genome.fa.s158.2.7.7.80.10.50.1000.3.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: scaffold149
Parameters: 2 7 7 80 10 50 1000
Length:  2538714

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 918 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)
829214--829313	19	5.1	19	75	20	107	57	12	1	30	1.42
829214--829314	21	5.1	20	78	14	104	57	11	0	29	1.41
831311--831414	49	2.1	49	90	0	163	32	6	11	49	1.65
832013--832115	51	2.0	51	98	0	197	29	13	25	32	1.94
832122--832158	4	9.5	4	94	5	67	51	0	0	48	1.00
834727--834781	20	2.8	20	85	0	74	43	3	12	40	1.60
835119--835176	19	3.0	20	76	5	73	41	6	15	36	1.74
836056--836098	20	2.1	21	86	4	61	32	23	9	34	1.87
836620--836658	13	3.2	12	86	13	53	33	0	7	58	1.26
841352--841459	40	2.7	41	77	11	116	37	12	16	33	1.87
842918--842957	20	2.0	21	85	14	57	27	0	37	35	1.57
846103--846151	25	2.0	25	83	0	62	38	0	16	44	1.48
846547--846632	43	2.0	43	84	4	111	52	4	23	19	1.65
846619--846664	20	2.4	19	88	3	65	47	0	26	26	1.52
847895--847988	49	1.9	49	84	0	125	42	7	22	27	1.80
851562--851607	20	2.3	20	100	0	92	30	8	8	52	1.62
852840--852881	20	2.1	20	86	8	59	54	16	21	7	1.65
857495--857590	37	2.6	37	89	0	147	35	21	13	29	1.92
861774--861810	18	2.1	18	100	0	74	54	21	5	18	1.64
869997--870052	25	2.3	24	93	6	103	60	0	3	35	1.14
870342--870371	14	2.2	14	94	5	53	30	0	0	70	0.88
871396--871473	30	2.6	29	79	4	84	48	2	3	44	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
872609--872637	7	4.3	7	95	4	51	89	0	10	0	0.48
877843--877880	2	19.0	2	100	0	76	50	0	0	50	1.00
883743--883771	8	3.6	8	100	0	58	75	0	0	24	0.80
888847--888883	16	2.2	17	90	4	58	51	5	8	35	1.55
893414--893473	25	2.3	26	88	2	95	31	23	10	35	1.88
900349--900394	24	1.9	24	86	0	65	45	17	26	10	1.81
908430--909068	44	14.7	44	73	13	344	28	21	23	26	1.99
908430--909063	216	2.9	217	88	3	881	28	21	23	26	1.99
915735--915789	22	2.5	21	78	18	58	63	7	9	20	1.47
927501--927542	20	2.0	21	86	4	59	33	2	19	45	1.63
932141--932430	50	5.7	50	86	2	355	23	30	18	27	1.97
932771--932829	30	2.0	30	83	6	75	28	22	6	42	1.79
939751--939777	13	2.1	13	100	0	54	51	0	0	48	1.00
940339--940366	14	2.0	14	100	0	56	42	14	14	28	1.84
954282--954356	36	2.1	36	97	0	141	28	25	22	24	2.00
956241--956302	29	2.1	29	93	0	106	19	30	32	17	1.95
957369--957411	21	2.1	19	87	12	59	27	2	0	69	1.00
957380--957420	14	3.0	14	79	17	50	29	2	0	68	1.03
957376--957418	19	2.1	21	83	8	54	30	2	0	67	1.03
960667--960800	53	2.6	49	75	11	124	35	11	26	26	1.90
963837--963965	60	2.2	60	87	2	179	38	23	13	24	1.90
963831--963964	30	4.5	30	76	3	126	39	23	13	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974608--974652	22	2.0	22	82	0	54	24	20	24	31	1.98
974957--975004	19	2.4	20	83	16	64	43	6	10	39	1.64
977483--977538	28	2.0	28	100	0	112	32	7	21	39	1.80
979129--979185	29	1.9	30	89	3	89	31	1	12	54	1.48
980002--980060	27	2.2	27	85	8	77	27	1	18	52	1.55
980353--980419	32	2.1	33	83	8	84	28	11	16	43	1.83
980678--980706	14	2.1	14	100	0	58	44	20	20	13	1.85
982973--983007	14	2.5	14	100	0	70	60	0	5	34	1.21
983003--983031	3	9.7	3	100	0	58	68	0	0	31	0.89
987828--987889	30	2.1	30	100	0	124	22	12	20	43	1.86
997925--997986	28	2.2	28	91	0	97	37	20	17	24	1.94
998184--998239	29	1.9	29	96	0	103	39	10	7	42	1.67
1014906--1015147	25	9.7	24	73	8	207	21	12	25	40	1.89
1014911--1015147	50	4.7	50	95	1	406	21	13	24	40	1.89
1017629--1017701	37	2.0	37	97	0	137	56	2	16	24	1.54
1018007--1018043	14	2.5	15	91	4	58	51	18	0	29	1.47
1018210--1018313	47	2.2	48	87	1	147	36	18	17	27	1.93
1020275--1020322	22	2.2	22	84	0	60	39	22	12	25	1.89
1025168--1025535	184	2.0	183	88	5	546	29	19	14	35	1.92
1027268--1027521	141	1.8	141	79	3	296	51	12	14	21	1.75
1030752--1030827	35	2.2	34	83	2	89	28	15	27	27	1.96
1030783--1030867	34	2.5	34	81	9	84	28	15	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032237--1032381	43	3.4	43	78	0	155	24	20	23	32	1.98
1033099--1033194	41	2.3	41	96	0	174	27	12	13	46	1.79
1040076--1040110	15	2.4	14	90	4	52	17	2	5	74	1.14
1040656--1040706	26	1.9	27	88	4	77	35	0	1	62	1.06
1042806--1042842	17	2.2	17	90	0	56	48	21	0	29	1.50
1050249--1050304	27	2.1	26	83	9	69	16	19	1	62	1.41
1055671--1055711	21	2.0	21	95	0	73	29	29	17	24	1.97
1058233--1058283	23	2.2	24	92	3	86	19	15	7	56	1.63
1059464--1059515	18	2.9	18	86	11	79	63	1	3	30	1.23
1065896--1065947	7	7.4	7	79	16	63	44	0	13	42	1.44
1066197--1066263	5	13.4	5	70	0	53	38	5	17	37	1.75
1066173--1066261	10	8.9	10	73	0	52	34	8	17	38	1.82
1066178--1066251	20	3.7	20	90	0	103	33	9	17	39	1.82
1075574--1075677	52	2.0	52	98	0	199	40	29	17	12	1.86
1076752--1076830	41	1.9	41	87	5	115	56	12	5	25	1.56
1078657--1078710	28	1.9	28	88	0	81	29	20	20	29	1.98
1079662--1079829	40	4.2	40	79	6	178	32	20	20	26	1.98
1079887--1079980	40	2.4	39	81	10	102	29	18	20	31	1.96
1079989--1080071	7	11.9	7	73	10	53	20	0	36	43	1.52
1080136--1080182	25	1.9	24	82	4	58	42	2	0	55	1.12
1083729--1084050	23	14.1	23	79	8	313	32	4	23	39	1.75
1083733--1084045	68	4.6	68	80	11	327	33	4	23	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083729--1084048	91	3.5	90	80	9	351	32	4	23	39	1.75
1083733--1084052	137	2.3	136	88	4	448	33	4	23	39	1.75
1084911--1085132	43	5.2	43	83	4	288	24	17	28	29	1.97
1084911--1085132	84	2.6	86	86	1	322	24	17	28	29	1.97
1085731--1086014	138	2.1	138	97	0	541	39	8	7	45	1.61
1085773--1085985	67	3.1	67	62	24	163	38	7	7	45	1.63
1105330--1105599	132	2.0	132	94	1	479	37	9	7	45	1.64
1111763--1111896	40	3.5	40	72	22	135	36	2	0	60	1.12
1111796--1111854	30	1.9	30	93	6	100	33	1	0	64	1.04
1111836--1111896	31	2.0	31	90	6	97	37	1	0	60	1.07
1118105--1118174	6	11.8	6	86	3	70	71	11	5	11	1.30
1118092--1118155	29	2.1	29	88	8	92	75	10	6	7	1.20
1118089--1118155	35	1.9	34	90	3	107	74	11	5	7	1.20
1118165--1118209	22	2.1	22	83	4	56	75	0	20	4	0.97
1119053--1119102	7	7.0	7	86	9	66	70	0	16	14	1.18
1119053--1119091	20	1.9	21	94	5	71	71	0	15	12	1.14
1119048--1119102	13	4.0	14	83	9	60	72	0	14	12	1.12
1120382--1120764	128	3.0	128	91	1	599	34	20	19	25	1.96
1120757--1121161	218	1.9	218	90	2	652	27	19	24	28	1.99
1120843--1121161	44	7.3	45	71	10	142	26	20	25	27	1.99
1121149--1121403	99	2.6	100	79	5	275	30	20	22	26	1.98
1121437--1121733	129	2.3	127	90	1	450	33	24	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121704--1121806	44	2.3	44	81	6	120	31	22	24	22	1.99
1122326--1122355	13	2.3	13	94	0	51	66	23	10	0	1.21
1122495--1122544	23	2.2	23	82	3	57	12	4	2	82	0.90
1122504--1122544	14	2.9	14	85	14	57	14	2	0	82	0.76
1123280--1123323	21	2.2	21	88	11	67	43	18	0	38	1.50
1124678--1124720	18	2.3	19	88	4	61	53	0	23	23	1.46
1124678--1124724	19	2.6	18	89	3	67	55	0	21	23	1.44
1131415--1131454	16	2.6	16	85	14	57	40	0	2	57	1.12
1132307--1132331	3	8.3	3	100	0	50	68	0	0	32	0.90
1144488--1144549	19	3.3	19	66	20	58	29	6	20	43	1.77

Tables:   1   2   3   4   5   6   7   8