genome.fa.s7.2.7.7.80.10.50.1000.35.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   34   35   36   37   

This is table  35  of  37  ( 4421 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)
6070002--6070451	212	2.1	212	87	2	638	31	13	26	28	1.94
6070324--6070454	51	2.5	51	82	9	165	32	10	25	31	1.90
6072818--6072843	13	2.0	13	100	0	52	38	15	15	30	1.88
6072953--6073094	21	6.8	21	100	0	284	38	22	9	29	1.86
6072934--6073094	63	2.6	64	94	2	274	36	21	11	31	1.88
6073235--6073260	13	2.0	13	100	0	52	30	15	15	38	1.88
6073215--6073278	32	2.0	33	90	3	103	26	12	20	40	1.88
6073312--6073364	20	2.7	20	90	0	79	30	15	13	41	1.85
6075693--6075733	22	2.0	21	86	13	59	41	4	21	31	1.74
6075865--6075902	13	2.9	13	96	0	67	34	18	15	31	1.92
6082043--6082093	19	2.6	19	87	9	68	27	11	19	41	1.86
6082127--6082179	20	2.7	20	90	0	79	30	15	13	41	1.85
6089042--6089066	2	12.5	2	100	0	50	48	0	0	52	1.00
6091276--6091333	20	2.8	20	84	10	64	34	13	10	41	1.79
6091378--6091431	20	2.6	21	88	2	74	31	16	11	40	1.84
6101947--6102326	193	2.0	192	93	3	647	28	13	16	41	1.87
6111118--6111174	16	3.6	16	73	0	60	28	8	31	31	1.87
6111117--6111195	32	2.5	32	85	0	104	27	8	31	31	1.87
6111179--6111243	32	2.1	31	85	8	87	29	13	27	29	1.95
6114338--6114469	43	3.1	43	96	0	237	37	20	9	31	1.85
6115849--6116005	63	2.5	63	84	2	190	40	14	13	32	1.84
6116290--6116366	38	2.0	38	97	0	145	40	12	16	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6117920--6118137	69	3.2	69	75	8	178	46	12	10	30	1.75
6117971--6118156	34	5.4	34	75	7	133	43	13	12	30	1.81
6119446--6119491	19	2.3	20	82	10	60	4	10	2	82	0.89
6120291--6120394	53	1.9	54	90	1	165	28	7	19	44	1.78
6125462--6125520	21	2.8	21	78	0	64	16	22	1	59	1.46
6127038--6127167	35	3.9	31	80	11	109	29	23	11	35	1.90
6127063--6127166	35	2.9	35	87	4	147	26	25	10	36	1.89
6127013--6127166	66	2.2	68	83	7	179	31	23	11	33	1.91
6127047--6127160	35	3.3	35	80	14	132	30	23	11	34	1.90
6130741--6130809	33	2.1	33	86	5	95	36	17	13	33	1.88
6131398--6131453	22	2.5	22	91	0	85	21	35	5	37	1.76
6142066--6142109	22	2.1	21	87	8	63	36	9	9	45	1.68
6143979--6144062	44	1.9	44	92	4	143	40	4	19	35	1.72
6150715--6150754	20	2.0	20	85	14	55	32	22	0	45	1.53
6153092--6153145	20	2.8	19	88	2	72	31	14	16	37	1.89
6153174--6153227	20	2.7	19	88	11	74	31	14	18	35	1.91
6153191--6153253	13	5.4	13	73	24	68	33	15	15	34	1.90
6153193--6153272	20	3.8	20	76	15	88	33	13	16	36	1.88
6154731--6154774	23	1.9	23	86	9	63	29	9	25	36	1.86
6161751--6161784	12	2.8	12	95	0	59	35	8	23	32	1.86
6163827--6163938	37	3.0	37	100	0	224	26	8	26	38	1.84
6164027--6164134	52	2.1	52	82	3	128	35	14	12	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6165180--6165563	79	4.9	79	80	5	364	36	12	22	28	1.91
6168205--6169119	120	7.5	120	79	8	778	27	17	26	27	1.97
6168202--6169151	61	15.5	61	78	6	864	27	17	27	27	1.97
6168631--6168773	72	2.0	72	91	0	232	23	17	30	28	1.97
6168192--6169151	179	5.2	187	76	9	768	28	16	27	27	1.97
6182474--6182535	28	2.2	28	85	5	81	33	24	19	22	1.97
6182493--6182784	79	3.7	79	80	1	345	35	14	23	26	1.93
6184435--6184569	50	2.7	49	87	4	198	42	14	17	25	1.87
6185858--6185993	56	2.5	55	78	3	148	45	13	18	22	1.84
6185969--6186097	56	2.3	57	79	1	143	41	16	16	26	1.89
6186176--6186375	56	3.6	56	72	5	179	36	16	20	27	1.93
6185962--6186444	112	4.3	112	76	3	337	40	16	18	25	1.90
6186176--6186403	56	4.1	55	72	5	172	37	14	21	26	1.92
6195286--6195332	25	1.9	25	86	4	69	17	6	6	70	1.30
6212929--6212983	19	2.8	20	77	5	67	36	12	18	32	1.88
6216124--6216222	27	3.7	27	97	0	180	24	31	13	31	1.93
6216307--6216960	49	13.8	49	79	10	723	24	25	18	31	1.97
6216307--6216867	92	6.0	92	90	4	863	24	25	18	31	1.97
6216559--6216625	21	3.2	20	69	23	57	26	28	14	29	1.96
6217662--6217722	32	1.9	32	93	0	104	36	9	18	36	1.84
6217660--6217742	19	4.8	18	75	19	77	34	12	15	37	1.85
6217795--6217819	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6224816--6224855	18	2.2	18	86	0	53	75	15	5	5	1.15
6224844--6224906	15	4.4	14	72	16	58	82	12	3	1	0.86
6224842--6224906	14	4.4	15	68	16	55	83	12	3	1	0.84
6224827--6224906	28	2.9	27	77	15	83	80	13	3	2	0.96
6225153--6225192	21	1.9	21	89	0	62	82	5	10	2	0.91
6225234--6225261	10	2.8	10	100	0	56	92	7	0	0	0.37
6226207--6227060	34	27.1	31	77	12	407	20	31	15	32	1.94
6226212--6226487	62	4.5	62	92	2	432	22	29	18	30	1.97
6226398--6227150	34	23.9	33	78	11	553	20	32	14	33	1.92
6226524--6227139	27	20.0	27	73	17	260	20	32	14	32	1.92
6226398--6227139	93	7.9	93	74	15	458	20	32	14	32	1.93
6226461--6227113	255	2.6	253	81	8	812	20	32	14	33	1.92
6227147--6227210	33	1.9	33	93	0	110	28	35	18	17	1.93
6227216--6227637	49	8.8	49	80	8	424	23	25	18	32	1.97
6227216--6227544	92	3.5	92	85	7	469	24	26	18	31	1.97
6227257--6227637	144	2.6	146	84	3	473	23	25	17	32	1.97
6227216--6227681	92	4.8	98	81	9	363	23	25	17	32	1.97
6228318--6228382	19	3.7	19	73	23	70	36	12	16	33	1.87
6228338--6228393	13	3.8	13	75	24	58	33	14	17	33	1.90
6228319--6228420	32	3.2	32	92	1	161	34	13	16	35	1.88
6228498--6228730	52	4.5	52	94	0	421	36	18	18	27	1.94
6236567--6236641	20	3.8	20	81	0	96	32	12	12	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6245976--6246138	79	2.1	79	87	2	229	32	14	24	28	1.95
6246094--6246168	28	2.7	28	93	0	123	26	22	30	20	1.98
6246122--6246400	78	3.6	78	87	4	384	30	17	26	25	1.97
6246122--6246451	78	4.2	76	84	5	340	30	15	26	26	1.96
6246122--6246451	156	2.1	157	84	3	425	30	15	26	26	1.96
6246386--6246514	51	2.5	50	84	8	163	33	9	27	30	1.88
6248109--6248173	19	3.8	18	75	24	77	32	12	16	38	1.86
6248111--6248178	32	2.1	32	97	0	127	33	11	17	36	1.86
6248130--6248154	13	1.9	13	100	0	50	36	16	16	32	1.90
6248226--6248250	13	1.9	13	100	0	50	32	16	16	36	1.90
6248259--6248387	52	2.5	52	93	0	213	34	17	20	28	1.95
6250596--6250659	28	2.3	28	84	10	78	23	25	18	32	1.97
6250515--6250746	107	2.2	107	83	3	297	27	27	14	30	1.95
6250625--6250774	79	1.9	79	88	2	230	28	28	12	32	1.92
6254001--6254052	27	1.9	27	84	0	68	19	36	19	25	1.95
6257357--6257381	13	1.9	13	100	0	50	68	0	0	32	0.90
6257400--6257460	23	2.7	23	75	12	63	62	1	0	36	1.05
6257295--6257570	110	2.4	109	82	9	308	52	2	1	43	1.23
6257542--6257620	24	3.3	23	75	8	79	60	6	2	30	1.35
6257856--6258218	122	2.9	124	82	9	426	44	2	2	50	1.28
6262246--6262374	65	2.0	65	87	0	186	32	14	9	43	1.78
6262307--6263029	92	7.9	92	76	9	687	34	17	8	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6262673--6262735	30	2.1	30	87	0	90	36	17	7	38	1.79
6262703--6263027	86	3.7	86	85	4	371	35	17	7	39	1.79
6262703--6263027	178	1.8	176	86	3	474	35	17	7	39	1.79
6262965--6263086	57	2.1	57	86	1	163	37	20	4	36	1.74
6262887--6263174	145	2.0	149	88	2	440	36	18	6	39	1.76
6262793--6263222	237	1.8	235	87	3	639	36	17	7	39	1.77
6263698--6263753	29	2.0	28	82	10	69	30	28	12	28	1.93
6263846--6264206	123	2.9	123	86	6	448	52	1	3	41	1.29
6264160--6264205	15	2.8	17	74	16	51	54	0	4	41	1.20
6264498--6264554	24	2.5	23	85	5	71	24	3	7	64	1.34

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   34   35   36   37