genome.fa.s20.2.7.7.80.10.50.1000.22.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: Scaffold20
Parameters: 2 7 7 80 10 50 1000
Length:  3599867

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   

This is table  22  of  25  ( 2919 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)
3144906--3145033	53	2.4	54	71	5	127	49	0	1	49	1.10
3144962--3145005	20	2.2	20	88	4	63	56	0	0	43	0.99
3145575--3145638	32	2.1	30	80	11	69	51	3	21	23	1.62
3146335--3146413	38	2.1	39	97	2	151	53	0	13	32	1.41
3147498--3147566	28	2.3	32	85	9	92	43	0	0	56	0.99
3147517--3147569	17	3.5	17	66	28	55	49	0	0	50	1.00
3147507--3147582	28	2.7	28	87	0	107	43	0	0	56	0.99
3147683--3147747	3	22.7	3	76	14	57	35	0	0	64	0.94
3147656--3147736	18	3.8	21	76	17	60	37	4	0	58	1.20
3147684--3147747	18	3.4	18	80	8	74	34	0	0	65	0.93
3147683--3147747	21	3.2	20	80	12	80	35	0	0	64	0.94
3148257--3148313	14	3.8	16	76	17	52	50	0	0	49	1.00
3149021--3149063	11	3.8	11	81	6	50	65	0	4	30	1.13
3149210--3149284	22	2.8	26	73	24	68	53	1	1	44	1.17
3150173--3150254	30	2.8	29	81	7	76	45	1	0	53	1.08
3152997--3153046	18	2.9	17	74	20	50	74	2	0	24	0.93
3156317--3156351	13	2.5	15	90	9	56	42	0	0	57	0.99
3156964--3157004	21	2.0	21	85	0	55	51	2	4	41	1.36
3157526--3157580	22	2.5	22	84	3	74	40	0	0	60	0.97
3160507--3160583	30	2.7	28	78	13	77	28	10	32	28	1.90
3160620--3160681	27	2.3	27	80	5	72	35	3	33	27	1.73
3163005--3163080	21	3.6	21	72	10	57	36	7	13	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3169557--3169685	52	2.5	52	94	0	231	28	17	17	35	1.93
3169694--3169718	13	1.9	13	100	0	50	36	16	16	32	1.90
3169763--3169814	13	3.5	13	73	26	50	36	17	13	32	1.89
3169771--3169835	19	3.7	19	75	23	79	38	16	12	32	1.86
3169763--3169833	32	2.2	32	97	0	133	36	18	12	32	1.88
3172217--3172266	23	2.2	23	85	7	66	30	10	8	52	1.64
3175016--3175049	17	2.1	16	89	10	52	17	5	14	61	1.52
3175070--3175099	10	3.0	10	95	0	51	40	0	13	46	1.43
3175239--3175322	18	4.3	19	73	19	75	23	0	5	70	1.09
3176985--3177053	31	2.3	30	84	2	84	44	2	4	47	1.37
3178862--3178908	23	2.1	22	84	7	60	40	38	2	19	1.63
3183632--3183714	34	2.4	34	95	0	148	40	37	0	21	1.54
3184234--3184971	48	15.1	48	68	16	268	29	3	46	19	1.67
3184542--3184852	153	2.0	153	81	3	367	28	3	47	19	1.67
3184744--3184932	102	1.9	102	81	6	231	29	3	46	20	1.66
3184637--3184966	150	2.2	152	80	4	346	29	3	46	21	1.66
3185033--3185058	3	8.7	3	100	0	52	34	0	65	0	0.93
3186197--3186253	20	2.7	19	76	10	51	38	0	8	52	1.33
3186267--3186393	60	2.2	60	86	2	177	42	3	2	51	1.33
3188963--3188988	13	2.0	13	100	0	52	30	15	15	38	1.88
3188943--3189006	32	2.0	33	87	3	94	28	14	17	40	1.88
3193331--3193395	19	3.5	17	76	14	58	78	9	9	3	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3193319--3193395	37	2.1	36	83	13	95	77	10	9	2	1.07
3194759--3195698	27	34.0	27	80	5	556	25	31	14	28	1.95
3194736--3195696	54	17.4	54	78	7	768	25	31	14	27	1.95
3195182--3196030	28	30.2	28	81	7	206	28	31	16	24	1.96
3195174--3195967	56	14.2	56	82	5	287	27	31	15	24	1.96
3195635--3195999	28	12.8	28	89	1	487	30	29	17	22	1.97
3195924--3196181	32	8.2	32	77	8	226	29	29	17	22	1.97
3195923--3196106	63	2.9	62	82	10	223	30	30	19	19	1.96
3196610--3196642	17	1.9	17	93	0	57	87	3	0	9	0.63
3201723--3201786	25	2.5	25	76	16	69	42	0	0	57	0.98
3201732--3201777	24	1.9	23	86	8	65	43	0	0	56	0.99
3203708--3205434	866	2.0	862	94	4	3054	32	19	21	26	1.97
3259732--3259772	20	2.1	20	90	4	66	34	12	9	43	1.75
3262466--3262505	6	6.7	6	88	11	64	0	17	32	50	1.47
3262559--3262660	51	1.9	55	86	11	151	9	10	25	53	1.66
3262555--3262649	45	2.2	43	79	11	104	10	10	25	53	1.67
3262559--3262679	51	2.2	52	83	15	138	9	12	24	52	1.69
3267372--3267409	19	2.1	19	90	5	60	50	0	18	31	1.47
3267694--3267727	13	2.5	13	90	4	50	17	2	5	73	1.16
3271783--3271836	20	2.7	20	97	0	99	35	12	11	40	1.79
3271853--3271927	20	3.8	19	78	7	87	41	12	13	33	1.81
3271850--3271927	40	2.0	39	89	2	120	41	12	12	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3273514--3273571	23	2.5	23	82	2	62	62	1	8	27	1.35
3273607--3273681	39	1.9	39	97	0	141	53	18	6	21	1.67
3273616--3273681	21	3.3	21	64	12	57	53	18	7	21	1.69
3274426--3274465	6	6.7	6	100	0	80	0	17	32	50	1.47
3274528--3274653	56	2.3	54	93	4	209	11	12	23	53	1.70
3274540--3274639	28	3.8	25	69	14	74	10	10	25	55	1.64
3274734--3274786	22	2.4	22	83	0	79	11	11	30	47	1.74
3274839--3274881	22	2.0	22	100	0	86	18	0	11	69	1.17
3274912--3274936	11	2.3	11	100	0	50	16	0	24	60	1.36
3274895--3275009	51	2.3	51	76	3	115	29	1	17	51	1.55
3278522--3278562	18	2.2	19	86	8	57	41	0	2	56	1.13
3278670--3278712	23	1.9	23	90	4	70	37	0	4	58	1.19
3278845--3278887	21	2.0	22	81	4	52	39	4	0	55	1.20
3279221--3279258	19	2.1	19	90	5	60	50	0	18	31	1.47
3279879--3279941	24	2.6	24	80	11	67	12	9	6	71	1.30
3280847--3280911	25	2.6	25	79	15	82	40	0	1	58	1.07
3281558--3281645	22	4.1	22	69	11	67	46	9	1	43	1.42
3284801--3284825	13	1.9	13	100	0	50	72	0	28	0	0.86
3288703--3288728	13	2.0	13	100	0	52	38	15	15	30	1.88
3289268--3289325	19	3.2	19	70	9	66	27	32	3	36	1.74
3291211--3291272	13	5.2	13	70	21	64	38	14	17	29	1.89
3291214--3291291	33	2.4	33	100	0	156	35	12	20	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3291227--3291291	20	3.6	20	73	26	81	35	12	21	30	1.90
3297086--3297141	19	2.8	21	81	10	71	35	17	12	33	1.88
3300149--3300223	20	3.8	20	81	0	87	34	16	10	38	1.83
3303096--3303152	22	2.6	22	91	0	96	28	26	10	35	1.89
3303209--3303251	22	2.0	22	100	0	86	27	23	13	34	1.93
3303086--3303286	100	2.1	96	84	9	255	29	24	10	35	1.89
3303692--3303758	37	1.9	35	88	11	102	32	11	25	29	1.92
3305273--3305433	84	1.9	84	82	5	200	54	3	17	25	1.58
3306328--3306374	16	3.0	16	78	12	53	27	4	12	55	1.56
3308599--3308677	22	3.6	22	91	0	122	27	26	10	35	1.89
3309185--3309251	37	1.9	35	88	11	102	32	11	25	29	1.92
3310328--3310404	20	3.8	20	76	6	75	40	12	15	31	1.85
3311553--3311901	188	1.9	187	88	5	535	26	11	9	51	1.69
3312744--3312796	3	17.7	3	100	0	106	33	0	32	33	1.58
3312795--3312832	3	12.7	3	100	0	76	34	0	0	65	0.93
3313016--3313063	3	16.0	3	100	0	96	66	0	0	33	0.92
3319218--3319259	21	2.0	21	90	0	66	33	2	11	52	1.51
3323976--3324015	20	2.0	21	90	5	64	67	2	7	22	1.28
3323973--3324016	21	2.3	19	85	14	63	68	2	6	22	1.25
3325102--3325157	24	2.3	24	96	0	103	48	3	26	21	1.66
3329387--3329517	38	3.4	38	88	0	181	25	13	31	29	1.94
3334057--3334189	38	3.5	38	86	1	176	29	12	29	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3338803--3338842	21	1.9	21	85	10	55	35	0	0	65	0.93
3341898--3341926	3	9.7	3	100	0	58	31	0	0	68	0.89
3342580--3342617	16	2.3	17	81	4	51	71	2	0	26	1.00
3345750--3345815	25	2.6	26	73	9	73	40	0	3	56	1.15
3348764--3348792	11	2.5	12	88	11	51	68	0	0	31	0.89
3356716--3356836	52	2.3	52	97	0	224	28	18	18	34	1.94
3356716--3356854	52	2.7	51	89	4	208	30	17	18	33	1.94
3356934--3356958	13	1.9	13	100	0	50	32	16	16	36	1.90
3356912--3356978	33	2.0	33	88	0	98	40	13	11	34	1.81
3357806--3357897	16	5.9	15	75	14	71	54	27	5	13	1.60

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