genome.fa.s29.2.7.7.80.10.50.1000.27.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   

This is table  27  of  34  ( 4030 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)
4165099--4165233	46	2.9	46	80	10	143	38	10	30	20	1.86
4169177--4169211	12	2.9	12	91	0	52	0	25	0	74	0.82
4169926--4170049	63	2.0	64	84	9	166	46	10	11	31	1.73
4179884--4179939	20	2.8	20	88	0	85	33	12	14	39	1.83
4179835--4179989	70	2.2	71	88	3	224	29	16	12	41	1.85
4184016--4184054	17	2.4	17	86	4	53	82	0	15	2	0.79
4185406--4185587	89	2.1	88	80	7	199	21	20	13	44	1.85
4185439--4185592	44	3.5	43	72	18	138	19	20	14	45	1.85
4185440--4185614	89	2.0	88	80	6	201	21	20	14	44	1.87
4186339--4186494	35	4.4	35	76	3	143	23	25	10	41	1.86
4186339--4186494	71	2.2	70	82	3	179	23	25	10	41	1.86
4186463--4186716	48	5.3	47	82	2	240	21	22	15	40	1.90
4186500--4186716	96	2.3	96	85	2	276	21	21	15	41	1.90
4186724--4186966	44	5.5	42	72	12	168	21	24	15	38	1.92
4186729--4187013	88	3.2	88	84	3	367	21	23	15	39	1.91
4186766--4187063	132	2.3	131	78	9	295	21	22	15	40	1.91
4187187--4187305	43	2.8	43	83	3	152	15	26	21	36	1.93
4187182--4187907	42	17.2	42	74	5	331	16	27	18	37	1.93
4191738--4192493	166	4.6	165	82	7	822	29	11	8	50	1.67
4194548--4194728	31	5.6	31	81	14	199	32	12	25	29	1.92
4194548--4194740	65	3.0	62	87	8	255	33	12	24	29	1.92
4194550--4194740	96	2.0	97	90	5	307	32	12	24	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4195211--4195247	20	1.9	20	88	5	58	70	8	2	18	1.25
4195211--4195257	19	2.4	20	85	3	60	68	6	4	21	1.30
4201185--4201527	181	1.9	180	87	5	505	35	17	18	28	1.94
4202814--4202908	41	2.3	41	87	3	138	30	7	31	30	1.85
4206947--4207019	16	4.8	16	69	23	50	52	2	2	42	1.30
4216382--4216685	152	2.0	152	99	0	599	26	10	29	32	1.90
4218571--4218631	31	2.0	31	96	0	113	31	32	11	24	1.91
4221254--4221431	80	2.2	80	80	0	203	30	17	25	26	1.97
4221254--4221452	80	2.5	80	79	1	200	30	16	26	26	1.96
4221393--4221907	80	6.4	79	72	6	356	31	16	26	25	1.97
4221354--4221825	241	2.0	240	83	1	604	30	16	27	25	1.97
4221563--4221911	160	2.2	159	88	0	518	31	16	26	25	1.96
4221963--4222042	28	2.9	28	90	0	115	8	26	30	35	1.87
4222008--4222137	60	2.2	60	87	1	181	18	23	26	30	1.98
4222252--4222380	65	2.0	65	83	3	161	19	22	28	29	1.98
4222365--4222448	36	2.3	37	81	4	98	21	16	28	33	1.95
4222416--4222800	32	12.0	31	75	10	265	26	18	26	28	1.98
4222407--4222593	100	1.9	100	87	4	279	26	20	26	26	1.99
4222517--4222800	31	9.0	31	80	5	239	26	18	26	28	1.98
4222533--4222800	63	4.3	62	79	7	184	27	17	26	28	1.98
4222375--4222633	132	1.9	136	80	3	301	24	19	28	27	1.98
4227776--4227894	42	2.8	42	92	0	193	8	46	2	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4227809--4227884	12	6.9	11	75	15	52	9	48	2	39	1.49
4227800--4227885	24	3.8	24	72	17	85	10	45	2	41	1.51
4227791--4227861	18	3.6	18	69	20	52	9	43	2	43	1.52
4229510--4229639	31	4.1	31	86	5	154	28	19	23	28	1.98
4229509--4229639	63	2.1	65	83	9	164	29	19	23	28	1.98
4230072--4230127	18	3.0	18	75	17	53	37	8	25	28	1.86
4230703--4230768	33	2.0	33	84	0	87	31	6	24	37	1.80
4234113--4234226	31	3.7	31	86	0	165	28	27	21	22	1.99
4234113--4234235	62	2.0	62	91	0	201	29	27	20	22	1.98
4234113--4234255	62	2.3	62	87	2	198	29	27	20	21	1.98
4234258--4234800	79	6.6	79	79	8	480	25	29	15	29	1.96
4234274--4234396	39	3.1	39	64	19	101	24	28	16	30	1.96
4234431--4234606	89	1.9	91	84	5	232	22	27	17	32	1.96
4239922--4240173	60	4.3	59	80	8	264	31	31	18	18	1.95
4239923--4240024	32	3.3	32	68	15	106	32	31	16	19	1.94
4240042--4240421	156	2.4	156	77	4	401	30	31	19	18	1.96
4240253--4240480	96	2.4	97	79	3	219	31	30	17	20	1.96
4240095--4240703	252	2.4	252	88	3	911	31	31	18	18	1.95
4240505--4240917	97	4.2	97	84	2	515	30	30	19	19	1.96
4240546--4240917	196	1.9	195	88	2	568	30	30	19	19	1.96
4240830--4241001	65	2.7	65	90	0	283	36	33	17	13	1.89
4241271--4241450	80	2.2	80	80	3	211	27	24	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4244259--4244334	12	6.9	11	75	15	52	39	2	48	9	1.49
4244258--4244343	24	3.8	24	72	17	85	41	2	45	10	1.51
4244249--4244367	42	2.8	42	92	0	193	42	2	46	8	1.47
4247240--4247269	12	2.5	12	100	0	60	33	13	26	26	1.93
4250245--4250316	12	6.5	11	75	16	53	40	1	47	11	1.48
4250235--4250314	42	1.9	42	92	0	133	43	1	46	8	1.42
4250274--4250344	33	2.2	33	92	0	115	40	1	46	11	1.48
4250235--4250323	42	2.1	42	87	0	124	44	1	43	10	1.45
4263835--4263929	32	3.0	31	83	4	102	46	22	7	24	1.77
4264154--4264254	53	1.9	53	91	0	166	34	20	12	31	1.91
4270038--4270517	149	3.0	162	77	15	512	29	10	9	49	1.69
4271439--4271510	12	6.5	11	73	22	62	38	1	45	13	1.53
4271459--4271561	9	12.1	9	66	19	51	43	1	42	11	1.52
4271438--4271586	42	3.5	42	88	0	208	42	2	43	11	1.52
4271428--4271610	84	2.2	84	79	5	205	45	1	42	10	1.48
4276655--4276746	24	4.2	23	72	18	79	42	3	44	9	1.53
4276646--4276764	42	2.8	42	90	0	184	42	3	45	8	1.51
4284249--4284409	42	3.8	42	94	0	268	9	45	2	42	1.49
4284282--4284399	12	10.9	11	75	16	72	10	47	2	39	1.51
4284277--4284379	9	12.1	9	69	12	65	10	44	2	41	1.54
4294485--4294560	12	6.9	11	75	15	52	39	2	48	9	1.49
4294484--4294569	24	3.8	24	72	17	85	41	2	45	10	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4294475--4294593	42	2.8	42	92	0	193	42	2	46	8	1.47
4304991--4305021	15	2.1	15	93	0	53	12	22	16	48	1.80
4308335--4308386	19	2.7	20	87	6	79	28	13	19	38	1.89
4308335--4308392	19	3.0	18	82	12	71	25	12	22	39	1.89
4316099--4317328	612	2.0	612	91	1	2002	33	18	19	28	1.95
4320598--4320652	22	2.6	22	77	5	60	41	10	16	30	1.83
4320699--4320724	13	2.0	13	100	0	52	30	15	15	38	1.88
4320713--4320766	21	2.7	20	77	8	65	35	14	12	37	1.85
4321374--4321541	61	2.8	61	72	0	156	35	15	24	24	1.94
4321498--4321623	52	2.4	52	80	2	128	31	17	26	24	1.97
4321706--4322176	52	9.1	52	82	3	556	35	17	24	22	1.95
4321706--4322192	104	4.7	103	86	3	620	35	17	24	22	1.95
4321706--4322175	209	2.3	207	86	3	622	35	17	24	22	1.95
4322192--4322316	32	3.9	33	87	4	175	18	16	34	31	1.93
4322183--4322309	65	2.0	61	87	6	182	20	14	33	30	1.93
4322350--4322854	34	15.5	35	71	18	176	38	11	29	20	1.87
4322313--4322506	96	2.0	95	87	4	275	35	12	30	20	1.90
4322419--4322478	27	2.2	27	87	0	93	36	15	31	16	1.90
4322495--4322602	27	3.7	27	70	20	81	37	8	29	25	1.85
4322350--4322868	61	8.0	65	76	12	364	38	11	29	20	1.87
4322585--4322868	95	2.9	101	78	12	318	39	10	29	20	1.87
4322741--4322798	27	2.1	27	93	0	98	39	15	25	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4322673--4322890	95	2.3	95	87	0	310	36	11	29	22	1.90
4322872--4322945	30	2.5	30	84	0	94	25	13	36	24	1.92
4322978--4323112	33	4.2	32	77	13	127	34	14	29	22	1.93
4322923--4323041	30	3.9	30	73	12	89	28	15	32	23	1.95
4324358--4324395	13	2.8	13	88	4	58	0	2	7	89	0.57
4341443--4341859	90	4.6	89	78	4	374	27	29	14	29	1.95
4342093--4343295	44	27.4	44	70	12	578	21	23	15	40	1.90
4343463--4343736	43	6.4	42	75	6	203	20	27	16	36	1.93
4343463--4343736	85	3.2	84	79	6	300	20	27	16	36	1.93
4343591--4343756	43	3.9	42	76	9	122	17	27	16	38	1.91

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