genome.fa.s16.2.7.7.80.10.50.1000.22.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  22  of  35  ( 4175 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)
3384191--3384794	294	2.1	294	93	0	1019	34	18	28	19	1.95
3385110--3386369	498	2.5	498	75	5	1145	35	17	28	18	1.94
3386724--3393159	42	154.2	42	67	10	885	34	16	28	19	1.94
3386756--3392067	126	42.5	126	68	12	1112	34	16	28	20	1.95
3388337--3388631	162	1.8	162	82	1	376	35	16	27	19	1.94
3388257--3388699	246	1.8	246	80	3	541	35	17	27	19	1.94
3389476--3390015	167	3.3	164	77	6	511	35	15	29	19	1.93
3390531--3390687	83	1.9	84	82	1	199	35	17	28	18	1.93
3391596--3392283	246	2.8	243	76	4	585	36	16	28	18	1.93
3391807--3393396	42	37.9	42	68	5	388	36	17	27	18	1.93
3393004--3393382	167	2.3	167	80	3	420	36	17	27	18	1.93
3393614--3393863	42	6.0	41	73	9	114	37	17	26	18	1.93
3393518--3393821	84	3.6	83	76	5	254	35	16	27	21	1.94
3393640--3393786	42	3.5	41	76	13	140	33	17	28	20	1.95
3393682--3393866	42	4.4	42	81	4	167	38	17	26	17	1.91
3397129--3397203	20	3.8	20	80	3	80	40	12	13	34	1.81
3397126--3397203	40	2.0	39	87	2	111	39	12	12	34	1.82
3397763--3398889	29	38.1	32	90	4	941	20	17	32	29	1.95
3397764--3398892	114	9.6	114	90	3	1361	20	17	33	28	1.95
3397763--3398892	143	7.6	143	89	4	1365	20	17	33	28	1.95
3397764--3398889	257	4.2	260	88	5	1507	20	17	32	29	1.95
3400122--3400179	1	58.0	1	75	0	53	0	1	10	87	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3400110--3400180	20	3.5	19	74	18	63	1	2	11	84	0.79
3400129--3400179	12	4.5	11	90	9	84	0	0	11	88	0.52
3400112--3400179	23	2.8	24	87	12	88	1	2	10	85	0.77
3414186--3414260	20	3.8	20	80	3	80	40	12	13	34	1.81
3414183--3414260	40	2.0	39	87	2	111	39	12	12	34	1.82
3414542--3414695	42	3.7	42	74	6	132	30	20	30	18	1.96
3414483--3414747	84	3.1	83	80	5	255	32	17	30	19	1.95
3418245--3418300	21	2.7	21	100	0	112	35	17	10	35	1.85
3418749--3420804	42	49.6	42	67	11	284	34	17	29	19	1.94
3418837--3419495	84	7.9	84	77	6	511	33	16	30	18	1.93
3419052--3419202	78	1.9	77	87	1	221	35	15	31	17	1.91
3418878--3419367	246	2.0	245	82	2	599	34	16	31	18	1.93
3418838--3419454	330	1.9	330	81	2	747	34	17	30	17	1.93
3418749--3419512	168	4.6	166	76	8	564	33	17	30	17	1.94
3419792--3424001	84	50.8	84	70	8	1116	34	17	28	19	1.94
3420091--3420160	35	2.0	35	85	0	95	34	20	32	12	1.90
3419824--3423944	168	24.9	169	70	9	1609	34	17	28	19	1.94
3420340--3420489	78	1.9	77	87	4	221	34	16	30	18	1.93
3420947--3421130	42	4.4	42	70	4	120	34	21	23	20	1.97
3421410--3421892	42	11.6	43	68	9	223	36	14	27	20	1.92
3421494--3421637	78	1.9	77	82	1	180	36	12	29	22	1.91
3421324--3421816	247	2.0	245	81	5	566	36	15	28	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3422471--3432679	42	246.5	42	66	11	1561	34	16	28	19	1.94
3424042--3424103	32	1.9	32	96	0	115	40	11	29	19	1.86
3425134--3425433	161	1.9	161	80	2	361	36	18	27	18	1.94
3425451--3425569	43	2.8	41	79	6	130	36	14	31	16	1.89
3425496--3425650	78	2.0	77	84	3	204	35	13	31	19	1.90
3428462--3428522	32	1.9	32	93	0	104	37	11	24	26	1.89
3430542--3430698	85	1.8	86	83	1	208	32	18	31	17	1.94
3430942--3431005	32	2.0	32	84	0	83	35	17	29	17	1.92
3431507--3431540	16	2.1	17	88	5	52	23	14	41	20	1.89
3432205--3432352	78	1.9	77	86	4	208	34	14	32	18	1.91
3432055--3432440	162	2.4	161	77	7	361	36	15	29	18	1.92
3432683--3432736	17	3.3	17	65	19	51	40	9	25	24	1.85
3432614--3432857	116	2.1	116	84	0	308	36	13	26	23	1.92
3433016--3433243	120	1.9	119	81	0	276	34	18	30	15	1.93
3433135--3433323	84	2.2	85	77	4	193	31	20	31	16	1.95
3433452--3433512	32	1.9	32	89	0	95	39	14	24	21	1.91
3433558--3434525	42	23.3	43	67	14	176	33	17	29	19	1.95
3433490--3434581	84	13.2	84	71	8	606	33	17	29	19	1.95
3433797--3434444	163	4.0	159	75	10	400	33	18	28	18	1.95
3434120--3438388	42	102.7	42	66	10	512	34	16	29	19	1.94
3435564--3435625	32	1.9	32	90	6	99	37	12	27	22	1.91
3435774--3436104	167	2.0	169	81	7	397	35	16	27	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3435780--3436141	167	2.2	167	78	5	385	33	17	27	20	1.95
3437129--3437420	125	2.3	126	79	2	293	32	16	29	21	1.95
3437270--3437471	83	2.4	83	74	11	189	34	15	29	21	1.94
3438401--3459496	42	508.5	42	66	13	2831	34	16	29	19	1.94
3436179--3446198	126	80.6	125	66	12	896	34	17	29	18	1.94
3439952--3440171	83	2.6	83	78	3	183	35	15	29	19	1.93
3441870--3442047	83	2.1	84	78	8	184	35	13	29	20	1.91
3442484--3443879	498	2.8	497	77	5	1145	34	17	28	19	1.94
3443371--3443607	120	2.0	119	83	4	298	34	15	31	18	1.92
3443890--3443953	32	2.0	32	90	6	103	35	15	26	21	1.94
3443766--3444078	157	2.0	156	79	8	341	37	18	25	18	1.94
3445118--3445359	83	2.9	83	75	3	207	32	16	30	20	1.95
3445118--3445426	167	1.9	167	79	2	361	33	17	30	19	1.95
3453515--3453622	41	2.6	41	77	4	110	33	14	28	23	1.94
3454229--3454602	204	1.8	204	83	3	502	34	16	30	18	1.93
3454551--3454859	170	1.8	170	82	1	404	37	14	27	21	1.92
3455267--3455639	205	1.8	205	81	2	462	33	15	31	19	1.93
3456111--3456180	35	2.0	35	97	0	131	28	15	40	15	1.88
3456347--3456720	204	1.8	204	82	3	484	34	15	31	19	1.93
3457993--3458154	83	2.0	83	82	2	200	33	15	29	21	1.94
3457971--3458416	209	2.1	209	80	4	497	32	17	30	20	1.95
3459170--3459488	125	2.6	125	79	6	299	33	15	30	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3459092--3459436	83	4.1	84	73	8	231	33	13	31	20	1.92
3459745--3460033	89	3.2	89	83	3	357	28	15	28	28	1.96
3469771--3469867	22	4.4	22	84	7	117	4	21	12	61	1.47
3470216--3470290	20	3.8	20	74	0	78	34	13	12	40	1.81
3470216--3470293	40	2.0	39	84	2	102	34	12	12	39	1.82
3473057--3473134	21	3.7	21	98	0	147	33	10	19	37	1.85
3473056--3473154	42	2.4	42	87	3	146	35	13	17	34	1.88
3473190--3473257	19	3.9	19	78	21	85	35	11	14	38	1.83
3473211--3473235	13	1.9	13	100	0	50	36	16	16	32	1.90
3473192--3473254	32	2.0	32	96	0	117	34	12	15	36	1.86
3473297--3473322	13	2.0	13	100	0	52	30	15	15	38	1.88
3473277--3473343	33	2.0	33	88	0	98	25	14	16	43	1.86
3474003--3474027	8	3.1	8	100	0	50	12	40	0	48	1.40
3475686--3476135	52	8.5	53	67	19	199	29	27	12	30	1.93
3475803--3475871	27	2.5	27	85	2	84	26	31	20	21	1.98
3475749--3476191	108	4.1	107	80	8	490	28	28	14	28	1.95
3475911--3475979	27	2.5	27	85	2	84	26	31	20	21	1.98
3476119--3476195	28	2.8	28	88	4	102	23	32	19	24	1.97
3475749--3476252	108	4.7	108	79	6	481	27	27	14	29	1.95
3479631--3479668	20	1.9	20	94	0	67	26	15	15	42	1.87
3482871--3482924	20	2.7	19	88	11	74	33	14	18	33	1.92
3485730--3485854	32	3.9	32	90	2	198	37	12	22	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3485730--3485854	63	2.0	63	91	0	205	37	12	22	27	1.90
3489043--3489171	52	2.5	52	93	0	222	31	17	15	35	1.91
3489180--3489204	13	1.9	13	100	0	50	36	16	16	32	1.90
3489245--3489311	33	2.0	33	88	0	98	40	14	11	32	1.83
3489267--3489291	13	1.9	13	100	0	50	32	16	16	36	1.90
3489697--3489800	22	4.7	21	77	7	64	43	6	8	41	1.62
3489739--3489837	24	3.9	24	74	19	101	41	4	6	48	1.47
3489706--3489805	46	2.2	46	94	0	173	42	7	7	44	1.58
3489741--3489812	22	3.2	22	74	21	69	43	4	5	47	1.46
3490741--3490793	22	2.5	22	78	3	54	22	1	9	66	1.31

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