genome.fa.s25.2.7.7.80.10.50.1000.38.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: Scaffold25
Parameters: 2 7 7 80 10 50 1000
Length:  9553305

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  38  of  56  ( 6609 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)
6556874--6556933	21	2.9	20	73	14	59	31	20	15	33	1.93
6559339--6559542	80	2.5	80	81	4	207	27	28	9	34	1.88
6563254--6563420	76	2.2	76	80	0	190	29	22	11	36	1.89
6563333--6563548	103	2.1	102	82	4	265	29	24	11	34	1.90
6570159--6570346	29	6.5	28	75	10	119	25	31	15	26	1.96
6570396--6570597	63	3.2	63	82	2	257	24	24	23	27	2.00
6570397--6570648	31	8.3	31	79	9	225	25	23	23	26	2.00
6570883--6571335	52	8.7	52	78	5	355	26	23	16	33	1.95
6574128--6574420	103	2.8	103	85	1	390	29	25	9	34	1.88
6577684--6577757	30	2.6	29	80	4	78	54	2	0	43	1.14
6577761--6577816	21	2.8	21	89	10	91	60	0	0	39	0.97
6584121--6584151	2	15.5	2	93	0	53	51	0	45	3	1.17
6592139--6592266	54	2.4	54	94	2	222	40	28	10	21	1.85
6594972--6595539	287	2.0	282	81	5	667	29	14	15	39	1.87
6602321--6602354	17	2.0	17	100	0	68	47	29	0	23	1.52
6605743--6605801	26	2.3	26	82	8	77	47	0	0	52	1.00
6605763--6605814	16	3.0	18	77	22	58	51	0	0	48	1.00
6605817--6605854	17	2.2	18	90	4	60	36	0	5	57	1.21
6606621--6606683	29	2.1	31	82	8	76	50	3	11	34	1.54
6606869--6606904	17	2.2	17	95	5	65	5	11	0	83	0.80
6606857--6606913	21	2.7	21	83	2	60	5	17	0	77	0.95
6609726--6609798	8	9.4	8	69	16	55	4	17	0	78	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6609731--6609796	22	3.0	21	73	10	60	4	18	0	77	0.94
6609726--6609803	21	3.8	21	79	15	83	3	19	0	76	0.93
6612951--6612991	21	2.0	21	85	0	55	56	7	2	34	1.40
6614852--6614878	14	1.9	14	100	0	54	55	0	0	44	0.99
6615598--6615735	68	2.0	68	100	0	276	37	2	5	53	1.40
6616399--6616437	20	1.9	21	94	5	71	25	17	7	48	1.74
6616402--6616564	50	3.3	49	82	1	191	27	18	11	42	1.84
6616402--6616536	49	2.7	50	86	1	173	28	17	8	45	1.77
6617320--6617411	46	2.0	46	95	0	166	29	22	16	31	1.96
6618988--6619318	79	4.2	78	78	6	301	29	24	13	32	1.93
6618956--6619318	158	2.3	157	80	9	391	28	24	12	34	1.92
6619265--6619434	51	3.3	50	81	10	202	31	22	8	38	1.83
6619265--6619463	51	3.9	51	81	8	199	30	22	9	37	1.86
6619264--6619463	103	2.0	101	82	5	242	30	22	9	37	1.86
6619412--6619695	149	1.9	151	82	5	362	27	22	13	36	1.92
6632155--6632215	18	3.5	17	82	10	70	85	3	9	1	0.78
6632650--6633131	61	8.0	61	84	2	594	26	22	18	32	1.97
6632650--6633131	121	4.0	122	86	3	623	26	22	18	32	1.97
6632650--6633131	182	2.7	182	88	2	675	26	22	18	32	1.97
6636478--6636552	20	3.8	20	94	0	132	38	10	20	30	1.86
6637787--6637832	22	2.1	22	100	0	92	30	17	8	43	1.79
6642185--6642223	20	1.9	20	89	5	60	38	23	15	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6642293--6642345	20	2.7	20	88	5	72	33	11	20	33	1.88
6643325--6643349	13	1.9	13	100	0	50	36	16	16	32	1.90
6645567--6645611	21	2.1	21	84	8	56	53	4	20	22	1.63
6647415--6647445	15	2.1	15	93	0	53	48	16	22	12	1.80
6651307--6651332	13	2.0	13	100	0	52	38	15	15	30	1.88
6653808--6653878	28	2.5	28	88	0	97	23	18	35	22	1.96
6653867--6654249	52	7.3	52	71	16	236	32	13	26	28	1.94
6654024--6654094	27	2.6	27	88	2	97	22	21	32	23	1.98
6653811--6654419	212	2.9	212	93	2	990	31	13	26	28	1.94
6654236--6654304	27	2.5	28	86	9	97	23	21	30	24	1.99
6656761--6656853	20	4.7	20	82	0	105	45	17	13	23	1.84
6656759--6656853	40	2.4	40	98	0	181	46	16	13	23	1.83
6656873--6656940	19	3.9	18	76	23	83	38	14	11	35	1.83
6656895--6656919	13	1.9	13	100	0	50	32	16	16	36	1.90
6656876--6656938	32	2.0	32	96	0	117	36	15	12	34	1.86
6661493--6662382	55	16.0	55	88	5	1192	22	20	28	28	1.98
6661519--6661608	26	3.3	26	66	19	67	20	18	33	27	1.96
6661545--6661633	29	3.2	29	65	26	82	21	19	31	28	1.97
6661917--6662002	27	3.1	27	62	15	68	24	18	29	27	1.98
6662081--6662170	26	3.3	26	68	24	78	20	17	33	28	1.95
6663349--6663418	8	8.8	8	74	10	54	0	12	5	81	0.86
6663381--6663420	15	2.6	15	92	4	62	0	10	5	85	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6669089--6669122	17	2.0	17	88	0	50	5	26	17	50	1.69
6675983--6676054	28	2.6	28	88	0	99	23	19	34	22	1.96
6676043--6676423	52	7.3	52	68	16	191	32	13	25	27	1.94
6676186--6676266	27	3.0	28	78	14	89	27	22	28	22	1.99
6675976--6676593	211	2.9	212	92	2	992	31	13	26	27	1.94
6676397--6676478	27	3.0	28	82	10	98	26	21	29	21	1.99
6678932--6678980	20	2.5	20	79	0	62	44	16	14	24	1.84
6679006--6679073	19	3.9	18	76	23	83	38	14	11	35	1.83
6679028--6679052	13	1.9	13	100	0	50	32	16	16	36	1.90
6679009--6679071	32	2.0	32	96	0	117	36	15	12	34	1.86
6686817--6686863	19	2.4	20	89	3	69	34	17	12	36	1.87
6686817--6686866	20	2.6	19	90	3	73	34	18	12	36	1.87
6686912--6686941	13	2.3	13	94	0	51	36	13	13	36	1.84
6686896--6686962	33	2.0	33	91	5	109	32	10	20	35	1.87
6688194--6688224	4	8.0	4	92	7	55	51	22	0	25	1.48
6688194--6688224	11	2.7	12	90	10	55	51	22	0	25	1.48
6688196--6688224	15	1.9	15	100	0	58	55	20	0	24	1.44
6694047--6694274	95	2.4	93	80	11	252	36	12	24	27	1.91
6696218--6696266	20	2.5	20	96	0	89	34	12	20	32	1.90
6696252--6696276	13	1.9	13	100	0	50	32	16	16	36	1.90
6696874--6697362	52	9.4	53	74	12	412	35	14	24	24	1.93
6696874--6697453	104	5.7	104	85	4	702	35	15	24	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6696875--6697352	207	2.3	208	87	1	699	36	14	24	24	1.93
6697276--6697532	91	2.9	91	88	2	369	29	17	25	26	1.98
6697827--6697895	28	2.5	28	81	6	79	27	21	26	24	1.99
6699247--6699346	1	100.0	1	71	0	56	0	1	15	84	0.69
6699244--6699346	10	10.0	10	77	14	95	0	0	15	83	0.70
6699247--6699344	12	7.8	12	73	15	83	0	1	15	83	0.70
6703824--6703854	14	2.2	14	100	0	62	16	6	32	45	1.72
6705628--6705688	19	3.5	19	75	25	80	34	13	18	34	1.89
6705645--6705669	13	1.9	13	100	0	50	36	16	16	32	1.90
6705628--6705694	32	2.1	32	100	0	134	34	11	17	35	1.87
6705741--6705765	13	1.9	13	100	0	50	32	16	16	36	1.90
6705774--6705902	52	2.5	52	87	0	195	35	17	15	31	1.91
6715190--6715248	32	1.9	30	83	13	75	59	10	10	20	1.58
6715526--6715551	13	2.0	13	100	0	52	30	15	15	38	1.88
6715506--6715569	32	2.0	33	90	3	103	28	14	15	42	1.86
6716196--6716276	39	2.1	39	83	2	99	37	25	3	33	1.74
6718123--6718160	13	3.0	12	88	11	58	31	18	18	31	1.95
6724346--6724371	13	2.0	13	100	0	52	30	15	15	38	1.88
6724326--6724389	32	2.0	33	90	3	103	28	14	15	42	1.86
6729694--6729731	20	2.0	20	89	5	60	31	15	13	39	1.86
6730447--6730665	80	2.7	80	77	1	224	30	17	22	29	1.97
6730698--6730923	80	2.8	80	83	4	267	30	13	26	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6731148--6731237	28	3.1	28	77	6	72	16	23	28	31	1.96
6731045--6731355	97	3.2	97	78	4	243	22	20	26	30	1.98
6731184--6731487	166	1.8	166	82	5	391	25	21	25	27	1.99
6736528--6736649	52	2.3	53	80	9	151	34	10	24	30	1.89
6739009--6739034	13	2.0	13	100	0	52	38	15	15	30	1.88
6738988--6739054	33	2.0	33	88	0	98	43	16	14	25	1.86
6739074--6739141	19	3.9	18	76	23	83	38	14	11	35	1.83
6739096--6739120	13	1.9	13	100	0	50	32	16	16	36	1.90
6739077--6739139	32	2.0	32	96	0	117	36	15	12	34	1.86
6740328--6740353	13	2.0	13	100	0	52	38	15	15	30	1.88

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56