genome.fa.s392.2.7.7.80.10.50.1000.2.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: Scaffold392
Parameters: 2 7 7 80 10 50 1000
Length:  803515

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 687 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)
118245--118284	11	3.7	11	83	6	55	32	2	0	65	1.06
118474--118522	2	25.0	2	87	4	73	46	0	4	48	1.20
123445--123484	19	2.2	18	90	4	62	62	2	2	32	1.22
124061--124096	2	18.0	2	100	0	72	50	0	0	50	1.00
125959--125985	2	13.5	2	100	0	54	48	0	0	51	1.00
126453--126525	17	4.4	16	73	13	58	45	0	0	54	0.99
126492--126532	7	5.1	8	83	16	50	46	0	0	53	1.00
126931--126969	16	2.4	16	83	8	53	51	0	0	48	1.00
126956--127012	25	2.2	25	84	12	71	38	0	0	61	0.96
126977--127015	20	2.0	20	89	0	60	33	0	0	66	0.92
127375--127417	20	2.2	20	87	8	61	53	2	0	44	1.13
131298--131339	16	2.7	16	77	3	50	35	0	2	61	1.09
131558--131635	34	2.4	34	83	10	92	50	11	2	35	1.53
132032--132138	20	5.4	20	70	23	84	61	0	0	37	1.02
132032--132107	22	3.5	22	79	10	77	60	0	0	39	0.97
132054--132109	18	3.3	18	72	20	57	58	0	0	41	0.98
132026--132134	38	2.8	37	79	16	107	59	1	0	38	1.08
132026--132114	35	2.5	35	80	10	92	59	1	0	39	1.05
134418--134465	24	1.9	24	87	8	69	54	0	0	45	0.99
134425--134475	14	3.9	14	80	12	54	56	0	0	43	0.99
134418--134474	26	2.1	27	84	9	73	54	0	0	45	0.99
136084--136137	26	2.1	26	83	13	67	42	0	3	53	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
138380--138423	19	2.3	19	92	0	70	25	11	38	25	1.89
140824--140853	15	2.0	15	93	0	51	36	0	0	63	0.95
141261--141285	2	12.5	2	100	0	50	52	0	0	48	1.00
142270--142309	2	20.0	2	100	0	80	50	0	0	50	1.00
144435--144505	37	1.9	37	88	0	106	36	26	12	23	1.91
144446--144530	37	2.3	37	84	8	102	41	25	10	22	1.86
149896--149933	18	2.1	18	90	9	60	18	21	23	36	1.95
155857--155892	10	3.9	10	82	17	51	63	5	0	30	1.17
155855--155891	18	2.1	18	95	5	67	67	5	0	27	1.12
156474--156541	29	2.3	29	82	2	82	60	1	2	35	1.21
156474--156552	29	2.7	28	78	9	77	60	1	2	35	1.18
156817--156851	17	2.0	17	88	5	52	54	0	5	40	1.24
157109--157171	18	3.8	17	73	23	71	33	0	0	66	0.92
157107--157166	19	3.3	19	81	11	72	36	0	0	63	0.95
157705--157747	2	21.5	2	81	9	52	46	2	0	51	1.13
157702--157753	26	2.0	26	100	0	104	46	3	0	50	1.20
165087--165121	13	2.6	14	90	9	63	54	0	5	40	1.24
165355--165392	2	19.0	2	100	0	76	50	0	0	50	1.00
165682--165711	3	10.0	3	92	0	51	66	3	0	30	1.07
166351--166410	31	2.0	30	90	6	95	55	0	0	45	0.99
167611--167637	7	3.9	7	100	0	54	85	0	0	14	0.61
169099--169147	18	2.6	18	87	9	62	30	2	0	67	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
169100--169157	29	2.0	30	86	3	82	34	1	0	63	1.04
170257--170282	2	13.0	2	100	0	52	50	0	0	50	1.00
170302--170347	16	2.9	16	80	6	58	54	0	2	43	1.12
170282--170323	21	2.0	22	85	4	59	47	2	0	50	1.14
170281--170330	22	2.3	22	79	6	57	52	2	0	46	1.12
170304--170350	15	3.1	15	84	3	58	55	0	2	42	1.12
171537--171572	16	2.2	17	90	5	56	30	0	0	69	0.89
171552--171605	28	1.9	28	85	7	74	44	1	0	53	1.11
171750--171799	18	2.9	17	77	11	57	40	0	0	60	0.97
172223--172279	15	3.8	15	73	15	55	28	0	0	71	0.86
172224--172280	11	5.3	10	81	10	60	28	0	0	71	0.86
172218--172293	25	2.8	27	80	13	77	30	1	2	65	1.14
174340--174374	2	17.5	2	100	0	70	0	48	0	51	1.00
177701--177729	11	2.6	11	100	0	58	34	0	0	65	0.93
178223--178253	2	15.5	2	93	0	53	48	3	0	48	1.17
179279--179334	8	7.1	8	78	13	55	51	0	0	48	1.00
179292--179345	19	2.7	20	80	11	65	50	0	0	50	1.00
179284--179345	27	2.3	27	83	8	81	51	0	0	48	1.00
179228--179345	11	10.2	12	69	17	56	54	2	0	43	1.14
179279--179338	14	4.0	16	77	14	65	51	0	0	48	1.00
180706--180746	22	2.0	22	85	9	59	41	4	4	48	1.46
180994--181060	24	2.7	26	79	6	75	44	22	5	26	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
186316--186359	22	2.0	21	82	4	52	31	0	0	68	0.90
186407--186458	23	2.3	23	83	6	61	42	0	7	50	1.31
198561--198628	26	2.5	28	78	11	77	45	0	4	50	1.22
201341--201404	18	3.0	22	73	21	64	39	1	0	59	1.07
201374--201415	13	3.0	14	82	6	50	35	2	0	61	1.09
202203--202237	13	2.7	13	86	0	52	28	8	37	25	1.85
202477--202533	13	4.5	13	84	8	82	26	7	43	22	1.78
202477--202526	11	4.2	11	81	18	64	26	8	42	24	1.82
202477--202533	24	2.3	26	90	6	91	26	7	43	22	1.78
202585--202661	27	3.1	24	76	10	66	46	15	9	28	1.76
202611--202687	27	2.9	27	82	0	82	46	19	7	25	1.76
204171--204222	21	2.5	21	96	0	95	23	25	9	42	1.84
204584--204629	21	2.1	22	84	4	58	19	30	19	30	1.97
212930--212965	1	36.0	1	100	0	72	0	100	0	0	0.00
214393--214430	2	19.0	2	94	0	67	0	47	0	52	1.00
215469--215542	22	3.2	22	69	22	62	40	0	0	59	0.97
215620--215689	32	2.2	32	81	2	77	60	1	0	38	1.06
216603--216667	22	3.0	22	68	20	55	52	0	0	47	1.00
216623--216679	15	3.7	15	78	15	53	47	0	0	52	1.00
216758--216787	2	15.5	2	93	6	53	53	0	0	46	1.00
216986--217022	6	6.0	6	90	6	56	64	0	2	32	1.07
217120--217179	14	4.6	14	74	15	58	43	1	0	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
217403--217433	14	2.1	15	94	5	55	38	0	0	61	0.96
217556--217580	4	6.2	4	100	0	50	24	0	0	76	0.80
217712--217748	18	2.0	19	89	5	58	45	2	0	51	1.15
217735--217803	30	2.5	26	76	17	66	50	1	1	46	1.19
217920--217993	18	4.2	18	68	13	64	59	0	0	40	0.97
218016--218061	21	2.1	22	84	8	58	47	0	2	50	1.13
218114--218193	27	3.1	26	74	20	78	47	2	0	50	1.14
218114--218193	26	3.0	29	81	13	84	47	2	0	50	1.14
218974--219013	2	20.0	2	100	0	80	0	50	0	50	1.00
223429--223475	17	2.9	16	75	6	51	44	0	0	55	0.99
224784--224825	3	14.0	3	84	0	57	61	4	30	2	1.29
226602--226644	2	21.5	2	100	0	86	48	0	0	51	1.00
227433--227495	18	3.4	19	78	8	67	49	1	0	49	1.10
227433--227527	17	5.3	17	78	14	75	44	1	0	54	1.07
227677--227739	25	2.5	25	81	0	81	47	0	0	52	1.00
227694--227736	13	3.4	13	87	6	70	51	0	0	48	1.00
227704--227781	30	2.5	31	77	10	88	47	1	0	51	1.09
228293--228343	18	2.8	18	80	16	52	29	3	0	66	1.09
228287--228336	19	2.5	21	75	21	54	32	4	0	64	1.12
229142--229195	28	1.9	28	85	7	74	74	0	5	20	1.02
229157--229201	22	2.0	22	84	16	58	66	0	4	28	1.11
229420--229468	18	2.7	17	82	14	62	38	2	0	59	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
229921--229950	2	15.0	2	100	0	60	50	0	0	50	1.00
232129--232175	17	2.6	18	78	21	53	42	0	0	57	0.98
232199--232230	15	2.0	17	88	11	50	68	3	0	28	1.04
234078--234133	11	5.2	11	75	8	53	33	0	0	66	0.92
234298--234344	20	2.3	20	82	14	60	51	0	0	48	1.00
235105--235142	2	19.0	2	100	0	76	50	0	0	50	1.00
235263--235290	2	14.0	2	100	0	56	50	0	0	50	1.00
235115--235414	148	2.0	148	96	0	555	33	10	17	39	1.83
236666--236700	17	2.1	18	89	10	56	57	0	5	37	1.23
237297--237331	18	2.0	17	88	5	52	54	5	0	40	1.24

Tables:   1   2   3   4   5   6