genome.fa.s223.2.7.7.80.10.50.1000.24.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  24  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)
3830772--3830984	108	2.0	108	86	3	304	27	26	13	32	1.93
3830920--3831034	51	2.3	50	83	7	144	33	23	8	34	1.86
3832635--3832766	34	3.9	34	92	0	219	40	35	0	23	1.55
3832739--3832785	23	2.1	22	84	7	60	40	36	2	21	1.65
3833084--3833167	42	2.0	42	83	6	107	47	0	0	52	1.00
3833664--3833724	27	2.3	27	97	0	113	14	27	32	24	1.95
3835102--3835153	16	3.2	16	72	0	50	28	0	5	65	1.16
3835159--3835229	36	2.0	36	83	10	92	25	0	4	70	1.05
3836295--3836333	20	2.0	19	85	14	53	38	5	0	56	1.22
3836891--3836961	29	2.4	29	83	0	88	40	2	7	49	1.45
3837456--3837506	2	25.5	2	91	0	84	45	0	3	50	1.20
3843137--3843362	119	1.9	120	81	7	280	39	18	9	32	1.83
3846403--3846481	38	2.1	38	90	2	124	27	15	10	46	1.77
3846610--3848693	783	2.6	769	79	7	2063	38	12	12	37	1.80
3850688--3850726	21	1.9	20	89	5	60	38	15	10	35	1.81
3850804--3850829	13	2.0	13	100	0	52	38	15	15	30	1.88
3850867--3850893	13	2.1	13	100	0	54	29	14	14	40	1.86
3857890--3857943	18	3.0	18	83	5	56	77	12	3	5	1.07
3857915--3857945	13	2.5	12	90	10	53	90	9	0	0	0.46
3857915--3857956	19	2.2	19	87	8	59	85	14	0	0	0.59
3859258--3859400	31	4.6	31	83	10	152	23	30	16	29	1.96
3859251--3859382	31	4.3	31	82	8	153	25	30	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3859311--3859712	34	11.8	34	82	9	394	21	31	12	33	1.91
3859312--3859707	70	5.8	70	85	4	472	21	31	12	33	1.91
3859336--3859707	138	2.7	138	87	5	520	20	31	12	34	1.90
3859744--3860991	49	25.8	49	82	8	1293	23	25	18	31	1.97
3859923--3860992	95	11.0	97	82	10	1024	23	26	18	32	1.97
3860182--3860247	22	3.0	22	64	33	52	24	27	21	27	1.99
3860856--3861088	53	4.5	51	76	6	200	23	26	16	33	1.96
3861647--3861774	19	7.7	19	64	28	85	33	11	18	35	1.87
3861648--3861787	32	4.4	32	92	0	226	33	12	18	35	1.89
3865185--3865219	14	2.5	13	86	13	52	42	2	0	54	1.15
3865175--3865231	29	1.9	30	82	3	71	40	1	1	56	1.20
3869668--3869697	9	3.2	9	95	4	51	10	3	0	86	0.67
3871988--3872012	13	1.9	13	100	0	50	32	0	4	64	1.12
3873284--3873309	13	2.0	13	100	0	52	30	23	0	46	1.53
3873424--3873449	12	2.2	12	100	0	52	23	7	19	50	1.73
3874023--3874053	2	15.5	2	100	0	62	48	0	0	51	1.00
3874950--3875020	15	5.1	14	71	20	60	50	2	1	45	1.25
3875040--3875093	8	7.0	8	75	14	51	55	1	0	42	1.10
3875022--3875093	23	3.2	23	75	21	73	54	2	0	43	1.15
3875121--3875167	15	3.2	15	81	6	60	42	0	2	55	1.12
3875122--3875172	14	3.6	14	84	7	68	45	0	1	52	1.12
3875214--3875264	19	2.6	19	75	3	57	41	3	0	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3876941--3876992	20	2.7	20	84	3	70	30	11	19	38	1.87
3877025--3877076	20	2.5	21	78	3	61	26	17	13	42	1.86
3879578--3879604	14	1.9	14	100	0	54	29	14	18	37	1.91
3883408--3883448	21	1.9	21	85	5	55	26	17	4	51	1.65
3885659--3885726	33	2.1	33	86	2	93	30	14	19	35	1.92
3891453--3891644	102	1.9	100	81	7	235	30	22	10	35	1.89
3891453--3891644	101	1.9	101	82	6	244	30	22	10	35	1.89
3893181--3893331	78	1.9	78	95	0	275	43	7	9	38	1.67
3895617--3895675	31	1.9	30	83	10	75	49	5	3	42	1.41
3895637--3895685	23	2.0	25	84	7	66	48	4	4	42	1.40
3895674--3895717	15	2.9	15	80	19	56	61	2	0	36	1.09
3895705--3895768	23	2.8	23	85	2	76	50	0	0	50	1.00
3896666--3896715	7	7.1	7	74	17	50	36	0	0	64	0.94
3897114--3897151	19	2.1	18	90	5	58	23	0	0	76	0.79
3902999--3903550	183	3.0	183	85	5	731	35	14	7	42	1.74
3902992--3903550	274	2.0	275	83	4	709	34	15	7	42	1.74
3904289--3904329	20	2.1	20	90	4	66	51	2	0	46	1.14
3904287--3904335	19	2.6	18	81	12	62	46	2	0	51	1.12
3906251--3906284	3	11.3	3	100	0	68	32	0	0	67	0.91
3907323--3907353	2	15.5	2	93	0	53	0	48	0	51	1.00
3918249--3918287	2	19.5	2	100	0	78	48	0	0	51	1.00
3918287--3918317	2	15.5	2	93	0	53	3	0	45	51	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3924778--3924824	2	23.5	2	100	0	94	0	48	0	51	1.00
3928308--3928452	71	2.0	71	97	0	272	28	17	23	30	1.97
3928812--3928890	38	2.1	38	85	0	104	49	10	7	32	1.65
3931597--3931634	2	19.5	2	94	5	69	47	0	0	52	1.00
3933232--3933270	2	20.0	2	94	5	71	48	0	0	51	1.00
3933320--3933359	16	2.5	17	80	19	50	45	2	0	52	1.14
3933884--3933966	2	41.5	2	83	13	100	48	2	46	2	1.28
3934010--3934073	23	2.9	21	77	9	65	43	0	0	56	0.99
3934792--3934872	13	6.4	13	71	16	53	55	3	0	40	1.17
3934836--3935047	113	1.9	113	85	0	298	48	4	6	41	1.49
3934949--3934980	13	2.4	14	94	5	57	59	0	0	40	0.97
3942829--3942882	27	2.0	27	92	0	90	35	20	5	38	1.76
3945070--3945104	15	2.2	16	90	5	54	60	0	0	40	0.97
3951237--3951273	17	2.1	18	85	14	51	16	8	0	75	1.02
3951826--3951881	28	2.0	28	82	10	69	57	0	0	42	0.99
3952109--3952138	11	2.7	11	89	0	51	76	0	20	3	0.92
3955518--3955555	13	2.9	13	92	0	58	68	0	0	31	0.90
3955519--3955556	12	3.1	13	85	11	53	68	0	0	31	0.90
3959350--3959409	27	2.1	28	81	6	68	48	1	1	48	1.21
3961036--3961060	11	2.3	11	100	0	50	16	0	16	68	1.22
3966211--3966363	74	2.1	74	96	1	281	30	22	23	23	1.99
3970612--3970797	79	2.4	79	82	1	212	32	17	26	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3970749--3970820	28	2.6	28	86	0	90	25	19	33	22	1.97
3970808--3970991	52	3.6	50	78	6	161	33	11	24	29	1.91
3970900--3971029	51	2.5	52	83	1	163	34	14	23	26	1.94
3971044--3971174	51	2.5	51	82	9	165	32	10	25	31	1.90
3970911--3971162	133	1.9	131	83	4	328	32	13	25	29	1.93
3973528--3973553	13	2.0	13	100	0	52	38	15	15	30	1.88
3973507--3973573	33	2.0	33	88	0	98	43	16	14	25	1.86
3973684--3973740	21	2.7	21	97	0	105	36	19	10	33	1.86
3975577--3975622	21	2.2	21	88	0	65	36	4	0	58	1.18
3977388--3977416	2	14.5	2	100	0	58	0	48	0	51	1.00
3980785--3980832	24	2.0	23	84	12	60	25	14	10	50	1.74
3981286--3981329	23	1.9	23	86	9	63	50	2	0	47	1.13
3986985--3987013	11	2.6	11	100	0	58	0	17	0	82	0.66
3987688--3987744	25	2.2	25	78	3	60	38	1	1	57	1.19
3987811--3987864	25	2.3	23	83	6	63	62	0	0	37	0.95
3990042--3990079	14	2.7	14	91	0	67	44	0	0	55	0.99
3990140--3990176	18	2.0	19	94	5	67	59	0	0	40	0.97
3990907--3990973	19	3.6	19	81	4	73	79	1	16	2	0.94
3990896--3990969	33	2.2	34	85	2	96	79	1	14	4	0.94
3991768--3992058	143	2.0	143	85	1	386	34	13	20	31	1.91
3994842--3995285	163	2.7	163	80	7	452	33	18	6	42	1.76
3995271--3995403	39	3.4	38	73	3	122	39	11	4	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3996701--3996754	25	2.2	26	83	9	69	44	0	0	55	0.99
4001341--4001394	23	2.4	22	76	17	56	55	0	7	37	1.28
4001562--4001596	17	2.1	17	88	0	52	51	2	2	42	1.31
4001946--4001975	8	3.8	8	100	0	60	86	0	0	13	0.57
4002250--4002287	16	2.4	16	100	0	76	39	7	7	44	1.63
4002798--4002835	3	12.7	3	100	0	76	65	0	0	34	0.93
4008524--4008558	6	6.0	6	93	6	63	34	0	48	17	1.47
4009223--4009257	18	1.9	18	88	0	52	45	0	0	54	0.99
4012063--4012104	16	2.6	16	84	0	57	28	16	4	50	1.66
4016868--4017079	116	1.8	115	84	7	288	45	8	4	41	1.54

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