genome.fa.s28.2.7.7.80.10.50.1000.3.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: Scaffold28
Parameters: 2 7 7 80 10 50 1000
Length:  2815568

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  3  of  16  ( 1890 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)
361992--362087	42	2.3	43	77	12	99	58	15	13	12	1.64
364169--364207	18	2.1	19	90	4	62	41	0	0	58	0.98
364370--364427	20	3.1	19	80	11	57	32	1	5	60	1.29
364379--364417	20	1.9	21	89	5	62	33	2	2	61	1.23
364715--364770	26	2.2	26	83	6	69	50	1	1	46	1.22
364903--364959	28	1.9	31	86	10	84	56	1	3	38	1.27
365038--365111	32	2.3	32	80	13	89	44	1	0	54	1.08
365038--365111	34	2.3	34	84	9	93	44	1	0	54	1.08
365017--365098	27	3.0	26	76	15	76	39	1	2	57	1.20
371995--372027	17	1.9	17	88	11	50	66	0	0	33	0.92
373203--373233	14	2.2	14	100	0	62	64	0	0	35	0.94
374916--374953	13	2.9	13	96	0	67	31	15	18	34	1.92
377027--377057	15	2.1	15	93	0	53	12	22	16	48	1.80
381119--381144	13	2.0	13	100	0	52	30	15	15	38	1.88
381183--381258	21	3.7	21	80	3	100	28	17	11	42	1.84
381204--381276	20	3.6	20	81	3	101	31	19	13	35	1.91
381183--381276	41	2.3	41	98	0	179	29	18	12	39	1.88
386112--386136	13	1.9	13	100	0	50	36	16	16	32	1.90
386200--386224	13	1.9	13	100	0	50	32	16	16	36	1.90
386233--386348	52	2.2	52	95	0	205	34	18	17	30	1.93
393280--393307	14	2.0	14	100	0	56	85	14	0	0	0.59
393633--393667	1	35.0	1	88	0	52	94	2	2	0	0.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393632--393660	15	1.9	15	100	0	58	93	6	0	0	0.36
393634--393667	14	2.4	14	95	0	59	94	2	2	0	0.38
394609--394772	31	5.3	30	85	10	197	25	29	17	28	1.97
394606--394825	93	2.3	93	81	10	252	22	30	16	30	1.96
394738--395437	132	5.2	132	85	9	794	20	33	12	34	1.90
394733--395437	34	20.8	33	81	11	731	20	33	12	34	1.90
395270--395323	27	2.0	27	92	0	90	22	37	14	25	1.93
395325--395405	40	2.0	43	85	9	116	17	25	9	46	1.78
395298--395437	35	3.8	38	77	15	132	18	30	11	39	1.86
395372--395457	35	2.4	36	88	7	131	20	38	10	30	1.87
395442--395511	33	2.1	35	94	5	126	25	37	17	20	1.94
395511--396130	49	12.8	49	83	4	778	25	26	17	30	1.97
395506--396120	98	6.4	98	93	3	930	25	26	17	30	1.97
395991--396059	22	3.2	22	63	19	54	26	26	17	30	1.97
396035--396183	52	2.8	54	80	3	176	26	23	16	34	1.95
396205--396357	52	2.9	54	79	3	175	26	22	15	35	1.94
396036--396596	174	3.2	174	96	1	1013	24	24	14	36	1.93
398444--398468	13	1.9	13	100	0	50	36	16	16	32	1.90
398532--398556	13	1.9	13	100	0	50	32	16	16	36	1.90
398565--398680	52	2.2	52	95	0	205	34	18	17	30	1.93
405613--405639	14	1.9	14	100	0	54	85	14	0	0	0.61
405964--405999	1	36.0	1	88	0	54	94	2	2	0	0.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405965--405999	14	2.5	14	95	0	61	94	2	2	0	0.37
406849--406882	13	2.5	13	90	4	50	35	35	2	26	1.72
406949--407106	63	2.6	61	80	13	173	26	27	17	28	1.98
406949--407106	30	5.1	29	79	11	156	26	27	17	28	1.98
407074--407773	34	20.6	33	77	15	616	20	32	12	33	1.91
407612--407665	27	2.0	27	92	0	90	22	37	14	25	1.93
407667--407746	41	1.9	43	80	14	96	18	25	10	46	1.80
407715--407797	33	2.4	34	86	9	116	21	38	10	28	1.87
407780--407850	32	2.2	33	90	7	119	25	39	16	18	1.91
407850--408470	49	12.8	49	80	8	666	25	26	18	29	1.98
407900--407978	41	1.9	42	86	2	115	27	24	21	26	1.99
407845--408460	98	6.4	98	89	6	809	25	26	17	30	1.98
408545--408697	52	2.9	54	79	3	175	26	22	15	35	1.94
408379--408934	174	3.2	174	94	3	968	25	24	14	36	1.93
410691--410732	21	2.0	21	90	0	66	35	14	14	35	1.86
410790--410814	13	1.9	13	100	0	50	36	16	16	32	1.90
410879--410903	13	1.9	13	100	0	50	32	16	16	36	1.90
410912--411027	52	2.2	52	95	0	205	34	18	17	30	1.93
417956--417984	15	1.9	15	100	0	58	86	13	0	0	0.58
418311--418346	1	36.0	1	88	0	54	94	2	2	0	0.37
419287--419450	31	5.3	30	85	10	197	25	29	17	28	1.97
419284--419503	93	2.3	93	81	10	252	22	30	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419416--420116	132	5.2	132	85	9	787	19	33	12	34	1.90
419411--420116	34	20.8	33	81	11	724	20	33	12	34	1.90
419948--420001	27	2.0	27	92	0	90	22	37	14	25	1.93
420003--420084	41	2.0	44	85	9	118	17	25	9	47	1.78
420051--420136	35	2.4	36	88	7	131	20	38	10	30	1.87
420121--420190	33	2.1	35	94	5	126	25	37	17	20	1.94
420190--420809	49	12.8	49	83	4	778	25	26	17	30	1.97
420185--420799	98	6.4	98	93	3	930	25	26	17	30	1.97
420670--420738	22	3.2	22	63	19	54	26	26	17	30	1.97
420714--420862	52	2.8	54	80	3	176	26	23	16	34	1.95
420884--421036	52	2.9	54	79	3	175	26	22	15	35	1.94
420715--421275	174	3.2	174	96	1	1013	24	24	14	36	1.93
423123--423147	13	1.9	13	100	0	50	36	16	16	32	1.90
423211--423235	13	1.9	13	100	0	50	32	16	16	36	1.90
423244--423359	52	2.2	52	95	0	205	34	18	17	30	1.93
429012--429217	112	1.8	112	83	4	272	30	17	20	30	1.96
431609--431788	80	2.2	79	78	9	177	28	27	11	32	1.91
433957--434009	16	3.3	16	91	0	79	20	20	22	35	1.96
433957--434017	16	3.8	16	91	0	77	22	19	21	36	1.95
434891--434915	13	1.9	13	100	0	50	32	16	16	36	1.90
434900--434974	19	3.9	19	89	1	114	28	17	16	38	1.91
444901--444993	36	2.7	36	79	9	106	30	24	11	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445454--445492	13	3.0	13	96	0	69	41	15	12	30	1.85
445605--445629	13	1.9	13	100	0	50	44	16	8	32	1.76
445586--445650	32	2.0	32	84	3	85	43	16	12	27	1.84
450725--450854	52	2.5	52	92	1	206	26	16	18	37	1.92
450729--450874	52	2.8	52	88	2	186	27	17	19	36	1.94
450863--450887	13	1.9	13	100	0	50	36	16	16	32	1.90
454156--454227	36	2.0	36	89	2	110	29	27	9	33	1.89
454368--454408	19	2.2	19	100	0	82	43	4	26	24	1.74
457886--457931	10	4.5	10	78	21	51	36	0	2	60	1.09
457886--457931	21	2.2	21	92	3	76	36	0	2	60	1.09
458631--458738	8	12.4	8	73	23	69	40	0	0	59	0.98
458636--458708	6	12.8	6	76	13	66	38	0	0	61	0.96
458631--458738	25	4.5	24	77	13	105	40	0	0	59	0.98
458641--458708	29	2.4	30	85	7	97	38	0	0	61	0.96
458632--458738	35	3.0	34	75	22	96	40	0	0	59	0.97
458691--458755	33	2.0	32	85	8	87	47	0	0	52	1.00
458706--458759	16	3.4	17	77	12	60	51	0	0	48	1.00
460353--460382	7	4.3	7	95	0	51	33	0	23	43	1.54
463467--463502	2	18.0	2	100	0	72	0	0	50	50	1.00
463502--463541	2	20.0	2	94	0	71	47	0	2	50	1.14
468980--469075	42	2.3	43	77	12	99	58	15	13	12	1.64
471099--471174	39	2.0	38	82	7	91	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)
471142--471197	19	3.5	16	79	16	55	35	0	0	64	0.94
471154--471203	18	2.9	18	83	16	70	40	0	0	60	0.97
471376--471433	20	3.1	19	80	11	57	32	1	5	60	1.29
471385--471423	20	1.9	21	89	5	62	33	2	2	61	1.23
471674--471744	37	2.0	35	88	5	106	53	0	1	45	1.09
471758--471797	21	1.9	21	85	10	55	52	0	5	42	1.23
471916--471971	28	1.9	30	86	13	82	57	1	3	37	1.27
472044--472099	9	6.4	8	77	22	51	37	1	0	60	1.07
472039--472113	13	5.8	13	70	22	52	40	1	0	58	1.06
472032--472112	28	2.8	30	83	9	89	39	1	1	58	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16