genome.fa.s144.2.7.7.80.10.50.1000.2.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  2  of  21  ( 2468 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)
94149--94187	21	2.0	21	85	10	55	46	0	0	53	1.00
94729--94762	16	2.2	16	90	10	54	8	5	2	82	0.93
95793--95859	27	2.4	29	75	12	68	53	2	2	40	1.31
95937--96016	28	2.8	28	79	11	74	48	1	1	48	1.17
96474--96511	20	1.9	20	89	10	60	34	0	0	65	0.93
96537--96563	14	1.9	14	100	0	54	40	0	0	59	0.98
96656--96863	112	1.8	113	86	5	305	48	4	2	44	1.35
97064--97113	22	2.3	22	86	3	66	0	30	14	56	1.39
97162--97419	63	4.1	63	84	4	317	8	29	22	39	1.83
97348--97723	141	2.7	141	88	1	556	6	26	22	45	1.75
98788--98833	22	2.1	21	88	11	67	58	0	0	41	0.98
98786--98844	14	4.5	13	78	19	52	61	0	0	38	0.96
98777--98882	53	2.0	53	81	7	126	54	0	0	44	1.06
98824--98900	32	2.3	34	79	18	83	55	0	0	44	0.99
98794--98960	60	2.8	60	77	15	161	57	0	0	42	0.98
98829--98960	18	6.8	19	68	20	62	57	0	0	42	0.98
99123--99271	13	11.5	12	67	24	56	40	0	0	58	1.03
99121--99166	20	2.3	21	88	7	69	32	0	0	67	0.91
99128--99261	25	5.1	25	68	19	85	40	0	0	58	1.03
99130--99241	32	3.6	32	69	16	81	40	0	0	58	1.04
99169--99212	17	2.4	18	85	7	54	45	0	0	54	0.99
99123--99284	35	4.5	36	69	23	101	41	0	0	57	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99822--99858	12	3.2	12	88	7	58	72	0	0	27	0.84
99852--99901	14	3.1	17	72	19	52	48	2	0	50	1.12
100963--101179	34	6.4	34	88	1	294	24	7	27	40	1.82
100963--101181	67	3.3	67	88	1	321	24	7	27	40	1.82
105590--105807	34	6.5	34	88	1	296	24	7	27	40	1.82
105590--105809	67	3.3	67	88	1	323	24	7	27	40	1.82
106239--106271	2	16.5	2	100	0	66	51	0	0	48	1.00
108766--108811	16	2.8	17	77	12	51	28	0	17	54	1.43
109981--110017	19	1.9	19	88	0	56	35	0	5	59	1.20
110406--110434	3	9.7	3	100	0	58	34	0	0	65	0.93
110914--110953	21	1.9	21	89	0	62	57	2	2	37	1.26
111544--111594	12	4.2	12	78	12	50	45	1	0	52	1.12
111552--111600	24	2.0	26	84	15	68	44	2	0	53	1.12
112052--112097	23	2.1	21	84	11	58	36	0	0	63	0.95
112951--113001	23	2.2	24	85	3	68	45	1	0	52	1.12
113625--113704	40	1.9	41	85	7	108	41	1	1	56	1.15
114115--114141	2	13.5	2	100	0	54	48	0	0	51	1.00
115389--115426	17	2.2	17	86	9	51	47	0	0	52	1.00
118669--118695	2	13.5	2	100	0	54	48	0	0	51	1.00
120049--120088	2	20.0	2	100	0	80	50	0	50	0	1.00
121110--121155	22	2.1	22	100	0	92	39	8	13	39	1.75
123095--123149	25	2.2	25	90	6	85	34	1	0	63	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
123095--123186	19	4.7	19	76	12	78	34	2	0	63	1.07
123101--123184	5	16.4	5	71	21	59	35	2	0	61	1.09
123099--123189	17	5.4	17	72	17	66	35	2	0	62	1.07
123099--123189	41	2.2	43	90	4	141	35	2	0	62	1.07
123119--123205	41	2.1	40	85	8	111	36	5	0	57	1.23
125886--125932	13	3.6	14	80	11	55	82	4	12	0	0.80
129432--129468	19	1.9	20	88	5	58	48	0	0	51	1.00
129437--129471	17	2.0	18	88	5	54	45	0	0	54	0.99
129397--129483	20	4.6	20	70	11	56	52	0	0	47	1.00
129572--129657	22	3.7	23	71	13	79	44	0	0	55	0.99
129587--129643	2	30.0	2	75	10	57	47	0	0	52	1.00
129638--129676	20	1.9	20	84	5	51	28	0	0	71	0.86
129614--129666	18	2.9	17	80	8	52	37	0	0	62	0.96
134892--134959	19	3.8	18	80	9	77	39	14	20	25	1.91
134970--135145	77	2.3	77	88	2	273	31	18	12	37	1.88
139498--139546	23	2.1	22	85	14	64	69	2	4	24	1.17
143106--143150	18	2.4	18	85	7	63	57	0	0	42	0.98
143304--143355	17	3.1	17	81	8	54	75	5	17	1	1.10
143517--143556	18	2.3	18	86	4	55	45	2	0	52	1.14
144487--144549	28	2.2	28	78	10	67	49	1	3	46	1.27
146210--146246	15	2.5	15	86	13	58	32	0	0	67	0.91
146212--146247	14	2.5	15	90	9	65	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146212--146251	13	2.9	14	92	7	64	35	0	0	65	0.93
147822--147870	14	3.3	15	75	18	57	46	0	4	48	1.20
147880--147914	18	1.9	18	88	0	52	48	0	0	51	1.00
147873--147944	32	2.2	33	87	2	101	47	0	0	52	1.00
149516--149557	15	2.9	15	78	3	50	33	0	0	66	0.92
149518--149558	21	2.0	20	85	4	55	36	0	0	63	0.95
149557--149616	23	2.6	25	76	10	65	60	0	0	40	0.97
149729--149781	14	3.7	14	78	14	63	62	0	0	37	0.96
149909--149942	6	5.7	6	92	0	59	0	29	14	55	1.40
149910--149954	18	2.4	18	85	3	54	0	31	13	55	1.38
153576--153610	18	1.9	18	100	0	70	37	5	11	45	1.64
154352--154406	27	2.0	27	86	6	76	30	25	5	38	1.79
155925--155977	24	2.1	25	86	6	72	33	5	5	54	1.47
156529--156571	21	2.0	21	86	0	59	53	0	0	46	1.00
156584--156636	18	3.2	18	71	20	51	43	0	0	56	0.99
156553--156636	32	2.7	31	80	7	91	46	0	0	53	1.00
157553--157624	23	3.2	23	72	7	58	51	1	2	44	1.24
165575--165613	12	3.2	12	81	0	51	53	0	12	33	1.39
169563--169587	2	12.5	2	100	0	50	52	0	0	48	1.00
170413--170478	30	2.1	33	86	8	93	27	1	0	71	0.95
170445--170497	12	4.5	11	77	13	52	33	0	0	66	0.92
170445--170497	24	2.3	23	81	12	63	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170851--170890	13	3.3	12	86	10	55	65	0	2	32	1.06
171625--171670	8	5.9	8	97	2	85	76	0	0	23	0.79
172730--172759	15	2.0	15	100	0	60	20	40	20	20	1.92
175313--175346	2	17.0	2	100	0	68	50	0	50	0	1.00
177552--177605	24	2.3	23	81	9	65	9	27	3	59	1.45
185170--185203	14	2.4	14	95	0	59	67	0	5	26	1.13
185270--185296	13	2.1	13	100	0	54	70	0	0	29	0.88
185236--185337	20	5.1	20	71	15	70	57	0	0	40	1.12
185292--185349	20	3.1	19	72	16	57	55	1	3	39	1.27
185267--185349	38	2.2	39	84	8	116	56	1	2	39	1.20
190672--190696	12	2.1	12	100	0	50	0	40	0	60	0.97
192114--192165	24	2.2	23	82	3	59	40	0	0	59	0.97
192170--192217	14	3.4	14	82	5	60	62	0	2	35	1.07
192154--192219	29	2.2	30	86	2	89	56	1	1	40	1.18
192182--192223	12	3.2	13	80	12	50	59	0	0	40	0.97
192735--192804	26	2.7	26	79	14	74	51	0	0	48	1.00
192735--192806	25	2.9	25	80	8	76	50	0	0	50	1.00
193332--193357	13	2.0	13	100	0	52	23	0	0	76	0.78
193454--193507	23	2.3	24	81	9	67	51	1	0	46	1.11
193919--194001	27	3.1	26	76	8	76	43	0	4	51	1.23
195193--195226	17	2.1	16	94	5	59	47	0	0	52	1.00
195199--195255	14	3.9	14	82	15	55	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
195191--195248	22	2.7	23	77	17	61	43	0	0	56	0.99
195202--195250	5	10.0	5	75	20	50	40	0	0	59	0.98
195845--195883	18	2.2	18	85	0	51	71	2	0	25	0.98
198215--198244	16	1.9	15	93	6	51	40	0	0	60	0.97
198309--198377	25	2.7	26	80	11	70	68	0	0	31	0.90
198503--198536	2	17.0	2	93	0	59	50	2	0	47	1.16
199500--199540	20	2.0	20	86	9	57	53	7	0	39	1.29
203607--203663	28	2.0	28	89	0	87	36	21	14	28	1.92
204365--204413	23	2.0	23	84	7	62	57	0	0	42	0.99
204375--204410	18	2.0	18	88	0	54	55	0	0	44	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21