genome.fa.s32.2.7.7.80.10.50.1000.24.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: 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  24  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)
3390523--3390609	10	9.1	10	72	17	60	64	0	2	33	1.06
3390620--3390661	17	2.4	17	84	11	50	47	0	0	52	1.00
3390832--3390887	23	2.3	25	82	14	64	67	0	3	28	1.07
3390826--3390896	28	2.5	28	80	11	74	69	1	2	26	1.11
3390923--3390981	30	1.9	31	86	10	86	66	0	0	33	0.92
3390923--3390981	15	3.9	15	78	10	57	66	0	0	33	0.92
3391254--3391287	15	2.3	15	90	10	52	67	2	0	29	1.05
3391806--3391849	19	2.3	19	80	7	54	56	0	0	43	0.99
3392436--3392470	3	11.7	3	100	0	70	31	0	0	68	0.90
3392631--3392655	2	12.5	2	100	0	50	52	48	0	0	1.00
3392655--3392691	2	18.5	2	100	0	74	51	0	0	48	1.00
3393419--3393476	31	1.9	29	89	6	89	44	1	0	53	1.10
3396704--3396847	76	1.9	78	83	2	193	27	18	13	40	1.88
3405403--3405427	13	1.9	13	100	0	50	80	0	12	8	0.92
3406697--3407797	62	17.8	62	83	4	1157	24	23	21	31	1.98
3406697--3407797	124	8.9	124	86	1	1319	24	23	21	31	1.98
3406697--3407803	186	6.0	187	85	2	1349	24	23	21	31	1.98
3407833--3407895	32	2.0	32	93	3	110	11	15	12	60	1.59
3407884--3408161	42	6.7	40	72	14	183	20	25	13	41	1.88
3407927--3408184	121	2.1	119	81	6	306	18	26	12	41	1.86
3408019--3408084	35	1.9	34	87	9	98	19	24	18	37	1.93
3411217--3411582	81	4.6	78	81	7	405	25	23	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3416935--3416975	12	3.5	11	87	9	55	82	0	17	0	0.66
3416935--3416970	15	2.5	15	90	4	56	80	0	19	0	0.71
3416944--3416982	8	4.9	8	81	12	53	84	0	15	0	0.62
3419306--3419957	156	4.2	152	76	6	504	36	19	17	25	1.94
3419286--3419866	312	1.9	310	80	6	681	37	18	17	25	1.93
3420070--3420491	168	2.5	169	88	3	654	42	12	12	32	1.80
3420435--3420776	143	2.4	142	82	5	447	41	11	11	35	1.78
3421929--3421974	10	4.7	10	87	12	69	8	17	0	73	1.07
3421958--3422013	26	2.2	26	81	12	71	1	25	1	71	1.05
3423650--3423757	52	2.1	52	85	3	146	35	14	16	33	1.90
3427270--3427421	52	2.9	52	89	3	236	31	16	18	33	1.93
3427459--3427496	20	1.9	19	94	5	67	52	10	10	26	1.68
3428649--3428972	43	7.1	44	81	11	393	30	18	26	24	1.97
3428596--3428972	92	4.1	92	96	2	648	31	17	26	23	1.97
3428960--3429052	33	3.0	30	83	9	116	18	17	33	31	1.94
3429048--3429129	35	2.3	35	78	2	92	34	9	29	26	1.88
3429102--3429305	29	6.9	29	80	7	196	25	17	29	27	1.97
3429102--3429311	57	3.6	58	78	6	208	25	16	30	27	1.97
3429100--3429309	30	7.1	30	82	6	205	26	16	29	27	1.97
3429692--3429725	17	1.9	18	88	5	52	32	5	29	32	1.81
3430741--3430825	20	4.4	18	81	10	98	2	0	14	83	0.74
3430754--3430826	10	7.0	11	78	9	66	2	0	15	82	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3443367--3443391	13	1.9	13	100	0	50	36	16	16	32	1.90
3443454--3443478	13	1.9	13	100	0	50	32	16	16	36	1.90
3445331--3445384	21	2.7	20	81	16	58	57	5	14	22	1.58
3452260--3452336	20	3.9	20	82	3	102	33	15	11	38	1.84
3452262--3452339	39	2.0	39	94	0	138	35	15	12	35	1.86
3458291--3458399	52	2.1	52	84	3	148	35	12	16	34	1.87
3459254--3459590	155	2.2	152	77	6	349	34	15	24	25	1.95
3459129--3459595	52	9.1	51	73	7	261	34	14	23	26	1.94
3459672--3459797	31	4.0	31	81	5	128	22	19	29	29	1.98
3459672--3459793	62	2.0	63	83	1	156	21	18	30	29	1.97
3460519--3460552	14	2.5	13	86	9	50	29	5	32	32	1.81
3461901--3461996	28	3.2	28	81	12	88	10	10	2	77	1.09
3470492--3470543	20	2.5	20	81	3	59	42	9	15	32	1.79
3470591--3470668	20	3.8	20	80	15	88	33	16	10	39	1.83
3472682--3472728	21	2.2	21	96	0	85	31	12	10	44	1.77
3480102--3480178	31	2.5	31	89	4	111	37	16	16	28	1.91
3480133--3480252	51	2.4	51	92	0	195	43	14	14	28	1.84
3480915--3481014	53	1.9	52	87	2	146	40	17	19	24	1.91
3481096--3481354	104	2.5	102	75	6	254	32	16	25	25	1.96
3480903--3481389	52	9.4	52	74	6	220	32	17	25	25	1.97
3483284--3483348	25	2.4	28	87	10	91	10	9	3	76	1.11
3497968--3498354	79	5.0	79	80	5	376	34	13	23	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3498002--3498354	157	2.3	153	82	3	386	34	14	23	27	1.94
3498002--3498354	78	4.6	78	80	5	376	34	14	23	27	1.94
3498288--3498404	51	2.3	51	91	1	182	30	11	27	29	1.92
3498339--3498544	80	2.6	78	80	7	254	32	14	25	27	1.94
3498214--3498483	129	2.1	125	82	7	312	31	14	25	28	1.94
3498158--3498544	209	1.9	204	82	5	483	32	13	25	28	1.94
3501493--3501638	58	2.4	61	81	4	181	27	16	26	30	1.97
3502445--3502923	169	2.9	167	81	5	511	27	12	7	52	1.66
3504227--3504277	20	2.6	20	90	3	77	35	15	17	31	1.92
3506729--3506768	13	3.1	13	92	0	71	37	15	15	32	1.88
3511310--3511350	3	13.7	3	89	0	64	29	31	0	39	1.57
3512939--3513008	33	2.1	32	84	10	88	35	18	14	31	1.91
3514266--3514331	33	2.0	33	82	5	80	33	18	9	39	1.82
3514361--3514416	19	2.8	20	81	5	78	41	14	16	28	1.87
3523110--3523136	13	2.1	13	100	0	54	37	14	7	40	1.74
3523187--3523274	19	4.5	20	82	5	117	35	13	17	34	1.89
3523182--3523274	39	2.4	39	96	0	168	34	12	18	34	1.89
3523593--3523639	12	3.9	12	81	13	53	82	2	14	0	0.75
3523597--3523639	21	2.0	22	86	8	63	83	2	13	0	0.74
3524927--3526136	154	7.8	153	79	8	1175	21	18	22	37	1.94
3529186--3529234	17	2.9	17	85	8	66	83	2	12	2	0.82
3529568--3529609	15	2.9	15	85	3	59	85	2	11	0	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531299--3531524	90	2.5	89	79	6	251	27	28	18	25	1.98
3531783--3531935	48	3.2	48	80	6	148	20	20	20	38	1.94
3531800--3531960	48	3.4	48	80	5	182	17	20	20	41	1.90
3531800--3531982	96	1.9	96	80	0	213	20	20	19	39	1.93
3531996--3534214	42	52.5	42	75	6	1287	21	27	18	32	1.97
3531997--3534226	169	13.2	167	75	6	1418	21	27	18	32	1.97
3531996--3534214	212	10.5	210	75	7	1103	21	27	18	32	1.97
3532005--3534225	85	26.3	83	73	8	967	21	27	18	32	1.97
3532044--3534255	297	7.5	296	75	7	676	21	27	18	31	1.97
3534483--3534587	43	2.4	43	82	3	122	27	30	7	34	1.85
3534567--3534925	84	4.3	85	80	6	351	20	29	14	35	1.92
3536371--3536475	45	2.3	45	91	3	165	40	10	0	48	1.44
3537490--3537559	20	3.5	20	81	9	72	35	15	14	34	1.88
3538434--3538486	12	4.1	13	77	18	65	79	0	20	0	0.74
3538434--3538489	26	2.2	26	82	14	73	80	0	19	0	0.71
3538434--3538489	19	2.9	19	76	21	62	80	0	19	0	0.71
3539344--3539377	12	2.6	13	90	9	52	76	0	0	23	0.79
3539858--3541062	154	7.8	154	80	7	1124	22	17	21	38	1.93
3539757--3541054	155	8.4	155	79	6	1145	22	17	21	38	1.93
3542235--3542479	61	4.0	61	84	4	327	30	18	26	25	1.98
3542233--3542473	120	2.0	122	89	3	371	29	18	26	25	1.98
3548531--3548555	8	3.1	8	100	0	50	40	0	12	48	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3552272--3552340	36	1.9	36	96	0	129	15	26	7	50	1.70
3554278--3554302	2	12.5	2	100	0	50	48	0	0	52	1.00
3554595--3554619	13	1.9	13	100	0	50	64	8	16	12	1.49
3555366--3555431	28	2.4	28	97	0	123	31	15	30	22	1.95
3555443--3555594	44	3.8	41	73	18	140	35	11	19	33	1.87
3555474--3555542	33	2.1	33	100	0	138	34	8	24	31	1.86
3555515--3555602	44	2.0	45	90	2	142	34	13	18	34	1.90
3555620--3555675	17	3.2	18	80	12	64	33	0	0	66	0.92
3555903--3555959	28	1.9	31	86	10	84	43	5	12	38	1.65
3555652--3556030	189	2.0	189	95	0	686	40	10	10	38	1.74

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