genome.fa.s16.2.7.7.80.10.50.1000.26.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  26  of  35  ( 4175 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)
3839542--3839828	57	5.1	56	80	7	280	28	31	15	24	1.95
3839580--3839829	85	2.9	85	82	5	299	29	32	16	22	1.95
3839563--3839814	86	3.0	86	84	5	316	29	31	15	23	1.95
3840298--3840392	1	95.0	1	68	0	55	84	15	0	0	0.63
3840300--3840392	17	5.5	17	77	16	95	83	16	0	0	0.64
3840298--3840392	23	4.4	21	75	11	93	84	15	0	0	0.63
3840307--3840387	25	3.2	25	76	16	87	81	18	0	0	0.69
3840719--3840759	12	3.4	12	86	10	57	87	7	4	0	0.65
3841709--3841765	30	1.9	30	96	0	105	24	24	19	31	1.98
3841756--3842186	34	12.9	34	79	12	412	20	31	12	34	1.91
3841840--3841891	27	1.9	27	96	0	95	23	38	17	21	1.93
3841762--3842186	71	6.3	68	82	11	497	20	32	12	34	1.90
3842036--3842134	29	3.2	29	81	12	110	20	33	14	32	1.92
3841770--3842171	100	4.0	99	85	10	516	20	32	12	34	1.91
3842176--3842308	34	4.0	34	92	1	216	29	33	18	18	1.95
3842177--3842308	67	2.0	67	92	3	221	29	34	18	18	1.94
3842308--3842820	49	10.7	49	85	5	672	24	25	18	31	1.97
3842405--3842777	92	4.0	93	89	7	517	24	25	18	31	1.98
3842303--3842829	141	3.7	141	88	3	757	24	25	18	31	1.97
3842737--3843122	67	6.8	54	70	15	228	24	24	14	36	1.93
3842737--3843042	55	5.5	55	73	14	225	24	23	15	35	1.94
3842737--3843128	171	2.3	171	94	1	676	24	24	14	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3843927--3843993	33	2.0	33	88	0	98	34	11	13	40	1.81
3843947--3843971	13	1.9	13	100	0	50	36	16	16	32	1.90
3844036--3844060	13	1.9	13	100	0	50	32	16	16	36	1.90
3844069--3844188	52	2.3	52	97	0	222	35	18	17	29	1.94
3846221--3846280	30	2.0	30	100	0	120	36	20	16	26	1.93
3851068--3851161	1	94.0	1	67	0	53	84	15	0	0	0.63
3851069--3851161	17	5.5	17	77	16	95	83	16	0	0	0.64
3851068--3851161	23	4.3	21	75	11	91	84	15	0	0	0.63
3851076--3851161	25	3.4	25	81	15	97	82	17	0	0	0.67
3851488--3851528	12	3.4	12	86	10	57	87	7	4	0	0.65
3852477--3852533	30	1.9	30	96	0	105	24	24	19	31	1.98
3852524--3852954	34	12.9	34	79	12	412	20	31	12	34	1.91
3852608--3852659	27	1.9	27	96	0	95	23	38	17	21	1.93
3852530--3852954	71	6.3	68	82	11	497	20	32	12	34	1.90
3852804--3852902	29	3.2	29	81	12	110	20	33	14	32	1.92
3852538--3852939	100	4.0	99	85	10	516	20	32	12	34	1.91
3852944--3853076	34	4.0	34	93	1	225	29	34	18	18	1.94
3852945--3853076	67	2.0	67	93	3	230	29	34	18	17	1.94
3853076--3853538	49	9.6	49	84	6	599	25	25	18	31	1.97
3853173--3853539	92	3.9	93	93	3	585	24	25	18	31	1.97
3853456--3853841	67	6.8	54	70	15	228	24	24	14	36	1.93
3853456--3853761	55	5.5	55	73	14	225	24	23	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3853456--3853847	171	2.3	171	94	1	676	24	24	14	36	1.93
3854646--3854712	33	2.0	33	88	0	98	34	11	13	40	1.81
3854666--3854690	13	1.9	13	100	0	50	36	16	16	32	1.90
3854755--3854779	13	1.9	13	100	0	50	32	16	16	36	1.90
3854788--3854907	52	2.3	52	97	0	222	35	18	17	29	1.94
3856940--3856999	30	2.0	30	100	0	120	36	20	16	26	1.93
3861787--3861883	1	97.0	1	68	0	50	83	16	0	0	0.65
3861792--3861883	15	6.6	14	76	13	84	82	17	0	0	0.67
3861789--3861883	18	5.4	18	75	16	85	83	16	0	0	0.65
3862209--3862252	12	3.7	12	87	0	61	86	6	6	0	0.71
3863202--3863286	30	2.8	31	83	3	109	24	25	17	31	1.97
3863257--3863677	34	12.6	33	80	13	472	20	32	12	34	1.90
3863333--3863416	26	2.9	27	82	13	89	21	36	15	26	1.93
3863263--3863662	101	4.0	100	84	11	477	20	32	13	33	1.91
3863667--3863799	34	4.0	33	89	3	196	29	34	17	18	1.94
3863799--3864311	49	10.7	49	83	9	605	25	26	18	30	1.98
3863799--3864310	96	5.3	95	86	8	632	25	26	18	30	1.98
3863799--3864310	143	3.6	145	85	9	624	25	26	18	30	1.98
3864390--3864549	49	3.1	48	69	14	122	25	23	15	35	1.94
3864228--3864620	171	2.3	171	90	5	623	25	23	14	36	1.93
3865524--3865548	13	1.9	13	100	0	50	32	16	16	36	1.90
3865557--3865677	52	2.3	52	95	1	215	35	18	17	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3867719--3867778	30	2.0	30	100	0	120	36	20	16	26	1.93
3872573--3872667	1	95.0	1	68	0	55	84	15	0	0	0.63
3872578--3872667	13	6.6	14	79	10	98	83	16	0	0	0.65
3872576--3872667	17	5.5	17	80	13	102	83	16	0	0	0.64
3872573--3872667	35	2.7	34	83	12	122	84	15	0	0	0.63
3872575--3872649	23	3.3	23	82	12	93	84	16	0	0	0.63
3872573--3872664	23	4.0	23	73	19	84	83	16	0	0	0.64
3872994--3873036	12	3.6	12	87	0	59	86	6	6	0	0.72
3873984--3874040	30	1.9	30	96	0	105	24	24	19	31	1.98
3874031--3874463	34	12.9	34	78	13	382	21	30	13	34	1.91
3874115--3874166	27	1.9	27	96	0	95	23	38	17	21	1.93
3874084--3874404	67	4.9	61	79	12	277	21	32	14	32	1.93
3874037--3874463	71	6.3	67	79	13	436	21	31	12	34	1.91
3874048--3874463	138	3.1	137	81	14	435	22	31	12	33	1.92
3874045--3874447	101	4.0	99	83	11	484	21	31	13	33	1.91
3874454--3874582	34	3.9	33	88	5	192	30	34	17	17	1.94
3874039--3874530	172	2.9	169	79	10	435	22	32	13	31	1.92
3874582--3875044	49	9.6	49	83	8	576	24	25	18	31	1.98
3874775--3875045	91	2.9	92	93	3	454	24	25	18	31	1.97
3874961--3875267	55	5.5	55	72	15	202	24	23	15	35	1.94
3875124--3875282	49	3.1	49	72	10	131	24	23	16	35	1.94
3874961--3875351	171	2.3	169	91	3	631	24	24	15	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3876156--3876222	33	2.0	33	88	0	98	34	11	13	40	1.81
3876176--3876200	13	1.9	13	100	0	50	36	16	16	32	1.90
3876266--3876290	13	1.9	13	100	0	50	32	16	16	36	1.90
3876299--3876418	52	2.3	52	88	8	190	34	18	17	30	1.94
3878437--3878496	30	2.0	30	100	0	120	36	20	16	26	1.93
3883290--3883376	16	5.4	16	80	19	85	82	17	0	0	0.66
3883285--3883376	22	4.1	22	78	10	107	83	16	0	0	0.64
3883287--3883376	33	2.7	33	83	10	119	83	16	0	0	0.65
3883285--3883363	1	79.0	1	69	0	50	84	15	0	0	0.61
3883700--3883743	12	3.7	12	87	9	63	86	9	4	0	0.70
3883702--3883752	24	2.1	25	85	7	70	84	5	9	0	0.78
3884693--3884749	30	1.9	30	96	0	105	24	24	19	31	1.98
3884757--3885168	34	12.3	34	80	13	453	21	32	12	33	1.91
3884822--3884873	27	1.9	27	96	0	95	23	38	17	21	1.93
3884757--3885168	71	6.1	67	82	11	467	21	32	12	33	1.91
3884757--3885153	99	4.0	98	84	10	486	20	32	13	33	1.91
3885158--3885290	34	4.0	34	93	1	225	29	34	18	18	1.94
3885159--3885290	67	2.0	67	93	3	230	29	34	18	17	1.94
3885290--3885752	49	9.6	49	83	6	590	25	25	17	31	1.97
3885387--3885753	92	3.9	93	93	3	576	25	25	17	31	1.97
3885670--3886055	67	6.8	54	70	15	228	24	24	14	36	1.93
3885670--3885975	55	5.5	55	73	14	225	24	23	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3885670--3886061	171	2.3	171	94	1	676	24	24	14	36	1.93
3886860--3886926	33	2.0	33	88	0	98	34	11	13	40	1.81
3886880--3886904	13	1.9	13	100	0	50	36	16	16	32	1.90
3886969--3886993	13	1.9	13	100	0	50	32	16	16	36	1.90
3887002--3887121	52	2.3	52	97	0	222	35	18	17	29	1.94
3889154--3889213	30	2.0	30	100	0	120	36	20	16	26	1.93
3894001--3894097	1	97.0	1	68	0	59	84	15	0	0	0.62
3894006--3894097	13	6.6	14	79	13	93	83	16	0	0	0.64
3894004--3894097	17	5.5	17	79	14	104	84	15	0	0	0.63
3894424--3894467	12	3.7	12	87	0	61	86	6	6	0	0.71

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