genome.fa.s4355.2.7.7.80.10.50.1000.2.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: scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1887244

Tables:   1   2   3   4   5   6   7   

This is table  2  of  7  ( 745 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)
287775--287800	5	5.2	5	100	0	52	0	19	0	80	0.71
289334--289394	32	1.9	32	83	12	81	49	1	4	44	1.33
289353--289394	20	2.1	20	86	0	57	47	0	7	45	1.30
297830--297872	20	2.2	20	86	0	59	48	0	6	44	1.29
297811--297871	32	1.9	32	83	12	81	49	1	4	44	1.33
301616--303222	411	4.0	406	87	3	2220	38	11	18	31	1.86
309498--309529	5	6.4	5	100	0	64	62	0	0	37	0.95
310899--310938	20	2.0	20	100	0	80	30	0	20	50	1.49
310959--310992	16	2.1	16	88	0	50	41	2	17	38	1.65
325022--325046	13	1.9	13	100	0	50	68	24	0	8	1.16
325348--325828	27	17.8	27	79	6	386	42	20	16	20	1.89
327927--328023	49	2.0	48	91	2	158	31	18	25	23	1.97
331793--331848	18	3.1	18	81	2	67	0	48	8	42	1.34
333411--333462	16	3.3	16	75	5	52	17	32	1	48	1.58
337766--338389	312	2.0	312	99	0	1239	31	23	14	30	1.95
341846--341904	25	2.4	25	80	2	66	22	28	22	27	1.99
341862--341929	25	2.7	25	82	8	68	20	29	20	29	1.98
341985--342074	26	3.5	26	80	4	94	16	26	23	33	1.96
345797--345821	13	1.9	13	100	0	50	0	28	0	72	0.86
349034--349066	6	5.3	6	92	7	57	15	0	45	39	1.46
349019--349067	6	7.3	7	84	9	50	12	0	42	44	1.41
351281--351313	6	5.3	6	92	7	57	15	0	45	39	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351266--351314	6	7.3	7	84	9	50	12	0	42	44	1.41
351500--351786	125	2.3	125	93	0	486	31	18	20	30	1.96
352863--352921	29	2.0	29	100	0	118	33	23	16	25	1.96
354847--354967	49	2.5	49	93	0	197	42	9	4	43	1.55
355532--355569	18	2.1	18	90	0	58	42	10	26	21	1.85
356157--356373	108	2.0	108	100	0	434	35	15	11	36	1.85
356187--356356	52	3.2	52	68	15	166	37	14	12	35	1.84
357372--357418	24	2.0	24	86	0	67	63	2	0	34	1.06
357447--357500	11	4.9	11	82	15	67	42	0	31	25	1.55
357444--357504	11	5.6	10	83	12	59	45	0	29	24	1.53
373361--373398	17	2.2	17	100	0	76	26	23	0	50	1.50
374177--374224	22	2.2	22	85	3	62	31	0	2	66	1.03
387188--387271	6	14.0	6	80	0	78	1	19	35	44	1.58
390651--390804	44	3.5	44	91	0	254	33	15	20	30	1.94
393642--393830	51	3.7	50	82	6	222	25	14	26	32	1.95
393687--393877	101	1.9	101	79	6	217	25	17	27	30	1.97
396429--396524	24	4.0	24	91	0	156	40	8	28	22	1.83
396610--396682	21	3.5	21	75	7	67	17	21	17	42	1.89
396629--396697	21	3.3	21	75	0	66	20	21	17	40	1.91
404991--405069	13	6.1	13	77	5	88	40	24	7	27	1.82
415756--415795	21	2.0	21	85	14	57	30	7	22	40	1.81
425884--426033	74	2.0	75	97	2	284	45	13	4	37	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433987--434096	34	3.0	34	79	16	139	50	8	8	32	1.61
433984--434097	41	3.0	39	84	12	157	50	8	7	33	1.63
434987--435069	41	2.0	41	92	0	139	36	4	14	44	1.66
435469--435625	80	2.0	80	98	0	305	25	3	24	45	1.70
435689--435828	59	2.3	60	82	8	176	27	2	17	52	1.59
435734--435826	32	2.9	32	98	0	177	27	3	17	51	1.60
436335--436408	13	5.7	13	90	0	121	22	8	31	37	1.84
443900--444420	176	2.9	176	88	1	747	30	14	8	45	1.75
446571--446641	29	2.4	29	73	0	70	19	23	19	36	1.95
447033--447066	17	2.0	17	94	0	59	26	11	8	52	1.67
451136--452667	185	8.3	185	99	0	3010	35	7	8	48	1.61
452922--452970	22	2.3	22	89	6	75	46	4	10	38	1.57
452979--453008	14	2.2	14	94	5	53	40	0	0	60	0.97
453158--453194	12	2.8	14	80	16	51	40	0	0	59	0.97
453163--453210	19	2.6	18	76	6	51	39	0	2	58	1.10
457152--457204	25	2.1	25	89	6	81	66	0	1	32	1.03
457152--457211	25	2.4	25	79	17	72	66	0	1	31	1.01
457444--457498	19	3.1	18	76	5	58	27	1	0	70	0.97
457796--457831	18	2.1	17	89	5	54	0	25	2	72	0.98
462025--462058	17	2.0	17	94	0	59	35	8	0	55	1.31
463397--463436	15	2.7	15	88	0	62	12	10	7	70	1.35
469451--469480	15	1.9	15	93	6	51	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469617--469658	14	2.9	14	86	10	50	19	0	2	78	0.86
475761--475832	28	2.6	28	91	4	110	40	12	1	45	1.50
475913--475979	27	2.5	27	92	0	107	26	29	28	14	1.96
476197--476237	3	13.3	3	89	5	64	31	0	4	63	1.15
476236--476548	3	104.3	3	100	0	626	0	0	33	66	0.92
477088--477141	18	3.0	18	94	0	90	38	14	37	9	1.79
477217--477561	170	2.0	171	93	4	593	25	24	24	24	2.00
482797--482897	21	4.8	20	78	17	107	0	32	0	67	0.91
482825--482932	21	5.2	22	70	20	65	0	34	0	65	0.93
482831--482959	4	31.5	4	75	17	97	0	33	0	66	0.92
482794--482938	63	2.3	65	87	8	201	0	33	0	66	0.92
482895--482959	30	2.2	30	97	0	121	0	33	0	66	0.92
482831--482959	22	6.1	21	74	20	74	0	33	0	66	0.92
482831--482964	26	5.4	26	76	18	119	0	34	0	65	0.93
483097--483132	17	2.1	17	89	5	54	13	0	11	75	1.06
483118--483191	27	2.7	27	93	2	121	44	1	10	43	1.47
484325--484370	20	2.2	21	92	3	76	13	0	13	73	1.09
484325--484370	21	2.2	20	88	11	67	13	0	13	73	1.09
487545--488237	346	2.0	346	100	0	1386	37	15	15	32	1.88
499301--499344	10	4.5	10	80	2	54	81	0	11	6	0.86
499301--499350	19	2.6	19	83	3	64	82	0	12	6	0.85
499685--499979	103	2.8	108	81	6	386	27	15	8	48	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500873--502072	46	26.2	46	88	1	1721	26	15	26	30	1.96
502043--502133	44	2.1	41	76	18	96	28	18	27	25	1.98
502059--502173	44	2.6	44	82	5	117	30	18	24	26	1.98
504001--504059	29	2.0	29	83	12	75	38	10	3	47	1.54
508328--508372	23	2.0	23	100	0	90	44	13	35	6	1.70
513111--513333	62	3.6	62	81	1	232	25	24	27	22	2.00
517924--517965	14	3.1	14	79	3	50	54	11	16	16	1.70
525954--526000	5	9.2	5	80	13	51	36	14	25	23	1.93
526272--526323	16	3.0	16	76	23	52	48	0	26	25	1.52
526409--526466	29	2.0	29	82	3	71	39	0	39	20	1.53
529747--529782	16	2.2	16	95	0	63	41	19	5	33	1.75
533013--533204	49	3.9	49	85	0	231	29	22	16	31	1.96
533172--533351	96	1.9	96	83	0	234	33	22	10	33	1.88
535222--535267	21	2.3	20	85	10	60	63	13	2	21	1.40
536632--536689	24	2.4	24	91	2	89	51	20	12	15	1.75
536657--536984	114	2.9	114	83	2	399	33	17	22	25	1.96
536890--537187	98	3.0	97	86	6	438	31	19	23	25	1.98
536776--537416	312	2.0	315	87	6	907	31	18	23	25	1.98
537088--537454	114	3.2	114	92	1	592	31	18	23	26	1.98
537578--537650	14	5.2	14	70	9	51	19	1	32	46	1.58
537750--537833	7	12.0	7	75	9	64	14	0	39	46	1.44
537784--537833	15	3.6	14	84	10	66	16	0	42	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538483--538723	82	2.9	82	85	4	277	29	17	20	32	1.95
540952--541193	9	27.1	9	71	14	155	43	17	0	37	1.55
540976--541193	25	8.5	25	72	18	114	44	17	0	37	1.53
541080--541141	16	3.8	16	83	8	88	48	19	0	32	1.49
540958--541171	34	6.5	34	75	14	164	43	17	0	37	1.56
540977--541128	67	2.4	64	77	15	163	44	18	0	36	1.55
540943--541172	110	2.1	108	83	8	279	43	17	0	37	1.56
543759--543829	21	3.4	21	90	1	108	36	16	42	4	1.68
544275--544553	42	6.6	42	87	2	364	23	21	18	35	1.95
544275--544553	127	2.2	125	86	5	373	23	21	18	35	1.95

Tables:   1   2   3   4   5   6   7