genome.fa.s228.2.7.7.80.10.50.1000.22.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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   

This is table  22  of  27  ( 3133 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)
3313539--3313827	127	2.3	125	86	5	404	44	12	23	19	1.84
3313717--3313915	81	2.4	84	80	6	210	43	11	27	18	1.83
3313539--3313863	127	2.6	126	83	5	383	43	12	24	19	1.86
3313674--3313915	41	5.7	42	72	13	147	43	10	26	19	1.83
3313936--3314067	62	2.1	62	88	2	203	33	18	25	22	1.97
3314042--3314100	29	2.0	29	100	0	118	27	16	25	30	1.97
3313936--3314221	154	1.9	153	87	2	421	32	18	24	24	1.97
3314071--3314409	62	5.5	62	84	3	430	31	18	25	24	1.98
3314075--3314409	186	1.8	186	86	1	483	31	18	24	24	1.97
3315601--3315640	21	2.0	21	85	5	55	7	22	12	57	1.60
3315636--3315676	19	2.2	18	91	4	64	7	9	2	80	0.99
3320542--3320920	79	4.8	79	78	5	365	35	11	23	29	1.90
3320544--3320926	157	2.4	158	82	1	455	35	12	22	29	1.91
3320877--3320979	53	1.9	53	90	3	163	32	14	27	26	1.95
3320779--3321035	132	2.0	130	80	6	286	34	12	25	28	1.91
3320908--3321114	79	2.6	78	86	4	263	33	13	26	26	1.93
3333929--3333960	2	16.0	2	100	0	64	50	0	0	50	1.00
3334647--3334685	3	13.0	3	89	10	62	64	0	2	33	1.08
3334647--3334697	18	2.8	18	88	11	70	60	0	5	33	1.21
3334652--3334691	12	3.3	12	93	6	64	62	0	5	32	1.17
3335965--3336069	54	1.9	54	98	0	201	63	8	12	15	1.50
3338007--3338039	2	16.5	2	93	0	57	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)
3339920--3339951	16	2.0	16	100	0	64	37	12	6	43	1.68
3344311--3344392	28	3.0	27	83	7	94	26	17	31	24	1.97
3344376--3344504	51	2.5	52	83	6	163	31	10	24	32	1.90
3346849--3346874	13	2.0	13	100	0	52	38	15	15	30	1.88
3346828--3346894	33	2.0	33	88	0	98	43	16	14	25	1.86
3346914--3346981	19	3.9	18	76	23	83	38	14	11	35	1.83
3346936--3346960	13	1.9	13	100	0	50	32	16	16	36	1.90
3346917--3346979	32	2.0	32	96	0	117	36	15	12	34	1.86
3347037--3347114	21	3.7	21	98	0	147	37	19	10	33	1.85
3347862--3348501	55	11.4	55	86	6	722	23	20	28	27	1.99
3348020--3348107	26	3.3	26	68	20	81	19	18	35	27	1.95
3348362--3348447	27	3.1	27	62	15	68	23	18	30	27	1.98
3349491--3349546	12	4.4	12	84	6	67	1	5	8	83	0.85
3349481--3349531	17	3.0	17	83	11	61	1	3	7	86	0.77
3359784--3359865	28	3.0	27	83	7	94	26	17	31	24	1.97
3359849--3359977	51	2.5	52	83	6	163	31	10	24	32	1.90
3362325--3362350	13	2.0	13	100	0	52	38	15	15	30	1.88
3362304--3362370	33	2.0	33	88	0	98	43	16	14	25	1.86
3362390--3362457	19	3.9	18	73	23	74	39	14	10	35	1.80
3362393--3362455	32	2.0	32	93	0	108	38	15	11	34	1.83
3364584--3364627	15	2.8	15	82	6	52	52	2	2	43	1.26
3365479--3365521	15	2.9	14	80	12	50	41	0	2	55	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3365894--3365937	21	2.0	23	82	13	56	59	0	4	36	1.18
3366723--3366756	16	2.1	17	88	5	52	44	0	0	55	0.99
3366718--3366761	19	2.3	19	80	7	54	52	0	0	47	1.00
3367190--3367250	26	2.2	27	82	8	79	44	0	0	55	0.99
3367188--3367251	28	2.2	29	78	18	80	45	0	0	54	0.99
3367960--3368024	24	2.7	24	80	2	67	38	0	1	60	1.07
3367982--3368016	15	2.4	15	90	4	54	37	0	2	60	1.12
3368256--3368283	2	14.0	2	100	0	56	50	0	0	50	1.00
3370474--3370507	18	1.9	18	88	5	52	35	0	2	61	1.11
3370473--3370514	18	2.3	18	80	8	50	35	0	2	61	1.09
3373252--3373277	2	13.0	2	100	0	52	50	0	0	50	1.00
3374367--3374413	17	2.9	17	75	21	55	42	0	0	57	0.98
3374366--3374419	17	3.3	17	73	21	53	42	0	0	57	0.98
3374429--3374464	17	2.2	17	90	5	56	50	2	0	47	1.15
3375896--3375945	2	25.0	2	89	0	64	54	4	0	42	1.19
3376159--3376190	2	16.0	2	100	0	64	50	0	0	50	1.00
3386466--3386571	22	4.8	22	75	4	88	35	11	1	50	1.49
3386810--3386843	16	2.0	18	88	11	54	64	0	0	35	0.94
3397357--3397419	28	2.2	28	83	5	74	50	9	4	34	1.56
3406039--3406076	20	1.9	20	89	10	60	34	7	0	57	1.28
3406277--3406303	2	13.5	2	100	0	54	51	0	0	48	1.00
3408093--3408141	15	3.3	15	77	8	55	61	2	2	34	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3408088--3408134	15	3.0	16	75	6	51	55	4	4	36	1.39
3412942--3412966	7	3.6	7	100	0	50	64	0	0	36	0.94
3413363--3413396	15	2.3	15	100	0	68	64	11	11	11	1.50
3419540--3419922	37	10.4	37	79	3	333	34	23	12	29	1.91
3419540--3419923	111	3.5	110	78	2	376	34	23	12	29	1.91
3419961--3420085	37	3.4	37	75	10	98	32	20	15	32	1.93
3426305--3426387	43	1.9	43	87	0	121	45	21	13	19	1.84
3427384--3427459	31	2.4	30	81	16	84	28	1	15	53	1.50
3430804--3430855	20	2.5	20	81	9	61	30	17	17	34	1.93
3433179--3433209	8	3.8	8	95	4	53	61	25	0	12	1.32
3437515--3437545	3	10.3	3	92	0	53	29	35	0	35	1.58
3439133--3439195	32	2.0	32	87	6	92	30	15	15	38	1.89
3439226--3439278	20	2.6	20	82	8	63	32	16	16	33	1.92
3439266--3439290	13	1.9	13	100	0	50	36	16	16	32	1.90
3439226--3439330	53	2.0	54	83	5	133	31	15	19	34	1.92
3443196--3443352	81	1.9	81	98	0	305	38	15	14	31	1.87
3443597--3445931	786	3.0	786	83	5	2834	37	11	15	35	1.83
3446958--3447029	33	2.2	33	94	0	126	27	16	13	41	1.87
3447010--3447036	13	2.1	13	100	0	54	29	14	14	40	1.86
3453127--3453226	49	2.0	49	98	0	191	19	4	25	52	1.63
3453135--3453237	49	2.1	49	90	3	163	21	4	25	48	1.70
3453449--3453494	21	2.1	22	92	4	76	39	19	0	41	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3455858--3455911	20	2.8	20	88	2	74	31	14	16	37	1.89
3469982--3470043	11	5.1	12	76	16	65	53	0	1	45	1.10
3470280--3470319	19	2.1	19	86	9	55	72	0	0	27	0.85
3470294--3470352	28	2.1	27	87	3	82	59	0	1	38	1.08
3470307--3470341	10	3.5	10	85	14	54	57	0	2	40	1.14
3470793--3470839	24	2.0	24	87	4	69	68	0	0	31	0.90
3470792--3470846	28	2.0	27	89	10	85	65	0	0	34	0.93
3470801--3470846	14	3.1	16	73	26	55	60	0	0	39	0.97
3470841--3470902	28	2.2	28	80	5	72	46	0	3	50	1.17
3470849--3470908	28	2.2	28	85	11	88	48	0	1	50	1.11
3471976--3472040	23	2.9	23	73	11	62	53	0	0	46	1.00
3475840--3475876	2	18.0	2	88	5	56	51	2	0	45	1.15
3476995--3477025	2	15.5	2	100	0	62	51	0	0	48	1.00
3480742--3481306	284	2.0	282	85	3	760	41	7	9	41	1.65
3481494--3481533	17	2.4	17	86	0	62	40	0	0	60	0.97
3481994--3482128	67	2.0	67	95	0	243	29	14	15	40	1.86
3482502--3482686	34	5.5	34	87	3	257	40	26	7	25	1.82
3487104--3487288	34	5.5	34	87	3	257	40	26	7	25	1.82
3487386--3487435	16	3.1	16	80	11	66	58	6	4	32	1.41
3496185--3496243	16	3.7	16	77	8	57	57	8	3	30	1.45
3497655--3497730	26	2.9	27	77	16	79	55	0	0	44	0.99
3497637--3497730	25	3.7	26	73	17	81	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3497637--3497740	22	4.2	23	73	23	79	54	0	0	45	0.99
3499950--3500123	87	2.0	87	100	0	348	27	25	14	32	1.95
3503009--3503050	21	2.0	21	100	0	84	28	14	14	42	1.84
3503177--3503218	21	2.0	21	100	0	84	33	9	23	33	1.87
3512272--3512327	27	2.0	28	82	3	69	55	3	0	41	1.17
3512614--3512714	10	9.9	10	69	20	50	44	0	2	52	1.16
3512616--3512695	21	3.8	20	77	11	72	42	0	3	53	1.18
3512772--3512806	17	1.9	19	88	11	56	31	2	0	65	1.07
3517201--3517267	16	4.2	16	70	22	61	47	10	4	37	1.58
3517276--3517338	18	3.7	18	79	12	71	44	7	6	41	1.59

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