Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold202
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2706578
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 11 of 16
Found at i:1815215 original size:17 final size:17
Alignment explanation
Indices: 1815176--1815216 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1815166 TATTAAAAAT
*
1815176 TAAATTAAAAATATATTA
1 TAAA-TAAAAATATAATA
*
1815194 AAAATAAAAATATAATA
1 TAAATAAAAATATAATA
1815211 TAAATA
1 TAAATA
1815217 GATTTTAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATAAAAATATAATA
Found at i:1815409 original size:43 final size:45
Alignment explanation
Indices: 1815361--1815484 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 45
1815351 TCTCAAAGTG
1815361 ATAATTCATATATTAATAT-TATTTTTATAAATTTTT-ACATATT-
1 ATAATT-ATATATTAATATATATTTTTATAAATTTTTAACATATTA
1815404 ATAATTATAT-TTAAAATATTATATATTTATATAAATTTTTAACATATTA
1 ATAATTATATATT--AATA-TATAT-TTT-TATAAATTTTTAACATATTA
* *
1815453 ATAATT-TATATT-ATATAAATTTTAATAAATTT
1 ATAATTATATATTAATATATATTTTTATAAATTT
1815485 ATATTATTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
41 2 0.03
42 4 0.06
43 18 0.26
44 4 0.06
45 7 0.10
46 6 0.09
47 11 0.16
48 10 0.14
49 8 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (45 bp):
ATAATTATATATTAATATATATTTTTATAAATTTTTAACATATTA
Found at i:1815434 original size:28 final size:27
Alignment explanation
Indices: 1815368--1815468 Score: 80
Period size: 28 Copynumber: 3.6 Consensus size: 27
1815358 GTGATAATTC
* *
1815368 ATATATTAATATTATTTTTATAAAT-TT
1 ATATATTTATATTATATTTA-AAATATT
* *
1815395 TTACATATTATAATTATATTTAAAATATT
1 ATATAT-TTAT-ATTATATTTAAAATATT
* * *
1815424 ATATATTTATATAAATTTTTAACATATT
1 ATATATTTATAT-TATATTTAAAATATT
1815452 A-ATAATTTATATTATAT
1 ATAT-ATTTATATTATAT
1815469 AAATTTTAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
27 11 0.19
28 32 0.55
29 15 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
ATATATTTATATTATATTTAAAATATT
Found at i:1815438 original size:20 final size:20
Alignment explanation
Indices: 1815399--1815438 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1815389 AAATTTTTAC
*
1815399 ATATTATAATTATATTTAAA
1 ATATTATAATTATATATAAA
1815419 ATATTATATATT-TATATAAA
1 ATATTATA-ATTATATATAAA
1815439 TTTTTAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTATAATTATATATAAA
Found at i:1815494 original size:34 final size:33
Alignment explanation
Indices: 1815419--1815505 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 33
1815409 TATATTTAAA
*
1815419 ATATTATATATTTATATAAATTTTTAACATATT
1 ATATTATTTATTTATATAAATTTTTAACATATT
*
1815452 A-ATAATTTATATTATATAAATTTTAATAA-AT-TT
1 ATATTATTTAT-TTATATAAATTTT--TAACATATT
1815485 ATATTATTTA-TTATATTAAAT
1 ATATTATTTATTTATA-TAAAT
1815506 AATATTTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
32 12 0.26
33 22 0.48
34 9 0.20
35 3 0.07
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (33 bp):
ATATTATTTATTTATATAAATTTTTAACATATT
Found at i:1815497 original size:32 final size:32
Alignment explanation
Indices: 1815418--1815505 Score: 97
Period size: 32 Copynumber: 2.7 Consensus size: 32
1815408 TTATATTTAA
*
1815418 AATATTATATATTTATATAAATTTTTAACATATT
1 AATATTATATA-TTATATAAA-TTTTAACAAATT
*
1815452 AATAATT-TATATTATATAAATTTTAATAAATT
1 AAT-ATTATATATTATATAAATTTTAACAAATT
* *
1815484 TATATTATTTATTATATTAAAT
1 AATATTATATATTATA-TAAAT
1815506 AATATTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 3 0.06
32 20 0.43
33 14 0.30
34 7 0.15
35 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (32 bp):
AATATTATATATTATATAAATTTTAACAAATT
Found at i:1816071 original size:18 final size:17
Alignment explanation
Indices: 1816046--1816091 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
1816036 TAATATATAT
1816046 ATATATATATAAATTATTAA
1 ATATAT-TA-AAATT-TTAA
1816066 ATATATTAAAATTTTAA
1 ATATATTAAAATTTTAA
1816083 ATATTATTA
1 ATA-TATTA
1816092 TAGATTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.28
18 10 0.40
19 2 0.08
20 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATTAAAATTTTAA
Found at i:1816858 original size:5 final size:5
Alignment explanation
Indices: 1816821--1816854 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
1816811 TATATAGTGA
*
1816821 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAC AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1816855 CAAAGGTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:1818238 original size:34 final size:34
Alignment explanation
Indices: 1818200--1818268 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
1818190 AAAATCTTCT
1818200 AAATCTTCAACAAGAATTAATCCAAAAGATTAAA
1 AAATCTTCAACAAGAATTAATCCAAAAGATTAAA
1818234 AAATCTTCAACAAGAATTAATCCAAAAGATTAAA
1 AAATCTTCAACAAGAATTAATCCAAAAGATTAAA
1818268 A
1 A
1818269 TATTTGAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (34 bp):
AAATCTTCAACAAGAATTAATCCAAAAGATTAAA
Found at i:1819888 original size:18 final size:17
Alignment explanation
Indices: 1819862--1819895 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1819852 TATGTTTTTT
*
1819862 TATTAATTTTTATATTA
1 TATTAATTTTAATATTA
1819879 TATTATATTTTAATATT
1 TATTA-ATTTTAATATT
1819896 TTTATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTAATTTTAATATTA
Found at i:1820079 original size:16 final size:17
Alignment explanation
Indices: 1820058--1820099 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1820048 AATATTATAT
1820058 TTATTTATATAA-TTAA
1 TTATTTATATAATTTAA
1820074 TTATTT-T-TAATTTAA
1 TTATTTATATAATTTAA
1820089 TATATTTATAT
1 T-TATTTATAT
1820100 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.14
15 6 0.27
16 11 0.50
17 1 0.05
18 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTATATAATTTAA
Found at i:1820133 original size:20 final size:20
Alignment explanation
Indices: 1820087--1820139 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 20
1820077 TTTTTAATTT
1820087 AATATATTT-ATATTTTAAA
1 AATATATTTAATATTTTAAA
1820106 AATA-ATTTAATATTTTAAA
1 AATATATTTAATATTTTAAA
1820125 AATATATTTAATATT
1 AATATATTTAATATT
1820140 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.12
19 18 0.56
20 10 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATATTTAATATTTTAAA
Found at i:1820281 original size:26 final size:26
Alignment explanation
Indices: 1820252--1820302 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
1820242 AATAATAATA
1820252 TTTATATAA-TAAATAAATTTTAATTT
1 TTTATA-AATTAAATAAATTTTAATTT
1820278 TTTATAAATTAAATAAATTTTAATT
1 TTTATAAATTAAATAAATTTTAATT
1820303 CAAATATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTATAAATTAAATAAATTTTAATTT
Found at i:1820546 original size:24 final size:23
Alignment explanation
Indices: 1820481--1820548 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
1820471 TATATTTTAT
*
1820481 ATTTTAAAAT-AATTATATTAAA
1 ATTTTAAAATAAATTATAATAAA
* *
1820503 ATAATTTAAGATAAA-AATAATAAA
1 AT--TTTAAAATAAATTATAATAAA
1820527 ATTTTATAAATAAATTATAATA
1 ATTTTA-AAATAAATTATAATA
1820549 TGTAAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 6 0.17
23 6 0.17
24 22 0.61
25 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (23 bp):
ATTTTAAAATAAATTATAATAAA
Found at i:1820938 original size:14 final size:13
Alignment explanation
Indices: 1820921--1821015 Score: 52
Period size: 15 Copynumber: 6.8 Consensus size: 13
1820911 TTAAACTTTT
1820921 AAATTTAATAATTA
1 AAATTTAAT-ATTA
1820935 AAATTTAATATTAA
1 AAATTTAATATT-A
*
1820949 ATAATTTAAAATATA
1 A-AATTTAATAT-TA
*
1820964 AATATATATATACTTA
1 AA-ATTTA-ATA-TTA
*
1820980 AAA--AAATATTTAA
1 AAATTTAATA-TT-A
*
1820993 AAATTT-ATATAA
1 AAATTTAATATTA
1821005 AAATTTAATAT
1 AAATTTAATAT
1821016 GACGTATGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
12 12 0.19
13 13 0.20
14 15 0.23
15 16 0.25
16 7 0.11
17 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATTTAATATTA
Found at i:1820967 original size:16 final size:15
Alignment explanation
Indices: 1820922--1820967 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1820912 TAAACTTTTA
1820922 AATTTAATAATT-AA-
1 AATTTAA-AATTAAAT
*
1820936 AATTTAATATTAAAT
1 AATTTAAAATTAAAT
1820951 AATTTAAAATATAAAT
1 AATTTAAAAT-TAAAT
1820967 A
1 A
1820968 TATATATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 9 0.33
15 9 0.33
16 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTAAAATTAAAT
Found at i:1822064 original size:25 final size:26
Alignment explanation
Indices: 1822020--1822069 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
1822010 TTTGTCGTTT
* *
1822020 AAGACATTTTTATATTTTTATTTTAA
1 AAGACATTATTATATATTTATTTTAA
1822046 AAGA-ATTATTATATATTTATTTTA
1 AAGACATTATTATATATTTATTTTA
1822070 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (26 bp):
AAGACATTATTATATATTTATTTTAA
Found at i:1822510 original size:17 final size:18
Alignment explanation
Indices: 1822488--1822521 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1822478 ATAAAAATAA
1822488 TTTTTAAAAA-TAATTTC
1 TTTTTAAAAATTAATTTC
1822505 TTTTTAAAAATTAATTT
1 TTTTTAAAAATTAATTT
1822522 TTAATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTAAAAATTAATTTC
Found at i:1822525 original size:14 final size:13
Alignment explanation
Indices: 1822474--1822503 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1822464 TAAATTTATC
*
1822474 ATTTATAAAAATA
1 ATTTTTAAAAATA
1822487 ATTTTTAAAAATA
1 ATTTTTAAAAATA
1822500 ATTT
1 ATTT
1822504 CTTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTTTAAAAATA
Found at i:1822775 original size:11 final size:11
Alignment explanation
Indices: 1822759--1822800 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1822749 ATTCTATTAT
1822759 ATATAATATAA
1 ATATAATATAA
*
1822770 ATATAATAAAA
1 ATATAATATAA
*
1822781 AAATAAT-TAA
1 ATATAATATAA
1822791 TATATAATAT
1 -ATATAATAT
1822801 TTATATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 2 0.08
11 22 0.88
12 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAATATAA
Found at i:1823401 original size:20 final size:19
Alignment explanation
Indices: 1823376--1823449 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 19
1823366 ATAGATATTA
1823376 TATATTTAATATTATTAAGT
1 TATATTTAATATTATTAA-T
1823396 TATATTTTTAATATATATATTATATT
1 TATA--TTT-A-ATAT-TATTA-A-T
1823422 TATATTTAATATTA-T-AT
1 TATATTTAATATTATTAAT
1823439 TATATTTAATA
1 TATATTTAATA
1823450 ATAAATTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
17 12 0.26
18 1 0.02
20 5 0.11
21 2 0.04
22 7 0.15
23 2 0.04
24 7 0.15
25 5 0.11
26 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (19 bp):
TATATTTAATATTATTAAT
Found at i:1823441 original size:17 final size:18
Alignment explanation
Indices: 1823412--1823449 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
1823402 TTTAATATAT
1823412 ATATTATATTTATATTTA
1 ATATTATATTTATATTTA
1823430 ATATTATA-TTATATTTA
1 ATATTATATTTATATTTA
1823447 ATA
1 ATA
1823450 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTATATTTATATTTA
Found at i:1823451 original size:20 final size:20
Alignment explanation
Indices: 1823376--1823452 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1823366 ATAGATATTA
*
1823376 TATATTTAATATTATTA-AGT
1 TATATTTAATAATATTATA-T
*
1823396 TATATTT-TTAATATATATAT
1 TATATTTAATAATAT-TATAT
1823416 TATATTTATATTTAATATTATAT
1 TATATTTA-A--TAATATTATAT
1823439 TATATTTAATAATA
1 TATATTTAATAATA
1823453 AATTTTTTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
19 5 0.10
20 22 0.46
21 1 0.02
22 1 0.02
23 13 0.27
24 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
TATATTTAATAATATTATAT
Found at i:1823471 original size:15 final size:15
Alignment explanation
Indices: 1823451--1823488 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1823441 TATTTAATAA
1823451 TAAATT-TTTTCTTTT
1 TAAATTATTTT-TTTT
1823466 TAAATTGATTTTTTTT
1 TAAATT-ATTTTTTTT
1823482 TAAATTA
1 TAAATTA
1823489 ATGTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (15 bp):
TAAATTATTTTTTTT
Found at i:1824417 original size:15 final size:15
Alignment explanation
Indices: 1824377--1824427 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1824367 TGAATATTTG
1824377 ATTATTGAATTT-AAT
1 ATTA-TGAATTTAAAT
* *
1824392 ATTTTTAAATTTAAAT
1 A-TTATGAATTTAAAT
*
1824408 ATTATGAATTTAGAT
1 ATTATGAATTTAAAT
1824423 ATTAT
1 ATTAT
1824428 ATTTACTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 23 0.79
16 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTATGAATTTAAAT
Found at i:1824932 original size:5 final size:5
Alignment explanation
Indices: 1824922--1824972 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
1824912 TTTTATTAAT
* **
1824922 TTTTA TTTTA TTTTA TTTTA --TTA TTTTA TTTTTA TTTGA TTACA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA
1824971 TT
1 TT
1824973 ATTAAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
3 3 0.08
5 30 0.79
6 5 0.13
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:1824947 original size:18 final size:19
Alignment explanation
Indices: 1824924--1824963 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1824914 TTATTAATTT
*
1824924 TTATTTTA-TTTTATTTTA
1 TTATTTTATTTTTATTTGA
1824942 TTATTTTATTTTTATTTGA
1 TTATTTTATTTTTATTTGA
1824961 TTA
1 TTA
1824964 CATTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (19 bp):
TTATTTTATTTTTATTTGA
Found at i:1824981 original size:29 final size:28
Alignment explanation
Indices: 1824914--1825001 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
1824904 TTTAAAAATT
* **
1824914 TTATTAATTTTTATTTTATTTTATTTTA
1 TTATTAATTTTTATTTGATTAAATTTTA
* *
1824942 TTATTTTATTTTTATTTGATTACATTTTA
1 TTA-TTAATTTTTATTTGATTAAATTTTA
*
1824971 TTATTAAATTTTAATTTTTGATTAAATTTTA
1 TTATT-AATTTT--TATTTGATTAAATTTTA
1825002 CCACCCAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 5 0.10
29 29 0.59
31 15 0.31
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.68
Consensus pattern (28 bp):
TTATTAATTTTTATTTGATTAAATTTTA
Found at i:1825593 original size:6 final size:6
Alignment explanation
Indices: 1825582--1825608 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1825572 TACACGTTAA
1825582 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1825609 CATCAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:1826329 original size:2 final size:2
Alignment explanation
Indices: 1826316--1826353 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1826306 TGTCATAATC
*
1826316 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1826354 ATCATTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1826986 original size:53 final size:52
Alignment explanation
Indices: 1826884--1826987 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
1826874 TGAAAATTAG
*
1826884 ATTTAAATATTTAAATTTATTATCTATCAAAAAATGTGAATTTAAATAATAA
1 ATTTAAATATTTAAATTTATTATCTATCAAAAAATGCGAATTTAAATAATAA
* * * * *
1826936 ATTTAAATATTTTAATTTGTTATTTGT-AAAAATTATGCGAATTTAGATAATA
1 ATTTAAATATTTAAATTTATTATCTATCAAAAA--ATGCGAATTTAAATAATA
1826988 GATATCGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
51 5 0.11
52 23 0.52
53 16 0.36
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (52 bp):
ATTTAAATATTTAAATTTATTATCTATCAAAAAATGCGAATTTAAATAATAA
Found at i:1827874 original size:3 final size:3
Alignment explanation
Indices: 1827866--1827916 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
1827856 ATATGATCAA
1827866 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1827914 ATT
1 ATT
1827917 TATAGATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1827968 original size:3 final size:3
Alignment explanation
Indices: 1827960--1827993 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1827950 AATATGATCA
*
1827960 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1827994 GGGATAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:1828177 original size:20 final size:19
Alignment explanation
Indices: 1828121--1828189 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
1828111 TAATTTTTAA
1828121 TTTAT-TAAATAA--TATT
1 TTTATATAAATAATTTATT
1828137 TTTATATAAATAATTTATT
1 TTTATATAAATAATTTATT
*
1828156 TTTATGTAAATAATTTATTT
1 TTTATATAAATAATTTA-TT
1828176 TTTATATAAATAAT
1 TTTATATAAATAAT
1828190 AAATAAATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
16 5 0.11
17 7 0.15
19 20 0.43
20 15 0.32
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
TTTATATAAATAATTTATT
Found at i:1832551 original size:102 final size:101
Alignment explanation
Indices: 1832357--1832549 Score: 282
Period size: 102 Copynumber: 1.9 Consensus size: 101
1832347 TAGTTTTTCG
*
1832357 ATAATAATGGATGTTCAACCAATTCCCACTTATTTTGATTTGTAAACATTTTTTTTTTGAAAAAT
1 ATAATAATGGATGTTCAACCAATTCCCACTCATTTTGATTTGTAAACA-TTTTTTTTTGAAAAAT
*
1832422 TCTTTAGGAAATTATTTTCTACTTTTTTCTGATTCCA
65 TCTTTAAGAAATTATTTTCTACTTTTTTCTGATTCCA
* * *
1832459 ATAATAATGGATTTTCAACCAATTCCCACTCATTTTGTTTTGTAAAC-TTTTTTTTTG-AAATTT
1 ATAATAATGGATGTTCAACCAATTCCCACTCATTTTGATTTGTAAACATTTTTTTTTGAAAAATT
* * *
1832522 TTTTCAAGAAATTGTTTTCTTCTTTTTT
66 CTTT-AAGAAATTATTTTCTACTTTTTT
1832550 TTTTTTGGGA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
99 8 0.10
100 30 0.37
102 44 0.54
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.51
Consensus pattern (101 bp):
ATAATAATGGATGTTCAACCAATTCCCACTCATTTTGATTTGTAAACATTTTTTTTTGAAAAATT
CTTTAAGAAATTATTTTCTACTTTTTTCTGATTCCA
Found at i:1835360 original size:2 final size:2
Alignment explanation
Indices: 1835353--1835381 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1835343 CAATGTATTT
1835353 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1835382 GTGTGTGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1839103 original size:20 final size:19
Alignment explanation
Indices: 1839060--1839109 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
1839050 ATATTTTTGA
1839060 ATATTTTTTATATTTTAAT
1 ATATTTTTTATATTTTAAT
1839079 A-ATTTATTT-TATTTT-AT
1 ATATTT-TTTATATTTTAAT
1839096 ATATATTTTTATAT
1 ATAT-TTTTTATAT
1839110 GTTCATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 3 0.11
18 15 0.56
19 9 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATTTTTTATATTTTAAT
Found at i:1839108 original size:10 final size:10
Alignment explanation
Indices: 1839049--1839109 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 10
1839039 ATATAAAAAT
1839049 TATATTTTTGA
1 TATATTTTT-A
1839060 -ATATTTTT-
1 TATATTTTTA
*
1839068 TATATTTTAA
1 TATATTTTTA
1839078 TA-ATTTATT-
1 TATATTT-TTA
1839087 T-TATTTTATA
1 TATATTTT-TA
1839097 TATATTTTTA
1 TATATTTTTA
1839107 TAT
1 TAT
1839110 GTTCATGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
8 1 0.02
9 17 0.41
10 17 0.41
11 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TATATTTTTA
Found at i:1840082 original size:15 final size:14
Alignment explanation
Indices: 1840062--1840152 Score: 50
Period size: 15 Copynumber: 6.5 Consensus size: 14
1840052 TTTTATAAAA
1840062 AAATTTTATATGATT
1 AAATTTTATAT-ATT
1840077 AAATTTTA-ACT-TT
1 AAATTTTATA-TATT
* *
1840090 AAA-TTTATTTGTT
1 AAATTTTATATATT
*
1840103 AAATATTT-TA-AAT
1 AAAT-TTTATATATT
1840116 AAATTTTAT-TAATT
1 AAATTTTATAT-ATT
*
1840130 ATAATTTTATTTAATT
1 A-AATTTTATAT-ATT
1840146 AAATTTT
1 AAATTTT
1840153 TTTATATCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
12 8 0.13
13 16 0.26
14 5 0.08
15 26 0.43
16 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (14 bp):
AAATTTTATATATT
Found at i:1840125 original size:16 final size:15
Alignment explanation
Indices: 1840109--1840156 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1840099 TGTTAAATAT
*
1840109 TTTAAATAAATTTTA
1 TTTAATTAAATTTTA
1840124 -TTAATTATAATTTTA
1 TTTAATTA-AATTTTA
1840139 TTTAATTAAATTTT-
1 TTTAATTAAATTTTA
1840153 TTTA
1 TTTA
1840157 TATCTATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.33
15 13 0.43
16 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAATTAAATTTTA
Found at i:1840501 original size:13 final size:13
Alignment explanation
Indices: 1840483--1840508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1840473 TATCATTTTA
1840483 TTTTTTTTACCTT
1 TTTTTTTTACCTT
1840496 TTTTTTTTACCTT
1 TTTTTTTTACCTT
1840509 CCCCTTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTACCTT
Found at i:1841159 original size:13 final size:14
Alignment explanation
Indices: 1841143--1841177 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
1841133 ATGTTATTAA
1841143 TTATTTTAA-TTTT
1 TTATTTTAAGTTTT
1841156 TTATATTTAAGTTTT
1 TTAT-TTTAAGTTTT
1841171 TTATTTT
1 TTATTTT
1841178 TTTGAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 8 0.40
15 8 0.40
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTATTTTAAGTTTT
Found at i:1841378 original size:11 final size:12
Alignment explanation
Indices: 1841352--1841392 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1841342 AATTATGTTA
1841352 TTAATTGATATT
1 TTAATTGATATT
1841364 TTAATTGAT-TT
1 TTAATTGATATT
1841375 TTAAATT-ATATAT
1 TT-AATTGATAT-T
1841388 TTAAT
1 TTAAT
1841393 AAGATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.23
12 17 0.65
13 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (12 bp):
TTAATTGATATT
Found at i:1843095 original size:41 final size:41
Alignment explanation
Indices: 1843038--1843119 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
1843028 TGTCAAGAGG
1843038 GAAAGACCATGCGCTTGATGGATTTACATCCTACTTATTTA
1 GAAAGACCATGCGCTTGATGGATTTACATCCTACTTATTTA
1843079 GAAAGACCATGCGCTTGATGGATTTACATCCTACTTATTTA
1 GAAAGACCATGCGCTTGATGGATTTACATCCTACTTATTTA
1843120 AATCTACCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (41 bp):
GAAAGACCATGCGCTTGATGGATTTACATCCTACTTATTTA
Found at i:1849811 original size:15 final size:15
Alignment explanation
Indices: 1849791--1849824 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1849781 TCAAAAATCA
*
1849791 TTATTAAAATTTACT
1 TTATTAAAAATTACT
1849806 TTATTAAAAATTACT
1 TTATTAAAAATTACT
1849821 TTAT
1 TTAT
1849825 ATAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATTAAAAATTACT
Found at i:1850366 original size:17 final size:18
Alignment explanation
Indices: 1850324--1850369 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
1850314 TTAATAATAA
*
1850324 AAATAAT-AATTTATATT
1 AAATAATAAAATTATATT
* *
1850341 TAATTATAAAATTATA-T
1 AAATAATAAAATTATATT
1850358 AAATAATAAAAT
1 AAATAATAAAAT
1850370 AAAAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATAATAAAATTATATT
Found at i:1851988 original size:21 final size:21
Alignment explanation
Indices: 1851964--1852003 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1851954 TTTACACTAA
*
1851964 TTTAGAAATAAAATATTTATT
1 TTTAGAAATAAAAAATTTATT
* *
1851985 TTTATATATAAAAAATTTA
1 TTTAGAAATAAAAAATTTA
1852004 AAACTATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTAGAAATAAAAAATTTATT
Found at i:1852123 original size:22 final size:21
Alignment explanation
Indices: 1852081--1852123 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
1852071 TGAATCGGAA
* *
1852081 TCAAACTGAATTTAATAAAAC
1 TCAAAATGAATTGAATAAAAC
*
1852102 TCAAAATGAAATTGAATCAAAC
1 TCAAAATG-AATTGAATAAAAC
1852124 ACTATAATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.26
Consensus pattern (21 bp):
TCAAAATGAATTGAATAAAAC
Found at i:1854129 original size:14 final size:16
Alignment explanation
Indices: 1854110--1854146 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
1854100 CTTTTTCTTC
1854110 TTATTTACTAT-TTG-
1 TTATTTACTATCTTGT
1854124 TTATTTACTATCTTGT
1 TTATTTACTATCTTGT
1854140 TTATTTA
1 TTATTTA
1854147 AGTTTTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 3 0.14
16 7 0.33
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (16 bp):
TTATTTACTATCTTGT
Found at i:1858071 original size:11 final size:12
Alignment explanation
Indices: 1858031--1858081 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 12
1858021 AGTTAAAAAA
1858031 ATTAAATATAA-
1 ATTAAATATAAT
1858042 ATTAAATAATTTTAAT
1 ATTAAAT-A---TAAT
1858058 ATTAAATA-AAT
1 ATTAAATATAAT
1858069 ATTAAATATAAT
1 ATTAAATATAAT
1858081 A
1 A
1858082 AATATTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
11 18 0.53
12 5 0.15
15 4 0.12
16 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTAAATATAAT
Found at i:1858083 original size:20 final size:20
Alignment explanation
Indices: 1858031--1858085 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
1858021 AGTTAAAAAA
1858031 ATTAAATATAAATTAAAT-AAT
1 ATTAAATAT-AA-TAAATAAAT
*
1858052 -TTTAATAT--TAAATAAAT
1 ATTAAATATAATAAATAAAT
1858069 ATTAAATATAATAAATA
1 ATTAAATATAATAAATA
1858086 TTTAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.18
17 3 0.11
18 7 0.25
20 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTAAATATAATAAATAAAT
Found at i:1858098 original size:17 final size:16
Alignment explanation
Indices: 1858038--1858113 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 16
1858028 AAAATTAAAT
*
1858038 ATAAATTAAATAATTTTA
1 ATAAAATAAAT-A-TTTA
*
1858056 ATATTAAATAAATATTAA
1 ATA--AAATAAATATTTA
*
1858074 ATATAATAAATATTTA
1 ATAAAATAAATATTTA
*
1858090 ATAAAAATATATATTTA
1 AT-AAAATAAATATTTA
*
1858107 ATTAAAT
1 ATAAAAT
1858114 GGTAAATCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
16 17 0.35
17 14 0.29
18 9 0.19
19 1 0.02
20 7 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATAAATATTTA
Found at i:1865533 original size:17 final size:17
Alignment explanation
Indices: 1865511--1865547 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1865501 TGAATATTTA
* *
1865511 AATTCATGAATTTACAT
1 AATTCATAAATGTACAT
1865528 AATTCATAAATGTACAT
1 AATTCATAAATGTACAT
1865545 AAT
1 AAT
1865548 AACATTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (17 bp):
AATTCATAAATGTACAT
Found at i:1866580 original size:24 final size:25
Alignment explanation
Indices: 1866525--1866582 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
1866515 AAAATTCATG
1866525 AATATAAAAATAGAAAACAAAAGAT
1 AATATAAAAATAGAAAACAAAAGAT
*
1866550 AGT-TAAAAATAGAAAA-AAAA-AT
1 AATATAAAAATAGAAAACAAAAGAT
1866572 CAATATAAAAA
1 -AATATAAAAA
1866583 CCATGTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 6 0.21
24 19 0.66
25 2 0.07
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (25 bp):
AATATAAAAATAGAAAACAAAAGAT
Found at i:1866845 original size:19 final size:20
Alignment explanation
Indices: 1866816--1866856 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1866806 CCAAAAAAAC
1866816 ATAATAATTGAAA-TGATAAA
1 ATAATAATTGAAAGT-ATAAA
1866836 ATAA-AATTGAAAGTATAAA
1 ATAATAATTGAAAGTATAAA
1866855 AT
1 AT
1866857 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (20 bp):
ATAATAATTGAAAGTATAAA
Found at i:1867038 original size:20 final size:21
Alignment explanation
Indices: 1867001--1867040 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1866991 GGTTAAAATT
1867001 ATATCTAAAACATAGATAAAA
1 ATATCTAAAACATAGATAAAA
1867022 ATAT-TAAAA-ATATGATAAA
1 ATATCTAAAACATA-GATAAA
1867041 GATACTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 11 0.61
21 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
ATATCTAAAACATAGATAAAA
Found at i:1868851 original size:6 final size:6
Alignment explanation
Indices: 1868840--1868868 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1868830 TATTAATTAT
1868840 TTTTTA TTTTTA TTTTTA -TTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1868869 AATAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:1868855 original size:11 final size:12
Alignment explanation
Indices: 1868840--1868868 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1868830 TATTAATTAT
1868840 TTTTTATTTTTA
1 TTTTTATTTTTA
1868852 TTTTTA-TTTTA
1 TTTTTATTTTTA
1868863 TTTTTA
1 TTTTTA
1868869 AATAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:1869950 original size:15 final size:15
Alignment explanation
Indices: 1869919--1869949 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1869909 TTAACAAGAT
1869919 AATATTAAATATAAA
1 AATATTAAATATAAA
1869934 AATATTAAA-ATAAA
1 AATATTAAATATAAA
1869948 AA
1 AA
1869950 AATAATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATATTAAATATAAA
Found at i:1869950 original size:16 final size:15
Alignment explanation
Indices: 1869919--1869953 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
1869909 TTAACAAGAT
*
1869919 AATATTAAATATAAA
1 AATATTAAATAAAAA
1869934 AATATTAAAATAAAAA
1 AATATT-AAATAAAAA
1869950 AATA
1 AATA
1869954 ATCATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATATTAAATAAAAA
Found at i:1870073 original size:16 final size:16
Alignment explanation
Indices: 1870042--1870106 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
1870032 CATTTTCATA
* *
1870042 TTTAGATTTGAATTAT
1 TTTATATTTAAATTAT
* *
1870058 TTTTTATTTAATTTAT
1 TTTATATTTAAATTAT
1870074 TTTGA-ATTTAAATT-T
1 TTT-ATATTTAAATTAT
1870089 TTTATATTTAAATTAT
1 TTTATATTTAAATTAT
1870105 TT
1 TT
1870107 CAAGTTTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
14 1 0.03
15 13 0.32
16 26 0.65
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTATATTTAAATTAT
Found at i:1870075 original size:31 final size:31
Alignment explanation
Indices: 1870040--1870106 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
1870030 TGCATTTTCA
* * *
1870040 TATTTAG-ATTTGAATTATTTTTTATTTAATT
1 TATTTAGAATTTAAATT-TTTTATATTTAAAT
*
1870071 TATTTTGAATTTAAATTTTTTATATTTAAAT
1 TATTTAGAATTTAAATTTTTTATATTTAAAT
1870102 TATTT
1 TATTT
1870107 CAAGTTTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 23 0.74
32 8 0.26
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (31 bp):
TATTTAGAATTTAAATTTTTTATATTTAAAT
Found at i:1870115 original size:31 final size:30
Alignment explanation
Indices: 1870057--1870115 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
1870047 ATTTGAATTA
* *
1870057 TTTTTTATTTAATTTATTTTGAATTTAAAT
1 TTTTTTATTTAAATTATTTTCAATTTAAAT
1870087 TTTTTATATTTAAATTA-TTTCAAGTTTAA
1 TTTTT-TATTTAAATTATTTTCAA-TTTAA
1870116 GTTTAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTTTTATTTAAATTATTTTCAATTTAAAT
Found at i:1870686 original size:15 final size:15
Alignment explanation
Indices: 1870668--1870701 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1870658 AAAAAAATCA
1870668 TTATTAAAAATTACT
1 TTATTAAAAATTACT
*
1870683 TTATTAAAAATTATT
1 TTATTAAAAATTACT
1870698 TTAT
1 TTAT
1870702 ATAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATTAAAAATTACT
Found at i:1870729 original size:16 final size:16
Alignment explanation
Indices: 1870692--1870736 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1870682 TTTATTAAAA
1870692 ATTATTTTATATAATAT
1 ATTATTTTA-ATAATAT
*
1870709 A-TATTTTAATAATTT
1 ATTATTTTAATAATAT
*
1870724 ATTATTTGAATAA
1 ATTATTTTAATAA
1870737 AAATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 17 0.68
17 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTATTTTAATAATAT
Found at i:1871229 original size:26 final size:27
Alignment explanation
Indices: 1871200--1871260 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
1871190 ATTTTATTTA
1871200 AATTATTATTTAATAATAAAAATA-AT
1 AATTATTATTTAATAATAAAAATATAT
* * *
1871226 AATT-TAAATTTAATTATAAAATTATAT
1 AATTAT-TATTTAATAATAAAAATATAT
*
1871253 AAATATTA
1 AATTATTA
1871261 AAATAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.04
26 19 0.70
27 6 0.22
28 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AATTATTATTTAATAATAAAAATATAT
Found at i:1871256 original size:22 final size:22
Alignment explanation
Indices: 1871223--1871274 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1871213 TAATAAAAAT
* *
1871223 AATAATTTAAAT-TTAATTATAA
1 AATAATATAAATATTAA-AATAA
*
1871245 AATTATATAAATATTAAAATAA
1 AATAATATAAATATTAAAATAA
1871267 AATAATAT
1 AATAATAT
1871275 TTTAATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAATATAAATATTAAAATAA
Found at i:1872091 original size:22 final size:22
Alignment explanation
Indices: 1872051--1872099 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
1872041 AACATCCATT
1872051 TTATTAATTTTAATAATAA-AA
1 TTATTAATTTTAATAATAATAA
*
1872072 TCTATTAA-TTTAGTATATAATAA
1 T-TATTAATTTTAATA-ATAATAA
1872095 TTATT
1 TTATT
1872100 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 7 0.29
22 14 0.58
23 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TTATTAATTTTAATAATAATAA
Found at i:1872728 original size:20 final size:19
Alignment explanation
Indices: 1872705--1872745 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
1872695 TAAATTGATT
1872705 TTAAGAGAAAAAAATATTTA
1 TTAAGA-AAAAAAATATTTA
*
1872725 TTAAGAAATAAAATATTTA
1 TTAAGAAAAAAAATATTTA
1872744 TT
1 TT
1872746 TTTGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
TTAAGAAAAAAAATATTTA
Found at i:1872731 original size:18 final size:19
Alignment explanation
Indices: 1872710--1872745 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1872700 TGATTTTAAG
1872710 AGAAA-AAAATATTTATTA
1 AGAAATAAAATATTTATTA
1872728 AGAAATAAAATATTTATT
1 AGAAATAAAATATTTATT
1872746 TTTGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
AGAAATAAAATATTTATTA
Found at i:1879893 original size:122 final size:122
Alignment explanation
Indices: 1879676--1879917 Score: 475
Period size: 122 Copynumber: 2.0 Consensus size: 122
1879666 ATGCATTGAT
1879676 ATGCTATTAAATTGTATCAATACATAGCTTTCTAATGATCATATTTGTATGTTTAAATGCAATGT
1 ATGCTATTAAATTGTATCAATACATAGCTTTCTAATGATCATATTTGTATGTTTAAATGCAATGT
1879741 ATCGATACCTATGATAATCTTAGTGATAAATTATCATATGAATGAGAATTACATTCA
66 ATCGATACCTATGATAATCTTAGTGATAAATTATCATATGAATGAGAATTACATTCA
1879798 ATGCTATTAAATTGTATCAATACATAGCTTTCTAATGATCATATTTGTATGTTTAAATGCAATGT
1 ATGCTATTAAATTGTATCAATACATAGCTTTCTAATGATCATATTTGTATGTTTAAATGCAATGT
*
1879863 ATCGATACCTATGATAATTTTAGTGATAAATTATCATATGAATGAGAATTACATT
66 ATCGATACCTATGATAATCTTAGTGATAAATTATCATATGAATGAGAATTACATT
1879918 AATAAAGCTT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (122 bp):
ATGCTATTAAATTGTATCAATACATAGCTTTCTAATGATCATATTTGTATGTTTAAATGCAATGT
ATCGATACCTATGATAATCTTAGTGATAAATTATCATATGAATGAGAATTACATTCA
Found at i:1880694 original size:19 final size:19
Alignment explanation
Indices: 1880670--1880715 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
1880660 TTTTTACCCA
1880670 GATGTATCGATACATTTTC
1 GATGTATCGATACATTTTC
1880689 GATGTATCGATACATTTTC
1 GATGTATCGATACATTTTC
*
1880708 AATGTATC
1 GATGTATC
1880716 AATCCATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (19 bp):
GATGTATCGATACATTTTC
Found at i:1885205 original size:21 final size:21
Alignment explanation
Indices: 1885176--1885229 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 21
1885166 AGCCTTTGAC
*
1885176 CATGTATTTTTTATTATGTTT
1 CATGCATTTTTTATTATGTTT
1885197 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTATTATGTTT
1885219 CATGCATTTTT
1 CATGCATTTTT
1885230 AACATGTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.63
Consensus pattern (21 bp):
CATGCATTTTTTATTATGTTT
Found at i:1885210 original size:22 final size:22
Alignment explanation
Indices: 1885182--1885229 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
1885172 TGACCATGTA
1885182 TTTTTTATTATGTTTCATGCAT
1 TTTTTTATTATGTTTCATGCAT
1885204 TTTTTTATTATGTTTCATGCAT
1 TTTTTTATTATGTTTCATGCAT
1885226 TTTT
1 TTTT
1885230 AACATGTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.67
Consensus pattern (22 bp):
TTTTTTATTATGTTTCATGCAT
Found at i:1885236 original size:20 final size:21
Alignment explanation
Indices: 1885176--1885236 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
1885166 AGCCTTTGAC
* **
1885176 CATGTATTTTTTATTATGTTT
1 CATGCATTTTTTAACATGTTT
**
1885197 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
1885219 CATGCA-TTTTTAACATGT
1 CATGCATTTTTTAACATGT
1885237 CCAGCATCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 5 0.14
22 21 0.58
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
CATGCATTTTTTAACATGTTT
Found at i:1891377 original size:23 final size:23
Alignment explanation
Indices: 1891334--1891376 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1891324 CTTCAAAATG
*
1891334 ACAAAAAAGTCAAAAGCAAAAGC
1 ACAAAAAAGTCAAAAGAAAAAGC
*
1891357 ACAAAAAA-TGAAAAGAAAAA
1 ACAAAAAAGTCAAAAGAAAAA
1891377 AAGTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.05
Consensus pattern (23 bp):
ACAAAAAAGTCAAAAGAAAAAGC
Found at i:1892773 original size:27 final size:27
Alignment explanation
Indices: 1892736--1893282 Score: 833
Period size: 27 Copynumber: 20.0 Consensus size: 27
1892726 GTGGCATTTT
* *
1892736 CTTTTGAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1892764 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1892791 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1892818 CTTTTAAGTCTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1892845 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1892873 CTTTTAAGTCCACAACTTCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1892901 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1892928 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1892955 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
1892983 CTTTTAAGACTACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1893010 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
1893037 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1893064 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1893091 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1893118 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1893146 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1893173 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1893200 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1893228 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1893255 CTTTTAAAGTCCATAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1893283 TATTCCAAAG
Statistics
Matches: 480, Mismatches: 34, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
27 330 0.69
28 150 0.31
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1892895 original size:82 final size:82
Alignment explanation
Indices: 1892736--1893282 Score: 855
Period size: 82 Copynumber: 6.7 Consensus size: 82
1892726 GTGGCATTTT
* * *
1892736 CTTTTGAAGTCCACAACTCTGTGGCATCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1892801 CACAACTCCGTGGCA-CC
65 CACAACTCCGTGGCATCC
*
1892818 CTTTTAAGTCTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* *
1892883 CACAACTTCGTGGCATCT
65 CACAACTCCGTGGCATCC
1892901 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1892966 ACAACTCTGTGGCATCC
66 ACAACTCCGTGGCATCC
* * * **
1892983 CTTTTAAGACTACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATTCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1893048 ACAACTCCGTGGCA-CC
66 ACAACTCCGTGGCATCC
*
1893064 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1893129 ACAACTCTGTGGCATCC
66 ACAACTCCGTGGCATCC
* * *
1893146 CTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
1893211 ATAACTCCGTGGCATCT
66 ACAACTCCGTGGCATCC
* * *
1893228 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
1893283 TATTCCAAAG
Statistics
Matches: 429, Mismatches: 32, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
81 117 0.27
82 239 0.56
83 73 0.17
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (82 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCATCC
Found at i:1893321 original size:32 final size:32
Alignment explanation
Indices: 1893275--1893695 Score: 397
Period size: 32 Copynumber: 13.9 Consensus size: 32
1893265 CCATAACTCT
* *
1893275 GTGGC-ACCTATTCCAAAGCCCGCACAAGTCG
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
*
1893306 GTGGCAACCCATTCCAAAGCCCACACAAGTTG
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
*
1893338 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
*
1893370 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
*
1893402 GTGGCAACCCATTCCAAAGCCCACACAAGTCA
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
1893434 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
* *
1893466 GTGGCAACCCATTTCAAAGCCCACACAAGTCA
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
* **
1893498 GTGGC-ACCC-TTTCAAAG-CC-CACAAGTTA
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
* * *
1893526 GTGGC-ACCC-TTTCAGAG-CC-CACAAGTCA
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
* * *
1893554 GTGGC-ACCC-TTTCGAAG-CC-CACAAGTCA
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
* * * *
1893582 GTGGC-A-CCATTGCGAAG-CC-CACAATTCA
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
* * *
1893610 GTGGC-ACTC-TTTCAAAG-CC-CACAAGTCA
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
* ** **
1893638 GTGGC-A-CCTTTTTAAAGCCCACACAAGTTA
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
*
1893668 GTGGC-ACCC-TTTCAAAGCCCACACAAGT
1 GTGGCAACCCATTCCAAAGCCCACACAAGT
1893696 TAGTGGCACT
Statistics
Matches: 358, Mismatches: 25, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
27 3 0.01
28 118 0.33
29 5 0.01
30 40 0.11
31 11 0.03
32 181 0.51
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (32 bp):
GTGGCAACCCATTCCAAAGCCCACACAAGTCG
Found at i:1893365 original size:64 final size:61
Alignment explanation
Indices: 1893275--1893978 Score: 671
Period size: 64 Copynumber: 11.9 Consensus size: 61
1893265 CCATAACTCT
* * * * * **
1893275 GTGGCACCTATTCCAAAGCCCGCACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTTG
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACACAAGTCA
* *
1893338 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACACAAGTCA
* * *
1893402 GTGGCAACCCATTCCAAAGCCCACACAAGTCAGTGGCAACCCATTCCAAAGCCCACACAAGTCG
1 GTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACACAAGTCA
*
1893466 GTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTTA
1 GTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
* *
1893526 GTGGCACCC-TTTCAGAG-CC-CACAAGTCAGTGGCACCCTTTCGAAG-CC-CACAAGTCA
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
* * * *
1893582 GTGGCA-CCATTGCGAAG-CC-CACAATTCAGTGGCACTCTTTCAAAG-CC-CACAAGTCA
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
* * * *
1893638 GTGGCA-CCTTTTTAAAGCCCACACAAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTTA
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
* ** * * *
1893698 GTGGCACTTC-TTTCAAAGCCCATGCAAGTCAATGGCACCTTTTCAAAG-CC-CACGAGTCA
1 GTGGCAC-CCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
* *
1893757 GTGGCACTC-TTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTC-AAG-CC-CACGAGTCA
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
* * *
1893812 GTGGTA-CCTTTTCAAAG-CC-CACGAGTCAGTGGCA-CCTTTCAAAG-CC-CACAAGTCA
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
** * * * *
1893867 GTGGCA-CTTTTTCAAAG-CC-CACGAGTCAGTGGCATCCTTTCAAAGCTCACGCAAGTCA
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
* * * ** *
1893925 ATGGCACCC-TTTTAAAGCCCACGCAAGTCAGTAACACTCTTTTCAAAGCCCACA
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA
1893979 TGTGTTAGTG
Statistics
Matches: 563, Mismatches: 61, Indels: 36
0.85 0.09 0.05
Matches are distributed among these distances:
54 7 0.01
55 90 0.16
56 123 0.22
57 7 0.01
58 60 0.11
59 23 0.04
60 39 0.07
61 47 0.08
62 8 0.01
63 9 0.02
64 150 0.27
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (61 bp):
GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCA
Found at i:1893397 original size:96 final size:92
Alignment explanation
Indices: 1893275--1893978 Score: 616
Period size: 96 Copynumber: 7.9 Consensus size: 92
1893265 CCATAACTCT
* * * * *
1893275 GTGGCACCTATTCCAAAGCCCGCACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTTGGT
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCCATTCCAAAGCCCACACAAGTTAGT
*
1893340 GGCAACCCATTTCAAAGCCCACACAAGTCG
65 GGC-ACCC-TTTCAAAGCCCACACAAGTCA
* *
1893370 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCAG
1 GTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCCATTCCAAAGCCCACACAAGTTAG
* *
1893435 TGGCAACCCATTCCAAAGCCCACACAAGTCG
64 TGGC-ACCC-TTTCAAAGCCCACACAAGTCA
*
1893466 GTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCC-TTTCAAAG-CC-CACAAGTTAGT
1 GTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTCCAAAGCCCACACAAGTTAGT
*
1893528 GGCACCCTTTCAGAG-CC-CACAAGTCA
65 GGCACCCTTTCAAAGCCCACACAAGTCA
* * *
1893554 GTGGCACCC-TTTCGAAG-CC-CACAAGTCAGTGGCA-CCATTGCGAAG-CC-CACAA-TTCAGT
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTCCAAAGCCCACACAAGTT-AGT
*
1893612 GGCACTCTTTCAAAG-CC-CACAAGTCA
65 GGCACCCTTTCAAAGCCCACACAAGTCA
* * * *
1893638 GTGGCA-CCTTTTTAAAGCCCACACAAGTTAGTGGCACCC-TTTCAAAGCCCACACAAGTTAGTG
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTCCAAAGCCCACACAAGTTAGTG
* **
1893701 GCACTTCTTTCAAAGCCCATGCAAGTCA
66 GCAC-CCTTTCAAAGCCCACACAAGTCA
* * * * * *
1893729 ATGGCA-CCTTTTCAAAG-CC-CACGAGTCAGTGGCACTC-TTTCAAAG-CC-CACAAGTCAGTG
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTCCAAAGCCCACACAAGTTAGTG
*
1893788 GCACCCTTTC-AAG-CC-CACGAGTCA
66 GCACCCTTTCAAAGCCCACACAAGTCA
* * * * *
1893812 GTGGTA-CCTTTTCAAAG-CC-CACGAGTCAGTGGCA-CC-TTTCAAAG-CC-CACAAGTCAGTG
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTCCAAAGCCCACACAAGTTAGTG
** *
1893870 GCACTTTTTCAAAG-CC-CACGAGTCA
66 GCACCCTTTCAAAGCCCACACAAGTCA
* * * * ** * * *
1893895 GTGGCATCC-TTTCAAAGCTCACGCAAGTCAATGGCACCC-TTTTAAAGCCCACGCAAGTCAGTA
1 GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTCCAAAGCCCACACAAGTTAGTG
* *
1893958 ACACTCTTTTCAAAGCCCACA
66 GCAC-CCTTTCAAAGCCCACA
1893979 TGTGTTAGTG
Statistics
Matches: 537, Mismatches: 49, Indels: 50
0.84 0.08 0.08
Matches are distributed among these distances:
82 31 0.06
83 71 0.13
84 72 0.13
85 19 0.04
86 41 0.08
87 25 0.05
88 41 0.08
89 46 0.09
90 12 0.02
91 28 0.05
92 13 0.02
93 2 0.00
94 7 0.01
95 9 0.02
96 120 0.22
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (92 bp):
GTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTCCAAAGCCCACACAAGTTAGTG
GCACCCTTTCAAAGCCCACACAAGTCA
Found at i:1893529 original size:28 final size:28
Alignment explanation
Indices: 1892773--1893978 Score: 746
Period size: 28 Copynumber: 42.2 Consensus size: 28
1892763 CTTTTTAAGT
* * * *
1892773 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1892800 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1892827 CTACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1892854 CCACAACTCCGTGGCATCCCTTT-TAAGT
1 CCACAAGTCAGTGGCA-CCCTTTCAAAGC
* * * *
1892882 CCACAACTTC-GTGGCATCTCTTT-TAAGT
1 CCACAA-GTCAGTGGCA-CCCTTTCAAAGC
* * * *
1892910 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1892937 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1892964 CCACAACTCTGTGGCATCCCTTT-TAAGA
1 CCACAAGTCAGTGGCA-CCCTTTCAAAGC
* * * *
1892992 CTACAACTTC-GTGGCACCCTTT-TAAGT
1 CCACAA-GTCAGTGGCACCCTTTCAAAGC
* * ** * *
1893019 CCACAACTCCGTGGCATTCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * ** *
1893046 CCACAACTCCGTGGCA-CCTTTTTAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1893073 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1893100 CCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1893127 CCACAACTCTGTGGCATCCCTTT-TAAGA
1 CCACAAGTCAGTGGCA-CCCTTTCAAAGC
* * * *
1893155 CCACAACTCTGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1893182 CCACAACTCTGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * *
1893209 CCATAACTCCGTGGCATCTCTTT-TAAGT
1 CCACAAGTCAGTGGCA-CCCTTTCAAAGC
* * * *
1893237 CCACAACTCTGTGGCACCCTTTTAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1893265 CCATAACTCTGTGGCA-CCTATTCCAAAGCC
1 CCACAAGTCAGTGGCACCCT-TT-CAAAG-C
* *
1893295 CGCACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
**
1893327 CACACAAGTTGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
1893359 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* *
1893391 CACACAAGTCGGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
1893423 CACACAAGTCAGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
1893455 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
1893487 CACACAAGTCAGTGGCACCCTTTCAAAGC
1 C-CACAAGTCAGTGGCACCCTTTCAAAGC
* *
1893516 CCACAAGTTAGTGGCACCCTTTCAGAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
1893544 CCACAAGTCAGTGGCACCCTTTCGAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1893572 CCACAAGTCAGTGGCACCATTGCGAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1893600 CCACAATTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1893628 CCACAAGTCAGTGGCACCTTTTTAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAG-C
*
1893657 CACACAAGTTAGTGGCACCCTTTCAAAGCC
1 C-CACAAGTCAGTGGCACCCTTTCAAAG-C
* *
1893687 CACACAAGTTAGTGGCACTTCTTTCAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
1893717 CCATGCAAGTCAATGGCACCTTTTCAAAGC
1 CCA--CAAGTCAGTGGCACCCTTTCAAAGC
* *
1893747 CCACGAGTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
1893775 CCACAAGTCAGTGGCACCCTTTC-AAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1893802 CCACGAGTCAGTGGTACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
1893830 CCACGAGTCAGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
**
1893857 CCACAAGTCAGTGGCACTTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
1893885 CCACGAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1893913 TCACGCAAGTCAATGGCACCCTTTTAAAGC
1 -C-CACAAGTCAGTGGCACCCTTTCAAAGC
** *
1893943 CCACGCAAGTCAGTAACACTCTTTTCAAAGC
1 CCA--CAAGTCAGTGGCAC-CCTTTCAAAGC
1893974 CCACA
1 CCACA
1893979 TGTGTTAGTG
Statistics
Matches: 1054, Mismatches: 95, Indels: 58
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.01
27 344 0.33
28 360 0.34
29 18 0.02
30 99 0.09
31 48 0.05
32 175 0.17
33 3 0.00
34 1 0.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCCTTTCAAAGC
Found at i:1893806 original size:55 final size:56
Alignment explanation
Indices: 1892773--1893978 Score: 746
Period size: 55 Copynumber: 21.1 Consensus size: 56
1892763 CTTTTTAAGT
* * * * * * * *
1892773 CCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * * * * *
1892827 CTACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCATCCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGC
* * * * * * * *
1892882 CCACAACTTC-GTGGCATCTCTTT-TAAGTCCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAA-GTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * * * *
1892937 CCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCTGTGGCATCCCTTT-TAAGA
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGC
* * * * * * ** * *
1892992 CTACAACTTC-GTGGCACCCTTT-TAAGTCCACAACTCCGTGGCATTCTTT-TAAGT
1 CCACAA-GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * ** * * * * *
1893046 CCACAACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * * * *
1893100 CCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCTGTGGCATCCCTTT-TAAGA
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGC
* * * * * * * *
1893155 CCACAACTCTGTGGCACCCTTT-TAAGTCCACAACTCTGTGGCACCCTTT-TAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * * * * * *
1893209 CCATAACTCCGTGGCATCTCTTT-TAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1893265 CCATAACTCTGTGGCA-CCTATTCCAAAGCCCGCACAAGTCGGTGGCAACCCATTCCAAAGCC
1 CCACAAGTCAGTGGCACCCT-TT-CAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
** *
1893327 CACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
* * *
1893391 CACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCAGTGGCAACCCATTCCAAAGCC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-C
*
1893455 CACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGC
1 C-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1893516 CCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * *
1893572 CCACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
1893628 CCACAAGTCAGTGGCACCTTTTTAAAGCCCACACAAGTTAGTGGCACCCTTTCAAAGCC
1 CCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAG-C
* * * *
1893687 CACACAAGTTAGTGGCACTTCTTTCAAAGCCCATGCAAGTCAATGGCACCTTTTCAAAGC
1 C-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGC
* *
1893747 CCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
1893802 CCACGAGTCAGTGGTACCTTTTCAAAGCCCACGAGTCAGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
** * *
1893857 CCACAAGTCAGTGGCACTTTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * ** *
1893913 TCACGCAAGTCAATGGCACCCTTTTAAAGCCCACGCAAGTCAGTAACACTCTTTTCAAAGC
1 -C-CACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCAC-CCTTTCAAAGC
1893974 CCACA
1 CCACA
1893979 TGTGTTAGTG
Statistics
Matches: 1019, Mismatches: 95, Indels: 71
0.86 0.08 0.06
Matches are distributed among these distances:
53 7 0.01
54 186 0.18
55 272 0.27
56 175 0.17
57 8 0.01
58 70 0.07
59 37 0.04
60 46 0.05
61 46 0.05
62 8 0.01
63 14 0.01
64 145 0.14
65 4 0.00
66 1 0.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (56 bp):
CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
Found at i:1895604 original size:21 final size:21
Alignment explanation
Indices: 1895575--1895628 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 21
1895565 AGCCTTTGAC
*
1895575 CATGTATTTTTTATTATGTTT
1 CATGCATTTTTTATTATGTTT
1895596 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTATTATGTTT
1895618 CATGCATTTTT
1 CATGCATTTTT
1895629 AACATGTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.63
Consensus pattern (21 bp):
CATGCATTTTTTATTATGTTT
Found at i:1895609 original size:22 final size:22
Alignment explanation
Indices: 1895581--1895628 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
1895571 TGACCATGTA
1895581 TTTTTTATTATGTTTCATGCAT
1 TTTTTTATTATGTTTCATGCAT
1895603 TTTTTTATTATGTTTCATGCAT
1 TTTTTTATTATGTTTCATGCAT
1895625 TTTT
1 TTTT
1895629 AACATGTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.67
Consensus pattern (22 bp):
TTTTTTATTATGTTTCATGCAT
Found at i:1895635 original size:20 final size:21
Alignment explanation
Indices: 1895575--1895635 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
1895565 AGCCTTTGAC
* **
1895575 CATGTATTTTTTATTATGTTT
1 CATGCATTTTTTAACATGTTT
**
1895596 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
1895618 CATGCA-TTTTTAACATGT
1 CATGCATTTTTTAACATGT
1895636 CCAGCATCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 5 0.14
22 21 0.58
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
CATGCATTTTTTAACATGTTT
Found at i:1901258 original size:17 final size:16
Alignment explanation
Indices: 1901236--1901279 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1901226 GCTAGTTGCC
1901236 TATTATTATTGTTATAA
1 TATTATTATTGTT-TAA
*
1901253 TATTATTTTTTGTTTAA
1 TATTA-TTATTGTTTAA
*
1901270 TAATATTATT
1 TATTATTATT
1901280 AGAGTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
TATTATTATTGTTTAA
Found at i:1901358 original size:22 final size:19
Alignment explanation
Indices: 1901314--1901350 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1901304 TTTTAAAATT
*
1901314 AATAAAAGATTATATTGTA
1 AATAAAAGATTATATTATA
*
1901333 AATAAAAGATAATATTAT
1 AATAAAAGATTATATTAT
1901351 TATAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (19 bp):
AATAAAAGATTATATTATA
Found at i:1901650 original size:31 final size:31
Alignment explanation
Indices: 1901612--1901676 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
1901602 TACAATCTTA
**
1901612 AAAATAATTAGACGGTTATAATTTTTAATTT
1 AAAATAATTAGACAATTATAATTTTTAATTT
*
1901643 AAAATAATTAGATAATTATAATTTTTAATTT
1 AAAATAATTAGACAATTATAATTTTTAATTT
1901674 AAA
1 AAA
1901677 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.45
Consensus pattern (31 bp):
AAAATAATTAGACAATTATAATTTTTAATTT
Found at i:1901685 original size:38 final size:36
Alignment explanation
Indices: 1901638--1901716 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 36
1901628 TATAATTTTT
*
1901638 AATTTAAAATAATTAGATAATTATAATTTTTAATTTA
1 AATTTAAAATAATTAGATAATTATAA-TTTAAATTTA
*
1901675 AATTTAAAAATAATTAGATGATTATAATTTAAATTTA
1 AATTT-AAAATAATTAGATAATTATAATTTAAATTTA
1901712 AATTT
1 AATTT
1901717 TATATTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 19 0.49
38 20 0.51
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (36 bp):
AATTTAAAATAATTAGATAATTATAATTTAAATTTA
Found at i:1901747 original size:14 final size:14
Alignment explanation
Indices: 1901702--1901748 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1901692 ATGATTATAA
*
1901702 TTTAAATTTAA-AT
1 TTTAAATTAAATAT
* *
1901715 TTTATATTAAATAA
1 TTTAAATTAAATAT
*
1901729 ATTAAATTAAATAT
1 TTTAAATTAAATAT
1901743 TTTAAA
1 TTTAAA
1901749 ATAATTATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTAAATTAAATAT
Found at i:1902042 original size:21 final size:20
Alignment explanation
Indices: 1902016--1902067 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
1902006 CATAAACACG
*
1902016 TTAATTAATTTAATAATTTT
1 TTAATTAATTTAATAATCTT
**
1902036 TTAAATTAAAATAATAATCTT
1 TT-AATTAATTTAATAATCTT
1902057 TTAA-TAATTTA
1 TTAATTAATTTA
1902068 TTTAAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 17 0.65
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATTAATTTAATAATCTT
Found at i:1902067 original size:29 final size:28
Alignment explanation
Indices: 1902041--1902108 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 28
1902031 ATTTTTTAAA
*
1902041 TTAAAATAATAATCTTTTAATAATTTAT
1 TTAAAATAATAATATTTTAATAATTTAT
*
1902069 TTAAAATTAATATTATTTTAATAATTTAT
1 TTAAAA-TAATAATATTTTAATAATTTAT
1902098 TTAAAA-AATAA
1 TTAAAATAATAA
1902109 ATCAGTATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.11
28 6 0.17
29 26 0.72
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAAAATAATAATATTTTAATAATTTAT
Found at i:1902097 original size:13 final size:13
Alignment explanation
Indices: 1902055--1902099 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
1902045 AATAATAATC
1902055 TTTTAATAATTTA
1 TTTTAATAATTTA
*
1902068 TTTAAAATTAATATTA
1 TTT-TAA-TAAT-TTA
1902084 TTTTAATAATTTA
1 TTTTAATAATTTA
1902097 TTT
1 TTT
1902100 AAAAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 9 0.33
14 6 0.22
15 6 0.22
16 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATAATTTA
Found at i:1902108 original size:16 final size:15
Alignment explanation
Indices: 1902059--1902104 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1902049 ATAATCTTTT
1902059 AATAATTTATTTAAA
1 AATAATTTATTTAAA
* *
1902074 ATTAATATTATTT--T
1 AATAAT-TTATTTAAA
1902088 AATAATTTATTTAAA
1 AATAATTTATTTAAA
1902103 AA
1 AA
1902105 ATAAATCAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 6 0.25
14 5 0.21
15 7 0.29
16 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATTTATTTAAA
Found at i:1904663 original size:35 final size:35
Alignment explanation
Indices: 1904624--1904692 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
1904614 TCTAATCTGA
* *
1904624 TTAAAAATGTAGTTTTTAATATATTCTTGGTTGTT
1 TTAAAAATGTAGTATTTAATATATTCTTGATTGTT
1904659 TTAAAAATGTAGTATTTAATATATTCTTGATTGT
1 TTAAAAATGTAGTATTTAATATATTCTTGATTGT
1904693 CCTATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (35 bp):
TTAAAAATGTAGTATTTAATATATTCTTGATTGTT
Found at i:1909806 original size:26 final size:26
Alignment explanation
Indices: 1909755--1909806 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1909745 CAATCAAAAA
* *
1909755 TTAAAATAATTTGAATTAACTTGATT
1 TTAAAATAATTTAAATTAACTAGATT
1909781 TTAAAATAATTTAAAATTAA-TAGATT
1 TTAAAATAATTT-AAATTAACTAGATT
1909807 CAAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (26 bp):
TTAAAATAATTTAAATTAACTAGATT
Found at i:1909812 original size:26 final size:26
Alignment explanation
Indices: 1909757--1909813 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
1909747 ATCAAAAATT
* * **
1909757 AAAATAATTTGAATTAACTTGATTTT
1 AAAATAATTTAAATTAACTAGATTCA
1909783 AAAATAATTTAAAATTAA-TAGATTCA
1 AAAATAATTT-AAATTAACTAGATTCA
1909809 AAAAT
1 AAAAT
1909814 TTAACTGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (26 bp):
AAAATAATTTAAATTAACTAGATTCA
Found at i:1909966 original size:16 final size:15
Alignment explanation
Indices: 1909942--1909989 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
1909932 TTCGAATTTA
1909942 AAATTATTCAAACAT
1 AAATTATTCAAACAT
1909957 AAATTAATTCAAA-AT
1 AAATT-ATTCAAACAT
*
1909972 CAAATTATTCTAACAT
1 -AAATTATTCAAACAT
1909988 AA
1 AA
1909990 TCTATCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATTCAAACAT
Found at i:1910838 original size:20 final size:21
Alignment explanation
Indices: 1910815--1910866 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
1910805 AAATTATTTT
1910815 AATAAATATTTATTTA-T-TAA
1 AATAAATATTT-TTTAGTATAA
1910835 AAT-AATCATTTTTTAGTATAA
1 AATAAAT-ATTTTTTAGTATAA
1910856 AATTAAATATT
1 AA-TAAATATT
1910867 CATAAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 7 0.26
20 8 0.30
21 5 0.19
22 4 0.15
23 3 0.11
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
AATAAATATTTTTTAGTATAA
Found at i:1911268 original size:20 final size:20
Alignment explanation
Indices: 1911240--1911282 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1911230 TGATAATAAA
*
1911240 TAATAAATTTTTTGATTCAT
1 TAATAAATTTTTTAATTCAT
*
1911260 TAATTAATTTTTTAATTCAT
1 TAATAAATTTTTTAATTCAT
1911280 TAA
1 TAA
1911283 AATATTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TAATAAATTTTTTAATTCAT
Found at i:1911600 original size:2 final size:2
Alignment explanation
Indices: 1911595--1911619 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1911585 GATGTGTGTG
1911595 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1911620 TCTGTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1911752 original size:15 final size:15
Alignment explanation
Indices: 1911732--1911771 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1911722 GGTGCGTTGG
*
1911732 ATTAATTTTAGATCA
1 ATTAATTTAAGATCA
* *
1911747 ATTAATTTAAGTTGA
1 ATTAATTTAAGATCA
1911762 ATTAATTTAA
1 ATTAATTTAA
1911772 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (15 bp):
ATTAATTTAAGATCA
Found at i:1913201 original size:20 final size:19
Alignment explanation
Indices: 1913178--1913226 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
1913168 AATTATTTAT
*
1913178 AAATTTTCATTATTATAGTA
1 AAATTTTCATTATT-TAGAA
*
1913198 AAATTTT-AATATTTAGAA
1 AAATTTTCATTATTTAGAA
*
1913216 AAATATTCATT
1 AAATTTTCATT
1913227 CTAATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
20 7 0.29
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (19 bp):
AAATTTTCATTATTTAGAA
Found at i:1913909 original size:28 final size:27
Alignment explanation
Indices: 1913878--1913974 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 27
1913868 GTAGTTTTGG
1913878 TGTTTTAGTTGAATTTAATTTCTTTTAA
1 TGTTTTAGTTGAATTTAATTT-TTTTAA
* *
1913906 TGTTTTAGGT-AACCTTTAATTTTTTTGA
1 TGTTTTAGTTGAA--TTTAATTTTTTTAA
* * *
1913934 TATTTTAGTTGATTTTTAATTTTTTTTAG
1 TGTTTTAGTTGA-ATTTAA-TTTTTTTAA
*
1913963 TGTTTTAATTGA
1 TGTTTTAGTTGA
1913975 CTTGACTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
27 2 0.04
28 27 0.49
29 26 0.47
ACGTcount: A:0.23, C:0.03, G:0.12, T:0.62
Consensus pattern (27 bp):
TGTTTTAGTTGAATTTAATTTTTTTAA
Found at i:1913986 original size:34 final size:36
Alignment explanation
Indices: 1913942--1914010 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 36
1913932 GATATTTTAG
*
1913942 TTGATTTTTAATT-TTTTTTAG-TGTTTTAATTGAC
1 TTGACTTTTAATTCTTTTTTAGTTGTTTTAATTGAC
*
1913976 TTGACTTTTAATTCTTTTTTAGTTTTTTTAATTGA
1 TTGACTTTTAATTCTTTTTTAGTTGTTTTAATTGA
1914011 TGTTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 12 0.39
35 8 0.26
36 11 0.35
ACGTcount: A:0.20, C:0.04, G:0.10, T:0.65
Consensus pattern (36 bp):
TTGACTTTTAATTCTTTTTTAGTTGTTTTAATTGAC
Found at i:1914033 original size:28 final size:29
Alignment explanation
Indices: 1913920--1914048 Score: 109
Period size: 28 Copynumber: 4.3 Consensus size: 29
1913910 TTAGGTAACC
* * *
1913920 TTTAATTTTTTTGA-TATTTTAGTTGATT
1 TTTAATTTTTTTTAGTATTTTAATTGATG
*
1913948 TTTAATTTTTTTTAGTGTTTTAATTGACTTG
1 TTTAATTTTTTTTAGTATTTTAATTGA--TG
*
1913979 ACTTTTAATTCTTTTTTAGTTTTTTTAATTGATG
1 ---TTTAATT-TTTTTTAG-TATTTTAATTGATG
* * *
1914013 TTTAATTTTTTTTA-TAATTTAGTTGATT
1 TTTAATTTTTTTTAGTATTTTAATTGATG
1914041 TTTAATTT
1 TTTAATTT
1914049 CTTAATTTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
28 31 0.37
29 10 0.12
30 7 0.08
31 8 0.10
34 9 0.11
35 8 0.10
36 11 0.13
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (29 bp):
TTTAATTTTTTTTAGTATTTTAATTGATG
Found at i:1915488 original size:21 final size:20
Alignment explanation
Indices: 1915462--1915505 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
1915452 AATTTAAAAA
1915462 TTTAAAAGTAGAGAAG-TATTT
1 TTTAAAA-T-GAGAAGTTATTT
*
1915483 TTTAAAATGAGTAGTTATTT
1 TTTAAAATGAGAAGTTATTT
1915503 TTT
1 TTT
1915506 TGGTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (20 bp):
TTTAAAATGAGAAGTTATTT
Found at i:1915975 original size:10 final size:10
Alignment explanation
Indices: 1915956--1916015 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
1915946 TTTATTTAGA
*
1915956 TTTAACTATT
1 TTTAATTATT
*
1915966 TTTAGTTATTT
1 TTTAATTA-TT
*
1915977 TTTAATTAAT
1 TTTAATTATT
*
1915987 TTTATTTATT
1 TTTAATTATT
*
1915997 TTT-TTTATAT
1 TTTAATTAT-T
1916007 TTTAATTAT
1 TTTAATTAT
1916016 ATTATTATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
9 5 0.12
10 22 0.55
11 13 0.32
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTAATTATT
Found at i:1915980 original size:21 final size:21
Alignment explanation
Indices: 1915956--1916000 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1915946 TTTATTTAGA
*
1915956 TTTAACTATTTTTAGTTATTT
1 TTTAACTAATTTTAGTTATTT
* *
1915977 TTTAATTAATTTTATTTATTT
1 TTTAACTAATTTTAGTTATTT
1915998 TTT
1 TTT
1916001 TTATATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTAACTAATTTTAGTTATTT
Found at i:1916016 original size:11 final size:11
Alignment explanation
Indices: 1915956--1916018 Score: 53
Period size: 11 Copynumber: 6.1 Consensus size: 11
1915946 TTTATTTAGA
*
1915956 TTTAACTAT-T
1 TTTAATTATAT
* *
1915966 TTTAGTTATTT
1 TTTAATTATAT
1915977 TTTAATTA-AT
1 TTTAATTATAT
1915987 TTT-ATT-TAT
1 TTTAATTATAT
**
1915996 TTTTTTTATAT
1 TTTAATTATAT
1916007 TTTAATTATAT
1 TTTAATTATAT
1916018 T
1 T
1916019 ATTATTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
9 8 0.19
10 13 0.31
11 21 0.50
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTAATTATAT
Found at i:1925614 original size:16 final size:16
Alignment explanation
Indices: 1925582--1925635 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
1925572 AAACCGATCA
*
1925582 ACCCGAAACCTGAAATG
1 ACCCG-AACCCGAAATG
*
1925599 ACCCGAACTCGAAATG
1 ACCCGAACCCGAAATG
* *
1925615 ATCTGAACCCGAAATG
1 ACCCGAACCCGAAATG
1925631 ACCCG
1 ACCCG
1925636 GACAATTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 25 0.83
17 5 0.17
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (16 bp):
ACCCGAACCCGAAATG
Found at i:1925653 original size:23 final size:23
Alignment explanation
Indices: 1925623--1925678 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1925613 TGATCTGAAC
1925623 CCGAAATGACCCGGACAATTAAT
1 CCGAAATGACCCGGACAATTAAT
**
1925646 CCGAAATGACCCGGGTAATTAAT
1 CCGAAATGACCCGGACAATTAAT
*
1925669 TCGAAATGAC
1 CCGAAATGAC
1925679 TCGAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (23 bp):
CCGAAATGACCCGGACAATTAAT
Found at i:1926502 original size:16 final size:16
Alignment explanation
Indices: 1926473--1926578 Score: 83
Period size: 16 Copynumber: 6.6 Consensus size: 16
1926463 TAAACTCTAT
* *
1926473 TGACTTGAATCCGAAA
1 TGACTCGAACCCGAAA
1926489 TGACTCGAACCCGAAA
1 TGACTCGAACCCGAAA
*
1926505 TGACTTGAACCCGAAA
1 TGACTCGAACCCGAAA
*
1926521 TGA-TCCGAACCTGAAA
1 TGACT-CGAACCCGAAA
* **
1926537 TAAC-CTGAACTTGAAA
1 TGACTC-GAACCCGAAA
1926553 TGAC-CTGAACCCGAAAA
1 TGACTC-GAACCCG-AAA
*
1926570 TGACCCGAA
1 TGACTCGAA
1926579 AATTTTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
15 2 0.03
16 62 0.83
17 10 0.13
18 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (16 bp):
TGACTCGAACCCGAAA
Found at i:1926519 original size:32 final size:32
Alignment explanation
Indices: 1926473--1926573 Score: 107
Period size: 32 Copynumber: 3.1 Consensus size: 32
1926463 TAAACTCTAT
*
1926473 TGACTTGAATCCGAAATGACTCGAACCCGAAA
1 TGACTTGAACCCGAAATGACTCGAACCCGAAA
*
1926505 TGACTTGAACCCGAAATGA-TCCGAACCTGAAA
1 TGACTTGAACCCGAAATGACT-CGAACCCGAAA
* * **
1926537 TAACCTGAACTTGAAATGAC-CTGAACCCGAAAA
1 TGACTTGAACCCGAAATGACTC-GAACCCG-AAA
1926570 TGAC
1 TGAC
1926574 CCGAAAATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
31 2 0.04
32 49 0.86
33 6 0.11
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (32 bp):
TGACTTGAACCCGAAATGACTCGAACCCGAAA
Found at i:1939295 original size:27 final size:25
Alignment explanation
Indices: 1939230--1939297 Score: 64
Period size: 27 Copynumber: 2.6 Consensus size: 25
1939220 AGTGGATTAG
* * *
1939230 TAAATAGATATAATTATAAATTTTT
1 TAAATATATATTATTATAAATTTTA
* *
1939255 TAAAAAATAAATTATTAATATAATTTTA
1 T-AAATATATATTATT-ATA-AATTTTA
1939283 TAAATATATATTATT
1 TAAATATATATTATT
1939298 TGTTTTGTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.30
27 15 0.45
28 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (25 bp):
TAAATATATATTATTATAAATTTTA
Found at i:1940287 original size:14 final size:14
Alignment explanation
Indices: 1940268--1940294 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1940258 GTACTTTTAT
1940268 ATTTAAAAAATTAA
1 ATTTAAAAAATTAA
1940282 ATTTAAAAAATTA
1 ATTTAAAAAATTA
1940295 CTTATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTTAAAAAATTAA
Found at i:1943067 original size:22 final size:19
Alignment explanation
Indices: 1943042--1943085 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
1943032 GTAATTATAA
1943042 TATAATATTATAATCATTATTT
1 TATAAT-TT-TAAT-ATTATTT
*
1943064 TATAATTTTAATATTTTTT
1 TATAATTTTAATATTATTT
1943083 TAT
1 TAT
1943086 CGATATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 2 0.10
22 6 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TATAATTTTAATATTATTT
Found at i:1945226 original size:21 final size:22
Alignment explanation
Indices: 1945196--1945240 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1945186 GATCAATGAT
*
1945196 AATTTTAATA-TAAAAATATTA
1 AATTTAAATATTAAAAATATTA
*
1945217 AATTTAAATATTAAAATTATTA
1 AATTTAAATATTAAAAATATTA
1945239 AA
1 AA
1945241 AATATGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAATATTAAAAATATTA
Found at i:1946006 original size:22 final size:22
Alignment explanation
Indices: 1945981--1946023 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1945971 TATTAACAAA
1945981 TTATTTTTAT-ATTAATATTTAT
1 TTATTTTTATAATTAA-ATTTAT
1946003 TTATTTTTATAATTAAATTTA
1 TTATTTTTATAATTAAATTTA
1946024 AATAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTATTTTTATAATTAAATTTAT
Done.