genome.fa.s32.2.7.7.80.10.50.1000.30.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: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Length:  5587194

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   

This is table  30  of  33  ( 3877 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)
4367250--4367442	85	2.3	85	80	5	219	32	16	29	21	1.95
4367292--4367573	127	2.2	127	81	4	302	32	18	28	20	1.96
4367102--4367893	42	18.7	42	73	3	348	31	16	30	22	1.95
4367383--4367707	169	1.9	169	80	2	375	32	17	27	22	1.97
4367383--4367893	127	4.0	128	77	4	453	32	16	28	22	1.95
4367424--4367743	169	1.9	170	81	3	394	32	16	28	22	1.96
4367499--4367833	85	4.0	86	80	4	315	31	14	28	24	1.95
4367463--4367844	85	4.5	85	80	2	225	31	15	29	23	1.95
4375057--4375082	13	2.0	13	100	0	52	38	15	15	30	1.88
4375091--4375188	30	3.2	30	68	16	92	24	18	19	37	1.94
4375058--4375226	62	2.7	62	90	0	248	30	15	17	36	1.91
4378641--4378698	29	2.0	30	83	10	75	5	3	37	53	1.40
4387767--4388244	163	2.9	163	79	7	443	46	9	11	32	1.73
4387767--4388142	162	2.3	164	82	6	408	45	9	12	32	1.73
4387767--4388535	167	4.7	166	74	8	486	48	9	11	31	1.70
4393414--4393438	13	1.9	13	100	0	50	32	16	16	36	1.90
4393489--4393560	20	3.7	19	78	14	58	41	9	16	31	1.81
4400531--4400564	12	2.8	12	90	0	50	29	23	0	47	1.52
4400531--4400565	15	2.3	15	90	9	54	28	25	0	45	1.54
4401305--4401659	79	4.5	77	77	9	299	35	12	23	29	1.91
4406242--4406267	13	2.0	13	100	0	52	38	15	15	30	1.88
4406224--4406287	32	2.0	33	90	3	103	42	15	14	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4408487--4408536	21	2.3	21	80	10	57	56	4	18	22	1.58
4410334--4410364	15	2.1	15	93	0	53	48	16	22	12	1.80
4418276--4418326	20	2.5	21	93	3	86	37	17	5	39	1.74
4421645--4421671	13	2.1	13	100	0	54	29	14	14	40	1.86
4421656--4421712	19	2.9	19	87	5	78	33	14	17	35	1.90
4423001--4423063	19	3.7	18	76	24	73	33	12	17	36	1.88
4423020--4423044	13	1.9	13	100	0	50	36	16	16	32	1.90
4422999--4423071	32	2.3	32	97	0	137	34	12	17	35	1.88
4425479--4425707	102	2.2	102	86	5	311	30	26	11	32	1.91
4425479--4425711	51	4.6	50	81	4	261	29	26	11	32	1.91
4425690--4425976	79	3.6	79	94	2	495	25	27	16	30	1.97
4425690--4425976	159	1.8	158	93	2	495	25	27	16	30	1.97
4425933--4426003	28	2.5	28	90	0	106	23	30	18	26	1.97
4425852--4426062	107	2.0	107	82	3	255	26	26	14	33	1.95
4425961--4426136	79	2.2	79	81	0	217	28	27	12	31	1.93
4427770--4427804	15	2.3	15	95	0	61	42	0	28	28	1.56
4434827--4434853	13	2.1	13	100	0	54	29	14	14	40	1.86
4434808--4434872	33	2.0	32	87	3	94	32	15	13	38	1.87
4434837--4434894	19	3.1	18	80	11	71	36	15	13	34	1.87
4438451--4438506	20	2.8	20	86	2	67	42	12	14	30	1.82
4443630--4443669	16	2.7	14	78	14	53	42	5	15	37	1.68
4446110--4446230	62	1.9	63	91	1	199	36	14	13	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4448734--4448800	20	3.3	20	70	13	66	40	14	17	26	1.89
4448754--4448821	21	3.3	21	72	15	79	42	14	16	26	1.86
4448734--4448825	40	2.3	40	98	1	175	39	15	16	29	1.89
4452059--4452661	166	3.8	157	79	10	588	28	12	7	51	1.66
4454127--4454478	127	2.8	127	87	4	471	32	11	13	42	1.80
4454999--4455382	157	2.4	154	85	5	486	22	17	21	38	1.93
4458239--4458272	15	2.3	15	89	0	50	82	0	17	0	0.67
4458872--4458907	18	2.0	18	88	0	54	72	0	22	5	1.05
4459183--4459389	112	1.8	111	81	7	256	30	16	12	40	1.85
4460412--4460637	90	2.5	89	82	3	265	26	26	17	28	1.97
4460928--4461032	48	2.2	48	82	0	129	19	25	19	36	1.95
4461312--4461406	41	2.3	42	85	7	122	20	23	14	42	1.89
4461311--4461461	43	3.6	40	78	7	149	17	25	17	39	1.91
4461353--4461874	85	6.2	85	74	4	356	19	29	18	33	1.95
4461387--4461534	42	3.5	42	82	2	154	20	28	19	31	1.97
4461479--4461589	42	2.6	42	79	1	114	23	33	14	28	1.94
4461540--4461703	43	3.9	43	74	7	138	21	29	18	29	1.97
4461775--4461873	42	2.4	42	82	3	110	16	32	19	32	1.94
4462209--4462264	20	2.8	19	89	5	76	37	16	17	28	1.91
4464616--4464641	13	2.0	13	100	0	52	38	15	15	30	1.88
4466859--4466903	21	2.1	21	84	8	56	53	4	20	22	1.63
4469883--4469908	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4472456--4472481	13	2.0	13	100	0	52	38	15	15	30	1.88
4475426--4475456	15	2.1	15	93	0	53	48	16	22	12	1.80
4477538--4477575	13	2.9	13	96	0	67	34	18	15	31	1.92
4479185--4479228	23	2.0	21	82	8	52	15	9	15	59	1.61
4479997--4480052	20	2.8	19	89	5	76	37	16	17	28	1.91
4480122--4480147	13	2.0	13	100	0	52	38	15	15	30	1.88
4480104--4480169	32	2.0	32	88	8	96	45	15	12	27	1.81
4480925--4481253	167	2.0	168	85	3	448	22	33	13	31	1.92
4480916--4481253	84	4.0	84	81	3	403	22	33	13	30	1.93
4482799--4483215	157	2.7	152	81	5	405	28	11	6	52	1.62
4484023--4484412	195	2.0	194	96	0	717	25	9	18	46	1.80
4484909--4485257	127	2.7	128	87	3	490	31	12	14	41	1.83
4488686--4488806	52	2.3	52	97	0	224	28	18	18	34	1.94
4488686--4488826	52	2.7	51	90	4	212	30	17	18	33	1.94
4488815--4488839	13	1.9	13	100	0	50	36	16	16	32	1.90
4488905--4488929	13	1.9	13	100	0	50	32	16	16	36	1.90
4488883--4488949	33	2.0	33	88	0	98	40	13	11	34	1.81
4489316--4489599	156	1.8	155	86	3	410	22	13	21	42	1.88
4491864--4492248	57	6.6	57	79	6	356	30	17	20	31	1.95
4491726--4491978	139	1.8	138	84	5	350	33	15	18	32	1.92
4503526--4503650	20	5.7	20	69	18	79	44	12	14	28	1.82
4503526--4503699	91	1.9	91	86	1	251	43	12	16	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4510077--4510620	156	3.5	155	77	6	505	24	17	19	38	1.93
4510546--4510688	76	1.9	75	85	5	200	27	15	18	39	1.90
4513394--4513429	17	2.1	17	89	0	54	0	16	0	83	0.65
4514677--4515790	32	34.8	32	96	1	2006	16	18	34	31	1.93
4515773--4516482	27	26.0	27	93	1	1168	27	14	34	23	1.93
4515773--4516482	82	8.7	81	94	1	1177	27	14	34	23	1.93
4515773--4516482	109	6.5	108	93	1	1168	27	14	34	23	1.93
4517532--4517565	11	3.0	11	91	8	59	0	0	11	88	0.52
4517532--4517565	6	6.0	6	90	10	54	0	0	11	88	0.52
4517809--4517860	23	2.3	23	86	6	70	5	11	5	76	1.13
4523917--4523957	2	20.5	2	94	0	73	51	2	0	46	1.14
4524308--4524342	12	2.7	13	91	8	54	0	14	0	85	0.59
4527375--4527429	20	2.8	20	94	0	101	41	9	18	30	1.81
4527467--4527538	30	2.4	30	95	0	126	37	15	18	29	1.91
4528178--4528239	21	3.0	21	85	4	72	32	6	27	33	1.82
4528346--4528485	37	3.8	36	69	15	90	54	3	2	40	1.30
4528502--4528551	17	2.8	17	73	26	50	64	0	0	36	0.94
4528506--4528544	20	1.9	21	84	5	53	66	0	0	33	0.92
4533914--4533959	23	2.0	22	87	4	65	41	4	4	50	1.42
4538692--4538727	17	2.1	17	89	0	54	0	16	0	83	0.65
4539979--4540492	32	15.7	32	83	10	614	17	19	32	31	1.94
4540504--4540879	31	11.5	32	80	17	422	15	19	33	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4540395--4540600	108	1.9	112	83	13	277	16	18	33	31	1.94
4540504--4541043	63	8.6	63	80	15	551	15	18	33	31	1.93
4540899--4541028	31	4.2	32	95	4	239	16	17	33	31	1.93
4540903--4541043	62	2.3	63	93	3	243	16	18	34	31	1.93
4541027--4541740	27	26.0	27	91	4	1092	27	14	34	23	1.94
4541012--4541740	109	6.6	109	91	4	1092	27	14	34	23	1.94
4542794--4542827	6	6.0	6	90	10	54	0	0	11	88	0.52
4542794--4542827	11	3.0	11	91	8	59	0	0	11	88	0.52
4543070--4543121	23	2.3	23	86	6	70	5	11	5	76	1.13
4549563--4549597	12	2.7	13	91	8	54	0	14	0	85	0.59

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