genome.fa.s223.2.7.7.80.10.50.1000.18.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  18  of  26  ( 3021 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)
2978952--2979026	30	2.6	29	83	10	91	80	0	18	1	0.79
2978954--2979000	8	6.1	8	85	9	62	82	0	17	0	0.66
2979255--2980174	158	5.9	156	81	7	933	32	6	13	47	1.68
2980382--2980443	13	4.9	13	70	20	51	27	0	6	66	1.16
2980553--2980603	18	2.8	19	85	8	70	52	7	0	39	1.30
2980581--2981014	139	3.0	148	80	10	488	47	11	5	34	1.64
2981338--2981547	73	2.9	71	77	5	206	55	10	0	33	1.38
2981871--2981913	22	2.0	22	90	0	68	23	27	9	39	1.85
2981982--2982009	5	5.6	5	100	0	56	35	0	0	64	0.94
2982052--2982089	19	2.1	18	85	14	51	34	0	0	65	0.93
2983400--2983467	25	2.9	24	78	12	70	55	0	1	42	1.08
2983899--2983950	22	2.6	20	75	16	54	51	3	3	40	1.38
2984109--2984145	17	2.1	18	90	5	58	56	0	0	43	0.99
2984317--2984366	23	2.2	22	78	3	55	46	2	0	52	1.12
2986317--2986360	17	2.7	16	79	6	52	56	0	0	43	0.99
2986324--2986391	24	2.6	25	80	19	70	55	0	0	44	0.99
2987813--2987869	26	2.2	26	93	3	98	43	7	1	47	1.40
2988364--2988390	12	2.2	12	100	0	54	55	0	7	37	1.28
2989130--2989205	25	3.0	24	75	11	64	42	1	0	56	1.07
2994289--2994332	3	14.7	3	100	0	88	65	0	0	34	0.93
2995557--2995632	28	2.7	28	76	11	84	28	15	15	39	1.89
2995906--2995935	15	2.0	15	93	0	51	83	0	3	13	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2996686--2996715	2	15.0	2	100	0	60	50	0	0	50	1.00
2997463--2997553	8	10.5	8	71	18	58	70	2	1	26	1.06
2997462--2997556	37	2.7	35	82	11	113	69	2	1	27	1.06
2997463--2997557	45	2.2	42	82	14	106	70	2	1	26	1.05
2997770--2997815	11	3.9	11	85	8	56	34	0	13	52	1.40
3000634--3000686	23	2.2	23	77	12	54	58	1	1	37	1.20
3001047--3001098	27	2.0	26	85	7	70	42	5	0	51	1.25
3002682--3002718	19	1.9	19	88	0	56	70	2	2	24	1.14
3002869--3002920	27	1.9	27	84	0	68	32	1	36	28	1.69
3003033--3003068	15	2.4	15	90	0	54	13	8	50	27	1.71
3003830--3003963	68	2.0	68	100	0	268	38	16	16	28	1.90
3006986--3007104	51	2.3	51	80	8	136	32	10	26	31	1.89
3006797--3007173	122	3.0	126	76	12	349	34	11	24	29	1.90
3007047--3007293	79	3.1	79	92	1	397	29	13	27	29	1.94
3007168--3007393	107	2.1	106	79	8	242	29	15	27	26	1.96
3009703--3009810	20	5.8	19	71	24	70	42	13	13	29	1.84
3009742--3009771	13	2.3	13	94	0	51	40	20	10	30	1.85
3009723--3009794	33	2.2	33	92	0	117	43	15	13	27	1.85
3009883--3009923	21	1.9	22	95	5	75	29	14	24	31	1.95
3013171--3013226	21	2.7	21	86	2	69	41	14	10	33	1.80
3013933--3013999	31	2.2	31	81	10	75	62	2	0	34	1.10
3014490--3014519	12	2.5	12	94	0	51	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3015799--3015841	21	2.0	21	100	0	86	37	30	13	18	1.90
3019039--3019084	3	15.0	3	90	4	74	0	34	0	65	0.93
3019352--3019393	21	2.0	21	95	0	75	30	16	38	14	1.89
3021205--3021250	22	2.1	21	84	11	58	58	0	0	41	0.98
3022116--3022190	38	2.0	38	89	5	116	41	2	2	53	1.29
3022104--3022220	29	3.7	29	72	23	76	42	1	2	52	1.25
3022133--3022191	19	3.1	19	69	11	57	40	1	1	55	1.20
3022464--3022506	21	2.1	20	95	4	77	37	0	0	62	0.95
3026244--3026275	2	16.0	2	93	0	55	0	0	46	53	1.00
3026287--3026317	2	15.5	2	93	0	53	48	3	0	48	1.17
3037772--3037847	35	2.2	35	95	0	134	25	17	19	38	1.93
3043056--3043138	27	3.1	27	85	3	114	39	10	6	43	1.64
3044271--3044386	53	2.2	52	83	6	144	52	9	0	37	1.40
3044359--3044491	16	8.3	16	69	13	60	52	5	6	36	1.49
3044984--3045032	19	2.7	19	81	12	68	55	0	2	42	1.11
3044982--3045075	24	4.0	23	74	24	74	56	1	2	40	1.18
3045056--3045098	14	3.1	14	80	6	52	79	0	0	20	0.74
3045053--3045128	28	2.6	28	78	12	75	69	0	0	30	0.88
3045207--3045240	17	2.0	17	94	0	59	58	2	0	38	1.13
3052392--3052436	20	2.3	18	82	14	54	51	0	44	4	1.21
3052731--3052761	16	1.9	16	100	0	62	54	6	12	25	1.62
3055120--3055159	17	2.5	15	84	15	53	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3059738--3059772	4	8.8	4	100	0	70	51	22	0	25	1.48
3060358--3060388	2	15.5	2	100	0	62	48	0	0	51	1.00
3060559--3060590	15	2.1	15	100	0	64	37	12	37	12	1.81
3061429--3061467	21	1.9	20	84	5	51	38	0	2	58	1.12
3062317--3062388	20	3.5	20	70	15	58	61	1	0	37	1.05
3062316--3062390	21	3.5	21	71	14	55	61	1	0	37	1.05
3063020--3063068	21	2.4	21	86	10	66	40	0	0	59	0.98
3063051--3063106	15	3.6	15	74	9	58	46	0	0	53	1.00
3062996--3063102	56	1.9	56	85	11	148	44	0	0	55	0.99
3063288--3063352	23	2.8	24	83	9	80	30	4	4	60	1.37
3063866--3063935	11	6.3	11	71	12	54	65	2	0	31	1.07
3063853--3063931	23	3.6	22	74	17	67	67	3	0	29	1.08
3064045--3064100	8	6.9	8	72	11	51	58	0	0	41	0.98
3068537--3068583	19	2.5	19	85	0	67	25	14	34	25	1.94
3081603--3081648	14	3.1	15	87	9	67	34	0	0	65	0.93
3081581--3081646	8	8.5	8	70	18	50	31	0	0	68	0.90
3082134--3082191	21	3.0	19	80	9	64	53	3	0	43	1.17
3089997--3090083	30	2.9	29	79	10	95	57	0	0	42	0.98
3090613--3090674	16	3.8	15	77	14	61	53	0	0	46	1.00
3090621--3090700	41	2.0	40	82	9	99	57	0	0	42	0.98
3090664--3090707	18	2.5	18	85	10	56	61	0	0	38	0.96
3090675--3090722	22	2.0	25	84	11	66	62	0	2	35	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3090935--3090985	17	3.1	17	88	2	59	49	1	0	49	1.12
3090944--3090985	17	2.5	17	92	3	68	52	0	0	47	1.00
3091551--3091584	2	17.0	2	87	0	50	0	50	0	50	1.00
3091752--3091796	22	2.0	22	86	0	63	42	0	0	57	0.98
3093500--3093539	14	2.8	15	85	11	57	40	0	0	60	0.97
3095980--3096040	24	2.5	24	84	10	72	59	3	1	36	1.24
3096675--3096732	23	2.6	23	83	8	75	62	1	0	36	1.06
3096674--3096738	22	2.9	23	78	13	82	60	1	0	38	1.07
3097100--3097151	17	2.8	19	80	14	63	53	0	0	46	1.00
3097146--3097211	14	4.4	14	77	9	60	34	0	4	60	1.17
3097136--3097227	37	2.4	37	82	8	96	40	0	4	55	1.20
3097197--3097246	16	3.1	16	85	0	64	40	0	4	56	1.18
3097527--3097585	5	11.4	5	76	16	50	37	0	1	61	1.07
3097807--3097847	22	1.9	22	90	5	66	41	4	0	53	1.22
3098923--3098994	21	3.5	20	73	17	60	47	0	1	51	1.09
3099385--3099414	3	10.0	3	100	0	60	33	0	0	66	0.92
3099396--3099451	29	1.9	29	85	7	78	39	0	1	58	1.08
3100187--3100216	11	2.8	11	95	5	53	70	0	0	30	0.88
3101413--3101465	11	4.3	12	79	13	63	39	0	1	58	1.09
3101413--3101465	26	2.2	23	90	10	79	39	0	1	58	1.09
3102193--3102270	39	2.0	39	89	2	120	58	1	1	38	1.14
3102208--3102270	19	3.3	19	73	6	56	63	1	1	33	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3103805--3103839	9	3.9	9	92	0	61	48	0	0	51	1.00
3104225--3104291	29	2.4	28	87	9	100	43	1	1	53	1.19
3104650--3104675	10	2.6	10	100	0	52	38	0	0	61	0.96
3104810--3104911	22	4.3	24	74	20	63	51	1	0	45	1.19
3105100--3105182	42	2.0	43	80	7	98	44	0	3	51	1.18
3106132--3106238	52	2.1	52	100	0	214	28	11	13	47	1.76
3106301--3106331	2	15.5	2	100	0	62	51	0	0	48	1.00
3106402--3106475	21	3.6	21	72	17	66	43	2	1	52	1.23
3107387--3107416	15	2.0	15	93	0	51	70	0	6	23	1.11
3108344--3108391	26	1.9	24	83	8	60	43	0	2	54	1.12

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