	1.31
943637--943669	16	2.0	17	88	5	50	42	0	3	54	1.15
943807--943858	2	26.0	2	100	0	104	50	0	0	50	1.00
946076--946110	18	1.9	18	88	0	52	40	11	11	37	1.77
947479--947505	4	6.8	4	100	0	54	25	0	22	51	1.48
947834--947863	2	15.0	2	92	0	51	46	3	0	50	1.18
947933--947979	18	2.8	17	80	6	51	6	17	0	76	0.98
950655--950783	57	2.2	58	79	9	147	58	13	17	10	1.63
950943--950990	18	2.5	20	76	10	55	8	20	29	41	1.81
951148--951176	12	2.4	12	100	0	58	6	6	0	86	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
951876--951928	13	4.0	13	75	20	56	41	15	22	20	1.89
951959--952008	17	2.8	17	85	11	57	44	12	22	22	1.85
952158--952210	17	2.9	18	73	15	56	24	1	0	73	0.93
952160--952210	27	2.0	25	88	7	75	23	1	0	74	0.92
952604--952637	3	11.3	3	100	0	68	32	0	0	67	0.91
955045--955085	16	2.6	16	80	0	55	31	4	0	63	1.15
955663--955777	61	1.9	61	94	0	203	26	26	11	35	1.90
958449--958475	8	3.4	8	100	0	54	70	0	0	29	0.88
958916--958960	22	2.1	22	88	8	67	28	2	4	64	1.25
959152--959185	18	1.9	18	88	5	52	47	0	0	52	1.00
959718--959854	35	3.9	35	72	14	120	61	0	0	38	0.96
959741--959835	24	4.1	22	73	21	86	58	0	0	41	0.98
959715--959847	71	1.9	73	85	4	191	60	0	0	39	0.97
959740--959871	24	5.6	23	70	12	72	62	0	0	37	1.01
959730--959894	28	6.0	27	65	22	67	61	1	0	37	1.04
962225--962455	117	2.0	117	93	1	401	27	12	22	37	1.90
963653--963710	19	2.9	21	65	19	52	58	0	0	41	0.98
966068--966145	40	2.0	40	89	0	120	26	8	1	62	1.32
966560--966594	2	17.5	2	100	0	70	48	0	0	51	1.00
967239--967283	23	2.0	23	90	0	72	28	2	0	68	1.01
967324--967382	23	2.5	22	78	10	64	25	0	5	69	1.09
968259--968310	19	2.8	19	82	8	54	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
968304--968363	26	2.3	27	80	11	72	46	1	3	48	1.28
968513--968566	6	8.5	6	78	10	54	31	0	1	66	1.02
968495--968558	26	2.4	27	75	14	71	29	0	1	68	0.99
968890--968937	17	2.9	17	81	3	53	25	0	4	70	1.04
969453--969526	38	1.9	39	81	8	89	45	2	12	39	1.56
970771--970864	29	3.1	29	75	10	91	48	0	0	51	1.00
971795--971838	14	2.9	15	78	21	56	63	0	0	36	0.95
971777--971838	31	2.0	30	84	9	81	59	0	0	40	0.97
972304--972408	54	1.9	54	83	11	135	42	4	1	50	1.34
973044--973082	9	4.4	9	83	6	53	28	0	0	71	0.86
973048--973082	17	2.1	17	88	0	52	28	0	0	71	0.86
973042--973088	15	3.2	15	78	3	51	31	0	0	68	0.90
973072--973131	21	2.8	21	77	20	61	48	0	0	51	1.00
973054--973132	41	2.0	39	82	5	95	44	0	0	55	0.99
973069--973133	24	2.8	24	80	15	73	49	0	0	50	1.00
974409--974469	32	1.9	32	83	12	81	40	1	4	52	1.33
975745--975842	21	4.8	21	69	9	69	39	0	1	59	1.04
975793--975850	18	3.4	18	73	26	63	43	0	0	56	0.99
976278--976324	22	2.2	21	81	11	51	63	0	25	10	1.26
977734--977774	2	20.5	2	100	0	82	48	0	0	51	1.00
977879--977924	6	7.7	6	85	7	58	67	2	4	26	1.21
982633--982679	21	2.3	21	92	3	78	42	4	0	53	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982648--982680	11	3.1	11	82	8	50	39	9	0	51	1.34
985614--985659	22	2.0	23	84	12	60	41	8	4	45	1.55
986764--986794	2	15.5	2	100	0	62	51	0	0	48	1.00
987220--987263	3	14.7	3	100	0	88	68	0	0	31	0.90
987407--987431	3	8.3	3	100	0	50	32	0	0	68	0.90
988215--988254	1	40.0	1	100	0	80	0	100	0	0	0.00
996755--996801	21	2.2	21	85	14	62	38	0	2	59	1.09
996905--996953	13	3.6	13	80	5	53	48	2	2	46	1.25
997135--997239	25	4.2	25	66	21	67	50	1	0	46	1.18
997124--997179	18	3.0	19	71	12	53	58	0	0	41	0.98
997124--997204	36	2.2	36	84	6	101	55	1	0	43	1.07
997585--997647	19	3.3	19	76	14	76	36	0	0	63	0.95
998326--998382	21	2.7	21	97	0	105	38	10	15	35	1.82
998440--998496	13	3.9	13	76	24	60	35	14	17	33	1.90
998420--998522	32	3.2	32	94	4	172	34	12	17	34	1.88
998418--998515	19	5.8	18	70	28	81	34	12	17	35	1.87
998560--998708	52	2.9	51	86	4	208	35	18	16	29	1.93
1005909--1005942	10	3.3	10	91	4	50	82	17	0	0	0.67
1006967--1007055	27	3.1	28	82	4	99	23	32	13	30	1.93
1007097--1007433	30	10.7	30	77	12	243	23	29	15	32	1.95
1006899--1007433	63	8.5	61	73	14	320	22	30	14	32	1.94
1007097--1007433	93	3.6	93	86	4	408	23	29	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006899--1007926	33	32.1	31	73	15	457	21	32	14	32	1.93
1006905--1007955	168	6.5	159	72	16	443	21	32	14	32	1.93
1007409--1007454	23	2.0	23	86	0	65	30	30	19	19	1.97
1007344--1007519	88	2.0	88	92	0	289	22	32	16	28	1.95
1007434--1007973	101	5.4	100	90	4	831	20	33	13	32	1.91
1008002--1008283	32	8.8	32	88	1	379	28	34	18	18	1.95
1008343--1009583	43	27.1	43	78	14	1118	25	25	18	31	1.98
1008290--1009583	92	14.0	92	88	5	1893	25	24	18	31	1.97
1008590--1008657	21	3.2	21	63	19	50	26	27	16	29	1.97
1008290--1009577	372	3.5	370	91	4	1966	25	24	18	31	1.97
1009291--1009358	21	3.2	20	66	25	50	26	27	16	29	1.97
1009364--1009429	34	1.9	34	87	0	96	28	21	19	30	1.98
1009398--1009675	49	5.8	49	78	9	266	25	23	17	33	1.96
1009404--1009724	49	6.5	49	75	10	226	24	24	16	33	1.96
1009496--1009731	102	2.3	101	83	4	287	23	24	17	34	1.96
1010396--1010420	13	1.9	13	100	0	50	36	16	16	32	1.90
1010379--1010447	32	2.1	33	92	7	115	34	14	17	33	1.90
1010492--1010516	13	1.9	13	100	0	50	32	16	16	36	1.90
1010525--1010653	52	2.5	52	91	2	215	37	18	16	27	1.92
1014641--1014785	71	2.0	71	86	5	204	29	15	21	33	1.95
1014776--1014822	17	2.7	17	78	15	51	51	4	4	40	1.41
1014786--1014821	18	1.9	19	88	5	56	52	2	2	41	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015191--1015220	13	2.4	13	94	5	53	30	26	0	43	1.55
1015756--1015789	18	1.9	17	88	5	50	26	8	2	61	1.40
1015856--1015893	19	2.1	19	90	5	60	47	2	0	50	1.15
1015892--1015933	13	3.2	13	87	9	59	66	0	0	33	0.92
1015927--1015968	21	2.0	21	81	9	50	54	2	2	40	1.26
1016174--1016258	33	2.6	33	81	7	95	57	0	1	41	1.06
1016174--1016265	10	8.8	10	72	17	62	56	0	1	42	1.06
1016213--1016292	31	2.8	28	81	9	72	51	0	1	47	1.08
1017336--1017385	16	3.2	16	75	13	50	64	0	0	36	0.94
1017337--1017438	32	3.2	33	77	9	104	58	0	1	39	1.09

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