genome.fa.s53.2.7.7.80.10.50.1000.21.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  4419549

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  21  of  28  ( 3325 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)
3142493--3142563	30	2.4	30	81	11	85	38	11	22	28	1.88
3143728--3143791	32	2.0	32	100	0	128	50	6	9	34	1.60
3144202--3144819	81	7.7	81	76	7	434	41	13	24	20	1.88
3144073--3144515	202	2.2	202	79	6	459	41	11	25	21	1.87
3144249--3144865	162	3.8	160	79	5	618	41	13	24	20	1.88
3144220--3144797	243	2.4	242	80	4	630	41	12	24	20	1.88
3144647--3144905	121	2.1	121	85	1	340	43	15	21	18	1.88
3144754--3145934	81	14.6	81	75	4	498	40	13	25	20	1.89
3145283--3145402	41	2.9	41	68	14	111	43	15	22	18	1.88
3145418--3145510	41	2.3	40	83	7	107	46	16	21	16	1.84
3145522--3145934	41	10.2	40	73	7	260	39	12	27	20	1.88
3145479--3145941	243	1.9	242	81	1	559	39	12	27	20	1.88
3144080--3145966	40	46.6	40	67	9	367	41	13	25	20	1.88
3155986--3156039	20	2.7	21	88	5	76	40	12	12	33	1.82
3156773--3157150	52	7.4	51	74	8	270	33	17	24	24	1.96
3156760--3157150	153	2.5	153	84	2	471	33	16	24	24	1.96
3157169--3157340	52	3.4	49	76	7	173	32	16	25	25	1.96
3157196--3157342	49	2.9	49	80	3	141	30	17	25	26	1.97
3157353--3157434	43	1.9	43	82	0	101	32	17	25	24	1.96
3157848--3157882	14	2.5	14	90	0	52	42	14	8	34	1.76
3168490--3168543	20	2.7	20	94	5	92	38	11	12	37	1.79
3169176--3169219	22	2.0	22	100	0	88	54	4	4	36	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3170089--3170125	16	2.2	18	85	9	51	35	2	13	48	1.57
3170101--3170171	22	3.2	22	79	0	79	38	4	11	46	1.59
3170251--3170297	24	2.0	24	91	0	76	38	10	2	48	1.50
3170283--3170340	22	2.7	21	79	12	73	32	8	10	48	1.68
3170333--3170373	20	2.0	20	90	0	64	39	4	4	51	1.45
3170328--3170373	20	2.4	19	82	10	58	39	4	6	50	1.48
3177836--3178016	89	2.0	90	91	1	292	40	25	16	17	1.89
3177975--3178035	32	1.9	32	86	0	86	45	26	13	14	1.81
3178800--3178846	15	3.1	15	81	6	67	38	36	12	12	1.82
3178882--3178927	16	2.9	16	76	0	56	47	30	10	10	1.73
3178874--3178966	48	1.9	49	82	2	116	44	29	13	12	1.82
3183083--3183133	24	2.2	23	86	6	68	41	15	9	33	1.80
3183279--3183344	22	3.0	23	82	4	73	40	15	7	36	1.75
3183314--3183356	22	2.0	22	85	0	59	46	16	4	32	1.67
3183336--3183801	242	1.9	239	81	7	559	45	13	8	32	1.74
3183808--3183850	22	2.0	22	90	0	68	46	13	4	34	1.65
3185704--3185769	20	3.7	20	69	26	74	33	15	16	34	1.90
3185758--3185782	13	1.9	13	100	0	50	36	16	16	32	1.90
3185705--3185802	33	3.0	33	92	5	155	35	14	17	32	1.90
3187396--3187430	15	2.3	15	95	0	61	42	0	28	28	1.56
3193726--3193779	20	2.7	20	91	2	81	38	11	16	33	1.84
3205210--3205235	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3206220--3206264	20	2.2	20	100	0	90	17	13	4	64	1.44
3208304--3208359	20	2.8	20	86	0	76	28	7	16	48	1.72
3209457--3209565	39	2.8	38	83	8	130	57	11	1	29	1.43
3209483--3209546	21	3.1	22	68	23	66	59	10	0	29	1.32
3214452--3214530	32	2.5	32	81	6	99	39	11	20	29	1.87
3214589--3214661	20	3.6	20	84	1	83	31	17	10	39	1.85
3215313--3215516	61	3.3	60	79	5	230	42	12	22	22	1.87
3215787--3216149	33	11.2	33	75	8	174	24	16	30	28	1.97
3215812--3216131	64	5.0	64	76	5	299	24	16	30	28	1.96
3215812--3216136	128	2.5	127	84	5	388	24	16	31	28	1.96
3216229--3216737	62	8.3	61	76	9	432	34	11	28	24	1.91
3216242--3216737	92	5.4	91	75	10	349	35	12	28	24	1.91
3216234--3216644	154	2.7	152	83	7	499	34	12	28	24	1.91
3216241--3216706	154	3.1	151	80	8	482	34	11	28	24	1.91
3221466--3221600	70	1.9	70	100	0	270	32	22	9	35	1.86
3223016--3223041	13	2.0	13	100	0	52	30	15	15	38	1.88
3225416--3225462	21	2.3	21	76	23	55	42	4	19	34	1.70
3225583--3225621	13	3.0	13	96	0	69	35	15	17	30	1.91
3225607--3225645	20	2.0	20	94	0	69	51	10	15	23	1.73
3227697--3227727	15	2.1	15	93	0	53	12	22	16	48	1.80
3229531--3229575	21	2.1	21	84	8	56	22	20	4	53	1.63
3231793--3231818	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)
3234485--3234538	20	2.7	20	94	2	90	31	16	11	40	1.84
3237216--3237418	79	2.6	79	82	3	232	28	28	11	31	1.92
3243351--3243377	13	2.1	13	100	0	54	29	14	14	40	1.86
3243361--3243417	19	2.9	19	84	2	78	31	14	17	36	1.89
3243446--3243496	20	2.5	20	84	6	59	33	7	19	39	1.81
3249592--3249630	20	2.0	20	94	0	69	38	7	20	33	1.81
3249616--3249641	13	2.0	13	100	0	52	30	15	15	38	1.88
3249762--3249806	21	2.2	20	84	11	56	35	20	0	44	1.51
3252161--3252217	19	2.9	19	89	2	87	31	15	17	35	1.92
3252246--3252299	20	2.7	20	91	5	83	31	12	18	37	1.89
3259856--3259894	15	2.6	15	92	8	62	87	10	2	0	0.65
3260878--3261433	61	9.2	60	85	4	647	26	26	19	26	1.99
3261417--3261517	43	2.4	43	81	1	132	22	23	13	39	1.90
3261492--3261621	34	3.6	34	69	13	107	24	23	12	39	1.89
3261484--3261644	75	2.2	74	80	7	186	22	23	11	42	1.86
3262212--3262306	50	1.9	50	93	0	163	26	15	15	42	1.87
3264702--3264820	51	2.3	51	88	0	175	26	26	15	31	1.95
3264756--3264907	79	1.9	79	87	1	225	28	27	9	34	1.89
3269010--3269063	19	2.8	20	85	2	74	29	14	14	40	1.86
3277786--3277835	20	2.5	20	80	3	66	32	16	14	38	1.88
3277880--3277907	13	2.2	13	100	0	56	32	14	14	39	1.86
3280053--3280081	13	2.2	13	100	0	58	41	13	13	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3280054--3280165	33	3.4	33	90	2	154	37	16	9	36	1.81
3280194--3280246	19	2.7	20	91	2	81	37	15	16	30	1.90
3283673--3283897	113	2.0	112	81	2	263	33	16	13	36	1.88
3284148--3284274	44	2.9	43	71	13	105	28	18	12	40	1.87
3284148--3284372	88	2.6	88	80	0	261	29	17	12	41	1.85
3286242--3286306	20	3.6	20	73	26	81	27	12	18	41	1.86
3286262--3286320	13	4.0	13	73	26	55	28	13	16	40	1.87
3286242--3286338	33	3.0	33	95	1	169	27	13	18	40	1.88
3288694--3288739	21	2.2	21	81	11	60	45	4	17	32	1.68
3288860--3288896	13	2.8	13	95	0	65	32	18	16	32	1.93
3290973--3291002	15	2.0	15	93	0	51	13	20	16	50	1.78
3295087--3295144	13	4.0	13	76	23	62	29	15	17	37	1.90
3295100--3295162	19	3.6	19	76	24	84	28	15	19	36	1.92
3295067--3295162	32	3.0	32	95	1	165	28	14	18	38	1.90
3295067--3295163	19	5.8	17	71	28	75	28	14	18	38	1.90
3295556--3295666	46	2.4	46	85	5	145	21	19	13	45	1.85
3295724--3295812	35	2.5	35	88	1	142	20	28	10	41	1.84
3295855--3296058	81	2.5	81	75	3	205	22	25	12	39	1.89
3296007--3296164	45	3.5	45	89	3	221	22	22	13	41	1.89
3302267--3302312	24	1.9	24	86	0	65	41	2	13	43	1.55
3304346--3304470	20	5.7	20	70	18	79	44	12	12	30	1.79
3307212--3307279	19	3.9	19	70	21	67	35	11	13	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3307214--3307276	32	2.0	32	90	0	99	34	12	14	38	1.84
3307319--3307344	13	2.0	13	100	0	52	30	15	15	38	1.88
3307299--3307365	33	2.0	33	88	0	98	25	14	16	43	1.86
3309711--3309833	51	2.4	51	84	6	158	34	21	10	33	1.88
3309818--3309894	28	2.8	28	83	0	82	23	33	19	23	1.97
3309848--3310051	79	2.6	79	81	1	221	24	30	16	28	1.96
3311912--3312055	63	2.3	63	86	2	191	31	14	13	40	1.84
3311948--3312070	63	2.0	63	83	0	156	31	16	13	38	1.88
3312078--3312107	13	2.3	13	100	0	60	36	13	16	33	1.88
3312749--3312790	15	2.7	16	89	10	61	38	2	19	40	1.64

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28