genome.fa.s72.2.7.7.80.10.50.1000.29.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  29  of  39  ( 4596 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)
4216093--4216147	27	2.0	26	83	13	67	38	0	0	61	0.96
4216074--4216147	28	2.7	27	79	12	71	41	1	0	56	1.07
4216361--4216400	3	13.3	3	100	0	80	32	0	0	67	0.91
4217328--4217374	23	2.0	23	84	8	60	61	0	0	38	0.96
4217587--4217645	29	2.0	31	81	15	72	42	3	0	54	1.17
4217875--4217915	14	2.9	14	88	3	64	58	0	0	41	0.98
4218986--4219021	16	2.2	17	90	5	56	61	8	0	30	1.26
4219569--4219679	58	1.9	58	81	7	136	48	0	0	49	1.13
4219636--4219720	43	2.0	44	84	11	113	56	1	1	41	1.14
4219820--4219870	22	2.2	24	79	10	61	58	3	1	35	1.28
4219827--4219872	22	2.0	23	87	4	67	54	4	2	39	1.32
4220207--4220335	12	9.6	14	64	21	53	61	0	3	35	1.12
4220271--4220331	28	2.2	28	85	8	81	62	0	1	36	1.05
4221869--4221909	20	2.1	20	86	4	57	53	2	0	43	1.13
4221876--4221924	20	2.5	19	83	6	62	59	2	0	38	1.09
4221872--4221924	24	2.2	24	77	9	56	60	1	0	37	1.08
4222377--4222427	6	8.2	6	75	16	50	45	0	0	54	0.99
4222377--4222427	13	4.1	12	74	16	50	45	0	0	54	0.99
4222640--4222674	16	2.1	17	94	5	63	48	0	0	51	1.00
4222646--4222748	53	2.0	52	83	9	129	48	0	0	50	1.07
4222713--4222749	15	2.4	16	86	8	51	51	2	0	45	1.15
4222944--4222987	22	2.0	23	90	4	72	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4222949--4222992	23	2.0	21	83	12	54	52	0	0	47	1.00
4223557--4223604	24	2.0	24	84	15	64	52	0	0	47	1.00
4223626--4223689	19	3.6	19	71	16	55	53	0	1	45	1.10
4223657--4223713	28	2.1	28	84	12	75	56	0	0	43	0.99
4223649--4223712	14	4.5	15	71	24	59	53	0	0	46	1.00
4223635--4223753	33	3.4	34	74	21	95	54	0	0	44	1.05
4223873--4223911	7	6.1	7	88	11	50	69	0	0	30	0.89
4225229--4225261	15	2.1	16	88	5	50	42	0	0	57	0.98
4225549--4225587	13	3.0	13	80	0	51	28	0	0	71	0.86
4225875--4225906	13	2.4	14	85	15	50	46	6	0	46	1.27
4227161--4227203	15	2.8	15	85	3	59	53	0	0	46	1.00
4227173--4227267	34	2.8	33	79	10	104	49	0	1	49	1.07
4227175--4227232	20	3.0	20	72	20	59	53	0	0	46	1.00
4229270--4229309	10	3.9	10	80	6	53	50	0	0	50	1.00
4229361--4229393	13	2.4	14	90	5	50	27	0	0	72	0.85
4229432--4229481	25	2.0	25	84	7	66	44	6	0	50	1.26
4232181--4232211	2	15.5	2	100	0	62	0	48	0	51	1.00
4232903--4232971	3	23.3	3	82	5	79	65	1	1	31	1.11
4233719--4233757	20	2.0	20	85	10	53	48	2	0	48	1.15
4233725--4233773	20	2.7	18	74	25	50	51	2	0	46	1.12
4238999--4239060	32	1.9	32	83	6	81	59	1	0	38	1.07
4239369--4239398	14	2.1	14	93	0	51	30	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4241349--4241379	16	1.9	16	93	0	53	51	3	0	45	1.17
4246202--4246560	50	7.2	50	92	4	591	30	19	21	28	1.98
4246202--4246560	100	3.6	100	98	0	684	30	19	21	28	1.98
4250905--4251263	50	7.2	50	92	4	591	30	19	21	28	1.98
4250905--4251263	100	3.6	100	98	0	684	30	19	21	28	1.98
4257457--4257488	2	16.0	2	100	0	64	50	0	0	50	1.00
4258372--4258520	34	4.4	34	81	0	163	28	5	21	44	1.74
4258382--4258512	68	1.9	68	90	0	208	32	6	17	44	1.73
4262976--4263192	34	6.4	34	82	1	247	23	5	27	43	1.76
4262975--4263192	68	3.2	68	93	0	355	23	5	27	43	1.76
4262975--4263192	102	2.1	102	83	4	278	23	5	27	43	1.76
4264340--4264378	12	3.2	12	81	0	51	48	0	0	51	1.00
4265680--4265719	20	2.0	20	85	9	55	55	0	0	45	0.99
4268436--4268464	1	29.0	1	100	0	58	100	0	0	0	0.00
4271549--4271582	15	2.4	14	90	5	50	44	0	0	55	0.99
4271548--4271591	21	2.1	21	87	8	63	47	0	0	52	1.00
4272480--4272524	10	4.6	10	84	13	58	35	2	0	62	1.08
4272486--4272616	10	12.6	10	72	17	56	36	3	1	58	1.26
4272569--4272619	5	10.6	5	76	16	54	35	1	0	62	1.06
4272569--4272616	15	3.2	15	79	8	62	35	2	0	62	1.07
4272785--4272823	3	13.0	3	100	0	78	33	0	0	66	0.92
4273767--4273820	22	2.4	22	78	9	56	40	0	1	57	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4277474--4277512	21	1.9	21	84	5	53	46	0	0	53	1.00
4277468--4277517	18	2.8	18	82	14	59	44	0	0	56	0.99
4277461--4277567	51	2.1	51	81	10	121	44	0	0	54	1.06
4277477--4277530	18	2.7	19	77	13	56	40	0	0	59	0.98
4277810--4277878	20	3.5	20	71	13	61	50	2	1	44	1.25
4277906--4277950	23	2.0	23	87	12	67	75	8	0	15	1.03
4278095--4278167	11	6.9	11	78	20	68	64	0	0	35	0.94
4278099--4278159	20	3.0	20	81	11	70	65	0	0	34	0.93
4278078--4278182	46	2.4	45	80	7	117	61	1	0	36	1.07
4278095--4278167	5	14.0	5	73	18	51	64	0	0	35	0.94
4278086--4278190	15	6.7	15	71	23	74	61	0	0	37	1.02
4278095--4278205	51	2.2	48	76	18	111	60	0	0	38	1.03
4278212--4278268	19	3.0	20	77	12	59	57	1	0	40	1.09
4278229--4278272	18	2.5	18	85	10	56	61	2	0	36	1.09
4279549--4279627	35	2.4	33	77	10	79	51	0	1	46	1.08
4279538--4279616	40	2.0	40	85	5	106	50	0	1	48	1.08
4282294--4282327	12	2.8	13	86	13	54	14	20	5	58	1.57
4284660--4284697	19	2.0	19	90	10	60	50	0	0	50	1.00
4289983--4290165	20	9.5	22	69	24	76	40	0	1	57	1.08
4289974--4290069	37	2.6	37	81	1	111	43	0	2	54	1.12
4290012--4290154	15	9.2	15	71	19	80	41	0	0	58	1.03
4289979--4290106	30	4.3	30	71	15	95	39	0	2	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4290065--4290139	28	2.7	28	81	6	82	34	0	1	64	1.02
4290599--4290653	24	2.3	23	79	11	58	60	0	0	40	0.97
4290585--4290675	34	2.5	34	81	15	94	60	0	1	38	1.04
4293312--4293336	12	2.1	12	100	0	50	68	0	0	32	0.90
4293311--4293372	19	3.3	18	78	12	63	62	1	1	33	1.14
4293349--4293422	18	4.5	17	71	18	59	56	4	0	39	1.18
4295612--4295656	21	2.2	21	84	7	58	37	2	0	60	1.09
4296022--4296065	20	2.0	23	87	12	67	56	0	0	43	0.99
4296270--4296304	3	11.7	3	100	0	70	65	0	0	34	0.93
4296754--4296818	19	3.5	19	71	14	64	36	0	1	61	1.05
4296758--4296828	36	2.0	36	83	10	92	39	0	1	59	1.06
4297085--4297126	16	2.6	16	84	0	57	59	0	0	40	0.97
4297411--4297450	16	2.4	16	83	8	53	57	0	0	42	0.98
4298046--4298086	16	2.6	16	84	3	57	46	0	0	53	1.00
4298901--4298930	8	3.9	8	95	4	53	36	0	0	63	0.95
4299025--4299130	42	2.4	45	80	16	132	48	0	0	51	1.00
4299068--4299108	21	2.0	21	90	9	66	41	0	0	58	0.98
4298458--4299861	467	3.0	470	90	5	2182	40	6	11	41	1.68
4299360--4299414	16	3.7	15	76	14	51	41	0	0	58	0.98
4299369--4299414	19	2.3	21	85	7	60	43	0	0	56	0.99
4299492--4299618	44	2.9	47	75	17	112	48	0	0	51	1.00
4299504--4299588	41	2.0	45	82	15	108	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4299554--4299618	22	2.8	23	76	19	64	50	0	0	49	1.00
4299832--4299947	5	24.2	5	67	16	59	38	0	0	60	1.03
4299871--4299952	18	4.8	17	72	22	66	39	0	0	60	0.96
4299835--4299938	14	6.6	15	71	17	61	40	0	0	58	1.04
4299842--4299962	61	2.0	60	80	9	138	41	0	0	57	1.04
4299831--4299943	47	2.4	47	81	12	133	39	0	0	59	1.04
4299842--4299950	29	3.6	30	80	8	114	38	0	0	60	1.03
4300537--4300756	34	6.5	34	81	5	214	40	26	5	26	1.78
4300537--4300756	68	3.2	69	80	5	261	40	26	5	26	1.78
4300535--4300756	102	2.2	101	86	4	320	40	27	5	26	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39