genome.fa.s113.2.7.7.80.10.50.1000.21.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: Scaffold113
Parameters: 2 7 7 80 10 50 1000
Length:  3764034

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  21  of  23  ( 2678 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)
3411938--3412007	18	3.6	18	68	20	50	10	42	2	44	1.52
3411922--3412040	42	2.8	42	87	2	168	8	46	2	42	1.47
3421116--3421234	42	2.8	42	90	0	184	9	46	2	42	1.49
3426936--3427027	28	3.3	27	85	10	123	11	19	10	57	1.63
3431709--3431809	51	2.0	51	88	1	150	24	4	21	48	1.70
3432155--3432251	51	1.9	51	91	0	158	24	9	19	46	1.79
3431648--3432595	440	2.1	441	85	4	1268	28	12	16	42	1.85
3436068--3436179	58	1.9	58	85	0	152	26	24	17	31	1.97
3441056--3441137	28	2.9	29	78	7	89	58	8	19	13	1.60
3441847--3441935	29	3.1	29	68	12	83	25	23	21	29	1.99
3443376--3443505	50	2.6	49	83	9	172	25	19	13	41	1.88
3445898--3445963	28	2.4	28	89	0	105	21	22	24	31	1.98
3445737--3445946	79	2.7	79	78	6	230	26	25	15	31	1.96
3445926--3446127	79	2.5	78	78	11	212	26	26	15	31	1.96
3446085--3446157	28	2.6	28	88	0	101	21	30	20	27	1.98
3445740--3446316	186	3.1	187	82	2	671	26	25	14	32	1.95
3446113--3446392	79	3.5	79	81	6	334	27	25	13	33	1.94
3446350--3446420	28	2.5	28	79	0	79	28	23	18	29	1.98
3446271--3446471	107	1.9	107	86	0	285	29	24	13	32	1.94
3446409--3446540	51	2.6	51	86	2	167	31	25	8	34	1.86
3460609--3460813	61	3.4	59	84	2	248	25	26	19	27	1.99
3463862--3464057	79	2.5	79	78	3	207	29	26	11	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3464017--3464114	28	3.5	28	90	0	151	26	23	16	33	1.95
3464101--3464215	51	2.3	51	80	6	126	30	25	12	32	1.92
3464203--3464273	28	2.5	28	82	8	99	23	28	18	29	1.98
3464152--3464350	107	1.9	107	83	6	260	28	25	14	31	1.95
3464229--3464404	79	2.2	79	84	6	214	27	26	14	30	1.95
3464336--3464455	51	2.4	51	85	2	161	31	30	10	28	1.89
3464257--3464533	130	2.1	129	84	4	344	31	26	11	30	1.92
3473102--3473154	26	2.0	26	89	7	81	20	9	5	64	1.44
3481011--3481088	39	2.0	39	100	0	156	25	25	10	38	1.87
3482610--3482808	89	2.2	90	87	0	283	17	22	19	41	1.90
3482622--3482808	45	4.2	44	87	5	241	17	20	20	41	1.90
3482638--3482832	89	2.2	89	83	4	257	21	23	17	37	1.94
3484081--3484367	142	2.0	139	89	3	441	36	8	9	45	1.67
3488817--3489200	155	2.5	151	82	5	468	38	20	17	23	1.93
3489381--3489887	143	3.6	142	87	1	703	44	11	11	32	1.77
3490835--3490859	13	1.9	13	100	0	50	0	20	0	80	0.72
3491199--3491975	167	4.7	166	82	3	843	50	9	10	29	1.67
3494255--3494343	19	4.7	18	74	20	74	80	3	13	2	0.93
3494255--3494343	10	9.1	10	74	8	67	80	3	13	2	0.93
3494276--3494339	32	1.9	34	81	12	80	81	3	14	1	0.89
3499707--3499762	20	2.8	20	91	0	85	30	17	8	42	1.80
3505546--3505573	14	2.0	14	100	0	56	78	0	7	14	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3505587--3505643	21	2.7	21	97	0	105	33	10	19	36	1.86
3505699--3505766	19	3.9	19	78	21	85	35	11	14	38	1.83
3505720--3505744	13	1.9	13	100	0	50	36	16	16	32	1.90
3505701--3505763	32	2.0	32	96	0	117	34	12	15	36	1.86
3505806--3505831	13	2.0	13	100	0	52	30	15	15	38	1.88
3505786--3505852	33	2.0	33	88	0	98	25	14	16	43	1.86
3508295--3508367	27	2.7	27	87	6	94	23	34	21	20	1.97
3508240--3508739	106	4.7	107	77	9	491	27	27	14	30	1.95
3508401--3508469	27	2.5	27	88	6	95	24	30	21	23	1.99
3508456--3508625	52	3.3	53	80	11	190	29	24	12	32	1.93
3508609--3508681	28	2.6	28	86	0	92	24	31	19	24	1.98
3508639--3508838	78	2.5	79	82	3	224	24	29	17	29	1.97
3514902--3515053	8	17.9	8	72	21	53	82	4	7	4	0.92
3514920--3515054	1	135.0	1	70	0	72	83	3	8	3	0.88
3514902--3515014	21	5.8	18	68	20	59	81	6	6	6	0.99
3514910--3515061	40	3.8	38	80	13	162	82	4	9	3	0.94
3514906--3515061	77	2.0	74	80	17	169	82	4	8	4	0.95
3517804--3517842	21	1.9	21	94	5	71	41	12	23	23	1.88
3518787--3518864	40	2.0	40	89	5	122	41	12	11	34	1.80
3519618--3520058	53	8.5	53	79	4	405	37	15	22	24	1.93
3519618--3520058	105	4.2	105	84	2	496	37	15	22	24	1.93
3519609--3519969	158	2.3	159	82	4	419	37	14	23	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3521888--3522318	166	2.6	164	86	3	632	28	9	8	53	1.63
3522958--3522996	11	3.6	11	89	6	62	79	0	20	0	0.73
3522960--3522995	10	3.5	10	92	3	54	80	0	19	0	0.71
3523291--3523357	37	1.9	35	88	11	102	29	25	11	32	1.92
3523973--3524109	53	2.6	53	92	1	229	28	17	16	37	1.92
3524189--3524229	21	2.0	21	85	9	57	39	9	12	39	1.76
3527250--3527286	19	1.9	19	94	0	65	32	13	16	37	1.87
3527221--3527284	32	2.0	33	87	3	94	29	14	15	40	1.86
3537245--3537866	52	11.6	52	76	8	460	36	15	24	23	1.94
3537267--3537944	104	6.3	104	75	10	479	35	15	24	24	1.94
3537463--3537635	61	2.8	62	74	5	181	38	13	22	25	1.91
3537246--3537841	330	1.8	330	86	2	874	36	15	24	23	1.94
3537741--3537929	52	3.6	52	75	5	184	39	15	21	23	1.92
3537949--3538421	97	4.9	95	79	7	492	20	16	31	30	1.95
3537933--3538425	32	15.4	32	79	8	445	21	16	32	29	1.95
3538417--3538575	33	5.0	33	72	13	127	34	15	28	21	1.94
3538514--3538687	87	2.0	87	87	2	251	34	13	28	24	1.93
3538640--3538721	30	2.8	29	78	10	87	31	15	31	20	1.94
3545384--3545429	22	2.0	23	83	8	58	45	2	17	34	1.61
3546268--3546318	11	4.7	11	76	13	61	76	0	23	0	0.79
3546268--3546320	21	2.5	21	81	12	63	77	0	22	0	0.77
3554008--3554058	20	2.5	20	87	3	66	31	19	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3554026--3554079	20	2.7	20	85	8	65	33	20	9	37	1.84
3555394--3555690	33	9.0	33	80	8	284	29	27	17	25	1.97
3555405--3555690	32	8.7	32	77	7	211	29	27	17	24	1.98
3555965--3557205	53	23.7	53	72	9	534	25	21	15	37	1.93
3555963--3557174	105	11.6	104	69	11	422	25	21	15	37	1.93
3556592--3556982	211	1.9	211	83	4	511	27	21	13	36	1.92
3556781--3557164	157	2.4	157	79	5	409	27	20	14	36	1.92
3555992--3557174	370	3.2	367	82	5	1403	26	21	15	36	1.93
3557489--3557960	47	10.2	47	72	7	279	21	23	15	40	1.91
3557489--3557895	47	8.8	47	72	8	289	21	23	15	39	1.92
3557500--3557941	91	4.8	90	78	5	357	21	22	16	39	1.92
3557498--3557912	185	2.2	185	80	4	444	21	23	16	39	1.92
3557945--3558090	45	3.2	44	79	1	139	23	23	13	39	1.90
3559107--3559155	21	2.4	21	80	12	57	14	10	6	69	1.35
3559613--3559638	5	5.2	5	100	0	52	42	0	0	57	0.98
3559957--3559990	12	2.8	12	90	0	50	79	0	17	2	0.86
3560060--3560096	12	3.2	12	92	3	58	2	21	5	70	1.20
3565608--3565632	13	1.9	13	100	0	50	32	16	16	36	1.90
3565588--3565652	33	2.0	33	85	11	89	33	18	13	33	1.90
3568238--3568275	20	1.9	20	100	0	76	31	18	10	39	1.85
3572758--3572787	3	10.0	3	92	0	51	30	33	0	36	1.58
3577007--3577587	167	3.5	166	78	9	578	32	9	7	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3577791--3577829	20	2.0	20	84	0	51	82	0	10	7	0.86
3582701--3583109	30	13.0	30	82	9	435	22	31	15	31	1.95
3582703--3583109	127	3.2	127	90	3	617	22	31	15	30	1.95
3583180--3583661	27	15.9	27	75	15	185	20	30	12	35	1.90
3583091--3583637	122	4.5	119	78	12	520	20	30	12	35	1.91
3583117--3583661	91	6.0	87	82	8	478	20	30	12	35	1.90
3583057--3583705	156	4.2	157	80	9	676	20	30	12	35	1.90
3583459--3583542	34	2.4	34	88	2	114	22	29	8	39	1.83
3583524--3583704	88	2.1	87	88	5	267	20	32	14	32	1.93
3583678--3583812	29	4.6	30	78	9	143	31	28	20	20	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23