genome.fa.s52.2.7.7.80.10.50.1000.3.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: Scaffold52
Parameters: 2 7 7 80 10 50 1000
Length:  1774672

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1067 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)
510996--511029	2	17.0	2	100	0	68	50	0	0	50	1.00
513119--513180	32	1.9	33	86	3	90	37	3	3	56	1.32
513171--513209	11	3.5	11	85	0	51	30	0	0	69	0.89
513887--513911	7	3.6	7	100	0	50	12	0	0	88	0.53
514165--514204	2	20.0	2	100	0	80	50	0	0	50	1.00
515373--515399	2	13.5	2	100	0	54	48	0	0	51	1.00
515767--515811	22	2.0	22	86	4	63	51	4	4	40	1.42
517642--517910	135	2.0	135	91	0	430	25	20	17	36	1.94
523371--523419	25	2.0	24	84	4	62	55	2	0	42	1.11
526093--526122	15	1.9	16	93	6	53	30	0	0	70	0.88
534327--534421	9	9.6	9	70	23	50	55	1	0	43	1.06
534331--534397	33	2.1	32	86	13	93	56	1	0	41	1.08
534331--534423	33	3.0	30	77	16	84	54	1	0	44	1.07
543808--543851	21	2.1	21	82	0	52	38	2	18	40	1.63
544383--544419	6	5.7	7	87	12	53	56	29	0	13	1.37
544387--544422	6	5.8	6	90	3	54	55	27	0	16	1.42
544387--544422	18	1.9	19	94	5	65	55	27	0	16	1.42
551634--551665	2	16.0	2	100	0	64	50	0	0	50	1.00
552100--552155	19	2.9	19	76	7	69	42	0	0	57	0.99
558392--558418	13	2.1	13	100	0	54	29	14	0	55	1.40
558604--558655	18	2.9	18	80	11	54	38	0	0	61	0.96
558604--558647	19	2.4	19	85	7	56	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558612--558655	17	2.6	18	80	20	58	36	0	0	63	0.95
558717--558783	11	6.3	11	78	13	68	64	2	1	31	1.18
558708--558768	31	2.0	31	86	0	86	62	4	4	27	1.37
564225--564279	22	2.5	21	80	8	65	52	0	0	47	1.00
564511--564540	15	2.0	15	93	0	51	73	3	0	23	0.98
565771--565840	18	3.9	18	67	20	56	48	4	0	47	1.21
565789--565843	24	2.3	24	81	6	67	50	5	0	43	1.25
566705--566808	16	6.9	16	67	30	70	53	0	0	45	1.06
566696--566760	25	2.6	25	80	0	85	53	0	0	46	1.00
566708--566808	32	3.4	30	73	24	90	52	0	0	46	1.07
567052--567148	20	4.6	21	71	28	66	43	1	1	54	1.14
567112--567160	16	2.8	16	85	14	62	44	0	0	55	0.99
567083--567148	19	3.3	21	74	16	61	42	0	0	57	0.98
567112--567181	19	3.8	19	76	14	65	47	0	0	52	1.00
567111--567168	16	3.4	16	81	13	55	44	0	0	55	0.99
567150--567188	19	2.1	19	85	0	51	48	0	0	51	1.00
569713--569752	3	14.0	3	89	10	66	65	0	0	35	0.93
570169--570210	2	21.0	2	95	0	75	47	0	0	52	1.00
574224--574256	2	16.5	2	100	0	66	0	48	0	51	1.00
574510--574566	13	4.8	11	76	16	51	31	0	0	68	0.90
574551--574602	17	3.0	17	71	2	50	48	0	0	51	1.00
574611--574674	20	3.2	19	81	12	67	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)
574635--574670	10	3.6	10	84	0	54	50	0	0	50	1.00
574762--574805	17	2.4	19	85	7	56	65	0	2	31	1.05
577126--577181	27	2.1	27	100	0	112	17	21	14	46	1.84
581019--581065	20	2.3	20	85	3	58	38	2	4	55	1.31
585223--585258	15	2.3	15	90	4	54	63	0	0	36	0.94
586660--586689	2	15.0	2	100	0	60	50	0	0	50	1.00
590842--590871	14	2.1	14	93	0	51	66	0	3	30	1.07
596180--596217	14	2.8	14	92	4	60	63	0	2	34	1.09
596752--596804	7	7.3	7	80	16	54	35	0	0	64	0.94
596751--596805	23	2.5	22	85	5	76	36	0	0	63	0.95
596752--596805	15	3.7	15	78	9	58	37	0	0	62	0.95
596768--596813	21	2.1	22	84	4	58	43	0	0	56	0.99
598367--598417	18	2.9	17	81	18	52	56	1	0	41	1.10
601217--601277	26	2.4	26	76	10	65	36	0	3	60	1.13
601317--601376	19	3.2	19	83	7	68	26	0	1	71	0.95
601328--601386	13	4.6	13	80	4	66	22	0	0	77	0.76
601343--601387	6	7.0	7	90	10	62	22	0	0	77	0.76
601345--601386	7	6.5	6	91	8	57	19	0	0	80	0.70
601328--601386	19	3.1	18	83	9	73	22	0	0	77	0.76
601328--601387	18	3.2	18	81	9	75	23	0	0	76	0.78
601718--601746	2	14.5	2	100	0	58	0	51	0	48	1.00
603976--604032	21	2.8	20	82	15	64	47	3	3	45	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604260--604292	3	11.0	3	100	0	66	33	0	0	66	0.92
604604--604654	19	2.8	18	74	8	50	60	0	3	35	1.15
605238--605298	25	2.3	27	75	16	65	60	0	0	39	0.97
605452--605490	19	2.1	19	85	0	51	53	0	0	46	1.00
607616--607647	2	16.0	2	100	0	64	50	0	0	50	1.00
609703--609728	5	5.2	5	100	0	52	80	0	0	19	0.71
610416--610468	26	2.0	26	96	0	97	28	26	5	39	1.79
628186--628225	17	2.4	17	87	8	55	57	0	0	42	0.98
628404--628453	25	2.0	23	82	17	57	40	0	0	60	0.97
628470--628511	21	2.0	22	81	13	52	52	0	0	47	1.00
629794--629875	30	2.7	31	84	3	96	39	3	0	57	1.16
630449--630497	22	2.3	22	80	16	59	42	0	2	55	1.11
630946--630989	21	2.3	18	84	11	52	45	2	4	47	1.35
637925--637994	31	2.3	29	79	18	79	48	0	1	50	1.09
637944--638000	21	2.7	21	78	10	62	54	0	0	45	0.99
637929--637992	32	2.0	31	85	11	85	50	0	1	48	1.10
638023--638067	21	2.1	22	83	4	56	48	2	0	48	1.13
638454--638509	19	2.9	20	76	7	62	57	0	0	42	0.99
638454--638500	15	3.3	15	82	5	53	57	0	0	42	0.98
645101--645133	2	16.5	2	100	0	66	0	48	0	51	1.00
656794--656837	13	3.1	14	81	15	54	45	0	0	54	0.99
664657--664703	9	5.1	9	75	14	51	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664755--664801	16	2.9	17	84	12	55	36	0	0	63	0.94
665127--665165	21	1.9	19	85	10	51	48	0	0	51	1.00
665585--665710	61	2.0	62	96	1	236	42	13	4	38	1.65
666140--666173	2	17.0	2	100	0	68	50	0	0	50	1.00
669339--669371	2	16.5	2	100	0	66	0	48	0	51	1.00
670579--670655	16	4.8	16	85	0	100	45	5	11	37	1.63
670578--670655	32	2.4	32	86	0	111	44	5	12	37	1.65
671016--671043	7	4.0	7	100	0	56	14	0	0	85	0.59
671269--671394	61	2.1	61	96	3	236	42	11	7	38	1.68
679711--679791	26	3.3	24	71	18	69	51	0	0	48	1.00
679696--679789	48	1.9	50	82	8	122	51	0	0	48	1.00
679726--679830	39	2.5	42	80	10	110	50	0	0	49	1.00
689508--689693	60	3.1	60	94	1	327	22	19	11	46	1.82
694642--694677	2	18.0	2	100	0	72	50	0	50	0	1.00
695150--695243	18	5.2	18	71	17	70	58	0	0	41	0.98
695149--695251	19	5.7	18	73	21	83	59	0	0	40	0.98
695175--695249	11	6.8	11	68	20	50	61	0	0	38	0.96
695150--695263	17	7.0	17	70	22	77	57	0	0	42	0.99
696810--696845	2	18.0	2	94	0	63	52	0	0	47	1.00
696811--696851	10	4.1	10	93	0	55	58	0	0	41	0.98
697212--697256	2	22.5	2	100	0	90	51	0	48	0	1.00
704030--704054	2	12.5	2	100	0	50	52	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704538--704610	27	2.7	27	77	14	78	46	0	0	53	1.00
704564--704617	27	2.0	27	82	7	65	46	0	0	53	1.00
704921--704952	13	2.5	13	89	0	55	46	6	0	46	1.27
707927--707986	28	2.1	28	84	0	75	58	1	1	38	1.18
709762--709804	22	2.0	22	90	9	70	41	0	0	58	0.98
713259--713303	2	22.5	2	95	0	81	46	0	2	51	1.13
713812--713869	17	3.4	18	80	17	63	32	1	3	62	1.22
713821--713856	16	2.2	17	90	5	56	33	2	5	58	1.36
713916--713973	29	2.0	28	83	3	71	51	3	1	43	1.28
723440--723464	2	12.5	2	100	0	50	52	0	48	0	1.00

Tables:   1   2   3   4   5   6   7   8   9