genome.fa.s44.2.7.7.80.10.50.1000.16.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: Scaffold44
Parameters: 2 7 7 80 10 50 1000
Length:  3265628

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  16  of  17  ( 1994 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)
3011345--3011517	77	2.2	77	82	6	199	19	24	12	42	1.86
3011614--3011871	118	2.2	118	87	0	381	31	24	22	22	1.99
3011952--3012032	31	2.6	31	74	0	81	29	34	24	11	1.90
3012008--3012156	37	4.2	37	74	11	166	29	27	25	17	1.97
3012690--3012732	20	2.1	21	91	4	70	39	4	18	37	1.72
3012702--3012740	20	2.0	20	89	0	60	41	7	17	33	1.79
3012804--3012852	19	2.5	19	86	3	62	38	14	14	32	1.86
3015253--3015321	27	2.6	27	84	9	88	21	34	20	23	1.96
3015254--3015329	26	2.9	27	84	2	91	19	34	18	27	1.95
3017951--3018138	98	1.9	97	86	3	270	38	11	21	29	1.88
3018099--3018166	27	2.5	26	81	6	91	26	13	32	27	1.93
3025369--3025437	16	4.3	16	81	0	84	30	7	7	55	1.55
3025369--3025451	16	5.3	15	76	15	53	31	6	8	54	1.55
3025786--3025823	20	1.9	20	89	10	60	31	0	0	68	0.90
3025786--3025824	10	3.8	10	86	13	53	30	0	0	69	0.89
3025899--3025948	25	2.0	25	88	7	75	54	4	0	42	1.19
3026715--3026797	32	2.6	32	84	0	103	37	8	7	46	1.62
3028589--3028619	4	7.8	4	100	0	62	0	74	0	25	0.82
3034440--3034815	190	2.0	190	89	3	587	35	16	21	26	1.94
3036067--3036107	5	8.2	5	100	0	82	80	0	19	0	0.71
3036541--3036610	26	2.6	27	78	17	83	51	0	0	48	1.00
3036598--3036649	17	2.9	17	81	13	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3036621--3036657	17	2.2	17	90	9	58	43	0	0	56	0.99
3036699--3036759	11	5.3	12	74	16	58	67	4	0	27	1.11
3037537--3037588	24	2.2	24	82	6	61	73	1	1	23	1.04
3039967--3040060	20	4.7	20	86	2	127	28	19	10	41	1.84
3042405--3042478	28	2.6	28	87	10	107	24	32	18	24	1.97
3042514--3042587	28	2.7	29	79	14	84	21	31	21	25	1.98
3042413--3042613	109	1.8	109	86	2	287	25	26	13	33	1.94
3042570--3042737	51	3.3	50	85	3	210	29	27	12	30	1.93
3042621--3042943	130	2.5	129	83	7	395	28	25	13	31	1.94
3042752--3042865	51	2.2	51	84	3	140	32	26	11	29	1.91
3042539--3042865	181	1.8	181	86	2	478	29	26	13	31	1.94
3042802--3042951	79	1.9	79	87	5	223	28	24	14	34	1.93
3048207--3048264	20	2.9	20	92	0	89	39	10	12	37	1.77
3049464--3049515	20	2.5	21	87	6	79	32	13	11	42	1.80
3050758--3050811	20	2.7	20	91	0	90	35	20	11	33	1.88
3052986--3053025	20	2.0	21	90	5	64	47	0	22	30	1.52
3052988--3053032	21	2.2	20	84	4	54	46	0	22	31	1.52
3059314--3059366	13	4.5	13	73	26	64	37	16	13	32	1.88
3059314--3059382	33	2.1	33	89	5	104	37	17	13	31	1.88
3062601--3062729	52	2.5	52	92	0	204	31	17	16	34	1.92
3062601--3062749	52	2.9	52	85	4	176	32	17	16	33	1.93
3062738--3062762	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3062827--3062851	13	1.9	13	100	0	50	32	16	16	36	1.90
3068652--3068690	15	2.6	15	83	0	51	46	0	2	51	1.14
3069229--3069316	32	2.8	33	81	10	96	54	3	0	42	1.17
3071380--3071421	2	21.5	2	80	4	50	47	0	2	50	1.14
3072112--3072147	14	2.6	13	87	12	54	66	0	0	33	0.92
3075904--3075966	33	1.9	33	83	0	81	31	15	15	36	1.90
3076015--3076071	22	2.7	21	83	2	69	38	10	15	35	1.82
3082129--3082161	15	2.2	15	94	0	57	39	12	9	39	1.74
3083626--3083665	21	1.9	21	94	0	71	25	10	27	37	1.88
3084533--3084637	20	5.6	20	72	18	82	34	18	15	32	1.92
3084552--3084618	33	2.0	33	94	0	116	29	20	14	34	1.93
3084684--3084742	21	2.9	21	82	12	77	42	16	11	28	1.84
3084701--3084739	20	2.0	20	95	5	71	41	20	10	28	1.85
3088352--3088378	13	2.1	13	100	0	54	29	14	14	40	1.86
3088364--3088419	19	2.9	19	86	5	76	33	12	19	33	1.89
3088366--3088418	20	2.7	20	88	2	72	32	13	20	33	1.91
3088446--3088499	20	2.7	20	83	11	67	33	14	18	33	1.92
3094668--3094707	13	3.1	13	88	0	62	30	15	15	40	1.87
3096637--3096806	86	2.0	86	95	0	304	34	10	18	36	1.86
3097278--3097304	13	2.1	13	100	0	54	29	14	14	40	1.86
3097290--3097345	19	2.9	19	86	5	76	33	12	19	33	1.89
3097292--3097344	20	2.7	20	88	2	72	32	13	20	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3097373--3097426	20	2.7	20	86	13	76	33	12	18	35	1.89
3099819--3100071	126	2.0	126	98	0	488	30	13	16	39	1.87
3100453--3100506	28	1.9	28	96	0	99	33	5	22	38	1.77
3100577--3100773	82	2.4	82	94	0	349	40	6	15	37	1.74
3102525--3102587	13	5.3	13	75	21	66	39	11	17	31	1.85
3102536--3102574	20	2.0	20	94	0	69	41	10	17	30	1.83
3102525--3102601	33	2.3	33	93	0	127	40	11	16	31	1.85
3103304--3103470	46	3.9	44	71	16	125	41	13	25	19	1.88
3103310--3103397	37	2.4	36	88	3	122	45	12	22	19	1.84
3103372--3103485	46	2.5	44	81	8	131	39	13	28	18	1.88
3103482--3104012	62	8.6	61	89	3	717	30	18	25	25	1.98
3103482--3104012	123	4.3	123	87	3	705	30	18	25	25	1.98
3110928--3111001	20	3.7	20	80	10	89	33	13	14	37	1.86
3111040--3111097	21	2.8	21	86	2	82	37	12	12	37	1.80
3110928--3111186	113	2.3	112	81	9	289	34	15	15	34	1.89
3111154--3111193	20	2.0	20	95	0	71	32	15	15	37	1.88
3113994--3114456	79	5.9	78	83	2	500	27	24	13	34	1.93
3114012--3114454	158	2.8	159	85	4	585	27	23	13	34	1.92
3113987--3114455	237	2.0	237	84	4	624	27	24	13	34	1.93
3114388--3114517	51	2.6	51	84	6	151	29	28	11	30	1.92
3114328--3114577	130	1.9	130	89	0	383	28	25	12	34	1.92
3118082--3118136	19	2.8	20	83	5	76	38	12	16	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3119536--3119608	20	3.6	20	81	3	101	35	13	19	31	1.91
3119536--3119630	41	2.3	42	96	1	174	40	12	17	29	1.87
3119669--3119694	13	2.0	13	100	0	52	38	15	15	30	1.88
3123759--3123797	15	2.6	15	91	0	60	51	15	20	12	1.76
3125805--3125882	20	3.6	21	73	15	70	25	12	16	44	1.83
3125869--3125907	13	3.0	13	96	0	69	30	17	15	35	1.91
3127713--3127758	16	2.8	16	93	6	74	28	2	39	30	1.69
3128365--3128437	20	3.6	20	81	3	101	35	13	19	31	1.91
3128365--3128459	41	2.3	42	96	1	174	40	12	17	29	1.87
3128498--3128523	13	2.0	13	100	0	52	38	15	15	30	1.88
3131730--3131879	52	2.9	52	92	5	250	30	16	18	34	1.93
3131898--3131964	33	2.0	33	88	0	98	40	13	11	34	1.81
3131920--3131944	13	1.9	13	100	0	50	32	16	16	36	1.90
3132545--3132925	169	2.2	170	82	6	439	36	14	26	22	1.93
3132770--3133411	49	12.8	49	85	3	784	31	16	26	25	1.97
3132762--3133416	98	6.5	99	90	5	917	31	16	26	24	1.96
3132829--3133403	195	2.9	197	92	3	951	31	17	26	24	1.97
3133411--3133648	33	7.2	33	88	5	349	18	17	36	28	1.93
3133412--3133647	67	3.6	67	89	5	356	17	17	36	28	1.93
3133650--3133891	33	7.4	33	81	12	257	33	14	34	18	1.90
3133650--3133891	34	7.4	34	81	11	256	33	14	34	18	1.90
3133752--3133811	27	2.2	27	90	0	93	28	16	38	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3133686--3133878	95	2.0	98	88	4	295	30	13	37	19	1.90
3134190--3134219	15	2.0	15	100	0	60	6	26	6	60	1.47
3138978--3139026	13	4.2	13	75	24	63	36	18	12	32	1.88
3138978--3139047	33	2.1	34	89	7	108	34	20	12	32	1.90
3139097--3139161	32	2.0	32	84	3	85	38	12	18	30	1.88
3146313--3146378	33	2.0	34	88	8	100	33	16	13	36	1.88
3146410--3146464	19	2.8	20	81	13	69	36	16	16	30	1.91
3146450--3146476	13	2.1	13	100	0	54	40	14	14	29	1.86
3154168--3154216	13	4.2	13	70	24	54	34	20	12	32	1.90
3154168--3154237	33	2.1	33	92	7	115	32	21	12	32	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17