Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 76 of 444
Found at i:18032317 original size:185 final size:185
Alignment explanation
Indices: 18032006--18032504 Score: 779
Period size: 185 Copynumber: 2.7 Consensus size: 185
18031996 AGTGTGCTCT
* * * **
18032006 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATATG--TA
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAA-ATGAATA
* *
18032069 AGATCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
65 AGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATA
18032134 CCACGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
130 CCACGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
18032190 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAAATGAATAA
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAAATGAATAA
** *
18032255 GACCATAATTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
66 GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
*
18032320 CATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
131 CACGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
18032375 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAA
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAAATGAATAA
* * * * * * *
18032440 TACAATGGTTGAAAGATACCATGGCAACATAACA-GAAAATGAGTAAAACCATAGTTGAAAGATA
66 GACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAGATA
18032504 C
130 C
18032505 TATGACATCA
Statistics
Matches: 290, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
183 3 0.01
184 53 0.18
185 234 0.81
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (185 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGGAAAATGAATAA
GACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
CACGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:18038597 original size:17 final size:17
Alignment explanation
Indices: 18038575--18038612 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18038565 AGAGTTCGAT
*
18038575 GTTCCTGGAATGGTCCA
1 GTTCCTAGAATGGTCCA
18038592 GTTCCTAGAATGGTCCA
1 GTTCCTAGAATGGTCCA
18038609 GTTC
1 GTTC
18038613 TGTCTCGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (17 bp):
GTTCCTAGAATGGTCCA
Found at i:18042415 original size:13 final size:13
Alignment explanation
Indices: 18042397--18042422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18042387 TTGTGCATTC
18042397 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
18042410 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
18042423 AACAAATCCC
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:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:18043068 original size:16 final size:16
Alignment explanation
Indices: 18043044--18043077 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18043034 AGAAAATTGG
18043044 GAAAAAAAAAATAAAA
1 GAAAAAAAAAATAAAA
* *
18043060 GAAATAAAAATTAAAA
1 GAAAAAAAAAATAAAA
18043076 GA
1 GA
18043078 GATGTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
GAAAAAAAAAATAAAA
Found at i:18044567 original size:19 final size:20
Alignment explanation
Indices: 18044533--18044583 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
18044523 AAAAAATTTT
* *
18044533 AAAATATTTTTTAAAAT-TA
1 AAAATATTTATAAAAATATA
*
18044552 AAAATATTTATAAAAATATC
1 AAAATATTTATAAAAATATA
18044572 AAAAT-TTTATAA
1 AAAATATTTATAA
18044584 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATATTTATAAAAATATA
Found at i:18044838 original size:14 final size:14
Alignment explanation
Indices: 18044819--18044862 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18044809 TTTGATTTTT
18044819 TAATTTAACTCGAA
1 TAATTTAACTCGAA
* *
18044833 TAATTTTACTCGAT
1 TAATTTAACTCGAA
*
18044847 TAGACTTAACTCGAA
1 TA-ATTTAACTCGAA
18044862 T
1 T
18044863 TTCATTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (14 bp):
TAATTTAACTCGAA
Found at i:18045783 original size:36 final size:36
Alignment explanation
Indices: 18045735--18045809 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
18045725 TTTGAGTCTC
* * *
18045735 AAACACATATAATTAAATATAGATATAATTATATTT
1 AAACACACATAATTAAATATAGATAAAATTATATGT
* *
18045771 AAACACACATAATTAAATCTTGATAAAATTATATGT
1 AAACACACATAATTAAATATAGATAAAATTATATGT
18045807 AAA
1 AAA
18045810 TTTACAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (36 bp):
AAACACACATAATTAAATATAGATAAAATTATATGT
Found at i:18045850 original size:15 final size:17
Alignment explanation
Indices: 18045830--18045864 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
18045820 TGATAAGCCC
18045830 AAAAACT-AGAACC-CA
1 AAAAACTCAGAACCTCA
18045845 AAAAACTCAGAACCTCA
1 AAAAACTCAGAACCTCA
18045862 AAA
1 AAA
18045865 CTTAGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 6 0.33
17 5 0.28
ACGTcount: A:0.60, C:0.26, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAACTCAGAACCTCA
Found at i:18046221 original size:19 final size:19
Alignment explanation
Indices: 18046197--18046233 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18046187 GATGCATATA
*
18046197 TTTTATAATTTATAATTTC
1 TTTTATAATTTAAAATTTC
*
18046216 TTTTATATTTTAAAATTT
1 TTTTATAATTTAAAATTT
18046234 TGGCTAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTAAAATTTC
Found at i:18046589 original size:15 final size:14
Alignment explanation
Indices: 18046545--18046591 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
18046535 TTATTTTTTT
*
18046545 AATT-AATTTAAAA
1 AATTAAATTTTAAA
* *
18046558 AAATAATTTTTAAA
1 AATTAAATTTTAAA
18046572 AATTAAATTTTATAA
1 AATTAAATTTTA-AA
18046587 AATTA
1 AATTA
18046592 TTAAATAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 3 0.11
14 17 0.63
15 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTAAATTTTAAA
Found at i:18047285 original size:15 final size:15
Alignment explanation
Indices: 18047265--18047296 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18047255 ATAATTTATA
18047265 TTTAATTATATGTGT
1 TTTAATTATATGTGT
18047280 TTTAATTATATGTGT
1 TTTAATTATATGTGT
18047295 TT
1 TT
18047297 GAGAATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTAATTATATGTGT
Found at i:18047509 original size:21 final size:20
Alignment explanation
Indices: 18047484--18047528 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
18047474 AAAACGTTCT
18047484 AAAATGTTAATAATTAAATTG
1 AAAATGTTAATAATTAAA-TG
* * *
18047505 AAAATTTTTATAGTTAAATG
1 AAAATGTTAATAATTAAATG
18047525 AAAA
1 AAAA
18047529 AAATAAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (20 bp):
AAAATGTTAATAATTAAATG
Found at i:18048188 original size:3 final size:3
Alignment explanation
Indices: 18048180--18048215 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18048170 TACATAACTT
18048180 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18048216 ATTAATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18051824 original size:27 final size:27
Alignment explanation
Indices: 18051792--18051844 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
18051782 ATCCTAATGG
18051792 TGTTTCTTCTAATTCCTCTAATGTAAA
1 TGTTTCTTCTAATTCCTCTAATGTAAA
* *
18051819 TGTTTCTTCTAATTCTTCTACTGTAA
1 TGTTTCTTCTAATTCCTCTAATGTAA
18051845 TGTGGCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.51
Consensus pattern (27 bp):
TGTTTCTTCTAATTCCTCTAATGTAAA
Found at i:18068681 original size:17 final size:19
Alignment explanation
Indices: 18068648--18068687 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
18068638 CAAATTTAAC
18068648 AACTTTGTAATATATATAG
1 AACTTTGTAATATATATAG
18068667 AACTTTGTAATATATATAG
1 AACTTTGTAATATATATAG
18068686 AA
1 AA
18068688 AGGATAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (19 bp):
AACTTTGTAATATATATAG
Found at i:18072208 original size:3 final size:3
Alignment explanation
Indices: 18072138--18072182 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
18072128 CAATGACATG
18072138 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18072183 TAACGTAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18072409 original size:2 final size:2
Alignment explanation
Indices: 18072385--18072457 Score: 62
Period size: 2 Copynumber: 37.5 Consensus size: 2
18072375 GATATTAAAA
* * *
18072385 AT AT AT AC AT AA AA AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
18072426 AT AT AC AT A- AT AT AGT AT -T AA AA AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A
18072458 ATACATACAC
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.05
2 54 0.92
3 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:18072809 original size:25 final size:25
Alignment explanation
Indices: 18072764--18072817 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
18072754 ATGATACAAT
*
18072764 ATAATAATAATGTAAAGAAAATAAA
1 ATAATAATAATGTAAAGAAAAGAAA
* *
18072789 ATAATAAT-ATTTATAATAAAAGAAA
1 ATAATAATAATGTA-AAGAAAAGAAA
18072814 ATAA
1 ATAA
18072818 AAGAGTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (25 bp):
ATAATAATAATGTAAAGAAAAGAAA
Found at i:18074287 original size:44 final size:44
Alignment explanation
Indices: 18074224--18074709 Score: 767
Period size: 44 Copynumber: 11.3 Consensus size: 44
18074214 AGGAACACCG
* *
18074224 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
18074268 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
18074312 ATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
18074356 ATCTGTTATCTTCGATCTGTTCTCCGCCACTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
18074400 A----TTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
18074440 ATCTGTTATCTTCGATCTGCTCTCCGCC-CTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
18074483 ATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
18074527 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
18074571 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACG-CAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
18074610 ATCTGTTATCTTTGACCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
18074654 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
18074698 ATCTGTTATCTT
1 ATCTGTTATCTT
18074710 TTTCAAGGAA
Statistics
Matches: 408, Mismatches: 24, Indels: 20
0.90 0.05 0.04
Matches are distributed among these distances:
39 6 0.01
40 70 0.17
43 71 0.17
44 261 0.64
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:18074527 original size:171 final size:172
Alignment explanation
Indices: 18074229--18074709 Score: 840
Period size: 171 Copynumber: 2.8 Consensus size: 172
18074219 CACCGATCTG
* *
18074229 TTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
1 TTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
18074294 CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAAATC
66 CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAAATC
*
18074359 TGTTATCTTCGATCTGTTCTCCGCCACTACAGAGATGCCAAA
131 TGTTATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAA
*
18074401 TTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCG
1 TTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
18074466 CC-CTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAAATC
66 CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAAATC
*
18074530 TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAA
131 TGTTATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAA
* * *
18074572 TCATCTTCGATCTGCTCTCCGCCGCTACAGAGACG-CAAATCTGTTATCTTTGACCTGCTCTCCG
1 TTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
* * * *
18074636 CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAAAGATGCCAAATC
66 CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAAATC
18074701 TGTTATCTT
131 TGTTATCTT
18074710 TTTCAAGGAA
Statistics
Matches: 295, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
170 29 0.10
171 202 0.68
172 64 0.22
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (172 bp):
TTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
CCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAAATC
TGTTATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAAA
Found at i:18074578 original size:127 final size:128
Alignment explanation
Indices: 18074224--18074701 Score: 725
Period size: 127 Copynumber: 3.7 Consensus size: 128
18074214 AGGAACACCG
* *
18074224 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
* * *
18074289 CTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCC
66 CTCCGCCGCTACAGAGATGCCAAATC---TATCTTCGATCTGCTCTCCGC-CCTACAGAGACGCC
18074354 AA
127 AA
* * *
18074356 ATCTGTTATCTTCGATCTGTTCTCCGCCACTACAGAGATGCCAAA----TTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
18074417 CTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCCTACAGAGACGCCA
66 CTCCGCCGCTACAGAGATGCCAAATC---TATCTTCGATCTGCTCTCCGCCCTACAGAGACGCCA
18074482 A
128 A
* *
18074483 ATCTGTTATCTTCGATCTGCTCTCTGCTGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
18074548 CTCCGCCGCTACAGAGATGCCAAATC-ATCTTCGATCTGCTCTCCGCCGCTACAGAGACG-CAA
66 CTCCGCCGCTACAGAGATGCCAAATCTATCTTCGATCTGCTCTCCGCC-CTACAGAGACGCCAA
* *
18074610 ATCTGTTATCTTTGACCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
*
18074675 CTCCGCCGCTACAAAGATGCCAAATCT
66 CTCCGCCGCTACAGAGATGCCAAATCT
18074702 GTTATCTTTT
Statistics
Matches: 322, Mismatches: 18, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
127 165 0.51
128 75 0.23
131 42 0.13
132 40 0.12
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.29
Consensus pattern (128 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
CTCCGCCGCTACAGAGATGCCAAATCTATCTTCGATCTGCTCTCCGCCCTACAGAGACGCCAA
Found at i:18081237 original size:46 final size:44
Alignment explanation
Indices: 18081178--18081292 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
18081168 ACAGGACAGA
* *
18081178 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
18081224 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
18081268 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
18081293 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:18081273 original size:44 final size:45
Alignment explanation
Indices: 18081178--18081311 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
18081168 ACAGGACAGA
* *
18081178 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
18081224 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
18081268 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
18081312 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:18088636 original size:44 final size:45
Alignment explanation
Indices: 18088541--18088674 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
18088531 ACAGGACAGA
* * *
18088541 ACAGAAATGAGCCATGTAAGCCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
18088587 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
18088631 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
18088675 CAGGATAATA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 36 0.49
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:18091535 original size:18 final size:18
Alignment explanation
Indices: 18091512--18091547 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18091502 ATTGGTTGCA
*
18091512 AGGACGATGAGGATGATG
1 AGGACGATAAGGATGATG
18091530 AGGACGATAAGGATGATG
1 AGGACGATAAGGATGATG
18091548 TTTCTTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.42, T:0.17
Consensus pattern (18 bp):
AGGACGATAAGGATGATG
Found at i:18091760 original size:11 final size:11
Alignment explanation
Indices: 18091740--18091804 Score: 76
Period size: 11 Copynumber: 5.9 Consensus size: 11
18091730 TTAGTGCTAT
*
18091740 TTTTTGTGCTG
1 TTTTGGTGCTG
* *
18091751 TTTTGTTGCTA
1 TTTTGGTGCTG
*
18091762 TTTTGTTGCTG
1 TTTTGGTGCTG
*
18091773 TTTTGGTACTG
1 TTTTGGTGCTG
*
18091784 TTTTGGTGTTG
1 TTTTGGTGCTG
18091795 TTTTGGTGCT
1 TTTTGGTGCT
18091805 ACTTTTTGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 45 1.00
ACGTcount: A:0.03, C:0.08, G:0.28, T:0.62
Consensus pattern (11 bp):
TTTTGGTGCTG
Found at i:18091776 original size:22 final size:22
Alignment explanation
Indices: 18091725--18091810 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 22
18091715 TTTCACTGCC
* *
18091725 GCTG-TTTAGTGCTATTTTTTGT
1 GCTGTTTTGGTGCTATTTTGT-T
*
18091747 GCTGTTTTGTTGCTATTTTGTT
1 GCTGTTTTGGTGCTATTTTGTT
* * *
18091769 GCTGTTTTGGTACTGTTTTGGT
1 GCTGTTTTGGTGCTATTTTGTT
*
18091791 GTTGTTTTGGTGCTACTTTT
1 GCTGTTTTGGTGCTA-TTTT
18091811 TGTGGTGTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 35 0.67
23 17 0.33
ACGTcount: A:0.06, C:0.09, G:0.26, T:0.59
Consensus pattern (22 bp):
GCTGTTTTGGTGCTATTTTGTT
Found at i:18093600 original size:15 final size:16
Alignment explanation
Indices: 18093582--18093611 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18093572 ATAAATTTCA
18093582 ATATTTTT-AATTTTT
1 ATATTTTTCAATTTTT
18093597 ATATTTTTCAATTTT
1 ATATTTTTCAATTTT
18093612 AATTAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATATTTTTCAATTTTT
Found at i:18096230 original size:15 final size:17
Alignment explanation
Indices: 18096210--18096243 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
18096200 AGCGTATTTC
18096210 AAACAAT-ATA-ATAAT
1 AAACAATAATATATAAT
18096225 AAACAATAATATATAAT
1 AAACAATAATATATAAT
18096242 AA
1 AA
18096244 TTAGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAACAATAATATATAAT
Found at i:18096863 original size:23 final size:25
Alignment explanation
Indices: 18096837--18096882 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
18096827 TCAAATTGTA
18096837 TTTGAATATTGGA-TTTA-ATTTTC
1 TTTGAATATTGGACTTTAGATTTTC
* *
18096860 TTTGTATTTTGGACTTTAGATTT
1 TTTGAATATTGGACTTTAGATTT
18096883 GGGCTAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 4 0.21
25 4 0.21
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.59
Consensus pattern (25 bp):
TTTGAATATTGGACTTTAGATTTTC
Found at i:18097249 original size:25 final size:24
Alignment explanation
Indices: 18097216--18097276 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
18097206 GTCATTGTAT
* *
18097216 AAAAGTAAAATGAATTATTACATT-C
1 AAAATTAAAAT-AATTATAAC-TTAC
*
18097241 AAAATTAAAATATTTATAACTTAC
1 AAAATTAAAATAATTATAACTTAC
18097265 AAAATTTAAAAT
1 AAAA-TTAAAAT
18097277 TATTTGGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 2 0.06
24 12 0.39
25 17 0.55
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (24 bp):
AAAATTAAAATAATTATAACTTAC
Found at i:18107902 original size:26 final size:26
Alignment explanation
Indices: 18107873--18107982 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
18107863 TGGTACAAAT
**
18107873 TGATAATAGGTTAGGTAAATGTTAAA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18107899 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18107925 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18107951 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
18107977 TGATAA
1 TGATAA
18107983 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:18109473 original size:26 final size:26
Alignment explanation
Indices: 18109444--18109496 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
18109434 TTTACAGTTT
18109444 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
18109470 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
18109496 T
1 T
18109497 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:18112634 original size:6 final size:6
Alignment explanation
Indices: 18112623--18112650 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18112613 TCCAACCCTT
18112623 TTCAAA TTCAAA TTCAAA TTCAAA TTCA
1 TTCAAA TTCAAA TTCAAA TTCAAA TTCA
18112651 TCAAACCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (6 bp):
TTCAAA
Found at i:18114401 original size:25 final size:25
Alignment explanation
Indices: 18114371--18114424 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
18114361 ATACACTCTT
*
18114371 TTATTTTCTTTTATTATA-AATATTA
1 TTATTTTATTTTATT-TACAATATTA
* *
18114396 TTATTTTATTTTCTTTACATTATTA
1 TTATTTTATTTTATTTACAATATTA
18114421 TTAT
1 TTAT
18114425 ATTGTATCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATTTTATTTTATTTACAATATTA
Found at i:18114770 original size:16 final size:16
Alignment explanation
Indices: 18114726--18114782 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
18114716 TTCTAATGTG
18114726 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
18114742 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
18114756 TATGTATATATTATAT
1 TATGTATATATTATAT
*
18114772 TATATATATAT
1 TATGTATATAT
18114783 ATCTATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
16 19 0.58
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:18114808 original size:14 final size:14
Alignment explanation
Indices: 18114755--18114812 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
18114745 TAATACTATA
18114755 TTATGTATATA-TT
1 TTATGTATATATTT
* *
18114768 ATAT-TATATATAT
1 TTATGTATATATTT
* *
18114781 ATATCTATTATATTT
1 TTATGTA-TATATTT
18114796 TTATGTATATATTT
1 TTATGTATATATTT
18114810 TTA
1 TTA
18114813 ATATCACATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
12 6 0.16
13 8 0.22
14 12 0.32
15 11 0.30
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (14 bp):
TTATGTATATATTT
Found at i:18114988 original size:3 final size:3
Alignment explanation
Indices: 18114980--18115047 Score: 86
Period size: 3 Copynumber: 23.0 Consensus size: 3
18114970 TAAATTCATA
* * *
18114980 TAT TAT TAT CAT TAT T-T TCT ACAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
18115024 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
18115048 CATCATTGTC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.07
3 52 0.91
4 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:18124515 original size:18 final size:18
Alignment explanation
Indices: 18124492--18124527 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18124482 AANGAAGAAA
*
18124492 CATCATCCTTATCGTCCT
1 CATCATCCTCATCGTCCT
18124510 CATCATCCTCATCGTCCT
1 CATCATCCTCATCGTCCT
18124528 TGCAACCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.42, G:0.06, T:0.36
Consensus pattern (18 bp):
CATCATCCTCATCGTCCT
Found at i:18127454 original size:46 final size:44
Alignment explanation
Indices: 18127350--18127457 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
18127340 TGTCTTTGAC
** * * *
18127350 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
18127394 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
18127440 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
18127458 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:18134822 original size:46 final size:44
Alignment explanation
Indices: 18134718--18134825 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
18134708 TGTCTTTGAC
** * * *
18134718 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
18134762 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
18134808 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
18134826 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:18140749 original size:3 final size:3
Alignment explanation
Indices: 18140695--18140730 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18140685 ATGCAGCAGT
18140695 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
18140731 AAAGCTTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:18143396 original size:16 final size:16
Alignment explanation
Indices: 18143359--18143390 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
18143349 TATCAATCAA
18143359 AAATAAATAAATAACG
1 AAATAAATAAATAACG
18143375 AAATAAAT-AATAACG
1 AAATAAATAAATAACG
18143390 A
1 A
18143391 TGATAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATAAATAAATAACG
Found at i:18143693 original size:20 final size:21
Alignment explanation
Indices: 18143662--18143703 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
18143652 AACAGTTTTA
* *
18143662 AATAATAATAAATAATAAAAT
1 AATAATAATAAACAAAAAAAT
18143683 AATAA-AATAAACAAAAAAAT
1 AATAATAATAAACAAAAAAAT
18143703 A
1 A
18143704 GGCTAACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
AATAATAATAAACAAAAAAAT
Found at i:18145289 original size:44 final size:42
Alignment explanation
Indices: 18145214--18145380 Score: 165
Period size: 44 Copynumber: 3.8 Consensus size: 42
18145204 TCGTAGCTTT
* * * *
18145214 AATCTATTCCACTGCAACTGTAGGGAAATAAGATTCACATCTTC
1 AATCTGTTCCACTGCAACTTTAGGGAGATAAGATT-A-GTCTTC
* *
18145258 AATCTGTTCCACTGCAA-TTTCAAGGAGATAAGATTTGTGGCTTC
1 AATCTGTTCCACTGCAACTTT-AGGGAGATAAGATTAGT--CTTC
* *
18145302 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTAGTGGCTTC
1 AATCTGTTCCACTGCAACTTTAGGGAGATAAGATTAGT--CTTC
* * *
18145346 AATCTGTTCTACTGCAACTTCAGGGAGATGAGATT
1 AATCTGTTCCACTGCAACTTTAGGGAGATAAGATT
18145381 TGCCATGGTA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 98 0.94
45 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (42 bp):
AATCTGTTCCACTGCAACTTTAGGGAGATAAGATTAGTCTTC
Found at i:18145545 original size:234 final size:232
Alignment explanation
Indices: 18145194--18145664 Score: 611
Period size: 234 Copynumber: 2.0 Consensus size: 232
18145184 AAGGAGATAA
18145194 GATTTGTAACTCGTAGCTTTAATCTATTCCACTGCAACTGTAGGGAAATAAGATTCACATCTTCA
1 GATTTGTAACTCGTAGCTTTAATCTATTCCACTGCAACTGTAGGGAAATAAGATTCACATCTTCA
* * ** * *
18145259 ATCTGTTCCACTGCAATTTCAAGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTACAACTTTA
66 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAACCTGCTCCACTACAACTTCA
* * * * * * *
18145324 GGGAGATAAGAT-TAGTGGCTTCAATCTGTTCTACTGCAACTTCAGGGAGATGAGATTTGCCATG
131 GGGAGATAAGATAT-GTGGCTTCAATCTGCTCCACTGCAACTCCAAGGAGATAAGATTCGCCACG
* * * * * *
18145388 GTAGATTTAATCCGACCTATTATAACTTTAGAGGTGTAG
195 AT-GACTCAATCCGACCTACTATAACTTCAGAGGTATAG
* * * * * * *
18145427 GATTTGTGACTTGTAGCTTTAATCTGTTCTACTGCAACTTTAGGGAAATGAGATTCGCTATCTTC
1 GATTTGTAACTCGTAGCTTTAATCTATTCCACTGCAACTGTAGGGAAATAAGATTCAC-ATCTTC
* *
18145492 AATCTGCTCCACTGCAACTTCAAGGAGCTAAGATTTGTAACTTCAACCTGCTCCAGTACAACTTC
65 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAACCTGCTCCACTACAACTTC
* * *
18145557 AGGGAGATAAGATATTTGGCTTTAATCTGCTCCACTGTAACTCCAAGGAGATAAGATTCGCCACG
130 AGGGAGATAAGATATGTGGCTTCAATCTGCTCCACTGCAACTCCAAGGAGATAAGATTCGCCACG
* *
18145622 ATGACTCAGTCCGTCCTACTATAACTTCAGAGGTATAG
195 ATGACTCAATCCGACCTACTATAACTTCAGAGGTATAG
18145660 GATTT
1 GATTT
18145665 ATGGTTTCAC
Statistics
Matches: 203, Mismatches: 33, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
233 85 0.42
234 117 0.58
235 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (232 bp):
GATTTGTAACTCGTAGCTTTAATCTATTCCACTGCAACTGTAGGGAAATAAGATTCACATCTTCA
ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAACCTGCTCCACTACAACTTCA
GGGAGATAAGATATGTGGCTTCAATCTGCTCCACTGCAACTCCAAGGAGATAAGATTCGCCACGA
TGACTCAATCCGACCTACTATAACTTCAGAGGTATAG
Found at i:18145587 original size:44 final size:44
Alignment explanation
Indices: 18145437--18145614 Score: 151
Period size: 44 Copynumber: 4.0 Consensus size: 44
18145427 GATTTGTGAC
* * * * * * * *
18145437 TTGTAGCTTTAATCTGTTCTACTGCAACTTTAGGGAAATGAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
* * *
18145481 TCGCTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGCTAAGAT
1 TTG-TAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
* * * *
18145526 TTGTAACTTCAACCTGCTCCAGTACAACTTCAGGGAGATAAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
** * * *
18145570 ATT-TGGCTTTAATCTGCTCCACTGTAACTCCAAGGAGATAAGAT
1 -TTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
18145614 T
1 T
18145615 CGCCACGATG
Statistics
Matches: 106, Mismatches: 26, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
43 1 0.01
44 69 0.65
45 36 0.34
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
Found at i:18156890 original size:22 final size:22
Alignment explanation
Indices: 18156862--18156903 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18156852 ATGAAAGAAG
18156862 ATAGTGACGTGCCTTTGATTTT
1 ATAGTGACGTGCCTTTGATTTT
*
18156884 ATAGTGATGTGCCTTTGATT
1 ATAGTGACGTGCCTTTGATT
18156904 CTAGGACGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.45
Consensus pattern (22 bp):
ATAGTGACGTGCCTTTGATTTT
Found at i:18158201 original size:20 final size:19
Alignment explanation
Indices: 18158178--18158232 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
18158168 CCTCTTCTCC
18158178 TCTTCCTTTCCCTTCCTCTT
1 TCTTCCTTTCCCTTCC-CTT
* *
18158198 TCTTTCTTTCCCAT-CCTT
1 TCTTCCTTTCCCTTCCCTT
18158216 TCTTCTCTTCTCCCTTC
1 TCTTC-CTT-TCCCTTC
18158233 ACCCAGCGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 17 0.61
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.55
Consensus pattern (19 bp):
TCTTCCTTTCCCTTCCCTT
Found at i:18158402 original size:6 final size:6
Alignment explanation
Indices: 18158379--18158418 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
18158369 CTTTCTCATA
*
18158379 TTTTAT TTTT-T TAATTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT TTTTAT TTTT
18158419 CTTATCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:18164532 original size:19 final size:20
Alignment explanation
Indices: 18164516--18164560 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
18164506 TTATGAAACT
*
18164516 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
18164535 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
18164555 -AATGCA
1 TAATGCA
18164561 AAAAGAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:18168455 original size:9 final size:9
Alignment explanation
Indices: 18168441--18168474 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
18168431 TTTAACTAAT
18168441 AATAAAATA
1 AATAAAATA
18168450 AATAAAATA
1 AATAAAATA
18168459 AATAAAATA
1 AATAAAATA
18168468 AATAAAA
1 AATAAAA
18168475 AAACATAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATAAAATA
Found at i:18169461 original size:6 final size:6
Alignment explanation
Indices: 18169450--18169486 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
18169440 TTGCAGGTGA
18169450 CAGTGG CAGTGG CAGTGG CAGTGG CAGTGG CAGTGG C
1 CAGTGG CAGTGG CAGTGG CAGTGG CAGTGG CAGTGG C
18169487 TGACGGGGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.19, G:0.49, T:0.16
Consensus pattern (6 bp):
CAGTGG
Found at i:18178711 original size:26 final size:26
Alignment explanation
Indices: 18178682--18178734 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
18178672 TCAAACATGC
*
18178682 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
18178708 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
18178734 A
1 A
18178735 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:18180244 original size:26 final size:26
Alignment explanation
Indices: 18180213--18180346 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
18180203 TGAAATGCCC
18180213 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
18180239 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
18180265 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
18180291 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
18180317 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
18180343 ATCA
1 ATCA
18180347 ATTTGTACCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:18184508 original size:26 final size:26
Alignment explanation
Indices: 18184472--18184581 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
18184462 CATGAAATTC
18184472 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
18184498 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
18184524 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
18184550 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
18184576 TTATCA
1 TTATCA
18184582 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:18186743 original size:15 final size:17
Alignment explanation
Indices: 18186723--18186755 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18186713 CATCAAGTTA
18186723 TTTTA-TTA-TATATAT
1 TTTTATTTATTATATAT
18186738 TTTTATTTATTATATAT
1 TTTTATTTATTATATAT
18186755 T
1 T
18186756 ATCTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 3 0.19
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATTTATTATATAT
Found at i:18186748 original size:19 final size:21
Alignment explanation
Indices: 18186724--18186764 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
18186714 ATCAAGTTAT
18186724 TTTATTATATA-TAT-TTTTA
1 TTTATTATATATTATCTTTTA
18186743 TTTATTATATATTATCTTTTA
1 TTTATTATATATTATCTTTTA
18186764 T
1 T
18186765 ATTCTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATTATATATTATCTTTTA
Found at i:18186834 original size:24 final size:24
Alignment explanation
Indices: 18186807--18186861 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
18186797 GATAATTTAC
18186807 ATCTATTATTCTTTTAAAATTGTT
1 ATCTATTATTCTTTTAAAATTGTT
18186831 ATCTATTATTCTTTTAAAATTGTT
1 ATCTATTATTCTTTTAAAATTGTT
*
18186855 ATGTATT
1 ATCTATT
18186862 TTAATTTCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.58
Consensus pattern (24 bp):
ATCTATTATTCTTTTAAAATTGTT
Found at i:18187090 original size:22 final size:23
Alignment explanation
Indices: 18187075--18187117 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
18187065 TTATTTGTTT
18187075 TAAATTTATT-TATTATTATTTC
1 TAAATTTATTATATTATTATTTC
*
18187097 TAAATTTCTTATATTA-TATTT
1 TAAATTTATTATATTATTATTT
18187118 ATTTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (23 bp):
TAAATTTATTATATTATTATTTC
Found at i:18194155 original size:15 final size:15
Alignment explanation
Indices: 18194135--18194168 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
18194125 GGCCAGTACA
18194135 TAGATAAGGGTTCTC
1 TAGATAAGGGTTCTC
18194150 TAGATAAGGGTTCTC
1 TAGATAAGGGTTCTC
18194165 TAGA
1 TAGA
18194169 GGCTTTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (15 bp):
TAGATAAGGGTTCTC
Found at i:18194793 original size:60 final size:57
Alignment explanation
Indices: 18194671--18194804 Score: 160
Period size: 60 Copynumber: 2.3 Consensus size: 57
18194661 TTCATATAAT
* * * * *
18194671 AATAATTATATTAAGAATGTTATTAAATTGTATATTATTTTATTAAATTGTATTTAAT
1 AATAATTATATTAA-AATATGATTAAATTGTATATTATTTTATTAAAATATATTTAAC
* *
18194729 AATAATTATATTAAAATATGATTAAATTATTATTTTTATTTTTATTAAAATATATTTAAC
1 AATAATTATATTAAAATATGATTAAATT-GTA-TATTA-TTTTATTAAAATATATTTAAC
*
18194789 AATAATTTTATTAAAA
1 AATAATTATATTAAAA
18194805 CTTAATAACA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
57 12 0.18
58 16 0.25
59 4 0.06
60 33 0.51
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (57 bp):
AATAATTATATTAAAATATGATTAAATTGTATATTATTTTATTAAAATATATTTAAC
Found at i:18194997 original size:16 final size:16
Alignment explanation
Indices: 18194973--18195010 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18194963 GGAATTACTG
*
18194973 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
*
18194989 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
18195005 ATTACA
1 ATTACA
18195011 ATCATATTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:18197048 original size:12 final size:12
Alignment explanation
Indices: 18197031--18197055 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18197021 AAAACAGAAA
18197031 TTTAGTGGCGTT
1 TTTAGTGGCGTT
18197043 TTTAGTGGCGTT
1 TTTAGTGGCGTT
18197055 T
1 T
18197056 CAATGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (12 bp):
TTTAGTGGCGTT
Found at i:18197212 original size:41 final size:40
Alignment explanation
Indices: 18197100--18197272 Score: 204
Period size: 41 Copynumber: 4.2 Consensus size: 40
18197090 GCGTTTGAAA
* * *
18197100 CAAAACGCCGCTAAAAACTGAGCAATAGTGACATTTTTATC
1 CAAAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTT-TC
*
18197141 CAAAACGCCGCTAAAAACTGAGCAATAGTGGCGTTTTTATC
1 CAAAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTT-TC
* *
18197182 CAAAACGTCGCTAAAAACTGAGAAATAGTGGCGTTTTTTT
1 CAAAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTTTC
* * * *
18197222 CAAAACACCACAAAAAAACTGAGACATAGTGGCGCTTTTGTTC
1 CAAAACGCCGC-TAAAAACTGAGAAATAGTGGCG-TTTT-TTC
18197265 C-AAACGCC
1 CAAAACGCC
18197273 ACAAAAGATT
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
40 9 0.08
41 95 0.81
42 10 0.09
43 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (40 bp):
CAAAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTTTC
Found at i:18201267 original size:26 final size:26
Alignment explanation
Indices: 18201231--18201340 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
18201221 CATGAAATTC
18201231 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
18201257 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
18201283 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
18201309 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
18201335 TTATCA
1 TTATCA
18201341 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:18207030 original size:26 final size:26
Alignment explanation
Indices: 18206994--18207103 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
18206984 CATGAAATTC
18206994 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
18207020 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
18207046 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
18207072 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
18207098 TTATCA
1 TTATCA
18207104 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:18212799 original size:26 final size:26
Alignment explanation
Indices: 18212763--18212872 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
18212753 CATGATATTC
18212763 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
18212789 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
18212815 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
18212841 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
18212867 TTATCA
1 TTATCA
18212873 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:18213775 original size:20 final size:20
Alignment explanation
Indices: 18213730--18213781 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
18213720 CCCCACCCAA
*
18213730 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
18213750 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
18213769 ATTTCCCCAAATC
1 ATTTCCCCAAATC
18213782 AAAATCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:18215351 original size:14 final size:13
Alignment explanation
Indices: 18215328--18215357 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
18215318 ATTACTATAA
18215328 TAATTATATGAAG
1 TAATTATATGAAG
18215341 TAATATATATGAAG
1 TAAT-TATATGAAG
18215355 TAA
1 TAA
18215358 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:18216158 original size:27 final size:27
Alignment explanation
Indices: 18216125--18216189 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
18216115 TTTACTCGTG
18216125 TATATGAAATTTCAGCATGATTTATAA
1 TATATGAAATTTCAGCATGATTTATAA
*
18216152 TATATGAAATTTCAGCATGATTTATAG
1 TATATGAAATTTCAGCATGATTTATAA
*
18216179 CATATGAAATT
1 TATATGAAATT
18216190 GACATGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (27 bp):
TATATGAAATTTCAGCATGATTTATAA
Found at i:18216999 original size:241 final size:241
Alignment explanation
Indices: 18216575--18217028 Score: 854
Period size: 241 Copynumber: 1.9 Consensus size: 241
18216565 ATGAATTAAT
*
18216575 TTTATTACCATGTAGTTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
18216640 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAG
* *
18216705 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATCATGAATCTTAAAAAATTC
18216770 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
18216816 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
18216881 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAG
*
18216946 CTGTAAGATATAACGGATCCTCCTTAGGTGTAACAACGCCACGTATCATGAATCTTAAAAAATTC
131 CTGTAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATCATGAATCTTAAAAAATTC
*
18217011 AAAAAGACTTGGAAAAAG
196 AAAAAGACTTGAAAAAAG
18217029 CATATATCAT
Statistics
Matches: 207, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 207 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAG
CTGTAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATCATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:18217064 original size:9 final size:9
Alignment explanation
Indices: 18217050--18217139 Score: 90
Period size: 9 Copynumber: 9.3 Consensus size: 9
18217040 TAGTTTAAAG
*
18217050 TTACATAAT
1 TTACATAAC
18217059 TTACATAACAAC
1 TTACAT-A--AC
18217071 TTACATAAC
1 TTACATAAC
*
18217080 TCACATAAC
1 TTACATAAC
*
18217089 TTACATAAT
1 TTACATAAC
18217098 TTACATAAC
1 TTACATAAC
18217107 TTACATAAC
1 TTACATAAC
*
18217116 GTACATAACAAC
1 TTACAT---AAC
18217128 TTACATAAC
1 TTACATAAC
18217137 TTA
1 TTA
18217140 ACTAATACAT
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
9 51 0.75
10 1 0.01
11 1 0.01
12 15 0.22
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:18222706 original size:21 final size:21
Alignment explanation
Indices: 18222680--18222727 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
18222670 TCAACTTAGA
*
18222680 GCGGAGGCAGCAGCGCGGAAG
1 GCGGAGGCAGCAGCGAGGAAG
*
18222701 GCGGAGGCAGCAGCGAGGCAG
1 GCGGAGGCAGCAGCGAGGAAG
18222722 GCGGAG
1 GCGGAG
18222728 CAAAACAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.54, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGAAG
Found at i:18227715 original size:26 final size:26
Alignment explanation
Indices: 18227678--18227733 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
18227668 TGTAAAAATT
*
18227678 TAGG-ATATTGAAAAACAAATTTTCA
1 TAGGTATATTGAAAAACAAATTCTCA
18227703 TAGGTATATTGAAAAACAAATTCTCA
1 TAGGTATATTGAAAAACAAATTCTCA
18227729 TAGGT
1 TAGGT
18227734 TCAATCATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (26 bp):
TAGGTATATTGAAAAACAAATTCTCA
Found at i:18232250 original size:16 final size:16
Alignment explanation
Indices: 18232231--18232261 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18232221 GTGAACAAAT
18232231 AATAAAAAAATAATAC
1 AATAAAAAAATAATAC
*
18232247 AATAAAAAACTAATA
1 AATAAAAAAATAATA
18232262 AAATTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAAAAAATAATAC
Found at i:18232352 original size:3 final size:3
Alignment explanation
Indices: 18232344--18232385 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
18232334 GAATTAAAAT
* * *
18232344 TAA TAA TAA CAA -AA AAA TAA TAA TAA CAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18232386 GACACAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:18232364 original size:17 final size:18
Alignment explanation
Indices: 18232338--18232385 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
18232328 TTAAAAGAAT
*
18232338 TAAAATTAATAATAACAA
1 TAAAAATAATAATAACAA
18232356 -AAAAATAATAATAACAA
1 TAAAAATAATAATAACAA
*
18232373 TAATAATAATAAT
1 TAAAAATAATAAT
18232386 GACACAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATAATAATAACAA
Found at i:18232511 original size:11 final size:11
Alignment explanation
Indices: 18232477--18232524 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
18232467 TCAATAAGGA
18232477 TAATAAT-AAT
1 TAATAATAAAT
*
18232487 TAATAATTAA-
1 TAATAATAAAT
*
18232497 TAATACTAAAT
1 TAATAATAAAT
*
18232508 TAATAATAAAG
1 TAATAATAAAT
18232519 TAATAA
1 TAATAA
18232525 GCAAATAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
TAATAATAAAT
Found at i:18232659 original size:12 final size:12
Alignment explanation
Indices: 18232644--18232684 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
18232634 AAAGAAATAG
18232644 TAATAATAGTAA
1 TAATAATAGTAA
18232656 TAATAATAGTAA
1 TAATAATAGTAA
18232668 TAAT-ATA--AA
1 TAATAATAGTAA
18232677 TAATAATA
1 TAATAATA
18232685 TATGTTTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.21
10 3 0.11
11 3 0.11
12 16 0.57
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (12 bp):
TAATAATAGTAA
Found at i:18232678 original size:21 final size:21
Alignment explanation
Indices: 18232639--18232684 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
18232629 ACGTAAAAGA
18232639 AATAGTAATAATAGTAATAAT
1 AATAGTAATAATAGTAATAAT
18232660 AATAGTAATAATA-TAAATAAT
1 AATAGTAATAATAGT-AATAAT
18232681 AATA
1 AATA
18232685 TATGTTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AATAGTAATAATAGTAATAAT
Found at i:18235674 original size:12 final size:11
Alignment explanation
Indices: 18235644--18235678 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
18235634 TTATATATAT
*
18235644 ATATTTAAAAA
1 ATATATAAAAA
18235655 ATATATAAAAA
1 ATATATAAAAA
18235666 ATATAATAAAAA
1 ATAT-ATAAAAA
18235678 A
1 A
18235679 GTAATACGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATATATAAAAA
Found at i:18236925 original size:3 final size:3
Alignment explanation
Indices: 18236919--18236952 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
18236909 TAGAAAAATT
18236919 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18236953 TGAAGTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:18238042 original size:13 final size:14
Alignment explanation
Indices: 18238005--18238042 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
18237995 TTTGAAGGAG
18238005 AAAATAGAAATAGT
1 AAAATAGAAATAGT
*
18238019 AAAATATAAAT-GT
1 AAAATAGAAATAGT
*
18238032 AAATTAGAAAT
1 AAAATAGAAAT
18238043 TTAGGGGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (14 bp):
AAAATAGAAATAGT
Found at i:18239470 original size:35 final size:36
Alignment explanation
Indices: 18239431--18239501 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 36
18239421 ATGTATTTAT
18239431 AATAATAAAT-TGATG-TTTAAAAATAATATAA-AATA
1 AATAATAAATGT-ATGATTTAAAAATAAT-TAATAATA
*
18239466 AATAATAAATGTATGATTTAAAATTAATTAATAATA
1 AATAATAAATGTATGATTTAAAAATAATTAATAATA
18239502 TATGAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
35 16 0.50
36 16 0.50
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (36 bp):
AATAATAAATGTATGATTTAAAAATAATTAATAATA
Found at i:18239505 original size:25 final size:25
Alignment explanation
Indices: 18239459--18239506 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
18239449 AAAAATAATA
*
18239459 TAAAATAAATAATAAATGTATGATT
1 TAAAATAAATAATAAATATATGATT
*
18239484 TAAAATTAATTAAT-AATATATGA
1 TAAAA-TAAATAATAAATATATGA
18239507 AATATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
TAAAATAAATAATAAATATATGATT
Found at i:18242404 original size:49 final size:49
Alignment explanation
Indices: 18242303--18242404 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 49
18242293 GACCCCCGTA
* * * **
18242303 AAAATTAACTAAAAATTTTCATAAAAGATTAAATCTAACCTAAGCATGT
1 AAAATTAACTAAAAATTTTCATAAAAAATGAAATCTAACCTAAACACAT
*
18242352 AAAATTAACT-AAAATTTGTCATAAAAAATGAAATCTAACCTAAATACAT
1 AAAATTAACTAAAAATTT-TCATAAAAAATGAAATCTAACCTAAACACAT
18242401 AAAA
1 AAAA
18242405 ACATTAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 7 0.15
49 39 0.85
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (49 bp):
AAAATTAACTAAAAATTTTCATAAAAAATGAAATCTAACCTAAACACAT
Found at i:18244243 original size:6 final size:6
Alignment explanation
Indices: 18244232--18244256 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18244222 ATTTTTGGGT
18244232 CCCTCA CCCTCA CCCTCA CCCTCA C
1 CCCTCA CCCTCA CCCTCA CCCTCA C
18244257 AATGCTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CCCTCA
Found at i:18246401 original size:30 final size:30
Alignment explanation
Indices: 18246356--18246413 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
18246346 ATACATTTGA
* *
18246356 ACCATAATTAGAGTTTCATGTGTATAATTAT
1 ACCATAATTAAAGTTT-ATGTATATAATTAT
18246387 ACCA-AATTAAAGTTTATGTATATAATT
1 ACCATAATTAAAGTTTATGTATATAATT
18246414 GTATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 10 0.40
31 4 0.16
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (30 bp):
ACCATAATTAAAGTTTATGTATATAATTAT
Found at i:18246412 original size:29 final size:31
Alignment explanation
Indices: 18246330--18246413 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 31
18246320 ATTAAATCAA
* * * *
18246330 AATTAAAATTTCAAGTATACATTTGA-ACCAT
1 AATTAAAGTTTCATGTATATAATT-ATACCAT
* *
18246361 AATTAGAGTTTCATGTGTATAATTATACCA-
1 AATTAAAGTTTCATGTATATAATTATACCAT
18246391 AATTAAAGTTT-ATGTATATAATT
1 AATTAAAGTTTCATGTATATAATT
18246414 GTATATTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 11 0.25
30 11 0.25
31 22 0.50
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (31 bp):
AATTAAAGTTTCATGTATATAATTATACCAT
Found at i:18249667 original size:132 final size:132
Alignment explanation
Indices: 18249383--18249649 Score: 491
Period size: 131 Copynumber: 2.0 Consensus size: 132
18249373 TTTTGTCATG
*
18249383 TGTCGCATCGACACTATATGGTGTGTAGGGATGGGTGGGTGTTTTTAACCCCACATGGTGAGATG
1 TGTCACATCGACACTATATGGTGTGTAGGGATGGGTGGGTGTTTTTAACCCCACATGGTGAGATG
18249448 GGATGGTCGGAGATGGTGTGTAGAGGATGGGGTAGGAATTTGGATATTTGCTATGTTTATCTGAT
66 GGATGGTCGGAGATGGTGTGTAGAGGATGGGGTAGGAATTTGGATATTTGCTATGTTTATCTGAT
18249513 TC
131 TC
18249515 TGTCACATCGACACTATATGGTGTGT-GGGATGGGTGGGTGTTTTTAACCCCACATGGTGAGATG
1 TGTCACATCGACACTATATGGTGTGTAGGGATGGGTGGGTGTTTTTAACCCCACATGGTGAGATG
* *
18249579 GGATGGTCGGAGATGGTGTGTAGAGGATGGGATTAGGATTTTGGATATTTGCTATGTTTATCTGA
66 GGATGGTCGGAGATGGTGTGTAGAGGATGGG-GTAGGAATTTGGATATTTGCTATGTTTATCTGA
18249644 TTC
130 TTC
18249647 TGT
1 TGT
18249650 TATCTGCATC
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
131 69 0.53
132 62 0.47
ACGTcount: A:0.20, C:0.10, G:0.35, T:0.34
Consensus pattern (132 bp):
TGTCACATCGACACTATATGGTGTGTAGGGATGGGTGGGTGTTTTTAACCCCACATGGTGAGATG
GGATGGTCGGAGATGGTGTGTAGAGGATGGGGTAGGAATTTGGATATTTGCTATGTTTATCTGAT
TC
Found at i:18257294 original size:10 final size:10
Alignment explanation
Indices: 18257279--18257339 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
18257269 AGTCTTTCTT
18257279 TTTATTTTTA
1 TTTATTTTTA
*
18257289 TTTATTTTTTCT
1 TTTA-TTTTT-A
18257301 TTTATTATTTA
1 TTTATT-TTTA
18257312 -TTATTTTCT-
1 TTTATTTT-TA
18257321 TTTATTTTTA
1 TTTATTTTTA
18257331 TTTTATTTT
1 -TTTATTTT
18257340 AGTTAAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
9 3 0.07
10 17 0.40
11 15 0.36
12 7 0.17
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:18257303 original size:16 final size:17
Alignment explanation
Indices: 18257284--18257340 Score: 64
Period size: 16 Copynumber: 3.3 Consensus size: 17
18257274 TTCTTTTTAT
18257284 TTTTATTTATT-TTTTC
1 TTTTATTTATTATTTTC
18257300 TTTTATTATTTATTATTTTC
1 --TT-TTATTTATTATTTTC
*
18257320 TTTTATTT-TTATTTTA
1 TTTTATTTATTATTTTC
18257336 TTTTA
1 TTTTA
18257341 GTTAAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 12 0.33
17 6 0.17
18 4 0.11
19 9 0.25
20 5 0.14
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTATTTTC
Found at i:18257310 original size:19 final size:19
Alignment explanation
Indices: 18257286--18257334 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
18257276 CTTTTTATTT
18257286 TTATTTATTTTTTCTTTTA
1 TTATTTATTTTTTCTTTTA
18257305 TTATTTATTATTTTCTTTTA
1 TTATTTATT-TTTTCTTTTA
18257325 TT-TTTATTTT
1 TTATTTATTTT
18257335 ATTTTAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.07
19 15 0.52
20 12 0.41
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
TTATTTATTTTTTCTTTTA
Found at i:18257531 original size:43 final size:42
Alignment explanation
Indices: 18257448--18257538 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
18257438 TCCATGCTGT
* * * *
18257448 CAAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTGCAGC
1 CAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAGC
*
18257490 CAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCAGC
1 CAAACAGTCCTATTCCAGCC-CAGAAT-CCCAAAACTCTGCAGC
18257533 CAAACA
1 CAAACA
18257539 CCCCTTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 19 0.45
43 18 0.43
44 5 0.12
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.20
Consensus pattern (42 bp):
CAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAGC
Found at i:18258432 original size:118 final size:117
Alignment explanation
Indices: 18258207--18258436 Score: 388
Period size: 118 Copynumber: 2.0 Consensus size: 117
18258197 TGTTTTCCAT
*
18258207 GGTTATGAGTACAGCTTAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
1 GGTTATGAGTACAGCTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
18258272 TACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 TACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
18258324 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCT-AAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
18258389 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
65 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
18258437 ACCGGAAATA
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
117 14 0.13
118 91 0.87
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (117 bp):
GGTTATGAGTACAGCTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATTC
TACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:18262576 original size:22 final size:22
Alignment explanation
Indices: 18262550--18262593 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18262540 AATCCTAATT
*
18262550 TATAAATTTTAAAATAAAAAAA
1 TATAAATTTAAAAATAAAAAAA
* *
18262572 TATAAGTTTAAAAATATAAAAA
1 TATAAATTTAAAAATAAAAAAA
18262594 GTGTTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TATAAATTTAAAAATAAAAAAA
Found at i:18263793 original size:19 final size:20
Alignment explanation
Indices: 18263760--18263797 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18263750 TTCATATTAA
18263760 TTATAAAAAATTAAAATATT
1 TTATAAAAAATTAAAATATT
*
18263780 TTATTAAAAA-TAAAATAT
1 TTATAAAAAATTAAAATAT
18263798 AAAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTATAAAAAATTAAAATATT
Found at i:18265325 original size:38 final size:40
Alignment explanation
Indices: 18265248--18265335 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 40
18265238 TTAAAAATAT
* *
18265248 TTATATTAAAAACACTACCATAAATATAATAGTCATTTTA
1 TTATATTAAAAACACTACAATAAATATAATAATCATTTTA
*
18265288 TTATATTAAAAACAC-A-AATAAATATAATAAAT-TTTTTA
1 TTATATTAAAAACACTACAATAAATATAAT-AATCATTTTA
*
18265326 TTGTATTAAA
1 TTATATTAAA
18265336 TATAATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 25 0.58
39 3 0.07
40 15 0.35
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATATAATAATCATTTTA
Found at i:18266835 original size:21 final size:21
Alignment explanation
Indices: 18266797--18266837 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18266787 ATTAGGTATC
*
18266797 AAGATTAAATTATAAATTTTT
1 AAGATTAAAATATAAATTTTT
18266818 AAGAGTTAAAATAT-AATTTT
1 AAGA-TTAAAATATAAATTTT
18266838 ATTATTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
AAGATTAAAATATAAATTTTT
Found at i:18273002 original size:3 final size:3
Alignment explanation
Indices: 18272987--18273061 Score: 118
Period size: 3 Copynumber: 25.0 Consensus size: 3
18272977 GTTATTTTCA
18272987 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA- TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
18273032 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18273062 GTGCTTTTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 3 0.04
3 61 0.90
4 4 0.06
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18273703 original size:22 final size:23
Alignment explanation
Indices: 18273641--18273704 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
18273631 ATTATATGTG
* *
18273641 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AATATGCTTTAA
18273665 TATTATATTAT-ATATATGCTTT-A
1 TA-TATATTATGA-ATATGCTTTAA
18273688 TATATATTATGAATATG
1 TATATATTATGAATATG
18273705 TATTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 9 0.26
25 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAATATGCTTTAA
Found at i:18277881 original size:1 final size:1
Alignment explanation
Indices: 18277865--18277932 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
18277855 GACAGTCATG
* * * * *** * *
18277865 AAAAGAAAAGAAAAAAAAAAAAAAAAAACAAAAAGAAAAAAAGGGACAAGAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18277930 AAA
1 AAA
18277933 GAAATCAAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:18280261 original size:75 final size:74
Alignment explanation
Indices: 18280107--18280392 Score: 348
Period size: 75 Copynumber: 3.8 Consensus size: 74
18280097 ATTCTGATGC
* * * *
18280107 TTTT-ATTTCTG-T-TTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
18280169 CTGAGGT-A
66 CTGAGGTAA
* *
18280177 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTGTTCTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
18280242 CGCTGAGGTAA
64 CGCTGAGGTAA
* *
18280253 TTTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
18280317 CTGAGGTAA
66 CTGAGGTAA
*
18280326 TTTCAATTTCTGTTTTCTTCAATTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTG--TTCTTC-A-------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
18280391 TC
56 TC
18280393 GTCTCACATG
Statistics
Matches: 188, Mismatches: 11, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
70 4 0.02
72 7 0.04
73 65 0.35
74 3 0.02
75 66 0.35
76 5 0.03
84 38 0.20
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
TTTTAATTTCTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAA
Found at i:18280310 original size:73 final size:72
Alignment explanation
Indices: 18280107--18280431 Score: 334
Period size: 73 Copynumber: 4.3 Consensus size: 72
18280097 ATTCTGATGC
* * *
18280107 TTTT-ATTTCTG--TTTCAAAAATTCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCTGTTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
18280169 CTGAGGTA
65 CTGAGGTA
* * *
18280177 TTTTCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACA
1 TTTT-AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
18280242 CGCTGAGGTAA
63 CGCTGAGGT-A
*
18280253 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
18280318 TGAGGTAA
66 TGAGGT-A
*
18280326 TTTCAATTTCTGTTTTCTTCAATTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTG----------TTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
18280391 TC-GTCTCACATGCTGAGGTC
55 TCAG---GACACGCTGAGGTA
18280411 TTTTCAATTTCTGTTTTTCAA
1 TTTT-AATTTCTGTTTTTCAA
18280432 TTTCTGTCTT
Statistics
Matches: 220, Mismatches: 13, Indels: 39
0.81 0.05 0.14
Matches are distributed among these distances:
70 4 0.02
72 7 0.03
73 64 0.29
74 3 0.01
75 60 0.27
76 14 0.06
83 5 0.02
84 40 0.18
85 3 0.01
86 20 0.09
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (72 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTA
Found at i:18280430 original size:14 final size:14
Alignment explanation
Indices: 18280411--18280445 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
18280401 TGCTGAGGTC
18280411 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
18280425 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
18280439 CTTTCAA
1 TTTTCAA
18280446 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:18280473 original size:91 final size:87
Alignment explanation
Indices: 18280253--18280667 Score: 384
Period size: 77 Copynumber: 5.0 Consensus size: 87
18280243 GCTGAGGTAA
*
18280253 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATG
18280317 CTGAGGTAATTTCAATTTCTGTT
65 CTGAGGTAATTTCAATTTCTGTT
18280340 TTCTTCAATTT-TG---TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GTCTCAC
1 TT-TTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---CAC
**
18280400 ATGCTGAGGTCTTTTCAATTTCTG-T
62 ATGCTGAGGTAATTTCAATTTCTGTT
*
18280425 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA
* * *
18280490 CGCTGAGGAAATTTCAATTTATG-T
63 TGCTGAGGTAATTTCAATTTCTGTT
* ** * ** *
18280514 TTGTC-A---C-----AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACGC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
* *
18280570 TGAGGTATTTTCAATTTCTG-C
66 TGAGGTAATTTCAATTTCTGTT
* * *
18280591 TCTTCAA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
18280645 TGAGGTAATTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTGTT
18280667 T
1 T
18280668 GTCAAGAATC
Statistics
Matches: 289, Mismatches: 24, Indels: 41
0.82 0.07 0.12
Matches are distributed among these distances:
75 64 0.22
76 1 0.00
77 65 0.22
78 1 0.00
83 1 0.00
84 48 0.17
85 6 0.02
86 24 0.08
87 2 0.01
88 5 0.02
89 33 0.11
91 38 0.13
92 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (87 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACATGC
TGAGGTAATTTCAATTTCTGTT
Found at i:18280552 original size:77 final size:75
Alignment explanation
Indices: 18280426--18280703 Score: 420
Period size: 75 Copynumber: 3.7 Consensus size: 75
18280416 AATTTCTGTT
18280426 TTTCAATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
18280490 CGCTGAGGAAA
65 CGCTGAGGTAA
* * *
18280501 TTTCAATTTATGTTTGTCACAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGC
1 TTTCAATTTCTGTTTGT--CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
18280566 ACGCTGAGGTAT
64 ACGCTGAGGTAA
*
18280578 TTTCAATTTCTGCTCT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
18280642 CGCTGAGGTAA
65 CGCTGAGGTAA
* *
18280653 TTTCAATTTCTGTTTGTC--AAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
18280704 ACCTTTTAAT
Statistics
Matches: 185, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
73 31 0.17
74 4 0.02
75 82 0.44
77 66 0.36
78 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (75 bp):
TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAA
Found at i:18281247 original size:287 final size:288
Alignment explanation
Indices: 18280578--18281278 Score: 1262
Period size: 287 Copynumber: 2.4 Consensus size: 288
18280568 GCTGAGGTAT
18280578 TTTCAATTTCTG-CTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTCT-TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
18280642 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
64 CGCTGAGGTAATTTCAATTCCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
*
18280707 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
129 TTTTAATTTCTACGTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
18280772 TGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG
194 TGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG
18280837 GTCACACGCCGAGGTATTTTCAATTAAGCC
259 GTCACACGCCGAGGTATTTTCAATTAAGCC
18280867 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
18280932 CTGAGGTAATTTCAATTCCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTT
66 CTGAGGTAATTTCAATTCCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTT
18280997 TTAATTTCTACGTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
131 TTAATTTCTACGTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
*
18281062 AGGTATTTTCAA-TTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
196 AGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGT
18281126 CACACGCCGAGGTATTTTCAATTAAGCC
261 CACACGCCGAGGTATTTTCAATTAAGCC
** * *
18281154 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACG
1 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * * * *
18281219 CTGAGGTATTTTCAATTGCTGATTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 CTGAGGTAATTTCAATTCCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
18281279 GCCTCAGGGC
Statistics
Matches: 399, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
287 195 0.49
288 187 0.47
289 15 0.04
290 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (288 bp):
TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAATTTCAATTCCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTT
TTAATTTCTACGTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGT
CACACGCCGAGGTATTTTCAATTAAGCC
Found at i:18281275 original size:73 final size:73
Alignment explanation
Indices: 18281173--18281308 Score: 245
Period size: 73 Copynumber: 1.9 Consensus size: 73
18281163 CTGTCTTTCA
*
18281173 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTGC
18281238 TGATTGTC
66 TGATTGTC
**
18281246 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
18281309 TCTGTTTTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTGC
TGATTGTC
Found at i:18281428 original size:70 final size:73
Alignment explanation
Indices: 18281313--18281473 Score: 222
Period size: 70 Copynumber: 2.2 Consensus size: 73
18281303 TCAATTTCTG
* *
18281313 TTTTAATTTCATG-TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA-CCTCAGGTCAC
1 TTTTAATTTC-TGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
18281376 GATGAGGT-A
64 GATGAGGTAA
* * *
18281385 TTTTAATTTCTGTTTTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTTAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
18281449 TGAGGTAA
66 TGAGGTAA
*
18281457 TTTCAATTTCTGTTTTC
1 TTTTAATTTCTGTTTTC
18281474 TCCAATTTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
70 31 0.39
71 18 0.22
72 31 0.39
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (73 bp):
TTTTAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
TGAGGTAA
Found at i:18281599 original size:159 final size:156
Alignment explanation
Indices: 18281009--18282392 Score: 1213
Period size: 159 Copynumber: 8.4 Consensus size: 156
18280999 AATTTCTACG
* *
18281009 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TTTTCAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
* ** *
18281074 TTT-TGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGG
66 TTTCTGT-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGG
** * *
18281138 TATTTTCAA-TTAAGCCTTTCAATTTCTGT
128 TATTTTCAATTTCTG-TTTTCAATTTATGT
* * * *
18281167 CTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC
1 TTTTC--AAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
* * *
18281232 AATTGCTGATTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
64 AATTTCTG-TT-TTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
18281297 GTATTTTCAATTTCTGTTTT-AATTTCATGT
127 GTATTTTCAATTTCTGTTTTCAATTT-ATGT
*** * * *
18281327 TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA-CCTCAGGTCACGATGAGGTATTTT-A
1 TT-TTCAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
* *
18281390 ATTTCTGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGT
65 ATTTCTGTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
18281455 AATTTCAATTTCTGTTTTCTCCAATTTATGT
129 ATTTTCAATTTCTG-TTT-T-CAATTTATGT
*
18281486 TTTTCAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAA
1 TTTTCAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
* * ** * *
18281550 TTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACACGCCGAGG
66 TTTCTGT-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGG
** * *
18281615 TATTTTCAA-TTAAGCCTTTCAATTTCTGT
128 TATTTTCAATTTCTG-TTTTCAATTTATGT
* * * * *
18281644 CTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTC
1 TTTTC--AAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
* * *
18281709 AATTGCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAG
64 AATTTCTGTTT-T-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
18281774 GTATTTTCAATTTCTGTTTT-AATTTCCATGT
127 GTATTTTCAATTTCTGTTTTCAATTT--ATGT
*** * * * * *
18281805 TTCAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAA
1 TTTTCAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
* *
18281870 TTTCCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGT
66 TTTCTG-TTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
18281935 AATTTCAATTTCTGTTTTCTCCAATTTATGT
129 ATTTTCAATTTCTG-TTT-T-CAATTTATGT
*
18281966 TTTTCAAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCG
1 TTTTC-AAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGG-----T--
* *
18282031 ATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCC
58 A----T--TTT-CAATTTCTG-T-TT--TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * * *
18282096 TCAGGGCACGCTGAGGTATTTTCAATTTTTGCTTTCCAATTTCTGC
112 TCAGGACACGCTGAGGTATTTTCAATTTCTG-TTTTCAATTTATGT
* ** * * * * *
18282142 CTTTCAAAAAAAAAAAAACTCATATCGCGA-AAGGTGAGTTGAGCCTCAAGACACGCTAAGGTAT
1 TTTTC-----AAAATCAGCTCATATTGCGAGAA-GTGAGTTGAGCCTCAGGGCACGCTGAGGTAT
* * * * *
18282206 TGTCAACTTTCGTTTCTTGATTTATGTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTG
60 TTTCAA------TTTC--------TG-TTTT--AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
18282271 AGCCTCAGGACACGCTGAGGTATTGTCAACTTT-TGTTTCTTAATTTATGT
108 AGCCTCAGGACACGCTGAGGTATTTTCAA-TTTCTGTTT-TCAATTTATGT
* ** * * * *
18282321 TTTTCCAAAATTTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGATCACACGCTGAGGTATT
1 TTTT-CAAAA-TCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGG---GCACGCTGAGGTATT
18282386 TTCAATT
61 TTCAATT
18282393 AATGTTTTTT
Statistics
Matches: 1005, Mismatches: 143, Indels: 141
0.78 0.11 0.11
Matches are distributed among these distances:
155 1 0.00
156 65 0.06
157 10 0.01
158 86 0.09
159 214 0.21
160 158 0.16
161 65 0.06
162 123 0.12
163 5 0.00
166 3 0.00
167 3 0.00
169 2 0.00
172 4 0.00
173 4 0.00
175 8 0.01
176 46 0.05
177 3 0.00
178 68 0.07
179 88 0.09
180 49 0.05
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (156 bp):
TTTTCAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
TTTCTGTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
TTTCAATTTCTGTTTTCAATTTATGT
Found at i:18281606 original size:477 final size:481
Alignment explanation
Indices: 18281009--18282034 Score: 1893
Period size: 477 Copynumber: 2.1 Consensus size: 481
18280999 AATTTCTACG
* * *
18281009 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TTTTCAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
*
18281074 -TTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGG
66 TTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACACGCCGAGG
18281138 TATTTTCAATTAAGCCTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGT
131 TATTTTCAATTAAGCCTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGT
*
18281203 TGAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTGATTGTCAAAAATCAACTCATATTGCGAG
196 TAAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTGATTGTCAAAAATCAACTCATATTGCGAG
18281268 AGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTAATTT-CATGTTTCAA
261 AGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTAATTTCCATGTTTC-A
18281332 AAAAATCAGCTCATATTGCGAGAGGTGAGTTG-ACCTCAGGTCACGATGAGGTA-TTTTAATTTC
325 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATTTC
* *
18281395 TG-TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
390 CGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
18281459 TCAATTTCTGTTTTCTCCAATTTATGT
455 TCAATTTCTGTTTTCTCCAATTTATGT
18281486 TTTTCAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAA
1 TTTTCAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
18281550 TTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACACGCCGAGG
66 TTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACACGCCGAGG
18281615 TATTTTCAATTAAGCCTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGT
131 TATTTTCAATTAAGCCTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGT
*
18281680 TAAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTGTTTGTCAAAAATCAACTCATATTGCGAG
196 TAAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTGATTGTCAAAAATCAACTCATATTGCGAG
* *
18281745 AGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCAATTTCTGTTTTAATTTCCATGTTTCAG
261 AGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTAATTTCCATGTTTCAA
18281810 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATTTCC
326 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATTTCC
18281875 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTT
391 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTT
18281940 CAATTTCTGTTTTCTCCAATTTATGT
456 CAATTTCTGTTTTCTCCAATTTATGT
*
18281966 TTTTCAAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCG
1 TTTTC-AAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
18282031 ATTT
65 ATTT
18282035 CTGCTTTCCA
Statistics
Matches: 532, Mismatches: 10, Indels: 9
0.97 0.02 0.02
Matches are distributed among these distances:
476 22 0.04
477 316 0.59
478 29 0.05
479 11 0.02
480 93 0.17
481 37 0.07
482 24 0.05
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (481 bp):
TTTTCAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
TTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACACGCCGAGG
TATTTTCAATTAAGCCTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGT
TAAGCCTCGGGGCACGCTGAGGTATTTTCAATTGCTGATTGTCAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTAATTTCCATGTTTCAA
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTTAATTTCC
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTT
CAATTTCTGTTTTCTCCAATTTATGT
Found at i:18281711 original size:248 final size:245
Alignment explanation
Indices: 18281255--18282037 Score: 848
Period size: 248 Copynumber: 3.2 Consensus size: 245
18281245 CAAAAATCAA
* *
18281255 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTAAT
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTGT-AT
* *
18281320 TTCATGTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTG-ACCTCAGGTCACGATGAGGT
65 TTCATATTTC-----AA-CAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGACGAGGT
*
18281384 A----T--TTT-AATTTCTGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAG
124 ATTTTTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
18281442 GACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAATTAG
189 GACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAATTAG
*
18281499 CTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTG-TGT-TT
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTGTATT
*
18281561 T-A-ATTTC-A-A-CTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACACGCCGAGGTATTTT
66 TCATATTTCAACAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGT--CACGACGAGGTA-TTT
** *
18281621 CAATTAAGCCTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCC
128 ---TTAA---TTTCAATTTCTGT-TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * * * * * *
18281686 TCGGGGCACGCTGAGGTATTTTCAATTGCTG-TTTGT-C-----A--------AAAATCAA
185 TCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAATTAG
* * *
18281732 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCAATTTCTGTTTTAAT
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTGT-AT
* *
18281797 TTCCATGTTTCAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGT
65 TT-CATATTTC----AA-CAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGACGAGGT
18281862 ATTTTTAATTTC-----C-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
124 ATTTTTAATTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
18281921 GGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAAATTAG
188 GGACATGCTGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTC-AAAATTAG
*
18281980 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCGATTTCTG
1 CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
18282038 CTTTCCAATT
Statistics
Matches: 449, Mismatches: 39, Indels: 98
0.77 0.07 0.17
Matches are distributed among these distances:
229 23 0.05
230 10 0.02
232 70 0.16
233 43 0.10
234 29 0.06
235 2 0.00
237 3 0.01
238 4 0.01
239 7 0.02
240 8 0.02
241 1 0.00
242 6 0.01
243 27 0.06
244 28 0.06
245 7 0.02
246 20 0.04
247 9 0.02
248 152 0.34
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (245 bp):
CTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTGTATT
TCATATTTCAACAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGACGAGGTATTTTTA
ATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
TGAGGTAATTTCAATTTCTGTTTTCTCCAATTTATGTTTTTCAAAATTAG
Found at i:18281752 original size:73 final size:73
Alignment explanation
Indices: 18281631--18281793 Score: 247
Period size: 73 Copynumber: 2.2 Consensus size: 73
18281621 CAATTAAGCC
*
18281631 TTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCACG
1 TTTCAATTTCTGT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACG
18281696 CTGAGGTAT
65 CTGAGGTAT
* ** *
18281705 TTTCAATTGCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACG
*
18281769 TTGAGGTAT
65 CTGAGGTAT
18281778 TTTCAATTTCTGTTTT
1 TTTCAATTTCTGTTTT
18281794 AATTTCCATG
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
72 1 0.01
73 66 0.81
74 14 0.17
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.35
Consensus pattern (73 bp):
TTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAGGGCACGC
TGAGGTAT
Found at i:18281899 original size:73 final size:74
Alignment explanation
Indices: 18281790--18281952 Score: 229
Period size: 73 Copynumber: 2.2 Consensus size: 74
18281780 TCAATTTCTG
* * * *
18281790 TTTTAATTTCCATGTTTCAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACG
1 TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
*
18281855 ATGAGGTAT
66 ATGAGGTAA
* *
18281864 TTTTAATTTCCGTTTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
*
18281928 CTGAGGTAA
66 ATGAGGTAA
* *
18281937 TTTCAATTTCTGTTTT
1 TTTTAATTTCCGTTTT
18281953 CTCCAATTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 62 0.78
74 17 0.22
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (74 bp):
TTTTAATTTCCGTTTTTCAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACG
ATGAGGTAA
Found at i:18282283 original size:88 final size:88
Alignment explanation
Indices: 18281875--18282455 Score: 532
Period size: 89 Copynumber: 6.5 Consensus size: 88
18281865 TTTAATTTCC
* *
18281875 GTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATT
*
18281939 -TCAATTTCTGTTTTCTCCAATTTAT
65 GTCAATTTC-GCTTTCT-CAATTTAT
* * * *
18281964 GTTTTT-CAAAAATTAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
* *
18282028 TCGATTTCTGCTTTC-CAATTTCT
66 TCAATTTC-GCTTTCTCAATTTAT
* * * * * *
18282051 GCTCTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 GTTTTTC-CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
* * *
18282116 TTCAATTTTTGCTTTC-CAATTTCT
65 GTCAA-TTTCGCTTTCTCAATTTAT
** * ** * * * *
18282140 GCCTTTCAAAAAAAAAAAAACTCATATCGCGAAAGGTGAGTTGAGCCTCAAGACACGCTAAGGTA
1 GTTTTTC---CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
**
18282205 TTGTCAACTTTCG-TTTCTTGATTTAT
63 TTGTCAA-TTTCGCTTTCTCAATTTAT
* * *
18282231 GTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTG
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
* *
18282296 TCAACTTTTG-TTTCTTAATTTAT
66 TCAA-TTTCGCTTTCTCAATTTAT
* * * *
18282319 GTTTTTCCAAAATTTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGATCACACGCTGAGGTA
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
* * *
18282384 TTTTCAATTAAT-GTTTTTTCAATTTAT
63 TTGTCAATT--TCGCTTTCTCAATTTAT
** * * * *
18282411 ACTTTT-CAAGAATCAACTCATATTACGAGAGGTGAGTTAAGCCTC
1 GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
18282456 GAGTCACATG
Statistics
Matches: 418, Mismatches: 61, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
87 11 0.03
88 120 0.29
89 143 0.34
90 9 0.02
91 119 0.28
92 16 0.04
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (88 bp):
GTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTG
TCAATTTCGCTTTCTCAATTTAT
Found at i:18282385 original size:179 final size:176
Alignment explanation
Indices: 18281875--18282455 Score: 568
Period size: 179 Copynumber: 3.3 Consensus size: 176
18281865 TTTAATTTCC
*
18281875 GTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATT
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATT
* * *
18281939 TCAATTTCTGTTTTCTCCAATTTATGTTTTT-CAAAAATTAGCTCATATTGCGAGAAGTGAGTTG
65 TCAATTT-TGCTTTCT-CAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTG
* * *
18282003 AGCCTCAGG-GCACGCTGAGGTATTTTCGATTTCTGCTTTCCAATTTCT
128 AGCCTCAGGAACACGCTGAGGTATTTTCAATTTCTGCTTTCCAATTTAT
* * * * *
18282051 GCTCTTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
1 GTTTTTC-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-T
* ** * ** * *
18282116 TTCAATTTTTGCTTTC-CAATTTCTGCCTTTCAAAAAAAAAAAAACTCATATCGCGAAAGGTGAG
64 TTCAA-TTTTGCTTTCTCAATTTATGTTTTTC---CAAAAATTAACTCATATTGCGAGAGGTGAG
* * * **
18282180 TTGAGCCTCAAG-ACACGCTAAGGTATTGTCAACTTTC-G-TTTCTTGATTTAT
125 TTGAGCCTCAGGAACACGCTGAGGTATTTTCAA-TTTCTGCTTTC-CAATTTAT
* * * *
18282231 GTTTTTCCAAAAATTAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTG
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT-
* * * * *
18282296 TCAACTTTTG-TTTCTTAATTTATGTTTTTCCAAAATTTAATTCATATTGCTAGAGGTGAATTGA
65 TCAA-TTTTGCTTTCTCAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
** * *
18282360 GCCTCAGGATCACACGCTGAGGTATTTTCAATTAATGTTTTTTCAATTTAT
129 GCCTCAGGA--ACACGCTGAGGTATTTTCAATTTCTG-CTTTCCAATTTAT
** * * *
18282411 ACTTTT-CAAGAATCAACTCATATTACGAGAGGTGAGTTAAGCCTC
1 GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
18282456 GAGTCACATG
Statistics
Matches: 322, Mismatches: 65, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
176 47 0.15
177 1 0.00
178 70 0.22
179 126 0.39
180 71 0.22
181 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (176 bp):
GTTTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
CAATTTTGCTTTCTCAATTTATGTTTTTCCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGAACACGCTGAGGTATTTTCAATTTCTGCTTTCCAATTTAT
Found at i:18284070 original size:3 final size:3
Alignment explanation
Indices: 18284055--18284130 Score: 118
Period size: 3 Copynumber: 25.0 Consensus size: 3
18284045 GTTATTTTCA
*
18284055 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TATT TAT TAG TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
18284101 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18284131 GTGCTTTTGT
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 1 0.01
3 63 0.93
4 4 0.06
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:18284773 original size:22 final size:23
Alignment explanation
Indices: 18284711--18284774 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
18284701 ATTATATGTG
* *
18284711 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AATATGCTTTAA
18284735 TATTATATTAT-ATATATGCTTT-A
1 TA-TATATTATGA-ATATGCTTTAA
18284758 TATATATTATGAATATG
1 TATATATTATGAATATG
18284775 TATTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 9 0.26
25 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAATATGCTTTAA
Done.