genome.fa.s1523.2.7.7.80.10.50.1000.12.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: scaffold23
Parameters: 2 7 7 80 10 50 1000
Length:  3824748

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  12  of  14  ( 1619 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)
3107125--3107191	34	1.9	35	90	3	109	46	13	8	31	1.74
3107160--3107199	14	2.9	14	84	0	53	42	17	7	32	1.77
3112444--3112487	14	2.8	16	86	10	56	63	4	0	31	1.14
3115832--3115864	16	2.1	16	100	0	66	36	6	36	21	1.78
3121151--3121350	37	5.4	37	66	14	110	47	18	17	17	1.84
3121154--3121344	73	2.6	72	80	5	213	46	18	16	17	1.84
3121642--3121688	14	3.5	13	81	16	60	34	8	2	55	1.42
3121807--3121848	10	4.2	10	79	11	50	61	2	0	35	1.09
3121810--3121848	20	1.9	21	89	5	62	58	2	0	38	1.12
3123010--3123046	3	12.3	3	100	0	74	35	0	0	64	0.94
3123122--3123183	31	2.0	31	93	0	106	40	14	4	40	1.67
3127369--3127410	21	2.0	21	81	9	50	61	0	0	38	0.96
3138317--3138356	20	2.0	20	90	0	62	27	10	12	50	1.72
3138302--3138368	34	1.9	35	90	3	109	31	8	13	46	1.74
3138296--3138372	14	5.0	15	71	20	52	33	9	14	42	1.77
3140653--3140717	33	2.0	33	96	0	121	20	16	21	41	1.90
3141537--3141600	30	2.1	30	91	0	101	26	29	1	42	1.65
3146815--3146853	15	2.6	15	87	0	51	51	33	0	15	1.44
3147744--3147769	2	13.0	2	100	0	52	50	0	0	50	1.00
3148479--3148540	33	1.9	31	83	6	79	30	0	11	58	1.33
3148531--3148603	30	2.4	31	75	6	78	32	0	4	63	1.14
3154593--3154623	11	2.8	11	90	0	53	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3156083--3156110	12	2.3	12	100	0	56	78	0	0	21	0.75
3156080--3156113	10	3.3	10	91	4	50	70	0	0	29	0.87
3160293--3160339	18	2.7	18	78	21	55	63	2	0	34	1.06
3160485--3160537	3	17.7	3	81	14	65	62	0	1	35	1.06
3160489--3160537	21	2.3	21	89	6	73	61	0	2	36	1.08
3161656--3161786	65	2.0	66	98	1	255	27	19	9	44	1.80
3162247--3162271	8	3.1	8	100	0	50	76	12	0	12	1.04
3162280--3162444	86	1.9	85	82	6	208	40	17	9	32	1.82
3162458--3162513	18	2.8	21	76	15	64	67	0	3	28	1.07
3162486--3162533	19	2.3	22	79	13	57	62	0	4	33	1.14
3162489--3162546	30	1.9	30	89	0	89	62	1	3	32	1.22
3162901--3162974	19	3.9	19	75	12	64	28	5	0	66	1.14
3175578--3175622	18	2.4	19	81	7	56	33	0	0	66	0.92
3182617--3182821	102	2.0	102	87	1	295	33	13	24	28	1.93
3187358--3187399	16	2.6	16	81	11	50	45	0	7	47	1.30
3189332--3189407	29	2.6	29	82	4	80	19	17	13	50	1.78
3190505--3190556	20	2.5	21	84	3	70	28	5	34	30	1.81
3195780--3195836	19	2.8	19	72	17	53	57	3	0	38	1.16
3215423--3215703	109	2.6	109	92	1	460	33	19	16	29	1.94
3217710--3218080	44	8.6	44	70	11	221	24	21	21	31	1.98
3217834--3218170	131	2.6	131	91	1	525	24	22	22	30	1.99
3217836--3218083	44	5.7	44	80	7	272	25	22	22	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3217834--3218205	87	4.3	87	77	6	299	23	22	22	30	1.99
3217832--3218170	44	7.8	44	74	10	169	24	22	22	30	1.99
3220514--3220604	17	5.3	16	72	20	60	3	12	4	80	0.98
3220514--3220555	15	2.7	15	88	3	57	2	9	2	85	0.77
3220514--3220593	31	2.5	32	78	8	92	3	11	5	80	1.01
3220520--3220605	25	3.6	24	71	15	70	3	11	4	80	0.99
3220520--3220570	25	2.1	24	88	3	75	3	9	5	80	1.01
3224768--3224802	3	11.7	3	87	0	52	60	0	5	34	1.21
3224771--3224802	12	2.7	12	100	0	64	59	0	6	34	1.23
3225122--3225566	222	2.0	223	99	0	874	25	26	17	30	1.97
3225624--3225666	15	2.7	16	78	10	52	79	0	11	9	0.95
3225861--3226006	74	2.0	73	94	0	247	25	19	45	9	1.81
3236058--3236252	74	2.6	74	91	2	304	40	9	6	43	1.63
3240749--3240806	26	2.3	25	82	5	71	46	13	13	25	1.81
3246811--3246880	29	2.3	29	85	4	86	50	8	14	27	1.72
3252343--3252376	5	7.2	5	87	12	54	61	0	0	38	0.96
3253069--3253310	89	2.7	89	82	6	253	36	15	11	36	1.83
3253499--3253542	18	2.5	17	82	10	52	38	0	0	61	0.96
3253654--3253823	92	1.9	91	85	6	238	36	10	18	35	1.84
3261893--3261931	19	2.1	19	90	4	62	20	0	17	61	1.34
3262398--3262441	19	2.3	19	80	7	54	68	2	2	27	1.14
3264742--3264940	99	2.0	98	97	0	371	33	12	9	44	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3271695--3272394	350	2.0	350	100	0	1400	40	4	21	33	1.72
3272468--3272506	18	2.1	18	85	4	51	33	15	12	38	1.85
3273310--3273348	20	2.0	20	89	0	60	41	0	35	23	1.55
3275830--3275911	27	3.1	26	79	6	92	28	26	10	34	1.90
3278112--3278145	13	2.5	13	85	4	50	26	0	2	70	1.01
3288999--3289028	2	15.0	2	100	0	60	50	0	0	50	1.00
3291021--3291048	2	14.0	2	100	0	56	50	0	0	50	1.00
3306950--3307113	85	1.9	85	97	0	310	36	23	12	27	1.91
3309504--3309586	3	28.0	3	71	11	55	30	3	6	60	1.38
3314138--3314188	9	5.6	9	97	2	93	88	0	9	1	0.60
3314138--3314181	1	44.0	1	81	0	52	90	0	9	0	0.44
3314992--3315027	8	4.5	8	89	10	56	77	0	11	11	0.99
3314991--3315027	9	4.4	9	86	13	53	78	0	10	10	0.97
3314993--3315027	15	2.3	15	95	5	61	77	0	11	11	1.00
3314993--3315034	15	2.7	15	85	3	57	76	0	11	11	1.03
3315111--3315212	43	2.4	42	77	9	98	31	14	25	28	1.95
3316328--3316645	46	6.9	46	88	0	438	27	16	26	30	1.96
3316684--3316867	44	4.2	44	67	12	108	31	19	23	26	1.98
3316750--3316888	45	3.1	44	65	6	109	32	20	20	25	1.97
3316907--3317787	51	17.4	51	62	13	262	30	21	21	26	1.98
3316902--3317819	101	9.1	101	90	0	1390	30	21	21	26	1.98
3319503--3319528	5	5.2	5	100	0	52	42	19	19	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3320048--3320106	30	2.0	31	83	6	77	40	0	40	18	1.51
3320327--3320363	9	4.1	9	92	0	65	29	10	13	45	1.77
3322512--3322671	69	2.3	69	89	0	230	38	15	17	28	1.90
3325562--3325599	12	3.2	12	88	3	51	18	21	2	57	1.52
3326940--3326988	3	16.3	3	95	0	89	32	36	0	30	1.58
3328338--3328487	76	2.0	76	88	2	221	32	9	6	51	1.60
3333614--3333656	20	2.1	21	83	12	54	25	51	18	4	1.66
3345223--3345255	17	1.9	17	88	11	50	21	0	12	66	1.23
3349489--3349569	1	81.0	1	72	0	63	86	8	3	1	0.74
3349489--3349550	6	10.7	6	94	5	101	87	11	0	1	0.62
3350408--3350451	19	2.3	19	88	11	63	75	0	13	11	1.06
3350923--3353899	176	16.9	176	97	0	5265	28	22	22	26	1.99
3350923--3353899	88	33.8	88	87	0	4318	28	22	22	26	1.99
3353905--3354252	132	2.6	132	92	0	572	30	17	23	28	1.97
3355655--3355734	3	26.3	3	73	7	63	31	7	1	60	1.33
3359434--3359629	44	4.5	44	83	1	259	30	13	25	30	1.94
3367846--3367904	28	2.1	28	93	0	100	11	25	18	44	1.84
3368050--3368100	27	2.0	25	84	7	66	37	0	0	62	0.95
3367981--3368272	147	2.0	147	98	1	568	32	9	5	51	1.58
3368197--3368247	27	2.0	25	84	7	66	37	0	0	62	0.95
3371446--3371479	17	2.0	17	88	0	50	41	0	0	58	0.98
3372786--3372822	6	6.5	6	93	6	51	0	18	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3380053--3380114	18	3.2	18	82	13	54	58	3	0	38	1.15
3382843--3382896	21	2.4	23	75	12	58	53	1	1	42	1.22
3385527--3385590	31	2.0	32	87	3	94	17	15	9	57	1.63
3389951--3389998	18	2.4	21	83	10	66	29	2	0	68	1.01
3390154--3390215	23	2.8	22	80	2	70	29	16	17	37	1.92
3390177--3390544	181	2.0	181	98	0	709	30	20	21	26	1.98
3390576--3390630	14	4.0	13	75	11	56	25	27	23	23	2.00
3390576--3390634	28	2.1	28	87	0	82	25	30	22	22	1.99
3392625--3392692	30	2.3	30	100	0	136	36	2	0	60	1.12
3404023--3404085	26	2.4	27	97	2	119	31	28	3	36	1.73

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14