genome.fa.s312.2.7.7.80.10.50.1000.4.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: Scaffold312
Parameters: 2 7 7 80 10 50 1000
Length:  1822960

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

This is table  4  of  12  ( 1415 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)
470616--470803	72	2.6	71	89	4	288	30	14	13	40	1.85
470718--470853	51	2.7	51	94	2	220	31	14	15	38	1.88
470790--470933	31	4.4	31	72	14	135	29	17	13	39	1.88
470770--470905	71	1.9	71	95	0	245	30	15	15	38	1.89
470821--470874	20	2.7	20	94	0	99	37	11	18	33	1.86
470647--470905	122	2.1	123	89	3	389	30	15	14	39	1.86
475200--475299	16	6.2	16	78	1	92	10	14	32	44	1.78
475201--475312	32	3.5	32	83	0	125	11	15	32	41	1.83
476361--476499	16	8.6	16	68	13	79	20	15	24	40	1.90
476355--476499	32	4.5	32	77	8	123	20	15	24	40	1.91
476355--476480	65	2.0	64	81	7	148	21	14	22	42	1.89
476641--476682	21	2.0	22	90	4	68	38	26	14	21	1.91
476671--476735	32	2.0	32	84	3	85	29	13	15	41	1.86
476793--476849	10	6.3	10	73	19	54	22	24	8	43	1.81
478927--478978	21	2.4	21	78	15	61	59	0	23	17	1.37
479607--479643	17	2.1	18	85	14	51	21	2	16	59	1.49
481370--481429	30	2.0	31	83	3	77	31	8	25	35	1.85
481470--481662	96	2.0	96	97	0	368	43	7	19	29	1.79
482222--482246	13	1.9	13	100	0	50	32	16	16	36	1.90
482335--482399	24	2.7	24	87	0	94	26	27	9	36	1.87
482867--482959	36	2.8	34	81	12	120	32	12	24	30	1.93
485974--486020	19	2.3	20	85	7	60	31	10	0	57	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486091--486356	143	1.9	143	85	7	371	31	12	6	50	1.63
488326--489000	150	4.6	148	82	5	701	25	16	17	39	1.91
498171--498210	13	3.1	13	92	0	71	37	15	15	32	1.88
503918--503942	13	1.9	13	100	0	50	32	16	16	36	1.90
503992--504047	19	2.9	19	78	2	58	33	10	23	32	1.89
512682--512737	19	2.9	19	83	2	76	35	14	19	30	1.91
513193--513394	101	2.0	101	100	0	404	30	17	19	31	1.95
515598--515674	2	38.5	2	97	0	145	50	48	0	1	1.09
517295--517334	20	2.0	21	85	5	55	62	7	0	30	1.23
519628--519686	22	2.5	26	71	21	65	59	1	3	35	1.24
520766--520810	22	2.0	22	100	0	90	26	17	31	24	1.97
522355--522413	26	2.2	27	88	8	86	54	0	0	45	0.99
522355--522422	26	2.5	26	86	9	84	52	0	0	47	1.00
526924--527024	52	1.9	53	80	13	120	54	3	5	35	1.43
527587--527641	22	2.3	23	90	9	85	52	0	0	47	1.00
527894--527944	26	1.9	27	88	4	77	54	3	0	41	1.19
528078--528110	17	2.0	17	94	5	59	42	0	0	57	0.98
528194--528251	3	19.3	3	100	0	116	32	0	0	67	0.91
529198--529241	22	2.0	23	90	4	72	59	0	2	38	1.10
530312--530344	3	11.0	3	100	0	66	33	0	0	66	0.92
533769--534036	141	1.9	141	97	0	509	33	15	17	32	1.92
539600--539762	43	3.7	43	68	22	113	54	3	6	36	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539576--539761	92	2.0	91	91	5	304	53	3	5	37	1.42
542242--542279	20	1.9	20	94	0	67	57	5	2	34	1.35
544336--544467	42	3.1	42	87	2	185	44	2	44	8	1.46
544345--544430	24	3.8	24	69	17	76	43	2	44	10	1.51
550735--550854	52	2.3	52	94	2	206	31	17	17	33	1.93
550730--550874	52	2.8	50	85	8	184	31	17	17	33	1.94
550863--550887	13	1.9	13	100	0	50	36	16	16	32	1.90
550931--550955	13	1.9	13	100	0	50	32	16	16	36	1.90
553412--553454	23	2.0	22	86	9	61	39	32	2	25	1.69
553409--553489	35	2.4	34	87	2	117	38	33	2	25	1.70
553455--553510	22	2.5	22	76	0	58	37	28	3	30	1.74
556737--556803	34	2.0	34	90	0	107	38	35	1	23	1.64
556784--556863	22	3.6	22	86	1	106	35	32	5	27	1.79
558504--558545	22	1.9	22	85	9	59	59	0	0	40	0.97
558870--558906	19	1.9	19	94	0	65	35	0	0	64	0.94
559339--559364	13	2.0	13	100	0	52	76	0	0	23	0.78
559387--559437	21	2.4	22	80	6	59	41	1	0	56	1.10
559628--559662	17	2.1	17	94	0	61	37	5	2	54	1.39
559915--559980	31	2.1	32	91	5	107	53	0	0	46	1.00
561266--561307	3	14.0	3	100	0	84	66	0	0	33	0.92
561549--561588	2	20.0	2	84	0	53	50	2	2	45	1.28
564089--564130	22	1.9	22	90	0	66	35	28	4	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564096--564200	34	3.0	34	78	8	120	38	30	1	29	1.68
571201--571225	13	1.9	13	100	0	50	44	8	16	32	1.76
571182--571245	33	1.9	33	87	6	94	40	10	17	31	1.84
571271--571322	13	3.5	13	73	26	50	34	19	13	32	1.90
571279--571341	19	3.6	19	74	24	75	36	19	11	33	1.87
571271--571341	32	2.2	32	97	0	133	36	19	11	32	1.87
573828--573864	19	1.9	19	88	0	56	27	2	8	62	1.37
573852--573883	11	2.8	12	86	13	50	34	0	0	65	0.93
573839--573889	12	4.4	13	77	18	51	33	0	1	64	1.05
573858--573890	16	2.1	16	88	11	50	36	0	0	63	0.95
575488--575544	20	2.8	21	81	7	73	40	14	14	31	1.85
575614--575639	13	2.0	13	100	0	52	38	15	15	30	1.88
581604--581635	8	4.0	8	100	0	64	12	0	25	62	1.30
581983--582028	21	2.2	20	81	11	58	32	19	4	43	1.71
584312--584366	20	2.8	20	88	5	76	40	14	14	30	1.86
584418--584470	20	2.7	20	85	8	72	41	16	13	28	1.86
587650--587675	13	2.0	13	100	0	52	38	15	15	30	1.88
587632--587695	33	2.0	32	90	3	101	39	20	14	26	1.90
593836--593873	13	2.9	13	96	0	67	31	15	18	34	1.92
595192--595246	20	2.8	20	88	5	76	40	14	14	30	1.86
602737--602857	52	2.3	52	97	0	224	28	18	18	34	1.94
602737--602877	52	2.7	51	90	4	212	30	17	18	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602866--602890	13	1.9	13	100	0	50	36	16	16	32	1.90
602933--602999	33	2.0	33	85	0	89	40	11	11	35	1.79
603801--604193	174	2.3	174	97	0	732	37	13	23	24	1.92
604109--604571	49	9.7	49	82	9	557	32	17	24	25	1.97
604108--604572	92	4.9	92	92	4	732	32	17	25	24	1.97
604642--605746	71	16.0	71	85	7	1344	33	12	34	20	1.90
604642--605743	141	8.0	141	85	7	1394	33	12	33	20	1.90
604600--605745	353	3.3	353	93	3	1890	32	12	34	20	1.90
605594--605708	27	4.0	26	71	21	95	27	14	34	22	1.94
605594--605771	28	5.9	28	72	16	133	29	14	33	23	1.93
605485--605773	63	4.5	63	83	8	322	32	12	33	21	1.91
614078--614218	52	2.7	52	91	0	228	30	17	18	34	1.94
614207--614231	13	1.9	13	100	0	50	36	16	16	32	1.90
614273--614310	20	1.9	19	94	5	67	52	10	10	26	1.68
616087--616123	13	2.8	13	95	0	65	29	16	16	37	1.90
616246--616291	21	2.2	20	81	11	58	32	19	4	43	1.71
618584--618638	20	2.8	20	83	5	67	40	12	14	32	1.84
620305--620348	21	2.0	21	86	4	61	34	2	27	36	1.70
620911--620935	13	1.9	13	100	0	50	32	16	16	36	1.90
621035--621059	13	1.9	13	100	0	50	32	20	16	32	1.94
621017--621079	33	1.9	32	90	3	99	36	22	14	26	1.92
621993--622621	153	4.1	148	76	10	384	37	18	17	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621943--622621	152	4.5	154	76	8	527	37	17	17	26	1.93
622725--623490	167	4.6	167	91	0	1153	39	11	13	35	1.81
622725--623490	335	2.3	333	89	2	1144	39	11	13	35	1.81
624434--624459	13	2.0	13	100	0	52	38	15	15	30	1.88
625621--625655	10	3.6	10	88	3	54	8	17	0	74	1.06
626244--627189	333	2.9	330	82	5	1133	50	7	11	30	1.66
626273--627189	165	5.6	165	83	5	1047	50	7	11	30	1.65
630182--630286	52	2.0	52	92	0	174	29	16	14	40	1.87
636461--636507	21	2.3	21	82	13	62	42	14	17	25	1.87
637390--637445	13	4.8	13	75	24	70	41	16	14	28	1.87

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