genome.fa.s164.2.7.7.80.10.50.1000.3.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: Scaffold164
Parameters: 2 7 7 80 10 50 1000
Length:  2248410

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1726 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)
367844--367895	15	3.5	15	76	5	52	78	1	3	15	0.98
368596--368904	161	1.9	160	85	6	421	41	2	2	52	1.30
368781--368818	20	1.9	20	94	0	67	34	0	0	65	0.93
368813--368871	20	3.1	19	78	9	66	47	0	0	52	1.00
368813--368871	10	6.1	9	76	21	57	47	0	0	52	1.00
368836--368890	20	2.9	19	73	7	51	49	0	0	50	1.00
370728--370773	19	2.4	20	85	7	60	69	6	0	23	1.11
370728--370773	20	2.4	20	82	7	51	69	6	0	23	1.11
372366--372406	2	20.5	2	100	0	82	48	0	0	51	1.00
373119--373158	14	2.9	14	88	3	55	72	0	0	27	0.85
382904--382948	22	2.0	22	91	0	72	46	6	22	24	1.75
386120--386161	21	2.0	21	90	9	68	19	16	0	64	1.30
394606--394702	51	1.9	51	89	0	149	32	8	26	31	1.86
396869--396975	20	5.7	19	77	18	100	41	13	16	28	1.86
396889--396958	33	2.1	33	100	0	140	40	14	18	27	1.89
396869--397025	53	3.0	51	80	9	151	41	14	16	27	1.87
396908--396938	13	2.4	13	100	0	62	38	16	16	29	1.90
398873--398901	14	2.0	15	93	6	51	37	13	0	48	1.43
400713--400746	17	1.9	18	88	5	52	70	14	8	5	1.31
406636--406686	18	2.7	19	72	6	50	47	9	0	43	1.36
406881--406919	2	19.5	2	100	0	78	51	0	0	48	1.00
408858--408995	73	1.9	73	92	3	233	43	7	8	39	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409683--409725	21	2.0	21	100	0	86	37	9	9	44	1.69
412708--412774	2	33.5	2	75	11	57	47	2	2	46	1.33
416047--416084	16	2.3	17	86	4	51	26	5	0	68	1.11
417461--417504	18	2.4	18	84	3	52	63	2	6	27	1.31
417478--417522	19	2.4	19	88	3	65	57	8	6	26	1.54
417676--417746	27	2.7	29	70	16	73	57	0	0	42	0.98
417852--417894	17	2.6	16	82	10	50	65	2	2	30	1.18
417882--417941	28	2.1	29	84	9	79	55	0	1	43	1.10
419987--420020	16	2.1	16	88	0	50	58	5	0	35	1.22
422623--422660	15	2.4	17	86	8	53	28	10	15	44	1.80
422679--422715	18	2.0	19	89	5	58	67	5	8	18	1.36
422679--422715	19	2.0	18	89	5	56	67	5	8	18	1.36
423645--423679	9	3.5	10	92	7	54	20	0	0	80	0.72
423649--423695	18	2.4	20	79	10	53	23	0	2	74	0.93
426494--426532	15	2.6	15	83	0	51	28	48	7	15	1.72
430122--430168	21	2.3	22	79	20	57	40	2	0	57	1.11
430929--430974	15	3.2	15	72	12	51	43	4	4	47	1.42
435698--435739	22	1.9	22	90	9	68	38	0	0	61	0.96
436675--436711	2	18.5	2	94	0	65	48	2	0	48	1.15
436970--437015	16	2.9	16	78	15	60	41	0	0	58	0.98
437044--437081	11	3.5	11	89	7	51	31	2	0	65	1.06
437849--437880	14	2.3	15	89	10	50	21	15	0	62	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438978--439018	22	1.9	21	85	5	55	26	2	7	63	1.33
442319--442348	14	2.1	14	93	0	51	33	6	13	46	1.69
443266--443322	13	3.9	13	76	24	60	35	14	17	33	1.90
443246--443343	32	3.0	32	96	1	178	34	12	17	35	1.87
443244--443341	19	5.8	18	71	28	90	33	12	17	36	1.87
443384--443408	13	1.9	13	100	0	50	32	16	16	36	1.90
443417--443545	52	2.5	52	94	0	222	35	17	17	29	1.93
448729--448807	24	3.3	24	75	10	81	24	22	18	34	1.97
448729--448875	48	3.1	47	78	13	126	26	23	19	30	1.98
448729--448875	24	6.2	24	67	16	74	26	23	19	30	1.98
457371--457434	17	3.6	17	69	8	56	42	1	34	21	1.63
457371--457445	36	2.1	36	90	5	116	45	4	30	20	1.69
460510--461377	32	27.0	31	76	10	551	29	23	19	28	1.98
460476--461377	63	14.0	63	73	10	512	28	23	19	28	1.98
460476--461309	95	8.6	97	74	10	411	28	22	19	28	1.98
460443--461438	126	7.7	130	74	11	585	29	23	19	28	1.98
461183--461309	68	1.9	68	85	6	177	30	20	20	28	1.98
460484--461319	289	2.9	288	78	8	883	28	23	19	28	1.98
460779--461377	258	2.3	256	79	7	627	29	23	19	28	1.98
468240--468399	79	2.0	78	81	3	187	34	12	23	29	1.92
468939--468993	20	2.8	20	80	0	65	30	14	14	40	1.86
472224--472368	78	1.8	78	85	7	204	40	15	18	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472344--472412	28	2.5	27	81	11	77	31	18	26	23	1.97
472378--472525	79	1.9	79	84	5	201	37	13	22	25	1.91
480945--481030	29	3.0	28	74	17	77	18	10	5	65	1.43
492105--492158	26	2.0	26	82	10	65	33	0	1	64	1.04
493265--493300	18	2.1	17	89	5	54	55	0	0	44	0.99
494351--494380	12	2.5	12	94	0	51	76	0	16	6	0.99
495201--495232	12	2.7	12	95	0	55	18	37	25	18	1.94
499970--500025	27	2.1	27	93	0	94	46	5	10	37	1.62
501799--501853	11	5.3	11	73	20	55	69	0	0	30	0.89
501806--501855	19	2.6	19	84	6	57	66	0	0	34	0.92
501813--501854	12	3.6	11	84	9	57	66	0	0	33	0.92
501807--501853	24	2.0	24	91	4	78	70	0	0	29	0.88
503156--503189	14	2.3	15	90	5	52	61	0	0	38	0.96
504459--504502	23	1.9	23	85	0	61	40	11	6	40	1.68
504513--504602	35	2.5	36	82	7	94	40	0	4	55	1.20
504703--504751	26	1.9	25	91	4	80	55	4	4	36	1.38
504707--504765	26	2.3	26	85	5	75	55	5	3	35	1.38
508225--508270	19	2.5	19	92	3	76	60	2	0	36	1.09
508225--508274	18	2.7	18	90	3	73	60	2	0	38	1.09
508910--509033	38	3.2	38	80	6	117	46	3	6	43	1.45
509356--509566	89	2.4	89	81	4	232	39	8	16	36	1.78
512221--512379	78	2.0	78	96	0	291	40	13	15	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516132--516325	71	2.7	71	77	13	205	55	9	1	34	1.40
516699--516772	23	3.4	22	83	14	91	64	1	0	33	1.02
517618--517692	16	4.0	20	67	22	54	49	0	0	50	1.00
517615--517690	26	2.8	26	73	15	66	48	0	0	51	1.00
518262--518317	23	2.4	24	78	3	60	42	0	0	57	0.99
518360--518414	29	2.0	29	82	10	71	41	3	0	54	1.18
519082--519200	26	4.5	27	73	16	99	39	0	0	59	1.03
519123--519226	12	8.6	12	71	22	58	38	0	0	60	1.03
519092--519219	26	4.7	28	77	16	94	38	0	0	60	1.02
519173--519228	17	3.3	16	80	9	58	35	0	0	64	0.94
519093--519228	34	4.1	33	69	20	95	38	0	0	61	1.02
519179--519233	15	3.9	15	75	17	55	34	0	0	65	0.93
520350--520403	2	27.0	2	100	0	108	50	0	0	50	1.00
526107--526155	16	3.0	16	79	5	62	61	14	2	22	1.43
529140--529167	13	2.2	13	100	0	56	21	14	39	25	1.91
531847--531882	18	1.9	19	88	5	56	22	13	2	61	1.46
532828--532901	38	1.9	37	81	10	87	40	9	1	48	1.44
533525--533573	14	3.5	14	74	0	53	34	0	0	65	0.93
533533--533591	20	3.2	19	72	18	52	35	1	0	62	1.05
533586--533631	18	2.5	19	82	3	58	52	0	2	45	1.13
534146--534189	23	2.0	22	86	4	61	38	0	0	61	0.96
535070--535100	16	1.9	16	100	0	62	19	6	6	67	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536114--536156	22	2.0	22	95	0	77	32	27	9	30	1.88
544226--544302	20	3.8	20	74	6	84	42	11	12	32	1.80
544178--544334	51	3.3	50	68	20	138	42	12	16	28	1.85
544246--544380	71	1.9	71	92	0	225	38	12	17	31	1.87
544317--544373	20	2.8	21	76	7	64	36	12	17	33	1.87
545282--545869	28	20.4	29	87	5	795	23	16	30	29	1.96
545282--545869	57	10.2	58	87	6	795	23	16	30	29	1.96
547103--547156	10	5.7	10	76	12	51	3	0	11	85	0.73
548845--548916	20	3.6	20	84	0	99	31	13	13	40	1.85
555183--555226	21	2.1	21	95	0	79	45	4	11	38	1.61

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15