genome.fa.s14.2.7.7.80.10.50.1000.4.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: scaffold_14 ID=scaffold_14-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  2042280

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 804 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)
884827--885074	125	2.0	124	80	7	279	30	19	21	28	1.98
904211--904265	18	3.0	18	89	2	74	43	3	9	43	1.53
905636--905712	13	5.9	13	80	6	84	29	9	23	37	1.86
905636--905712	26	3.0	26	79	7	93	29	9	23	37	1.86
907764--907931	72	2.3	72	85	4	223	54	13	5	26	1.61
909293--909345	15	3.6	15	80	14	74	39	0	9	50	1.35
909288--909362	29	2.5	30	91	6	116	41	0	10	48	1.38
909288--909346	15	4.2	13	76	18	55	40	0	10	49	1.37
912454--912571	19	6.2	19	69	10	71	47	24	27	0	1.58
912464--912566	31	4.1	25	70	26	92	46	27	25	0	1.59
912464--912529	31	2.1	31	97	0	123	46	31	21	0	1.51
913629--913662	17	1.9	17	88	5	50	64	0	29	5	1.17
913758--914007	102	2.5	101	82	12	332	26	1	13	58	1.45
913758--913987	109	2.1	105	88	8	331	25	1	13	59	1.43
917613--917778	48	3.5	47	79	13	171	34	10	10	43	1.75
918025--918105	38	2.1	38	86	0	108	20	11	48	19	1.79
920563--920614	8	6.1	8	76	8	50	76	5	0	17	0.97
920784--920823	17	2.4	17	91	0	62	0	40	0	60	0.97
923256--923330	19	4.0	19	79	6	73	38	1	2	57	1.21
923269--923333	19	3.4	19	78	2	76	36	1	1	60	1.16
933034--933167	66	2.0	66	100	0	268	20	5	13	59	1.55
936458--936513	28	2.0	29	82	10	71	48	0	1	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
936531--936566	19	1.9	18	88	5	54	41	2	0	55	1.14
936547--936612	19	3.3	20	77	16	66	46	1	1	50	1.20
937049--937098	19	2.7	17	80	17	55	50	4	2	44	1.32
937219--937265	23	2.0	23	87	8	67	25	10	8	55	1.62
937428--937472	12	3.9	12	82	8	58	64	8	0	26	1.23
937520--937576	28	2.0	28	82	0	69	26	10	8	54	1.63
955162--955215	23	2.3	23	100	0	108	37	16	18	27	1.93
955342--955400	19	3.1	19	83	9	68	54	6	0	38	1.27
961553--961624	3	24.3	3	72	18	53	23	4	4	68	1.25
961727--961751	12	2.1	12	100	0	50	36	8	0	56	1.29
963224--963265	17	2.5	17	81	11	50	28	21	9	40	1.84
965173--965207	17	2.1	17	100	0	70	11	22	25	40	1.88
968415--968472	20	2.8	21	84	10	66	39	1	3	55	1.27
974862--975089	101	2.3	103	81	6	270	25	16	28	29	1.97
974952--975080	51	2.5	51	83	2	152	24	16	27	31	1.96
975003--975082	26	3.1	26	63	28	62	23	15	28	32	1.95
975084--975178	45	2.1	45	90	0	154	27	18	23	30	1.98
983034--983107	30	2.5	29	82	6	94	36	0	5	58	1.21
983088--983116	11	2.5	12	94	5	51	31	0	0	68	0.89
988650--988700	25	2.0	25	84	0	66	37	1	13	47	1.55
989744--989791	23	2.1	23	100	0	96	20	20	12	45	1.83
991811--991835	2	12.5	2	100	0	50	0	48	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991896--991928	17	2.1	17	88	11	52	21	6	12	60	1.53
992119--992160	22	2.0	21	90	4	66	64	4	16	14	1.45
992793--992821	15	1.9	15	100	0	58	13	10	6	68	1.37
997549--997582	16	2.1	16	88	0	50	50	0	2	47	1.16
997642--997697	21	2.8	19	75	19	60	48	1	3	46	1.30
997642--997706	18	3.3	18	76	16	67	46	1	3	49	1.27
998184--998246	30	2.1	30	87	0	90	57	15	1	25	1.48
998649--998718	21	3.3	21	68	18	63	35	10	10	44	1.72
998649--998734	43	2.0	43	95	0	154	37	9	9	44	1.69
1007987--1008157	85	2.0	85	100	0	342	31	9	15	43	1.79
1008509--1008591	38	2.2	39	80	6	89	71	2	3	22	1.14
1008480--1008601	58	2.1	59	84	7	160	67	3	4	24	1.26
1008418--1009072	329	2.0	328	94	1	1150	51	10	10	27	1.70
1009007--1009031	11	2.3	11	100	0	50	76	8	0	16	1.02
1009071--1009112	18	2.3	18	80	8	50	23	4	2	69	1.20
1009169--1009217	18	2.7	18	87	9	64	26	4	0	69	1.06
1009155--1009216	18	3.5	17	77	16	54	27	6	0	66	1.16
1010992--1011320	123	2.7	122	83	1	388	31	18	23	26	1.97
1011405--1011511	41	2.6	41	80	2	117	18	17	25	38	1.93
1012631--1012698	15	4.7	14	73	7	55	23	0	42	33	1.54
1012650--1012710	29	2.1	30	93	3	106	26	0	37	36	1.57
1012650--1012698	14	3.4	14	77	5	62	24	0	42	32	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1012653--1012702	15	3.4	15	72	5	57	22	0	44	34	1.53
1013161--1013727	270	2.1	270	86	2	771	34	13	19	32	1.91
1013493--1013960	233	2.0	233	86	2	654	35	14	20	29	1.92
1014696--1014819	60	2.1	60	92	1	205	24	8	25	41	1.82
1014860--1014900	13	3.2	13	83	13	57	34	4	9	51	1.56
1015202--1015253	23	2.4	22	75	18	54	9	21	11	57	1.62
1016323--1016421	13	7.5	13	78	6	101	41	9	3	46	1.51
1016353--1016430	40	2.0	40	92	0	129	43	8	2	44	1.49
1016440--1016809	9	42.4	9	69	14	206	41	21	2	34	1.66
1016594--1016643	16	3.1	16	85	0	55	44	22	2	32	1.64
1016711--1016820	51	2.1	52	86	5	152	42	19	2	35	1.65
1022294--1022343	21	2.4	21	100	0	100	32	14	50	4	1.61
1022690--1022991	43	7.1	43	79	7	244	28	18	25	27	1.98
1022725--1022998	42	6.5	42	78	3	212	28	18	25	27	1.98
1046243--1046292	25	2.0	25	88	7	75	44	10	8	38	1.68
1050525--1050586	24	2.6	23	76	18	56	27	12	14	45	1.82
1060897--1060967	36	2.0	36	83	5	90	25	9	33	30	1.88
1061178--1061249	27	2.6	28	84	2	92	58	13	12	15	1.64
1082286--1082346	21	3.0	21	69	11	63	39	4	1	54	1.32
1087482--1087552	32	2.2	32	87	0	97	64	1	1	32	1.11
1089833--1089868	18	1.9	19	94	5	65	27	5	5	61	1.41
1091070--1091134	30	2.2	30	88	0	94	24	29	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099551--1099593	19	2.2	20	80	19	56	34	4	13	46	1.65
1099833--1099861	14	2.1	14	100	0	58	20	37	6	34	1.80
1100653--1100716	29	2.2	29	88	0	92	40	1	25	32	1.65
1102993--1103032	20	2.0	20	85	0	53	45	15	12	27	1.82
1105486--1105544	11	5.4	11	77	6	57	76	5	5	13	1.13
1105510--1105543	17	1.9	18	88	5	52	73	2	5	17	1.16
1108652--1108682	2	15.5	2	100	0	62	51	0	0	48	1.00
1115217--1115257	22	1.9	22	85	5	57	39	12	12	36	1.80
1125560--1125602	22	2.0	21	81	4	50	25	4	9	60	1.47
1127606--1127640	5	7.0	5	96	0	61	22	20	17	40	1.92
1135139--1135180	18	2.3	19	79	4	50	11	9	0	78	0.96
1135476--1135520	23	2.0	23	83	12	58	4	17	6	71	1.25
1137346--1137452	19	5.8	18	70	18	60	52	3	2	41	1.34
1140452--1140885	217	2.0	217	98	0	832	29	11	25	34	1.91
1142731--1142774	6	7.3	6	89	0	70	31	0	18	50	1.47
1143333--1143735	203	2.0	203	95	0	725	22	12	20	44	1.85
1148513--1148573	27	2.1	29	85	8	81	49	1	6	42	1.38
1148778--1148830	24	2.2	25	83	10	74	45	11	5	37	1.64
1148789--1148841	24	2.2	24	86	0	70	49	9	3	37	1.53
1157512--1157608	25	3.8	27	72	15	89	30	8	15	45	1.75
1159053--1159108	13	4.3	13	82	8	69	32	23	42	1	1.64
1159053--1159109	26	2.2	26	90	0	87	33	22	42	1	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1164598--1164630	2	16.5	2	100	0	66	51	0	0	48	1.00
1165334--1165377	8	5.5	8	81	10	54	65	0	0	34	0.93
1165330--1165369	17	2.4	17	95	0	71	67	0	0	32	0.91
1170020--1170074	22	2.5	22	100	0	110	30	20	21	27	1.98
1188320--1188503	51	3.6	50	76	15	150	25	16	26	32	1.96
1188320--1188504	101	1.8	101	88	3	282	24	16	26	31	1.96
1188513--1188601	45	2.0	45	93	0	151	24	15	23	35	1.94
1196075--1196122	22	2.3	20	80	19	55	20	4	4	70	1.21
1196934--1196964	16	1.9	16	93	0	53	61	3	0	35	1.12
1200248--1200309	13	4.8	13	81	0	79	35	8	20	35	1.83

Tables:   1   2   3   4   5   6   7