genome.fa.s114.2.7.7.80.10.50.1000.12.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: Scaffold114
Parameters: 2 7 7 80 10 50 1000
Length:  3219552

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  12  of  13  ( 1458 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)
2988167--2988192	2	13.0	2	100	0	52	0	50	0	50	1.00
2989766--2989816	2	25.5	2	100	0	102	50	0	0	49	1.00
3001613--3001670	28	2.1	28	90	6	91	48	15	17	18	1.82
3002789--3002856	35	1.9	35	93	0	118	36	11	8	42	1.73
3004837--3004866	4	7.5	4	92	0	51	50	0	20	30	1.49
3017128--3017175	25	1.9	25	100	0	96	20	20	0	58	1.40
3027757--3027793	3	12.3	3	94	0	65	29	2	0	67	1.04
3029630--3029681	17	3.2	17	70	25	58	28	17	7	46	1.75
3029630--3029692	31	2.0	31	93	0	108	26	17	6	49	1.71
3034807--3034833	6	4.5	6	100	0	54	18	0	29	51	1.46
3035411--3035452	16	2.4	18	88	11	70	54	4	0	40	1.21
3037609--3037646	17	2.3	17	86	13	53	26	18	0	55	1.43
3038351--3038411	3	20.0	3	93	3	104	1	34	0	63	1.04
3038873--3038902	2	15.0	2	92	0	51	46	0	3	50	1.18
3039358--3039391	2	16.5	2	93	6	59	47	0	2	50	1.16
3040995--3041019	2	12.5	2	100	0	50	52	48	0	0	1.00
3049935--3049991	24	2.5	24	83	16	84	35	17	14	33	1.90
3050924--3050957	16	2.2	16	89	5	52	29	5	5	58	1.45
3058553--3058596	19	2.3	20	88	7	65	52	0	0	47	1.00
3059515--3059550	2	18.5	2	88	5	56	47	0	2	50	1.15
3061553--3061578	2	13.0	2	100	0	52	50	0	0	50	1.00
3061857--3061890	2	17.5	2	93	6	61	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)
3062907--3062968	3	20.7	3	89	0	97	1	33	1	62	1.14
3062905--3063001	6	15.7	6	84	6	50	10	34	3	52	1.51
3064118--3064143	5	5.2	5	100	0	52	61	38	0	0	0.96
3064274--3064310	3	12.3	3	100	0	74	67	0	0	32	0.91
3065734--3065768	2	17.5	2	100	0	70	48	0	0	51	1.00
3067374--3067412	16	2.5	16	88	12	55	41	2	2	53	1.28
3067374--3067412	15	2.5	15	87	4	51	41	2	2	53	1.28
3069154--3069193	2	20.5	2	89	5	64	47	0	2	50	1.14
3070028--3070067	2	20.0	2	100	0	80	50	0	0	50	1.00
3072738--3072773	2	18.0	2	100	0	72	50	0	0	50	1.00
3073792--3073822	15	2.1	15	93	0	53	83	0	3	12	0.75
3076922--3076952	2	15.5	2	100	0	62	48	0	0	51	1.00
3077790--3077820	14	2.2	14	94	0	53	51	9	0	38	1.35
3077790--3077822	8	4.4	8	85	14	52	51	9	0	39	1.34
3083857--3083935	39	2.0	39	97	0	149	16	13	25	44	1.85
3088658--3088700	2	21.5	2	100	0	86	0	48	0	51	1.00
3088700--3088742	2	21.5	2	100	0	86	48	0	0	51	1.00
3089687--3089714	2	14.0	2	100	0	56	50	0	0	50	1.00
3093864--3093995	67	2.0	67	90	0	210	32	15	20	31	1.93
3094853--3094877	5	5.0	5	100	0	50	0	40	0	60	0.97
3097570--3097605	2	18.0	2	100	0	72	0	50	0	50	1.00
3098591--3098631	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3101445--3101486	2	21.0	2	100	0	84	50	0	0	50	1.00
3106468--3106499	15	2.1	15	94	0	55	18	0	0	81	0.70
3107068--3107092	5	5.0	5	100	0	50	60	40	0	0	0.97
3112104--3112147	16	2.8	16	75	0	52	38	2	2	56	1.24
3133310--3133363	2	28.0	2	85	14	78	48	0	1	50	1.11
3133765--3133798	3	11.3	3	100	0	68	64	0	0	35	0.94
3133936--3133970	2	17.5	2	100	0	70	51	0	0	48	1.00
3134118--3134157	2	20.0	2	100	0	80	50	0	0	50	1.00
3134445--3134469	5	5.0	5	100	0	50	80	0	0	20	0.72
3134472--3134500	2	14.5	2	100	0	58	51	0	0	48	1.00
3141298--3141345	21	2.3	21	85	7	62	33	27	4	35	1.76
3144651--3144692	21	2.0	22	90	4	68	40	11	0	47	1.40
3144845--3144878	2	17.0	2	100	0	68	50	0	0	50	1.00
3146170--3146220	24	2.1	24	82	7	59	56	0	5	37	1.23
3146538--3146563	2	13.0	2	100	0	52	50	0	0	50	1.00
3146952--3146976	2	12.5	2	100	0	50	52	0	0	48	1.00
3147390--3147448	18	3.4	17	76	19	50	52	5	0	42	1.23
3148036--3148073	20	1.9	20	100	0	76	42	5	18	34	1.73
3148713--3148742	13	2.2	14	94	5	53	33	13	36	16	1.88
3151324--3151382	23	2.8	20	78	14	57	57	3	0	38	1.15
3151337--3151379	23	1.9	22	85	4	59	60	4	0	34	1.17
3151351--3151397	15	3.2	15	77	11	53	65	4	0	29	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3151874--3151919	16	2.7	17	78	18	51	54	0	0	45	0.99
3151866--3151919	18	3.0	18	86	5	65	53	1	0	44	1.11
3151879--3151930	18	3.0	18	80	5	54	48	0	1	50	1.12
3152348--3152387	19	2.0	22	85	14	59	47	12	5	35	1.63
3154071--3154137	12	5.5	12	75	10	57	40	0	1	58	1.07
3154198--3154260	22	2.6	24	85	9	85	44	1	3	50	1.27
3154221--3154267	22	2.2	22	81	7	62	55	0	0	44	0.99
3154745--3154818	37	2.0	36	89	7	114	40	1	4	54	1.28
3155121--3155160	2	20.0	2	100	0	80	50	0	0	50	1.00
3155220--3155266	3	15.3	3	95	4	85	34	0	0	65	0.93
3160415--3160455	3	13.0	3	89	5	55	0	39	0	60	0.96
3167831--3167870	20	2.0	20	90	0	62	25	0	5	70	1.08
3167833--3167879	20	2.4	19	82	6	58	25	0	4	70	1.05
3168921--3168950	13	2.4	13	94	5	53	73	0	0	26	0.84
3168895--3168955	29	2.2	26	80	13	61	67	1	1	29	1.10
3170206--3170272	32	2.1	33	83	8	84	22	10	0	67	1.21
3170616--3170650	6	6.0	6	90	6	54	28	34	2	34	1.72
3173159--3173188	14	2.1	14	93	0	51	83	0	16	0	0.65
3175822--3175879	2	29.0	2	92	0	98	48	3	0	48	1.18
3176462--3176578	39	3.0	39	78	2	110	34	25	12	27	1.92
3182542--3182575	6	5.7	6	85	0	50	2	32	35	29	1.73
3185819--3185992	86	2.0	86	98	0	339	31	10	17	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3187111--3187142	2	16.0	2	100	0	64	0	0	50	50	1.00
3190070--3190124	15	3.8	15	73	9	51	18	0	25	56	1.42
3190363--3190414	21	2.5	21	87	0	68	25	0	28	46	1.53
3190479--3190545	18	3.6	18	70	18	57	25	0	22	52	1.47
3190613--3190704	7	13.3	7	76	13	75	35	0	25	39	1.56
3190607--3190703	21	4.7	20	81	8	97	37	1	24	37	1.63
3190688--3190786	22	4.7	21	69	15	60	18	0	36	45	1.49
3190934--3190987	21	2.6	21	81	0	63	37	0	18	44	1.50
3190995--3191284	27	10.4	27	64	18	76	28	1	30	39	1.67
3190995--3192209	7	175.3	7	66	14	271	28	1	27	41	1.66
3191108--3191175	20	3.4	20	80	11	77	23	2	32	41	1.69
3191112--3191189	13	5.8	14	73	10	56	21	2	32	43	1.66
3191219--3191275	20	2.8	19	84	7	69	35	0	33	31	1.58
3191219--3191283	13	4.8	13	77	19	62	33	0	32	33	1.58
3191494--3191612	43	2.8	43	92	1	186	33	1	31	32	1.68
3192078--3192121	12	3.5	12	81	6	52	22	2	31	43	1.66
3192133--3192209	34	2.2	35	86	2	102	27	1	27	44	1.62
3192727--3192755	15	2.0	15	93	6	51	13	0	37	48	1.43
3192741--3192783	20	2.2	20	83	8	52	20	0	34	44	1.52
3194676--3194728	25	2.2	25	86	10	74	37	5	1	54	1.35
3195408--3195488	28	2.9	29	75	8	69	41	20	1	35	1.61
3195680--3195726	16	2.9	16	83	0	67	48	25	14	10	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3197556--3197589	14	2.4	14	100	0	68	38	8	0	52	1.33
3198340--3198381	19	2.2	19	87	8	59	64	0	0	35	0.94
3198555--3198587	16	2.1	16	94	0	57	48	42	6	3	1.43
3198821--3198852	16	1.9	17	93	6	57	31	6	3	59	1.38
3198845--3198887	2	21.5	2	100	0	86	51	0	0	48	1.00
3198977--3199001	10	2.5	10	100	0	50	28	0	0	72	0.86
3199684--3199708	12	2.1	12	100	0	50	20	16	8	56	1.65
3199900--3199938	14	2.7	14	88	4	51	25	2	2	69	1.14
3200952--3200994	12	3.8	11	84	12	52	0	16	0	83	0.64
3200956--3200994	18	2.2	18	86	9	53	0	17	0	82	0.68

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13