genome.fa.s223.2.7.7.80.10.50.1000.19.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  19  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)
3108822--3108872	23	2.2	24	82	3	59	43	0	0	56	0.99
3108834--3108877	23	1.9	23	86	9	63	36	0	0	63	0.95
3109637--3109722	39	2.2	38	89	4	127	61	2	0	36	1.09
3109659--3109720	19	3.2	19	71	11	63	66	1	0	32	1.02
3111602--3111761	80	2.0	82	84	7	211	30	10	10	49	1.70
3111940--3112163	7	30.7	7	69	20	81	68	3	0	27	1.11
3111939--3112126	8	23.9	8	70	21	73	68	2	1	27	1.09
3111940--3112027	25	3.7	24	75	21	87	71	3	2	22	1.12
3111958--3112027	25	2.6	27	88	6	99	68	4	2	24	1.21
3111999--3112070	31	2.3	31	76	4	74	63	1	1	33	1.11
3112062--3112127	29	2.3	29	86	0	96	72	3	0	24	0.98
3112069--3112164	36	2.5	38	82	14	110	70	4	0	25	1.04
3112172--3112231	31	1.9	31	83	6	77	66	3	30	0	1.07
3112487--3112548	30	2.1	30	100	0	124	20	40	12	25	1.89
3117696--3117756	30	2.1	30	96	3	115	21	39	13	26	1.90
3117987--3118011	13	1.9	13	100	0	50	68	8	16	8	1.38
3118254--3118304	13	3.8	13	92	5	84	0	19	0	80	0.71
3118325--3118354	9	3.2	9	90	9	51	0	13	0	86	0.57
3118342--3118507	42	4.0	41	76	11	122	25	3	2	69	1.15
3118426--3118481	22	2.5	23	85	5	62	26	0	1	71	0.96
3118432--3118531	50	2.0	50	80	7	114	26	1	4	69	1.13
3127797--3127852	27	2.1	26	83	3	67	32	21	23	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3130811--3130844	2	17.0	2	93	0	59	52	0	0	47	1.00
3131117--3131164	9	5.6	8	81	13	51	68	0	2	29	1.01
3131551--3131597	20	2.4	20	82	10	62	36	2	0	61	1.08
3133553--3133601	26	1.9	26	83	4	64	42	4	2	51	1.32
3134372--3134407	17	2.1	17	94	0	63	47	11	22	19	1.80
3135356--3135427	22	3.1	22	77	13	65	44	2	1	51	1.24
3135970--3136058	11	8.4	10	70	24	58	66	1	1	31	1.06
3135970--3136110	12	11.8	12	72	16	89	63	0	0	35	1.05
3135970--3136036	26	2.8	24	86	8	84	67	1	0	31	1.00
3135983--3136053	34	2.1	35	82	17	87	64	0	1	33	1.02
3136064--3136129	20	3.2	20	81	12	71	56	0	0	43	0.99
3135988--3136114	20	6.2	19	71	20	71	61	0	0	37	1.02
3136442--3136542	24	4.0	27	67	24	76	60	0	0	38	1.04
3136432--3136499	36	1.9	35	82	8	84	54	0	0	45	0.99
3137464--3137506	18	2.3	19	80	8	52	48	4	0	46	1.22
3137481--3137529	25	2.0	23	84	7	62	51	2	0	46	1.12
3137501--3137542	19	2.2	19	86	4	57	54	0	0	45	0.99
3137455--3137548	44	2.2	44	81	9	113	51	2	0	46	1.13
3138053--3138085	15	2.2	15	94	0	57	36	0	0	63	0.95
3138077--3138125	25	2.0	24	84	11	64	53	2	0	44	1.12
3138110--3138173	29	2.2	31	81	13	82	65	4	0	29	1.13
3139683--3139721	17	2.4	16	82	4	51	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3139817--3139888	34	2.1	35	82	12	87	51	0	2	45	1.15
3139835--3139887	21	2.5	22	81	3	63	54	0	0	45	0.99
3139842--3139902	23	2.7	22	73	16	54	60	0	0	39	0.97
3141283--3141358	32	2.4	30	74	21	75	48	5	2	43	1.39
3141853--3141887	2	17.5	2	100	0	70	51	0	0	48	1.00
3143113--3143176	33	1.9	33	83	0	83	39	6	6	48	1.54
3145889--3145936	21	2.2	21	85	3	60	35	0	0	64	0.94
3146317--3146362	22	2.1	22	91	0	74	56	8	8	26	1.58
3146672--3146738	18	4.0	17	74	16	59	56	1	0	41	1.08
3146676--3146738	32	1.9	33	84	9	85	58	1	0	39	1.07
3147378--3147430	27	2.0	27	92	0	88	39	11	5	43	1.64
3147436--3147460	12	2.1	12	100	0	50	32	28	24	16	1.96
3150997--3151034	2	19.0	2	94	0	67	47	0	0	52	1.00
3151405--3151442	3	12.7	3	100	0	76	68	0	0	31	0.90
3152182--3152227	6	7.7	6	97	0	74	39	10	0	50	1.38
3152420--3152448	11	2.5	12	88	11	51	31	0	0	68	0.89
3152411--3152452	18	2.3	19	88	12	61	28	2	0	69	1.01
3153300--3153344	24	1.9	24	86	4	65	22	20	0	57	1.40
3154641--3154682	18	2.3	19	79	8	50	28	4	11	54	1.57
3155536--3155568	3	11.0	3	100	0	66	33	0	0	66	0.92
3157082--3157124	21	2.0	21	86	4	59	44	2	2	51	1.27
3157098--3157151	29	1.9	27	81	7	63	53	3	0	42	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3157921--3157946	4	6.5	4	100	0	52	23	0	0	76	0.78
3160161--3160188	7	4.0	7	100	0	56	14	0	0	85	0.59
3161532--3161565	18	1.9	17	88	5	50	67	2	5	23	1.26
3162400--3162440	18	2.3	18	91	4	66	65	0	0	34	0.93
3163365--3163436	30	2.5	30	84	8	96	37	5	2	54	1.39
3164234--3164263	11	2.9	10	90	9	51	30	0	0	70	0.88
3164612--3164653	20	2.0	21	86	4	59	16	7	7	69	1.34
3166202--3166237	2	18.0	2	100	0	72	50	0	0	50	1.00
3167047--3167130	45	2.0	43	84	13	111	46	0	0	53	1.00
3171037--3171086	21	2.4	21	83	6	57	42	6	24	28	1.78
3177812--3177840	2	15.0	2	92	7	51	51	0	0	48	1.00
3183943--3184102	50	3.2	49	86	3	214	29	16	18	35	1.94
3184421--3184452	2	16.0	2	93	0	55	46	0	0	53	1.00
3185664--3185715	21	2.6	21	76	14	56	42	1	5	50	1.37
3187833--3187874	20	2.1	21	86	8	61	71	0	0	28	0.86
3187795--3187874	29	2.7	29	76	5	81	70	2	2	25	1.13
3187842--3187874	11	3.2	11	91	8	52	75	0	0	24	0.80
3187887--3187920	17	1.9	18	94	5	61	47	0	0	52	1.00
3188155--3188199	2	22.5	2	100	0	90	0	51	0	48	1.00
3188366--3188392	2	13.5	2	100	0	54	0	51	0	48	1.00
3189238--3189281	2	22.0	2	100	0	88	50	0	0	50	1.00
3191617--3191642	3	8.7	3	100	0	52	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3192126--3192168	18	2.4	18	85	11	54	44	0	0	55	0.99
3192221--3192258	17	2.2	18	95	4	69	60	0	0	39	0.97
3193868--3193900	2	17.0	2	93	6	59	51	0	0	48	1.00
3197348--3197372	13	1.9	13	100	0	50	16	4	0	80	0.87
3197487--3197526	11	3.5	11	86	6	62	35	2	0	62	1.09
3197729--3197795	28	2.3	29	87	2	100	41	0	0	58	0.98
3197752--3197801	22	2.3	22	86	6	66	44	0	0	56	0.99
3197718--3197796	28	2.9	27	75	15	74	43	0	1	55	1.07
3198710--3198776	29	2.3	27	78	14	71	49	0	0	50	1.00
3198726--3198776	18	2.8	18	71	11	50	45	0	0	54	0.99
3199547--3199577	8	3.8	8	95	4	53	25	0	0	74	0.82
3199523--3199578	19	2.8	19	73	24	53	30	1	0	67	1.01
3199592--3199639	11	4.3	11	78	2	51	54	0	0	45	0.99
3199695--3199748	18	3.1	17	81	7	63	33	0	0	66	0.92
3199704--3199755	8	6.2	8	77	14	52	30	0	0	69	0.89
3200273--3200302	15	2.0	15	93	0	51	56	0	0	43	0.99
3200527--3200569	17	2.4	18	76	7	52	67	0	0	32	0.91
3200561--3200625	30	2.2	29	80	2	76	50	0	1	47	1.10
3206236--3206276	2	20.5	2	100	0	82	48	0	0	51	1.00
3210913--3210953	2	20.5	2	94	0	73	51	2	46	0	1.14
3211530--3211577	20	2.7	18	84	12	55	12	4	8	75	1.18
3212080--3212125	16	2.8	16	86	3	56	39	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3212089--3212129	16	2.5	17	84	8	57	39	2	0	58	1.11
3212185--3212238	25	2.2	25	83	12	67	40	0	0	59	0.98
3212410--3212484	23	3.3	23	68	17	59	45	8	1	45	1.41
3212516--3212557	22	1.9	22	85	0	57	57	0	0	42	0.99
3212611--3212663	26	2.1	25	82	10	63	50	3	1	43	1.30
3212815--3212906	30	3.1	31	78	13	77	52	1	2	44	1.20
3214191--3214221	2	15.5	2	100	0	62	51	0	0	48	1.00
3215457--3215506	19	2.6	19	81	9	57	56	10	2	32	1.44
3216469--3216502	13	2.6	13	85	0	50	35	11	2	50	1.54
3223342--3223372	16	1.9	16	93	0	53	19	6	3	70	1.22

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