genome.fa.s64.2.7.7.80.10.50.1000.32.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   40   41   42   43   44   45   

This is table  32  of  45  ( 5312 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)
5594359--5594401	18	2.6	16	82	17	52	30	9	2	58	1.42
5597188--5597215	2	14.0	2	100	0	56	50	0	0	50	1.00
5598598--5598654	30	1.9	30	85	0	78	38	14	17	29	1.89
5600343--5600405	19	3.6	19	76	24	84	33	12	19	34	1.89
5600362--5600419	13	4.0	13	74	23	53	34	15	17	32	1.91
5600343--5600418	32	2.4	32	97	0	143	32	14	18	34	1.91
5600457--5600484	13	2.2	13	100	0	56	28	14	17	39	1.89
5600437--5600500	33	1.9	33	87	6	94	29	17	14	39	1.88
5601959--5601997	21	1.9	20	85	15	53	53	2	2	41	1.28
5607475--5607553	32	2.5	31	85	6	106	27	16	13	41	1.86
5607991--5608682	79	8.8	79	79	8	667	28	22	12	35	1.91
5607991--5608678	158	4.4	158	85	4	827	28	23	12	35	1.92
5607991--5608678	237	2.9	238	83	5	772	28	23	12	35	1.92
5611750--5611774	10	2.5	10	100	0	50	76	8	0	16	1.02
5613475--5613504	13	2.3	13	100	0	60	40	13	16	30	1.87
5615011--5615062	19	2.7	19	91	8	79	32	21	11	34	1.89
5620189--5620246	4	15.0	4	75	13	50	3	18	1	75	1.03
5620165--5620251	16	5.3	15	72	22	52	2	17	2	78	0.97
5622829--5622855	6	4.5	6	100	0	54	18	51	0	29	1.46
5624713--5624823	55	2.0	55	98	0	213	52	5	12	29	1.61
5625081--5625122	21	2.0	21	85	0	57	40	4	21	33	1.74
5625087--5625130	21	2.1	21	82	0	52	40	4	15	38	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5630551--5630589	2	19.5	2	100	0	78	51	0	0	48	1.00
5631206--5631280	36	2.1	36	87	0	105	30	14	9	45	1.77
5634828--5634872	23	2.0	23	81	0	54	46	6	2	44	1.42
5648025--5648096	17	4.4	17	79	11	87	54	0	0	45	0.99
5647996--5648076	29	2.6	31	77	11	78	56	1	0	41	1.07
5648065--5648109	20	2.2	20	80	0	54	62	2	2	33	1.20
5650407--5650461	21	2.7	19	81	13	56	12	14	0	72	1.12
5655276--5655322	2	23.5	2	100	0	94	51	0	0	48	1.00
5656898--5656924	2	13.5	2	100	0	54	51	0	48	0	1.00
5656936--5656971	16	2.2	16	100	0	72	47	25	22	5	1.73
5658110--5658144	2	17.5	2	100	0	70	51	0	0	48	1.00
5734734--5734766	16	2.1	16	100	0	66	15	18	18	48	1.81
5736034--5736064	16	2.0	15	93	6	53	19	0	3	77	0.90
5737130--5737587	51	9.3	51	87	10	582	19	18	3	58	1.54
5737159--5737242	23	3.4	23	65	15	60	16	15	4	63	1.48
5737251--5737313	20	3.2	19	68	16	56	26	19	1	52	1.55
5737238--5737412	41	4.0	41	84	14	235	22	18	3	55	1.58
5737276--5737338	20	3.0	22	67	19	62	20	20	4	53	1.63
5737143--5737572	132	2.9	137	81	16	483	19	19	3	56	1.57
5737342--5737422	23	3.3	23	68	15	72	17	14	3	64	1.43
5737321--5737587	107	2.5	105	93	4	473	19	18	3	58	1.53
5737136--5737510	183	2.1	180	85	7	499	20	19	3	56	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5738117--5738945	42	19.7	42	75	6	669	38	18	28	14	1.90
5740906--5740946	20	2.0	20	90	0	64	39	21	12	26	1.89
5740958--5740982	13	1.9	13	100	0	50	32	16	16	36	1.90
5740937--5740999	33	1.9	32	87	3	90	33	20	15	30	1.94
5741052--5741103	20	2.7	20	90	3	79	36	17	17	28	1.92
5745643--5745669	13	2.1	13	100	0	54	40	14	14	29	1.86
5745721--5745785	19	3.7	19	75	23	79	38	16	12	32	1.86
5745713--5745783	32	2.2	32	94	0	124	36	16	12	33	1.87
5745740--5745764	13	1.9	13	100	0	50	32	16	16	36	1.90
5754193--5754224	16	2.0	16	93	0	55	18	0	3	78	0.89
5755290--5755754	51	9.1	51	91	6	755	19	17	3	58	1.53
5755290--5755754	155	3.0	153	90	6	755	19	17	3	58	1.53
5755278--5755754	104	4.7	103	90	5	756	18	17	3	59	1.53
5755653--5755727	25	3.2	25	64	24	72	21	18	4	56	1.58
5755743--5755839	41	2.4	42	82	6	119	21	1	6	71	1.14
5757524--5757590	33	2.0	33	88	0	98	34	11	13	40	1.81
5757544--5757568	13	1.9	13	100	0	50	36	16	16	32	1.90
5757633--5757657	13	1.9	13	100	0	50	32	16	16	36	1.90
5757666--5757786	52	2.3	52	97	0	224	34	18	18	28	1.94
5766017--5766099	30	2.8	29	90	7	130	22	28	18	30	1.97
5766102--5766454	34	10.8	34	78	12	350	21	33	13	31	1.91
5766072--5766598	67	8.2	66	78	12	401	21	33	12	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5766463--5766584	37	3.4	36	85	7	176	18	34	13	34	1.89
5766368--5766540	87	2.0	88	94	1	303	20	32	13	32	1.91
5766481--5766598	34	3.4	33	86	11	173	22	33	11	32	1.90
5766463--5766598	71	1.9	70	92	1	227	19	34	12	33	1.90
5766619--5767000	49	7.7	49	84	0	494	25	26	17	30	1.97
5766619--5767000	98	3.9	98	91	1	593	25	26	17	30	1.97
5767930--5767996	33	2.0	33	88	0	98	34	11	13	40	1.81
5767950--5767974	13	1.9	13	100	0	50	36	16	16	32	1.90
5768039--5768063	13	1.9	13	100	0	50	32	16	16	36	1.90
5768072--5768192	52	2.3	52	97	0	224	34	18	18	28	1.94
5776427--5776509	30	2.8	29	90	7	130	22	28	18	30	1.97
5776512--5776864	34	10.8	34	78	12	350	21	33	13	31	1.91
5776482--5777008	67	8.2	66	78	12	401	21	33	12	32	1.91
5776873--5776994	37	3.4	36	85	7	176	18	34	13	34	1.89
5776778--5776950	87	2.0	88	94	1	303	20	32	13	32	1.91
5776891--5777008	34	3.4	33	86	11	173	22	33	11	32	1.90
5776873--5777008	71	1.9	70	92	1	227	19	34	12	33	1.90
5777029--5777859	49	16.8	49	83	2	1004	25	26	17	30	1.97
5777029--5777800	98	7.9	98	94	2	1309	25	26	18	30	1.98
5777037--5777800	195	3.9	195	96	1	1334	24	26	18	30	1.98
5777613--5777800	101	1.9	95	88	7	279	24	25	17	32	1.97
5778730--5778796	33	2.0	33	88	0	98	34	11	13	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5778750--5778774	13	1.9	13	100	0	50	36	16	16	32	1.90
5778839--5778863	13	1.9	13	100	0	50	32	16	16	36	1.90
5778872--5778992	52	2.3	52	97	0	224	34	18	18	28	1.94
5784122--5784170	19	2.4	21	83	10	66	34	6	4	55	1.44
5784249--5784281	2	16.5	2	100	0	66	48	0	0	51	1.00
5784684--5784748	26	2.4	26	79	7	67	49	1	3	46	1.27
5787867--5787905	20	1.9	21	85	15	55	64	5	10	20	1.44
5787871--5787976	54	2.0	54	81	3	124	59	5	10	24	1.52
5789276--5789379	29	3.6	30	71	19	76	46	10	14	28	1.78
5789307--5789476	58	2.9	57	70	15	141	47	15	11	25	1.79
5788625--5790445	912	2.0	912	98	0	3486	42	13	11	32	1.79
5790219--5790388	58	2.9	57	70	15	141	47	15	11	25	1.79
5790537--5790642	56	1.9	56	84	3	142	49	11	11	28	1.73
5794676--5794798	20	5.6	20	70	19	75	30	13	13	41	1.84
5800651--5800704	24	2.2	24	100	0	108	20	38	16	24	1.92
5803241--5804716	28	52.2	28	78	9	938	28	29	15	26	1.96
5803239--5803833	55	10.8	54	80	8	551	24	30	14	30	1.95
5803754--5804768	85	11.7	85	79	7	892	29	29	17	24	1.97
5805508--5805545	20	1.9	20	94	0	67	34	13	7	44	1.72
5805498--5805685	51	3.9	50	77	16	207	29	15	9	45	1.78
5805560--5805637	20	3.8	20	85	8	104	30	15	12	41	1.85
5805508--5805685	92	1.9	91	90	1	284	29	15	10	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5814011--5814054	22	2.1	20	83	8	52	34	11	20	34	1.88
5817681--5817720	21	1.9	21	90	10	64	0	15	0	85	0.61
5818185--5818436	27	9.3	27	77	7	244	49	3	7	38	1.51
5818177--5818436	55	4.8	55	79	6	264	50	4	7	38	1.51
5818351--5818435	14	6.3	13	73	20	68	48	2	8	41	1.46
5818400--5818476	40	1.9	40	86	0	109	48	2	10	38	1.51
5818330--5818530	95	2.1	96	80	6	230	48	3	8	38	1.52
5819211--5819264	2	26.5	2	84	3	72	46	3	0	50	1.19
5823559--5823599	2	20.5	2	100	0	82	0	0	48	51	1.00
5827682--5827721	2	20.0	2	94	0	71	47	50	2	0	1.14

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   40   41   42   43   44   45