genome.fa.s127.2.7.7.80.10.50.1000.20.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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  20  of  26  ( 3103 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)
3169585--3169634	23	2.2	23	82	7	57	36	0	2	62	1.07
3169670--3169734	24	2.8	24	79	6	71	41	0	0	58	0.98
3170560--3170603	23	2.0	23	86	8	65	47	0	0	52	1.00
3170871--3170904	12	2.8	12	90	4	50	29	0	0	70	0.87
3171916--3171955	22	1.9	20	90	10	62	62	0	0	37	0.95
3171808--3172166	176	2.0	176	96	0	664	42	5	5	47	1.48
3177005--3177054	15	3.3	15	81	13	50	42	0	0	58	0.98
3177001--3177067	20	3.1	21	81	14	75	40	0	0	59	0.97
3177006--3177055	14	3.5	14	78	5	55	42	0	0	58	0.98
3177006--3177062	14	4.0	14	79	4	51	38	0	0	61	0.96
3177492--3177517	2	13.0	2	100	0	52	50	0	0	50	1.00
3180782--3180839	29	2.0	29	93	6	100	48	18	3	29	1.65
3185387--3185454	11	5.7	12	71	23	54	29	0	0	70	0.87
3185388--3185434	13	3.7	13	75	16	53	27	0	0	72	0.85
3185473--3185535	28	2.2	27	86	8	81	42	0	0	57	0.99
3185515--3185550	14	2.5	14	90	4	54	52	0	0	47	1.00
3185493--3185551	11	5.3	11	73	15	50	49	0	0	50	1.00
3185515--3185582	29	2.5	27	74	21	70	55	0	2	41	1.15
3185644--3185677	17	1.9	18	94	5	61	35	0	0	64	0.94
3190106--3190404	34	8.8	35	71	9	192	38	13	16	31	1.88
3190091--3190231	66	2.1	67	85	6	187	35	12	19	33	1.88
3190497--3190666	34	4.9	34	77	7	146	31	19	11	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3190497--3190564	36	1.9	35	85	11	95	36	20	10	32	1.86
3192214--3192293	30	2.7	29	72	16	74	32	12	26	28	1.93
3194952--3194993	18	2.3	18	91	0	66	0	30	7	61	1.22
3195270--3195320	19	2.7	19	72	3	50	50	3	0	45	1.20
3197271--3197313	17	2.6	16	76	20	52	67	0	2	30	1.03
3197275--3197310	17	2.1	17	89	5	54	66	0	2	30	1.06
3202420--3202456	18	2.1	18	89	0	56	2	35	8	54	1.44
3202472--3202542	15	4.7	15	85	0	79	18	46	0	35	1.49
3202496--3202539	3	14.7	3	90	0	61	25	40	0	34	1.56
3202485--3202542	6	10.2	6	78	10	50	20	44	0	34	1.52
3203202--3203240	19	2.1	19	100	0	78	56	5	20	17	1.60
3204562--3204595	5	6.8	5	93	0	59	0	17	2	79	0.86
3206306--3206377	4	19.0	4	76	11	62	4	19	0	76	0.95
3206303--3206376	11	6.3	11	73	18	60	4	17	0	78	0.90
3206430--3206488	3	20.0	3	96	3	111	66	0	0	33	0.92
3206612--3206662	23	2.1	23	92	7	84	0	15	0	84	0.63
3206612--3206672	17	3.2	17	74	24	59	0	18	0	81	0.68
3206622--3206673	23	2.3	23	89	0	77	0	21	0	78	0.74
3207061--3207096	2	18.0	2	100	0	72	50	0	0	50	1.00
3210341--3210398	29	2.0	29	93	6	100	48	18	3	29	1.65
3214952--3215019	11	5.7	12	71	23	54	29	0	0	70	0.87
3214953--3214999	13	3.7	13	75	16	53	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3215081--3215116	14	2.5	14	90	4	54	52	0	0	47	1.00
3215059--3215117	11	5.3	11	73	15	50	49	0	0	50	1.00
3215081--3215148	29	2.5	27	74	21	70	55	0	2	41	1.15
3219654--3219966	34	9.2	34	70	12	153	38	13	16	31	1.87
3219654--3219793	66	2.1	66	85	7	185	35	12	18	33	1.88
3220059--3220228	34	4.9	34	77	7	146	31	19	11	37	1.87
3220059--3220126	36	1.9	35	85	11	95	36	20	10	32	1.86
3221775--3221854	30	2.7	29	72	16	74	32	12	26	28	1.93
3224506--3224547	18	2.3	18	91	0	66	0	30	7	61	1.22
3224734--3224790	29	2.0	28	86	6	78	42	0	0	57	0.98
3224823--3224873	19	2.7	19	72	3	50	50	3	0	45	1.20
3226826--3226874	17	3.1	15	77	13	53	69	0	2	28	1.00
3226836--3226871	17	2.1	17	89	5	54	66	0	2	30	1.06
3231990--3232026	18	2.1	18	89	0	56	2	35	8	54	1.44
3232042--3232073	15	2.1	15	94	0	55	12	50	0	37	1.41
3232066--3232109	3	14.7	3	90	0	52	22	43	0	34	1.54
3232063--3232112	24	2.1	24	92	0	82	20	46	0	34	1.51
3232069--3232112	18	2.4	18	88	0	70	20	45	0	34	1.51
3232055--3232112	6	9.2	6	74	10	53	18	46	0	34	1.50
3234785--3234815	2	15.5	2	93	0	53	48	0	51	0	1.00
3235784--3235843	20	2.9	20	72	5	57	40	0	5	55	1.22
3237334--3237371	18	2.0	20	85	10	53	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3240609--3240640	2	16.0	2	100	0	64	50	0	0	50	1.00
3241087--3241152	24	2.8	23	73	15	62	53	0	0	46	1.00
3241394--3241425	16	1.9	17	93	6	57	71	6	0	21	1.07
3242759--3242808	24	2.1	24	84	0	64	58	2	4	36	1.29
3244029--3244080	20	2.7	19	83	13	63	38	0	1	59	1.08
3244276--3244301	2	13.0	2	100	0	52	50	0	0	50	1.00
3245045--3245135	30	3.2	30	75	13	93	52	2	3	41	1.30
3245086--3245131	23	2.0	23	91	4	76	52	0	6	41	1.27
3245088--3245138	23	2.2	23	86	6	68	54	0	3	41	1.19
3248583--3248608	7	3.7	7	100	0	52	11	0	0	88	0.52
3253751--3253813	32	2.0	32	96	0	117	30	30	1	38	1.67
3258977--3259043	19	3.4	19	71	6	62	49	1	0	49	1.10
3259012--3259088	30	2.6	28	73	15	75	49	0	0	50	1.00
3259067--3259106	21	1.9	21	85	10	55	37	0	2	60	1.11
3259972--3260013	22	1.9	22	90	9	68	38	0	0	61	0.96
3264464--3264496	2	16.5	2	100	0	66	48	0	0	51	1.00
3265379--3265416	14	2.6	14	91	4	58	34	0	0	65	0.93
3265612--3265645	13	2.5	14	85	4	52	61	0	0	38	0.96
3266420--3266463	12	3.5	12	84	9	52	68	0	0	31	0.90
3271437--3271469	2	16.5	2	100	0	66	48	0	0	51	1.00
3272583--3272616	13	2.5	14	85	4	52	61	0	0	38	0.96
3273393--3273436	12	3.5	12	84	9	52	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3278414--3278446	2	16.5	2	100	0	66	48	0	0	51	1.00
3279323--3279365	17	2.6	16	85	7	59	25	0	0	74	0.82
3279560--3279593	13	2.5	14	85	4	52	61	0	0	38	0.96
3280369--3280412	12	3.5	12	84	9	52	68	0	0	31	0.90
3285384--3285418	2	17.5	2	100	0	70	48	0	0	51	1.00
3287005--3287261	129	2.0	129	92	1	426	31	5	35	26	1.80
3289359--3289420	16	3.9	16	73	12	56	54	4	1	38	1.31
3293025--3293071	18	2.6	18	80	13	51	31	2	10	55	1.46
3293300--3293336	5	7.0	5	88	11	56	59	0	0	40	0.97
3293300--3293336	16	2.3	16	90	9	58	59	0	0	40	0.97
3293341--3293399	25	2.3	27	75	16	63	45	1	0	52	1.10
3293592--3293623	16	2.0	17	88	11	50	84	0	15	0	0.63
3301176--3301229	15	3.6	14	75	9	54	55	0	0	44	0.99
3301324--3301402	21	3.8	21	79	0	59	40	12	1	45	1.50
3301825--3301860	14	2.4	14	90	9	54	63	2	0	33	1.08
3301819--3301865	23	2.2	22	85	11	62	65	2	0	31	1.04
3302063--3302154	41	2.2	40	96	3	166	57	6	6	29	1.49
3302490--3302541	27	1.9	27	84	7	70	57	0	0	42	0.98
3302480--3302549	27	2.7	27	71	20	67	58	0	0	41	0.98
3305724--3305754	15	2.1	15	94	5	55	58	0	0	41	0.98
3305727--3305794	28	2.6	26	77	13	68	55	0	2	41	1.15
3305974--3306017	13	3.3	13	80	3	52	75	0	0	25	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3306988--3307034	21	2.3	21	80	16	55	55	0	0	44	0.99
3307476--3307513	15	2.8	13	88	11	51	42	0	0	57	0.98
3307619--3307679	22	2.8	22	85	5	70	57	1	0	40	1.08
3307868--3307906	16	2.5	15	83	4	51	46	0	0	53	1.00
3308710--3308755	23	2.0	24	91	8	78	54	0	2	43	1.12
3308714--3308763	22	2.2	23	82	13	59	56	0	2	42	1.11
3308934--3308990	16	3.6	16	83	9	64	22	3	14	59	1.50
3308947--3309001	16	3.4	17	82	9	71	23	5	10	60	1.51
3310150--3310205	22	2.6	21	73	15	60	37	0	1	60	1.07
3310263--3310311	22	2.3	23	82	10	59	36	8	2	53	1.43

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