genome.fa.s170.2.7.7.80.10.50.1000.1.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: Scaffold170
Parameters: 2 7 7 80 10 50 1000
Length:  1632119

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

This is table  1  of  11  ( 1308 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)
1998--2037	15	2.7	15	84	0	53	25	47	5	22	1.71
3816--3855	20	2.0	20	85	0	53	77	12	7	2	1.07
4199--4229	13	2.4	13	94	0	53	41	29	12	16	1.85
10144--10176	16	2.1	15	94	5	57	21	0	0	78	0.75
10218--10283	23	2.8	23	73	11	62	56	1	0	42	1.08
10382--10490	48	2.3	47	79	6	121	55	0	0	43	1.12
11956--11996	20	2.0	20	100	0	82	14	24	14	46	1.82
14058--14095	2	19.0	2	100	0	76	0	50	0	50	1.00
15097--15156	7	8.4	7	75	10	50	48	25	1	25	1.61
15103--15156	14	3.8	14	80	2	63	48	22	1	27	1.61
15101--15156	21	2.7	20	78	10	67	46	25	1	26	1.63
15211--15240	15	2.1	15	93	6	53	46	26	0	26	1.53
15316--15346	14	2.3	13	94	5	53	41	25	6	25	1.79
15388--15557	7	25.0	7	70	16	58	40	18	0	41	1.51
15384--15556	14	12.2	14	73	11	120	41	19	0	39	1.51
15339--15531	21	9.1	21	67	13	101	40	21	1	36	1.63
17819--17866	25	1.9	25	95	0	87	54	12	10	22	1.68
22670--22703	4	8.5	4	86	0	50	70	0	0	29	0.87
26510--26550	15	2.7	15	88	0	64	21	4	48	24	1.69
31804--31830	6	4.5	6	100	0	54	0	37	33	29	1.58
32117--32151	6	5.8	6	100	0	70	31	34	17	17	1.93
32097--32151	18	3.1	17	85	12	67	29	32	20	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44574--44612	2	19.5	2	100	0	78	48	0	0	51	1.00
47915--47946	2	16.0	2	100	0	64	0	50	0	50	1.00
53093--53269	88	2.0	88	98	0	345	31	12	17	37	1.88
58973--59079	50	2.1	50	96	0	196	24	18	26	30	1.98
60653--60732	40	2.0	40	92	0	133	37	26	5	31	1.78
61684--61732	2	24.5	2	95	0	89	0	48	2	48	1.12
63950--64004	28	2.0	28	92	0	92	29	9	25	36	1.87
69429--69492	28	2.3	28	91	5	103	53	20	7	18	1.69
75321--75354	2	17.5	2	87	6	52	47	2	0	50	1.16
77895--77928	3	11.3	3	100	0	68	64	0	0	35	0.94
79481--79561	23	3.5	23	80	9	101	50	4	0	44	1.23
79483--79611	47	2.8	48	84	4	156	49	10	0	40	1.36
79930--79956	3	9.0	3	100	0	54	66	0	33	0	0.92
80762--80789	11	2.5	11	100	0	56	46	39	0	14	1.44
91858--91883	1	26.0	1	100	0	52	0	100	0	0	0.00
93825--93885	2	30.5	2	100	0	122	49	0	0	50	1.00
94130--94161	2	16.5	2	93	6	57	50	0	0	50	1.00
94536--94575	20	2.0	21	85	14	57	25	0	7	67	1.16
94957--94988	2	16.0	2	100	0	64	50	0	0	50	1.00
96003--96055	17	3.3	17	80	17	60	66	0	0	33	0.92
101172--101223	17	3.2	17	82	15	58	65	0	0	34	0.93
104852--104879	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105337--105376	21	1.9	21	100	0	80	50	5	2	42	1.37
107338--107362	3	8.3	3	100	0	50	68	0	0	32	0.90
108567--108594	1	28.0	1	100	0	56	0	100	0	0	0.00
111599--111783	34	5.5	34	87	3	257	40	26	7	25	1.82
115847--115909	19	3.3	19	90	0	90	34	19	17	28	1.94
116214--116396	34	5.4	34	87	3	253	39	26	7	25	1.83
121121--121155	2	17.5	2	93	0	52	48	5	45	0	1.26
121414--121621	117	1.8	115	87	3	310	43	7	16	32	1.76
122250--122299	23	2.2	23	82	13	59	30	2	2	66	1.14
122798--122824	5	5.4	5	100	0	54	22	18	37	22	1.95
128087--128133	2	23.5	2	95	0	85	0	51	0	48	1.00
134523--134547	2	12.5	2	100	0	50	52	0	48	0	1.00
138283--138312	12	2.5	12	94	0	51	6	26	33	33	1.83
138730--138754	2	12.5	2	100	0	50	48	0	0	52	1.00
139804--139837	2	17.0	2	100	0	68	50	0	0	50	1.00
141287--141334	20	2.3	20	82	10	53	33	0	2	64	1.05
141301--141351	25	2.1	25	82	10	61	31	0	1	66	1.03
146541--146573	2	16.5	2	100	0	66	51	48	0	0	1.00
152226--152353	29	4.5	29	65	16	70	35	3	4	57	1.36
152212--152343	42	3.2	42	69	16	130	32	3	3	60	1.30
152214--152380	84	2.0	83	97	1	316	35	3	3	57	1.33
152233--152369	42	3.3	42	73	11	154	37	2	3	55	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
159289--159328	20	2.0	20	95	0	71	55	0	12	32	1.38
159826--159917	5	18.4	5	70	20	59	78	0	19	2	0.86
159829--159912	26	3.1	27	74	19	86	78	0	19	2	0.86
159872--159917	9	5.1	9	82	7	58	84	0	15	0	0.62
159868--159906	19	2.1	19	90	4	62	79	0	20	0	0.73
159829--159909	24	3.3	24	80	14	94	77	0	19	2	0.88
159982--160045	19	3.2	20	74	17	69	32	1	4	60	1.26
159979--160071	38	2.3	41	83	7	120	31	2	4	62	1.26
161285--161330	2	23.0	2	100	0	92	50	0	0	50	1.00
161503--161532	13	2.2	14	94	5	53	16	36	13	33	1.88
162429--162474	24	1.9	24	95	0	83	45	28	6	19	1.75
162479--162561	28	3.0	28	96	0	148	49	19	10	20	1.78
167056--167101	24	1.9	24	95	0	83	45	28	6	19	1.75
167106--167189	28	3.0	28	96	0	150	50	19	10	20	1.77
169477--169514	18	2.1	18	85	9	51	34	2	13	50	1.55
171344--171385	2	21.0	2	100	0	84	0	50	0	50	1.00
171385--171413	2	14.5	2	100	0	58	48	0	0	51	1.00
176822--176895	36	2.1	36	92	0	121	47	10	25	16	1.79
185381--185407	2	13.5	2	100	0	54	51	0	0	48	1.00
185705--185733	2	14.5	2	100	0	58	51	0	0	48	1.00
188905--188936	16	2.0	16	93	0	55	31	21	25	21	1.98
189447--189515	35	2.0	35	91	0	111	20	24	4	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
200853--200891	17	2.2	19	86	13	57	30	2	2	64	1.21
202774--202823	2	25.0	2	83	0	64	44	2	2	52	1.24
204017--204122	30	3.5	30	75	12	101	41	9	0	49	1.35
204761--204794	3	11.3	3	100	0	68	64	0	35	0	0.94
208358--208489	40	3.2	40	92	3	210	56	4	20	18	1.58
208441--208599	52	2.9	54	87	10	236	54	3	28	13	1.57
208535--208559	2	12.5	2	100	0	50	52	0	48	0	1.00
208441--208599	58	2.9	57	90	8	265	54	3	28	13	1.57
210291--210330	3	13.3	3	100	0	80	67	0	0	32	0.91
210701--210734	5	6.8	5	86	0	50	2	14	17	64	1.40
210701--210734	15	2.3	15	94	0	59	2	14	17	64	1.40
210770--210802	2	16.5	2	100	0	66	51	0	0	48	1.00
210802--210838	2	18.5	2	100	0	74	51	0	48	0	1.00
211083--211121	18	2.2	18	86	9	53	51	0	0	48	1.00
211090--211126	19	2.1	17	90	10	56	51	0	0	48	1.00
214513--214559	3	15.7	3	86	0	67	29	4	34	31	1.77
216467--216531	30	2.2	28	81	15	69	46	3	3	47	1.33
216723--216771	12	4.0	12	91	2	62	28	0	0	71	0.86
216730--216771	3	13.7	3	90	5	66	30	0	0	69	0.89
218040--218092	29	1.9	27	85	11	72	50	0	0	49	1.00
218512--218731	106	2.0	111	85	7	297	40	7	14	37	1.73
224766--225028	130	2.0	131	96	0	483	36	17	13	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
229560--229616	18	3.4	18	75	22	70	31	0	3	64	1.10
229560--229627	31	2.2	31	94	2	120	32	0	2	64	1.08
229688--229732	20	2.1	20	84	12	54	42	0	4	53	1.21
233746--233791	3	15.3	3	90	0	74	0	30	2	67	1.03
234808--235167	134	2.7	134	97	0	684	33	13	20	31	1.92
236671--236710	21	2.0	21	85	5	55	30	22	20	27	1.98
239115--239139	1	25.0	1	100	0	50	0	0	0	100	0.00
240927--240967	7	6.0	7	81	13	50	43	0	0	56	0.99
240934--240981	21	2.3	21	82	7	62	54	0	0	45	0.99
242773--242811	2	19.5	2	100	0	78	0	51	0	48	1.00

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