Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 17 of 168
Found at i:4668244 original size:9 final size:9
Alignment explanation
Indices: 4668225--4668631 Score: 262
Period size: 9 Copynumber: 46.2 Consensus size: 9
4668215 AATTTAATAT
*
4668225 ATAATTTAC
1 ATAACTTAC
*
4668234 ATAACTCAC
1 ATAACTTAC
4668243 ATAACTTAC
1 ATAACTTAC
* * *
4668252 AAAAGTCAC
1 ATAACTTAC
*
4668261 AT-ACATAC
1 ATAACTTAC
4668269 ATAACTTAC
1 ATAACTTAC
*
4668278 ATAACCTAC
1 ATAACTTAC
4668287 ATAA--TAC
1 ATAACTTAC
*
4668294 ATAACCTAC
1 ATAACTTAC
*
4668303 ATAACTTAT
1 ATAACTTAC
4668312 ATAACTTAC
1 ATAACTTAC
4668321 ATAA--TAC
1 ATAACTTAC
*
4668328 ATAACTTAA
1 ATAACTTAC
*
4668337 ATAA-ATAC
1 ATAACTTAC
4668345 ATAACTTAC
1 ATAACTTAC
4668354 ATAA--TAC
1 ATAACTTAC
*
4668361 ATAACTTAT
1 ATAACTTAC
*
4668370 AT-A-GTAC
1 ATAACTTAC
4668377 ATAACTTAC
1 ATAACTTAC
4668386 ATAATAACTTAC
1 ---ATAACTTAC
* *
4668398 ATAGCTTAT
1 ATAACTTAC
4668407 ATAACTTAC
1 ATAACTTAC
*
4668416 ATAACTTAT
1 ATAACTTAC
4668425 ATAACTTAC
1 ATAACTTAC
4668434 ATAA--TAC
1 ATAACTTAC
4668441 ATAACTTAC
1 ATAACTTAC
*
4668450 ATAATTTAC
1 ATAACTTAC
*
4668459 TTAA--TAC
1 ATAACTTAC
*
4668466 ATAA-TCAAC
1 ATAACT-TAC
*
4668475 ATATATTATATC
1 ATA-ACT-TA-C
*
4668487 TTAACTTAC
1 ATAACTTAC
4668496 ATAATAACTTAC
1 ---ATAACTTAC
* *
4668508 ATAGCTTAT
1 ATAACTTAC
4668517 ATAACTTAC
1 ATAACTTAC
4668526 ATAA--TAC
1 ATAACTTAC
*
4668533 ATAACCTAC
1 ATAACTTAC
*
4668542 ATAACTTAT
1 ATAACTTAC
4668551 ATAACTTAC
1 ATAACTTAC
*
4668560 ATAA--TAT
1 ATAACTTAC
4668567 ATAACTTAC
1 ATAACTTAC
* **
4668576 ATATCTTTT
1 ATAACTTAC
*
4668585 ATAATATATAC
1 ATAA-CT-TAC
*
4668596 ATAACTTGC
1 ATAACTTAC
*
4668605 ATAATTTAC
1 ATAACTTAC
*
4668614 TTAA--TAC
1 ATAACTTAC
4668621 ATAACTTAC
1 ATAACTTAC
4668630 AT
1 AT
4668632 TGAGAAAAAT
Statistics
Matches: 307, Mismatches: 60, Indels: 62
0.72 0.14 0.14
Matches are distributed among these distances:
7 57 0.19
8 13 0.04
9 203 0.66
10 5 0.02
11 9 0.03
12 20 0.07
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAACTTAC
Found at i:4668296 original size:16 final size:16
Alignment explanation
Indices: 4668219--4668578 Score: 235
Period size: 16 Copynumber: 22.1 Consensus size: 16
4668209 TATTTTAATT
* *
4668219 TAATATATAATTTACA
1 TAATACATAACTTACA
4668235 TAACTCACATAACTTACA
1 TAA-T-ACATAACTTACA
* *
4668253 AAAGTCACAT-ACATACA
1 TAA-T-ACATAACTTACA
*
4668270 TAACTTACATAACCTACA
1 TAA--TACATAACTTACA
*
4668288 TAATACATAACCTACA
1 TAATACATAACTTACA
*
4668304 TAACTTATATAACTTACA
1 TAA--TACATAACTTACA
*
4668322 TAATACATAACTTAAA
1 TAATACATAACTTACA
4668338 TAAATACATAACTTACA
1 T-AATACATAACTTACA
*
4668355 TAATACATAACTTATA
1 TAATACATAACTTACA
*
4668371 TAGTACATAACTTAC-
1 TAATACATAACTTACA
4668386 --ATA-ATAACTTACA
1 TAATACATAACTTACA
* *
4668399 TAGCTTATATAACTTACA
1 TA--ATACATAACTTACA
*
4668417 TAACTTATATAACTTACA
1 TAA--TACATAACTTACA
4668435 TAATACATAACTTACA
1 TAATACATAACTTACA
*
4668451 TAAT---TTACTTA-A
1 TAATACATAACTTACA
* *
4668463 TACATA-ATCAACATATA
1 TA-ATACAT-AACTTACA
* *
4668480 TTATATCTTAACTTAC-
1 TAATA-CATAACTTACA
4668496 --ATA-ATAACTTACA
1 TAATACATAACTTACA
* *
4668509 TAGCTTATATAACTTACA
1 TA--ATACATAACTTACA
*
4668527 TAATACATAACCTACA
1 TAATACATAACTTACA
*
4668543 TAACTTATATAACTTACA
1 TAA--TACATAACTTACA
*
4668561 TAATATATAACTTACA
1 TAATACATAACTTACA
4668577 TA
1 TA
4668579 TCTTTTATAA
Statistics
Matches: 280, Mismatches: 34, Indels: 60
0.75 0.09 0.16
Matches are distributed among these distances:
12 20 0.07
13 10 0.04
14 3 0.01
15 1 0.00
16 110 0.39
17 39 0.14
18 97 0.35
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (16 bp):
TAATACATAACTTACA
Found at i:4668303 original size:25 final size:25
Alignment explanation
Indices: 4668231--4668578 Score: 194
Period size: 25 Copynumber: 14.0 Consensus size: 25
4668221 ATATATAATT
* *
4668231 TACATAACTCACATAACTTACAAAA
1 TACATAACTTACATAACTTACATAA
*
4668256 GTCACAT-ACATACATAACTTACATAA
1 -T-ACATAACTTACATAACTTACATAA
*
4668282 CCTACATAA--TACATAACCTACATAA
1 --TACATAACTTACATAACTTACATAA
*
4668307 CTTATATAACTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
* *
4668332 CTTAAATAA-ATACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* * *
4668358 TACATAACTTATATAGTACATAACTTACA
1 TACATAACTTACATA--AC-TTACATA-A
* *
4668387 TA-ATAACTTACATAGCTTATATAA
1 TACATAACTTACATAACTTACATAA
*
4668411 CTTACATAACTTATATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* *
4668438 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
*
4668463 TACATAA-TCAACATATA-TT--AT-A
1 TACATAACT-TACATA-ACTTACATAA
* *
4668485 T-CTTAACTTACATAA-TAAC-T--
1 TACATAACTTACATAACTTACATAA
* *
4668505 TACATAGCTTATATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
4668530 TACATAACCTACATAACTTATATAA
1 TACATAACTTACATAACTTACATAA
*
4668555 CTTACATAA--TATATAACTTACATA
1 --TACATAACTTACATAACTTACATA
4668579 TCTTTTATAA
Statistics
Matches: 255, Mismatches: 40, Indels: 55
0.73 0.11 0.16
Matches are distributed among these distances:
20 3 0.01
21 21 0.08
22 6 0.02
23 2 0.01
24 15 0.06
25 116 0.45
26 32 0.13
27 41 0.16
28 16 0.06
29 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:4668588 original size:34 final size:34
Alignment explanation
Indices: 4668219--4668588 Score: 287
Period size: 34 Copynumber: 10.8 Consensus size: 34
4668209 TATTTTAATT
* * * *
4668219 TAATATATAATTTACATAACTCACATAACTTACA
1 TAATACATAACTTACATAACTTATATAACTTACA
* * * *
4668253 AAAGTCACAT-ACATACATAACTTACATAACCTACA
1 TAA-T-ACATAACTTACATAACTTATATAACTTACA
*
4668288 TAATACATAACCTACATAACTTATATAACTTACA
1 TAATACATAACTTACATAACTTATATAACTTACA
* * *
4668322 TAATACATAACTTAAATAA-ATACATAACTTACA
1 TAATACATAACTTACATAACTTATATAACTTACA
* * *
4668355 TAATACATAACTTATAT-A-GTACATAACTTAC-
1 TAATACATAACTTACATAACTTATATAACTTACA
*
4668386 --ATA-ATAACTTACATAGCTTATATAACTTACA
1 TAATACATAACTTACATAACTTATATAACTTACA
* *
4668417 TAACTTATATAACTTACATAA--TACATAACTTACA
1 TAA--TACATAACTTACATAACTTATATAACTTACA
* * * *
4668451 TAATTTACTTAATACATA-ATCAACATATATTATATCTTAACT
1 TAA--TACAT-A-ACTTACAT-AAC-T-TA-TATAACTT-ACA
*
4668493 TACATA-ATAACTTACATAGCTTATATAACTTACA
1 TA-ATACATAACTTACATAACTTATATAACTTACA
*
4668527 TAATACATAACCTACATAACTTATATAACTTACA
1 TAATACATAACTTACATAACTTATATAACTTACA
* * *
4668561 TAATATATAACTTACATATCTTTTATAA
1 TAATACATAACTTACATAACTTATATAA
4668589 TATATACATA
Statistics
Matches: 273, Mismatches: 40, Indels: 46
0.76 0.11 0.13
Matches are distributed among these distances:
28 10 0.04
29 3 0.01
30 11 0.04
32 13 0.05
33 36 0.13
34 115 0.42
35 36 0.13
36 23 0.08
37 1 0.00
38 6 0.02
39 3 0.01
40 3 0.01
41 8 0.03
42 4 0.01
43 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (34 bp):
TAATACATAACTTACATAACTTATATAACTTACA
Found at i:4668616 original size:110 final size:109
Alignment explanation
Indices: 4668294--4668609 Score: 324
Period size: 110 Copynumber: 2.9 Consensus size: 109
4668284 TACATAATAC
* * * *
4668294 ATAACCTACATAACTTATATAACTTACATAATACATAACTTAAATAA-ATACATAACTTACATAA
1 ATAACTTACATAAC-TACATAACCTACATAATACATAACTTACATAATATAC-TAA--TACATAA
*
4668358 T--ACATAACTTATATAGTACATAACTTACATAATAACTTACATAGCTTAT
62 TCAACAT-A-TAATATA-TACATAACTTACATAATAACTTACATAGCTTAT
* * *
4668407 ATAACTTACATAACTTATATAACTTACATAATACATAACTTACATAATTTACTTAATACATAATC
1 ATAACTTACATAAC-TACATAACCTACATAATACATAACTTACATAATATAC-TAATACATAATC
* *
4668472 AACATATATTATAT-CTTAACTTACATAATAACTTACATAGCTTAT
64 AACATATAATATATACATAACTTACATAATAACTTACATAGCTTAT
*
4668517 ATAACTTACATAA-TACATAACCTACATAACTTATATAACTTACATAATATA-TAACTTACAT-A
1 ATAACTTACATAACTACATAACCTACATAA--TACATAACTTACATAATATACTAA--TACATAA
*** *
4668579 TC-TTTTATAATATATACATAACTTGCATAAT
62 TCAACATATAATATATACATAACTTACATAAT
4668610 TTACTTAATA
Statistics
Matches: 178, Mismatches: 17, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
108 26 0.15
109 16 0.09
110 66 0.37
111 1 0.01
112 13 0.07
113 46 0.26
114 10 0.06
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.36
Consensus pattern (109 bp):
ATAACTTACATAACTACATAACCTACATAATACATAACTTACATAATATACTAATACATAATCAA
CATATAATATATACATAACTTACATAATAACTTACATAGCTTAT
Found at i:4670662 original size:21 final size:21
Alignment explanation
Indices: 4670638--4670725 Score: 122
Period size: 21 Copynumber: 4.2 Consensus size: 21
4670628 AACTTAAAGG
*
4670638 AGAGGCAGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
*
4670659 AGAGGCGGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
* *
4670680 AGCGGCTGCAGCAAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
* *
4670701 AGAGGCTGCAGCGAGAGAAGT
1 AGAGGCTGCAGCGAGGGAAGC
4670722 AGAG
1 AGAG
4670726 CAGAGCAGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.32, C:0.18, G:0.47, T:0.03
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGGGAAGC
Found at i:4671179 original size:86 final size:85
Alignment explanation
Indices: 4671086--4671289 Score: 257
Period size: 86 Copynumber: 2.4 Consensus size: 85
4671076 TTTGTGAATA
** * *
4671086 AAGCGCCGCTAACA-ATCATGTTCTTTATTGGCGTTTTTTCTGAAGCACCGCTAAAGAACATGAT
1 AAGCGCCGCTAA-AGATCATGTTCTTTAGCGGCGTTTTTTATCAAGCACCGCTAAAGAACATGAT
* * * ***
4671150 CTTTAGCGGCGTTTTTTTTTTG
65 CTTCAACGGCG-TCTTTTTCAC
* * *
4671172 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATCAAGCACCGTTAAAGAACATGATC
1 AAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTATCAAGCACCGCTAAAGAACATGATC
4671237 TTCAACGGCGTCTTTTTCAC
66 TTCAACGGCGTCTTTTTCAC
*
4671257 AAGCGCCGCTAAAGATCATGTTCTTTAACGGCG
1 AAGCGCCGCTAAAGATCATGTTCTTTAGCGGCG
4671290 CTTGAAAAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
85 37 0.37
86 64 0.63
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (85 bp):
AAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTATCAAGCACCGCTAAAGAACATGATC
TTCAACGGCGTCTTTTTCAC
Found at i:4671181 original size:44 final size:42
Alignment explanation
Indices: 4671086--4671289 Score: 212
Period size: 42 Copynumber: 4.8 Consensus size: 42
4671076 TTTGTGAATA
* * ** *
4671086 AAGCGCCGCTAACA-ATCATGTTCTTTATTGGCGTTTTTTCTG
1 AAGCGCCGCTAA-AGAACATGATCTTTAACGGCGTTTTTTCTC
* * * *
4671128 AAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTTTG
1 AAGCGCCGCTAAAGAACATGATCTTTAACGGCG--TTTTTTCTC
* *
4671172 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATC
1 AAGCGCCGCTAAAGAACATGATCTTTAACGGCGTTTTTTCTC
* * * *
4671214 AAGCACCGTTAAAGAACATGATCTTCAACGGCGTCTTTTTCAC
1 AAGCGCCGCTAAAGAACATGATCTTTAACGGCGT-TTTTTCTC
* *
4671257 AAGCGCCGCTAAAGATCATGTTCTTTAACGGCG
1 AAGCGCCGCTAAAGAACATGATCTTTAACGGCG
4671290 CTTGAAAAAA
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 63 0.46
43 34 0.25
44 40 0.29
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAACGGCGTTTTTTCTC
Found at i:4671308 original size:43 final size:42
Alignment explanation
Indices: 4671260--4671361 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 42
4671250 TTTTCACAAG
4671260 CGCCGCTAAAGATCATGTTCTTTAACGGCGCTTGAAAAAAAAA
1 CGCCGCTAAAGATCATGTTCTTTAACGGCGCTT-AAAAAAAAA
* * * * *
4671303 GGCCGCTAAAGATCATATTCTTTAGCGGCGCTTAAGAGAAAA
1 CGCCGCTAAAGATCATGTTCTTTAACGGCGCTTAAAAAAAAA
4671345 CGCCGCTAAAGATCATG
1 CGCCGCTAAAGATCATG
4671362 ACCTTTAGCG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 22 0.42
43 30 0.58
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
CGCCGCTAAAGATCATGTTCTTTAACGGCGCTTAAAAAAAAA
Found at i:4671368 original size:42 final size:43
Alignment explanation
Indices: 4671260--4671373 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 43
4671250 TTTTCACAAG
* *
4671260 CGCCGCTAAAGATCATGTTCTTTAACGGCGCTTGAAAAAAAAA
1 CGCCGCTAAAGATCATGATCTTTAGCGGCGCTTGAAAAAAAAA
* * *
4671303 GGCCGCTAAAGATCAT-ATTCTTTAGCGGCGCTT-AAGAGAAAA
1 CGCCGCTAAAGATCATGA-TCTTTAGCGGCGCTTGAAAAAAAAA
*
4671345 CGCCGCTAAAGATCATGACCTTTAGCGGC
1 CGCCGCTAAAGATCATGATCTTTAGCGGC
4671374 ATTTTTTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 32 0.52
43 30 0.48
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAGATCATGATCTTTAGCGGCGCTTGAAAAAAAAA
Found at i:4680526 original size:19 final size:19
Alignment explanation
Indices: 4680504--4680553 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
4680494 ATTTTAAAAT
4680504 AATTCAAAATAATTTTCAA
1 AATTCAAAATAATTTTCAA
* *
4680523 AATTTCAAAATATTTTTTAA
1 AA-TTCAAAATAATTTTCAA
*
4680543 ATTTCAAAATA
1 AATTCAAAATA
4680554 TTTATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTCAAAATAATTTTCAA
Found at i:4680531 original size:20 final size:19
Alignment explanation
Indices: 4680493--4680562 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 19
4680483 TCTCAACAAA
4680493 AATTTTAAAATAATTCAAAAT
1 AATTTTAAAAT--TTCAAAAT
4680514 AATTTTCAAAATTTCAAAAT
1 AATTTT-AAAATTTCAAAAT
* *
4680534 ATTTTTTAAATTTCAAAAT
1 AATTTTAAAATTTCAAAAT
4680553 -ATTTATAAAA
1 AATTT-TAAAA
4680563 AAACCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.07
19 16 0.37
20 13 0.30
21 6 0.14
22 5 0.12
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTTAAAATTTCAAAAT
Found at i:4689475 original size:43 final size:43
Alignment explanation
Indices: 4689409--4689534 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
4689399 AGTTCGTACA
* * *
4689409 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATACCG
1 ATGCCGACATCCCAGACGTGGTCTTACATGTAAACACATACCG
* * * **
4689452 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGTAAACACAGGCCG
1 ATGCCGAC-ATCCCAGAC-GTGGTCTTACATGTAAACACATACCG
*
4689495 ATGCCGACATCCCAGACGTGGTCTTACATGAAAACACATA
1 ATGCCGACATCCCAGACGTGGTCTTACATGTAAACACATA
4689535 TCGGAGTCCT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 3 0.04
43 62 0.91
44 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (43 bp):
ATGCCGACATCCCAGACGTGGTCTTACATGTAAACACATACCG
Found at i:4690479 original size:27 final size:27
Alignment explanation
Indices: 4690417--4690467 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
4690407 CTTTTAATGT
4690417 TTATTATAACATATTAATATATTATAC
1 TTATTATAACATATTAATATATTATAC
4690444 TTATTATAACAT-TT-ATATATTATA
1 TTATTATAACATATTAATATATTATA
4690468 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.42
26 2 0.08
27 12 0.50
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (27 bp):
TTATTATAACATATTAATATATTATAC
Found at i:4709622 original size:3 final size:3
Alignment explanation
Indices: 4709614--4709642 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4709604 ATTTTCACCA
4709614 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4709643 TTGTGTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4709687 original size:15 final size:16
Alignment explanation
Indices: 4709659--4709688 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4709649 CATAATTAAA
4709659 TTAATTTATAAATATT
1 TTAATTTATAAATATT
4709675 TTAATTT-TAAATAT
1 TTAATTTATAAATAT
4709689 CTAAGTGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAATTTATAAATATT
Found at i:4715408 original size:3 final size:3
Alignment explanation
Indices: 4715402--4715440 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
4715392 ATAGTAGTAG
4715402 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA GTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
4715441 AGTAATAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4715441 original size:9 final size:9
Alignment explanation
Indices: 4715408--4715457 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
4715398 GTAGTAATAA
4715408 TAATAATAA-
1 TAATAA-AAG
4715417 TAATAATAA-
1 TAATAA-AAG
4715426 TAATAAAAG
1 TAATAAAAG
4715435 TAAT-AAAG
1 TAATAAAAG
*
4715443 TAATAAAGG
1 TAATAAAAG
4715452 TAATAA
1 TAATAA
4715458 TACTATAGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
8 10 0.26
9 28 0.74
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (9 bp):
TAATAAAAG
Found at i:4716790 original size:16 final size:16
Alignment explanation
Indices: 4716769--4716815 Score: 76
Period size: 18 Copynumber: 2.8 Consensus size: 16
4716759 GCTTTGTACA
4716769 AGAGGCGTAATGGAAT
1 AGAGGCGTAATGGAAT
4716785 AGAGGCGCGTAATGGAAT
1 AGA-G-GCGTAATGGAAT
4716803 AGAGGCGTAATGG
1 AGAGGCGTAATGG
4716816 CAAATCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.41
17 2 0.07
18 15 0.52
ACGTcount: A:0.34, C:0.09, G:0.40, T:0.17
Consensus pattern (16 bp):
AGAGGCGTAATGGAAT
Found at i:4717054 original size:15 final size:14
Alignment explanation
Indices: 4717024--4717062 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
4717014 AATTTAATCA
4717024 TATT-TTAACATAAT
1 TATTATTAA-ATAAT
4717038 TATTATTAAATATAT
1 TATTATTAAATA-AT
4717053 TATTATTAAA
1 TATTATTAAA
4717063 AAATATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTATTAAATAAT
Found at i:4717200 original size:16 final size:18
Alignment explanation
Indices: 4717165--4717200 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4717155 AATTATTATT
*
4717165 AAATATATTTTAATTAAA
1 AAATATAATTTAATTAAA
4717183 AAATATAATTTAA-TAAA
1 AAATATAATTTAATTAAA
4717200 A
1 A
4717201 TTCTTAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAATTTAATTAAA
Found at i:4717240 original size:120 final size:120
Alignment explanation
Indices: 4717027--4717322 Score: 490
Period size: 120 Copynumber: 2.5 Consensus size: 120
4717017 TTAATCATAT
*
4717027 TTTAACATAATTATTATTAAATATATTATT-ATTAAAAAATATAATTTAATGAAATTCTTAATAA
1 TTTAACATAATTATTATTAAATATATT-TTAATTAAAAAATATAATTTAATAAAATTCTTAATAA
* *
4717091 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
65 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
4717147 TTTAACATAATTATTATTAAATATATTTTAATTAAAAAATATAATTTAATAAAATTCTTAATCAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAAAATATAATTTAATAAAATTCTTAATAAT
4717212 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
4717267 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATAA-ATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAA-AATATAATTTAATAAAATT
4717323 TAAAATAATT
Statistics
Matches: 167, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
119 2 0.01
120 161 0.96
121 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAAAATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:4717415 original size:73 final size:73
Alignment explanation
Indices: 4717338--4717474 Score: 229
Period size: 73 Copynumber: 1.9 Consensus size: 73
4717328 TAATTATAAC
* * *
4717338 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTCATAAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAA
4717403 ATTCTTGA
66 ATTCTTGA
* *
4717411 TAATAATTTTTCTTATATGAATTTATATCATTTAAAATAATTAATATTAAATATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
4717475 TGATATATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (73 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAA
ATTCTTGA
Found at i:4717450 original size:34 final size:34
Alignment explanation
Indices: 4717339--4717452 Score: 104
Period size: 34 Copynumber: 3.2 Consensus size: 34
4717329 AATTATAACT
* *
4717339 AATAAATTTTCTTATATGAATTTGTATAATTTAA
1 AATAATTTTTCTTATATGAATTTATATAATTTAA
* * * *
4717373 AATAATTATTATTAAATAT-AATTTCATAAAATTCTTGAT
1 AATAATTTTTCTT--ATATGAATTT-ATATAA-T-TT-AA
*
4717412 AATAATTTTTCTTATATGAATTTATATCATTTAA
1 AATAATTTTTCTTATATGAATTTATATAATTTAA
4717446 AATAATT
1 AATAATT
4717453 AATATTAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
34 18 0.29
35 7 0.11
36 9 0.15
37 9 0.15
38 7 0.11
39 12 0.19
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (34 bp):
AATAATTTTTCTTATATGAATTTATATAATTTAA
Found at i:4717482 original size:44 final size:44
Alignment explanation
Indices: 4717434--4717574 Score: 153
Period size: 44 Copynumber: 3.1 Consensus size: 44
4717424 TATATGAATT
*
4717434 TATATCATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
* * * * *
4717478 TATATAATTTCATAAAATTATTGATAATAAAT-T-TTCTTATATGAAT-T
1 TATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATGA
4717525 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
4717569 TATATA
1 TATATA
4717575 GTTTCATAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
45 7 0.09
46 7 0.09
47 26 0.34
48 3 0.04
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (44 bp):
TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
Found at i:4717489 original size:91 final size:91
Alignment explanation
Indices: 4717388--4717617 Score: 397
Period size: 91 Copynumber: 2.5 Consensus size: 91
4717378 TTATTATTAA
* *
4717388 ATATAATTTCATAAAATTCTTGATAATAATTTTTCTTATATGAATTTATATCATTTAAAATAATT
1 ATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATT
4717453 AATATTAAATATAATTTAATAATGAT
66 AATATTAAATATAATTTAATAATGAT
*
4717479 ATATAATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATT
1 ATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATT
4717544 AATATTAAATATAATTTAATAATGAT
66 AATATTAAATATAATTTAATAATGAT
* * * *
4717570 ATATAGTTTCATAAAATTCTTAATAATAAATGTTCTTATATAAATTTA
1 ATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTA
4717618 CTAAAATCAT
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 131 1.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
ATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATT
AATATTAAATATAATTTAATAATGAT
Found at i:4717529 original size:47 final size:46
Alignment explanation
Indices: 4717388--4717617 Score: 165
Period size: 47 Copynumber: 5.0 Consensus size: 46
4717378 TTATTATTAA
* * *
4717388 ATATAATTTCATAAAATTCTTGATAATAATTTTTCTTATATGAATTT
1 ATATAATTTCATAAAATTATTAATAATAAATTTTCTTATAT-AATTT
* * * * *
4717435 ATATCA-TT--TAAAATAATTAATATTAAATATAAT-TTA-ATAATGAT
1 ATATAATTTCATAAAATTATTAATAATAAAT-T-TTCTTATATAAT-TT
*
4717479 ATATAATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTT
1 ATATAATTTCATAAAATTATTAATAATAAATTTTCTTATAT-AATTT
* * * *
4717526 ATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-ATAATGAT
1 ATATAATTTCATAAAATTATTAATAATAAAT-T-TTCTTATATAAT-TT
* * *
4717570 ATATAGTTTCATAAAATTCTTAATAATAAATGTTCTTATATAAATTT
1 ATATAATTTCATAAAATTATTAATAATAAATTTTCTTATAT-AATTT
4717617 A
1 A
4717618 CTAAAATCAT
Statistics
Matches: 139, Mismatches: 26, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
43 6 0.04
44 48 0.35
45 14 0.10
46 13 0.09
47 52 0.37
48 6 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (46 bp):
ATATAATTTCATAAAATTATTAATAATAAATTTTCTTATATAATTT
Found at i:4724250 original size:2 final size:2
Alignment explanation
Indices: 4724245--4724299 Score: 51
Period size: 2 Copynumber: 27.5 Consensus size: 2
4724235 AATTGATTTG
* *
4724245 TA TA TA TA TA TA TA CA TA CT- TA TA TA T- TA TA TA TA CTT TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA
*
4724287 TA TA TA CA TA TA T
1 TA TA TA TA TA TA T
4724300 GTGTACACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
1 2 0.05
2 39 0.91
3 2 0.05
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4726929 original size:20 final size:20
Alignment explanation
Indices: 4726904--4726942 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4726894 AGATTCAGTA
4726904 GTATTATAT-TTATTGTTATT
1 GTATTAT-TGTTATTGTTATT
4726924 GTATTATTGTTATTGTTAT
1 GTATTATTGTTATTGTTAT
4726943 ATTGTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (20 bp):
GTATTATTGTTATTGTTATT
Found at i:4726932 original size:14 final size:13
Alignment explanation
Indices: 4726912--4726949 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
4726902 TAGTATTATA
4726912 TTTATTGTTATTG
1 TTTATTGTTATTG
4726925 TATTATTGTTATTG
1 T-TTATTGTTATTG
4726939 TTATATTGTTA
1 TT-TATTGTTA
4726950 CTTGCGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (13 bp):
TTTATTGTTATTG
Found at i:4730136 original size:9 final size:9
Alignment explanation
Indices: 4730122--4730178 Score: 69
Period size: 9 Copynumber: 6.1 Consensus size: 9
4730112 TCAGTGGAGG
4730122 CAAAAAAAA
1 CAAAAAAAA
4730131 CAAAAAAAA
1 CAAAAAAAA
4730140 CAAACAAAAAA
1 C-AA-AAAAAA
*
4730151 CAAAAAACA
1 CAAAAAAAA
*
4730160 CAAAAAAAT
1 CAAAAAAAA
*
4730169 GAAAAAAAA
1 CAAAAAAAA
4730178 C
1 C
4730179 CTCTACCGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 29 0.73
10 4 0.10
11 7 0.17
ACGTcount: A:0.82, C:0.14, G:0.02, T:0.02
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:4730137 original size:7 final size:7
Alignment explanation
Indices: 4730125--4730165 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4730115 GTGGAGGCAA
4730125 AAAAAAC
1 AAAAAAC
4730132 AAAAAA-
1 AAAAAAC
*
4730138 AACAAAC
1 AAAAAAC
4730145 AAAAAAC
1 AAAAAAC
4730152 AAAAAAC
1 AAAAAAC
4730159 ACAAAAA
1 A-AAAAA
4730166 AATGAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 5 0.17
7 20 0.67
8 5 0.17
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:4730150 original size:20 final size:19
Alignment explanation
Indices: 4730123--4730167 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
4730113 CAGTGGAGGC
4730123 AAAAAAAACAAAAAAAACA
1 AAAAAAAACAAAAAAAACA
*
4730142 AACAAAAAACAAAAAACACA
1 AA-AAAAAACAAAAAAAACA
4730162 AAAAAA
1 AAAAAA
4730168 TGAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAACA
Found at i:4730175 original size:20 final size:18
Alignment explanation
Indices: 4730122--4730178 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
4730112 TCAGTGGAGG
4730122 CAAAAAAAACAAAAAAA-A
1 CAAAAAAAA-AAAAAAACA
4730140 CAAACAAAAAACAAAAAACA
1 CAAA-AAAAAA-AAAAAACA
4730160 CAAAAAAATGAAAAAAAAC
1 CAAAAAAA--AAAAAAAAC
4730179 CTCTACCGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.15
19 15 0.44
20 12 0.35
21 2 0.06
ACGTcount: A:0.82, C:0.14, G:0.02, T:0.02
Consensus pattern (18 bp):
CAAAAAAAAAAAAAAACA
Found at i:4730628 original size:13 final size:12
Alignment explanation
Indices: 4730595--4730629 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
4730585 TCACTTGACA
4730595 AAAAAATGAAAAG
1 AAAAAA-GAAAAG
4730608 AAAAAAGAAAAG
1 AAAAAAGAAAAG
4730620 AAAATAAGAA
1 AAAA-AAGAA
4730630 CGAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:4731628 original size:50 final size:50
Alignment explanation
Indices: 4731570--4732032 Score: 158
Period size: 50 Copynumber: 9.3 Consensus size: 50
4731560 GCAGTGGAGC
*
4731570 AGATTGAAGCTACGATGGCAAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACATTGCAATTTAAA
* ** * * * * * ** ** **
4731620 AGAGTGAAGCCGCAATGGCGAATCTTACTTCCCTGGCAGTGCGGTAGAGC
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACATTGCAATTTAAA
* * * *
4731670 AGATTAAAGCTACGACGGTAAATCTTACTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACATTGCAATTTAAA
* * * ** * * ** ** ** **
4731720 AGATTGAAGCTGCAACGGTGAATCTTACTACCCTGGA-GGTGCGGTGGAGC
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCC-CGACATTGCAATTTAAA
* ** * * *
4731770 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTCAAA
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACATTGCAATTTAAA
** * * * * * * ** ** **
4731820 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCGGTGGAGC
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACATTGCAATTTAAA
* * ** * * *
4731870 ATATTGAATCTACGATGGTGAATCTTGCTTCCCCAACATTACAATTTAAA
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACATTGCAATTTAAA
* ** * * ** * * * ** ** **
4731920 AGATTAAAGCCGCAACGGTGAATCATACTT-CCCTA-GTGGTGCGGTGGAGC
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACAT--TGCAATTTAAA
* * *
4731970 AGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACATTGCAATTTAAA
4732020 AGATTGAAGCTAC
1 AGATTGAAGCTAC
4732033 AACGGTGAAT
Statistics
Matches: 281, Mismatches: 126, Indels: 12
0.67 0.30 0.03
Matches are distributed among these distances:
48 1 0.00
49 6 0.02
50 268 0.95
51 5 0.02
52 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACGATGGCAAATCTTACTTCCCCGACATTGCAATTTAAA
Found at i:4732042 original size:100 final size:100
Alignment explanation
Indices: 4731507--4732029 Score: 742
Period size: 100 Copynumber: 5.2 Consensus size: 100
4731497 ACCCCTGAGG
** * *
4731507 TTGCAAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCTTTGGTAGTGCAGTGGAGCAG
1 TTGC-AATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCGGTGGAGCAG
* **
4731572 ATTGAAGCTACGATGGCAAATCTTGCTTCCCCGACA
65 ATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* * *
4731608 TTGCAATTTAAAAGAGTGAAGCCGCAATGGCGAATCTTACTTCCCTGGCAGTGCGGTAGAGCAGA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCGGTGGAGCAGA
* * * *
4731673 TTAAAGCTACGACGGTAAATCTTACTTCCCCAACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* * *
4731708 TTGCAATTTAAAAGATTGAAGCTGCAACGGTGAATCTTACTACCCTGG-AGGTGCGGTGGAGCAG
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCA-GTGCGGTGGAGCAG
*
4731772 ATTGAAGCTACGACGGTGAATCTTGCTTCCCTGACA
65 ATTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* *
4731808 TTGCAATTCAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCGGTGGAGCATA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCGGTGGAGCAGA
* * *
4731873 TTGAATCTACGATGGTGAATCTTGCTTCCCCAACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
* * * * * **
4731908 TTACAATTTAAAAGATTAAAGCCGCAACGGTGAATCATACTTCCCTAGTGGTGCGGTGGAGCAGA
1 TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCGGTGGAGCAGA
*
4731973 TTGAAGCTACGACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
4732008 TTGCAATTTAAAAGATTGAAGC
1 TTGCAATTTAAAAGATTGAAGC
4732030 TACAACGGTG
Statistics
Matches: 373, Mismatches: 47, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
99 1 0.00
100 367 0.98
101 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCAGTGCGGTGGAGCAGA
TTGAAGCTACGACGGTGAATCTTGCTTCCCCGACA
Found at i:4732301 original size:127 final size:126
Alignment explanation
Indices: 4732075--4732512 Score: 617
Period size: 127 Copynumber: 3.4 Consensus size: 126
4732065 AATTTGACAA
* * *
4732075 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTTGATTAAAACCACAGATCTTATCTCCTTAG
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAAATCTTATCTCC-TAA
*
4732140 GCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
65 GTAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
*
4732202 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTTCCTAA
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAAATCTTATC-TCCTAA
*
4732267 GTAGTAGTGGAGCAGATCGCATCTAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
65 GTAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
* *
4732329 AAATCAATCCTATCTCCCTTAAGTTGCAGTGGAGTGGATTAAAAACCACAAAACTTATCTCTCTG
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATT-AAAACCACAAATCTTATCTC-CT-
* * * * * ** * *
4732394 AAGTTGCAGTAGAGAAGATCACATCCAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGAC-GAAA
63 AAGTAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAG-AA
4732458 G
126 G
* * * *
4732459 AAACCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACAAATCT
1 AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAAATCT
4732513 CGTCCCCATA
Statistics
Matches: 282, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
127 160 0.57
128 21 0.07
129 47 0.17
130 54 0.19
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (126 bp):
AAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAAATCTTATCTCCTAAG
TAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAG
Found at i:4732343 original size:43 final size:43
Alignment explanation
Indices: 4732169--4732347 Score: 131
Period size: 43 Copynumber: 4.2 Consensus size: 43
4732159 CATCCAGTCT
4732169 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAATCAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCA-AAGAAATCAATCC
** * ** * * *
4732212 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA-ACCA-CAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGA-AATCA-ATCC
* * * * *
4732256 TATCTTCCTAAGTAGTAGTGGAGCAGATC---G-CATCTAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAATC-AATCC
4732296 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAATCAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCA-AAGAAATCAATCC
4732339 TATCTCCCT
1 TATCTCCCT
4732348 TAAGTTGCAG
Statistics
Matches: 104, Mismatches: 20, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
39 3 0.03
40 29 0.28
41 1 0.01
43 40 0.38
44 30 0.29
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAATCAATCC
Found at i:4732943 original size:20 final size:20
Alignment explanation
Indices: 4732918--4732956 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4732908 TCGTCTGCCA
*
4732918 CACCTAGCCGCACGCCTCTG
1 CACCTAGCCACACGCCTCTG
*
4732938 CACCTAGCCACACGTCTCT
1 CACCTAGCCACACGCCTCT
4732957 ACTCCTGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.49, G:0.15, T:0.18
Consensus pattern (20 bp):
CACCTAGCCACACGCCTCTG
Found at i:4734026 original size:3 final size:3
Alignment explanation
Indices: 4734009--4734069 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
4733999 TGCTATTTTT
* *
4734009 TTA TTAA TTA ATA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
4734055 TTG TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA
4734070 CATTTCCATT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4734248 original size:13 final size:13
Alignment explanation
Indices: 4734230--4734263 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4734220 ACGTACACCT
4734230 TTTTTATAACTTA
1 TTTTTATAACTTA
4734243 TTTTTATAACTTA
1 TTTTTATAACTTA
*
4734256 TTTATATA
1 TTTTTATA
4734264 TATGTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTATAACTTA
Found at i:4735473 original size:23 final size:19
Alignment explanation
Indices: 4735418--4735468 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 19
4735408 TTATATATTT
4735418 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
4735438 TTTAAAACATATTGATAATAA
1 TTTAAAAAATATTGAT-A-AA
4735459 TTTAAAAAAT
1 TTTAAAAAAT
4735469 GTATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:4736666 original size:48 final size:48
Alignment explanation
Indices: 4736612--4736705 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
4736602 AAGGTTCTTC
4736612 CCTTTCTTTTATAGCCGAGAGAAAAAGAAAGAGAATAAAATAAAAAAA
1 CCTTTCTTTTATAGCCGAGAGAAAAAGAAAGAGAATAAAATAAAAAAA
4736660 CCTTTCTTTTATAGCCGAGAGAAAAAGAAAGAGAATAAAATAAAAA
1 CCTTTCTTTTATAGCCGAGAGAAAAAGAAAGAGAATAAAATAAAAA
4736706 TACAATATCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.53, C:0.11, G:0.15, T:0.21
Consensus pattern (48 bp):
CCTTTCTTTTATAGCCGAGAGAAAAAGAAAGAGAATAAAATAAAAAAA
Found at i:4738955 original size:17 final size:16
Alignment explanation
Indices: 4738933--4738972 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4738923 ACAGGTTCAA
4738933 TTATTAACTTATTTATT
1 TTATTAA-TTATTTATT
*
4738950 TTATTAATTGTTTATT
1 TTATTAATTATTTATT
4738966 TT-TTAAT
1 TTATTAAT
4738973 AATTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 10 0.45
17 7 0.32
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTAATTATTTATT
Found at i:4739191 original size:2 final size:2
Alignment explanation
Indices: 4739186--4739244 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
4739176 TTAATTTTAT
4739186 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4739228 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
4739245 GATTTTCTCG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4739604 original size:10 final size:9
Alignment explanation
Indices: 4739579--4739724 Score: 71
Period size: 10 Copynumber: 15.0 Consensus size: 9
4739569 TATATAACAA
*
4739579 ATAAAAATCA
1 ATAAAAAT-T
*
4739589 ATAAAAGTT
1 ATAAAAATT
4739598 ATAAAAATT
1 ATAAAAATT
**
4739607 ATTAAATTTT
1 A-TAAAAATT
4739617 ATTAAAAATAT
1 A-TAAAAAT-T
4739628 ATAAAAATAT
1 ATAAAAAT-T
* **
4739638 TTAAATTTT
1 ATAAAAATT
4739647 AGTAAAAATT
1 A-TAAAAATT
*
4739657 AGAAAAAATT
1 A-TAAAAATT
4739667 ATAAAAATCT
1 ATAAAAAT-T
4739677 -TAAAAAATT
1 AT-AAAAATT
*
4739686 ATAGAACA-T
1 ATA-AAAATT
4739695 ATAGAAATATAT
1 ATA-AAA-AT-T
4739707 ATAAAAATT
1 ATAAAAATT
*
4739716 ATAAGAATT
1 ATAAAAATT
4739725 CAAGGCAGTT
Statistics
Matches: 108, Mismatches: 18, Indels: 21
0.73 0.12 0.14
Matches are distributed among these distances:
9 35 0.32
10 64 0.59
11 5 0.05
12 4 0.04
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4739633 original size:30 final size:29
Alignment explanation
Indices: 4739590--4739668 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
4739580 TAAAAATCAA
* *
4739590 TAAAAGTTATAAAAATTATTAAATTTTAT
1 TAAAAATTATAAAAATTATTAAATTTTAG
4739619 TAAAAATATATAAAAA-TATTTAAATTTTAG
1 TAAAAAT-TATAAAAATTA-TTAAATTTTAG
*
4739649 TAAAAATTAGAAAAAATTAT
1 TAAAAATTA-TAAAAATTAT
4739669 AAAAATCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.23
30 31 0.72
31 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TAAAAATTATAAAAATTATTAAATTTTAG
Found at i:4739638 original size:19 final size:19
Alignment explanation
Indices: 4739616--4739714 Score: 60
Period size: 19 Copynumber: 5.1 Consensus size: 19
4739606 TATTAAATTT
4739616 TATTAAAAATATATAAAAA
1 TATTAAAAATATATAAAAA
* * *
4739635 TATTTAAATTTTAGTAAAAA
1 TATTAAAAATATA-TAAAAA
**
4739655 TTAGAAAAAAT-TATAAAAA
1 -TATTAAAAATATATAAAAA
* *
4739674 TCTTAAAAA-ATTATAGAACA
1 TATTAAAAATA-TATA-AAAA
4739694 TA-TAGAAATATATATAAAAA
1 TATTA-AAA-ATATATAAAAA
4739714 T
1 T
4739715 TATAAGAATT
Statistics
Matches: 59, Mismatches: 13, Indels: 15
0.68 0.15 0.17
Matches are distributed among these distances:
18 6 0.10
19 22 0.37
20 19 0.32
21 11 0.19
22 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
TATTAAAAATATATAAAAA
Found at i:4747709 original size:21 final size:21
Alignment explanation
Indices: 4747685--4747725 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4747675 CGTCAGTCCT
*
4747685 ATGAATAATGGAGTCAAATCC
1 ATGAACAATGGAGTCAAATCC
4747706 ATGAACAATGGAGTCAAATC
1 ATGAACAATGGAGTCAAATC
4747726 ATAAATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (21 bp):
ATGAACAATGGAGTCAAATCC
Found at i:4749466 original size:16 final size:16
Alignment explanation
Indices: 4749427--4749468 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4749417 ATTTATTAAA
4749427 AATTATGATAAAAGAAT
1 AATTAT-ATAAAAGAAT
*
4749444 -ATATATATAATAGAAT
1 AAT-TATATAAAAGAAT
4749460 AATTATATA
1 AATTATATA
4749469 TGATTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (16 bp):
AATTATATAAAAGAAT
Found at i:4756065 original size:52 final size:53
Alignment explanation
Indices: 4755996--4756097 Score: 172
Period size: 52 Copynumber: 1.9 Consensus size: 53
4755986 TTTTTTCTGT
*
4755996 TAATTTTTACTTAATTTAAAATTATTCTGTAAATATTTC-TTTTATTTTTAAA
1 TAATTTTTAATTAATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTTAAA
4756048 TAATTATTTAATT-ATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTT
1 TAATT-TTTAATTAATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTT
4756098 TCCTGTTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
52 31 0.66
53 16 0.34
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (53 bp):
TAATTTTTAATTAATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTTAAA
Found at i:4757117 original size:112 final size:113
Alignment explanation
Indices: 4756851--4757389 Score: 432
Period size: 105 Copynumber: 5.0 Consensus size: 113
4756841 GGCCATCGGG
* * *
4756851 AAATTTTTTTT---ATTTTTTCGTATACTAGTGCCGGCCAATGACAGCACAAAATGT--AAAAAA
1 AAATTTTTTTTAAAATTTTTTAGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAA
*
4756911 AA------TTTACATAAAGGTGGTGTCGGGCATTGGCAGGCCACCACC
66 AATTTTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACCACC
** **
4756953 AAATTTTTTTTTTCAATTTTTTAAAATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAA
1 AAA-TTTTTTTTAAAATTTTTTAGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAA
4757018 AAATTCTTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACCA-C
65 AAATT-TTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACCACC
* * * *
4757067 AAA-TTTTTTAAAAATTTTTTTGTATACTAGTGTCGGCCAATGACAGCCCAAAATGT--------
1 AAATTTTTTTTAAAATTTTTTAGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAA
*
4757123 -ATGTTTTTTTTACATAAAGGTGGTGTCGGCCATTGTCAGGCCACCACC
66 AAT-TTTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACCACC
* * * ** *
4757171 AAAACAATTTTTTTTTAAAATTCTTTCGTATATTGGTGCCGGCTGATGATAGCCCAAAATGTAAA
1 ---A-AA-TTTTTTTTAAAATTTTTTAGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAA
* * * ** *
4757236 AAAAAAA-------TTACATAAAGGTGGCGCCGACCATTGGCAACCCACCACA
61 AAAAAAATTTTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACCACC
** * * ** * **
4757282 AAATTTTTTTT-TTATTTTTTTGTTTACTGGAACCGACCAATGACAGTTCAAAATGT-AAAAAAA
1 AAATTTTTTTTAAAATTTTTTAGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAA
*
4757345 AA------TTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC
66 AATTTTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACCACC
4757387 AAA
1 AAA
4757390 AAACAATTTT
Statistics
Matches: 356, Mismatches: 50, Indels: 59
0.77 0.11 0.13
Matches are distributed among these distances:
102 3 0.01
103 51 0.14
104 11 0.03
105 68 0.19
106 46 0.13
107 3 0.01
108 11 0.03
110 44 0.12
111 32 0.09
112 45 0.13
114 4 0.01
115 37 0.10
119 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (113 bp):
AAATTTTTTTTAAAATTTTTTAGTATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAA
AATTTTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGCCACCACC
Found at i:4757268 original size:111 final size:110
Alignment explanation
Indices: 4757132--4757421 Score: 315
Period size: 105 Copynumber: 2.7 Consensus size: 110
4757122 TATGTTTTTT
* *
4757132 TTACATAAAGGTGGTGTCGGCCATTGTCAGGCCACCACCAAAACAATTTTTTTTTAAAATTCTTT
1 TTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAACAATTTTTTTTT-AAATTCTTT
* ** * ** *
4757197 CGTATATTGGTGCCGGCTGATGATAGCCCAAAATGTAAAAAAAAAA
65 CGTATACTGGAACCGACCAATGACAGCCCAAAATGTAAAAAAAAAA
* * * * * * *
4757243 TTACATAAAGGTGGCGCCGACCATTGGCA--AC-CCACCACAA-AATTTTTTTTT-TATTTTTTT
1 TTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAACAATTTTTTTTTAAATTCTTTC
* ** *
4757303 GTTTACTGGAACCGACCAATGACAGTTCAAAATGTAAAAAAAAAT
66 GTATACTGGAACCGACCAATGACAGCCCAAAATGTAAAAAAAAAA
*
4757348 TTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAAACAATTTTTTTTT-ACTT-TT
1 TTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC--AAAACAATTTTTTTTTAAATTCTT
4757411 TCGTATACTGG
64 TCGTATACTGG
4757422 TGTCGGCCAA
Statistics
Matches: 145, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
105 67 0.46
107 12 0.08
108 13 0.09
109 1 0.01
110 14 0.10
111 38 0.26
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (110 bp):
TTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAACAATTTTTTTTTAAATTCTTTC
GTATACTGGAACCGACCAATGACAGCCCAAAATGTAAAAAAAAAA
Found at i:4757466 original size:325 final size:321
Alignment explanation
Indices: 4756866--4757482 Score: 749
Period size: 325 Copynumber: 1.9 Consensus size: 321
4756856 TTTTTTATTT
* * *
4756866 TTTCGTATACTAGTGCCGGCCAATGACAGCACAAAATGTAAAAAAAATTTACATAAAGGTGGTGT
1 TTTCGTATACTAGTGCCGGCCAATGACAGCACAAAATGTAAAAAAAAATTACATAAAGGTGGCGC
** ** * ** *
4756931 CGGGCATTGGCAGGCCACCACCAAATTTTTTTTTTCAATTTTTTAAAATACTGGTGCCGGCCAAT
66 CGACCATTGGCAACCCACCACAAAATTTTTTTTTT-AATTTTTTAAAATACTGGAACCGACCAAT
*
4756996 GACAGCCCAAAATGTAAAAAAAAAATTCTTTTTTTACATAAAGGTGGTGTCGGCCATTGGCAGGC
130 GACAGCCCAAAATGTAAAAAAAAAA------TTTTACATAAAGGTGGTGCCGGCCATTGGCAGGC
* * *
4757061 CACCACAAATTTTTTAAAAATTTTTTTGTATACTAGTGTCGGCCAATGACAGCCCAAAATGTATG
189 CACCACAAATTTTTTAAAAACTTTTTCGTATACTAGTGTCGGCCAATGACAGCCCAAAATGTATA
4757126 TTTTTTTTACATAAAGGTGGTGTCGGCCATTGTCAGGCCACCACCAAAACAATTTTTTTTTAAAA
254 TTTTTTTTACATAAAGGTGGTGTCGGCCATTGTCAGGCCACCACCAAAACAATTTTTTTTTAAAA
4757191 TTC
319 TTC
* * ** * *
4757194 TTTCGTATATTGGTGCCGGCTGATGATAGCCCAAAATGTAAAAAAAAAATTACATAAAGGTGGCG
1 TTTCGTATACTAGTGCCGGCCAATGACAGCACAAAATGT-AAAAAAAAATTACATAAAGGTGGCG
****
4757259 CCGACCATTGGCAACCCACCACAAAATTTTTTTTTT-ATTTTTTTGTTTACTGGAACCGACCAAT
65 CCGACCATTGGCAACCCACCACAAAATTTTTTTTTTAATTTTTTAAAATACTGGAACCGACCAAT
**
4757323 GACAGTTCAAAATGT-AAAAAAAAA-TTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCAC
130 GACAGCCCAAAATGTAAAAAAAAAATTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-
*** * ***
4757386 CAAAAAACAATTTTTT-TTTACTTTTTCGTATACTGGTGTCGGCCAATGACATTTCAAAATGT-T
194 C-----A-AATTTTTTAAAAACTTTTTCGTATACTAGTGTCGGCCAATGACAGCCCAAAATGTAT
4757449 AATTTTTTTTACATAAAGGTGGTGTCGGCCATTG
253 -ATTTTTTTTACATAAAGGTGGTGTCGGCCATTG
4757483 GCAAGCCAAT
Statistics
Matches: 246, Mismatches: 34, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
319 37 0.15
320 1 0.00
324 1 0.00
325 70 0.28
326 17 0.07
327 34 0.14
328 33 0.13
329 53 0.22
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (321 bp):
TTTCGTATACTAGTGCCGGCCAATGACAGCACAAAATGTAAAAAAAAATTACATAAAGGTGGCGC
CGACCATTGGCAACCCACCACAAAATTTTTTTTTTAATTTTTTAAAATACTGGAACCGACCAATG
ACAGCCCAAAATGTAAAAAAAAAATTTTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACA
AATTTTTTAAAAACTTTTTCGTATACTAGTGTCGGCCAATGACAGCCCAAAATGTATATTTTTTT
TACATAAAGGTGGTGTCGGCCATTGTCAGGCCACCACCAAAACAATTTTTTTTTAAAATTC
Found at i:4757663 original size:100 final size:98
Alignment explanation
Indices: 4757487--4757669 Score: 303
Period size: 100 Copynumber: 1.8 Consensus size: 98
4757477 CCATTGGCAA
* *
4757487 GCCAATAACAGCCCAAAATGTAAAAAAAAATTTACAAAAAGGTGGTGCCGGCCATTGGCAGGCCA
1 GCCAATAACAGCCCAAAATGTAAAAAAAAATTTACAAAAAGGTGGTGCCAGCCATTGCCAGGCCA
*
4757552 CCACCAGAATTTTTTTTTCATATACTGGTACCG
66 CCACCAAAATTTTTTTTTCATATACTGGTACCG
* *
4757585 GCCAATGACAGCCCAAAATGTAAAAAAAAAAATTTACATAAAGGTGGTGCCAGCCATTGCCAGGC
1 GCCAATAACAGCCCAAAATGT--AAAAAAAAATTTACAAAAAGGTGGTGCCAGCCATTGCCAGGC
4757650 CACCACCAAAATTTTTTTTT
64 CACCACCAAAATTTTTTTTT
4757670 AATTTTTTCG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 20 0.26
100 58 0.74
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (98 bp):
GCCAATAACAGCCCAAAATGTAAAAAAAAATTTACAAAAAGGTGGTGCCAGCCATTGCCAGGCCA
CCACCAAAATTTTTTTTTCATATACTGGTACCG
Found at i:4758493 original size:110 final size:110
Alignment explanation
Indices: 4758080--4758505 Score: 591
Period size: 109 Copynumber: 3.9 Consensus size: 110
4758070 AAGATATAAG
* * * *
4758080 AGGATATTTGGCTATTTGGTCCAACG---AGAAATCGAAACTCAGCACATTAGGGCACGTTTTCT
1 AGGATATTTAGCTATTTGGTCGAACGAAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
*
4758142 C-GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTATTAAA
66 CAGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATT-TTAAA
* * *
4758187 AGGATATTTGGCTATTTGGTCGAACG--AGAAAATCGAAACCCAGCACATTAGGGCATGTTTTCT
1 AGGATATTTAGCTATTTGGTCGAACGAAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
* * * *
4758250 CA-AATCTCCAAACGCAAAATATTACCTTACTTTGAAAATTTAAA
66 CAGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTAAA
* *
4758294 AGGATATTTAGCTATTTGGTCGAACGAAAAAAAATCGAAACCCAACACATTAGGACACGTTTTCT
1 AGGATATTTAGCTATTTGGTCGAACGAAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
* *
4758359 CAG-ATTTCCAAAGGCAAAACATTGCCTTACTTTGAAATTTTAAT
66 CAGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTAAA
** *
4758403 AGGATATTTTTCTATTTGGTCGAACGAAAAAAAAATCGAAACCCAGCACATTAGGGCACATTTTC
1 AGGATATTTAGCTATTTGGTCGAACG-AAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTC
*
4758468 T-AGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAA
65 TCAGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAA
4758506 AATTTTCCTT
Statistics
Matches: 284, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
107 55 0.19
108 65 0.23
109 96 0.34
110 68 0.24
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (110 bp):
AGGATATTTAGCTATTTGGTCGAACGAAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
CAGAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTAAA
Found at i:4758649 original size:4 final size:4
Alignment explanation
Indices: 4758640--4758719 Score: 65
Period size: 4 Copynumber: 19.5 Consensus size: 4
4758630 ACACAATAAC
* * * * *
4758640 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAAA AAAT AGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
4758688 AAAT AAAT AAAT GAACAT AAAGT AAA- AAAT AA
1 AAAT AAAT AAAT -AA-AT AAA-T AAAT AAAT AA
4758720 TAATAATAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
3 5 0.08
4 42 0.69
5 12 0.20
6 2 0.03
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:4764684 original size:12 final size:12
Alignment explanation
Indices: 4764663--4764692 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4764653 TTTGAGTCCC
4764663 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
4764675 AAAAAGAAAAAG
1 AAAAAAAAAAAG
4764687 AAAAAA
1 AAAAAA
4764693 GAGGTGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:4766023 original size:50 final size:50
Alignment explanation
Indices: 4765943--4766501 Score: 413
Period size: 50 Copynumber: 11.2 Consensus size: 50
4765933 GCACTGGAAC
* * *
4765943 AGATTGAAGCTACGACGGCGGATCTGATTTCCCTGATATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
* * * * * * ** *
4765993 AGATTGAAGCCACAACGGTGGATCTTATTTCCTTCG-CAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCT-GATATTGCAATTAAAA
* *
4766043 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
* * * * * * * ** *
4766093 AGATTGAAGCCACAACTGCAGATATTATTT-CCTTAGCAGTGCAATGGAAC
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGA-TATTGCAATTAAAA
* * * *
4766143 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
* * * * *** ** ** *
4766193 AGAATGAAGCCACAACAGCGGATCTTACTTCCCTGACGGTGCGGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
* * *
4766243 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
* * * * * * ** *
4766293 AGATTGAAGTCACAACGGCGGATCTTATTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGA-TATTGCAATTAAAA
* * *
4766343 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
* * * *** ** ** *
4766393 AGATTGAAGCCACAACGACGGATCTTACTTCCCTGACGGTGCGGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
* * * * * * *
4766443 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAATTGAAT
1 AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
4766493 AGATTGAAG
1 AGATTGAAG
4766502 ATTTTAGACC
Statistics
Matches: 373, Mismatches: 130, Indels: 12
0.72 0.25 0.02
Matches are distributed among these distances:
49 9 0.02
50 355 0.95
51 9 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTGATTTCCCTGATATTGCAATTAAAA
Found at i:4766094 original size:100 final size:100
Alignment explanation
Indices: 4765921--4766501 Score: 878
Period size: 100 Copynumber: 5.8 Consensus size: 100
4765911 TATATTTTAC
* * *
4765921 TTCCTTAGTAGTGCACTGGAACAGATTGAAGCTACGACGGCGGATCTGATTTCCCTGATATTGCA
1 TTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCA
* *
4765986 ATTTAAAAGATTGAAGCCACAACGGTGGATCTTAT
66 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* *
4766021 TTCCTTCGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGATATTGCA
1 TTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCA
* * *
4766086 ATTAAAAAGATTGAAGCCACAACTGCAGATATTAT
66 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* *
4766121 TTCCTTAGCAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTA
1 TTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCA
* * *
4766186 ATTAAAAAGAATGAAGCCACAACAGCGGATCTTAC
66 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * *
4766221 TTCCCT-GACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGC
1 TTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGC
*
4766285 AATTAAAAAGATTGAAGTCACAACGGCGGATCTTAT
65 AATTAAAAAGATTGAAGCCACAACGGCGGATCTTAT
4766321 TTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCA
1 TTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCA
* *
4766386 ATTAAAAAGATTGAAGCCACAACGACGGATCTTAC
66 ATTAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * *
4766421 TTCCCT-GACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGC
1 TTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGC
* *
4766485 AATTGAATAGATTGAAG
65 AATTAAAAAGATTGAAG
4766502 ATTTTAGACC
Statistics
Matches: 437, Mismatches: 41, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
99 2 0.00
100 434 0.99
101 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (100 bp):
TTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCA
ATTAAAAAGATTGAAGCCACAACGGCGGATCTTAT
Found at i:4768277 original size:35 final size:37
Alignment explanation
Indices: 4768219--4768287 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 37
4768209 CGCATTTTAC
4768219 ATATATATATACATTATTATTTTATTTTCATATTTTGTA
1 ATATATATATACATTATTATTTTA-TTT-ATATTTTGTA
4768258 ATATAT-TATAC-TTA-T-TTTTATTTATATTTT
1 ATATATATATACATTATTATTTTATTTATATTTT
4768288 ATAAGTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
33 7 0.23
34 3 0.10
35 5 0.17
36 1 0.03
37 3 0.10
38 5 0.17
39 6 0.20
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (37 bp):
ATATATATATACATTATTATTTTATTTATATTTTGTA
Found at i:4773347 original size:29 final size:29
Alignment explanation
Indices: 4773297--4773353 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4773287 TATATAGATC
* *
4773297 GGATCAAATTAGACATTCTATTTTTAAAT
1 GGATCAAATTAGACATTATATTATTAAAT
*
4773326 GGATCAATTTAGTAC-TTATATTATTAAA
1 GGATCAAATTAG-ACATTATATTATTAAA
4773354 AATAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.42
Consensus pattern (29 bp):
GGATCAAATTAGACATTATATTATTAAAT
Found at i:4775605 original size:37 final size:35
Alignment explanation
Indices: 4775505--4775611 Score: 90
Period size: 36 Copynumber: 2.9 Consensus size: 35
4775495 TCTCTCTCAA
*
4775505 CAAAAATTTTTAAAAAATTCAAAATAAATTT-TAATTTT
1 CAAAAATTTAT-AAAAATTC--AA-AAATTTATAATTTT
* * *
4775543 CAAAATATTTATAAAAAATCCAAAATTTATATTTTT
1 CAAAA-ATTTATAAAAATTCAAAAATTTATAATTTT
* *
4775579 TAAAAATTTATAAGAAATTCTAAAAATATATAA
1 CAAAAATTTATAA-AAATTC-AAAAATTTATAA
4775612 AGAAAGTTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
35 14 0.25
36 16 0.29
37 9 0.16
38 12 0.21
39 5 0.09
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (35 bp):
CAAAAATTTATAAAAATTCAAAAATTTATAATTTT
Found at i:4775622 original size:20 final size:19
Alignment explanation
Indices: 4775578--4775624 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4775568 TTTATATTTT
* *
4775578 TTAAAAATTTATAAGAAAT
1 TTAAAAATATATAAGAAAG
4775597 TCTAAAAATATATAAAGAAAG
1 T-TAAAAATATAT-AAGAAAG
4775618 TTAAAAA
1 TTAAAAA
4775625 ATTAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.67
21 7 0.29
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (19 bp):
TTAAAAATATATAAGAAAG
Found at i:4781702 original size:13 final size:13
Alignment explanation
Indices: 4781686--4781715 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4781676 TTGTATTGCA
*
4781686 TGTTTGATTTTCT
1 TGTTTGATTTCCT
4781699 TGTTTGATTTCCT
1 TGTTTGATTTCCT
4781712 TGTT
1 TGTT
4781716 AACCCCTTGG
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:0.07, C:0.10, G:0.17, T:0.67
Consensus pattern (13 bp):
TGTTTGATTTCCT
Found at i:4784620 original size:49 final size:49
Alignment explanation
Indices: 4784563--4784660 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 49
4784553 TCATGTGTTA
* * *
4784563 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAAATTA-ATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATT-AAATTATATTT
4784612 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAATTATATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAATTATATTT
4784661 AATAATAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 6 0.13
49 39 0.87
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAATTATATTT
Found at i:4784748 original size:61 final size:61
Alignment explanation
Indices: 4784693--4784883 Score: 221
Period size: 61 Copynumber: 3.2 Consensus size: 61
4784683 ATTTTATAGT
*
4784693 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAA
* * ** * * * * * *
4784754 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATTCATATAACAA-TA-TTTAATATTAAGAATTTTATTA-A
4784813 ATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAA
4784874 ATTATATATT
1 ATTATATATT
4784884 TTTATTAAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 7 0.07
59 32 0.31
60 14 0.14
61 42 0.41
62 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAA
Found at i:4784776 original size:120 final size:120
Alignment explanation
Indices: 4784646--4784918 Score: 519
Period size: 120 Copynumber: 2.3 Consensus size: 120
4784636 TGATTCATGA
4784646 TATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
1 TATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
*
4784711 AGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTT
66 AGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAAATTATATATTTT
4784766 TATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
1 TATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
4784831 AGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAAATTATATATTTT
66 AGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAAATTATATATTTT
* *
4784886 TATTAAATTATATTTAATAATTATTATGTTAAA
1 TATTAAATTATATTTAATAATAATTATTTTAAA
4784919 ATATGATTAA
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 150 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
AGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAAATTATATATTTT
Found at i:4785181 original size:98 final size:98
Alignment explanation
Indices: 4785012--4785207 Score: 374
Period size: 98 Copynumber: 2.0 Consensus size: 98
4785002 ATTCTGCTAA
*
4785012 TGGTATTCTAGTCATTTTAGTTTTTTTTCCTTATGCTATTACAACAATTCCATTCGACCAAACAC
1 TGGTATTCTAGTCATTTTAGTTTTTTTTCCTTATGCTATTACAACAATTCCATTCAACCAAACAC
*
4785077 AAGAATATTATTACAGTTCTATTCCATTCCATT
66 AAGAATACTATTACAGTTCTATTCCATTCCATT
4785110 TGGTATTCTAGTCATTTTAGTTTTTTTTCCTTATGCTATTACAACAATTCCATTCAACCAAACAC
1 TGGTATTCTAGTCATTTTAGTTTTTTTTCCTTATGCTATTACAACAATTCCATTCAACCAAACAC
4785175 AAGAATACTATTACAGTTCTATTCCATTCCATT
66 AAGAATACTATTACAGTTCTATTCCATTCCATT
4785208 CAACCAAACA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (98 bp):
TGGTATTCTAGTCATTTTAGTTTTTTTTCCTTATGCTATTACAACAATTCCATTCAACCAAACAC
AAGAATACTATTACAGTTCTATTCCATTCCATT
Found at i:4785212 original size:44 final size:45
Alignment explanation
Indices: 4785156--4785247 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 45
4785146 TATTACAACA
*
4785156 ATTCCATTCAACCAAACACA-AGAA-TACTATTACAG-TTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTATTAC-GCCTCTATTCC
*
4785200 ATTCCATTCAACCAAACAATTGAATTACTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTATTACGCCTCTATTCC
4785245 ATT
1 ATT
4785248 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 20 0.47
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (45 bp):
ATTCCATTCAACCAAACAATAGAATTACTATTACGCCTCTATTCC
Found at i:4785255 original size:16 final size:16
Alignment explanation
Indices: 4785236--4785284 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
4785226 ACTATTACGC
4785236 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
*
4785252 CTCTATTCCATTACAC
1 CTCTATTCCATTACAG
4785268 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
4785284 C
1 C
4785285 GAACCAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.24, C:0.35, G:0.04, T:0.37
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:4785975 original size:7 final size:7
Alignment explanation
Indices: 4785857--4785975 Score: 112
Period size: 7 Copynumber: 17.0 Consensus size: 7
4785847 TTCTTTTCAA
*
4785857 CTCAATC
1 CTCAATT
*
4785864 CTCAATC
1 CTCAATT
*
4785871 CTCAATC
1 CTCAATT
*
4785878 CTAAATT
1 CTCAATT
* *
4785885 CGCAATC
1 CTCAATT
4785892 CTCAATT
1 CTCAATT
* *
4785899 TTCATTT
1 CTCAATT
4785906 CTCAATT
1 CTCAATT
4785913 CTCAATT
1 CTCAATT
* *
4785920 CTTAATC
1 CTCAATT
*
4785927 CTCAATC
1 CTCAATT
*
4785934 CTCAATC
1 CTCAATT
*
4785941 CTCAATC
1 CTCAATT
4785948 CTCAATT
1 CTCAATT
*
4785955 CTTAATT
1 CTCAATT
4785962 CTCAATT
1 CTCAATT
4785969 CTCAATT
1 CTCAATT
4785976 AATTTTTAAT
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 95 1.00
ACGTcount: A:0.29, C:0.32, G:0.01, T:0.39
Consensus pattern (7 bp):
CTCAATT
Found at i:4785975 original size:14 final size:14
Alignment explanation
Indices: 4785857--4785974 Score: 128
Period size: 14 Copynumber: 8.4 Consensus size: 14
4785847 TTCTTTTCAA
*
4785857 CTCAATCCTCAATC
1 CTCAATCCTCAATT
*
4785871 CTCAATCCTAAATT
1 CTCAATCCTCAATT
*
4785885 CGCAATCCTCAATT
1 CTCAATCCTCAATT
* * *
4785899 TTCATTTCTCAATT
1 CTCAATCCTCAATT
* * *
4785913 CTCAATTCTTAATC
1 CTCAATCCTCAATT
*
4785927 CTCAATCCTCAATC
1 CTCAATCCTCAATT
4785941 CTCAATCCTCAATT
1 CTCAATCCTCAATT
* *
4785955 CTTAATTCTCAATT
1 CTCAATCCTCAATT
4785969 CTCAAT
1 CTCAAT
4785975 TAATTTTTAA
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 86 1.00
ACGTcount: A:0.29, C:0.32, G:0.01, T:0.38
Consensus pattern (14 bp):
CTCAATCCTCAATT
Found at i:4792858 original size:22 final size:22
Alignment explanation
Indices: 4792830--4792871 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4792820 GTAATATAAC
4792830 TTAGTTAAAATTTTCTATTAGT
1 TTAGTTAAAATTTTCTATTAGT
4792852 TTAGTTAAAATTTTCTATTA
1 TTAGTTAAAATTTTCTATTA
4792872 ATCCTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TTAGTTAAAATTTTCTATTAGT
Found at i:4793213 original size:13 final size:13
Alignment explanation
Indices: 4793195--4793219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4793185 AATTAGAAAA
4793195 TCGGAGCAAGGTC
1 TCGGAGCAAGGTC
4793208 TCGGAGCAAGGT
1 TCGGAGCAAGGT
4793220 ATAGGGACCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.40, T:0.16
Consensus pattern (13 bp):
TCGGAGCAAGGTC
Found at i:4794730 original size:14 final size:14
Alignment explanation
Indices: 4794702--4794743 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
4794692 GTTGTCTTAA
*
4794702 TTTTTATATTTTTTG
1 TTTTT-TATTGTTTG
4794717 TTTTGTT-TTGTTTG
1 TTTT-TTATTGTTTG
4794731 TTTTTTATTGTTT
1 TTTTTTATTGTTT
4794744 AATAAGTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 16 0.67
15 5 0.21
16 1 0.04
ACGTcount: A:0.07, C:0.00, G:0.12, T:0.81
Consensus pattern (14 bp):
TTTTTTATTGTTTG
Found at i:4798611 original size:13 final size:13
Alignment explanation
Indices: 4798593--4798617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4798583 ATGAAATCAA
4798593 ATAATAATATATG
1 ATAATAATATATG
4798606 ATAATAATATAT
1 ATAATAATATAT
4798618 AAAAAAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATAATAATATATG
Found at i:4798704 original size:3 final size:3
Alignment explanation
Indices: 4798698--4798737 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4798688 CAACAACAAC
4798698 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4798738 GTAGTAGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4798794 original size:18 final size:18
Alignment explanation
Indices: 4798773--4798825 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
4798763 TAACAACAAC
*
4798773 AACAATAATAATGATAAT
1 AACAGTAATAATGATAAT
*
4798791 AACAGTAATGAT-AGTAAT
1 AACAGTAATAATGA-TAAT
*
4798809 AATAGTAATAATGATAA
1 AACAGTAATAATGATAA
4798826 ATTAATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (18 bp):
AACAGTAATAATGATAAT
Found at i:4798799 original size:9 final size:9
Alignment explanation
Indices: 4798778--4798820 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
4798768 ACAACAACAA
4798778 TAATAAT-G
1 TAATAATAG
*
4798786 ATAATAACAG
1 -TAATAATAG
*
4798796 TAATGATAG
1 TAATAATAG
4798805 TAATAATAG
1 TAATAATAG
4798814 TAATAAT
1 TAATAAT
4798821 GATAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 28 0.97
10 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (9 bp):
TAATAATAG
Found at i:4799921 original size:16 final size:16
Alignment explanation
Indices: 4799900--4799936 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
4799890 TTGGTTCGCT
4799900 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
4799916 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
4799932 GTAAT
1 GTAAT
4799937 AGCAAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:4800011 original size:44 final size:45
Alignment explanation
Indices: 4799918--4800012 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
4799908 ATAGAGGCGT
*
4799918 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
4799963 AATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
4800007 AATGGA
1 AATGGA
4800013 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:4800203 original size:17 final size:18
Alignment explanation
Indices: 4800170--4800203 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4800160 TATTATTAAG
*
4800170 TATATTTTAATTAAAATA
1 TATAATTTAATTAAAATA
4800188 TATAATTTAA-TAAAAT
1 TATAATTTAATTAAAAT
4800204 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAATTTAATTAAAATA
Found at i:4800215 original size:15 final size:16
Alignment explanation
Indices: 4800195--4800224 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4800185 ATATATAATT
4800195 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4800210 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4800225 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4800549 original size:18 final size:17
Alignment explanation
Indices: 4800526--4800562 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
4800516 AATTATTATT
4800526 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
4800542 AAATATATGATTTAATA
1 AAATATATGATTTAATA
4800559 AAAT
1 AAAT
4800563 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:4800572 original size:120 final size:120
Alignment explanation
Indices: 4800155--4800563 Score: 741
Period size: 120 Copynumber: 3.4 Consensus size: 120
4800145 ATATTTTAAC
* *
4800155 ATAATTATTATTAAGTATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
*
4800220 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT-AA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
4800274 CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAT-AAATTCTTAATAATCAATA
1 -ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATA
4800338 TTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
65 TTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* *
4800394 ATAATTATTATTAAATATATCTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
4800459 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
4800514 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
4800564 TAAAATAATT
Statistics
Matches: 281, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 112 0.40
120 169 0.60
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:4800598 original size:47 final size:46
Alignment explanation
Indices: 4800545--4800785 Score: 166
Period size: 47 Copynumber: 5.3 Consensus size: 46
4800535 TTAATTAAAA
*
4800545 TATATG-ATTTAATAAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATTA-TAATAAATTTTCT
* * *
4800592 TATATGAATTTGTATAATTTAAAATAATAATTAT--TAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * *
4800637 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
* *
4800683 TATATGAATTTATATAATTTAAAATAATTA--ATATTAAATATAATC-
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * * *
4800728 TA-AT-AATGATATATAATTTCATAA-AATTCTTAATAATAAATATTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
4800774 TATATGAATTTA
1 TATATGAATTTA
4800786 CTAAAATCAT
Statistics
Matches: 150, Mismatches: 22, Indels: 44
0.69 0.10 0.20
Matches are distributed among these distances:
43 6 0.04
44 45 0.30
45 18 0.12
46 13 0.09
47 58 0.39
48 10 0.07
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:4800619 original size:101 final size:98
Alignment explanation
Indices: 4800502--4800785 Score: 294
Period size: 91 Copynumber: 3.0 Consensus size: 98
4800492 ATACTATAAA
* *
4800502 ATATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTT-A
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAA-TAAAATATAT-ATTT-ATAAAATTTCA
4800566 AAATAATTATT-ACTAATAAATTTTCTTATATGAATTT
63 AAA-AATTATTGA-TAATAAATTTTCTTATATGAATTT
* * *
4800603 GTATAATTTAAAATAATAATTATTAAATATAATTTAAT--AATA-ATA--TAT--AATTTCATAA
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
*
4800661 AATTCTTGATAATAAATTTTCTTATATGAATTT
66 AATTATTGATAATAAATTTTCTTATATGAATTT
* * * *
4800694 ATATAATTTAAAATAATTAATATTAAATATAATCTAAT--AAT-GATA--TAT--AATTTCATAA
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
* * *
4800752 AATTCTTAATAATAAATATTCTTATATGAATTT
66 AATTATTGATAATAAATTTTCTTATATGAATTT
4800785 A
1 A
4800786 CTAAAATCAT
Statistics
Matches: 168, Mismatches: 12, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
91 120 0.71
92 4 0.02
93 2 0.01
94 1 0.01
96 1 0.01
97 2 0.01
98 4 0.02
100 1 0.01
101 33 0.20
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (98 bp):
ATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
AATTATTGATAATAAATTTTCTTATATGAATTT
Found at i:4800623 original size:13 final size:13
Alignment explanation
Indices: 4800605--4800647 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
4800595 ATGAATTTGT
4800605 ATAATTTAAAATA
1 ATAATTTAAAATA
*
4800618 ATAATTATTAAAT-
1 ATAATT-TAAAATA
4800631 ATAATTTAATAATA
1 ATAATTTAA-AATA
4800645 ATA
1 ATA
4800648 TATAATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 2 0.08
13 15 0.60
14 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAATTTAAAATA
Found at i:4800650 original size:54 final size:55
Alignment explanation
Indices: 4800262--4800664 Score: 192
Period size: 54 Copynumber: 7.2 Consensus size: 55
4800252 GATACTATAA
* *
4800262 AATATAATTTAACATAATTATTATTAAATATATTTTAATTAA-AATATAT-AATTT
1 AATATAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAATATATGAATTT
* * * * ** *
4800316 AATA-AATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATA
1 AATATAA-T-TTAA-AAT--A-ATTATTAT-TAAATATAATTTAATAATAATATATGA-A-T-T-
*
4800380 A
55 T
*
4800381 AATATAATTTGAAATAATTATTATTAAATAT-ATCTTAATTAA-AATATATG-ATTT
1 AATATAATTTAAAATAATTATTATTAAATATAAT-TTAA-TAATAATATATGAATTT
* * * * * ** *
4800435 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATA
1 AATATAA-T-TTAA-AAT--A-ATTATTAT-TAAATATAATTTAATAATAATATATGA-A-T-T-
*
4800500 A
55 T
* *
4800501 AATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA-AATATATG-ATTT
1 AATATAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAATATATGAATTT
* * *
4800555 AATAAAATTTAAAATAATTATTACT-AATA-AATTT--T-CT--TATATGAATTT
1 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGAATTT
* *
4800603 -GTATAATTTAAAATAATAATTATTAAATATAATTTAATAATAATATAT-AATTT
1 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGAATTT
* *
4800656 CATAAAATT
1 AATATAATT
4800665 CTTGATAATA
Statistics
Matches: 258, Mismatches: 50, Indels: 82
0.66 0.13 0.21
Matches are distributed among these distances:
47 26 0.10
48 8 0.03
49 6 0.02
51 1 0.00
52 5 0.02
53 11 0.04
54 44 0.17
55 7 0.03
56 7 0.03
57 5 0.02
58 2 0.01
59 42 0.16
60 43 0.17
61 18 0.07
62 2 0.01
63 8 0.03
64 8 0.03
65 7 0.03
66 8 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (55 bp):
AATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGAATTT
Found at i:4800654 original size:44 final size:44
Alignment explanation
Indices: 4800604--4800746 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 44
4800594 TATGAATTTG
4800604 TATAATTTAAAATAATAATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATAATTATTAAATATAATTTAATAATAATA
* * **
4800648 TATAATTT--CATAA-AATTCTTGATAATA-AATTTTCTTATATGAATTTA
1 TATAATTTAAAATAATAATTATT-A-AATATAA-TTTAATA-AT-AA--TA
* *
4800695 TATAATTTAAAATAATTAA-TATTAAATATAATCTAATAATGATA
1 TATAATTTAAAATAA-TAATTATTAAATATAATTTAATAATAATA
4800739 TATAATTT
1 TATAATTT
4800747 CATAAAATTC
Statistics
Matches: 77, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
41 6 0.08
42 7 0.09
43 9 0.12
44 20 0.26
45 2 0.03
46 1 0.01
47 12 0.16
48 8 0.10
49 7 0.09
50 3 0.04
51 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (44 bp):
TATAATTTAAAATAATAATTATTAAATATAATTTAATAATAATA
Found at i:4800675 original size:91 final size:91
Alignment explanation
Indices: 4800570--4800785 Score: 353
Period size: 91 Copynumber: 2.4 Consensus size: 91
4800560 AATTTAAAAT
* * *
4800570 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAA-TAATTATTAAATATA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA-TATTAAATATA
*
4800634 ATTTAATAATAATATATAATTTCATAA
65 ATCTAATAATAATATATAATTTCATAA
*
4800661 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
*
4800726 TCTAATAATGATATATAATTTCATAA
66 TCTAATAATAATATATAATTTCATAA
*
4800752 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
4800786 CTAAAATCAT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 113 0.97
92 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TCTAATAATAATATATAATTTCATAA
Found at i:4807487 original size:21 final size:21
Alignment explanation
Indices: 4807458--4807497 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4807448 AATATAAGAT
4807458 TAAGACCTAAGGAGATTTGAC
1 TAAGACCTAAGGAGATTTGAC
* *
4807479 TAAGTCCTAGGGAGATTTG
1 TAAGACCTAAGGAGATTTG
4807498 CTAGCTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (21 bp):
TAAGACCTAAGGAGATTTGAC
Found at i:4809115 original size:2 final size:2
Alignment explanation
Indices: 4809108--4809142 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4809098 TTCAACAATG
4809108 TA TA TA 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 TA TA TA T
4809143 TCATATGCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4809399 original size:184 final size:184
Alignment explanation
Indices: 4809144--4809583 Score: 587
Period size: 184 Copynumber: 2.4 Consensus size: 184
4809134 TATATATATT
* * * * ** *
4809144 CATATGCGAATCCAATTCAGCAA-TGAATATCGATATACCCAACAATTCAACAATGTATAACCAT
1 CATATACGAAT-CAATTCAGCAACT-TATATCCATATACCAAACAATTCGGCAATATATAACCAT
* ** * * * *
4809208 TCACGAATCAAGTTCGGCAATATATGATTATACACAAATCAAATTCGGCATCCTATATTCATAAA
64 ACACGAATCAAGTTCAACAATATATAATCAAACACAAATCAAATTCGGCATCCTATATACATAAA
* *
4809273 CAATTCAATATCGACAATATATAACCAAGTACGAA-TTAATTTCAGCAATGTACAAC
129 CAATTCAATATCGACAATATATAACCAAGTAC-AATTTAATTTCAGCAAGGTAAAAC
* *
4809329 CCTGTACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATATATAACCATAC
1 CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATATATAACCATAC
* * * ** *
4809394 ACGAATCAAGTTCAATAATGTATAATCAAATACAAATTTAATTTGGCATCCTATATACATAAACA
66 ACGAATCAAGTTCAACAATATATAATCAAACACAAATCAAATTCGGCATCCTATATACATAAACA
*
4809459 ATTCAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAAC
131 ATTCAATATCGACAATATATAACCAAGTACAATTTAATTTCAGCAAGGTAAAAC
* *
4809513 CATATACGAATCAATTCAGCAACTTTTATCCATATACCAAACAATTTGGCAATATATAACCATAC
1 CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATATATAACCATAC
*
4809578 AAGAAT
66 ACGAAT
4809584 TTCAATATAC
Statistics
Matches: 223, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
183 2 0.01
184 212 0.95
185 9 0.04
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (184 bp):
CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATATATAACCATAC
ACGAATCAAGTTCAACAATATATAATCAAACACAAATCAAATTCGGCATCCTATATACATAAACA
ATTCAATATCGACAATATATAACCAAGTACAATTTAATTTCAGCAAGGTAAAAC
Found at i:4815786 original size:144 final size:143
Alignment explanation
Indices: 4815523--4816035 Score: 520
Period size: 144 Copynumber: 3.6 Consensus size: 143
4815513 ATCTATTAAA
* * * * *
4815523 TGGTTCAATCCCTTCTTGTCTTGGTAAGTTGTCCAAATTGCATACGCTAAG-ACTTGATTTAAAT
1 TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATAC-CTTAGCACTTGATTCAAAT
* * ** * * *
4815587 CTATTAGAAGGTCTTATTCTTGAAGAAATTTGTGAC-TTAGCAAATTTAACATCATT-AAGCCTT
65 CTATTAAAAGGTCCTATTCTCCAAGAAATTTGT-ACTTTAACAAATTTAACTTCATTGTA-CCTT
4815650 TACCAAAACAAATTG-G
128 T-CCAAAACAAATTGAG
* * * * * * *
4815666 ATGGTTCAATCTCTTCTTGTCTTGGTAATTTGTCCAAATTGGATTCCTTACCACTTTATTCAAAT
1 -TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAGCACTTGATTCAAAT
* * *
4815731 CTATTAGAAGGTCCTATTCTCCAA-ATATTTTGTACTTTAACAAATTTAGCTTCATTGTACCTCT
65 CTATTAAAAGGTCCTATTCTCCAAGA-AATTTGTACTTTAACAAATTTAACTTCATTGTACCT-T
4815795 TCCAAAACAAATTGAG
128 TCCAAAACAAATTGAG
* * * * **
4815811 TGGTTCAATCCCTTCTTCTATTGGTATTTTAT-CAAAGCTGCAGTA-CTTAAGC-CTTGGTTTTA
1 TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAA-TTGCA-TACCTT-AGCACTTGATTCAA
* * * *
4815873 ATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAAAAAATTTAACTTCATTGTACCTC
63 ATCTATTAAAAGGTCCTATTCTCCAAGAAATTTGTACTTTAACAAATTTAACTTCATTGTACCTT
*
4815938 TCCTAAAACAAGTTGAG
128 TCC-AAAACAAATTGAG
* * * * * *
4815955 TGGTTCAATCCCATCTTGTATTGGCAATTTATCCAATTTGGATACCTTAGAACTTGATTCAAACC
1 TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAGCACTTGATTCAAATC
4816020 TATTAAAAGGTCCTAT
66 TATTAAAAGGTCCTAT
4816036 CCTAAAGAAA
Statistics
Matches: 306, Mismatches: 49, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
143 17 0.06
144 278 0.91
145 11 0.04
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (143 bp):
TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAGCACTTGATTCAAATC
TATTAAAAGGTCCTATTCTCCAAGAAATTTGTACTTTAACAAATTTAACTTCATTGTACCTTTCC
AAAACAAATTGAG
Found at i:4826335 original size:63 final size:63
Alignment explanation
Indices: 4826257--4826390 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 63
4826247 GCATGTAATG
* * * ** *
4826257 TGATTGTGCGTGCTATAGTGCTTGTGTAAAATAAATTGGTGTTAAAGGTGTTTATACAAGGAA
1 TGATTGTGCGCGCTATAGTGCTTGTGCAAAATAAACTGGAATTAAAGGTGTTGATACAAGGAA
* * * *
4826320 TGATTGTGCGCGCTATGGTGTTTGTGCAAAATAAACTGGAATTAAAGGTGTTGATGCAGGGAA
1 TGATTGTGCGCGCTATAGTGCTTGTGCAAAATAAACTGGAATTAAAGGTGTTGATACAAGGAA
*
4826383 TAATTGTG
1 TGATTGTG
4826391 TATGTTGTGA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.34
Consensus pattern (63 bp):
TGATTGTGCGCGCTATAGTGCTTGTGCAAAATAAACTGGAATTAAAGGTGTTGATACAAGGAA
Found at i:4828064 original size:7 final size:7
Alignment explanation
Indices: 4828054--4828144 Score: 74
Period size: 7 Copynumber: 13.0 Consensus size: 7
4828044 TATAAATAAT
4828054 AATTGAG
1 AATTGAG
4828061 AATTGAG
1 AATTGAG
4828068 AATTGAG
1 AATTGAG
* *
4828075 AATTAAA
1 AATTGAG
4828082 AATTGAG
1 AATTGAG
*
4828089 GATTGAG
1 AATTGAG
*
4828096 AATTAAG
1 AATTGAG
* *
4828103 AAATGAA
1 AATTGAG
4828110 AATTGAG
1 AATTGAG
* * *
4828117 GATTCAT
1 AATTGAG
*
4828124 AATTCAG
1 AATTGAG
*
4828131 GATTGAG
1 AATTGAG
*
4828138 GATTGAG
1 AATTGAG
4828145 TTAAAAAGAA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
7 65 1.00
ACGTcount: A:0.44, C:0.02, G:0.25, T:0.29
Consensus pattern (7 bp):
AATTGAG
Found at i:4828117 original size:28 final size:28
Alignment explanation
Indices: 4828047--4828120 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
4828037 AAATAATTAT
* * *
4828047 AAATAATAATTGAGAATTGAGAATTGAG
1 AAATAAAAATTGAGGATTGAGAATTAAG
*
4828075 AATTAAAAATTGAGGATTGAGAATTAAG
1 AAATAAAAATTGAGGATTGAGAATTAAG
*
4828103 AAATGAAAATTGAGGATT
1 AAATAAAAATTGAGGATT
4828121 CATAATTCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (28 bp):
AAATAAAAATTGAGGATTGAGAATTAAG
Found at i:4848825 original size:15 final size:14
Alignment explanation
Indices: 4848800--4848829 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4848790 AACAATTATT
4848800 TAAAATATAAAAAA
1 TAAAATATAAAAAA
4848814 TAAAACTATAAAAAA
1 TAAAA-TATAAAAAA
4848829 T
1 T
4848830 TATAAACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAATATAAAAAA
Found at i:4851287 original size:21 final size:22
Alignment explanation
Indices: 4851254--4851295 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
4851244 ATATTGTATA
4851254 TAAAAAAACAAATCAA-AATATG
1 TAAAAAAACAAAT-AATAATATG
*
4851276 TAAAATAA-AAATAATAATAT
1 TAAAAAAACAAATAATAATAT
4851296 ATATATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.50
22 7 0.39
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAAAAACAAATAATAATATG
Found at i:4851690 original size:23 final size:22
Alignment explanation
Indices: 4851661--4851778 Score: 103
Period size: 23 Copynumber: 5.2 Consensus size: 22
4851651 AAATATATAA
4851661 AATAATACATGATAAATTTAAAT
1 AATAATA-ATGATAAATTTAAAT
* *
4851684 AAAAATACATGATAAACTTAAAAT
1 AATAATA-ATGATAAA-TTTAAAT
** *
4851708 AATGTTAATAATAAATTTAAAAT
1 AATAATAATGATAAATTT-AAAT
* *
4851731 AATAATATATTATAAATTAAAAT
1 AATAATA-ATGATAAATTTAAAT
* *
4851754 AGTATTAATGATAAATTTAAA-
1 AATAATAATGATAAATTTAAAT
4851775 AATA
1 AATA
4851779 TATTAAACTT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
21 3 0.04
22 14 0.18
23 40 0.53
24 19 0.25
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (22 bp):
AATAATAATGATAAATTTAAAT
Found at i:4851778 original size:47 final size:47
Alignment explanation
Indices: 4851669--4851775 Score: 146
Period size: 46 Copynumber: 2.3 Consensus size: 47
4851659 AAAATAATAC
*
4851669 ATGATAAATTT-AAATAAAAATACATGATAAACTTAAAATAATGTTA
1 ATGATAAATTTAAAATAAAAATACATGATAAACTTAAAATAATATTA
* * * * *
4851715 ATAATAAATTTAAAATAATAATATATTATAAA-TTAAAATAGTATTA
1 ATGATAAATTTAAAATAAAAATACATGATAAACTTAAAATAATATTA
4851761 ATGATAAATTTAAAA
1 ATGATAAATTTAAAA
4851776 ATATATTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
46 36 0.68
47 17 0.32
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (47 bp):
ATGATAAATTTAAAATAAAAATACATGATAAACTTAAAATAATATTA
Found at i:4853002 original size:15 final size:16
Alignment explanation
Indices: 4852982--4853017 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4852972 CTAGACATTA
4852982 TTTTATTTT-ATTTAG
1 TTTTATTTTAATTTAG
*
4852997 TTTTATTTTAATTTGG
1 TTTTATTTTAATTTAG
4853013 TTTTA
1 TTTTA
4853018 ATGGGCCCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (16 bp):
TTTTATTTTAATTTAG
Found at i:4853284 original size:15 final size:15
Alignment explanation
Indices: 4853264--4853293 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4853254 GTTGCCTTCA
4853264 GCTTTAATCTGTTCC
1 GCTTTAATCTGTTCC
4853279 GCTTTAATCTGTTCC
1 GCTTTAATCTGTTCC
4853294 ACTTCAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.13, T:0.47
Consensus pattern (15 bp):
GCTTTAATCTGTTCC
Found at i:4853384 original size:46 final size:46
Alignment explanation
Indices: 4853315--4853403 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
4853305 AATCTATTCC
4853315 ACTGCAACGCCAGGAAAAAAAGATTCACTGCCTTCAGCTTTAATCT
1 ACTGCAACGCCAGGAAAAAAAGATTCACTGCCTTCAGCTTTAATCT
* * *
4853361 ACTGCAATGCCA-GAGAAATAAGATTCGCTGCCTTCAGCTTTAA
1 ACTGCAACGCCAGGA-AAAAAAGATTCACTGCCTTCAGCTTTAA
4853404 GATGTTCCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 2 0.05
46 37 0.95
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (46 bp):
ACTGCAACGCCAGGAAAAAAAGATTCACTGCCTTCAGCTTTAATCT
Found at i:4853530 original size:118 final size:118
Alignment explanation
Indices: 4853274--4853532 Score: 367
Period size: 118 Copynumber: 2.2 Consensus size: 118
4853264 GCTTTAATCT
* * * * *
4853274 GTTCCGCTTTAATCTGTTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGAAAAAAAGAT
1 GTTCAGCTTTAATCTGTTCCACTTCAGCTTCAATCTATTCCACTACAACACAAGGAAAAAAAGAT
* *
4853339 TCACTGCCTTCAGCTTTAATCTACTGCAATGCCAGAGAAATAAGATTCGCTGC
66 TCACTGCCTTCAGCTTTAATCTACTGCAACGCCAGAGAAATAAGATTAGCTGC
* ** *
4853392 CTTCAGCTTTAAGATGTTCCACTTCAGCTTCAATCTATTCCACTACAACACTAAGG-AAATAAGA
1 GTTCAGCTTTAATCTGTTCCACTTCAGCTTCAATCTATTCCACTACAACAC-AAGGAAAAAAAGA
* * *
4853456 TTCGCTGCCTTCAGCTTTAATCTACTGTAACGCCAGGGAAATAAGATTAGCTGC
65 TTCACTGCCTTCAGCTTTAATCTACTGCAACGCCAGAGAAATAAGATTAGCTGC
*
4853510 GTTCAGCTTTAATCTATTCCACT
1 GTTCAGCTTTAATCTGTTCCACT
4853533 ACAACACTAA
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
118 119 0.98
119 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (118 bp):
GTTCAGCTTTAATCTGTTCCACTTCAGCTTCAATCTATTCCACTACAACACAAGGAAAAAAAGAT
TCACTGCCTTCAGCTTTAATCTACTGCAACGCCAGAGAAATAAGATTAGCTGC
Found at i:4853589 original size:97 final size:97
Alignment explanation
Indices: 4853413--4854043 Score: 861
Period size: 97 Copynumber: 6.5 Consensus size: 97
4853403 AGATGTTCCA
* * * * *
4853413 CTTCAGCTTCAATCTATTCCACTACAACACTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
*
4853478 TACTGTAACGCCAGGGAAATAAGATTAGCTGC
66 TACTGCAACGCCAGGGAAATAAGATTAGCTGC
* * * * * **
4853510 GTTCAGCTTTAATCTATTCCACTACAACACTAAGGAGATAAGATTCGTTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* **
4853575 TACTGCAACACCAGGGAAATAAGATTCCCTGC
66 TACTGCAACGCCAGGGAAATAAGATTAGCTGC
* *
4853607 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* * *
4853672 TACTGCAACGCTAGAGAAATAAGATTTGCTGC
66 TACTGCAACGCCAGGGAAATAAGATTAGCTGC
* * *
4853704 CTTCAGCTTTAATCTATTCCACTGCAATGCTAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* * * *
4853769 TACTGCAATGCCAGGGAAATAAGATTTGTTGT
66 TACTGCAACGCCAGGGAAATAAGATTAGCTGC
* *
4853801 CTTCAGCTTTAATATGTTCCACTGCAACGCTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* *
4853866 TACTGCAACGCCAAGGAAATAAGATTCA-TTGC
66 TACTGCAACGCCAGGGAAATAAGATT-AGCTGC
* * *
4853898 CTTCAGCTTTAATATGTTCCACTGCAATGCCAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* *
4853963 TACTGCAACGCTAGGTAAATAAGATTCA-CTGC
66 TACTGCAACGCCAGGGAAATAAGATT-AGCTGC
* * * *
4853995 TTTCAGCTTTAATCTGTTCCACTGTAATGCCAAGGAAATAAGATTCACT
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACT
4854044 ATAATGACTT
Statistics
Matches: 484, Mismatches: 49, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
97 484 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (97 bp):
CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
TACTGCAACGCCAGGGAAATAAGATTAGCTGC
Found at i:4853767 original size:291 final size:291
Alignment explanation
Indices: 4853413--4854043 Score: 969
Period size: 291 Copynumber: 2.2 Consensus size: 291
4853403 AGATGTTCCA
* * ** * *
4853413 CTTCAGCTTCAATCTATTCCACTACAACACTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCTAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
* *
4853478 TACTGTAACGCCAGGGAAATAAGATTAGCTG-CGTTCAGCTTTAATCTATTCCACTACAACACTA
66 TACTGCAACGCCAGGGAAATAAGATTAGCTGTC-TTCAGCTTTAATATATTCCACTACAACACTA
* * * *
4853542 AGGAGATAAGATTCGTTGCCTTCAGCTTTAATCTACTGCAACACCAGGGAAATAAGATTCCCTGC
130 AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACACCAAGGAAATAAGATTCACTGC
*
4853607 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
195 CTTCAGCTTTAATATGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
**
4853672 TACTGCAACGCTAGAG-AAATAAGATTTGCTGC
260 TACTGCAACGCTAG-GTAAATAAGATTCACTGC
4853704 CTTCAGCTTTAATCTATTCCACTGCAATGCTAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCTAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
* * * * * *
4853769 TACTGCAATGCCAGGGAAATAAGATTTGTTGTCTTCAGCTTTAATATGTTCCACTGCAACGCTAA
66 TACTGCAACGCCAGGGAAATAAGATTAGCTGTCTTCAGCTTTAATATATTCCACTACAACACTAA
* *
4853834 GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCATTGCC
131 GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACACCAAGGAAATAAGATTCACTGCC
* *
4853899 TTCAGCTTTAATATGTTCCACTGCAATGCCAAGGAAATAAGATTCACTGCCTTCAGCTTTAATCT
196 TTCAGCTTTAATATGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCT
4853964 ACTGCAACGCTAGGTAAATAAGATTCACTGC
261 ACTGCAACGCTAGGTAAATAAGATTCACTGC
* * * *
4853995 TTTCAGCTTTAATCTGTTCCACTGTAATGCCAAGGAAATAAGATTCACT
1 CTTCAGCTTTAATCTATTCCACTGCAATGCTAAGGAAATAAGATTCACT
4854044 ATAATGACTT
Statistics
Matches: 309, Mismatches: 29, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
290 1 0.00
291 307 0.99
292 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (291 bp):
CTTCAGCTTTAATCTATTCCACTGCAATGCTAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
TACTGCAACGCCAGGGAAATAAGATTAGCTGTCTTCAGCTTTAATATATTCCACTACAACACTAA
GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACACCAAGGAAATAAGATTCACTGCC
TTCAGCTTTAATATGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCT
ACTGCAACGCTAGGTAAATAAGATTCACTGC
Found at i:4856302 original size:12 final size:11
Alignment explanation
Indices: 4856282--4856325 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
4856272 GGCCTCTCCT
4856282 TTTTC-TTTTC
1 TTTTCTTTTTC
4856292 TTTGTCTTTTTTC
1 TTT-TC-TTTTTC
*
4856305 TTTTCTTTTTA
1 TTTTCTTTTTC
4856316 TTTTCTTTTT
1 TTTTCTTTTT
4856326 TCATCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 3 0.10
11 17 0.57
12 2 0.07
13 8 0.27
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:4856302 original size:18 final size:16
Alignment explanation
Indices: 4856281--4856324 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
4856271 TGGCCTCTCC
4856281 TTTTTCTTTTCTTTGTCT
1 TTTTTCTTTTCTTT-T-T
4856299 TTTTTCTTTTCTTTTT
1 TTTTTCTTTTCTTTTT
*
4856315 ATTTTCTTTT
1 TTTTTCTTTT
4856325 TTCATCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.40
17 1 0.04
18 14 0.56
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTT
Found at i:4856308 original size:23 final size:23
Alignment explanation
Indices: 4856282--4856327 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4856272 GGCCTCTCCT
4856282 TTTTCTTTTCT-TTGTCTTTTTTC
1 TTTTCTTTT-TATTGTCTTTTTTC
*
4856305 TTTTCTTTTTATTTTCTTTTTTC
1 TTTTCTTTTTATTGTCTTTTTTC
4856328 ATCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTTATTGTCTTTTTTC
Found at i:4856336 original size:23 final size:24
Alignment explanation
Indices: 4856287--4856338 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4856277 CTCCTTTTTC
* *
4856287 TTTTCTTTGTCTTTTTTCTTTTCT
1 TTTTATTTGTCTTTTTTCTCTTCT
*
4856311 TTTTATTT-TCTTTTTTCATCTTTT
1 TTTTATTTGTCTTTTTTC-TCTTCT
4856335 TTTT
1 TTTT
4856339 TAAAATGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTTATTTGTCTTTTTTCTCTTCT
Found at i:4860289 original size:21 final size:22
Alignment explanation
Indices: 4860259--4860302 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
4860249 TCAGAGCGTC
*
4860259 AGTCCTATGAATAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
4860281 AGTCC-ATGAACAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
4860302 A
1 A
4860303 ATCATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (22 bp):
AGTCCTATGAACAATGGAGTCA
Found at i:4864810 original size:29 final size:29
Alignment explanation
Indices: 4864777--4864834 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4864767 CTATATAGAT
*
4864777 CGGATCAAATTAG-ACATTCTATTATTAAA
1 CGGATCAAATTAGTAC-TTATATTATTAAA
*
4864806 CGGATCAATTTAGTACTTATATTATTAAA
1 CGGATCAAATTAGTACTTATATTATTAAA
4864835 AATAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (29 bp):
CGGATCAAATTAGTACTTATATTATTAAA
Found at i:4865670 original size:2 final size:2
Alignment explanation
Indices: 4865665--4865707 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4865655 TTTATACACT
4865665 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4865707 T
1 T
4865708 CGAAATTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4867487 original size:19 final size:18
Alignment explanation
Indices: 4867465--4867534 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
4867455 TTTAAAAAAA
*
4867465 TTCAAAATAATTTTTAAAT
1 TTCAAAA-AATTTATAAAT
*
4867484 TTCAAAAAATTTATAAAAA
1 TTCAAAAAATTTAT-AAAT
* *
4867503 TTC-CAAAATTTATATAT
1 TTCAAAAAATTTATAAAT
*
4867520 TTTAAAAAA-TTATAA
1 TTCAAAAAATTTATAA
4867535 GAAATTCTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
17 9 0.22
18 19 0.46
19 13 0.32
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
TTCAAAAAATTTATAAAT
Found at i:4867565 original size:20 final size:19
Alignment explanation
Indices: 4867524--4867567 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4867514 ATATATTTTA
*
4867524 AAAAATTATAAGAAATTCT
1 AAAAATTATAAGAAAGTCT
4867543 AAAAATATATAAAGAAAGT-T
1 AAAAAT-TAT-AAGAAAGTCT
4867563 AAAAA
1 AAAAA
4867568 AGTAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (19 bp):
AAAAATTATAAGAAAGTCT
Found at i:4867568 original size:21 final size:18
Alignment explanation
Indices: 4867521--4867568 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 18
4867511 TTTATATATT
4867521 TTAAAAAATTATAAGAAA
1 TTAAAAAATTATAAGAAA
*
4867539 TTCTAAAAATATATAAAGAAA
1 TT-AAAAAAT-TAT-AAGAAA
4867560 GTTAAAAAA
1 -TTAAAAAA
4867569 GTAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
20 3 0.12
21 11 0.46
22 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
TTAAAAAATTATAAGAAA
Done.