genome.fa.s32.2.7.7.80.10.50.1000.29.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: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Length:  5587194

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  29  of  33  ( 3877 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)
4217609--4217906	143	2.1	144	80	1	330	41	20	19	18	1.90
4217528--4217926	95	4.2	96	72	5	301	40	18	21	19	1.91
4218119--4218404	90	3.2	87	78	7	286	27	16	27	28	1.97
4220228--4220255	14	2.0	14	100	0	56	35	7	28	28	1.84
4220242--4220660	168	2.5	168	86	2	583	42	11	25	19	1.85
4220317--4220618	84	3.6	83	72	5	250	43	11	24	19	1.85
4220678--4220887	84	2.5	84	80	6	237	35	15	28	20	1.93
4220993--4221280	127	2.3	127	81	5	341	37	18	25	19	1.93
4221196--4221513	85	3.8	84	75	7	313	34	18	27	19	1.95
4221163--4221514	169	2.1	169	81	2	411	33	18	27	20	1.96
4221465--4221610	42	3.5	42	77	10	120	36	19	27	16	1.93
4221500--4221698	85	2.4	85	80	5	208	36	18	28	16	1.92
4221586--4221769	42	4.3	45	76	8	143	36	17	27	18	1.93
4221660--4221781	43	2.8	43	84	7	131	35	18	27	19	1.95
4221759--4222040	85	3.3	84	78	4	289	27	16	31	24	1.96
4221756--4222059	42	7.2	42	70	7	175	28	15	32	23	1.95
4221815--4221955	43	3.3	42	74	4	131	27	15	31	25	1.96
4221759--4222132	85	4.4	85	79	4	272	28	16	32	22	1.96
4221924--4222161	85	2.8	84	80	5	221	30	17	30	21	1.96
4221794--4222106	169	1.9	169	79	2	360	28	15	32	23	1.95
4222096--4222204	42	2.6	42	80	1	128	34	19	27	18	1.95
4222223--4222358	43	3.2	42	79	9	141	31	16	31	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4222359--4222680	48	6.7	48	84	1	315	41	18	20	19	1.90
4223297--4223474	90	2.0	91	81	7	211	32	15	25	25	1.96
4223959--4224126	88	1.9	89	80	6	198	46	11	19	23	1.81
4224413--4224636	81	2.8	81	83	4	211	38	10	20	30	1.86
4228566--4229206	157	4.1	155	75	7	451	37	20	18	23	1.94
4230334--4230386	22	2.5	20	75	16	54	1	16	11	69	1.26
4230343--4230386	22	2.0	22	90	0	70	2	15	11	70	1.26
4230616--4230660	21	2.1	21	83	0	54	4	22	22	51	1.66
4230776--4230862	23	3.8	23	81	3	95	9	16	18	56	1.66
4233807--4233995	76	2.4	78	83	4	222	41	10	19	29	1.84
4233885--4234035	79	1.9	79	82	8	191	39	15	18	26	1.91
4236186--4236322	52	2.7	52	76	5	134	43	10	13	32	1.78
4239890--4239935	15	3.1	15	77	0	56	41	39	2	17	1.62
4241696--4241751	19	2.9	19	81	2	67	32	14	14	39	1.86
4241781--4241834	20	2.7	20	86	13	76	33	11	18	37	1.86
4243829--4243854	13	2.0	13	100	0	52	30	15	15	38	1.88
4243808--4243872	32	2.0	33	90	6	105	27	13	15	43	1.85
4243903--4243976	20	3.7	20	82	8	78	29	17	13	39	1.88
4248503--4248533	15	2.1	15	93	0	53	12	22	16	48	1.80
4252581--4252632	19	2.6	20	93	6	88	26	11	15	46	1.80
4252663--4252736	20	3.7	20	82	8	78	29	17	13	39	1.88
4253975--4254017	21	2.1	20	83	12	52	53	6	13	25	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4253975--4254017	20	2.1	21	83	12	54	53	6	13	25	1.65
4261025--4261080	22	2.5	22	94	0	94	37	3	35	23	1.72
4261604--4261675	20	3.7	19	87	7	83	29	15	16	38	1.89
4261706--4261791	20	4.7	19	75	21	85	33	13	18	33	1.91
4261721--4261751	13	2.4	13	94	0	53	35	16	12	35	1.87
4261705--4261771	33	2.0	33	100	0	134	32	14	17	34	1.91
4261909--4261939	13	2.4	13	94	0	53	35	16	12	35	1.87
4261893--4261961	33	2.1	33	83	5	86	34	13	15	36	1.87
4267132--4267165	9	3.8	9	88	0	50	88	8	0	2	0.62
4267140--4267177	10	3.7	10	86	6	58	86	13	0	0	0.56
4267140--4267179	11	3.7	11	90	3	64	85	15	0	0	0.61
4267132--4267178	21	2.3	20	89	7	76	87	10	0	2	0.63
4268481--4269144	28	22.9	28	82	8	640	29	29	17	23	1.97
4268478--4269156	319	2.1	319	83	6	867	29	29	17	23	1.97
4270086--4270160	20	3.8	20	78	0	78	34	14	12	38	1.83
4270177--4270207	16	1.9	16	100	0	62	35	19	12	32	1.90
4271065--4271105	21	2.0	22	85	9	59	21	19	9	48	1.77
4273842--4273880	20	1.9	21	94	5	71	48	5	15	30	1.66
4282271--4282296	13	2.0	13	100	0	52	30	15	15	38	1.88
4282995--4283038	21	2.1	21	83	8	54	25	31	4	38	1.76
4284842--4284880	13	3.0	13	100	0	78	38	15	15	30	1.88
4286950--4286980	15	2.1	15	93	0	53	12	22	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4288784--4288828	21	2.1	21	84	8	56	22	20	4	53	1.63
4291047--4291072	13	2.0	13	100	0	52	30	15	15	38	1.88
4291480--4291527	19	2.5	19	96	0	87	31	10	18	39	1.85
4291554--4291595	21	2.0	21	95	0	75	40	9	21	28	1.84
4291582--4291607	13	2.0	13	100	0	52	30	15	15	38	1.88
4293968--4294104	51	2.7	51	85	4	170	29	28	10	32	1.90
4293967--4294132	51	3.3	51	82	7	160	29	27	11	31	1.92
4294068--4294369	79	3.8	79	85	0	379	27	25	14	31	1.95
4294068--4294368	158	1.9	158	86	1	424	27	25	14	31	1.95
4294305--4294424	51	2.4	51	87	2	170	29	30	12	28	1.93
4294226--4294548	130	2.5	131	84	2	416	27	25	14	32	1.94
4294355--4294504	79	1.9	80	81	1	185	26	29	15	28	1.96
4295708--4296103	52	7.6	51	72	11	300	31	12	26	29	1.92
4295708--4295928	102	2.1	102	84	3	273	30	11	26	30	1.92
4295913--4295982	28	2.5	27	81	9	79	27	18	32	21	1.97
4295598--4296092	262	1.9	262	88	2	762	31	12	27	28	1.93
4297884--4297914	11	2.9	11	95	4	55	0	0	16	83	0.64
4298429--4298494	34	2.0	33	87	3	96	43	12	16	27	1.83
4298527--4298622	19	5.7	18	70	26	77	35	18	12	33	1.89
4298519--4298621	32	3.2	32	92	0	170	34	19	12	33	1.89
4299414--4300079	55	11.8	54	82	8	710	25	20	26	27	1.99
4299414--4300079	171	3.9	171	92	1	1042	25	20	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4299413--4300121	226	3.1	222	81	9	779	26	20	25	27	1.99
4301082--4301143	19	3.1	19	80	17	72	0	12	3	83	0.75
4301085--4301144	30	2.0	30	83	6	77	0	11	5	83	0.80
4301110--4301143	11	3.1	11	95	0	59	0	5	2	91	0.51
4313717--4314108	52	7.5	50	69	12	209	31	12	26	29	1.93
4313916--4313984	28	2.5	28	87	0	93	24	17	36	21	1.95
4316884--4316967	13	5.5	13	68	28	51	34	19	13	33	1.90
4316892--4316988	19	5.8	18	72	27	88	36	17	12	34	1.87
4316884--4316986	32	3.2	32	94	0	179	34	18	12	33	1.89
4330556--4331029	55	8.4	54	80	10	479	27	28	20	23	1.99
4330558--4331028	110	4.2	113	87	5	566	28	28	20	23	1.99
4331852--4331913	19	3.2	19	71	13	54	41	14	14	29	1.85
4331901--4331925	13	1.9	13	100	0	50	36	16	16	32	1.90
4331880--4331952	32	2.3	32	97	0	137	34	12	17	35	1.88
4331859--4331944	19	4.7	19	73	19	76	36	12	16	34	1.87
4331969--4332009	21	2.0	21	95	0	73	41	9	21	26	1.84
4334383--4334549	51	3.3	51	84	5	187	28	27	13	31	1.94
4334485--4334786	79	3.8	78	85	5	367	27	26	15	31	1.96
4334485--4334786	158	1.9	158	86	2	428	27	26	15	31	1.96
4334645--4334927	130	2.2	131	85	3	383	28	27	13	31	1.93
4334851--4334973	52	2.4	52	82	5	133	26	26	14	32	1.95
4335944--4336164	75	2.9	74	80	4	264	27	33	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4344298--4344330	15	2.2	15	94	0	57	51	12	18	18	1.76
4348555--4348612	29	2.0	29	96	0	107	34	8	8	48	1.65
4351699--4352094	155	2.6	155	79	7	430	39	20	15	24	1.91
4354408--4354672	129	2.0	128	80	7	295	43	13	9	33	1.77
4361992--4362040	21	2.4	21	86	3	64	32	18	0	48	1.48
4364316--4364342	13	2.1	13	100	0	54	29	14	14	40	1.86
4364328--4364373	19	2.3	20	88	7	76	32	13	15	39	1.85
4364325--4364382	19	3.0	19	84	2	62	34	13	13	37	1.85
4366161--4366216	21	2.7	21	77	0	58	30	14	14	41	1.85
4367117--4367400	85	3.4	84	84	5	315	29	14	33	22	1.93

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