genome.fa.s263.2.7.7.80.10.50.1000.4.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: Scaffold263
Parameters: 2 7 7 80 10 50 1000
Length:  1338270

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

This is table  4  of  10  ( 1134 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)
548158--548204	21	2.3	20	86	13	69	40	0	0	59	0.97
548762--548877	28	4.2	27	75	14	85	51	0	0	48	1.00
548802--548847	17	2.6	18	82	3	58	50	0	0	50	1.00
549542--549571	15	2.0	15	93	0	51	46	16	0	36	1.47
549675--549709	2	17.5	2	100	0	70	51	0	0	48	1.00
553937--553992	21	2.7	20	81	13	60	35	3	0	60	1.14
553937--553999	20	3.1	21	79	18	64	38	3	0	58	1.14
553951--553999	22	2.4	20	83	16	57	42	4	0	53	1.20
555334--555366	16	2.1	16	94	0	57	33	6	18	42	1.75
560267--560314	25	1.9	25	91	0	78	43	18	14	22	1.87
563287--563332	22	2.3	20	78	14	51	50	2	2	45	1.26
567460--567502	13	3.1	14	81	12	54	65	0	0	34	0.93
567464--567505	14	3.1	14	80	16	52	61	0	0	38	0.96
567887--567943	24	2.5	22	83	11	62	33	1	3	61	1.23
568094--568194	33	3.1	33	75	12	109	32	0	5	60	1.27
568146--568653	73	7.0	72	78	7	453	38	0	5	55	1.30
568077--568653	145	4.1	141	81	7	559	38	1	5	54	1.32
568495--568620	40	3.3	40	70	15	122	46	0	0	53	1.00
569189--569233	19	2.3	19	76	3	54	44	0	0	55	0.99
569612--569658	20	2.3	21	79	17	55	59	0	0	40	0.97
572071--572111	21	2.0	21	95	0	73	24	17	19	39	1.92
572489--572972	134	3.5	132	75	17	414	37	1	6	54	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572470--572934	141	3.4	133	80	11	492	36	1	7	54	1.36
572470--572934	72	6.7	70	78	10	456	36	1	7	54	1.36
573914--573946	13	2.4	14	85	5	50	63	0	0	36	0.95
574510--574645	65	2.1	65	79	8	143	38	3	6	50	1.46
574810--574863	18	3.0	18	80	0	63	48	0	3	48	1.19
575657--575685	4	7.2	4	100	0	58	75	0	0	24	0.80
576528--576569	22	1.9	22	90	0	66	40	0	0	59	0.97
578687--578729	22	2.0	22	86	9	61	41	0	9	48	1.35
578704--578812	30	3.5	30	76	8	103	47	0	11	41	1.39
578915--578995	40	2.0	40	92	0	135	35	17	12	34	1.87
582469--582506	8	4.8	8	86	0	58	50	10	0	39	1.37
582966--582990	7	3.6	7	100	0	50	88	0	0	12	0.53
585375--585419	19	2.4	19	82	10	56	51	4	2	42	1.34
586053--586104	27	1.9	27	84	7	70	50	5	0	44	1.26
589293--589322	3	10.0	3	92	0	51	63	0	0	36	0.95
590649--590693	21	2.1	21	84	8	56	46	0	35	17	1.49
593574--593599	1	26.0	1	100	0	52	0	100	0	0	0.00
593827--593869	16	2.6	16	85	10	52	44	0	2	53	1.13
594349--594395	23	2.0	24	83	4	60	61	0	0	38	0.96
594357--594394	15	2.5	15	83	12	51	57	0	0	42	0.98
595033--595136	50	2.1	50	82	10	124	47	0	0	50	1.14
595359--595385	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596665--596696	14	2.3	14	94	0	55	46	0	3	50	1.17
596768--596859	47	2.0	47	95	0	166	42	20	5	31	1.75
597053--597088	2	18.0	2	100	0	72	50	0	0	50	1.00
600527--600642	21	5.5	21	70	19	80	46	0	0	52	1.06
600600--600646	14	3.1	14	80	20	51	40	0	0	59	0.97
600586--600646	32	1.9	31	90	3	95	40	0	0	59	0.98
600586--600678	32	2.9	32	78	13	86	43	1	1	54	1.14
600534--600637	51	1.9	50	81	12	118	47	0	0	51	1.07
601035--601092	20	2.7	22	78	10	66	44	0	1	53	1.10
601037--601092	21	2.6	21	83	8	69	44	0	1	53	1.11
601067--601119	18	2.9	18	76	15	56	49	0	0	50	1.00
601860--601884	13	1.9	13	100	0	50	68	0	0	32	0.90
602408--602447	20	1.9	20	85	10	53	55	0	0	45	0.99
602418--602468	23	2.3	22	86	3	66	49	0	3	47	1.20
602705--602797	28	3.6	27	76	15	81	43	0	3	53	1.16
602710--602780	30	2.4	29	84	9	83	46	0	2	50	1.16
602731--602813	13	5.9	14	74	13	55	38	1	1	59	1.13
602776--602813	15	2.5	15	91	4	58	28	2	0	68	1.03
603409--603453	13	2.8	17	71	28	53	51	0	0	48	1.00
603421--603515	26	3.6	27	75	16	83	54	0	0	45	0.99
603425--603496	15	4.4	17	74	20	64	55	0	0	44	0.99
603474--603521	20	2.4	20	82	0	60	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605030--605076	24	1.9	25	91	4	78	61	4	4	29	1.34
605444--605488	21	2.1	22	84	8	58	37	4	6	51	1.49
606315--606377	34	1.9	33	83	6	83	49	0	0	50	1.00
606366--606408	19	2.4	19	88	7	63	41	0	0	58	0.98
606357--606436	42	1.9	40	82	12	99	45	1	0	53	1.08
610096--610545	115	3.9	115	83	2	512	35	16	20	28	1.94
610849--610883	17	2.1	17	89	5	54	45	0	2	51	1.16
611754--611794	14	3.0	14	80	16	50	51	0	0	48	1.00
611757--611811	20	2.7	20	83	13	60	52	0	0	47	1.00
612279--612315	16	2.3	16	85	0	56	72	0	0	27	0.84
612297--612382	40	2.2	37	82	11	102	51	0	0	48	1.00
616104--616146	21	2.0	21	82	8	52	62	0	0	37	0.95
616333--616396	22	3.0	21	76	15	69	70	0	0	29	0.88
616345--616396	21	2.6	19	80	14	59	73	0	0	26	0.84
616366--616464	16	5.6	18	72	19	84	60	2	0	37	1.08
621554--621626	36	2.0	37	94	2	130	50	1	2	45	1.24
622152--622197	15	3.1	15	83	0	56	23	60	4	10	1.47
622151--622191	21	2.0	21	90	0	64	26	58	4	9	1.50
622353--622409	27	2.1	28	90	3	89	57	17	12	12	1.64
622353--622409	28	2.0	28	86	6	80	57	17	12	12	1.64
624076--624153	29	2.7	29	78	9	79	53	0	0	46	1.00
624075--624151	40	1.9	40	84	5	102	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624221--624255	18	1.9	18	100	0	70	45	2	0	51	1.16
624221--624273	24	2.2	25	83	10	65	45	7	0	47	1.31
624698--624741	19	2.2	20	88	4	63	70	2	0	27	0.99
628819--628851	15	2.1	16	88	5	50	33	0	6	60	1.21
633991--634018	2	14.0	2	100	0	56	50	0	0	50	1.00
633644--633997	194	1.8	191	85	6	453	38	12	15	33	1.85
634047--634100	23	2.4	22	78	6	63	44	0	0	55	0.99
634410--634435	11	2.4	11	100	0	52	46	0	0	53	1.00
634431--634472	22	2.0	21	86	9	59	50	0	0	50	1.00
634514--634541	7	4.0	7	100	0	56	28	0	0	71	0.86
638940--639029	28	3.0	28	77	17	92	37	4	12	45	1.62
645029--645060	2	16.0	2	100	0	64	0	50	0	50	1.00
645704--645748	2	22.5	2	95	0	81	46	0	0	53	1.00
646915--647031	49	2.3	51	80	16	129	50	1	0	47	1.11
647240--647384	11	13.9	11	66	17	60	42	0	1	55	1.13
647292--647345	16	3.4	16	76	19	58	50	0	3	46	1.19
647325--647404	23	3.4	23	77	14	83	37	0	0	62	0.95
647345--647410	25	2.8	23	82	13	89	33	0	0	66	0.92
647343--647418	25	2.9	26	79	18	86	35	0	0	64	0.94
647680--647704	13	1.9	13	100	0	50	56	0	0	44	0.99
647650--647732	35	2.4	36	80	13	95	55	0	1	43	1.07
647662--647731	29	2.4	30	79	9	74	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648157--648206	19	2.4	21	87	9	68	64	0	6	30	1.18
648225--648406	31	6.0	30	68	20	96	58	1	0	39	1.12
648225--648274	17	3.1	17	76	23	63	56	0	0	44	0.99
648265--648297	14	2.4	14	85	5	50	54	0	0	45	0.99
648216--648287	32	2.2	33	83	11	96	52	1	0	45	1.09
648233--648395	17	9.6	17	70	18	90	59	1	0	38	1.13
648663--648719	27	2.2	25	87	6	78	43	0	5	50	1.24
649670--649715	18	2.6	17	82	3	56	50	0	0	50	1.00
649936--649980	2	22.5	2	100	0	90	51	48	0	0	1.00
649980--650008	2	14.5	2	100	0	58	51	0	0	48	1.00

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