genome.fa.s16.2.7.7.80.10.50.1000.21.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  21  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)
3283767--3283926	87	1.8	87	83	2	214	46	12	18	22	1.82
3284998--3285596	28	21.1	28	78	8	561	29	29	17	22	1.97
3285689--3285809	49	2.6	45	81	10	136	22	28	19	30	1.98
3290282--3290644	181	2.0	181	96	0	663	28	23	15	33	1.95
3292151--3292300	62	2.4	61	93	1	246	24	30	20	24	1.98
3292339--3292517	61	2.9	61	87	4	252	26	30	19	23	1.98
3292339--3292517	62	2.9	61	87	2	252	26	30	19	23	1.98
3292151--3292726	217	2.7	217	90	2	882	25	30	19	24	1.98
3292400--3292675	156	1.8	148	86	7	392	25	31	19	23	1.98
3292535--3293072	61	9.3	61	76	14	486	26	27	20	25	1.99
3292535--3293072	170	3.1	170	82	10	600	26	27	20	25	1.99
3292536--3293017	231	2.1	225	84	7	607	25	27	20	25	1.99
3292556--3293072	117	4.5	117	81	10	614	25	27	20	26	1.99
3293056--3293189	42	3.1	42	81	3	124	17	26	13	42	1.86
3293780--3293831	19	2.6	21	84	6	72	38	11	17	32	1.85
3296219--3296502	51	5.6	51	86	3	369	30	25	10	32	1.90
3296486--3296561	27	2.8	27	89	2	107	23	31	21	23	1.98
3296513--3296716	79	2.6	79	93	0	345	25	26	16	30	1.97
3296437--3296640	106	1.9	107	84	4	277	27	27	15	28	1.96
3296673--3296745	28	2.6	28	86	0	110	21	28	21	27	1.99
3296437--3296799	186	2.0	186	82	5	457	26	26	16	30	1.96
3296594--3296799	107	1.9	107	82	5	256	24	27	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3301262--3301301	16	2.5	16	87	0	53	85	10	0	5	0.75
3302557--3303032	62	7.6	63	80	10	414	22	28	14	33	1.94
3302560--3303025	123	3.8	124	85	9	573	22	28	15	33	1.94
3302569--3303011	215	2.0	217	90	3	694	23	28	15	32	1.95
3303027--3303598	34	18.0	32	74	16	428	20	32	11	35	1.89
3303006--3303632	61	10.0	61	73	17	425	20	32	11	34	1.89
3302561--3303120	123	4.5	125	81	9	434	22	29	14	33	1.94
3303006--3303656	95	6.9	94	81	10	524	21	32	12	33	1.90
3303317--3303374	26	2.2	27	84	6	82	20	31	12	36	1.89
3303630--3303786	29	5.5	30	79	8	177	29	31	17	20	1.96
3303635--3303786	56	2.7	57	83	11	188	30	32	18	19	1.95
3303803--3304375	49	12.7	47	73	13	399	26	25	18	29	1.98
3303856--3304238	39	9.0	40	72	15	270	27	25	19	27	1.99
3303808--3304336	87	6.0	87	86	6	726	26	25	18	28	1.98
3305660--3305685	13	2.0	13	100	0	52	38	15	15	30	1.88
3305642--3305705	32	2.0	33	87	3	94	40	17	14	28	1.88
3309179--3309203	13	1.9	13	100	0	50	36	16	16	32	1.90
3310556--3310671	38	3.0	40	66	12	114	47	5	19	27	1.71
3310518--3310671	77	2.0	77	100	0	308	42	6	22	28	1.78
3310522--3310655	39	3.5	40	70	11	134	39	6	22	31	1.80
3311277--3311302	13	2.0	13	100	0	52	38	15	15	30	1.88
3312147--3312171	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3315652--3315867	20	9.8	20	69	19	117	30	14	12	43	1.82
3315641--3315849	71	2.9	72	88	4	318	29	14	11	44	1.81
3315722--3315917	91	2.2	91	89	1	295	31	15	11	41	1.83
3315722--3315869	20	6.8	20	73	18	118	29	15	11	43	1.82
3319430--3319513	34	2.5	34	100	0	168	30	14	14	40	1.85
3319452--3319512	13	5.1	13	77	18	78	31	14	14	39	1.87
3322365--3323080	375	1.9	375	98	0	1396	34	16	12	36	1.86
3325442--3325513	28	2.6	27	84	8	83	23	19	34	22	1.96
3325502--3325627	53	2.4	52	81	11	157	34	9	24	31	1.88
3327914--3327968	20	2.8	20	100	0	110	40	10	14	34	1.81
3328006--3328031	13	2.0	13	100	0	52	38	15	15	30	1.88
3327985--3328051	33	2.0	33	88	0	98	43	16	14	25	1.86
3329208--3329269	23	2.8	21	76	16	63	4	14	3	77	1.06
3329227--3329267	12	3.2	12	83	12	55	2	9	2	85	0.78
3329208--3329258	14	3.6	14	79	12	50	3	13	1	80	0.94
3329694--3337117	42	178.6	42	66	9	794	35	16	28	19	1.93
3330919--3333347	84	29.1	84	72	7	921	34	16	29	19	1.94
3331552--3331812	125	2.1	126	81	6	298	36	19	28	16	1.93
3334282--3334578	163	1.8	161	82	5	375	34	14	30	19	1.92
3334814--3334965	80	1.9	80	84	2	207	36	17	27	17	1.93
3336043--3336587	290	1.9	290	80	4	643	36	18	27	17	1.94
3337011--3337145	42	3.2	42	72	4	119	37	15	28	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3336870--3337377	246	2.1	244	83	2	642	36	14	29	19	1.92
3337539--3337775	122	1.9	122	80	3	271	35	16	28	19	1.93
3337607--3338048	167	2.7	168	78	4	376	36	17	27	18	1.94
3337415--3340179	42	66.6	42	68	7	662	35	17	28	18	1.94
3339698--3339794	43	2.3	42	85	1	122	34	19	29	16	1.94
3341440--3341675	79	2.9	78	77	7	249	33	14	26	25	1.95
3341689--3341910	51	4.3	51	81	2	237	31	12	26	29	1.92
3341893--3341969	28	2.8	28	83	0	82	20	20	37	20	1.94
3341956--3342055	52	1.9	51	88	6	148	36	9	23	32	1.86
3341960--3342074	51	2.2	52	83	7	137	37	11	19	32	1.87
3344442--3344467	13	2.0	13	100	0	52	38	15	15	30	1.88
3344578--3344635	21	2.7	22	92	7	102	31	12	17	39	1.86
3344706--3344730	10	2.5	10	100	0	50	68	8	8	16	1.38
3345470--3345716	55	4.9	47	81	15	273	18	21	29	29	1.97
3345517--3345602	26	3.1	28	65	21	72	18	19	32	29	1.96
3345619--3347490	59	32.0	59	86	8	2421	25	20	28	25	1.99
3345391--3347490	118	18.2	118	88	6	2531	24	20	28	26	1.99
3345391--3347490	175	12.1	173	86	7	2406	24	20	28	26	1.99
3353748--3354226	42	11.5	42	68	11	180	34	19	29	16	1.94
3353695--3354226	84	6.4	84	71	8	316	35	19	28	16	1.93
3353955--3354271	84	3.8	84	76	5	266	36	17	28	17	1.93
3353942--3354251	168	1.8	168	81	5	385	35	19	28	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3355441--3355467	13	2.1	13	100	0	54	40	14	14	29	1.86
3355499--3355561	19	3.6	19	76	24	84	34	19	12	33	1.89
3355492--3355561	32	2.2	32	100	0	140	35	18	12	32	1.89
3355518--3355542	13	1.9	13	100	0	50	32	16	16	36	1.90
3355917--3355998	42	2.0	42	87	0	119	36	19	26	17	1.94
3355923--3356079	78	2.0	77	81	3	181	37	17	28	16	1.92
3356081--3356181	42	2.4	42	76	3	96	33	19	28	17	1.95
3356004--3356246	125	1.9	127	81	1	292	34	17	29	18	1.94
3356171--3379498	42	557.5	42	68	9	2198	34	16	28	19	1.94
3356134--3380298	84	288.7	84	70	8	2756	34	16	28	19	1.94
3356867--3357409	299	1.8	299	85	0	773	32	16	31	19	1.94
3357464--3357703	125	1.9	126	82	4	297	33	16	27	22	1.95
3357474--3357753	125	2.2	126	77	5	278	35	15	26	21	1.94
3358724--3358833	35	2.9	36	74	15	105	35	16	31	16	1.91
3360256--3361258	372	2.7	371	83	2	1165	34	16	29	19	1.94
3360654--3361185	288	1.9	287	83	2	710	33	17	29	19	1.95
3360755--3361955	666	1.8	666	84	3	1675	33	17	29	20	1.95
3366392--3367156	419	1.8	419	78	2	872	35	16	27	20	1.94
3369540--3369694	85	1.8	84	84	1	211	35	18	28	18	1.94
3369872--3370421	295	1.9	294	83	2	728	33	16	30	19	1.94
3369483--3370658	631	1.9	630	83	3	1553	35	16	28	19	1.94
3370854--3370945	43	2.2	42	82	2	112	36	17	28	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371220--3371437	85	2.6	83	80	5	240	35	17	27	18	1.94
3373532--3373741	85	2.5	83	79	9	210	33	19	29	17	1.95
3375129--3375353	82	2.7	84	76	6	217	39	18	24	16	1.91
3378454--3378766	165	1.9	164	80	3	360	33	19	27	18	1.96
3378922--3379544	332	1.9	332	78	2	696	34	17	28	18	1.94
3378972--3379636	42	15.9	40	69	12	210	35	17	29	18	1.94
3380057--3380298	42	5.7	43	70	9	167	36	18	28	16	1.93
3382646--3386678	42	96.9	42	67	9	674	35	17	28	18	1.94
3382940--3386419	84	41.9	84	71	7	1074	35	17	27	18	1.94
3383277--3383409	41	3.2	41	73	11	110	36	18	28	15	1.92

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