genome.fa.s6.2.7.7.80.10.50.1000.9.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: Scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  1308201

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  9  of  11  ( 1316 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)
837987--838080	39	2.4	39	92	0	152	34	13	13	38	1.85
840548--840622	20	3.8	20	87	0	114	32	14	12	41	1.83
842819--843059	97	2.5	96	90	2	358	27	29	14	28	1.95
849052--849082	16	1.9	16	93	0	53	45	3	6	45	1.45
852424--852452	12	2.4	12	100	0	58	34	17	13	34	1.89
852489--852513	13	1.9	13	100	0	50	40	8	20	32	1.81
852470--852533	33	1.9	33	87	6	94	40	10	17	31	1.84
852566--852619	21	2.7	19	71	18	56	33	12	12	40	1.82
853011--853041	2	15.5	2	93	0	53	48	3	0	48	1.17
857931--858114	34	5.4	34	88	0	262	25	7	26	40	1.82
858419--858481	19	3.3	19	88	0	81	28	15	19	36	1.92
862547--862731	34	5.5	34	88	0	264	25	7	26	40	1.82
866181--866226	23	2.0	22	84	16	58	43	2	4	50	1.34
868386--868422	17	2.2	17	95	0	65	35	8	5	51	1.55
869519--869557	20	2.0	20	89	0	60	38	2	7	51	1.44
883102--883147	15	3.1	15	80	0	56	39	8	2	50	1.46
886409--886507	23	4.3	22	75	14	76	63	1	1	34	1.08
886420--886507	23	3.7	25	72	20	80	63	0	1	35	1.02
888047--888116	36	1.9	36	91	0	113	34	14	8	42	1.76
889820--889904	43	2.0	43	97	0	161	32	16	18	31	1.94
899307--899406	36	2.8	36	83	3	121	33	10	13	44	1.76
900906--900935	15	2.0	15	93	0	51	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
902156--902209	20	2.8	18	78	15	56	57	0	1	40	1.09
902498--902578	36	2.2	36	89	8	137	30	24	20	23	1.99
902629--902705	31	2.8	27	73	17	68	53	1	1	44	1.17
904923--905050	36	3.6	36	72	17	122	55	4	4	35	1.42
905206--905335	46	2.9	44	69	20	117	56	2	3	37	1.27
905434--905476	22	2.0	22	81	9	52	58	2	0	39	1.11
905627--905663	19	1.9	19	89	10	58	45	2	0	51	1.15
905685--905737	23	2.2	24	80	6	63	41	0	0	58	0.98
905694--905817	65	1.9	64	82	14	155	45	0	0	54	1.00
905898--905939	16	2.4	18	88	11	61	69	4	0	26	1.08
905898--905939	19	2.4	18	84	11	52	69	4	0	26	1.08
906113--906167	26	2.1	26	93	0	92	18	34	3	43	1.67
906827--906885	27	2.2	28	85	11	88	18	11	0	69	1.18
906825--906875	26	2.0	27	92	7	88	21	11	0	66	1.23
907121--907189	6	12.2	6	73	17	58	36	0	0	63	0.94
907116--907167	23	2.2	25	86	6	72	34	0	0	65	0.93
907636--907702	19	3.6	18	75	13	64	44	5	4	44	1.48
908820--908887	35	1.9	35	100	0	136	42	4	14	38	1.66
911404--911455	23	2.3	23	82	0	59	55	5	1	36	1.35
911981--912015	12	2.7	13	91	8	54	0	14	0	85	0.59
913263--914027	32	23.8	32	95	1	1327	16	18	33	31	1.94
913263--914027	193	4.0	192	96	1	1327	16	18	33	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914010--914692	27	25.0	27	92	1	1087	28	14	34	22	1.93
914010--914685	191	3.5	191	94	1	1158	28	14	34	22	1.93
915745--915772	14	2.0	14	100	0	56	0	0	14	85	0.59
921931--921982	23	2.3	23	82	0	59	55	5	1	36	1.35
922121--922151	2	15.5	2	93	0	53	51	3	0	45	1.17
922514--922549	13	2.6	14	91	4	56	0	13	0	86	0.58
924221--924256	16	2.2	17	90	5	56	44	2	16	36	1.63
930281--930330	25	2.0	26	84	4	66	52	0	0	48	1.00
930293--930333	13	3.2	13	82	3	57	51	0	0	48	1.00
942048--942102	23	2.4	23	78	0	65	1	16	3	78	0.98
942596--942634	20	1.9	21	89	5	62	61	0	0	38	0.96
947646--947739	47	2.0	47	95	4	172	38	12	13	35	1.83
948655--948744	38	2.4	39	77	7	96	37	17	8	35	1.81
956002--956132	38	3.4	39	75	5	133	41	19	12	27	1.87
956106--956227	38	3.2	37	81	6	120	32	21	13	31	1.92
958089--958262	79	2.2	78	86	3	242	44	10	11	33	1.76
961244--961272	14	2.0	15	93	6	51	48	3	0	48	1.18
966108--966161	20	2.7	19	88	11	74	35	12	16	35	1.87
967725--967759	15	2.3	15	90	9	54	42	0	25	31	1.55
973069--973097	14	2.1	14	100	0	58	51	6	27	13	1.66
973996--974062	21	3.2	21	77	8	66	44	2	11	40	1.56
974188--974244	19	2.9	19	89	2	87	31	17	15	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974274--974336	33	1.9	33	87	6	92	36	12	20	30	1.90
975601--975699	48	2.1	48	100	0	198	36	9	21	33	1.85
976476--976510	7	5.0	7	100	0	70	85	0	0	14	0.59
977904--977928	13	1.9	13	100	0	50	32	16	20	32	1.94
992165--992218	20	2.7	20	85	0	63	27	14	9	48	1.75
995768--995819	20	2.5	21	84	6	70	38	11	17	32	1.85
1000759--1000854	32	2.9	33	84	1	131	32	28	15	23	1.95
1000727--1000910	65	2.9	63	77	8	183	33	27	15	23	1.95
1000724--1000909	97	1.9	98	80	5	216	32	27	15	24	1.95
1001108--1001345	111	2.2	110	92	0	386	25	26	15	32	1.96
1002318--1002350	17	1.9	17	93	0	57	24	15	12	48	1.78
1002263--1002383	49	2.4	49	84	5	163	28	14	14	42	1.84
1004551--1004699	69	2.2	69	82	4	176	31	20	5	42	1.74
1004615--1004854	97	2.5	96	85	4	304	32	20	8	38	1.83
1009597--1009621	13	1.9	13	100	0	50	16	4	0	80	0.87
1010021--1010074	22	2.4	22	77	20	58	37	0	3	59	1.15
1010758--1010882	62	2.0	62	96	0	232	45	17	6	30	1.73
1013241--1013937	315	2.2	313	94	1	1213	35	11	12	40	1.79
1015449--1015481	13	2.4	14	90	5	50	0	21	0	78	0.75
1015456--1015507	21	2.4	21	76	23	54	3	17	1	76	1.02
1015451--1015497	8	6.0	8	80	14	53	2	17	0	80	0.80
1019041--1019081	17	2.4	17	92	8	66	48	4	4	41	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1022919--1022968	20	2.4	21	83	6	66	44	10	10	36	1.72
1023898--1023936	19	2.0	20	90	5	62	33	10	0	56	1.33
1023899--1023949	20	2.6	19	81	6	57	37	9	3	49	1.55
1026814--1026875	9	7.1	9	79	17	69	43	0	0	56	0.99
1027050--1027087	19	2.0	19	94	0	67	52	2	0	44	1.14
1027164--1027189	3	8.7	3	100	0	52	69	0	0	30	0.89
1027800--1027862	23	2.7	23	82	4	74	41	1	0	57	1.08
1027811--1027871	24	2.8	22	77	15	65	37	1	0	60	1.07
1029789--1029829	17	2.5	17	96	4	75	39	9	14	36	1.79
1031817--1031842	13	2.0	13	100	0	52	38	15	15	30	1.88
1035151--1035180	14	2.1	14	100	0	60	16	33	20	30	1.94
1035794--1035848	21	2.8	21	78	13	55	21	3	3	70	1.18
1036336--1037284	43	22.2	43	84	2	993	37	17	29	14	1.90
1049976--1050011	11	3.1	11	92	8	54	16	0	8	75	1.04
1051910--1051955	19	2.3	20	85	7	58	54	0	0	45	0.99
1053175--1053230	26	2.2	26	83	0	67	42	8	10	37	1.71
1060028--1060084	26	2.1	27	87	12	82	45	0	14	40	1.44
1061089--1061531	150	2.9	149	83	4	557	36	6	9	47	1.61
1061111--1061577	149	3.1	142	71	14	359	38	4	9	47	1.58
1061735--1061765	4	7.8	4	100	0	62	25	0	22	51	1.48
1061842--1061870	15	1.9	15	100	0	58	58	0	6	34	1.25
1062745--1062821	26	2.8	26	77	16	68	55	1	0	42	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062770--1062825	25	2.3	25	78	6	62	60	1	0	37	1.07
1062803--1062854	25	2.1	25	85	0	68	57	0	0	42	0.98
1062774--1063008	117	2.0	116	93	1	400	52	2	1	42	1.25
1062926--1063015	40	2.3	39	77	12	96	50	1	2	46	1.21
1063020--1063084	31	2.0	33	88	5	98	55	0	0	44	0.99
1063363--1063399	11	3.4	11	84	0	56	37	0	0	62	0.96
1063661--1063697	11	3.4	11	84	0	56	37	0	0	62	0.96
1063243--1063893	291	2.2	291	90	2	1027	37	9	7	45	1.65
1064137--1064166	13	2.3	13	94	0	51	83	3	0	13	0.77
1067420--1068387	92	10.9	91	82	8	959	35	16	7	41	1.75

Tables:   1   2   3   4   5   6   7   8   9   10   11