genome.fa.s339.2.7.7.80.10.50.1000.5.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: Scaffold339
Parameters: 2 7 7 80 10 50 1000
Length:  1314099

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1034 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)
612010--612050	20	2.0	20	100	0	82	80	4	14	0	0.87
612077--612212	7	17.7	7	69	19	58	32	0	0	66	0.97
612075--612256	23	7.9	23	68	12	106	32	1	0	65	1.04
612403--612453	23	2.3	22	89	3	75	23	0	3	72	1.01
612496--612547	24	2.2	24	82	6	61	25	3	0	71	1.03
612496--612548	23	2.2	24	83	3	63	26	3	0	69	1.05
612590--612651	31	2.0	32	87	3	90	33	12	3	50	1.57
613419--613470	19	2.9	18	80	8	52	57	0	0	42	0.98
613803--613840	17	2.3	17	86	4	51	52	5	0	42	1.24
614322--614365	15	2.8	16	80	12	56	59	0	0	40	0.98
614274--614357	36	2.4	34	81	13	98	57	1	1	40	1.14
614320--614367	19	2.5	19	86	6	62	62	0	0	37	0.95
614296--614364	17	3.9	17	73	19	54	57	0	0	42	0.98
614737--614777	21	2.0	21	85	9	57	48	7	9	34	1.64
615980--616019	18	2.3	18	86	4	55	55	0	2	42	1.13
626625--626688	27	2.4	27	86	0	83	23	29	18	28	1.98
626792--626844	26	2.0	26	100	0	106	37	18	0	43	1.51
631744--631769	13	2.0	13	100	0	52	30	15	15	38	1.88
631724--631787	32	2.0	33	90	3	103	28	14	15	42	1.86
633860--633902	20	2.1	20	82	4	50	9	27	44	18	1.80
634343--634380	13	3.0	12	88	11	58	31	18	18	31	1.95
640552--640577	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640532--640595	32	2.0	33	90	3	103	28	14	15	42	1.86
644442--644525	33	2.6	32	85	10	109	50	5	0	44	1.26
645692--645743	26	2.0	26	85	7	70	55	0	26	17	1.42
646222--646250	14	2.0	15	93	6	51	44	6	0	48	1.29
646545--646587	22	2.0	22	95	0	77	16	30	25	27	1.97
646694--646753	5	11.8	5	80	16	54	41	1	1	55	1.20
646697--646753	11	5.0	11	75	14	53	43	1	1	52	1.21
646712--646769	23	2.5	22	80	8	62	44	0	1	53	1.10
646742--646779	19	2.0	20	84	5	51	42	0	0	57	0.98
646767--646806	21	1.9	21	84	0	53	42	0	2	55	1.13
646790--646824	15	2.4	15	90	4	54	31	0	5	62	1.18
649036--649223	20	8.8	20	75	16	162	31	15	11	41	1.83
649096--649273	51	3.7	50	76	15	187	28	16	11	43	1.82
649056--649273	93	2.4	90	90	4	330	29	15	11	42	1.83
649239--649281	21	2.0	21	86	0	59	32	11	11	44	1.77
652854--652886	2	16.5	2	93	0	57	45	0	0	54	0.99
653349--653394	18	2.6	17	83	10	56	65	6	0	28	1.17
654384--654437	16	3.4	16	76	7	56	72	0	0	27	0.85
654384--654437	15	3.4	15	76	7	54	72	0	0	27	0.85
654745--654783	14	2.9	14	84	3	53	43	0	2	53	1.14
658615--658640	11	2.4	11	100	0	52	15	7	0	76	0.99
666844--666876	16	2.0	17	94	5	59	42	6	18	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672513--672615	48	2.1	48	94	1	179	30	18	25	26	1.98
672783--672824	2	20.5	2	95	4	75	47	2	0	50	1.14
674020--674054	14	2.4	14	85	4	52	0	14	5	80	0.89
675725--675781	29	2.0	29	96	0	105	35	8	10	45	1.70
675726--675772	13	3.4	13	74	25	51	38	8	8	44	1.65
676020--676048	4	7.5	4	92	7	51	0	27	0	72	0.85
677265--677333	12	5.8	12	75	10	70	81	0	17	1	0.77
677275--677325	21	2.4	21	90	3	75	84	0	13	1	0.71
677273--677333	22	2.6	25	87	7	92	83	0	14	1	0.72
677265--677330	34	1.9	34	87	0	96	81	0	16	1	0.76
677894--677937	18	2.4	18	81	7	54	38	6	4	50	1.50
679412--679438	13	2.1	13	100	0	54	44	18	14	22	1.86
682999--683040	21	2.0	22	85	4	59	54	2	4	38	1.34
683904--684046	38	3.7	38	80	6	130	27	6	20	44	1.77
683984--684079	39	2.5	38	86	5	131	28	11	16	43	1.83
683994--684079	38	2.2	39	89	2	129	24	12	16	46	1.82
685025--685082	29	2.0	29	96	0	107	22	20	5	51	1.67
685029--685091	29	2.2	29	85	0	81	26	20	6	46	1.75
695473--695506	16	2.1	16	88	0	50	38	32	17	11	1.86
696489--696517	2	14.5	2	100	0	58	51	0	0	48	1.00
698093--698134	21	2.0	21	81	9	50	52	0	7	40	1.29
698758--698804	17	2.6	19	77	19	55	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699193--699222	13	2.3	13	94	0	51	36	16	13	33	1.88
699178--699240	33	1.9	33	90	6	101	33	12	19	34	1.89
705585--705609	13	1.9	13	100	0	50	36	16	16	32	1.90
705674--705698	13	1.9	13	100	0	50	32	16	16	36	1.90
705707--705831	52	2.4	52	95	0	223	36	18	17	28	1.94
709648--710048	79	5.1	79	84	4	510	32	13	26	26	1.94
709646--710048	154	2.6	155	84	4	544	32	13	27	26	1.94
709987--710163	51	3.5	49	78	7	160	35	10	25	28	1.90
712443--712536	20	4.7	20	88	5	120	42	13	15	27	1.85
712575--712600	13	2.0	13	100	0	52	38	15	15	30	1.88
713238--713337	42	2.4	42	81	8	116	42	11	29	18	1.84
713387--713541	43	3.5	44	79	11	165	40	14	24	20	1.89
713357--713536	43	4.1	43	75	11	161	43	12	25	18	1.85
713524--714036	60	8.6	61	79	10	506	26	19	27	25	1.99
713524--714016	183	2.8	175	83	6	589	26	19	27	25	1.99
716810--716869	19	3.2	19	86	6	77	33	11	16	38	1.85
716849--716949	43	2.3	43	94	0	175	26	21	19	31	1.98
718272--718343	23	3.0	23	78	8	63	58	2	0	38	1.13
718273--718336	25	2.5	24	80	7	65	60	3	0	35	1.12
718272--718343	24	3.0	23	75	15	65	58	2	0	38	1.13
718324--718398	29	2.5	30	80	6	71	54	2	2	40	1.28
718441--718465	7	3.6	7	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
718693--718793	48	2.1	48	90	0	157	58	6	1	32	1.36
719339--719381	21	2.1	21	83	12	54	34	0	13	51	1.42
721703--721764	29	2.2	29	82	8	74	33	0	3	62	1.11
721793--721828	18	1.9	19	88	5	56	61	2	8	27	1.39
722373--722440	32	2.1	33	94	2	120	39	2	7	50	1.46
722714--722783	29	2.4	29	81	6	72	38	4	2	54	1.35
723215--723276	32	1.9	32	90	6	99	48	0	8	43	1.32
725812--725935	48	2.6	48	80	5	126	63	4	20	11	1.45
729609--729894	58	4.9	57	77	7	238	26	9	16	47	1.76
729609--729838	117	2.0	114	79	7	250	26	8	16	48	1.74
729705--729795	29	3.1	29	65	12	78	21	9	18	49	1.77
736017--736089	24	3.1	24	74	20	73	31	1	4	63	1.22
736484--736539	27	2.1	27	93	0	94	48	7	26	17	1.73
736511--736661	35	4.5	34	78	15	163	47	5	26	20	1.71
736581--736634	27	2.0	28	88	3	83	48	3	29	18	1.65
736546--736673	63	2.1	62	85	5	170	45	5	28	21	1.74
736480--736681	97	2.1	97	92	1	334	46	5	27	20	1.73
737890--738713	79	10.4	79	92	0	1333	26	25	15	33	1.95
737891--738713	237	3.5	237	96	0	1484	26	25	15	32	1.95
744848--745766	61	15.3	61	86	6	1215	26	28	20	25	1.99
744848--745766	184	5.1	181	86	7	1199	26	28	20	25	1.99
744848--745919	245	4.6	242	86	8	1332	25	28	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
745680--745864	100	1.9	100	89	2	291	24	30	18	26	1.98
745809--745919	55	2.0	55	92	3	188	27	29	18	23	1.98
745625--746402	155	4.9	151	81	12	841	25	28	19	26	1.99
745840--746012	94	1.8	94	91	2	285	27	30	18	23	1.98
746027--746246	55	3.9	55	85	7	273	27	26	21	24	1.99
745785--746461	326	2.1	324	85	7	913	25	28	19	25	1.99
746288--746461	61	2.9	61	83	7	210	25	26	20	27	1.99
746057--746461	216	1.9	210	84	8	534	25	27	20	26	1.99
746444--746545	42	2.4	42	81	12	120	20	29	15	34	1.94
747207--747260	27	2.3	21	71	28	54	48	5	27	18	1.70

Tables:   1   2   3   4   5   6   7   8   9