genome.fa.s71.2.7.7.80.10.50.1000.20.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   27   28   29   30   31   32   
          33   

This is table  20  of  33  ( 3929 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)
3152977--3153008	16	2.0	16	93	0	55	18	21	12	46	1.82
3153619--3153712	28	3.5	27	75	12	79	40	0	3	56	1.15
3153887--3153911	2	12.5	2	100	0	50	48	0	0	52	1.00
3154420--3154475	27	2.1	27	83	6	69	53	0	0	46	1.00
3155694--3155736	22	2.0	22	85	0	59	44	9	0	46	1.35
3160289--3160330	18	2.3	18	84	8	50	57	2	2	38	1.25
3162895--3162950	19	3.2	18	80	14	55	41	1	3	53	1.29
3164142--3166220	218	9.8	217	77	9	1747	44	14	7	32	1.73
3164864--3165217	176	2.0	176	89	0	537	44	14	7	34	1.73
3164646--3165435	394	2.0	394	91	0	1267	44	14	7	33	1.74
3166500--3166546	23	2.1	23	84	4	60	46	0	0	53	1.00
3168058--3168102	18	2.6	17	83	13	56	60	2	2	35	1.22
3168058--3168106	17	2.8	17	84	9	55	59	2	2	36	1.21
3169004--3169057	19	2.9	18	75	25	58	53	1	0	44	1.11
3172140--3172180	20	2.0	21	85	4	57	41	4	0	53	1.22
3173916--3173953	2	19.0	2	94	0	67	47	0	2	50	1.15
3174730--3174762	2	16.5	2	100	0	66	51	0	0	48	1.00
3176194--3176261	16	4.3	15	74	7	55	25	16	19	39	1.91
3178798--3178842	19	2.4	18	82	13	56	55	2	0	42	1.12
3181759--3181814	23	2.5	23	91	2	96	30	12	1	55	1.47
3181802--3181832	16	1.9	16	100	0	62	25	12	3	58	1.50
3182625--3182726	26	3.9	25	81	7	105	36	0	9	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3187195--3187268	28	2.6	28	97	0	139	25	6	16	51	1.69
3189559--3189610	27	1.9	27	88	7	79	34	3	3	57	1.35
3191884--3191933	2	26.0	2	80	8	50	50	4	2	44	1.32
3193777--3193854	6	12.5	6	78	8	75	33	2	2	61	1.23
3194451--3194507	22	2.5	22	83	11	71	73	1	12	12	1.17
3195767--3195820	25	2.1	27	82	6	67	35	0	7	57	1.27
3196432--3196515	27	3.2	26	67	29	70	17	9	14	58	1.62
3205692--3205743	19	2.8	19	75	13	54	38	1	0	59	1.08
3206750--3206789	2	20.0	2	89	0	62	0	47	5	47	1.24
3209940--3209968	2	14.5	2	100	0	58	0	0	48	51	1.00
3212796--3212830	6	5.8	6	96	0	61	34	17	37	11	1.85
3215015--3215041	12	2.2	12	100	0	54	44	0	22	33	1.53
3215674--3215705	2	16.0	2	100	0	64	50	0	0	50	1.00
3220156--3220195	2	20.0	2	94	0	71	52	0	0	47	1.00
3220357--3220397	14	2.9	14	81	0	55	51	0	0	48	1.00
3222493--3222552	23	2.6	23	97	0	111	50	3	3	43	1.35
3227467--3227652	101	1.8	102	92	1	320	25	20	16	37	1.93
3228310--3228377	25	2.5	28	79	15	81	61	0	0	38	0.96
3230487--3230513	2	13.5	2	100	0	54	48	0	0	51	1.00
3231836--3231862	2	13.5	2	100	0	54	48	0	0	51	1.00
3235017--3235062	21	2.2	21	84	0	56	39	2	0	58	1.10
3235029--3235087	8	7.5	8	74	11	50	38	0	1	59	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235029--3235089	15	3.9	16	76	8	54	39	0	1	59	1.08
3236477--3236506	14	2.1	14	93	0	51	0	36	0	63	0.95
3238671--3238753	28	3.0	28	90	0	130	21	9	18	50	1.75
3238758--3238802	24	1.9	23	90	4	72	20	6	28	44	1.76
3243356--3243401	24	1.9	24	95	0	83	19	6	28	45	1.75
3245136--3245166	14	2.3	13	94	5	53	61	0	0	38	0.96
3246750--3246935	89	2.1	87	89	2	282	45	6	4	42	1.52
3250104--3250154	22	2.5	21	81	9	61	72	0	0	27	0.85
3253823--3253877	28	1.9	29	82	10	69	45	1	5	47	1.36
3254242--3254314	34	2.1	36	84	5	96	32	0	2	64	1.08
3254375--3254420	15	3.0	15	83	3	56	60	0	0	39	0.97
3254842--3254939	37	2.6	36	80	6	106	40	2	1	56	1.18
3254909--3254949	23	1.9	22	85	14	59	46	0	0	53	1.00
3255735--3255805	23	3.1	23	78	13	76	50	0	0	49	1.00
3256235--3256280	22	2.2	22	77	11	53	41	2	10	45	1.51
3257984--3258097	2	57.0	2	100	0	228	0	50	0	50	1.00
3259800--3259841	22	1.9	22	95	0	75	54	0	4	40	1.21
3259824--3259865	20	2.1	20	90	0	66	33	0	4	61	1.17
3261153--3261195	18	2.4	18	84	0	59	55	0	0	44	0.99
3261684--3261720	16	2.3	16	85	0	56	43	0	0	56	0.99
3262048--3262080	16	2.1	16	88	5	50	48	0	0	51	1.00
3262045--3262085	13	3.2	13	82	6	57	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3262856--3262999	22	6.8	20	66	20	69	38	0	0	61	0.96
3262856--3262906	19	2.7	19	78	6	50	43	0	0	56	0.99
3262885--3262930	17	2.8	17	86	3	58	47	0	0	52	1.00
3262909--3263001	34	2.8	33	82	14	102	33	0	0	66	0.92
3262909--3262989	29	2.8	29	76	10	78	34	0	0	65	0.93
3262921--3262981	24	2.6	24	80	12	72	31	0	0	68	0.89
3262877--3263002	34	3.7	33	73	16	87	38	0	0	61	0.96
3263432--3263471	19	2.0	20	85	9	55	30	2	0	67	1.04
3274218--3274250	2	17.0	2	93	6	59	51	0	0	48	1.00
3274296--3274329	2	17.0	2	93	0	59	47	0	2	50	1.16
3276655--3276690	18	2.1	18	89	5	56	69	0	0	30	0.89
3277937--3277977	23	1.9	21	85	14	57	26	17	12	43	1.84
3278041--3278079	16	2.4	17	86	4	62	35	17	2	43	1.63
3278229--3278273	17	2.6	18	82	10	58	24	26	8	40	1.84
3278256--3278345	37	2.4	36	80	9	92	28	30	5	35	1.80
3279335--3279366	2	16.5	2	93	6	57	50	0	0	50	1.00
3279470--3279497	2	14.0	2	100	0	56	50	0	0	50	1.00
3281720--3281773	28	1.9	28	88	0	81	48	9	16	25	1.76
3282200--3282260	23	2.6	23	87	10	79	63	4	6	24	1.38
3282225--3282260	11	3.2	11	88	4	54	61	5	8	25	1.46
3283549--3283598	12	3.9	13	76	19	52	40	6	10	44	1.63
3283550--3283601	27	2.0	26	96	3	95	40	3	11	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3288327--3288376	12	3.9	13	76	19	52	40	6	10	44	1.63
3288328--3288379	27	2.0	26	96	3	95	40	3	11	44	1.59
3289419--3289492	37	1.9	39	89	5	116	55	5	0	39	1.23
3289815--3289854	13	3.2	12	82	10	53	67	2	2	27	1.16
3290089--3290133	21	2.2	21	84	4	56	22	6	6	64	1.41
3290528--3290571	14	3.1	14	80	6	52	47	0	0	52	1.00
3290514--3290560	24	2.0	23	83	4	58	46	0	0	53	1.00
3290999--3291025	12	2.2	12	100	0	54	48	0	0	51	1.00
3292048--3292082	17	1.9	19	88	11	56	37	5	0	57	1.23
3292094--3292128	12	2.9	12	86	0	52	42	2	0	54	1.15
3294988--3295025	3	12.7	3	94	0	67	31	0	2	65	1.06
3295724--3295751	2	14.0	2	100	0	56	0	0	50	50	1.00
3311662--3311875	112	1.9	110	87	3	313	45	9	14	30	1.77
3317541--3317567	6	4.5	6	100	0	54	18	48	14	18	1.82
3318349--3318386	17	2.2	18	90	4	60	47	0	2	50	1.15
3319142--3319194	21	2.5	22	73	17	58	56	0	3	39	1.17
3319154--3319226	17	4.3	18	70	16	57	57	0	1	41	1.07
3319203--3319275	31	2.3	32	81	6	87	61	2	0	35	1.10
3319220--3319287	31	2.3	31	82	5	77	63	4	1	30	1.23
3326564--3326603	19	2.1	19	86	9	55	45	0	0	55	0.99
3326564--3326621	20	3.0	20	82	12	59	50	0	0	50	1.00
3326604--3326650	16	2.9	16	81	9	51	61	2	2	34	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3327001--3327044	16	2.7	17	82	6	56	68	0	0	31	0.90
3327097--3327144	22	2.1	22	84	3	60	58	6	2	33	1.35
3328761--3328823	20	2.8	22	76	16	67	33	0	4	61	1.17
3329422--3329449	2	14.0	2	100	0	56	50	0	0	50	1.00
3330497--3330530	2	17.0	2	93	0	59	50	2	0	47	1.16
3330691--3330731	10	3.8	11	78	15	50	39	4	0	56	1.21
3331307--3331339	2	17.0	2	87	6	50	45	0	3	51	1.16
3331656--3331688	12	2.8	12	95	0	57	36	3	0	60	1.12
3331653--3331719	32	2.0	34	83	11	86	37	2	1	58	1.23
3332253--3332310	14	4.1	15	78	12	61	65	1	0	32	1.03

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   27   28   29   30   31   32   
          33