Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 62 of 207
Found at i:17855509 original size:21 final size:20
Alignment explanation
Indices: 17855465--17855510 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
17855455 TTTCGCATGC
17855465 TTATAATTTTAAAAATAGCTT
1 TTATAATTTTAAAAATAGC-T
17855486 TTATAATTTTCAAAAAATAG-T
1 TTATAATTTT--AAAAATAGCT
17855507 TTAT
1 TTAT
17855511 GATTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 15 0.65
23 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
TTATAATTTTAAAAATAGCT
Found at i:17855556 original size:19 final size:19
Alignment explanation
Indices: 17855506--17855614 Score: 62
Period size: 18 Copynumber: 5.7 Consensus size: 19
17855496 CAAAAAATAG
* *
17855506 TTTATGATTATTTTTAATTT
1 TTTAAGATT-TTTTTAATGT
* * *
17855526 TTTAATAATTTTCT-ATGT
1 TTTAAGATTTTTTTAATGT
*
17855544 TTTAAGATTTTTTTAATTT
1 TTTAAGATTTTTTTAATGT
* *
17855563 TTTAGGA--TTTTTAATAAT
1 TTTAAGATTTTTTTAAT-GT
* * * *
17855581 TTTATGATATTTTGTAAAGA
1 TTTAAGAT-TTTTTTAATGT
17855601 TTTAAGATTTTTTT
1 TTTAAGATTTTTTT
17855615 TTACTTCAAT
Statistics
Matches: 66, Mismatches: 18, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
17 8 0.12
18 21 0.32
19 18 0.27
20 13 0.20
21 6 0.09
ACGTcount: A:0.28, C:0.01, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTAAGATTTTTTTAATGT
Found at i:17857374 original size:26 final size:26
Alignment explanation
Indices: 17857345--17857434 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
17857335 CTTATGAGAG
17857345 TCCCGTTATATGGCTCTTCGTGAGCT
1 TCCCGTTATATGGCTCTTCGTGAGCT
* *
17857371 TCCCGATTA-AAGGCTCTTTGTGAGCT
1 TCCCG-TTATATGGCTCTTCGTGAGCT
* * * *
17857397 TCCCGTTAT-T-TCTC-ACTTGAACT
1 TCCCGTTATATGGCTCTTCGTGAGCT
17857420 TCCCGTTATATGGCT
1 TCCCGTTATATGGCT
17857435 ATCCAGTGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 14 0.27
24 4 0.08
25 5 0.10
26 25 0.49
27 3 0.06
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.39
Consensus pattern (26 bp):
TCCCGTTATATGGCTCTTCGTGAGCT
Found at i:17857496 original size:24 final size:24
Alignment explanation
Indices: 17857451--17857501 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
17857441 TGCTTCCTAA
*
17857451 TTAATTGCTCTTCGGAGCTACCCG
1 TTAATTGCTCTTCAGAGCTACCCG
*
17857475 TTAATTGCTC-TCTAGAGTTACCCG
1 TTAATTGCTCTTC-AGAGCTACCCG
17857499 TTA
1 TTA
17857502 TAGTCTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (24 bp):
TTAATTGCTCTTCAGAGCTACCCG
Found at i:17864879 original size:223 final size:222
Alignment explanation
Indices: 17864492--17864937 Score: 739
Period size: 223 Copynumber: 2.0 Consensus size: 222
17864482 GCTGTTGATA
* *
17864492 GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAGGGGCTAAATTGAAAAGTTG
1 GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAAGGGCTAAATTGAAAAGATG
* * * *
17864557 TAAAATTTATGGGAAATTTTAATTTTTGTGAAATACATAGGCTATTATTTTTATAAGTAAAAATT
66 TAAAATTCATGGAAAATTCTAATTTTTGTGAAATACATAGGCTATTATTGTTATAAGTAAAAATT
* *
17864622 GGCTAGGCTTGGAATAAGAATTAAATTGCATGAATTTCATTTTCCGAGCCTAGGGATGAAATCGT
131 GGCTAGGCTTGGAATAAGAATTAAATTGCATGAATTTAATTTTCCGAGCCTAAGGATGAAATCGT
17864687 CATTAATTAAAAGTATAGAGGCAAAAT
196 CATTAATTAAAAGTATAGAGGCAAAAT
17864714 GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAAGGGCTAAATTGAAAAGATG
1 GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAAGGGCTAAATTGAAAAGATG
*
17864779 TAAAATTCATGGAAAAATTCTAATTTTTGTGAAATACATGGGCTATTATTGTTATAAGTAAAAAT
66 TAAAATTCATGG-AAAATTCTAATTTTTGTGAAATACATAGGCTATTATTGTTATAAGTAAAAAT
* ** *
17864844 TGGCTAGGCTTGGAATAAGGATTAAATTGCATGAATTTAATTTTTTGAGCCTAAGGATGAAATTG
130 TGGCTAGGCTTGGAATAAGAATTAAATTGCATGAATTTAATTTTCCGAGCCTAAGGATGAAATCG
* * *
17864909 TTATTAATTAAAAGTATAGGGGCTAAAT
195 TCATTAATTAAAAGTATAGAGGCAAAAT
17864937 G
1 G
17864938 GAAATTTTAT
Statistics
Matches: 207, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
222 74 0.36
223 133 0.64
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (222 bp):
GATAAACAACTTTTGTTAAAGGAATTTTGATGAAAACATGATTTAAGGGCTAAATTGAAAAGATG
TAAAATTCATGGAAAATTCTAATTTTTGTGAAATACATAGGCTATTATTGTTATAAGTAAAAATT
GGCTAGGCTTGGAATAAGAATTAAATTGCATGAATTTAATTTTCCGAGCCTAAGGATGAAATCGT
CATTAATTAAAAGTATAGAGGCAAAAT
Found at i:17865459 original size:26 final size:26
Alignment explanation
Indices: 17865429--17865485 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
17865419 GCAACTCTTA
*
17865429 TGAGCGTCCCG-TTATATGGCTCTTCG
1 TGAGCGTCCCGATTA-AAGGCTCTTCG
* * *
17865455 TGAGCTTCTCGATTAAAGGCTCTTTG
1 TGAGCGTCCCGATTAAAGGCTCTTCG
17865481 TGAGC
1 TGAGC
17865486 TTCTTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (26 bp):
TGAGCGTCCCGATTAAAGGCTCTTCG
Found at i:17874172 original size:24 final size:24
Alignment explanation
Indices: 17874145--17874209 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
17874135 CGAAAGAGTG
*
17874145 TCCCGTTATTAGCTCTCA-TGAGCT
1 TCCCGTTATTAGCTCT-AGCGAGCT
*
17874169 TCCCGTTATATAGTTCTAGCGAGCT
1 TCCCGTTAT-TAGCTCTAGCGAGCT
* *
17874194 TTCCGTTAATAGCTCT
1 TCCCGTTATTAGCTCT
17874210 TCGGAGCATC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 16 0.47
25 18 0.53
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (24 bp):
TCCCGTTATTAGCTCTAGCGAGCT
Found at i:17877218 original size:43 final size:42
Alignment explanation
Indices: 17877140--17877301 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
17877130 CTTTAGCGGT
* * *
17877140 ACCTTTAGCGGCGCTTTCTCAGAAACGTCGCTAAAGAACATG
1 ACCTTTAGCGGCGCATTCTCACAAACGCCGCTAAAGAACATG
17877182 ACCTTTAGCGGCG-ATTCTACGACAAACGCCGCTAAAGAACATG
1 ACCTTTAGCGGCGCATTCT-C-ACAAACGCCGCTAAAGAACATG
* * * ***
17877225 ATCTTTAGCAGCGCATAC-CAACAAACGCCGCTAAAGCTTATG
1 ACCTTTAGCGGCGCATTCTC-ACAAACGCCGCTAAAGAACATG
* * * *
17877267 TTCTTTTAGCGGCGCCTTTTCCACAAACGCCGCTA
1 -ACCTTTAGCGGCGCATTCT-CACAAACGCCGCTA
17877302 CAAGTAATGT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 4 0.04
42 34 0.35
43 42 0.43
44 16 0.16
45 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (42 bp):
ACCTTTAGCGGCGCATTCTCACAAACGCCGCTAAAGAACATG
Found at i:17877272 original size:42 final size:42
Alignment explanation
Indices: 17877203--17877317 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
17877193 CGATTCTACG
* *
17877203 ACAAACGCCGCTAAAGAACATGATCTTTAGCAGCG-C-ATACC
1 ACAAACGCCGCTAAAGTA-ATGTTCTTTAGCAGCGCCTATACC
* * * *
17877244 AACAAACGCCGCTAAAGCTTATGTTCTTTTAGCGGCGCCTTTTCC
1 -ACAAACGCCGCTAAAG-TAATGTTC-TTTAGCAGCGCCTATACC
17877289 ACAAACGCCGCTACAAGTAATGTTCTTTA
1 ACAAACGCCGCTA-AAGTAATGTTCTTTA
17877318 CCGGCGTTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 21 0.34
43 13 0.21
44 21 0.34
45 6 0.10
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
ACAAACGCCGCTAAAGTAATGTTCTTTAGCAGCGCCTATACC
Found at i:17877312 original size:44 final size:44
Alignment explanation
Indices: 17877245--17877341 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
17877235 GCGCATACCA
* *
17877245 ACAAACGCCGCTAAAGCTTATGTTCTTTTAGCGGCG-CCTTTTCC
1 ACAAACGCCGCTAAAGCTAATGTTC-TTTACCGGCGTCCTTTTCC
**
17877289 ACAAACGCCGCTACAAG-TAATGTTCTTTACCGGCGTTGTTTTCC
1 ACAAACGCCGCTA-AAGCTAATGTTCTTTACCGGCGTCCTTTTCC
17877333 ACAAACGCC
1 ACAAACGCC
17877342 ACTATGGTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 9 0.19
44 35 0.74
45 3 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGCTAATGTTCTTTACCGGCGTCCTTTTCC
Found at i:17877788 original size:21 final size:21
Alignment explanation
Indices: 17877764--17877807 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17877754 TTTTGAACCC
*
17877764 CTACTTCTCTCACTGCAGCCT
1 CTACTTCCCTCACTGCAGCCT
* *
17877785 CTACTTCCCTCGCTGCCGCCT
1 CTACTTCCCTCACTGCAGCCT
17877806 CT
1 CT
17877808 GCTTTAAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.48, G:0.11, T:0.32
Consensus pattern (21 bp):
CTACTTCCCTCACTGCAGCCT
Found at i:17883286 original size:9 final size:9
Alignment explanation
Indices: 17883269--17883904 Score: 211
Period size: 9 Copynumber: 74.4 Consensus size: 9
17883259 TAAGTATAAT
*
17883269 TAAGCTATG
1 TAAGTTATG
17883278 TAAGTTATG
1 TAAGTTATG
17883287 TAAGTTATG
1 TAAGTTATG
17883296 TATTAAGTTAT-
1 ---TAAGTTATG
*
17883307 TTA-TTATG
1 TAAGTTATG
* *
17883315 AAAATTATG
1 TAAGTTATG
17883324 TAAGTTATG
1 TAAGTTATG
17883333 T-A-TTATG
1 TAAGTTATG
*
17883340 -AATATTATG
1 TAA-GTTATG
*
17883349 TAAGTTGTG
1 TAAGTTATG
17883358 -AA-TTATG
1 TAAGTTATG
**
17883365 TAAGTGCTG
1 TAAGTTATG
17883374 T-A-TTATG
1 TAAGTTATG
17883381 ATCAA-TTATG
1 -T-AAGTTATG
17883391 TAAGTTATG
1 TAAGTTATG
*
17883400 T-A-TTCTG
1 TAAGTTATG
* *
17883407 AAAATTATG
1 TAAGTTATG
* *
17883416 TAAGCTGTG
1 TAAGTTATG
* *
17883425 T-A-CTATA
1 TAAGTTATG
17883432 TAAGTTATG
1 TAAGTTATG
17883441 TAAGTTATG
1 TAAGTTATG
* *
17883450 AAAATTATG
1 TAAGTTATG
17883459 TAAGTTATG
1 TAAGTTATG
*
17883468 TAAGTT-TT
1 TAAGTTATG
*
17883476 TTA-TTATG
1 TAAGTTATG
* * * **
17883484 AAAATGAAC
1 TAAGTTATG
*
17883493 TAACTTATG
1 TAAGTTATG
17883502 T-A-TTATG
1 TAAGTTATG
* *
17883509 AAAATTATG
1 TAAGTTATG
*
17883518 TAAGTTCA-A
1 TAAGTT-ATG
17883527 T-A-TTATG
1 TAAGTTATG
17883534 TAAGTTATG
1 TAAGTTATG
*
17883543 T-A-TTACG
1 TAAGTTATG
* *
17883550 AAAATTATG
1 TAAGTTATG
*
17883559 TAAGTTCA-A
1 TAAGTT-ATG
17883568 T-A-TTATG
1 TAAGTTATG
17883575 TAAGTTATG
1 TAAGTTATG
17883584 T-A-TTATG
1 TAAGTTATG
* *
17883591 AAAATTATG
1 TAAGTTATG
*
17883600 TAAGTTGTG
1 TAAGTTATG
17883609 TATAG-TA--
1 TA-AGTTATG
17883616 TAAGTTATG
1 TAAGTTATG
17883625 TAAGTTATG
1 TAAGTTATG
17883634 T-A-TTATG
1 TAAGTTATG
* *
17883641 AAAATTATG
1 TAAGTTATG
*
17883650 TAAGTTGTG
1 TAAGTTATG
17883659 TATAG-TA--
1 TA-AGTTATG
17883666 TAAGTTATG
1 TAAGTTATG
*
17883675 TAGGTTATG
1 TAAGTTATG
* *
17883684 AAAATTATG
1 TAAGTTATG
17883693 TAAGTTAT-
1 TAAGTTATG
***
17883701 TTTTTTATG
1 TAAGTTATG
* * *
17883710 AAAATTAAG
1 TAAGTTATG
17883719 TAAGTTATG
1 TAAGTTATG
17883728 T-A-TTATG
1 TAAGTTATG
* *
17883735 AAAATTATG
1 TAAGTTATG
*
17883744 TAAGTTCA-A
1 TAAGTT-ATG
17883753 T-A-TTATG
1 TAAGTTATG
17883760 TAAGTTATG
1 TAAGTTATG
*
17883769 T-A-CTATG
1 TAAGTTATG
* *
17883776 AAAATTATG
1 TAAGTTATG
17883785 TAAGTTATG
1 TAAGTTATG
* *
17883794 TATGTTGTG
1 TAAGTTATG
*
17883803 T-ATTATATG
1 TAAGT-TATG
17883812 TAAGTTATG
1 TAAGTTATG
*
17883821 TATGTGTATAATG
1 TA--AGT-T-ATG
*
17883834 AAAGTTATG
1 TAAGTTATG
*
17883843 TAAGTTGTG
1 TAAGTTATG
*
17883852 T-A-TAATG
1 TAAGTTATG
17883859 TAAGTTATG
1 TAAGTTATG
*
17883868 TAAGTTAAG
1 TAAGTTATG
*
17883877 T-A-TAAT-
1 TAAGTTATG
*
17883883 TAAGCTATG
1 TAAGTTATG
17883892 TAAGTTATG
1 TAAGTTATG
17883901 TAAG
1 TAAG
17883905 ATGTGATAGT
Statistics
Matches: 452, Mismatches: 110, Indels: 130
0.65 0.16 0.19
Matches are distributed among these distances:
6 8 0.02
7 79 0.17
8 50 0.11
9 280 0.62
10 18 0.04
11 4 0.01
12 9 0.02
13 4 0.01
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:17883327 original size:25 final size:25
Alignment explanation
Indices: 17883299--17883364 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
17883289 AGTTATGTAT
*
17883299 TAAGTTATTTATTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
*
17883324 TAAGTTATGTATTATGAATATTATG
1 TAAGTTATGTATTATGAAAATTATG
* *
17883349 TAAGTTGTGAATTATG
1 TAAGTTATGTATTATG
17883365 TAAGTGCTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTATTATGAAAATTATG
Found at i:17883337 original size:16 final size:16
Alignment explanation
Indices: 17883302--17883869 Score: 99
Period size: 16 Copynumber: 34.5 Consensus size: 16
17883292 TATGTATTAA
* *
17883302 GTTATTTATTATGAAA
1 GTTATGTATTATGTAA
*
17883318 ATTATGTAAGTTATGT-A
1 GTTATGT-A-TTATGTAA
17883335 -TTATGAATATTATGTAA
1 GTTATG--TATTATGTAA
* *
17883352 GTTGTGAATTATGTAA
1 GTTATGTATTATGTAA
**
17883368 GTGCTGTATTATGATCAA
1 GTTATGTATTATG-T-AA
17883386 -TTATGTAAGTTATGT-A
1 GTTATGT-A-TTATGTAA
* *
17883402 -TTCTGAAAATTATGTAA
1 GTTATG--TATTATGTAA
* * * *
17883419 GCTGTGTACTATATAA
1 GTTATGTATTATGTAA
*
17883435 GTTATGTAAGTTATGAAA
1 GTTATGT-A-TTATGTAA
*
17883453 ATTATGTAAGTTATGTAA
1 GTTATGT-A-TTATGTAA
* * *
17883471 GTTTTTTATTATGAAA
1 GTTATGTATTATGTAA
* * **
17883487 ATGAACTAACTTATGT-A
1 GTTATGT-A-TTATGTAA
*
17883504 -TTATGAAAATTATGTAA
1 GTTATG--TATTATGTAA
*
17883521 GTTCA-ATATTATGTAA
1 GTT-ATGTATTATGTAA
*
17883537 GTTATGTATTACG-AA
1 GTTATGTATTATGTAA
17883552 ---A---ATTATGTAA
1 GTTATGTATTATGTAA
*
17883562 GTTCA-ATATTATGTAA
1 GTT-ATGTATTATGTAA
*
17883578 GTTATGTATTATGAAA
1 GTTATGTATTATGTAA
* *
17883594 ATTATGTAAGTTGTGTATA
1 GTTATGT-A-TTATGTA-A
*
17883613 G-TAT-AAGTTATGTAA
1 GTTATGTA-TTATGTAA
*
17883628 GTTATGTATTATGAAA
1 GTTATGTATTATGTAA
* *
17883644 ATTATGTAAGTTGTGTATA
1 GTTATGT-A-TTATGTA-A
* *
17883663 G-TAT-AAGTTATGTAG
1 GTTATGTA-TTATGTAA
*
17883678 GTTATGAAAATTATGTAA
1 GTTATG--TATTATGTAA
* * *
17883696 GTTATTTTTTTATGAAA
1 GTTA-TGTATTATGTAA
* *
17883713 ATTAAGTAAGTTATGT-A
1 GTTATGT-A-TTATGTAA
*
17883730 -TTATGAAAATTATGTAA
1 GTTATG--TATTATGTAA
*
17883747 GTTCA-ATATTATGTAA
1 GTT-ATGTATTATGTAA
* *
17883763 GTTATGTACTATGAAA
1 GTTATGTATTATGTAA
* *
17883779 ATTATGTAAGTTATGTAT
1 GTTATGT-A-TTATGTAA
*
17883797 GTTGTGTATTATATGTAA
1 GTTATGTA-T-TATGTAA
*
17883815 GTTATGTA-TGTGT-A
1 GTTATGTATTATGTAA
* *
17883829 -TAATGAAAGTTATGTAA
1 GTTATG-TA-TTATGTAA
* *
17883846 GTTGTGTATAATGTAA
1 GTTATGTATTATGTAA
17883862 GTTATGTA
1 GTTATGTA
17883870 AGTTAAGTAT
Statistics
Matches: 396, Mismatches: 95, Indels: 122
0.65 0.15 0.20
Matches are distributed among these distances:
9 5 0.01
10 2 0.01
12 1 0.00
13 4 0.01
14 3 0.01
15 12 0.03
16 210 0.53
17 38 0.10
18 109 0.28
19 12 0.03
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (16 bp):
GTTATGTATTATGTAA
Found at i:17883376 original size:41 final size:41
Alignment explanation
Indices: 17883317--17883698 Score: 133
Period size: 41 Copynumber: 8.9 Consensus size: 41
17883307 TTATTATGAA
*
17883317 AATTATGTAAGTTATGTATTATGA-ATATTATGTAAGTTGTG
1 AATTATGTAAGTGATGTATTATGATA-ATTATGTAAGTTGTG
*
17883358 AATTATGTAAGTGCTGTATTATGATCAATTATGTAAGTTATGTATTCTG
1 AATTATGTAAGTGATGTATTATGAT-AATTATGTAAG-T-TG-----TG
* *
17883407 AAAATTATGTAAGCTG-TGTACTAT-ATAAGTTATGTAAGTTATG
1 --AATTATGTAAG-TGATGTATTATGATAA-TTATGTAAGTTGTG
* * ** **
17883450 AAAATTATGTAAGTTATGTA--A-GTTTTTTAT-T-A--TGAA
1 --AATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* ** * * * **
17883486 AATGAACTAACTTATGTATTATGAAAATTATGTAAGTT-CA
1 AATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* * * **
17883526 ATATTATGTAAGTTATGTATTACGAAAATTATGTAAGTT-CA
1 A-ATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* *
17883567 ATATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTGTATAG
1 A-ATTATGTAAGTGATGTATTATGATAATTATGTAAG-T-TG--T-G
* *
17883614 TATAAGTTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTG
1 ---AA-TTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
* * * *
17883659 TA-TAGTATAAGTTATGTAGGTTATGAAAATTATGTAAGTT
1 AATTA-TGTAAGTGATGTA--TTATGATAATTATGTAAGTT
17883699 ATTTTTTTAT
Statistics
Matches: 275, Mismatches: 30, Indels: 70
0.73 0.08 0.19
Matches are distributed among these distances:
34 14 0.05
36 2 0.01
37 5 0.02
38 2 0.01
39 2 0.01
40 8 0.03
41 107 0.39
42 13 0.05
43 42 0.15
44 2 0.01
45 1 0.00
46 1 0.00
48 3 0.01
49 7 0.03
50 46 0.17
51 18 0.07
52 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.43
Consensus pattern (41 bp):
AATTATGTAAGTGATGTATTATGATAATTATGTAAGTTGTG
Found at i:17883530 original size:25 final size:24
Alignment explanation
Indices: 17883358--17883770 Score: 163
Period size: 25 Copynumber: 16.4 Consensus size: 24
17883348 GTAAGTTGTG
*
17883358 AATTATGTAAGTGCT-GTATTATGATC
1 AATTATGTAAGT--TAGTATTATGA-A
*
17883384 AATTATGTAAGTTATGTATTCTGAA
1 AATTATGTAAGTTA-GTATTATGAA
*
17883409 AATTATGTAAGCTGT-GTACTAT-ATA
1 AATTATGTAAG-T-TAGTATTATGA-A
* * *
17883434 AGTTATGTAAGTTATGAAAATTATGTA
1 AATTATGTAAGTTA-G--TATTATGAA
* **
17883461 AGTTATGTAAGTTTTTTATTATGAA
1 AATTATGTAAG-TTAGTATTATGAA
* ** *
17883486 AATGAACTAACTTATGTATTATGAA
1 AATTATGTAAGTTA-GTATTATGAA
* *
17883511 AATTATGTAAGTTCAATATTATGTA
1 AATTATGTAAGTT-AGTATTATGAA
* *
17883536 AGTTATGT-A-TTACGAAAATTATGTAAGTTCA
1 AATTATGTAAGTTA-G--TATTATG--A----A
17883567 ATATTATGTAAGTTATGTATTATGAA
1 A-ATTATGTAAGTTA-GTATTATGAA
*
17883593 AATTATGTAAGTT-GT-GTATAGTATA
1 AATTATGTAAGTTAGTATTAT-G-A-A
*
17883618 AGTTATGTAAGTTATGTATTATGAA
1 AATTATGTAAGTTA-GTATTATGAA
*
17883643 AATTATGTAAGTT-GT-GTAT---
1 AATTATGTAAGTTAGTATTATGAA
*
17883662 -AGTA--TAAGTTATGTAGGTTATGAA
1 AATTATGTAAGTTA-GTA--TTATGAA
* *
17883686 AATTATGTAAGTTATTTTTTTATGAA
1 AATTATGTAAGTTA--GTATTATGAA
*
17883712 AATTAAGTAAGTTATGTATTATGAA
1 AATTATGTAAGTTA-GTATTATGAA
* *
17883737 AATTATGTAAGTTCAATATTATGTA
1 AATTATGTAAGTT-AGTATTATGAA
*
17883762 AGTTATGTA
1 AATTATGTA
17883771 CTATGAAAAT
Statistics
Matches: 294, Mismatches: 49, Indels: 89
0.68 0.11 0.21
Matches are distributed among these distances:
16 6 0.02
18 5 0.02
21 3 0.01
22 7 0.02
23 8 0.03
24 7 0.02
25 158 0.54
26 46 0.16
27 27 0.09
28 7 0.02
30 1 0.00
31 2 0.01
32 12 0.04
33 1 0.00
34 4 0.01
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (24 bp):
AATTATGTAAGTTAGTATTATGAA
Found at i:17883531 original size:50 final size:45
Alignment explanation
Indices: 17883487--17883790 Score: 228
Period size: 41 Copynumber: 6.8 Consensus size: 45
17883477 TATTATGAAA
*
17883487 ATGAACTAACTTATGTATTATGAAAATTATGTAAGTTCAATAT-T-
1 ATGAA-TAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
*
17883531 ATG--TAAGTTATGTATTACGAAAATTATGTAAGTTCAATAT-T-
1 ATGAATAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
** *
17883572 ATG--TAAGTTATGTATTATGAAAATTATGTAAGTTGTGTATAGTATA
1 ATGAATAAGTTATGTATTATGAAAATTATGTAAG-T-TCAATA-TATG
* * * *
17883618 AGTTATGTAAGTTATGTATTATGAAAATTATGTAAGTT--GTGTAT-
1 A-TGA-ATAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
* * *
17883662 A-GTATAAGTTATGTAGGTTATGAAAATTATGTAAGTT-ATTTTTTTATG
1 ATGAATAAGTTATGTA--TTATGAAAATTATGTAAGTTCA---ATATATG
*
17883710 AAAATTAAGTAAGTTATGTATTATGAAAATTATGTAAGTTCAATAT-T-
1 ---ATGAA-TAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
*
17883757 ATG--TAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATGAATAAGTTATGTATTATGAAAATTATGTAAGTT
17883791 ATGTATGTTG
Statistics
Matches: 219, Mismatches: 19, Indels: 47
0.77 0.07 0.16
Matches are distributed among these distances:
41 108 0.49
42 1 0.00
43 24 0.11
44 7 0.03
45 4 0.02
46 2 0.01
47 5 0.02
48 2 0.01
49 3 0.01
50 29 0.13
51 21 0.10
52 2 0.01
53 11 0.05
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (45 bp):
ATGAATAAGTTATGTATTATGAAAATTATGTAAGTTCAATATATG
Found at i:17883715 original size:26 final size:25
Alignment explanation
Indices: 17883666--17883902 Score: 119
Period size: 25 Copynumber: 9.4 Consensus size: 25
17883656 GTGTATAGTA
17883666 TAAGTTATGTAGGTTATGAAAATTATG
1 TAAGTTATGTA--TTATGAAAATTATG
* * *
17883693 TAAGTTATTTTTTTATGAAAATTAAG
1 TAAGTTA-TGTATTATGAAAATTATG
17883719 TAAGTTATGTATTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
* * *
17883744 TAAGTTCA-ATATTATGTAAGTTATG
1 TAAGTT-ATGTATTATGAAAATTATG
* * * *
17883769 T-A-CTATGAAAATTATGTAAGTTATG
1 TAAGTTATG--TATTATGAAAATTATG
* * * *
17883794 TATGTTGTGTATTATATGTAAGTTATG
1 TAAGTTATGTA-T-TATGAAAATTATG
* * *
17883821 T-A--TGTGTATAATGAAAGTTATG
1 TAAGTTATGTATTATGAAAATTATG
* * * *
17883843 TAAGTTGTGTATAATGTAAGTTATG
1 TAAGTTATGTATTATGAAAATTATG
* * * **
17883868 TAAGTTAAGTATAAT-TAAGCTATG
1 TAAGTTATGTATTATGAAAATTATG
17883892 TAAGTTATGTA
1 TAAGTTATGTA
17883903 AGATGTGATA
Statistics
Matches: 174, Mismatches: 24, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
22 13 0.07
23 3 0.02
24 25 0.14
25 85 0.49
26 22 0.13
27 24 0.14
28 2 0.01
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (25 bp):
TAAGTTATGTATTATGAAAATTATG
Found at i:17883807 original size:25 final size:25
Alignment explanation
Indices: 17883718--17883902 Score: 137
Period size: 25 Copynumber: 7.5 Consensus size: 25
17883708 TGAAAATTAA
* * *
17883718 GTAAGTTATGTATTATGAAAATTAT
1 GTAAGTTGTGTATTATGTAAGTTAT
***
17883743 GTAAGTTCAATATTATGTAAGTTAT
1 GTAAGTTGTGTATTATGTAAGTTAT
* ***
17883768 GT-ACTATGAAAATTATGTAAGTTAT
1 GTAAGT-TGTGTATTATGTAAGTTAT
*
17883793 GTATGTTGTGTATTATATGTAAGTTAT
1 GTAAGTTGTGTA-T-TATGTAAGTTAT
* *
17883820 GT-A--TGTGTATAATGAAAGTTAT
1 GTAAGTTGTGTATTATGTAAGTTAT
*
17883842 GTAAGTTGTGTATAATGTAAGTTAT
1 GTAAGTTGTGTATTATGTAAGTTAT
** * *
17883867 GTAAGTTAAGTATAAT-TAAGCTAT
1 GTAAGTTGTGTATTATGTAAGTTAT
*
17883891 GTAAGTTATGTA
1 GTAAGTTGTGTA
17883903 AGATGTGATA
Statistics
Matches: 132, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
22 12 0.09
23 2 0.02
24 26 0.20
25 76 0.58
26 2 0.02
27 14 0.11
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (25 bp):
GTAAGTTGTGTATTATGTAAGTTAT
Found at i:17883892 original size:49 final size:51
Alignment explanation
Indices: 17883782--17883927 Score: 153
Period size: 49 Copynumber: 2.9 Consensus size: 51
17883772 TATGAAAATT
* * *
17883782 ATGTAAGTTATGTATGTTGTGTATTATATGTAAGTTATGTATG-T--GTATA
1 ATGTAAGTTATGTAAGTTGTGTA-TAGATGTAAGTTATGTAAGTTAAGTATA
*
17883831 ATGAAAGTTATGTAAGTTGTGTATA-ATGTAAGTTATGTAAGTTAAGTATA
1 ATGTAAGTTATGTAAGTTGTGTATAGATGTAAGTTATGTAAGTTAAGTATA
* * *
17883881 AT-TAAGCTATGTAAGTTATGTA-AGATGTGATAGTCATGTAA-TTAAGT
1 ATGTAAGTTATGTAAGTTGTGTATAGATGT-A-AGTTATGTAAGTTAAGT
17883928 TATGTTTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
47 15 0.18
48 4 0.05
49 42 0.50
50 14 0.17
51 9 0.11
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.42
Consensus pattern (51 bp):
ATGTAAGTTATGTAAGTTGTGTATAGATGTAAGTTATGTAAGTTAAGTATA
Found at i:17884620 original size:21 final size:21
Alignment explanation
Indices: 17884596--17884665 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
17884586 AGATGTTTAT
17884596 ATAAATACGCTGAAAATATAA
1 ATAAATACGCTGAAAATATAA
*** *
17884617 ATAAATAATAT-ATCAATA-ATA
1 ATAAATACGCTGA-AAATATA-A
*
17884638 TTAAATACGCTGAAAATATAA
1 ATAAATACGCTGAAAATATAA
17884659 ATAAATA
1 ATAAATA
17884666 GTCCCAAAAC
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.29
Consensus pattern (21 bp):
ATAAATACGCTGAAAATATAA
Found at i:17885135 original size:16 final size:18
Alignment explanation
Indices: 17885055--17885125 Score: 101
Period size: 19 Copynumber: 3.9 Consensus size: 18
17885045 AGAATCACAT
17885055 ATGCTTAACATTC-AAA-
1 ATGCTTAACATTCAAAAC
*
17885071 ATGTTTAACATTCAAAAC
1 ATGCTTAACATTCAAAAC
17885089 ATAGCTTAACATTCAAAAC
1 AT-GCTTAACATTCAAAAC
17885108 TATGCTTAACATTCAAAA
1 -ATGCTTAACATTCAAAA
17885126 TGTTTAACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
16 12 0.24
17 3 0.06
18 2 0.04
19 30 0.61
20 2 0.04
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (18 bp):
ATGCTTAACATTCAAAAC
Found at i:17886676 original size:7 final size:7
Alignment explanation
Indices: 17886663--17886744 Score: 76
Period size: 7 Copynumber: 11.7 Consensus size: 7
17886653 TAAAGCGGCT
17886663 TAAACCC
1 TAAACCC
*
17886670 CAAACCC
1 TAAACCC
*
17886677 TAAACCT
1 TAAACCC
17886684 TAAACCC
1 TAAACCC
17886691 TAAACTCC
1 TAAAC-CC
* *
17886699 CAAACCT
1 TAAACCC
17886706 TAAACCC
1 TAAACCC
*
17886713 TAAACAC
1 TAAACCC
17886720 TAAA-CC
1 TAAACCC
* * *
17886726 TATATCA
1 TAAACCC
17886733 TAAACCC
1 TAAACCC
17886740 TAAAC
1 TAAAC
17886745 TCAAAACTCT
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
6 4 0.07
7 48 0.83
8 6 0.10
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:17886704 original size:29 final size:28
Alignment explanation
Indices: 17886663--17886725 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
17886653 TAAAGCGGCT
* *
17886663 TAAACCCCAAACCCTAAACCTTAAACCC
1 TAAACCCCAAACCCTAAACCCTAAACAC
*
17886691 TAAACTCCCAAACCTTAAACCCTAAACAC
1 TAAAC-CCCAAACCCTAAACCCTAAACAC
17886720 TAAACC
1 TAAACC
17886726 TATATCATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (28 bp):
TAAACCCCAAACCCTAAACCCTAAACAC
Found at i:17887360 original size:114 final size:114
Alignment explanation
Indices: 17887218--17887837 Score: 1003
Period size: 114 Copynumber: 5.4 Consensus size: 114
17887208 CTATTGGCTC
* * * * * * *
17887218 TATAACTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTACGGCGCTTTTCACAAAGCACTG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
* *
17887283 TTAATACTGTGATTTAGCGGCGTGTTTT-CATAAGCGCCACTAATTCTAA
66 CTAATACTGTGCTTTAGCGGCGT-TTTTGCATAAGCGCCACTAATTCTAA
*
17887332 TATACCTTAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCG-TTTTGTATAATGCGCC
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTT-TATAATGCGCC
*
17887396 GCTAATACTG-GCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAA
65 GCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
*
17887445 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
17887510 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
66 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
*
17887559 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
17887624 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
66 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
* * ** * *
17887673 TATACCTCAAGACCAAACGCTGCGTTTTGATTAAGATATTTTACGGCATTTTTTACAATGCACCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
* *
17887738 CTAATATTGTGCTTTAGCGGCGTTGTTGCATAAGCGCCACTAATTCTAA
66 CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
*
17887787 TATACCTCAAGACCTAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
17887838 GCAAATAAAC
Statistics
Matches: 475, Mismatches: 27, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
112 4 0.01
113 104 0.22
114 367 0.77
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (114 bp):
TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
CTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAA
Found at i:17891003 original size:166 final size:166
Alignment explanation
Indices: 17890729--17891217 Score: 816
Period size: 166 Copynumber: 2.9 Consensus size: 166
17890719 TCTAAAATAG
* * *
17890729 GCATACTGTTAGTTCATGCCATTGTTTTAGATGTTAATTTTCTGTACATTACAGATACTGTGGCC
1 GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
* * *
17890794 AGGGAAACATTAGATCAAGTTATGGCTAATGCAATTTCAAAATCTGGCTCTAATCGATCTGCAGC
66 AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGATCTGCAGC
* * * *
17890859 ATACATTTCATGTCTTATTTTTACAATCGATTTGCA
131 ATACATTTCATGTCTTCTTTTTGCAATCGATCTACA
* *
17890895 GCATACTATTAATTCATGCCGTTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
1 GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
* *
17890960 AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGAACTGCAAC
66 AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGATCTGCAGC
17891025 ATACATTTCATGTCTTCTTTTTGCAATCGATCTACA
131 ATACATTTCATGTCTTCTTTTTGCAATCGATCTACA
**
17891061 GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATGTTGTGGCC
1 GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
* *
17891126 AGGGAAACATTAGATCAAGTTATGGCAGATGCACTTTCAAAATATGGTTCTAATCGATCTGCAGC
66 AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGATCTGCAGC
17891191 ATACATTTCATGTCTTCTTTTTGCAAT
131 ATACATTTCATGTCTTCTTTTTGCAAT
17891218 GGCATTTTAA
Statistics
Matches: 301, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
166 301 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (166 bp):
GCATACTATTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTATACATTACAGATACTGTGGCC
AGGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCGATCTGCAGC
ATACATTTCATGTCTTCTTTTTGCAATCGATCTACA
Found at i:17893366 original size:20 final size:21
Alignment explanation
Indices: 17893341--17893382 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
17893331 AAAAATAATA
*
17893341 TACTTTTAAA-AGTTACCAAT
1 TACTTTAAAATAGTTACCAAT
17893361 TACTTTAAAATAGTTACCAAT
1 TACTTTAAAATAGTTACCAAT
17893382 T
1 T
17893383 CTTCATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (21 bp):
TACTTTAAAATAGTTACCAAT
Found at i:17897819 original size:24 final size:24
Alignment explanation
Indices: 17897774--17897820 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
17897764 TTCTTCATTG
* *
17897774 TTTTTGAAAAATATTTTTAAAAAT
1 TTTTTGAAAAATATTGTAAAAAAT
* *
17897798 TTTTTGAAAAGTGTTGTAAAAAA
1 TTTTTGAAAAATATTGTAAAAAA
17897821 GTACTTTAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (24 bp):
TTTTTGAAAAATATTGTAAAAAAT
Found at i:17897900 original size:24 final size:23
Alignment explanation
Indices: 17897853--17897911 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
17897843 TATTTTAAAA
* *
17897853 AAATA-TTTGAAATATAAATTTT
1 AAATATTTTTAAATATAAATATT
17897875 AAATATTTTTAAATAATAAATATT
1 AAATATTTTTAAAT-ATAAATATT
* *
17897899 AATTATTTATAAA
1 AAATATTTTTAAA
17897912 ATTTAATTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 5 0.16
23 7 0.23
24 19 0.61
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATATTTTTAAATATAAATATT
Found at i:17898158 original size:13 final size:13
Alignment explanation
Indices: 17898140--17898165 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17898130 CTTCAGTAGT
17898140 ACTTTTGAAAAGC
1 ACTTTTGAAAAGC
17898153 ACTTTTGAAAAGC
1 ACTTTTGAAAAGC
17898166 TAAAAATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ACTTTTGAAAAGC
Found at i:17899197 original size:45 final size:45
Alignment explanation
Indices: 17899133--17899218 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
17899123 TCTTGACCAC
* * *
17899133 ATATAAATAATTAATAATAAATATTGTGTAATTTAATTAAAATTA
1 ATATAAATAATTAATAATAAATACTATATAATTTAATTAAAATTA
*
17899178 ATATAAATAATTTATAATAAATACTATATAATTTAATTAAA
1 ATATAAATAATTAATAATAAATACTATATAATTTAATTAAA
17899219 CATTTAGTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (45 bp):
ATATAAATAATTAATAATAAATACTATATAATTTAATTAAAATTA
Found at i:17903861 original size:67 final size:67
Alignment explanation
Indices: 17903668--17903905 Score: 248
Period size: 67 Copynumber: 3.6 Consensus size: 67
17903658 ACTGCTACAA
* * * * * * *
17903668 TGGACTCCATT-GACTGTCATAGTCGAGCCATGGTCTTACACCTTAATCCTTATTTTTAAAGTCC
1 TGGACTCTATTGGA-TGCCATAGTCGAGCTATGGTCTTACACCTTAATCCCTATGTTTAATGTCT
17903732 T-G
65 TGG
** * * *
17903734 TAAAACTCTGTTGGATGCCATAGCCGAGCTATGGTCTTACACCTGAATCCACT-TGTTTAATGTC
1 T-GGACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACCTTAATCC-CTATGTTTAATGTC
17903798 TTGG
64 TTGG
* *
17903802 TGGACTCTATTGGATGCCATAGTCGAGTTATGGTCTTACACCTTAATCCCTATGTTTAATATCTT
1 TGGACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACCTTAATCCCTATGTTTAATGTCTT
*
17903867 GA
66 GG
* * ** *
17903869 TGGACTCAATTGGTTGCCATAACCGAACTATGGTCTT
1 TGGACTCTATTGGATGCCATAGTCGAGCTATGGTCTT
17903906 GCAAACCTCT
Statistics
Matches: 141, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
66 3 0.02
67 133 0.94
68 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (67 bp):
TGGACTCTATTGGATGCCATAGTCGAGCTATGGTCTTACACCTTAATCCCTATGTTTAATGTCTT
GG
Found at i:17906140 original size:18 final size:18
Alignment explanation
Indices: 17906117--17906152 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17906107 CGGTTCTGCC
17906117 CAATCTTCCACCCCATCT
1 CAATCTTCCACCCCATCT
17906135 CAATCTTCCACCCCATCT
1 CAATCTTCCACCCCATCT
17906153 TCACGACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.50, G:0.00, T:0.28
Consensus pattern (18 bp):
CAATCTTCCACCCCATCT
Found at i:17926866 original size:22 final size:24
Alignment explanation
Indices: 17926841--17926887 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
17926831 TTTTTGCTAT
*
17926841 AAAATAAA-AAGATAGGA-AGTAA
1 AAAATAAAGAAAATAGGAGAGTAA
17926863 AAAATAAAGAAAATAGGAGAGTAA
1 AAAATAAAGAAAATAGGAGAGTAA
17926887 A
1 A
17926888 GAGAGAACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (24 bp):
AAAATAAAGAAAATAGGAGAGTAA
Found at i:17927547 original size:13 final size:14
Alignment explanation
Indices: 17927529--17927557 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17927519 TTCTTGCTTG
17927529 TTTTATTTTAT-TT
1 TTTTATTTTATCTT
17927542 TTTTATTTTATCTT
1 TTTTATTTTATCTT
17927556 TT
1 TT
17927558 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTATCTT
Found at i:17928379 original size:14 final size:12
Alignment explanation
Indices: 17928329--17928374 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
17928319 ATATACATAC
17928329 TTATATATATTT
1 TTATATATATTT
*
17928341 TATATTTTATAATTT
1 T-TA-TATAT-ATTT
17928356 TTATATATATTT
1 TTATATATATTT
17928368 TTATATA
1 TTATATA
17928375 CATATACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 6 0.21
15 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATATTT
Found at i:17932335 original size:29 final size:29
Alignment explanation
Indices: 17932289--17932345 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
17932279 TTTTATACTG
*
17932289 ATAAATATAATTATATGTGTATAT-AATAT
1 ATAAATATAATAATATGT-TATATCAATAT
17932318 ATAAATATAA-AATGATGTTATATCAATA
1 ATAAATATAATAAT-ATGTTATATCAATA
17932346 ATTATGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (29 bp):
ATAAATATAATAATATGTTATATCAATAT
Found at i:17934827 original size:20 final size:21
Alignment explanation
Indices: 17934798--17934836 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17934788 TAAAATAAAG
17934798 TTTAAAATAATTTT-AAAAAA
1 TTTAAAATAATTTTCAAAAAA
*
17934818 TTTAATATAATTTTCAAAA
1 TTTAAAATAATTTTCAAAA
17934837 TTCAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAAAATAATTTTCAAAAAA
Found at i:17942051 original size:5 final size:5
Alignment explanation
Indices: 17942041--17942068 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
17942031 CTTTTTTCCA
17942041 CATCC CATCC CATCC CATCC CATCC CAT
1 CATCC CATCC CATCC CATCC CATCC CAT
17942069 ACCTTCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.57, G:0.00, T:0.21
Consensus pattern (5 bp):
CATCC
Found at i:17944785 original size:16 final size:18
Alignment explanation
Indices: 17944750--17944785 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17944740 GTTAGTAGGG
17944750 TATAAATACAACTTTATA
1 TATAAATACAACTTTATA
17944768 TATAAATACAACTTTATA
1 TATAAATACAACTTTATA
17944786 AACCCTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAATACAACTTTATA
Found at i:17952015 original size:24 final size:24
Alignment explanation
Indices: 17951988--17952034 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17951978 TTTTATAATT
*
17951988 ATTTTTTAA-TAATATTAATTTTAA
1 ATTTTATAATTAAT-TTAATTTTAA
*
17952012 ATTTTATAATTAATTTTATTTTA
1 ATTTTATAATTAATTTAATTTTA
17952035 TAGAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTATAATTAATTTAATTTTAA
Found at i:17952034 original size:17 final size:18
Alignment explanation
Indices: 17952001--17952036 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
17951991 TTTTAATAAT
17952001 ATTAATTTTAAATTTTATA
1 ATTAATTTT-AATTTTATA
17952020 ATTAATTTT-ATTTTATA
1 ATTAATTTTAATTTTATA
17952037 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTAATTTTAATTTTATA
Found at i:17952993 original size:21 final size:20
Alignment explanation
Indices: 17952959--17953013 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 20
17952949 ACATTTTGTT
*
17952959 GCTATATATTTTTTAATAGGA
1 GCTA-ATATTTTTTAATAGAA
17952980 GCTAATATTGTTTTAATAGAA
1 GCTAATATT-TTTTAATAGAA
17953001 GCTAATATTTTTT
1 GCTAATATTTTTT
17953014 TTTATTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (20 bp):
GCTAATATTTTTTAATAGAA
Found at i:17962025 original size:14 final size:14
Alignment explanation
Indices: 17961990--17962029 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
17961980 TTATTGATAT
*
17961990 TATAAAAATAAAAA
1 TATAAAAATTAAAA
*
17962004 TAT-CAAATTAAAA
1 TATAAAAATTAAAA
17962017 TATAAAAATTAAA
1 TATAAAAATTAAA
17962030 TTGATATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
TATAAAAATTAAAA
Found at i:17962030 original size:19 final size:19
Alignment explanation
Indices: 17961992--17962048 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
17961982 ATTGATATTA
17961992 TAAAA-ATAAAAATATCAAAT
1 TAAAATATAAAAAT-T-AAAT
17962012 TAAAATATAAAAATTAAAT
1 TAAAATATAAAAATTAAAT
* * *
17962031 TGATATAGAAAAATTAAA
1 TAAAATATAAAAATTAAA
17962049 AATTAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.58
20 6 0.18
21 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAATATAAAAATTAAAT
Found at i:17962716 original size:16 final size:16
Alignment explanation
Indices: 17962691--17962734 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
17962681 AAAAAAATTC
17962691 AAAT-TATTTTTAAAA
1 AAATATATTTTTAAAA
17962706 AAATATATTTTTAAAA
1 AAATATATTTTTAAAA
*
17962722 AATTATAATTTTT
1 AAATAT-ATTTTT
17962735 TTAAAAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 4 0.15
16 16 0.62
17 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATATTTTTAAAA
Found at i:17963487 original size:15 final size:16
Alignment explanation
Indices: 17963452--17963489 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17963442 AACTCCCTTC
*
17963452 AAAATTTATAAAAATT
1 AAAATTAATAAAAATT
*
17963468 TAAATTAATAAAAA-T
1 AAAATTAATAAAAATT
17963483 AAAATTA
1 AAAATTA
17963490 TACTTTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAATAAAAATT
Found at i:17966974 original size:35 final size:35
Alignment explanation
Indices: 17966908--17966974 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
17966898 AATCCCTTCA
* * * *
17966908 AAACACACCAAGGGGCTCCAAAGTTCCAAGCCACC
1 AAACACACCAAAGAGCACCAAAGTGCCAAGCCACC
* *
17966943 AAACACACCAAAGAGCACCTAAGTGCTAAGCC
1 AAACACACCAAAGAGCACCAAAGTGCCAAGCC
17966975 TGAAAGCGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.40, C:0.34, G:0.16, T:0.09
Consensus pattern (35 bp):
AAACACACCAAAGAGCACCAAAGTGCCAAGCCACC
Found at i:17970389 original size:19 final size:19
Alignment explanation
Indices: 17970365--17970402 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17970355 TTAGTGTTAG
17970365 TTAATTAAG-TTAAATTAAA
1 TTAATTAAGATT-AATTAAA
*
17970384 TTAATTTAGATTAATTAAA
1 TTAATTAAGATTAATTAAA
17970403 GGTTAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TTAATTAAGATTAATTAAA
Found at i:17971250 original size:12 final size:13
Alignment explanation
Indices: 17971232--17971269 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
17971222 CCGTAAAGAA
17971232 ATGATAAATTGAT
1 ATGATAAATTGAT
17971245 -TGATAAATTGAAT
1 ATGATAAATTG-AT
*
17971258 ATGATGAATTGA
1 ATGATAAATTGA
17971270 AAATTGAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 10 0.45
13 3 0.14
14 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (13 bp):
ATGATAAATTGAT
Found at i:17990061 original size:23 final size:23
Alignment explanation
Indices: 17990041--17990085 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
17990031 TTTCTTACTA
*
17990041 TAGTAATTTTCGGGGTATTACAG
1 TAGTAATTTTCGGGATATTACAG
17990064 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
17990086 AACACTCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAG
Found at i:17991239 original size:168 final size:168
Alignment explanation
Indices: 17991045--17991361 Score: 429
Period size: 168 Copynumber: 1.9 Consensus size: 168
17991035 TTTTTATTAA
* ** *
17991045 TTTTCTTAAAAAATATAAAAAGATAAAAATATCATCACAATTGTAAAACTAATTTTAAATATGAA
1 TTTTCGTAAAAAATATAAAAAGATAAAAATATCATCACAATAATAAAACTAATTTTAAATAAGAA
* * * * * * *
17991110 -AGAGTTAATTAGTAATTTAACCAACTGAATTGCTGTCACTTAACTCGTGTCACCAAACTCAGTA
66 GAGA-CTAATTAGTAATTTAACCAACTCAACTGCTGTCACTTAACTCATGACACAAAACTCAATA
17991174 AACGACCTAATATTAGTAGATATGTAATTTTGTTTTTGG
130 AACGACCTAATATTAGTAGATATGTAATTTTGTTTTTGG
** * * * *
17991213 TTTTCGTAAAAAATATGCAAAGATAAAAATTTCATCATAATAATATAACTTATTTTAAATAAGAA
1 TTTTCGTAAAAAATATAAAAAGATAAAAATATCATCACAATAATAAAACTAATTTTAAATAAGAA
* * *
17991278 GAGACTAATTAGTAATTTAACCAACTCAGCTGGTGTCACTTAACTCATGACACAAAACTTAATAA
66 GAGACTAATTAGTAATTTAACCAACTCAACTGCTGTCACTTAACTCATGACACAAAACTCAATAA
*
17991343 ACGACTTAATATTAGTAGA
131 ACGACCTAATATTAGTAGA
17991362 GATAAAAAGA
Statistics
Matches: 127, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
168 124 0.98
169 3 0.02
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (168 bp):
TTTTCGTAAAAAATATAAAAAGATAAAAATATCATCACAATAATAAAACTAATTTTAAATAAGAA
GAGACTAATTAGTAATTTAACCAACTCAACTGCTGTCACTTAACTCATGACACAAAACTCAATAA
ACGACCTAATATTAGTAGATATGTAATTTTGTTTTTGG
Found at i:17995846 original size:3 final size:3
Alignment explanation
Indices: 17995812--17995903 Score: 97
Period size: 3 Copynumber: 31.7 Consensus size: 3
17995802 GCGCATGAAT
* *
17995812 ATA A-A ATA AAA ATA A-A ATA A-A ATA ATA A-A ATA ATA AAA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
17995854 ATAA ATA ATA ATA A-A ATAA ATA ATA ATA ATA ATA ATA ATA AT- ATA
1 AT-A ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
17995899 ATA AT
1 ATA AT
17995904 GATACAAGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
2 12 0.16
3 55 0.71
4 10 0.13
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:17995860 original size:41 final size:42
Alignment explanation
Indices: 17995809--17995899 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
17995799 CATGCGCATG
17995809 AATATAAAATAAAAATAAAATAAAATAATAA-AATAATAAAAAT
1 AATAT-AAATAAAAATAAAAT-AAATAATAATAATAATAAAAAT
* *
17995852 AA-ATAAATAATAATAAAATAAATAATAATAATAATAATAAT
1 AATATAAATAAAAATAAAATAAATAATAATAATAATAAAAAT
17995893 AATATAA
1 AATATAA
17995900 TAATGATACA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
40 9 0.20
41 27 0.61
42 6 0.14
43 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (42 bp):
AATATAAATAAAAATAAAATAAATAATAATAATAATAAAAAT
Found at i:17996157 original size:23 final size:20
Alignment explanation
Indices: 17996111--17996157 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
17996101 GATTTGAAAT
*
17996111 AAAAAAATATACAAATCAAT
1 AAAAAAATATACAAATCAAC
17996131 AAAAAAATTATACACGAATCAAC
1 AAAAAAA-TATACA--AATCAAC
17996154 AAAA
1 AAAA
17996158 TAAGAACGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
23 10 0.43
ACGTcount: A:0.68, C:0.13, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAAAAATATACAAATCAAC
Found at i:17996381 original size:19 final size:19
Alignment explanation
Indices: 17996357--17996402 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17996347 AATCATATCT
**
17996357 TCTAAGATCGGATACCATA
1 TCTAAGATCACATACCATA
* *
17996376 TCTAAGATTACATATCATA
1 TCTAAGATCACATACCATA
17996395 TCTAAGAT
1 TCTAAGAT
17996403 TGCATATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (19 bp):
TCTAAGATCACATACCATA
Found at i:17996403 original size:19 final size:19
Alignment explanation
Indices: 17996372--17996410 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17996362 GATCGGATAC
17996372 CATATCTAAGATTACATAT
1 CATATCTAAGATTACATAT
*
17996391 CATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
17996410 C
1 C
17996411 CATTAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (19 bp):
CATATCTAAGATTACATAT
Found at i:17996419 original size:17 final size:19
Alignment explanation
Indices: 17996375--17996421 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
17996365 CGGATACCAT
*
17996375 ATCTAAGATTACATATCAT
1 ATCTAAGATTACATATCAC
*
17996394 ATCTAAGATTGCATATC-C
1 ATCTAAGATTACATATCAC
17996412 AT-TAAGATTA
1 ATCTAAGATTA
17996422 TGTTTCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 16 0.64
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (19 bp):
ATCTAAGATTACATATCAC
Found at i:17997014 original size:45 final size:45
Alignment explanation
Indices: 17996957--17997298 Score: 174
Period size: 45 Copynumber: 7.8 Consensus size: 45
17996947 TTGTTTATTT
* * * *
17996957 AGTCTGCCCCACTGCAATTTCAGGGGGATAGGACTTGATTTCTTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
* * *
17997002 AGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
* * *
17997047 GGTCTGCTCCACTGCAACTTT-AGGGAGATAAGACCCGA-TGC---
1 AGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGATTTCTTG
* * * * *
17997088 AATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGA-CT-CGATTTCTTG
* ** * * * *
17997131 AATCCACTCCACTGCAACTTT-AGGGAGATAGGA-TTG-TTGGCTTT
1 AGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGATT-TCTTG
* * * * * *** *
17997175 AATCCGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTC
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
* * * * * *
17997220 AGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCTC-CACTGCAATTTCAGGGA-GATAAGACTCGATTTCTTG
*
17997264 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACT
17997299 ATATGCGATA
Statistics
Matches: 231, Mismatches: 47, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
39 2 0.01
40 18 0.08
41 10 0.04
42 4 0.02
43 10 0.04
44 76 0.33
45 109 0.47
46 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
Found at i:17997326 original size:217 final size:218
Alignment explanation
Indices: 17996997--17997441 Score: 662
Period size: 217 Copynumber: 2.0 Consensus size: 218
17996987 GGACTTGATT
* * * *
17996997 TCTTGAGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGC
1 TCTTCAGTCTGCTCCACTACAACTTCAGTGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTGC
* * *
17997062 AACTTTAGGGAGATAAGACCCGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
66 AACTTCAGGGAGATAAGACCAGATGCAATATGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
* * *
17997127 TTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGTTGGCTTTAATCCGCTCCACTACAA
131 TTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCCGCTCCACTACAA
17997192 CTTCAGGGAGATAAGATTCGCCA
196 CTTCAGGGAGATAAGATTCGCCA
* *
17997215 TCTTCAGTCTGC-CTCACTACAACTTCAG-GAGGATAAGGCTTGCTTACTT-AGTCTGCTCCACT
1 TCTTCAGTCTGCTC-CACTACAACTTCAGTGA-GATAAGACTCGCTTACTTGAGTCTGCTCCACT
* * * *
17997277 GCAACTTCAGGGAGATAAGACTATATGCGATATTCTCTCTGCAACTTCAGAGAGATAAGATCTGT
64 GCAACTTCAGGGAGATAAGACCAGATGCAATATGCTCTCTGCAACTTCAGAGAGATAAGATCTGT
* * * * *
17997342 GATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAAGATTATTGGCTTTAATCTGTTCCACTGC
129 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCCGCTCCACTAC
17997407 AACTTCAGGGAGATAAGATTCGCCA
194 AACTTCAGGGAGATAAGATTCGCCA
17997432 TCTTCAGTCT
1 TCTTCAGTCT
17997442 TTTAAATTAC
Statistics
Matches: 204, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
217 165 0.81
218 39 0.19
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (218 bp):
TCTTCAGTCTGCTCCACTACAACTTCAGTGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTGC
AACTTCAGGGAGATAAGACCAGATGCAATATGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
TTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCCGCTCCACTACAA
CTTCAGGGAGATAAGATTCGCCA
Found at i:17997426 original size:44 final size:43
Alignment explanation
Indices: 17997004--17997426 Score: 237
Period size: 44 Copynumber: 9.8 Consensus size: 43
17996994 ATTTCTTGAG
* ***
17997004 TCTGCTCCACTGCAACTTCAGTGAGATAAGACTCGCTTT--CTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T---TTTGACTTTAA
* *** **
17997049 TCTGCTCCACTGCAACTTTAGGGAGATAAGA-CCCGA-TGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTGACTTTAA
* * * *
17997090 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTTGACTTTAA
** * * *
17997133 TCCACTCCACTGCAACTTTAGGGAGATAGGATTGTTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TTGACTTTAA
* * * * *
17997177 TCCGCTCCACTACAACTTCAGGGAGATAAGA-TTCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTG--A-CTTTAA
* * *
17997222 TCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTT-AC-TTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAA-GATT--TTGACTTTAA
* **
17997266 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTATATG-CGAT-A
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTTGACTTTAA
* * * *
17997309 T-T-CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTTGACTTTAA
* * *
17997350 TCCGCTCCACTGCGACTTCAGGGAGATAAGATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TTGACTTTAA
*
17997394 TCTGTTCCACTGCAACTTCAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
17997427 CGCCATCTTC
Statistics
Matches: 290, Mismatches: 60, Indels: 57
0.71 0.15 0.14
Matches are distributed among these distances:
39 4 0.01
40 44 0.15
41 11 0.04
42 5 0.02
43 16 0.06
44 145 0.50
45 61 0.21
46 2 0.01
47 1 0.00
49 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTGACTTTAA
Found at i:17997986 original size:88 final size:88
Alignment explanation
Indices: 17997878--17998445 Score: 830
Period size: 88 Copynumber: 6.4 Consensus size: 88
17997868 GCCGGGGTCA
* * * * * *
17997878 TCGATTTGCTTGGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
17997943 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
17997966 TCGATCTGCTTCGTTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTGACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
17998031 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
17998054 TCGATCTGCTTCGTTGTCGGTGCAAGAAGGCAATATCTGCTATTTTTAACCTGCTCTGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
17998119 CCAGGGAGGTAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
17998142 TCGATATGCTTCGCTGTCGGTGCTAGAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
17998207 CAAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
17998230 TCAATCTGCTTCGCTGTCAGTGCAAGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* * *
17998295 CCAGGCAGGCGAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
17998318 TCGATCTACTTCGCTGTCGATGTAAGAAGGCAAGATCTGCTATTTTTTAACCTGCTCCGCTACAA
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTA-TTTTTAACCTGCTCCGCTACAA
* *
17998383 CCCAGGGAAGCAAGGTTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * *
17998407 TCGATCTGCTTCGCAGTCGGTGTAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTG
17998446 TTATATCCAC
Statistics
Matches: 430, Mismatches: 49, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
88 355 0.83
89 75 0.17
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:17997997 original size:44 final size:44
Alignment explanation
Indices: 17997949--17998086 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
17997939 CAACCCAGGG
17997949 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAAGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAAGA
* * * * * * * * * **** * *
17997993 AGGCAAGATCTGCTATTTTTGACCTGCTCCGCT-ACAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAAGA
*
17998037 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAAGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAAGA
17998081 AGGCAA
1 AGGCAA
17998087 TATCTGCTAT
Statistics
Matches: 61, Mismatches: 31, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
43 16 0.26
44 28 0.46
45 17 0.28
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAAGA
Found at i:17998219 original size:44 final size:44
Alignment explanation
Indices: 17998167--17998304 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 44
17998157 GTCGGTGCTA
*
17998167 GAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTGCAACCAAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCAAG
* * * * * * * * **
17998211 GGAGGCAAG-GCTGGTGTCTTCAATCTGCTTCGCTGTCAGTGCAA-
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CA-ACCAAG
* *
17998255 GAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTGCAACCCAG
1 GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCAAG
*
17998299 GCAGGC
1 GAAGGC
17998305 GAGGCTAGTG
Statistics
Matches: 66, Mismatches: 24, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
43 20 0.30
44 25 0.38
45 21 0.32
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (44 bp):
GAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCAAG
Found at i:17998290 original size:45 final size:45
Alignment explanation
Indices: 17998148--17998290 Score: 121
Period size: 45 Copynumber: 3.2 Consensus size: 45
17998138 GTCTTCGATA
* * * *
17998148 TGCTTCGCTGTCGGTGCTAGAAGGCAAGATCTGCAATTTTTAACC
1 TGCTCCGCTGTCAGTGCAAGAAGGCAAGATCTGCTATTTTTAACC
** * * * * * * *
17998193 TGCTCCGCTG-CA-ACCAAGGGAGGCAAG-GCTGGTGTCTTCAATC
1 TGCTCCGCTGTCAGTGCAA-GAAGGCAAGATCTGCTATTTTTAACC
* *
17998236 TGCTTCGCTGTCAGTGCAAGAAGGCAAGATCTACTATTTTTAACC
1 TGCTCCGCTGTCAGTGCAAGAAGGCAAGATCTGCTATTTTTAACC
17998281 TGCTCCGCTG
1 TGCTCCGCTG
17998291 CAACCCAGGC
Statistics
Matches: 69, Mismatches: 25, Indels: 8
0.68 0.25 0.08
Matches are distributed among these distances:
43 20 0.29
44 19 0.28
45 30 0.43
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (45 bp):
TGCTCCGCTGTCAGTGCAAGAAGGCAAGATCTGCTATTTTTAACC
Found at i:18005024 original size:6 final size:6
Alignment explanation
Indices: 18004983--18005023 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
18004973 GCGCATGAAT
*
18004983 ATAAAA ATAAAA ATAAAA ATAAAA ATAATAA ATAATA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAA-AA ATAAAA ATAA
18005024 TGATACAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
ATAAAA
Found at i:18005472 original size:22 final size:23
Alignment explanation
Indices: 18005442--18005491 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
18005432 AAAAGATATC
*
18005442 TACA-AATTAAATC-TGTAAGAT
1 TACATAATTAAATCTTCTAAGAT
*
18005463 TACATAATTATATCTTCTAAGAT
1 TACATAATTAAATCTTCTAAGAT
*
18005486 TGCATA
1 TACATA
18005492 TCATATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.17
22 8 0.33
23 12 0.50
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (23 bp):
TACATAATTAAATCTTCTAAGAT
Found at i:18005504 original size:19 final size:19
Alignment explanation
Indices: 18005478--18005569 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
18005468 AATTATATCT
18005478 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
18005497 TTTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
18005516 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
18005535 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
18005554 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
18005570 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:18005527 original size:38 final size:38
Alignment explanation
Indices: 18005478--18005569 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
18005468 AATTATATCT
*
18005478 TCTAAGATTGCATATCATATTTAAGATTACATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATA
18005516 TCTAAGATTGCATATCATATCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATA
18005554 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
18005570 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATA
Found at i:18007926 original size:11 final size:11
Alignment explanation
Indices: 18007910--18007934 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18007900 TGTTGTTGAA
18007910 TATCTTTACAT
1 TATCTTTACAT
18007921 TATCTTTACAT
1 TATCTTTACAT
18007932 TAT
1 TAT
18007935 GGATTACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (11 bp):
TATCTTTACAT
Found at i:18010955 original size:30 final size:30
Alignment explanation
Indices: 18010919--18010978 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
18010909 TTTAATGATG
18010919 ATAGTTTCTTAGCCGAGCTTCAGGTTAAGC
1 ATAGTTTCTTAGCCGAGCTTCAGGTTAAGC
18010949 ATAGTTTCTTAGCCGAGCTTCAGGTTAAGC
1 ATAGTTTCTTAGCCGAGCTTCAGGTTAAGC
18010979 TGACATGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (30 bp):
ATAGTTTCTTAGCCGAGCTTCAGGTTAAGC
Found at i:18025400 original size:20 final size:20
Alignment explanation
Indices: 18025377--18025436 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
18025367 ATAGGTAAAA
* * *
18025377 TGACCAAAATTCCCCTATAG
1 TGACCGAAATACCCCCATAG
18025397 TGACCGAAATACCCCCATAG
1 TGACCGAAATACCCCCATAG
*
18025417 TGACCGAAATACCCTCATAG
1 TGACCGAAATACCCCCATAG
18025437 ACCAAAATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.20
Consensus pattern (20 bp):
TGACCGAAATACCCCCATAG
Found at i:18025444 original size:18 final size:19
Alignment explanation
Indices: 18025378--18025449 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
18025368 TAGGTAAAAT
* * *
18025378 GACCAAAATTCCCCTATAG
1 GACCGAAATACCCCCATAG
18025397 TGACCGAAATACCCCCATAG
1 -GACCGAAATACCCCCATAG
*
18025417 TGACCGAAATACCCTCATA-
1 -GACCGAAATACCCCCATAG
*
18025436 GACCAAAATCACCC
1 GACCGAAAT-ACCC
18025450 AGGGTAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 8 0.17
19 4 0.09
20 34 0.74
ACGTcount: A:0.38, C:0.35, G:0.11, T:0.17
Consensus pattern (19 bp):
GACCGAAATACCCCCATAG
Found at i:18025484 original size:27 final size:27
Alignment explanation
Indices: 18025450--18025847 Score: 386
Period size: 27 Copynumber: 15.1 Consensus size: 27
18025440 AAAATCACCC
* *
18025450 AGGGTAAAATGACCGAAATACCCTCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
18025477 AGGGTAAAATGACCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
*
18025504 AGGGTAAAATAACCAAAATA-CCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
*
18025530 A--GCAAAATGACCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* * **
18025555 AGGGTAAAATGATCGAAATACCCTAAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* ** *
18025582 AGGGTAAAAAGACTGAAATACCCTCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
*
18025609 AGGGTAAAATGGCCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* ***
18025636 AAGGTAAAATGATTGAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
***
18025663 AGGGTAAAATGAATGAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
** ** **
18025690 AGGAAAAAATGACTTAAATACCTTCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
18025717 A--G-----TGACCAAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* *
18025737 AAGGTAAAATGACCAAAATATCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
*
18025764 CA-GGTAGAATGACCAAAATACCCCCAT
1 -AGGGTAAAATGACCAAAATACCCCCAT
*** *
18025791 AGGGTAAAATGATTGAAATACCCCTAT
1 AGGGTAAAATGACCAAAATACCCCCAT
* * *
18025818 AGGGTAGAATGATCGAAATACCCCCAT
1 AGGGTAAAATGACCAAAATACCCCCAT
18025845 AGG
1 AGG
18025848 AGATGAAATG
Statistics
Matches: 311, Mismatches: 48, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
20 15 0.05
22 1 0.00
24 15 0.05
25 7 0.02
26 8 0.03
27 264 0.85
28 1 0.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (27 bp):
AGGGTAAAATGACCAAAATACCCCCAT
Found at i:18025783 original size:101 final size:101
Alignment explanation
Indices: 18025515--18025812 Score: 293
Period size: 101 Copynumber: 2.9 Consensus size: 101
18025505 GGGTAAAATA
* * *
18025515 ACCAAAATA-CCCCAT-A-GCAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACC
1 ACCAAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAACAAAATACC
** * * *
18025577 CTAATAGGGTAAAAA-GACTGAAATACCCTCATAGGGTAAAATG
66 CCCATA-GGAAAAAATGATTGAAATACCTTCATA--G-----TG
* *** **
18025620 GCCAAAATACCCCCATAAGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGAATGAAATACC
1 ACCAAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAACAAAATACC
18025685 CCCATAGGAAAAAATGACTT-AAATACCTTCATAGTG
66 CCCATAGGAAAAAATGA-TTGAAATACCTTCATAGTG
* * *
18025721 ACCAAAATACCCCCATAAGGTAAAATGACCAAAATATCCCCATCA-GGTAGAATGACCAAAATAC
1 ACCAAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCAT-AGGGTAAAATGAACAAAATAC
**
18025785 CCCCATAGGGTAAAATGATTGAAATACC
65 CCCCATAGGAAAAAATGATTGAAATACC
18025813 CCTATAGGGT
Statistics
Matches: 163, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
100 2 0.01
101 78 0.48
102 1 0.01
105 8 0.05
106 7 0.04
107 8 0.05
108 58 0.36
109 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.18
Consensus pattern (101 bp):
ACCAAAATACCCCCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAACAAAATACC
CCCATAGGAAAAAATGATTGAAATACCTTCATAGTG
Found at i:18025792 original size:74 final size:74
Alignment explanation
Indices: 18025651--18025792 Score: 169
Period size: 74 Copynumber: 1.9 Consensus size: 74
18025641 AAAATGATTG
* ** ** **
18025651 AAATACCCCCATAGGGTAAAATGAATGAAATACCCCCATAGGAAAAAATGACTTAAATACCTTCA
1 AAATACCCCCATAAGGTAAAATGAACAAAATACCCCCATAGGAAAAAATGACCAAAATACCCCCA
18025716 TAGTGACCA
66 TAGTGACCA
* * * *
18025725 AAATACCCCCATAAGGTAAAATGACCAAAATATCCCCATCAGG-TAGAATGACCAAAATACCCCC
1 AAATACCCCCATAAGGTAAAATGAACAAAATACCCCCAT-AGGAAAAAATGACCAAAATACCCCC
18025789 ATAG
65 ATAG
18025793 GGTAAAATGA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 53 0.95
75 3 0.05
ACGTcount: A:0.44, C:0.25, G:0.13, T:0.18
Consensus pattern (74 bp):
AAATACCCCCATAAGGTAAAATGAACAAAATACCCCCATAGGAAAAAATGACCAAAATACCCCCA
TAGTGACCA
Found at i:18031697 original size:27 final size:26
Alignment explanation
Indices: 18031665--18031740 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
18031655 AGACCCTAAA
*
18031665 ATAGGGTAAAATGACCAAAATACCCC
1 ATAGGGTAAAATGACCGAAATACCCC
*
18031691 AATAGGGTAAAATAACCGAAATACCACC
1 -ATAGGGTAAAATGACCGAAATACC-CC
* *
18031719 ATAGGGTAAAACGATCGAAATA
1 ATAGGGTAAAATGACCGAAATA
18031741 ACCGAAATAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.16
Consensus pattern (26 bp):
ATAGGGTAAAATGACCGAAATACCCC
Found at i:18031765 original size:63 final size:62
Alignment explanation
Indices: 18031673--18031791 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 62
18031663 AAATAGGGTA
* *
18031673 AAATGACCAAAATACCCCAATAGGGTAAAATAACCGAAAT-ACCACCATAGGGTAAAACGATCG
1 AAATAACCAAAATACCCCAATAAGGTAAAAT-ACCGAAATAACC-CCATAGGGTAAAACGATCG
* * * *
18031736 AAATAACCGAAATACCCCTATAAGGTAAAATATCGAAATAACCCCGTAGGGTAAAA
1 AAATAACCAAAATACCCCAATAAGGTAAAATACCGAAATAACCCCATAGGGTAAAA
18031792 AGACCAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
62 19 0.39
63 30 0.61
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.16
Consensus pattern (62 bp):
AAATAACCAAAATACCCCAATAAGGTAAAATACCGAAATAACCCCATAGGGTAAAACGATCG
Found at i:18031778 original size:35 final size:36
Alignment explanation
Indices: 18031700--18031778 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
18031690 CAATAGGGTA
*
18031700 AAATAACCGAAATACCACCATAGGGTAAAACGATCG
1 AAATAACCGAAATACCACCATAAGGTAAAACGATCG
*
18031736 AAATAACCGAAATACC-CCTATAAGGTAAAA-TATCG
1 AAATAACCGAAATACCACC-ATAAGGTAAAACGATCG
18031771 AAATAACC
1 AAATAACC
18031779 CCGTAGGGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
35 14 0.35
36 26 0.65
ACGTcount: A:0.49, C:0.22, G:0.13, T:0.16
Consensus pattern (36 bp):
AAATAACCGAAATACCACCATAAGGTAAAACGATCG
Found at i:18031882 original size:81 final size:80
Alignment explanation
Indices: 18031744--18032076 Score: 359
Period size: 81 Copynumber: 4.1 Consensus size: 80
18031734 CGAAATAACC
* * * * *
18031744 GAAATACCCCTATAAGGTAAAAT-A-TCGAAATAACCCCGTAGGGTAAAAAGACCAAAATACTCT
1 GAAATACCCCTATAGGGTAAAATGACT-GAAAT-ACCCCATAGGGTAAAATGACCAAAATACCCC
*
18031807 CGTAGGGTAAAATGACT
64 CATAGGGTAAAATGACT
* * * ** *
18031824 GAAATACCCCCATAGGATAAAATGACTAAAATACTCCCATAGGGTAAAATGATTAAAATACGCCC
1 GAAATACCCCTATAGGGTAAAATGACTGAAATAC-CCCATAGGGTAAAATGACCAAAATACCCCC
18031889 ATAGGGTAAAATGA-T
65 ATAGGGTAAAATGACT
* * ***
18031904 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTTAAATGATTGAAATACCCC
1 -GAAATACCCCTATAGGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGACCAAAATACCCC
*
18031969 CATAGGGTAAAATGATT
64 CATAGGGTAAAATGACT
* * * * *
18031986 GAAATACCCCTATAGGGTAAAATGAATGAAATACCTTCATAGAGT-AAATGACCGAAATACCCTC
1 GAAATACCCCTATAGGGTAAAATGACTGAAATACC-CCATAGGGTAAAATGACCAAAATACCCCC
18032050 ATAGGGTAAAATGACT
65 ATAGGGTAAAATGACT
**
18032066 GTTATACCCCT
1 GAAATACCCCT
18032077 TGGAGATGAA
Statistics
Matches: 218, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
80 65 0.30
81 150 0.69
82 3 0.01
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (80 bp):
GAAATACCCCTATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGACCAAAATACCCCCA
TAGGGTAAAATGACT
Found at i:18032072 original size:27 final size:26
Alignment explanation
Indices: 18031744--18032075 Score: 321
Period size: 27 Copynumber: 12.4 Consensus size: 26
18031734 CGAAATAACC
*
18031744 GAAATACCCCTATAAGGTAAAAT-A-T
1 GAAATACCCC-ATAGGGTAAAATGACT
* * *
18031769 CGAAATAACCCCGTAGGGTAAAAAGACC
1 -GAAAT-ACCCCATAGGGTAAAATGACT
* * *
18031797 AAAATACTCTCGTAGGGTAAAATGACT
1 GAAATAC-CCCATAGGGTAAAATGACT
*
18031824 GAAATACCCCCATAGGATAAAATGACT
1 GAAATA-CCCCATAGGGTAAAATGACT
* *
18031851 AAAATACTCCCATAGGGTAAAATGATT
1 GAAATAC-CCCATAGGGTAAAATGACT
*
18031878 AAAATACGCCCATAGGGTAAAATGA-T
1 GAAATAC-CCCATAGGGTAAAATGACT
*
18031904 CGAAATACCCCTATAGGGTAAAATGACC
1 -GAAATACCCC-ATAGGGTAAAATGACT
* *
18031932 GAAATACCCCCATAGGGTTAAATGATT
1 GAAATA-CCCCATAGGGTAAAATGACT
*
18031959 GAAATACCCCCATAGGGTAAAATGATT
1 GAAATA-CCCCATAGGGTAAAATGACT
*
18031986 GAAATACCCCTATAGGGTAAAATGAAT
1 GAAATACCCC-ATAGGGTAAAATGACT
* * *
18032013 GAAATACCTTCATAGAGT-AAATGACC
1 GAAATACC-CCATAGGGTAAAATGACT
18032039 GAAATACCCTCATAGGGTAAAATGACT
1 GAAATACCC-CATAGGGTAAAATGACT
**
18032066 GTTATACCCC
1 GAAATACCCC
18032076 TTGGAGATGA
Statistics
Matches: 260, Mismatches: 32, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
26 47 0.18
27 207 0.80
28 6 0.02
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (26 bp):
GAAATACCCCATAGGGTAAAATGACT
Found at i:18032334 original size:26 final size:26
Alignment explanation
Indices: 18032298--18032352 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
18032288 TTTGCGACAT
* *
18032298 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGCG
18032324 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
18032350 ATA
1 ATA
18032353 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:18032502 original size:28 final size:28
Alignment explanation
Indices: 18032462--18032570 Score: 148
Period size: 28 Copynumber: 3.9 Consensus size: 28
18032452 TGCATTGTTA
*
18032462 CTGTATTGGGCTAAGGCCCACAATGATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
*
18032490 CTGTATTGGGCTAAGGCCAACACTG-TT
1 CTGTATTGGGCTAAGGCCCACACTGATT
* *
18032517 ACTATATTGGGCTAAGGCCCACACTGATA
1 -CTGTATTGGGCTAAGGCCCACACTGATT
* *
18032546 CTGTATTAGGCTAAGACCCACACTG
1 CTGTATTGGGCTAAGGCCCACACTG
18032571 TACTATCATT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
27 2 0.03
28 68 0.96
29 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (28 bp):
CTGTATTGGGCTAAGGCCCACACTGATT
Found at i:18032550 original size:56 final size:56
Alignment explanation
Indices: 18032457--18032581 Score: 180
Period size: 56 Copynumber: 2.2 Consensus size: 56
18032447 TGCACTGCAT
* * * *
18032457 TGTTACTGTATTGGGCTAAGGCCCACAATGATTCTGTATTGGGCTAAGGCCAACAC
1 TGTTACTATATTGGGCTAAGGCCCACAATGATACTGTATTAGGCTAAGACCAACAC
* *
18032513 TGTTACTATATTGGGCTAAGGCCCACACTGATACTGTATTAGGCTAAGACCCACAC
1 TGTTACTATATTGGGCTAAGGCCCACAATGATACTGTATTAGGCTAAGACCAACAC
18032569 TG-TACTATCATTG
1 TGTTACTAT-ATTG
18032582 AATAAGGCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
55 6 0.10
56 56 0.90
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (56 bp):
TGTTACTATATTGGGCTAAGGCCCACAATGATACTGTATTAGGCTAAGACCAACAC
Found at i:18033061 original size:21 final size:22
Alignment explanation
Indices: 18033015--18033064 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
18033005 TTGATTGTGT
*
18033015 GTTTTTTAAACATTAAAAAGAG
1 GTTTTTAAAACATTAAAAAGAG
*
18033037 GTTTTTAAAAC-TTAGAAATGA-
1 GTTTTTAAAACATTA-AAAAGAG
18033058 GTTTTTA
1 GTTTTTA
18033065 CCAACAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (22 bp):
GTTTTTAAAACATTAAAAAGAG
Found at i:18037610 original size:7 final size:7
Alignment explanation
Indices: 18037598--18037634 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
18037588 GCTAGTTTGA
18037598 GCTTTCG
1 GCTTTCG
18037605 GCTTTCG
1 GCTTTCG
18037612 GCTTTCG
1 GCTTTCG
18037619 GCTTTCG
1 GCTTTCG
18037626 GCTTTCG
1 GCTTTCG
18037633 GC
1 GC
18037635 GAAAGTGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.30, G:0.30, T:0.41
Consensus pattern (7 bp):
GCTTTCG
Found at i:18039197 original size:18 final size:18
Alignment explanation
Indices: 18039174--18039213 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
18039164 TATGCTAGTT
18039174 TGGTATTGATTTTCCAGG
1 TGGTATTGATTTTCCAGG
18039192 TGGTATTGATTTTCCAGG
1 TGGTATTGATTTTCCAGG
18039210 TGGT
1 TGGT
18039214 TTCGATACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.30, T:0.45
Consensus pattern (18 bp):
TGGTATTGATTTTCCAGG
Found at i:18042271 original size:165 final size:166
Alignment explanation
Indices: 18042096--18042395 Score: 401
Period size: 165 Copynumber: 1.8 Consensus size: 166
18042086 TAAAGAAAAA
* *
18042096 AAAGATAAAAATATCATCAAAATAGTAAAACTTATTTTAAATAAGAAAG-AGTGAA-TTAGTCAT
1 AAAGATAAAAATATCATCAAAATAATAAAACTTATTTTAAATAAG-AAGTAGTGAACTT-GTAAT
*
18042159 TTAACCAACTGAATTGGTATCACTTAACTCGTGTCACAAAAC-TAGTAAA-CGACTTAATATGAG
64 TTAACCAACTGAATTGGTATCACTTAACTCGTGACACAAAACTTAG-AAAGCGACTTAATATGAG
*
18042222 TAGAGATATAATTTTTTTCGGTTTTCTTAAAAAATATGC
128 AAGAGATATAATTTTTTTCGGTTTTCTTAAAAAATATGC
* * * * * * *
18042261 AAAGATAAAAATTTCATCATACTAATATAACTTATTTTAAATAAGAAGTGGTTAACTTTTAATTT
1 AAAGATAAAAATATCATCAAAATAATAAAACTTATTTTAAATAAGAAGTAGTGAACTTGTAATTT
* * * * *
18042326 AACCAACTGAGTTGGTGTCACTTAACTCGTGACACCAAACTTAGAAAGTGACTTAATATTAGAAG
66 AACCAACTGAATTGGTATCACTTAACTCGTGACACAAAACTTAGAAAGCGACTTAATATGAGAAG
18042391 AGATA
131 AGATA
18042396 AAAAGATAAA
Statistics
Matches: 115, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
164 3 0.03
165 88 0.77
166 24 0.21
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (166 bp):
AAAGATAAAAATATCATCAAAATAATAAAACTTATTTTAAATAAGAAGTAGTGAACTTGTAATTT
AACCAACTGAATTGGTATCACTTAACTCGTGACACAAAACTTAGAAAGCGACTTAATATGAGAAG
AGATATAATTTTTTTCGGTTTTCTTAAAAAATATGC
Found at i:18067621 original size:27 final size:27
Alignment explanation
Indices: 18067587--18067749 Score: 204
Period size: 27 Copynumber: 6.0 Consensus size: 27
18067577 TTGTTAACTA
*
18067587 TACCGAAATACCCTCGATGGGTAAACT
1 TACCGAAATACCCTCGATGGGTAAAAT
18067614 TACCGAAATACCCTCGATGGGTAAAAT
1 TACCGAAATACCCTCGATGGGTAAAAT
*
18067641 TATCGAAATACCCTCGATGGGTAAAAT
1 TACCGAAATACCCTCGATGGGTAAAAT
*
18067668 TACTGAAATACCCTCGATGGGTAAAAT
1 TACCGAAATACCCTCGATGGGTAAAAT
* * * *
18067695 TACCAAAATA-CTTCTGATGAGTTAAAT
1 TACCGAAATACCCTC-GATGGGTAAAAT
* *
18067722 TACC-ATAATACCCCCGTTAGGGTAAAAT
1 TACCGA-AATACCCTCGAT-GGGTAAAAT
18067750 GACTGCTATG
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.03
27 105 0.89
28 9 0.08
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (27 bp):
TACCGAAATACCCTCGATGGGTAAAAT
Found at i:18073929 original size:27 final size:28
Alignment explanation
Indices: 18073899--18073960 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
18073889 CCCTCGATCA
*
18073899 GTAAAATTATCGA-AATACCCCTGA-T-GG
1 GTAAAATTA-CCATAATACCCCT-ATTAGG
18073926 GTAAAATTACCATAATACCCCTATTAGG
1 GTAAAATTACCATAATACCCCTATTAGG
18073954 GTAAAAT
1 GTAAAAT
18073961 GATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 19 0.61
28 9 0.29
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (28 bp):
GTAAAATTACCATAATACCCCTATTAGG
Found at i:18074098 original size:27 final size:27
Alignment explanation
Indices: 18074059--18074131 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
18074049 ATGAAGGAAG
18074059 TACTGTT-TCTGGTGGCTCTGCCACA-A
1 TACTGTTAT-TGGTGGCTCTGCCACATA
*
18074085 TTACTGTTATTGGTGGCTTTGCCACATA
1 -TACTGTTATTGGTGGCTCTGCCACATA
*
18074113 TACTG-TATTGG-AGCTCTGC
1 TACTGTTATTGGTGGCTCTGC
18074132 TGCGTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.15
26 6 0.15
27 27 0.66
28 2 0.05
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (27 bp):
TACTGTTATTGGTGGCTCTGCCACATA
Found at i:18077316 original size:6 final size:6
Alignment explanation
Indices: 18077305--18077342 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
18077295 ATCTTGTGGC
18077305 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
18077343 GAGATGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:18100492 original size:40 final size:40
Alignment explanation
Indices: 18100437--18100513 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
18100427 AGAATCTTGA
*
18100437 CTAATAATTTTATATCTTCATTTAAGTCATCTTCAAATCG
1 CTAATAATTTTATATCTTCATTTAAGCCATCTTCAAATCG
*
18100477 CTAATAATTTTATATCTTTATTTAAGCCATCTTCAAA
1 CTAATAATTTTATATCTTCATTTAAGCCATCTTCAAA
18100514 CTGCTTGCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (40 bp):
CTAATAATTTTATATCTTCATTTAAGCCATCTTCAAATCG
Found at i:18102521 original size:21 final size:21
Alignment explanation
Indices: 18102495--18102537 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18102485 TACCCAAACA
*
18102495 CTAAACCCAATTAGCCTTAGC
1 CTAAACCCAATTAGCCTAAGC
18102516 CTAAACCCAATTAGCCTAAGC
1 CTAAACCCAATTAGCCTAAGC
18102537 C
1 C
18102538 CAATAACCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.35, G:0.09, T:0.21
Consensus pattern (21 bp):
CTAAACCCAATTAGCCTAAGC
Found at i:18102531 original size:15 final size:15
Alignment explanation
Indices: 18102511--18102541 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18102501 CCAATTAGCC
18102511 TTAGCCTAAACCCAA
1 TTAGCCTAAACCCAA
*
18102526 TTAGCCTAAGCCCAA
1 TTAGCCTAAACCCAA
18102541 T
1 T
18102542 AACCCAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.32, G:0.10, T:0.23
Consensus pattern (15 bp):
TTAGCCTAAACCCAA
Found at i:18103638 original size:15 final size:16
Alignment explanation
Indices: 18103614--18103654 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
18103604 TCATATATAC
18103614 ATTCTTTAATAT-TTT
1 ATTCTTTAATATGTTT
*
18103629 ATTCTATAATATGTTT
1 ATTCTTTAATATGTTT
*
18103645 TTTCTTTAAT
1 ATTCTTTAAT
18103655 TTCACTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTCTTTAATATGTTT
Found at i:18106704 original size:27 final size:27
Alignment explanation
Indices: 18106363--18106705 Score: 394
Period size: 27 Copynumber: 12.7 Consensus size: 27
18106353 ACCGAAAGAT
18106363 CCCCATAGGGTAAAATGA-TCGAAATAC
1 CCCCATAGGGTAAAATGACT-GAAATAC
*
18106390 CCCCATAGGGTAAAATGATTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
*
18106417 CCTCATAGGGTAAAATGA-TCGAAATAC
1 CCCCATAGGGTAAAATGACT-GAAATAC
* * *
18106444 CCCCATAAGATAAATTGACT-AAAGTAC
1 CCCCATAGGGTAAAATGACTGAAA-TAC
* * * *
18106471 CCCCGTAGGGTAAAGTGA-TCAAAATAT
1 CCCCATAGGGTAAAATGACT-GAAATAC
*
18106498 CCCCATAGGGTAAAATTA-TCGAAATAC
1 CCCCATAGGGTAAAATGACT-GAAATAC
*
18106525 CCTCATAGGGTAAAATGA-TCGAAATAC
1 CCCCATAGGGTAAAATGACT-GAAATAC
* * *
18106552 CCCCATAGGGTAAAATAACTAAAATAG
1 CCCCATAGGGTAAAATGACTGAAATAC
*
18106579 CCCCA-AGGGTAAAATGACTGAATTAC
1 CCCCATAGGGTAAAATGACTGAAATAC
* *
18106605 CTCTATAGGGTAAAATGACTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
*
18106632 CCCTATAGGGTAAAATGACTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
* *
18106659 CCCTATAAGGTAAAATGACTGAAATAC
1 CCCCATAGGGTAAAATGACTGAAATAC
*
18106686 CCCCATAGGATAAAATGACT
1 CCCCATAGGGTAAAATGACT
18106706 ATTATACCCC
Statistics
Matches: 275, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.09
27 244 0.89
28 6 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (27 bp):
CCCCATAGGGTAAAATGACTGAAATAC
Found at i:18108457 original size:24 final size:25
Alignment explanation
Indices: 18108425--18108495 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
18108415 TGCTAAAGAG
18108425 CCCACTCAAGCTACTACTGAAG-CA
1 CCCACTCAAGCTACTACTGAAGACA
* * *
18108449 CCCACTCAACCTGCTACCG-AGACA
1 CCCACTCAAGCTACTACTGAAGACA
*
18108473 CCTACTCAAAG-TACTACTGAAGA
1 CCCACTC-AAGCTACTACTGAAGA
18108496 GCCTAAAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.05
24 30 0.81
25 5 0.14
ACGTcount: A:0.34, C:0.37, G:0.13, T:0.17
Consensus pattern (25 bp):
CCCACTCAAGCTACTACTGAAGACA
Found at i:18111081 original size:30 final size:30
Alignment explanation
Indices: 18111045--18111122 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
18111035 TATCAGTAGA
*
18111045 GTGTGGGCCTTAGCCCATTACAATAACAGT
1 GTGTGGGCCTTAGCCCAATACAATAACAGT
* *
18111075 GTGTGGGCCTTAGCCCAATATAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAATAACAGT
18111105 G-G-GGGCCTTAGCCCAATA
1 GTGTGGGCCTTAGCCCAATA
18111123 TAGTAATCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 16 0.36
29 1 0.02
30 28 0.62
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAATAACAGT
Found at i:18111119 original size:28 final size:28
Alignment explanation
Indices: 18111044--18111134 Score: 119
Period size: 28 Copynumber: 3.1 Consensus size: 28
18111034 GTATCAGTAG
* * * *
18111044 AGTGTGGGCCTTAGCCCATTACAATAAC
1 AGTGGGGGCCTTAGCCCAATATAGTAAC
18111072 AGTGTGTGGGCCTTAGCCCAATATAGTAAC
1 AGTG-G-GGGCCTTAGCCCAATATAGTAAC
18111102 AGTGGGGGCCTTAGCCCAATATAGTAATC
1 AGTGGGGGCCTTAGCCCAATATAGTAA-C
18111131 AGTG
1 AGTG
18111135 CAATGCAGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 26 0.46
29 6 0.11
30 24 0.43
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (28 bp):
AGTGGGGGCCTTAGCCCAATATAGTAAC
Found at i:18111295 original size:26 final size:26
Alignment explanation
Indices: 18111242--18111315 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
18111232 CCAATATTGT
* * *
18111242 AGCAAAGCTGCCAATAATAGTGACGC
1 AGCAAAGCTGCCAGTAACAGTAACGC
*
18111268 AGCAAAGCTGCCAGTAACAGTAATGC
1 AGCAAAGCTGCCAGTAACAGTAACGC
* * *
18111294 AGTAAAGCTACTAGTAACAGTA
1 AGCAAAGCTGCCAGTAACAGTA
18111316 TATGTGGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.18
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTAACGC
Found at i:18111491 original size:27 final size:26
Alignment explanation
Indices: 18111458--18111652 Score: 158
Period size: 27 Copynumber: 7.3 Consensus size: 26
18111448 GGGTATAACA
* *
18111458 GTCATTTTACCATATGGGGGTATTTTG
1 GTCATTTTACC-TTTAGGGGTATTTTG
* *
18111485 GTAATTTTATCCTTTAGGGGTATTTCG
1 GTCATTTTA-CCTTTAGGGGTATTTTG
*
18111512 GTCATTTTACCTTT-GAGGGCATTTTG
1 GTCATTTTACCTTTAG-GGGTATTTTG
* *
18111538 ATCATATTACCCTTTAGGGGTATTTTG
1 GTCATTTTA-CCTTTAGGGGTATTTTG
* **
18111565 GTCATTTTACCTTTCAAGGGTATTCCG
1 GTCATTTTACCTTT-AGGGGTATTTTG
* * * *
18111592 ATCATTTTACCCTTCGGGCGTATTTCG
1 GTCATTTTACCTTTAGGG-GTATTTTG
* * * *
18111619 ATTATTTTACCCTTTAGGGATATTTCG
1 GTCATTTTA-CCTTTAGGGGTATTTTG
18111646 GTCATTT
1 GTCATTT
18111653 GCCCATGAAT
Statistics
Matches: 135, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 27 0.20
27 97 0.72
28 10 0.07
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCTTTAGGGGTATTTTG
Found at i:18111558 original size:53 final size:53
Alignment explanation
Indices: 18111458--18111652 Score: 187
Period size: 53 Copynumber: 3.6 Consensus size: 53
18111448 GGGTATAACA
* * * * *
18111458 GTCATTTTACCATATGGGGGTATTTTGGTAATTTTATCCTTTAGGGGTATTTCG
1 GTCATTTTACC-TTTGAGGGTATTTTGATCATTTTACCCTTTAGGGGTATTTCG
* * *
18111512 GTCATTTTACCTTTGAGGGCATTTTGATCATATTACCCTTTAGGGGTATTTTG
1 GTCATTTTACCTTTGAGGGTATTTTGATCATTTTACCCTTTAGGGGTATTTCG
* ** *
18111565 GTCATTTTACCTTTCAAGGGTATTCCGATCATTTTACCC-TTCGGGCGTATTTCG
1 GTCATTTTACCTTT-GAGGGTATTTTGATCATTTTACCCTTTAGGG-GTATTTCG
* * * *
18111619 ATTATTTTACCCTTT-AGGGATATTTCGGTCATTT
1 GTCATTTTA-CCTTTGAGGG-TATTTTGATCATTT
18111653 GCCCATGAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
53 57 0.48
54 56 0.47
55 5 0.04
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (53 bp):
GTCATTTTACCTTTGAGGGTATTTTGATCATTTTACCCTTTAGGGGTATTTCG
Found at i:18114361 original size:136 final size:136
Alignment explanation
Indices: 18114117--18114389 Score: 345
Period size: 136 Copynumber: 2.0 Consensus size: 136
18114107 ACACGTGACA
* * * * *
18114117 TTTATCTCTACTAATATTAAGTTGTTTACTGATTTCAGTGTCATAAGTTCAGTGACAACAACTAA
1 TTTATCTCTACTAATATTAAGTCGTTTACTAATTTCAGTGACACAAGTTAAGTGACAACAACTAA
* * *
18114182 GTTGGTTAAATTACCAATTAAACCTTTCATATTTAAAATAAGTTATCTTATTACGATGATATTTT
66 GTTGGTTAAATTACCAATTAAACCTTTCATATTAAAAATAAGTTATATTATTACGATGATATTTC
18114247 TATCTT
131 TATCTT
** *
18114253 TTTATCTCTACTAATATTAAGTCGTTTACTAATTTTGGTGACACGAGTTAAGTGAC-ACTAACTC
1 TTTATCTCTACTAATATTAAGTCGTTTACTAATTTCAGTGACACAAGTTAAGTGACAAC-AACT-
* * * * * *
18114317 AA-TTGGTTAAATTACTAATT-AGCCTCTTCTTATTAAAAATAAGTTATATTGTTATGGTGATAT
64 AAGTTGGTTAAATTACCAATTAAACCT-TTCATATTAAAAATAAGTTATATTATTACGATGATAT
18114380 TTCTATCTT
128 TTCTATCTT
18114389 T
1 T
18114390 GCCTGTTTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
135 6 0.05
136 109 0.93
137 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (136 bp):
TTTATCTCTACTAATATTAAGTCGTTTACTAATTTCAGTGACACAAGTTAAGTGACAACAACTAA
GTTGGTTAAATTACCAATTAAACCTTTCATATTAAAAATAAGTTATATTATTACGATGATATTTC
TATCTT
Found at i:18114565 original size:164 final size:165
Alignment explanation
Indices: 18114258--18114571 Score: 384
Period size: 164 Copynumber: 1.9 Consensus size: 165
18114248 ATCTTTTTAT
* * *
18114258 CTCTACTAATATTAAGTCGTTTACTAATTTTGGTGACACGAGTTAAGTGACACTAACTCAATTGG
1 CTCTACTAATATTAAGTCGTTTAATAAGTTTGGTGACACGAGTTAAGTGACACCAACTCAATTGG
* * * * *
18114323 TTAAATTACTAATTAGCCTCTTCTTATTAAAAATAAGTTATATTGTTATGGTGATATTTCTATCT
66 TTAAATTACTAATTAACCTCTTCATATTAAAAATAAGTTATACTATTATGATGATATTTCTATCT
* * *
18114388 TTGCCTGTTTTTTAGGAAAACAAAAAAAAATACAA
131 TTGCATATTTTTTAAGAAAACAAAAAAAAATACAA
* *
18114423 CTCTACTAATA-TAAGTCGTTTAATGAGTTTGGTGACACGAGTTAAGTGACACCAA-TACAGTTG
1 CTCTACTAATATTAAGTCGTTTAATAAGTTTGGTGACACGAGTTAAGTGACACCAACT-CAATTG
* * * * * * *
18114486 GTTAATTTACTAATTAA-CTCTTTCATATTTAAATTATGTTTTACTATTGTGATGATATTTTTAT
65 GTTAAATTACTAATTAACCTC-TTCATATTAAAAATAAGTTATACTATTATGATGATATTTCTAT
*
18114550 CATTT-TATATTTTTTAAGAAAA
129 C-TTTGCATATTTTTTAAGAAAA
18114572 TTAATAAAAA
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
163 4 0.03
164 107 0.86
165 14 0.11
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (165 bp):
CTCTACTAATATTAAGTCGTTTAATAAGTTTGGTGACACGAGTTAAGTGACACCAACTCAATTGG
TTAAATTACTAATTAACCTCTTCATATTAAAAATAAGTTATACTATTATGATGATATTTCTATCT
TTGCATATTTTTTAAGAAAACAAAAAAAAATACAA
Found at i:18120254 original size:14 final size:13
Alignment explanation
Indices: 18120235--18120264 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
18120225 TATTTATTGC
18120235 TTCTCTTCTATCTT
1 TTCTCTTCT-TCTT
18120249 TTCTCTTCTTCTT
1 TTCTCTTCTTCTT
18120262 TTC
1 TTC
18120265 ATTTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTCTTCTTCTT
Found at i:18120259 original size:22 final size:22
Alignment explanation
Indices: 18120234--18120280 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
18120224 CTATTTATTG
18120234 CTTCTCTTC-TATCTTTTCTCTT
1 CTTCTCTTCAT-TCTTTTCTCTT
* *
18120256 CTTCTTTTCATTTTTTTCTCTT
1 CTTCTCTTCATTCTTTTCTCTT
18120278 CTT
1 CTT
18120281 TAATTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (22 bp):
CTTCTCTTCATTCTTTTCTCTT
Found at i:18121614 original size:43 final size:42
Alignment explanation
Indices: 18121546--18121765 Score: 255
Period size: 43 Copynumber: 5.2 Consensus size: 42
18121536 TTTTAGAAAT
* *
18121546 AAACGCCGCTATAGATCATGGCCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGACGCTTTTCCCAC
* * *
18121589 AAACACCGCTATAGATCATGACCTTTAGCGGCGCTTTT-GCAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGACGCTTTTCCCAC
* * *
18121631 AGACGCCGCTATAGGTCGAGACCTTTAGCGACGCTTTTCCCAA
1 AAACGCCGCTATAGATC-AGACCTTTAGCGACGCTTTTCCCAC
*
18121674 AAACGCCGCTATAGGTCAAGACCTTTAGCTG-CGCTTTTCCCAC
1 AAACGCCGCTATAGATC-AGACCTTTAGC-GACGCTTTTCCCAC
* * * * *
18121717 AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTCTCACAA
1 AAACGCCGCTATAGATCAGACCTTTAGCGACGCTTTTCCCAC
18121759 AAACGCC
1 AAACGCC
18121766 ACTAAAAACA
Statistics
Matches: 153, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 61 0.40
43 90 0.59
44 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAGACCTTTAGCGACGCTTTTCCCAC
Found at i:18121697 original size:85 final size:85
Alignment explanation
Indices: 18121546--18121765 Score: 289
Period size: 85 Copynumber: 2.6 Consensus size: 85
18121536 TTTTAGAAAT
* * * * *
18121546 AAACGCCGCTATAGATCATGGCCTTTAACGACGCTTTTCCCACAAACACCGCTATAGATCATGAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGACGCTTTTCCCAAAAACGCCGCTATAGATCAAGAC
*
18121611 CTTTAGCGGCGCTTTT-GCAC
65 CTTTAGCGGCGCTTTTCCCAC
* * *
18121631 AGACGCCGCTATAGGTCGAGACCTTTAGCGACGCTTTTCCCAAAAACGCCGCTATAGGTCAAGAC
1 AAACGCCGCTATAGATC-AGACCTTTAGCGACGCTTTTCCCAAAAACGCCGCTATAGATCAAGAC
*
18121696 CTTTAGCTGCGCTTTTCCCAC
65 CTTTAGCGGCGCTTTTCCCAC
* * * *
18121717 AAACGCCGCTATAGAACAAACCTTTAGCGACGCTTCTCACAAAAACGCC
1 AAACGCCGCTATAGATCAGACCTTTAGCGACGCTTTTCCCAAAAACGCC
18121766 ACTAAAAACA
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
85 99 0.85
86 18 0.15
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAGACCTTTAGCGACGCTTTTCCCAAAAACGCCGCTATAGATCAAGACC
TTTAGCGGCGCTTTTCCCAC
Found at i:18121811 original size:16 final size:14
Alignment explanation
Indices: 18121770--18121812 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 14
18121760 AACGCCACTA
18121770 AAAACATAATATTTT
1 AAAA-ATAATATTTT
18121785 AAAAA-AATATTTT
1 AAAAATAATATTTT
18121798 AATCAAATAATATTT
1 AA--AAATAATATTT
18121813 ATTTTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
15 7 0.28
16 7 0.28
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAATAATATTTT
Found at i:18125549 original size:148 final size:149
Alignment explanation
Indices: 18125266--18126205 Score: 1561
Period size: 148 Copynumber: 6.3 Consensus size: 149
18125256 CATTTTTTTA
*
18125266 AAAAGCGCCGCAAAAAAAATTTATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAG
1 AAAAGCGCCGC-AAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAG
18125331 GGGGCTA-TTTTTTAAAAGTAAAATTATTTTGTGGCG-TTTTTATATAAACGCCGCTATTGCTTA
65 GGGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTTA
*
18125394 CCTTTAGCGGCGTTTTTCGT
130 CCTTTAGCGGCGTTTTTCAT
* * *
18125414 AAAAGCGCCGCAAAAAAATTTATTTTGAACAAAACTACGCCATTTTGTTATGCTATGCTAAAAGG
1 AAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGG
18125479 GGGCTA-TTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTTAC
66 GGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTTAC
*
18125543 CTTTAGCGGCGTTTTTCGT
131 CTTTAGCGGCGTTTTTCAT
*
18125562 AAAAGCGCCGCAAAAAAAATTTATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAG
1 AAAAGCGCCGC-AAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAG
* *
18125627 GGGGCTATTTTTTTAAAA-TAAAATTATTTTGTGGCGTTTTTTATAAAAACGCTGCTATTGCTTA
65 GGGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTTA
* * *
18125691 CCTTTAGCAGTGTTTTTTAT
130 CCTTTAGCGGCGTTTTTCAT
* * * *
18125711 AAAATCACAGCAAAAAAATTCATTTTGAACAAAACTATGCCGTTTTGCTATGCTATGCTAAAAGG
1 AAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGG
*
18125776 GGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCACTATTGCTTAC
66 GGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTTAC
18125841 CTTTAGCGGCGTTTTTCAT
131 CTTTAGCGGCGTTTTTCAT
* *
18125860 AAAAGCGTCGCAAAAAAA-TCGTTTTGAAC-AAACTACGCCGTTTTGCTATGCTATGCTAAAAGG
1 AAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGG
*
18125923 GGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCACTATTGCTTAC
66 GGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTTAC
18125988 CTTTAGCGGCGTTTTTCAT
131 CTTTAGCGGCGTTTTTCAT
* * *
18126007 AAAAGCGTCGCAAAAAAAATCGTTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGG
1 AAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGG
* *
18126072 GGGCTA-TTTTTCAAAAGTAAAATTATTTTGTGGCGTTTTTTATTTAAACGCCGCTATTGCTTAC
66 GGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTTAC
* *
18126136 ATTTAGCGGCGTTTTTCGT
131 CTTTAGCGGCGTTTTTCAT
*
18126155 AAAAGCGCCGCAAAAAAATTCGTTTTGAACAAAACTACGCCGTTTTGCTAT
1 AAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
18126206 TCTAAAAATT
Statistics
Matches: 752, Mismatches: 34, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
147 222 0.30
148 280 0.37
149 240 0.32
150 10 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (149 bp):
AAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAAAGG
GGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTTAC
CTTTAGCGGCGTTTTTCAT
Found at i:18126539 original size:17 final size:18
Alignment explanation
Indices: 18126506--18126539 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18126496 TATCTCTTAA
18126506 ATAATTTAAACTATACTC
1 ATAATTTAAACTATACTC
*
18126524 ATAATTTCAA-TATACT
1 ATAATTTAAACTATACT
18126540 TGATTTATTA
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:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAATTTAAACTATACTC
Found at i:18126656 original size:15 final size:14
Alignment explanation
Indices: 18126641--18126711 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
18126631 ACCCCTAAAT
*
18126641 CCCTAAACCTTAAAT
1 CCCTAAACCTT-AAC
18126656 CCCT-AACTCTTAAC
1 CCCTAAAC-CTTAAC
*
18126670 CCCT-AACATCTAAC
1 CCCTAAACCT-TAAC
*
18126684 CCCTAAACCCCTAAC
1 CCCTAAA-CCTTAAC
18126699 CCCTAAACCTTAA
1 CCCTAAACCTTAA
18126712 ATCCCAACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.02
14 25 0.53
15 20 0.43
16 1 0.02
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:18126676 original size:7 final size:7
Alignment explanation
Indices: 18126656--18126704 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
18126646 AACCTTAAAT
18126656 CCCTAAC
1 CCCTAAC
* *
18126663 TCTTAAC
1 CCCTAAC
18126670 CCCTAAC
1 CCCTAAC
**
18126677 ATCTAAC
1 CCCTAAC
18126684 CCCTAAAC
1 CCCT-AAC
18126692 CCCTAAC
1 CCCTAAC
18126699 CCCTAA
1 CCCTAA
18126705 ACCTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:18126712 original size:22 final size:22
Alignment explanation
Indices: 18126667--18126728 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
18126657 CCTAACTCTT
* *
18126667 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACACCTAAACCCTA
* *
18126689 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACACCTAAACCCTA
* *
18126711 AATCCC-AACACTTAAACC
1 AACCCCTAACACCTAAACC
18126729 ATAATCCGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 10 0.30
22 23 0.70
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCCTA
Found at i:18126990 original size:15 final size:15
Alignment explanation
Indices: 18126955--18127024 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
18126945 CCCTAACTTT
**
18126955 TAACCCCTAACACGTC
1 TAACCCCTAA-ACCCC
18126971 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
*
18126986 TAACCCTCT-AACCCT
1 TAACCC-CTAAACCCC
* * *
18127001 TAAACCTTAAATCCC
1 TAACCCCTAAACCCC
18127016 -AACCCCTAA
1 TAACCCCTAA
18127025 TCCATAATCC
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
14 8 0.19
15 23 0.53
16 12 0.28
ACGTcount: A:0.34, C:0.44, G:0.01, T:0.20
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:18126995 original size:23 final size:24
Alignment explanation
Indices: 18126956--18127006 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
18126946 CCTAACTTTT
*
18126956 AACCCCTAACACGTCTAACCCCTA
1 AACCCCTAACACCTCTAACCCCTA
*
18126980 AACCCCTAAC-CCTCTAACCCTTA
1 AACCCCTAACACCTCTAACCCCTA
18127003 AACC
1 AACC
18127007 TTAAATCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (24 bp):
AACCCCTAACACCTCTAACCCCTA
Found at i:18127038 original size:14 final size:14
Alignment explanation
Indices: 18127019--18127067 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
18127009 AAATCCCAAC
18127019 CCCTAATCCATAAT
1 CCCTAATCCATAAT
18127033 CCCTAATCCATAAT
1 CCCTAATCCATAAT
* * *
18127047 CTCTAAACCCATACT
1 CCCT-AATCCATAAT
18127062 CCCTAA
1 CCCTAA
18127068 ACCGACCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.27
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:18127298 original size:73 final size:73
Alignment explanation
Indices: 18127221--18127373 Score: 243
Period size: 73 Copynumber: 2.1 Consensus size: 73
18127211 TTTTTTTGGT
* * * * * * *
18127221 CGCTAAATCCCCGAAAGCTCACAAAATGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTCTT
1 CGCTAAATCCCCGAAAGCTCACAAAATGGCATCGTTGGGCTTAGGTTATTTTGCGGCACTTACTC
18127286 AAAAACGC
66 AAAAACGC
18127294 CGCTAAATCCCCGAAAGCTCACAAAATGGCATCGTTGGGCTTAGGTTATTTTGCGGCACTTACTC
1 CGCTAAATCCCCGAAAGCTCACAAAATGGCATCGTTGGGCTTAGGTTATTTTGCGGCACTTACTC
18127359 AAAAACGC
66 AAAAACGC
18127367 CGCTAAA
1 CGCTAAA
18127374 GCCGTAAGCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (73 bp):
CGCTAAATCCCCGAAAGCTCACAAAATGGCATCGTTGGGCTTAGGTTATTTTGCGGCACTTACTC
AAAAACGC
Found at i:18127579 original size:114 final size:114
Alignment explanation
Indices: 18127273--18127716 Score: 604
Period size: 114 Copynumber: 3.9 Consensus size: 114
18127263 ATGTTTTTTT
* *
18127273 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAATGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACATCGTTGGGCTTAG
*
18127338 GTTATTTTGCGGCACTTACTCAAAAACGCCGCTAAAG-CCGTAAGCATTA
66 GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGACC-TAAGCATTA
* * * * * * *
18127387 GCGGCGCCTTATTAAAAAAAGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTGGCTTA
1 GCGGCGCTTTCTT-AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACATCGTTGGGCTTA
* * * * *
18127452 TGTTTTTTTGCGGCGCTTTC-CTAAAAACGCCGCTAAAAACTTAAGCATTA
65 GGTTATTTTGCGGCGCTTACTC-AAAAACGCCGCTAAAGACCTAAGCATTA
* * * **
18127502 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCTCAAAAGCTCACAAAACGATGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACATCGTTGGGCTTAG
18127567 GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGACCTAAGCATTA
66 GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGACCTAAGCATTA
* * **
18127616 GCGGCGCTTTCTTAAAAACGTCGCTAAATCCCTGAAAGCTCACAAAACGACATTATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACATCGTTGGGCTTAG
* **
18127681 GTTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAA
66 GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAA
18127717 TCCCCAAAAG
Statistics
Matches: 286, Mismatches: 40, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
114 188 0.66
115 97 0.34
116 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGACATCGTTGGGCTTAG
GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGACCTAAGCATTA
Done.