genome.fa.s1.2.7.7.80.10.50.1000.41.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: Scaffold1
Parameters: 2 7 7 80 10 50 1000
Length:  8764944

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   

This is table  41  of  52  ( 6211 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)
6727962--6728014	20	2.5	21	82	11	65	56	0	0	43	0.99
6727963--6728026	21	3.0	21	77	6	67	57	0	0	42	0.98
6728454--6728539	37	2.4	37	81	13	106	54	1	1	43	1.15
6728919--6729041	35	3.8	33	74	13	114	65	0	0	33	0.98
6728937--6729023	19	4.7	19	69	21	58	66	0	1	32	0.99
6728937--6729034	26	3.7	25	67	19	65	65	0	1	33	1.00
6728926--6728994	31	2.3	30	83	9	88	68	0	0	31	0.90
6728919--6729051	12	12.1	12	67	23	71	64	0	0	34	0.99
6729018--6729089	16	4.6	16	76	20	64	58	0	0	41	0.98
6730438--6730485	5	10.4	5	78	17	50	68	0	0	31	0.90
6730428--6730486	14	4.2	14	76	18	52	69	0	0	30	0.89
6730428--6730488	24	2.5	25	80	15	74	70	0	0	29	0.88
6730443--6730478	18	1.9	18	88	5	54	72	0	0	27	0.85
6731341--6731374	2	17.0	2	100	0	68	50	0	0	50	1.00
6732262--6732303	20	2.2	19	87	8	59	47	9	0	42	1.36
6732261--6732304	19	2.2	20	84	4	63	45	9	0	45	1.35
6733514--6733544	15	2.1	15	93	0	53	51	3	0	45	1.17
6733995--6734024	15	1.9	16	93	6	53	50	0	0	50	1.00
6745474--6745518	22	2.1	22	87	4	65	37	2	0	60	1.09
6745506--6745545	17	2.4	17	80	12	55	32	2	0	65	1.06
6746052--6746108	18	3.1	18	73	14	53	63	0	0	36	0.95
6746066--6746132	28	2.4	27	82	14	82	67	1	0	31	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6749612--6750215	45	12.6	45	80	11	535	9	18	31	39	1.84
6749603--6750071	102	4.8	102	86	5	461	9	18	32	39	1.84
6749657--6749844	57	3.5	55	69	16	144	13	15	33	37	1.87
6750124--6750269	54	2.7	54	90	2	204	11	20	32	35	1.89
6752734--6752772	2	20.0	2	89	5	62	48	0	0	51	1.00
6753170--6753216	16	2.9	16	84	6	51	36	2	0	61	1.08
6764033--6764203	19	9.3	19	68	19	80	40	0	0	58	1.02
6764035--6764121	46	1.9	45	88	6	131	44	0	0	55	0.99
6764033--6764193	18	8.8	19	69	17	83	41	0	0	58	0.98
6768602--6769260	45	13.6	45	76	14	487	10	17	32	39	1.84
6768587--6768981	102	3.9	102	91	1	585	12	16	33	38	1.86
6768647--6768936	57	5.5	55	65	20	181	12	15	34	37	1.86
6768676--6768738	27	2.7	21	68	25	54	12	15	36	34	1.86
6768890--6768939	27	2.0	25	84	11	66	12	14	40	34	1.82
6768583--6769162	102	5.9	99	87	5	528	10	17	33	39	1.84
6769169--6769314	54	2.7	54	91	0	211	11	19	32	36	1.88
6770791--6770843	24	2.3	23	87	9	74	35	24	18	20	1.95
6770800--6770847	24	2.0	24	100	0	96	37	20	16	25	1.93
6772009--6772038	15	2.0	15	100	0	60	33	13	6	46	1.69
6774098--6774132	2	17.5	2	100	0	70	51	0	0	48	1.00
6775858--6775903	23	2.0	23	83	8	58	32	2	2	63	1.19
6775966--6776003	14	2.5	15	83	16	51	23	2	0	73	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6776741--6776799	29	2.0	30	83	6	77	59	3	10	27	1.46
6777007--6777036	2	15.5	2	93	6	53	46	0	0	53	1.00
6778171--6779222	219	4.8	219	95	0	1820	16	18	30	34	1.93
6779815--6779888	28	2.6	28	79	10	71	47	1	0	51	1.09
6779915--6779966	24	2.2	24	82	6	61	42	0	1	55	1.10
6779911--6779978	34	2.0	35	82	8	86	42	1	1	54	1.18
6780114--6780148	18	1.9	18	88	0	52	42	0	0	57	0.99
6780184--6780214	13	2.4	13	94	0	53	61	0	0	38	0.96
6781188--6781245	27	2.3	24	80	16	64	44	1	0	53	1.10
6781718--6781776	15	3.7	17	80	13	63	30	3	0	66	1.08
6781723--6781780	17	3.5	17	83	9	75	31	3	0	65	1.09
6781701--6781777	39	2.0	39	85	10	104	31	2	1	64	1.15
6781714--6781792	11	6.8	12	71	19	53	30	2	0	67	1.04
6782428--6782476	19	2.7	19	81	9	59	48	0	0	51	1.00
6782455--6782523	15	4.6	14	74	18	52	39	2	2	55	1.30
6782681--6782733	22	2.5	20	76	8	61	52	0	7	39	1.30
6783079--6783109	3	10.3	3	100	0	62	32	0	0	67	0.91
6784657--6785696	432	2.4	430	89	2	1534	16	19	30	34	1.93
6784657--6785701	219	4.8	217	91	1	1534	15	19	30	34	1.93
6786359--6786411	26	2.1	25	82	10	63	43	0	1	54	1.11
6787708--6787748	23	1.9	21	85	14	57	58	0	0	41	0.98
6788054--6788094	16	2.5	17	84	4	57	36	2	0	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6788065--6788152	37	2.4	38	78	16	105	35	3	3	57	1.32
6788471--6788508	2	19.0	2	88	0	58	50	0	2	47	1.15
6791049--6791094	22	2.1	22	83	0	56	56	2	0	41	1.11
6791884--6791914	3	10.3	3	100	0	62	0	32	0	67	0.91
6794659--6794683	6	4.2	6	100	0	50	32	16	52	0	1.44
6796132--6796192	23	2.7	23	82	10	63	57	4	0	37	1.20
6796334--6796381	24	1.9	24	83	8	60	45	2	6	45	1.40
6796918--6796955	18	2.1	19	90	5	60	68	0	2	28	1.03
6796883--6796954	28	2.6	27	77	18	76	66	1	1	30	1.08
6796949--6797021	10	7.3	10	72	20	55	49	1	2	46	1.24
6808709--6808756	20	2.5	20	83	16	66	45	0	0	54	0.99
6808683--6808800	49	2.3	52	80	11	129	44	0	0	55	1.05
6808709--6808762	19	2.8	20	80	5	67	44	0	0	55	0.99
6809751--6809776	2	13.0	2	100	0	52	50	0	0	50	1.00
6812132--6812217	29	3.2	28	74	19	92	52	5	1	40	1.33
6812145--6812195	23	2.2	23	83	10	68	49	5	0	45	1.26
6812381--6812413	2	16.5	2	100	0	66	51	0	0	48	1.00
6815595--6815619	5	5.0	5	100	0	50	60	0	0	40	0.97
6815899--6815971	36	2.0	36	97	0	137	26	20	26	27	1.99
6816603--6816650	22	2.1	23	88	11	73	18	6	12	62	1.50
6816749--6816906	82	1.9	81	83	6	203	35	11	6	46	1.65
6817072--6817145	34	2.2	34	83	9	89	39	1	0	59	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6823052--6823097	24	2.0	23	83	12	58	56	0	0	43	0.99
6823049--6823134	32	2.7	32	79	15	97	48	0	1	50	1.08
6823086--6823154	20	3.5	20	78	7	61	40	0	1	57	1.07
6823123--6823166	11	4.0	11	86	13	56	31	0	0	68	0.90
6823114--6823166	22	2.5	22	80	17	58	33	0	0	66	0.92
6824184--6824218	2	17.5	2	100	0	70	51	0	0	48	1.00
6824604--6824629	2	13.0	2	100	0	52	50	0	0	50	1.00
6826687--6826723	2	18.5	2	100	0	74	48	0	0	51	1.00
6826775--6826821	13	3.8	12	80	8	58	46	0	0	53	1.00
6830009--6830035	8	3.4	8	100	0	54	11	0	0	88	0.50
6830137--6830189	22	2.5	22	93	6	92	52	0	0	47	1.00
6830151--6830191	12	3.6	12	74	12	50	58	0	0	41	0.98
6831005--6831037	2	17.0	2	93	6	59	48	0	0	51	1.00
6835403--6835480	40	2.0	40	92	0	129	47	11	7	33	1.68
6838665--6838717	19	2.9	18	81	13	63	41	0	1	56	1.10
6838675--6838722	18	2.7	17	84	9	60	43	0	0	56	0.99
6842406--6842435	12	2.5	12	88	0	51	56	0	0	43	0.99
6842419--6842479	28	2.4	25	89	10	88	52	0	0	47	1.00
6842419--6842480	27	2.4	23	78	21	70	53	0	0	46	1.00
6842419--6842491	26	2.9	24	79	16	76	54	0	0	45	0.99
6843269--6843325	16	3.5	16	75	11	62	43	0	0	56	0.99
6843985--6844013	13	2.1	14	93	6	51	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6845685--6845716	3	10.7	3	100	0	64	31	0	34	34	1.58
6849137--6849190	25	2.2	25	83	6	65	42	7	5	44	1.55
6849913--6849938	2	13.0	2	100	0	52	50	0	0	50	1.00
6850907--6850932	3	8.7	3	100	0	52	34	0	0	65	0.93
6853778--6853817	14	2.7	14	88	7	53	37	2	0	60	1.11
6853772--6853867	40	2.3	40	81	10	97	39	2	1	57	1.17
6853908--6853945	7	5.6	7	81	6	51	52	0	0	47	1.00
6853905--6853944	20	2.0	20	95	0	71	52	0	0	47	1.00
6856077--6856130	12	4.5	12	72	9	56	5	35	5	53	1.48
6856087--6856135	24	2.0	24	88	7	73	4	36	4	55	1.38

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