genome.fa.s219.2.7.7.80.10.50.1000.4.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: Scaffold219
Parameters: 2 7 7 80 10 50 1000
Length:  770726

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 559 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)
474803--474828	13	2.0	13	100	0	52	30	15	15	38	1.88
474783--474849	33	2.0	33	88	0	98	25	14	16	43	1.86
477200--477589	52	7.4	51	68	14	191	30	24	11	33	1.91
477313--477384	27	2.6	27	86	2	90	23	31	20	23	1.98
477368--477590	52	4.3	52	80	3	216	30	25	11	33	1.90
477578--477649	28	2.6	28	86	0	90	20	34	20	23	1.96
477199--477700	264	1.9	266	88	4	755	28	25	13	32	1.93
487601--487625	13	1.9	13	100	0	50	32	16	16	36	1.90
487611--487809	93	2.1	93	99	0	389	33	16	13	36	1.87
488133--488157	13	1.9	13	100	0	50	36	16	16	32	1.90
488113--488178	32	2.0	33	88	2	98	34	12	13	39	1.82
488219--488243	13	1.9	13	100	0	50	32	16	16	36	1.90
488252--488379	52	2.5	52	94	3	224	33	17	17	30	1.94
495281--495311	1	31.0	1	93	0	53	96	3	0	0	0.21
496680--496869	28	6.2	27	77	16	119	21	32	12	33	1.91
496588--497444	34	25.8	34	80	12	711	20	32	13	33	1.91
496621--497444	71	12.4	69	83	10	856	20	33	12	33	1.91
496621--497444	138	6.2	136	82	11	887	20	33	12	33	1.91
497281--497334	27	2.0	27	88	0	81	22	35	14	27	1.93
497309--497451	36	4.1	34	80	7	144	17	32	11	38	1.86
497315--497464	71	2.1	70	82	6	178	20	33	12	34	1.89
497449--497518	33	2.1	35	94	5	126	25	37	17	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497518--498127	49	12.6	49	82	5	776	25	25	17	31	1.97
497513--498127	98	6.4	98	92	1	885	25	26	17	31	1.97
499074--499098	13	1.9	13	100	0	50	36	16	16	32	1.90
499054--499119	32	2.0	33	88	2	98	34	12	13	39	1.82
499160--499184	13	1.9	13	100	0	50	32	16	16	36	1.90
511017--511067	20	2.6	20	84	3	68	25	13	17	43	1.86
516735--516782	24	2.0	24	100	0	96	62	16	8	12	1.53
524956--525008	21	2.7	20	82	8	72	32	15	13	39	1.85
525897--525929	16	2.1	16	88	11	50	48	3	9	39	1.50
526109--526147	22	1.9	20	85	15	53	41	10	5	43	1.61
526269--526293	13	1.9	13	100	0	50	32	20	16	32	1.94
528477--528519	20	2.1	21	86	4	61	58	0	16	25	1.38
528536--528576	21	2.0	21	85	9	57	56	12	14	17	1.68
535841--535882	17	2.5	17	92	0	75	57	2	0	40	1.12
541200--541323	62	2.0	62	98	0	239	25	18	13	41	1.87
545633--545671	11	3.5	11	83	16	53	43	0	2	53	1.14
548510--548548	11	3.5	11	82	0	51	66	7	20	5	1.36
551502--551546	14	3.1	14	80	3	54	62	0	11	26	1.29
551585--551650	27	2.3	29	82	10	84	56	6	1	36	1.34
552152--552205	22	2.7	19	78	15	72	46	12	11	29	1.77
556250--556280	15	2.1	15	93	0	53	48	16	22	12	1.80
558362--558399	13	2.9	13	96	0	67	34	18	15	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558511--558556	21	2.2	20	81	11	58	32	19	4	43	1.71
560946--560971	13	2.0	13	100	0	52	38	15	15	30	1.88
560928--560993	35	2.0	33	91	8	107	45	15	12	27	1.81
567364--567585	79	2.8	79	82	4	259	30	14	28	26	1.95
567620--567996	52	7.2	52	72	7	262	32	11	26	29	1.92
567600--567820	102	2.1	104	82	1	257	32	11	25	29	1.92
567490--567994	262	1.9	262	94	0	893	31	13	27	28	1.93
570352--570377	13	2.0	13	100	0	52	38	15	15	30	1.88
570364--570403	21	1.9	21	100	0	80	30	22	10	37	1.87
570430--570492	19	3.7	18	76	24	73	38	17	11	33	1.85
570422--570494	32	2.3	32	95	0	128	36	17	10	34	1.85
570599--570628	11	2.7	11	89	0	51	23	0	0	76	0.78
571343--574039	55	46.4	55	78	11	2179	25	20	28	26	1.99
571343--574039	176	15.5	174	82	9	2523	25	20	28	26	1.99
571343--574008	462	5.8	460	84	8	2760	25	20	28	26	1.99
579559--579784	79	2.9	79	78	5	206	30	15	28	26	1.96
579795--580192	52	7.6	51	71	9	237	33	11	25	29	1.91
579795--580016	51	4.3	51	83	6	232	33	11	25	30	1.91
579686--580190	263	1.9	263	92	1	852	32	12	26	28	1.92
581058--581122	33	2.0	33	90	6	105	6	29	3	61	1.35
582960--583045	41	2.1	41	86	4	120	31	12	13	41	1.83
583344--583426	29	2.8	30	80	10	98	50	13	8	27	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583344--583555	59	3.6	59	71	8	180	49	10	10	29	1.70
584685--584893	80	2.7	78	84	6	253	39	9	22	29	1.85
584785--585006	112	2.0	113	84	6	299	40	8	20	30	1.82
584892--585233	78	4.4	78	75	10	322	36	9	24	30	1.86
584910--585233	156	2.1	156	82	6	399	36	8	24	30	1.86
584913--585240	79	4.2	79	76	10	289	37	8	24	29	1.86
601142--601209	8	8.0	8	81	14	57	85	5	2	5	0.83
601142--601208	26	2.6	25	86	11	100	86	4	2	5	0.77
601141--601199	1	59.0	1	77	0	55	88	3	1	6	0.69
601141--601231	9	9.8	9	75	17	71	83	5	4	6	0.90
602450--603008	28	19.5	28	84	4	668	29	30	16	22	1.96
602444--603054	117	5.3	112	85	4	709	29	30	16	23	1.96
605267--605297	13	2.4	13	94	0	53	35	12	16	35	1.87
605342--605398	19	2.9	19	89	5	78	35	17	15	31	1.92
605383--605409	13	2.1	13	100	0	54	40	14	14	29	1.86
605364--605428	32	2.0	32	90	3	103	40	16	16	26	1.90
605962--606024	19	3.2	19	68	12	54	33	31	1	33	1.68
607879--607906	13	2.2	13	100	0	56	42	14	14	28	1.84
614001--614067	33	2.0	33	91	5	109	32	16	13	37	1.88
614021--614053	13	2.5	13	95	0	57	33	15	15	36	1.88
615766--615819	20	2.7	20	85	5	65	38	16	11	33	1.84
620444--621070	27	23.0	27	82	4	643	23	31	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620439--621589	28	40.9	28	79	9	579	26	30	15	26	1.96
620946--621577	116	5.4	114	80	7	596	29	31	16	22	1.96
621565--621614	25	2.0	25	88	0	73	30	24	22	24	1.99
629787--630011	79	2.9	79	84	3	267	30	13	28	28	1.94
630003--630112	45	2.4	45	100	0	220	41	12	17	28	1.86
631619--631665	17	2.7	18	87	9	62	14	0	2	82	0.75
631613--631658	10	4.7	9	84	15	56	13	2	0	84	0.71
632817--632870	20	2.6	21	85	2	65	33	18	9	38	1.83
634985--635023	20	2.0	20	84	0	51	33	7	7	51	1.59
635763--635804	18	2.3	18	91	0	66	50	2	4	42	1.36
637459--637561	51	2.0	51	94	0	179	42	22	4	30	1.74
638240--638285	24	2.0	24	82	4	58	39	0	4	56	1.19
639512--639572	23	2.5	26	82	15	76	8	19	1	70	1.21
639604--639638	14	2.4	15	90	4	54	0	20	5	74	1.02
639683--639728	9	4.9	9	81	7	56	0	17	0	82	0.67
639681--639729	12	3.8	12	78	19	53	0	16	0	83	0.64
639821--639847	2	13.5	2	100	0	54	48	0	0	51	1.00
642227--642283	30	1.9	30	88	0	87	26	19	22	31	1.98
647205--647265	30	2.0	30	100	0	122	26	13	9	50	1.72
650836--650877	12	3.3	12	90	6	57	28	2	2	66	1.16
653802--653857	29	2.0	28	82	3	67	53	1	3	41	1.29
653918--653982	30	2.2	31	80	8	80	41	15	10	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653926--653985	30	2.0	30	90	0	93	43	18	11	26	1.84
654798--654844	21	2.2	21	81	7	60	46	0	0	53	1.00
656466--656494	7	4.1	7	100	0	58	41	0	0	58	0.98
656474--656528	23	2.3	25	78	6	69	47	0	0	52	1.00
659165--659199	18	1.9	18	94	0	61	25	5	0	68	1.11
661353--661390	18	2.2	18	85	4	51	76	0	5	18	0.97
661917--661951	17	2.1	17	100	0	70	42	17	5	34	1.73
663466--663490	13	1.9	13	100	0	50	32	16	16	36	1.90
663520--663574	20	2.7	21	85	2	76	30	18	12	38	1.88
664417--664442	13	2.0	13	100	0	52	30	15	15	38	1.88

Tables:   1   2   3   4   5