genome.fa.s27.2.7.7.80.10.50.1000.6.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: Scaffold27
Parameters: 2 7 7 80 10 50 1000
Length:  2789374

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  6  of  16  ( 1898 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)
989619--989895	137	2.0	138	94	2	486	32	17	14	35	1.91
993982--994008	13	2.1	13	100	0	54	29	14	14	40	1.86
993963--994027	33	2.0	32	90	3	103	29	13	13	43	1.83
994018--994050	16	2.1	16	88	11	50	51	9	6	33	1.58
1000564--1001225	155	4.3	151	78	8	547	38	19	17	24	1.93
1000585--1001303	155	4.7	153	77	9	474	37	20	16	25	1.93
1004992--1005444	117	3.9	116	81	7	438	35	15	16	32	1.91
1009428--1009470	7	6.3	7	89	8	54	30	0	0	69	0.88
1009437--1009472	3	11.3	3	88	11	54	33	0	0	66	0.92
1015999--1016023	9	2.8	9	100	0	50	48	0	12	40	1.40
1016058--1016086	14	2.1	14	93	6	51	20	0	0	79	0.74
1018463--1018525	29	2.2	29	97	0	117	49	7	3	39	1.48
1018940--1019433	85	5.8	85	75	7	261	33	13	31	21	1.92
1018957--1019497	170	3.2	167	76	8	468	33	13	32	20	1.92
1019298--1019430	43	3.1	42	68	16	101	30	12	33	22	1.92
1019313--1019449	43	3.2	43	69	16	104	31	13	33	21	1.92
1019263--1019526	85	3.1	85	76	9	252	32	11	34	21	1.89
1019710--1020216	44	11.5	41	72	13	253	42	15	21	20	1.89
1019712--1020216	88	5.7	88	75	9	379	42	15	21	20	1.89
1019709--1020216	132	3.8	134	83	3	611	42	15	21	20	1.89
1023542--1024126	79	7.4	79	86	2	753	32	13	26	27	1.94
1024059--1024177	51	2.3	51	94	0	202	31	13	25	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023981--1024257	130	2.1	130	85	2	378	31	12	27	28	1.93
1024112--1024267	79	2.0	79	88	2	233	32	12	26	28	1.92
1026663--1026717	20	2.8	20	97	0	101	47	12	14	25	1.80
1027307--1027440	35	3.7	35	72	14	110	39	18	24	17	1.92
1027518--1027897	120	3.2	119	83	7	473	27	20	25	26	1.99
1027456--1027903	181	2.5	181	83	6	552	28	20	25	26	1.99
1027456--1027903	61	7.4	61	82	7	477	28	20	25	26	1.99
1028832--1028915	7	11.6	7	77	14	64	2	11	4	80	0.95
1028861--1028915	28	2.0	28	88	0	83	3	7	7	81	0.96
1030085--1030358	151	1.8	151	80	4	327	38	21	14	25	1.92
1033327--1033399	20	3.7	19	80	12	69	39	15	15	30	1.87
1040060--1040184	52	2.4	52	94	0	214	28	16	18	36	1.93
1040060--1040204	52	2.8	51	87	4	202	29	16	18	35	1.93
1040193--1040217	13	1.9	13	100	0	50	36	16	16	32	1.90
1040257--1040326	33	2.1	33	89	0	104	40	14	11	34	1.82
1040282--1040306	13	1.9	13	100	0	50	32	16	16	36	1.90
1040821--1041034	52	4.2	52	72	7	175	35	13	21	28	1.92
1041082--1041412	34	10.0	33	76	10	259	32	16	25	26	1.96
1041082--1041350	69	4.0	68	80	5	246	31	16	25	26	1.96
1042100--1042159	14	4.4	14	85	2	86	28	5	31	35	1.79
1042264--1042354	46	2.0	46	93	0	155	23	15	24	37	1.93
1046312--1046368	28	2.0	28	89	0	87	40	10	15	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046408--1046476	28	2.5	28	85	0	84	46	11	13	28	1.78
1046280--1046560	110	2.6	110	88	1	402	40	10	15	33	1.82
1047862--1048012	65	2.3	65	84	4	180	50	17	5	25	1.68
1048143--1048526	196	2.0	194	86	2	536	30	18	12	38	1.88
1051206--1051837	80	8.1	79	75	8	461	28	23	12	35	1.91
1051494--1051825	158	2.1	160	81	4	386	28	23	11	36	1.90
1060215--1060244	13	2.3	13	94	0	51	36	10	16	36	1.82
1060193--1060261	33	2.1	32	86	10	95	36	17	14	31	1.90
1060290--1060342	19	2.7	20	85	2	63	35	20	13	30	1.91
1062882--1062914	13	2.5	13	90	0	57	42	12	15	30	1.83
1063902--1063957	20	2.8	20	89	5	78	32	14	12	41	1.83
1077689--1077778	26	3.3	26	85	13	112	82	17	0	0	0.68
1077685--1077778	49	1.9	49	82	8	120	81	18	0	0	0.68
1077689--1077777	5	17.8	5	80	13	94	82	17	0	0	0.68
1079231--1079354	34	3.7	34	89	1	178	18	31	12	37	1.87
1079227--1079414	68	3.0	60	80	8	153	19	30	12	37	1.89
1079254--1079443	93	2.0	95	83	4	242	18	32	13	35	1.90
1079421--1079513	28	3.2	29	80	7	109	33	33	17	16	1.92
1079421--1079490	30	2.4	30	88	4	99	34	32	18	14	1.91
1079587--1079749	39	3.9	39	72	16	139	28	25	19	26	1.99
1079544--1079906	88	4.0	87	79	11	388	25	26	18	29	1.98
1079626--1080000	49	7.8	48	74	13	288	26	25	17	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079718--1080000	101	2.8	99	85	3	338	25	25	18	31	1.97
1079718--1080000	149	1.9	151	87	6	421	25	25	18	31	1.97
1079771--1080097	149	2.2	148	80	5	358	24	26	17	31	1.97
1094795--1094865	10	7.0	10	80	13	83	83	15	0	1	0.73
1094795--1094880	30	2.9	30	92	3	138	81	17	0	1	0.76
1094795--1094881	16	5.4	16	74	20	65	81	17	0	1	0.75
1096323--1096539	34	6.7	34	80	10	188	19	33	12	34	1.90
1096414--1096472	27	2.2	26	93	3	100	20	33	13	32	1.91
1096346--1096539	93	2.1	95	83	5	243	20	33	12	34	1.90
1096513--1096582	30	2.4	29	90	4	106	35	31	17	15	1.91
1096679--1096756	39	2.0	39	89	0	120	28	20	20	30	1.98
1096636--1096892	87	2.9	87	86	2	325	26	24	19	30	1.98
1096814--1097093	49	5.6	51	79	6	277	25	26	16	31	1.96
1096820--1097129	52	6.2	49	79	6	273	24	26	16	32	1.96
1096814--1097104	149	1.9	151	82	4	365	25	25	15	32	1.95
1110409--1110471	6	11.2	6	83	6	62	80	19	0	0	0.70
1110409--1110471	22	2.9	21	77	17	65	80	19	0	0	0.70
1111926--1112086	34	4.8	34	85	4	202	18	33	11	37	1.86
1111922--1112086	68	2.5	66	88	4	224	18	33	11	36	1.87
1111979--1112191	34	6.6	32	75	13	134	19	34	11	33	1.88
1112088--1112141	27	2.0	26	85	3	72	25	31	14	27	1.95
1112017--1112204	93	2.0	93	93	0	322	19	35	13	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112185--1112277	28	3.2	29	77	7	100	34	36	15	13	1.87
1112304--1112761	48	9.7	48	73	13	378	25	26	18	30	1.98
1112347--1112510	39	4.0	39	74	13	157	28	26	19	25	1.99
1112304--1112762	87	5.0	87	80	8	389	25	26	18	30	1.98
1112478--1112761	49	5.7	51	80	7	296	23	26	18	31	1.97
1112478--1112766	101	2.9	100	82	5	291	23	25	18	32	1.97
1112478--1112757	149	1.9	152	88	3	431	23	26	18	32	1.97
1112474--1112797	149	2.1	153	82	7	403	23	25	18	32	1.97
1127491--1127582	22	4.2	22	78	8	91	82	14	2	1	0.82
1127499--1127595	15	6.4	14	77	17	81	81	16	1	1	0.81
1127514--1127593	5	16.8	5	77	18	57	82	16	1	0	0.73
1127490--1127595	20	5.4	19	72	11	79	81	16	1	0	0.84
1127491--1127595	45	2.3	46	85	8	135	81	15	1	0	0.82
1129053--1129579	33	16.2	33	74	10	368	20	33	12	33	1.90
1129137--1129234	31	3.2	31	83	11	121	22	31	14	31	1.94
1129049--1129579	68	8.2	66	75	10	416	20	33	12	33	1.90
1129053--1129556	128	3.9	128	77	9	463	20	33	12	33	1.90
1129403--1129455	27	2.0	27	92	0	88	22	37	13	26	1.91
1129368--1129556	60	3.0	61	80	6	191	21	35	12	31	1.90
1129911--1129983	20	3.6	20	81	3	101	35	13	19	31	1.91
1129929--1130004	21	3.7	21	80	3	100	42	11	17	28	1.84
1129911--1130004	41	2.3	41	98	0	179	39	12	18	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130043--1130068	13	2.0	13	100	0	52	38	15	15	30	1.88
1132280--1132324	21	2.1	21	84	8	56	53	4	20	22	1.63
1134128--1134158	15	2.1	15	93	0	53	48	16	22	12	1.80
1136230--1136267	13	2.9	13	96	0	67	34	18	15	31	1.92
1138695--1138767	20	3.6	20	81	3	101	35	13	19	31	1.91
1138713--1138788	21	3.7	21	80	3	100	42	11	17	28	1.84
1138695--1138788	41	2.3	41	98	0	179	39	12	18	29	1.88
1138827--1138852	13	2.0	13	100	0	52	38	15	15	30	1.88
1139645--1140218	49	11.7	49	85	5	673	25	26	16	31	1.97
1139729--1140327	49	11.9	51	83	6	283	23	25	16	33	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16